Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 169 of 199
Found at i:49442230 original size:25 final size:25
Alignment explanation
Indices: 49442178--49442260 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 25
49442168 TAGCTGGAAA
* * * *
49442178 GAGCGTCCCGATATTAGCTC-TCAT
1 GAGCATCCCGTTAATAGCTCTTCGT
*
49442202 GAGCATCCCGTTATATAGTTCTT-GT
1 GAGCATCCCGTTA-ATAGCTCTTCGT
*
49442227 GAGCTTCCCGTTAATAGCTCTTCG-
1 GAGCATCCCGTTAATAGCTCTTCGT
49442251 GAGCATCCCG
1 GAGCATCCCG
49442261 ATCGGTTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
24 28 0.58
25 19 0.40
26 1 0.02
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCATCCCGTTAATAGCTCTTCGT
Found at i:49442372 original size:26 final size:25
Alignment explanation
Indices: 49442307--49442377 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
49442297 CAACTCTTAT
* *
49442307 GAGCGTCCCGATATATA-GCTCTTCG
1 GAGCTTCCCGAT-TAAAGGCTCTTCG
* *
49442332 GAGCTTCCCGTTTAAAGGCTCTTCAT
1 GAGCTTCCCGATTAAAGGCTCTTC-G
* *
49442358 GAGCTTCTCGATTAATGGCT
1 GAGCTTCCCGATTAAAGGCT
49442378 ATCCAGCGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 3 0.08
25 17 0.46
26 17 0.46
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCGATTAAAGGCTCTTCG
Found at i:49442787 original size:23 final size:23
Alignment explanation
Indices: 49442757--49442803 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
49442747 GAATGGTAAG
49442757 TTAAATTCCACATTATACAAACT
1 TTAAATTCCACATTATACAAACT
** *
49442780 TTAAATTCCATGTTATACGAACT
1 TTAAATTCCACATTATACAAACT
49442803 T
1 T
49442804 ACTAACCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (23 bp):
TTAAATTCCACATTATACAAACT
Found at i:49446428 original size:129 final size:129
Alignment explanation
Indices: 49446048--49446911 Score: 1322
Period size: 129 Copynumber: 6.7 Consensus size: 129
49446038 AGGTAAAATC
* * * * * **
49446048 CGCCATCTTTGATCTGCTCCACTATTACGTAGGGAGATGAGATCTG-ATATTT-CCAACCTATTC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTA-ATTTCCCAACCTATTC
* * * * *
49446111 TACTGCTGACCAAGGAGATAGGACTTGTGGCTTAATTCTGCTTCCTTACTCTTGAAGATAAGATT
65 CACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
* * * * *
49446176 CGTCGTCTTCGATCTGCTCTGATACTGCTTAGGGAGACAAGATCTGTAATTT-TCAACCTATTCC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
* ** *
49446240 ACTGCTGACCAGGGAGATAGGACTTGTGGCTTAAATCTGCTTTTTTACTCTTGAAGATAAGATT
66 ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
* * *
49446304 CGCCGTCTTTGATCTGCTCCGCTACTGCTTAGGTTA-ACAAGATCTGTAATTTCCCAACCTATTC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGG-GAGACAAGATCTGTAATTTCCCAACCTATTC
* **
49446368 CACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGTTTCCTTACTTTTGAAGATAAGATT
65 CACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
* *
49446433 CGTCATCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
*
49446498 ACTGTTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
66 ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
* * *
49446562 TGTCGTCTTCGATCTACTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
* * *
49446627 ACTACTAACCAGGGATATAGGACTTGTCGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
66 ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
49446691 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
*
49446756 ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATATGCTTCCTTACACTTGAAGATAAGATT
66 ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
* * *
49446820 CGCCGTATTCGATCTGCTCCGCTATTGCTTAGGGAGATAAGATCTGTAATTTCCCAACCTATTCT
1 CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
49446885 ACTGCTGACCAGGGATATAGGACTTGT
66 ACTGCTGACCAGGGATATAGGACTTGT
49446912 AATCTTCAAC
Statistics
Matches: 678, Mismatches: 54, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
128 155 0.23
129 523 0.77
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (129 bp):
CGCCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAACCTATTCC
ACTGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATT
Found at i:49446933 original size:44 final size:44
Alignment explanation
Indices: 49446874--49447169 Score: 414
Period size: 44 Copynumber: 6.7 Consensus size: 44
49446864 TGTAATTTCC
* ** *
49446874 CAACCTATTCTACTGCTGACCAGGGA-TATAGGACTTGTAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGT-TAGGACTTGCAATCTT
49446918 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
* *
49446962 CTACCTATTCCACTGCTGGTCAAGGAGTTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
*
49447006 CAGCCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
* * * * * *
49447050 CTACCTATTCCTCTGCTAGTCAGGGAGATAGGACTTACAGTCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
* * *
49447094 CAACCTATTCCACTGCTGGTCAGAGAGCTAGGACTTACAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
* *
49447138 AAACCTATTCCACTGCTGGTCAGGGAGCTAGG
1 CAACCTATTCCACTGCTGGTCAGGGAGTTAGG
49447170 TTTTGTGATT
Statistics
Matches: 227, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 226 1.00
45 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
CAACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTGCAATCTT
Found at i:49448453 original size:21 final size:22
Alignment explanation
Indices: 49448429--49448470 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49448419 TAGCCTGTCC
*
49448429 ATTTTTACTTTT-CATTTTTTT
1 ATTTTCACTTTTCCATTTTTTT
*
49448450 ATTTTCATTTTTCCATTTTTT
1 ATTTTCACTTTTCCATTTTTT
49448471 GACTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTTCACTTTTCCATTTTTTT
Found at i:49448454 original size:14 final size:15
Alignment explanation
Indices: 49448430--49448461 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
49448420 AGCCTGTCCA
49448430 TTTTTACTTTTCATT
1 TTTTTACTTTTCATT
49448445 TTTTTA-TTTTCATT
1 TTTTTACTTTTCATT
49448459 TTT
1 TTT
49448462 CCATTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTACTTTTCATT
Found at i:49449335 original size:19 final size:21
Alignment explanation
Indices: 49449313--49449359 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
49449303 CCTTGGCCTC
49449313 TCCTTTTTT-TTTC-CGTTTT
1 TCCTTTTTTCTTTCTCGTTTT
*
49449332 TCCTTTTTTCTTTCTCTTTTT
1 TCCTTTTTTCTTTCTCGTTTT
*
49449353 TCATTTT
1 TCCTTTT
49449360 CATTTTGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 4 0.17
21 11 0.46
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (21 bp):
TCCTTTTTTCTTTCTCGTTTT
Found at i:49449359 original size:6 final size:6
Alignment explanation
Indices: 49449350--49449418 Score: 70
Period size: 6 Copynumber: 11.7 Consensus size: 6
49449340 TCTTTCTCTT
* * * **
49449350 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTTTC TTCTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA
49449397 TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTT
49449419 TTTTAGATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 49 0.89
7 2 0.04
ACGTcount: A:0.13, C:0.07, G:0.10, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:49449421 original size:23 final size:23
Alignment explanation
Indices: 49449348--49449427 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
49449338 TTTCTTTCTC
* *
49449348 TTTTTTCATTTTCATTTTGACTTT
1 TTTTTTGATTTTGATTTTGA-TTT
** ** *
49449372 GATTTTGATTTTGATTTTTCTTC
1 TTTTTTGATTTTGATTTTGATTT
49449395 TTTTTTGATTTTGATTTTGATTT
1 TTTTTTGATTTTGATTTTGATTT
*
49449418 TTTTTAGATT
1 TTTTTTGATT
49449428 GGATCTAAAC
Statistics
Matches: 43, Mismatches: 13, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
23 29 0.67
24 14 0.33
ACGTcount: A:0.14, C:0.06, G:0.10, T:0.70
Consensus pattern (23 bp):
TTTTTTGATTTTGATTTTGATTT
Found at i:49454985 original size:14 final size:14
Alignment explanation
Indices: 49454966--49455002 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
49454956 CATATAAAGA
49454966 AAAGAAAAAAA-TAG
1 AAAGAAAAAAACT-G
49454980 AAAGAAAAAAACTG
1 AAAGAAAAAAACTG
49454994 AAA-AAAAAA
1 AAAGAAAAAA
49455003 GAGAAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 15 0.68
15 1 0.05
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (14 bp):
AAAGAAAAAAACTG
Found at i:49463356 original size:20 final size:18
Alignment explanation
Indices: 49463309--49463357 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
49463299 CAAGATAAAC
49463309 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
49463326 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
49463346 ATTAAATTAATA
1 ATTAAATTAATA
49463358 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:49463403 original size:37 final size:38
Alignment explanation
Indices: 49463309--49463405 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 38
49463299 CAAGATAAAC
*
49463309 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAATCAC-TTAAT
*
49463346 ATTAAATTAATA-AAATACTATTAAGATAAGT-A-TTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TCACTTAAT
49463382 ATTAAATTTAATATTAAACTATTA
1 ATTAAA-TTAATATTAAACTATTA
49463406 TTGTTTTTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
36 6 0.12
37 28 0.55
38 4 0.08
39 12 0.24
40 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (38 bp):
ATTAAATTAATATTAAACTATTAAGATAATCACTTAAT
Found at i:49465872 original size:61 final size:61
Alignment explanation
Indices: 49465799--49465915 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
49465789 CACAAATTGT
* * * *
49465799 TTGTTTATTTTGTGACATTAAGAAAGCGTCATCAAAAA-TAGATTAGAAACATCATGAAATG
1 TTGTATATTTTGTGACATTAAGAAAACATCAT-AAAAATTAGATTAAAAACATCATGAAATG
* *
49465860 TTGTATATTTTGTGACATTTAGAAAACATCATAAAAATTTAGTTTAAAAACATCAT
1 TTGTATATTTTGTGACATTAAGAAAACATCATAAAAA-TTAGATTAAAAACATCAT
49465916 AAAAAATACT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
60 5 0.10
61 28 0.58
62 15 0.31
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (61 bp):
TTGTATATTTTGTGACATTAAGAAAACATCATAAAAATTAGATTAAAAACATCATGAAATG
Found at i:49472540 original size:96 final size:96
Alignment explanation
Indices: 49472423--49472610 Score: 241
Period size: 96 Copynumber: 2.0 Consensus size: 96
49472413 CTTACTTTCT
* * **
49472423 TCTCTAGTTGGATATTTAATTGGACATTAGAATTCCTTATGATCTTCTGAACTACACCAATAAAA
1 TCTCTAGTTGAATATTTAATTGAACATTAGAAACCCTTATGATCTTCTGAACTACACCAATAAAA
* *
49472488 TTGTACAAAAGGTGATATCTCAATCGTCTTC
66 TTGCACAAAAGGTGATAACTCAATCGTCTTC
* * * * * ** * *
49472519 TCTCTATTTGAATATTTAATTGAACATTGGAAACCCTTGTGATCTTTTGAATTGTACCAGTAACA
1 TCTCTAGTTGAATATTTAATTGAACATTAGAAACCCTTATGATCTTCTGAACTACACCAATAAAA
49472584 TTGCACAAAAGGTGATAACTCAATCGT
66 TTGCACAAAAGGTGATAACTCAATCGT
49472611 ATTCCTCCTT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.36
Consensus pattern (96 bp):
TCTCTAGTTGAATATTTAATTGAACATTAGAAACCCTTATGATCTTCTGAACTACACCAATAAAA
TTGCACAAAAGGTGATAACTCAATCGTCTTC
Found at i:49482399 original size:12 final size:12
Alignment explanation
Indices: 49482378--49482408 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49482368 TTAACAACCG
49482378 TAACTACCATCT
1 TAACTACCATCT
*
49482390 TAACTTCCATCT
1 TAACTACCATCT
49482402 TAACTAC
1 TAACTAC
49482409 TAACTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (12 bp):
TAACTACCATCT
Found at i:49485887 original size:108 final size:108
Alignment explanation
Indices: 49485700--49486021 Score: 488
Period size: 109 Copynumber: 3.0 Consensus size: 108
49485690 TGGATTAAAA
* * *
49485700 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
49485763 TTCCTCGAATTTCCAAACGCAAAATATTGTCTTATTTCGAAA-T
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTT-GAAATT
* *
49485806 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
49485871 TTTCTCAAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTA-TTTGAAATT
* * *
49485915 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAAAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
49485980 TTTCTTGAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTA-TTTGAAA
49486022 AATTTTCCTT
Statistics
Matches: 196, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
106 30 0.15
108 63 0.32
109 103 0.53
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTGAAATT
Found at i:49486100 original size:15 final size:15
Alignment explanation
Indices: 49486076--49486106 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49486066 AATAAATATG
*
49486076 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
49486091 ATAATATGAACAAAA
1 ATAATATGAACAAAA
49486106 A
1 A
49486107 CGAATAATAA
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:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:49486534 original size:18 final size:18
Alignment explanation
Indices: 49486491--49486547 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
49486481 AAAAATTATA
*
49486491 AAATATAATATATATAAGT
1 AAATA-AATATATATAAAT
**
49486510 ACGTAAATATATATAAAT
1 AAATAAATATATATAAAT
*
49486528 AAATAAAT-TATAAAAAT
1 AAATAAATATATATAAAT
49486545 AAA
1 AAA
49486548 AATGCATGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 11 0.34
18 18 0.56
19 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (18 bp):
AAATAAATATATATAAAT
Found at i:49486544 original size:17 final size:18
Alignment explanation
Indices: 49486513--49486547 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49486503 TATAAGTACG
*
49486513 TAAATATATATAAATAAA
1 TAAATATATAAAAATAAA
49486531 TAAAT-TATAAAAATAAA
1 TAAATATATAAAAATAAA
49486548 AATGCATGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATATATAAAAATAAA
Found at i:49486655 original size:12 final size:12
Alignment explanation
Indices: 49486627--49486656 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49486617 AAATAAATAA
*
49486627 ATAAAAATAATC
1 ATAATAATAATC
49486639 ATAATAATAATC
1 ATAATAATAATC
49486651 ATAATA
1 ATAATA
49486657 GATTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAATAATC
Found at i:49488392 original size:44 final size:44
Alignment explanation
Indices: 49488341--49488665 Score: 158
Period size: 44 Copynumber: 7.4 Consensus size: 44
49488331 CTTTGATCTG
* *
49488341 CTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
* * * * * *
49488385 CTCCACTATTGCTTAGGAAGATAGGA-CT--AATGGCTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAAT--CTTCAA-C--CTA
* * * * * *
49488431 CTCCACTA-T-CTT-GGAAAGACAAGATTC-GCCATCTTCGATCTG
1 CTCCACTACTGCTTAGG-GAGAC-AGAATCTGCAATCTTCAACCTA
* *
49488473 CTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
* * * *
49488517 CTCCACTACTGCATAGGGAGATA-AGA-CT--AATGGCTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGACAGA-ATCTGCAAT--CTTCAA-C--CTA
* * * * * *
49488563 CTCCACTA-T-CTT-GGGAAGATAAGATTC-GCCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGA-CAGAATCTGCAATCTTCAACCTA
* *
49488605 CTCCACTACTGCTTAGGGGGACAGAATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
49488649 CTCCACTACTGCTTAGG
1 CTCCACTACTGCTTAGG
49488666 AGATAGGACT
Statistics
Matches: 207, Mismatches: 44, Indels: 60
0.67 0.14 0.19
Matches are distributed among these distances:
41 6 0.03
42 20 0.10
43 32 0.15
44 104 0.50
45 18 0.09
46 23 0.11
47 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTA
Found at i:49488481 original size:132 final size:131
Alignment explanation
Indices: 49488072--49488773 Score: 1017
Period size: 132 Copynumber: 5.3 Consensus size: 131
49488062 CGCTGTTGTT
** * * * * * * * **
49488072 GATCTGCTCTGCTACTGCTTAGAGAGATAGGATCCAAAATCTTTAACCTACTTCACTACTATTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
* * *
49488137 GGAAGATATGACTAATGGCTTAAATCAGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGTCT
66 GG-AGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCT
*
49488202 TT
130 TC
* **
49488204 GATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAATCTTTGACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
* *
49488269 GGAGATAGGACTAATGGCTTAAATCTGCTTCTTCATTATCTTGGGAAGATAAGATTCACCATCTT
66 GGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTT
*
49488334 T
131 C
* *
49488335 GATCTGCTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTATTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
* * *
49488400 GGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGAAAGACAAGATTCGCCATCT
66 GG-AGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCT
49488465 TC
130 TC
* * * *
49488467 GATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCATA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
* *
49488532 GGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCCATCT
66 -GGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCT
49488597 TC
130 TC
*
49488599 GATCTGCTCCACTACTGCTTAGGGGGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
* * **
49488664 GGAGATAGGACTAATGGTTTAAATCTGGTTCTCCACTATCTTGGGAAGATAAGATTTTCCATCTT
66 GGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTT
49488729 C
131 C
* **
49488730 GATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGTAATCTTC
1 GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTC
49488774 GATCTACTTT
Statistics
Matches: 519, Mismatches: 49, Indels: 5
0.91 0.09 0.01
Matches are distributed among these distances:
131 222 0.43
132 295 0.57
133 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (131 bp):
GATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCTTA
GGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTT
C
Found at i:49488522 original size:263 final size:264
Alignment explanation
Indices: 49488070--49488772 Score: 1059
Period size: 263 Copynumber: 2.7 Consensus size: 264
49488060 TTCGCTGTTG
** * * * * * * * **
49488070 TTGATCTGCTCTGCTACTGCTTAGAGAGATAGGATCCAAAATCTTTAACCTACTTCACTACTATT
1 TTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCT
* * *
49488135 TAGGAAGATATGACTAATGGCTTAAATCAGCTTCTCCACTATCTTGGGAAGATAAGATTCACCGT
66 TAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCAT
* * * *
49488200 CTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAATCTTTGACCTACTCCACTACTG
131 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTG
* * * *
49488265 CTTA-GGAGATAGGACTAATGGCTTAAATCTGCTTCTTCATTATCTTGGGAAGATAAGATTCACC
196 CATAGGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACC
49488329 ATCT
261 ATCT
* *
49488333 TTGATCTGCTCCACTACTACTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTATTGCT
1 TTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCT
* * *
49488398 TAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGAAAGACAAGATTCGCCAT
66 TAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCAT
*
49488463 CTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTTAACCTACTCCACTACTG
131 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTG
*
49488528 CATAGGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCC
196 CATAGGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACC
49488593 ATCT
261 ATCT
* *
49488597 TCGATCTGCTCCACTACTGCTTAGGGGGACAGAATCTACAATCTTCAACCTACTCCACTACTGCT
1 TTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCT
* * **
49488662 TAGG-AGATAGGACTAATGGTTTAAATCTGGTTCTCCACTATCTTGGGAAGATAAGATTTTCCAT
66 TAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCAT
* *
49488726 CTTCGATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGTAATCTT
131 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTT
49488773 CGATCTACTT
Statistics
Matches: 397, Mismatches: 42, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
263 272 0.69
264 125 0.31
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (264 bp):
TTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTACAATCTTCAACCTACTCCACTACTGCT
TAGGAAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCAT
CTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTG
CATAGGGAGATAAGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACC
ATCT
Found at i:49488819 original size:46 final size:46
Alignment explanation
Indices: 49488768--49489238 Score: 771
Period size: 46 Copynumber: 10.2 Consensus size: 46
49488758 AGAATCTGTA
** *
49488768 ATCTTCGATCTACTTTGCTGCCAAATACAGGAAGACAAGATATGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
49488814 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
49488860 TTCTTCGATCTACTCCGCTGTCAAATACACGAAGACAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49488906 ATCTTCGATCTACTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49488952 ATCTTCGATCTACTCCGCTGCCAAATAAAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49488998 ATCTTCGATCAACTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49489044 ATCTTCGATCTACTCTGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49489090 AACTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCCGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49489136 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATTTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
49489182 ATATTCGATCTACTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
49489228 ATCTTTGATCT
1 ATCTTCGATCT
49489239 GTTCTCTAGG
Statistics
Matches: 394, Mismatches: 31, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 394 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (46 bp):
ATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:49490472 original size:6 final size:6
Alignment explanation
Indices: 49490461--49490496 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
49490451 TTGGCCTCTC
*
49490461 CTTTTT CTTTTT CTTTTT C-TTTT CTTCTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
49490497 AAAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:49490483 original size:11 final size:11
Alignment explanation
Indices: 49490461--49490494 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
49490451 TTGGCCTCTC
49490461 CTTTTTCTTTTT
1 CTTTTTC-TTTT
49490473 CTTTTTCTTTT
1 CTTTTTCTTTT
*
49490484 CTTCTTCTTTT
1 CTTTTTCTTTT
49490495 TCAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:49490485 original size:17 final size:17
Alignment explanation
Indices: 49490463--49490496 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49490453 GGCCTCTCCT
*
49490463 TTTTCTTTTTCTTTTTC
1 TTTTCTTCTTCTTTTTC
49490480 TTTTCTTCTTCTTTTTC
1 TTTTCTTCTTCTTTTTC
49490497 AAAATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTCTTCTTTTTC
Found at i:49490867 original size:7 final size:7
Alignment explanation
Indices: 49490864--49490925 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
49490854 TTTTTTTGTT
49490864 TTTTTTG
1 TTTTTTG
49490871 TTTCTTTG
1 TTT-TTTG
49490879 TTTCTTTG
1 TTT-TTTG
49490887 TTTTTTG
1 TTTTTTG
*
49490894 TTTTATG
1 TTTTTTG
49490901 --TTTTG
1 TTTTTTG
*
49490906 TTTTATG
1 TTTTTTG
*
49490913 TTTTGT-
1 TTTTTTG
49490919 TTTTTTG
1 TTTTTTG
49490926 CATCCCATAC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 4 0.09
6 5 0.11
7 22 0.48
8 15 0.33
ACGTcount: A:0.03, C:0.03, G:0.15, T:0.79
Consensus pattern (7 bp):
TTTTTTG
Found at i:49490867 original size:8 final size:8
Alignment explanation
Indices: 49490854--49490925 Score: 60
Period size: 8 Copynumber: 9.0 Consensus size: 8
49490844 CGGTAGAGAT
49490854 TTTTTTTG
1 TTTTTTTG
49490862 TTTTTTTTG
1 -TTTTTTTG
*
49490871 TTTCTTTG
1 TTTTTTTG
*
49490879 TTTCTTTG
1 TTTTTTTG
49490887 -TTTTTTG
1 TTTTTTTG
*
49490894 -TTTTATG
1 TTTTTTTG
49490901 TTTTGTTT-
1 TTTT-TTTG
*
49490909 TATGTTTTG
1 T-TTTTTTG
49490918 TTTTTTTG
1 TTTTTTTG
49490926 CATCCCATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
7 12 0.23
8 28 0.53
9 13 0.25
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.81
Consensus pattern (8 bp):
TTTTTTTG
Found at i:49490906 original size:12 final size:12
Alignment explanation
Indices: 49490889--49490921 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
49490879 TTTCTTTGTT
49490889 TTTTGTTTTATG
1 TTTTGTTTTATG
49490901 TTTTGTTTTATG
1 TTTTGTTTTATG
49490913 TTTTGTTTT
1 TTTTGTTTT
49490922 TTTGCATCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.15, T:0.79
Consensus pattern (12 bp):
TTTTGTTTTATG
Found at i:49490907 original size:19 final size:19
Alignment explanation
Indices: 49490875--49490923 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
49490865 TTTTTGTTTC
*
49490875 TTTGTTTCTTTGTTTTTTGT
1 TTTGTTT-TTTGTTTTATGT
* *
49490895 TTTATGTTTTGTTTTATGT
1 TTTGTTTTTTGTTTTATGT
49490914 TTTGTTTTTT
1 TTTGTTTTTT
49490924 TGCATCCCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.04, C:0.02, G:0.14, T:0.80
Consensus pattern (19 bp):
TTTGTTTTTTGTTTTATGT
Found at i:49494327 original size:108 final size:110
Alignment explanation
Indices: 49494148--49494467 Score: 418
Period size: 109 Copynumber: 3.0 Consensus size: 110
49494138 AATTTAAGAT
* * * * **
49494148 GATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGTGCACATTGCCTCGA
1 GATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
*
49494211 ATTTCCAAACGCAAAATC-TTGTCTTA-TTTCAAAATTTTAAAAG
66 ATTTCCAAACGCAAAATCATTGCCTTATTTTCAAAATTTTAAAAG
* *
49494254 GATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
* * *
49494319 ATTTCCAAACGTAAAA-CATTGCCTTATTTTGAAATTTTTAAAAG
66 ATTTCCAAACGCAAAATCATTGCCTTATTTTCAAAATTTTAAAAG
* * *
49494363 GATGTTTAGCTATTTGGTTGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 GATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
* * **
49494428 ATCTCCAAACGCAAAAT-ATTTCCTTACTTTGAAAAATTTT
66 ATTTCCAAACGCAAAATCATTGCCTTA-TTTTCAAAATTTT
49494468 CCTTTTTTGA
Statistics
Matches: 185, Mismatches: 23, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
106 23 0.12
107 1 0.01
108 54 0.29
109 97 0.52
110 10 0.05
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.31
Consensus pattern (110 bp):
GATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
ATTTCCAAACGCAAAATCATTGCCTTATTTTCAAAATTTTAAAAG
Found at i:49494540 original size:15 final size:15
Alignment explanation
Indices: 49494516--49494546 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49494506 AATAAATATG
*
49494516 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
49494531 ATAATATGAACAAAA
1 ATAATATGAACAAAA
49494546 A
1 A
49494547 CGAATAATAA
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:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:49495104 original size:12 final size:12
Alignment explanation
Indices: 49495076--49495105 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49495066 GAGGAAATAA
*
49495076 ATAAAAATAATC
1 ATAATAATAATC
49495088 ATAATAATAATC
1 ATAATAATAATC
49495100 ATAATA
1 ATAATA
49495106 GATTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAATAATC
Found at i:49497036 original size:17 final size:17
Alignment explanation
Indices: 49497014--49497049 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49497004 AAAAATATCA
* *
49497014 AATTAAATTATTTTTTC
1 AATTAAATAATATTTTC
49497031 AATTAAATAATATTTTC
1 AATTAAATAATATTTTC
49497048 AA
1 AA
49497050 CCCAACTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTAAATAATATTTTC
Found at i:49500015 original size:6 final size:6
Alignment explanation
Indices: 49500006--49500046 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
49499996 GGAAGGAGAA
* * *
49500006 GATGAT GATGAC GATGAC GATGAC GACGAC GATGAT GATGA
1 GATGAC GATGAC GATGAC GATGAC GATGAC GATGAC GATGA
49500047 GGAAGAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (6 bp):
GATGAC
Found at i:49505184 original size:32 final size:33
Alignment explanation
Indices: 49505148--49505219 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
49505138 GACTTTTATG
*
49505148 AAATATTTT-TAAAGAATC-TGCCAAACAAAAGA
1 AAATATTTTACAAAGAATCAT-CCAAACAAAAGA
* **
49505180 AAATATTTTACAAAGATTCATCCAAACACCAGA
1 AAATATTTTACAAAGAATCATCCAAACAAAAGA
49505213 AAATATT
1 AAATATT
49505220 AGCTTTTCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 9 0.26
33 24 0.71
34 1 0.03
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.26
Consensus pattern (33 bp):
AAATATTTTACAAAGAATCATCCAAACAAAAGA
Found at i:49505440 original size:13 final size:13
Alignment explanation
Indices: 49505422--49505450 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49505412 ATAGTGATAA
49505422 AATTCCAATTTGT
1 AATTCCAATTTGT
49505435 AATTCCAATTTGT
1 AATTCCAATTTGT
49505448 AAT
1 AAT
49505451 GACGATGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (13 bp):
AATTCCAATTTGT
Found at i:49505874 original size:17 final size:17
Alignment explanation
Indices: 49505852--49505904 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
49505842 CCATTAAATG
49505852 AATAAAATAAAAGGAAT
1 AATAAAATAAAAGGAAT
* *
49505869 AATAAAAAAAATATGTAAAT
1 AATAAAATAAA-A-G-GAAT
*
49505889 AAAAAAATAAAAGGAA
1 AATAAAATAAAAGGAA
49505905 ACAATTTACA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 12 0.43
18 2 0.07
19 2 0.07
20 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (17 bp):
AATAAAATAAAAGGAAT
Found at i:49506515 original size:23 final size:23
Alignment explanation
Indices: 49506484--49506530 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
49506474 GCCACCGTGA
49506484 CCGCCTGTCGCCGGCGACGGTGG
1 CCGCCTGTCGCCGGCGACGGTGG
* ** *
49506507 CCGCTTGTCGTTGGTGACGGTGG
1 CCGCCTGTCGCCGGCGACGGTGG
49506530 C
1 C
49506531 TGCCGTCTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.04, C:0.32, G:0.43, T:0.21
Consensus pattern (23 bp):
CCGCCTGTCGCCGGCGACGGTGG
Found at i:49507595 original size:87 final size:86
Alignment explanation
Indices: 49507498--49507854 Score: 275
Period size: 96 Copynumber: 4.0 Consensus size: 86
49507488 GACTCGTATT
* * *
49507498 TTCAATCTGCTCCACTACAACTTTAGAGAGAAGATTTGTAACTTCAATAC-GCTTTACTGCAGCT
1 TTCAATCTGCTCCACTACAACTTCAGAGAGAAGATTTGTAACTTCAAT-CTGCTCTACTGCAACT
* *
49507562 TCAGAGAGATAATATTTGCTATC
65 TCAGAGAGATAAGATTTG-TAAC
* * ** * * *
49507585 TTCAATCTGCTCCACTACAACTTCAGGGGATAAGATTTGTGGCTTTAATCTGCTCTATTGTAACT
1 TTCAATCTGCTCCACTACAACTTCA-GAGAGAAGATTTGTAACTTCAATCTGCTCTACTGCAACT
* *
49507650 TTAGGGAGATAAGATTTGTAAC
65 TCAGAGAGATAAGATTTGTAAC
* * * * * * *
49507672 TTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAA
1 TTCAATCTGCTCCACTACAACTTCAGAGAG--AAGATTT-GTAACTTCAATCTGCTCTACTGCAA
* *
49507737 CTTCAGGGAGATAAGATTTGTAGC
63 CTTCAGAGAGATAAGATTTGTAAC
* ** * * *
49507761 TTGTATTTTTAGTCTATTCCACTACAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCT
1 TT-CA-----A-TCTGCTCCACTACAACTTCAGAGAG--AAGATTT-GTAACTTCAATCTGCTCT
* * *
49507826 AATACAACTTCAGGGAGATAAGATTTGTA
56 ACTGCAACTTCAGAGAGATAAGATTTGTA
49507855 GCTTGTATTT
Statistics
Matches: 227, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
86 3 0.01
87 51 0.22
88 50 0.22
89 43 0.19
90 1 0.00
95 1 0.00
96 78 0.34
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (86 bp):
TTCAATCTGCTCCACTACAACTTCAGAGAGAAGATTTGTAACTTCAATCTGCTCTACTGCAACTT
CAGAGAGATAAGATTTGTAAC
Found at i:49507609 original size:45 final size:44
Alignment explanation
Indices: 49507429--49507854 Score: 320
Period size: 44 Copynumber: 9.5 Consensus size: 44
49507419 CTCCACTGGC
* * * * * * *
49507429 ACTTCAGGGAGATTAGACTTGTAGCTTTAATCTGTTCCACTACA
1 ACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCTACTACA
* * * * * * *
49507473 ACTTCAGGGATATGAGACTCGTATTTTCAATCTGCTCCACTACA
1 ACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCTACTACA
* * * *
49507517 ACTTTAGAGAG--AAGATTTGTAACTTCAATAC-GCTTTACTGCA
1 ACTTCAGAGAGATAAGATTTGTATCTTCAAT-CTGCTCTACTACA
* * *
49507559 GCTTCAGAGAGATAATATTTGCTATCTTCAATCTGCTCCACTACA
1 ACTTCAGAGAGATAAGATTTG-TATCTTCAATCTGCTCTACTACA
* ** * * **
49507604 ACTTCAG-GGGATAAGATTTGTGGCTTTAATCTGCTCTATTGTA
1 ACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCTACTACA
* * * *
49507647 ACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCA
1 ACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCTACTACA
* * *
49507691 ACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACA
1 ACTTCAGAGAGATAAGATTT-GTATCTTCAATCTGCTCTACTACA
* * * ** *
49507736 ACTTCAGGGAGATAAGATTTGTAGCTTGTATTTTTAGTCTATTCCACTACA
1 ACTTCAGAGAGATAAGATTTGTATCTT-CA-----A-TCTGCTCTACTACA
* * *
49507787 ACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACA
1 ACTTCAGAGAGATAAGATTT-GTATCTTCAATCTGCTCTACTACA
*
49507832 ACTTCAGGGAGATAAGATTTGTA
1 ACTTCAGAGAGATAAGATTTGTA
49507855 GCTTGTATTT
Statistics
Matches: 302, Mismatches: 65, Indels: 30
0.76 0.16 0.08
Matches are distributed among these distances:
42 30 0.10
43 23 0.08
44 119 0.39
45 92 0.30
46 1 0.00
50 1 0.00
51 31 0.10
52 5 0.02
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (44 bp):
ACTTCAGAGAGATAAGATTTGTATCTTCAATCTGCTCTACTACA
Found at i:49507688 original size:132 final size:131
Alignment explanation
Indices: 49507457--49507762 Score: 375
Period size: 132 Copynumber: 2.3 Consensus size: 131
49507447 TTGTAGCTTT
* * * * * * * * * **
49507457 AATCTGTTCCACTACAACTTCAGGGATATGAGACTCGTA-TTTTCAATCTGCTCCACTACAACTT
1 AATCTGCTCCAATACAACTTCAGGGAGATAAGATTTGTAGCTTT-AATCTGCTCTATTGTAACTT
* * * *
49507521 TAGAGAGAAGATTTGTAACTTCAATACGCTTTACTGCAGCTTCAGAGAGATAATATTTGCTATCT
65 TAGAGAGAAGATTTGTAACTTCAATACGCTCTACTGCAACTTCAGAGAGATAAGATTTACTATCT
49507586 TC
130 TC
* *
49507588 AATCTGCTCCACTACAACTTCAGGG-GATAAGATTTGTGGCTTTAATCTGCTCTATTGTAACTTT
1 AATCTGCTCCAATACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTATTGTAACTTT
*
49507652 AGGGAGATAAGATTTGTAACTTCAAT-CTGCTCTACTGCAACTTCAGAGAGATAAGATTTACTAT
66 A--GAGAGAAGATTTGTAACTTCAATAC-GCTCTACTGCAACTTCAGAGAGATAAGATTTACTAT
*
49507716 CTTT
128 CTTC
*
49507720 AATCTGCTCTAATACAACTTCAGGGAGATAAGATTTGTAGCTT
1 AATCTGCTCCAATACAACTTCAGGGAGATAAGATTTGTAGCTT
49507763 GTATTTTTAG
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
130 26 0.17
131 28 0.19
132 80 0.53
133 16 0.11
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (131 bp):
AATCTGCTCCAATACAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCTATTGTAACTTT
AGAGAGAAGATTTGTAACTTCAATACGCTCTACTGCAACTTCAGAGAGATAAGATTTACTATCTT
C
Found at i:49507817 original size:96 final size:96
Alignment explanation
Indices: 49507689--49507899 Score: 413
Period size: 96 Copynumber: 2.2 Consensus size: 96
49507679 TGCTCTACTG
49507689 CAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAACTTCAGGGAGATAAGAT
1 CAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAACTTCAGGGAGATAAGAT
49507754 TTGTAGCTTGTATTTTTAGTCTATTCCACTA
66 TTGTAGCTTGTATTTTTAGTCTATTCCACTA
49507785 CAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAACTTCAGGGAGATAAGAT
1 CAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAACTTCAGGGAGATAAGAT
49507850 TTGTAGCTTGTATTTTTAGTCTATTCCACTA
66 TTGTAGCTTGTATTTTTAGTCTATTCCACTA
*
49507881 CAACTTCAGGGAGATAAGA
1 CAACTTCAGAGAGATAAGA
49507900 CTTAGTATGG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 114 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.36
Consensus pattern (96 bp):
CAACTTCAGAGAGATAAGATTTACTATCTTTAATCTGCTCTAATACAACTTCAGGGAGATAAGAT
TTGTAGCTTGTATTTTTAGTCTATTCCACTA
Found at i:49507996 original size:44 final size:44
Alignment explanation
Indices: 49507948--49508143 Score: 112
Period size: 44 Copynumber: 4.3 Consensus size: 44
49507938 AGAGGTATAG
* * * *
49507948 GACTTGTCACTTCAATCTCCTCCACTGCTACT-TCAGGGAGATAA
1 GACTTGTAACTTCAATCTACTCCACTACAACTCT-AGGGAGATAA
** *
49507992 GACTTGTAACTTTGATCTACTCCATTACAACTCTAGGGAGATAA
1 GACTTGTAACTTCAATCTACTCCACTACAACTCTAGGGAGATAA
* ** * * *
49508036 GATTTGTAACTTGTAGCTTGAATCTGTTTCACTGCAACT-TCAGGGAAATAA
1 GACTTGTAAC-T-T--C---AATCTACTCCACTACAACTCT-AGGGAGATAA
* *
49508087 GA-TTGGCTATA-TTCAATCTACTCCACTGCAACTTTAGGGAGATAA
1 GACTT-G-TA-ACTTCAATCTACTCCACTACAACTCTAGGGAGATAA
*
49508132 GATTTGTAACTT
1 GACTTGTAACTT
49508144 GTAGCTTTAA
Statistics
Matches: 117, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
43 1 0.01
44 48 0.41
45 30 0.26
46 4 0.03
48 1 0.01
50 4 0.03
51 26 0.22
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
GACTTGTAACTTCAATCTACTCCACTACAACTCTAGGGAGATAA
Found at i:49508081 original size:51 final size:51
Alignment explanation
Indices: 49508019--49508186 Score: 186
Period size: 51 Copynumber: 3.4 Consensus size: 51
49508009 TACTCCATTA
* * * *
49508019 CAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTTCACTG
1 CAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG
* * * **
49508070 CAACTTCAGGGAAATAAGA-TTG--GC-TATA--TTCAATCTACTCCACTG
1 CAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG
* *
49508115 CAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
1 CAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG
*
49508166 CAACTTTAGGGAAACAAGATT
1 CAACTTTAGGGAAATAAGATT
49508187 CACTATCTTC
Statistics
Matches: 93, Mismatches: 18, Indels: 12
0.76 0.15 0.10
Matches are distributed among these distances:
45 30 0.32
46 3 0.03
47 3 0.03
48 2 0.02
49 3 0.03
50 3 0.03
51 49 0.53
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
CAACTTTAGGGAAATAAGATTTGTAACTTGTAGCTTCAATCTGTTCCACTG
Found at i:49508138 original size:96 final size:96
Alignment explanation
Indices: 49508006--49508186 Score: 299
Period size: 96 Copynumber: 1.9 Consensus size: 96
49507996 TGTAACTTTG
* *
49508006 ATCTACTCCATTACAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTTCACTGC
1 ATCTACTCCACTACAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCCACTGC
*
49508071 AACTTCAGGGAAATAAGATTGGCTATATTCA
66 AACTTCAGGGAAACAAGATTGGCTATATTCA
* * *
49508102 ATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGC
1 ATCTACTCCACTACAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCCACTGC
*
49508167 AACTTTAGGGAAACAAGATT
66 AACTTCAGGGAAACAAGATT
49508187 CACTATCTTC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (96 bp):
ATCTACTCCACTACAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCCACTGC
AACTTCAGGGAAACAAGATTGGCTATATTCA
Found at i:49516340 original size:26 final size:27
Alignment explanation
Indices: 49516304--49516359 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
49516294 TAAAAGAAAT
*
49516304 AAATTCTAAATA-AAAGAAAATAAAGA
1 AAATTCTAAATATAAAAAAAATAAAGA
* *
49516330 AAATTTTAAATATTAAAAAAAATGAAGA
1 AAATTCTAAATA-TAAAAAAAATAAAGA
49516358 AA
1 AA
49516360 TAAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
28 14 0.56
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (27 bp):
AAATTCTAAATATAAAAAAAATAAAGA
Found at i:49516458 original size:38 final size:36
Alignment explanation
Indices: 49516386--49516462 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 36
49516376 AAAGGAATTA
* * *
49516386 AAATAAAAAATAAATGAATAATATATAATAAATAAGT
1 AAATAAAAAATAAATGAATAAAATAAAAGAAATAA-T
* *
49516423 AAATAAGAAATTAAATGAATAAAATAAAAGGAATAAT
1 AAATAA-AAAATAAATGAATAAAATAAAAGAAATAAT
49516460 AAA
1 AAA
49516463 CAAATATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 10 0.29
38 24 0.71
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (36 bp):
AAATAAAAAATAAATGAATAAAATAAAAGAAATAAT
Found at i:49518076 original size:44 final size:44
Alignment explanation
Indices: 49517994--49518728 Score: 450
Period size: 44 Copynumber: 16.2 Consensus size: 44
49517984 CACTGCATAG
* ** * *
49517994 GATTTGTTGCTTCAATCTAATCCACTGCAACTTCAGGGAGATTA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * *
49518038 GACTTGTAGCTTTAATCTACTCCACTACAAGTTTAGGGAGATGA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * *
49518082 GACTCGTATCTACAATCTGCTCCACTGTAACTTTAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * **
49518126 GATTTGTAACTTCAATCTGCTCTACTGCAGCTTTAAAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * *
49518170 TATTTTCTATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAA
1 GA-TTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * * *
49518215 GATTTGTGGCTTTAATATGCTCTAATGCAACTTCAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * *
49518259 GATTTGCTATCTTTAATCTGCTCCACTGCAACTTTAGGGAGAAAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * *
49518304 GATTTGTGGCTTTAATCTGTTCCATTGTAACTTTAGGGCGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * *
49518348 AATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * * *
49518392 GATTTGCTATCTTCAATTTGCTCAAAATACAACTTCAAGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTC-CACTGCAACTTTAGGGAGATAA
* * ** *
49518438 GATTTGTAGCTTGTATTTTAGTTTATTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTT-CA----A-TCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * *
49518488 GACTTACTATGGTAGATTTAATCCG-ACCACTGCAACTTCAGAGG-TATAA
1 GA--T--T-T-GTAGCTTCAATCTGCTCCACTGCAACTTTAG-GGAGATAA
* * * *
49518537 GACTTGTCA-CTTCAATCTACTCCACTGCTACTTCAGGGAGATAA
1 GATTTGT-AGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * ** * * *
49518581 GACTTGTAACTTTGATCTGCTCTACTACAACTCTAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * *
49518625 GATTTGTAACTTGTAGCTTGAATCTGTTTCATTGCAACTTCAGGGAAATAA
1 GA----T---TTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* ** *
49518676 GATTGGCTATATTCAATCTACTCCACTGCAACTTTAGGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
49518721 GATTTGTA
1 GATTTGTA
49518729 ACTTGTAGCT
Statistics
Matches: 530, Mismatches: 132, Indels: 58
0.74 0.18 0.08
Matches are distributed among these distances:
43 11 0.02
44 274 0.52
45 126 0.24
46 24 0.05
47 1 0.00
49 21 0.04
50 24 0.05
51 38 0.07
52 1 0.00
54 1 0.00
55 3 0.01
56 6 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
Found at i:49518203 original size:89 final size:88
Alignment explanation
Indices: 49518003--49518414 Score: 369
Period size: 89 Copynumber: 4.6 Consensus size: 88
49517993 GGATTTGTTG
** * * * * * * * *
49518003 CTTCAATCTAATCCACTGCAACTTCAGGGAGATTAGACTTGTAGCTTTAATCTACTCCACTACAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTAATGCAA
* * * *
49518068 GTTTAGGGAGATGAGA--CTCGTAT
66 CTTTAGAGAGAT-AAATTTTC-TAT
* * * * *
49518091 CTACAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCAG
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTAATGCAA
*
49518156 CTTTAAAGAGATAATATTTTCTAT
66 CTTTAGAGAGATAA-ATTTTCTAT
* * * *
49518180 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGGCTTTAATATGCTCTAATGCAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTAATGCAA
* *
49518245 CTTCAGAGAGATAAGATTTGCTAT
66 CTTTAGAGAGATAA-ATTTTCTAT
* * * * * * * *
49518269 CTTTAATCTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGTGGCTTTAATCTGTTCCATTGTAA
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTAATGCAA
* * * * *
49518334 CTTTAGGGCGATAAAATTTGTAA
66 CTTTAGAGAGATAAATTTTCTAT
* * * * *
49518357 CTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTC
1 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGCTTCAATCTGCTC
49518415 AAAATACAAC
Statistics
Matches: 264, Mismatches: 56, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
87 1 0.00
88 103 0.39
89 158 0.60
90 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (88 bp):
CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCTAATGCAA
CTTTAGAGAGATAAATTTTCTAT
Found at i:49518236 original size:133 final size:133
Alignment explanation
Indices: 49518003--49518414 Score: 403
Period size: 133 Copynumber: 3.1 Consensus size: 133
49517993 GGATTTGTTG
** * ** ** * * * *
49518003 CTTCAATCTAATCCACTGCAACTTCAGGGAGATTAGACTTGTAGCTTTAATCTACTCCACTACAA
1 CTTCAATCTGCTCCACTGCAACTTTAAAGAGAAAAGATTTCTAGCTTCAATCTGCTCCACTACAA
* * * * * * * * * *
49518068 GTTTAGGGAGATGAGACTCGTATCTACAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTG-
66 CTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
*
49518132 TAA
131 TAT
* * * * *
49518135 CTTCAATCTGCTCTACTGCAGCTTTAAAGAGATAATATTTTCTATCTTCAATCTGCTCCACTACA
1 CTTCAATCTGCTCCACTGCAACTTTAAAGAGAAAAGA-TTTCTAGCTTCAATCTGCTCCACTACA
** * * *
49518200 ACTTTAGGGAGATAAGATTTGTGGCTTTAATATGCTCTAATGCAACTTCAGAGAGATAAGATTTG
65 ACTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG
49518265 CTAT
130 CTAT
* ** * * * * * **
49518269 CTTTAATCTGCTCCACTGCAACTTTAGGGAGAAAAGATTTGTGGCTTTAATCTGTTCCATTGTAA
1 CTTCAATCTGCTCCACTGCAACTTTAAAGAGAAAAGATTTCTAGCTTCAATCTGCTCCACTACAA
* *
49518334 CTTTAGGGCGATAAAATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
66 CTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
49518399 TAT
131 TAT
*
49518402 CTTCAATTTGCTC
1 CTTCAATCTGCTC
49518415 AAAATACAAC
Statistics
Matches: 225, Mismatches: 53, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
132 28 0.12
133 165 0.73
134 32 0.14
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (133 bp):
CTTCAATCTGCTCCACTGCAACTTTAAAGAGAAAAGATTTCTAGCTTCAATCTGCTCCACTACAA
CTTTAGGGAGATAAGATTTGTAACTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
TAT
Found at i:49518650 original size:51 final size:50
Alignment explanation
Indices: 49518582--49518775 Score: 143
Period size: 51 Copynumber: 3.9 Consensus size: 50
49518572 GGGAGATAAG
* *
49518582 ACTTGTAACTTTG-ATCTGCTCTACTACAACTCTAGGGAGATAAGATTTGTA
1 ACTTGTAGC-TTGAATCTGCTCTACTGCAACT-TAGGGAGATAAGATTTGTA
* * *
49518633 ACTTGTAGCTTGAATCTG-TTTCATTGCAACTTCAGGGAAATAAGA-TTG--
1 ACTTGTAGCTTGAATCTGCTCT-ACTGCAACTT-AGGGAGATAAGATTTGTA
* * * * *
49518681 GC-TATA--TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTA
1 ACTTGTAGCTTGAATCTGCTCTACTGCAAC-TTAGGGAGATAAGATTTGTA
* * * * *
49518729 ACTTGTAGCTTTAGTCTGTTCTACTGCAACTTCAGGGAAACAAGATT
1 ACTTGTAGCTTGAATCTGCTCTACTGCAACTT-AGGGAGATAAGATT
49518776 CGCTATCTTC
Statistics
Matches: 109, Mismatches: 22, Indels: 24
0.70 0.14 0.15
Matches are distributed among these distances:
45 25 0.23
46 6 0.06
47 3 0.03
48 2 0.02
49 3 0.03
50 11 0.10
51 59 0.54
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (50 bp):
ACTTGTAGCTTGAATCTGCTCTACTGCAACTTAGGGAGATAAGATTTGTA
Found at i:49518731 original size:96 final size:96
Alignment explanation
Indices: 49518608--49518781 Score: 278
Period size: 96 Copynumber: 1.8 Consensus size: 96
49518598 TGCTCTACTA
*
49518608 CAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTT-TCATTGCAACTTCAGGGAA
1 CAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCT-ACTGCAACTTCAGGGAA
* *
49518672 ATAAGATTGGCTATATTCAATCTACTCCACTG
65 ACAAGATTCGCTATATTCAATCTACTCCACTG
* * *
49518704 CAACTTTAGGGAGATAAGATTTGTAACTTGTAGCTTTAGTCTGTTCTACTGCAACTTCAGGGAAA
1 CAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCTACTGCAACTTCAGGGAAA
49518769 CAAGATTCGCTAT
66 CAAGATTCGCTAT
49518782 CTTCTACAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
96 70 0.99
97 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (96 bp):
CAACTCTAGGGAGATAAGATTTGTAACTTGTAGCTTGAATCTGTTCTACTGCAACTTCAGGGAAA
CAAGATTCGCTATATTCAATCTACTCCACTG
Found at i:49524845 original size:44 final size:44
Alignment explanation
Indices: 49524774--49525228 Score: 435
Period size: 44 Copynumber: 10.3 Consensus size: 44
49524764 CAACTCGTAG
* * * * *
49524774 GATTTGTTGCTTCAATATACTCCACTGCAACTTAAGGGAGATTA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* *
49524818 GACTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATGA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * ** * *
49524862 GACTCGTATTTTCAATCTACTCCACTGCAACTTCAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * *
49524906 GATTTGTAACTTCAATCGGCTCTACTACAACTTTAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * *
49524950 TATTTGCTATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * * *
49524995 GATTTGTGGCTTTAATATGCTCTACTGCAGCTTTAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* ** * * *
49525039 GATTTGCTATCTTCAATCTATTTCATTGCAACTTCT-GGGAGAAAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTT-TAGGGAGATAA
* * * * * *
49525084 GATTTGTGGCTTTAATCTGTTCTATTGTAACTTTAGGGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * *
49525128 GATTTGTAACTTCAATCTGCTCTACTGCAACTTTAGAGAGATAA
1 GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
* * * * *
49525172 GATTTGCTATCTTCAATTTGCTCTACTACAACTTCAGGGAGATAA
1 GATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
*
49525217 GATTTATAGCTT
1 GATTTGTAGCTT
49525229 GTAGTTTTAG
Statistics
Matches: 336, Mismatches: 70, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
43 1 0.00
44 227 0.68
45 107 0.32
46 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (44 bp):
GATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA
Found at i:49524991 original size:89 final size:88
Alignment explanation
Indices: 49524774--49525221 Score: 486
Period size: 89 Copynumber: 5.1 Consensus size: 88
49524764 CAACTCGTAG
* * * *
49524774 GATTTGT-TGCTTCAATATACTCCACTGCAACTTAAGGGAGATTAGACTTGTAGCTTCAATCTGC
1 GATTTGTAT-CTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGC
* *
49524838 TCCACTGCAACTTTAGGGAGATGA
65 TCTACTGCAACTTTAGGGAGATAA
* * * * * *
49524862 GACTCGTATTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCGGCT
1 GATTTGTATCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCT
* *
49524927 CTACTACAACTTTAGAGAGATAA
66 CTACTGCAACTTTAGGGAGATAA
* * * * * *
49524950 TATTTGCTATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGGCTTTAATATGC
1 GATTTG-TATCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGC
* *
49525015 TCTACTGCAGCTTTAGAGAGATAA
65 TCTACTGCAACTTTAGGGAGATAA
* * * * * *
49525039 GATTTGCTATCTTCAATCTATTTCATTGCAACTTCT-GGGAGAAAAGATTTGTGGCTTTAATCTG
1 GATTTG-TATCTTCAATCTACTCCACTGCAACTT-TAGGGAGATAAGATTTGTAGCTTCAATCTG
* * *
49525103 TTCTATTGTAACTTTAGGGAGATAA
64 CTCTACTGCAACTTTAGGGAGATAA
* * * * * *
49525128 GATTTGTAACTTCAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATTTGC
1 GATTTGTATCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGCTTCAATCTGC
* *
49525193 TCTACTACAACTTCAGGGAGATAA
65 TCTACTGCAACTTTAGGGAGATAA
49525217 GATTT
1 GATTT
49525222 ATAGCTTGTA
Statistics
Matches: 298, Mismatches: 57, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
87 1 0.00
88 110 0.37
89 186 0.62
90 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (88 bp):
GATTTGTATCTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCT
CTACTGCAACTTTAGGGAGATAA
Found at i:49525022 original size:133 final size:131
Alignment explanation
Indices: 49524801--49525228 Score: 455
Period size: 133 Copynumber: 3.2 Consensus size: 131
49524791 TACTCCACTG
* * * * *
49524801 CAACTTAAGGGAGATTAGACTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATGAGACT
1 CAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
* * * * * * *
49524866 CGTATTTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCGGCTCTA
66 TGTACTTT-AATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATC-GCTCTA
49524930 CTA
129 CTA
* * * *
49524933 CAACTTTAGAGAGATAATATTTGCTATCTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGAT
1 CAACTTTAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* * * ** *
49524998 TTGTGGCTTTAATATGCTCTACTGCAGCTTTAGAGAGATAAGATTTGCTATCTTCAATCTATTTC
65 TTGT-ACTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCGCTCT-
* *
49525063 ATTG
128 ACTA
* * * * * * *
49525067 CAACTTCT-GGGAGAAAAGATTTGTGGCTTTAATCTGTTCTATTGTAACTTTAGGGAGATAAGAT
1 CAACTT-TAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
* *
49525131 TTGTAACTTCAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATTTGCTCT
65 TTGT-ACTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAA-TCGCTCT
49525196 ACTA
128 ACTA
* *
49525200 CAACTTCAGGGAGATAAGATTTATAGCTT
1 CAACTTTAGGGAGATAAGATTTGTAGCTT
49525229 GTAGTTTTAG
Statistics
Matches: 239, Mismatches: 50, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
132 18 0.08
133 184 0.77
134 36 0.15
135 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (131 bp):
CAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
TGTACTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCGCTCTACT
A
Found at i:49525373 original size:15 final size:15
Alignment explanation
Indices: 49525353--49525384 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49525343 CATTTCACTC
*
49525353 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
49525368 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
49525383 TT
1 TT
49525385 TACATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:49526493 original size:19 final size:20
Alignment explanation
Indices: 49526457--49526494 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
49526447 TGATTTTTTA
* *
49526457 AAAAATTAATTTTGATCAAG
1 AAAAATTAATATTAATCAAG
49526477 AAAAATTAA-ATTAATCAA
1 AAAAATTAATATTAATCAA
49526495 ATTAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAAATTAATATTAATCAAG
Found at i:49534516 original size:76 final size:75
Alignment explanation
Indices: 49534344--49534562 Score: 233
Period size: 76 Copynumber: 2.9 Consensus size: 75
49534334 ACTTGGATGG
* *** *
49534344 CAATCCCGAGGCTTAATTTATTTTTTAAAACAGATTCGACTTTTGATAAAATGAAAAATAAAAGG
1 CAATCTCGAGGCTTAACCCATTTTTTAAAACAGATTCGACTTTTGATACAATGAAAAATAAAAGG
49534409 ACCTCGACAA
66 ACCTCGACAA
* * ** * * * *
49534419 CAACCTCAAGGCTCGACCCATTTTTGAAAATC-GATTCGACTTTTAATACAATGAAACATTGAAA
1 CAATCTCGAGGCTTAACCCATTTTTTAAAA-CAGATTCGACTTTTGATACAATGAAA-AATAAAA
*
49534483 GGACCTCGACGA
64 GGACCTCGACAA
* * * * * *
49534495 TAATCTCGAGGCTTAACCCATTTTTTAAAACGGATTTGACTTTTGATACAAAGAAAACTAAAAAG
1 CAATCTCGAGGCTTAACCCATTTTTTAAAACAGATTCGACTTTTGATACAATGAAAAATAAAAGG
49534560 ACC
66 ACC
49534563 CCAACGATAA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
75 53 0.46
76 62 0.54
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (75 bp):
CAATCTCGAGGCTTAACCCATTTTTTAAAACAGATTCGACTTTTGATACAATGAAAAATAAAAGG
ACCTCGACAA
Found at i:49535785 original size:28 final size:28
Alignment explanation
Indices: 49535753--49535810 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
49535743 TTTATTTATG
49535753 TTGTTTTGATTATTTACTTTCTAAAACA
1 TTGTTTTGATTATTTACTTTCTAAAACA
49535781 TTGTTTTGATTATTTACTTTCTAAAACA
1 TTGTTTTGATTATTTACTTTCTAAAACA
49535809 TT
1 TT
49535811 CTCAAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (28 bp):
TTGTTTTGATTATTTACTTTCTAAAACA
Found at i:49536234 original size:76 final size:75
Alignment explanation
Indices: 49536040--49536240 Score: 194
Period size: 76 Copynumber: 2.7 Consensus size: 75
49536030 GCCCATCACC
* * * * *
49536040 GAGGCTCAACCCATTTTTAGAAAATCAAATTGGCTTTTGACAAAATG-ACAACTGAAAGACCTCG
1 GAGGCTCGACCCATTTTT-GAAAATCAATTTGACTTTTGATAAAATGAAAAACTGAAAGACCTCG
**
49536104 ATGGCAATCCT
65 ATAACAATCCT
* * ** *
49536115 GAGGCTCGATCCATTTTTGAAAA-CGGATTCAACATTT-AGTAAAATGAAAAACTGAAAGGACCT
1 GAGGCTCGACCCATTTTTGAAAATC-AATTTGACTTTTGA-TAAAATGAAAAACTGAAA-GACCT
*
49536178 C-ATTAATAATCCT
63 CGA-TAACAATCCT
* *
49536191 GAGGCTTGACCCATTTTTGAAAATTAATTTGACTTTTGATAAAATGAAAA
1 GAGGCTCGACCCATTTTTGAAAATCAATTTGACTTTTGATAAAATGAAAA
49536241 CTAAAAAGAC
Statistics
Matches: 99, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
73 2 0.02
74 17 0.17
75 26 0.26
76 53 0.54
77 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (75 bp):
GAGGCTCGACCCATTTTTGAAAATCAATTTGACTTTTGATAAAATGAAAAACTGAAAGACCTCGA
TAACAATCCT
Found at i:49539141 original size:42 final size:42
Alignment explanation
Indices: 49539095--49539191 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
49539085 GAACGGTAAT
**
49539095 TTTAG-GGCGTTTGTGAAAAAAGCGTTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCATGTTC
* * *
49539137 TTTAGCGGCATTTGTGAAAAGGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTC
49539179 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
49539192 ATGTGAAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 39 0.81
43 9 0.19
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:49539560 original size:16 final size:16
Alignment explanation
Indices: 49539530--49539571 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
49539520 TTAAAAGATG
*
49539530 TTTTTAAATAACTA-T
1 TTTTTAAAAAACTATT
49539545 TTTTTAAAAAAGCTATT
1 TTTTTAAAAAA-CTATT
49539562 TTTTTAAAAA
1 TTTTTAAAAA
49539572 TTACTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 10 0.42
16 3 0.12
17 11 0.46
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTTTAAAAAACTATT
Found at i:49539580 original size:16 final size:15
Alignment explanation
Indices: 49539530--49539571 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
49539520 TTAAAAGATG
49539530 TTTTTAAATAACTATT
1 TTTTTAAA-AACTATT
*
49539546 TTTTAAAAAAGCTATT
1 TTTTTAAAAA-CTATT
49539562 TTTTTAAAAA
1 TTTTTAAAAA
49539572 TTACTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAACTATT
Found at i:49545504 original size:23 final size:23
Alignment explanation
Indices: 49545478--49545530 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
49545468 GAACTTGAAA
49545478 TTAGCAGGAAAGCCATTGAGGCG
1 TTAGCAGGAAAGCCATTGAGGCG
49545501 TTAGCAGGAAAGCCATTGAGGCG
1 TTAGCAGGAAAGCCATTGAGGCG
*
49545524 ATAGCAG
1 TTAGCAG
49545531 TCGGTTCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (23 bp):
TTAGCAGGAAAGCCATTGAGGCG
Found at i:49546899 original size:19 final size:21
Alignment explanation
Indices: 49546875--49546920 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
49546865 ATCTTGAAAC
49546875 ATTTTAAAATTT-TAAAA-TA
1 ATTTTAAAATTTATAAAATTA
49546894 ATTTT--AATTTATAAAATTA
1 ATTTTAAAATTTATAAAATTA
49546913 ATTTTAAA
1 ATTTTAAA
49546921 TAATATATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.22
18 5 0.22
19 12 0.52
21 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAAATTTATAAAATTA
Found at i:49551072 original size:20 final size:19
Alignment explanation
Indices: 49551016--49551072 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
49551006 GTTTTTAAAT
* *
49551016 TAATTTCTAATAATGTTTA
1 TAATTTTTAATAATTTTTA
* *
49551035 TAA-ATTTAATTAAATTTTAA
1 TAATTTTTAA-T-AATTTTTA
49551055 TAATTTTTAATAATTTTT
1 TAATTTTTAATAATTTTT
49551073 TATGTTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
18 4 0.14
19 10 0.34
20 10 0.34
21 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAATTTTTAATAATTTTTA
Found at i:49551074 original size:11 final size:10
Alignment explanation
Indices: 49551016--49551072 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
49551006 GTTTTTAAAT
*
49551016 TAATTTCTAA
1 TAATTTTTAA
*
49551026 TAATGTTT-A
1 TAATTTTTAA
*
49551035 TAA-ATTTAA
1 TAATTTTTAA
*
49551044 TTAAATTTTAA
1 -TAATTTTTAA
49551055 TAATTTTTAA
1 TAATTTTTAA
49551065 TAATTTTT
1 TAATTTTT
49551073 TATGTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 3 0.08
9 5 0.13
10 26 0.67
11 5 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:49564620 original size:27 final size:26
Alignment explanation
Indices: 49564590--49564657 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
49564580 GGATAGGTAT
49564590 ATAATATAATATGAAA-AATATATGTAC
1 ATAATATAATATGAAAGAATATA--TAC
* *
49564617 ATAAGATAATGT-AAAGAATATATAC
1 ATAATATAATATGAAAGAATATATAC
49564642 ATAACTAATAATATGA
1 ATAA-T-ATAATATGA
49564658 GAAGTACGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 7 0.21
26 3 0.09
27 22 0.67
28 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.09, T:0.31
Consensus pattern (26 bp):
ATAATATAATATGAAAGAATATATAC
Found at i:49565062 original size:14 final size:14
Alignment explanation
Indices: 49564999--49565064 Score: 53
Period size: 14 Copynumber: 4.5 Consensus size: 14
49564989 ATATAATTGT
*
49564999 ATAATAAAACATAAA
1 ATAATAATA-ATAAA
*
49565014 CTAATACATAATAATA
1 ATAATA-ATAATAA-A
*
49565030 TTAATAATAATAAA
1 ATAATAATAATAAA
*
49565044 TTAATAATAGA-AAA
1 ATAATAATA-ATAAA
49565058 ATAATAA
1 ATAATAA
49565065 GAGTATTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
14 19 0.43
15 17 0.39
16 8 0.18
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (14 bp):
ATAATAATAATAAA
Found at i:49566318 original size:13 final size:13
Alignment explanation
Indices: 49566302--49566327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49566292 TTTATTTGGT
49566302 TTATTGGGTTTTG
1 TTATTGGGTTTTG
49566315 TTATTGGGTTTTG
1 TTATTGGGTTTTG
49566328 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:49567909 original size:15 final size:15
Alignment explanation
Indices: 49567889--49567996 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
49567879 TTTATGGAAA
49567889 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
49567904 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
49567918 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
49567934 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
49567948 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
49567964 ATCAAATAT-TAGAA
1 ATCAAAGATATGGGT
49567978 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
49567994 ATC
1 ATC
49567997 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 11 0.17
15 43 0.66
16 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:49567926 original size:30 final size:30
Alignment explanation
Indices: 49567885--49567996 Score: 197
Period size: 30 Copynumber: 3.7 Consensus size: 30
49567875 TATATTTATG
* *
49567885 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
*
49567915 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATATTA
49567945 GAAAGTCAAAGATATGGGTATCAAATATTA
1 GAAAGTCAAAGATATGGGTATCAAATATTA
49567975 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
49567997 GAGATATTGG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATATTA
Found at i:49572611 original size:15 final size:15
Alignment explanation
Indices: 49572591--49572698 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
49572581 TTTATGGAAA
*
49572591 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
49572606 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
* *
49572620 AGTTAAAGATATGGGT
1 A-TCAAATATATGGGT
**
49572636 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
49572650 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
*
49572666 ATCAAATAT-TGGAAT
1 ATCAAATATATGG-GT
* *
49572681 GTCAAAGATATGGGT
1 ATCAAATATATGGGT
49572696 ATC
1 ATC
49572699 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 11 0.16
15 45 0.67
16 11 0.16
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:49572630 original size:30 final size:30
Alignment explanation
Indices: 49572585--49572708 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
49572575 TCTATATTTA
* *
49572585 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
49572615 TAGAAAGTTAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
49572645 TGGAAAGTCAAATATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
49572675 TGGAATGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
49572706 TGG
1 TGG
49572709 CATAATAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 75 0.90
31 8 0.10
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:49576956 original size:6 final size:6
Alignment explanation
Indices: 49576945--49576976 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
49576935 TTTCCAAAAG
*
49576945 TGGAAA TGGAAA TGAAAA TGGAAA TGGAAA TG
1 TGGAAA TGGAAA TGGAAA TGGAAA TGGAAA TG
49576977 ACCAATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (6 bp):
TGGAAA
Found at i:49576968 original size:18 final size:19
Alignment explanation
Indices: 49576940--49576977 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
49576930 GTAGGTTTCC
49576940 AAAAGTGGAAATGGAAATG
1 AAAAGTGGAAATGGAAATG
49576959 AAAA-TGGAAATGGAAATG
1 AAAAGTGGAAATGGAAATG
49576977 A
1 A
49576978 CCAATTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.16
Consensus pattern (19 bp):
AAAAGTGGAAATGGAAATG
Found at i:49577190 original size:26 final size:26
Alignment explanation
Indices: 49577120--49577195 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
49577110 ACATATTTTC
* *
49577120 TCAAAATTTTATCT-TGGGAAAAATCA
1 TCAAAATTTTA-CTACGGGTAAAATCA
*
49577146 TCAAAATTTTACTACGGGTAAAATCG
1 TCAAAATTTTACTACGGGTAAAATCA
** *
49577172 TCAAAATTTTGTTAGGGGTAAAAT
1 TCAAAATTTTACTACGGGTAAAAT
49577196 AGGGATGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 41 0.95
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACTACGGGTAAAATCA
Found at i:49588242 original size:37 final size:37
Alignment explanation
Indices: 49588201--49588284 Score: 132
Period size: 37 Copynumber: 2.2 Consensus size: 37
49588191 AAATTATCAA
* * *
49588201 AATGTCTTTATTTTAACAAATCAATAAATATTAATTT
1 AATGTATTTATTTTAAAAAATCAATAAATATTAATTG
49588238 AATGTATTTATTTTAAAAAATCAATAAATATTAATTG
1 AATGTATTTATTTTAAAAAATCAATAAATATTAATTG
49588275 AATGGTATTT
1 AAT-GTATTT
49588285 TTTGTTTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
37 37 0.86
38 6 0.14
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (37 bp):
AATGTATTTATTTTAAAAAATCAATAAATATTAATTG
Found at i:49600764 original size:24 final size:25
Alignment explanation
Indices: 49600735--49600783 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
49600725 TGCTCTCTTG
49600735 CTTCTTCCGT-TT-TTTTCCTTTTTT
1 CTTCTTCCGTATTCTTTT-CTTTTTT
*
49600759 CTTCTTCGGTATTCTTTTCTTTTTT
1 CTTCTTCCGTATTCTTTTCTTTTTT
49600784 GTTTTGATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 9 0.41
25 9 0.41
26 4 0.18
ACGTcount: A:0.02, C:0.22, G:0.06, T:0.69
Consensus pattern (25 bp):
CTTCTTCCGTATTCTTTTCTTTTTT
Found at i:49604951 original size:82 final size:82
Alignment explanation
Indices: 49604791--49605003 Score: 236
Period size: 82 Copynumber: 2.6 Consensus size: 82
49604781 TTGGAGATAG
* * * **
49604791 TGTATCAGGCCTTGAGTCC-AACAGGCTTCATGCCGGTGTATATTATTAGGCTTTGTGCCTAGTA
1 TGTATCAGGCTTTGAG-CCTAACAGGCTTCATGCCGGTGTATATTATCAGCCTTTGTGCCTAACA
*
49604855 GGTTTCATGTTGGTTTA-
65 GGTTTCATGCTGGTTTAC
* * **
49604872 TATTATCAGGCTTTGTGCCTGGCAGGCTTCATGCCGGTGTATATTATCAGCCTTTGTGCCTAACA
1 T-GTATCAGGCTTTGAGCCTAACAGGCTTCATGCCGGTGTATATTATCAGCCTTTGTGCCTAACA
*
49604937 GGCTTTGA-GCTGGTTTAC
65 GG-TTTCATGCTGGTTTAC
* * *
49604955 TGTATTAGGCTTTGAGCCTAACAGGCTTCTTGCCAGTGTAT-TGTATCAG
1 TGTATCAGGCTTTGAGCCTAACAGGCTTCATGCCGGTGTATAT-TATCAG
49605004 GTAACTTGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
81 4 0.04
82 100 0.92
83 5 0.05
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (82 bp):
TGTATCAGGCTTTGAGCCTAACAGGCTTCATGCCGGTGTATATTATCAGCCTTTGTGCCTAACAG
GTTTCATGCTGGTTTAC
Found at i:49605000 original size:41 final size:41
Alignment explanation
Indices: 49604793--49605004 Score: 182
Period size: 41 Copynumber: 5.2 Consensus size: 41
49604783 GGAGATAGTG
* *
49604793 TATCAGGCCTTGAGTCC-AACAGGCTTCATGCCGGTGTATAT
1 TATCAGGCTTTGTG-CCTAACAGGCTTCATGCCGGTGTATAT
* ** * ** *
49604834 TATTAGGCTTTGTGCCTAGTAGGTTTCATGTTGGTTTATAT
1 TATCAGGCTTTGTGCCTAACAGGCTTCATGCCGGTGTATAT
**
49604875 TATCAGGCTTTGTGCCTGGCAGGCTTCATGCCGGTGTATAT
1 TATCAGGCTTTGTGCCTAACAGGCTTCATGCCGGTGTATAT
* * *
49604916 TATCAGCCTTTGTGCCTAACAGGCTTTGA-GCTGGT-T-TACT
1 TATCAGGCTTTGTGCCTAACAGGC-TTCATGCCGGTGTATA-T
* * * *
49604956 GTATTAGGCTTTGAGCCTAACAGGCTTCTTGCCAGTGTAT-T
1 -TATCAGGCTTTGTGCCTAACAGGCTTCATGCCGGTGTATAT
49604997 GTATCAGG
1 -TATCAGG
49605005 TAACTTGTAC
Statistics
Matches: 135, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
39 2 0.01
40 6 0.04
41 122 0.90
42 4 0.03
43 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (41 bp):
TATCAGGCTTTGTGCCTAACAGGCTTCATGCCGGTGTATAT
Found at i:49609996 original size:6 final size:6
Alignment explanation
Indices: 49609985--49610103 Score: 87
Period size: 6 Copynumber: 18.0 Consensus size: 6
49609975 TATTGTTGAT
*
49609985 AATGGG AATGGG AATGGG AATGAGA AATGGG AAATGGG AATGGG AATGGG
1 AATGGG AATGGG AATGGG AATG-GG AATGGG -AATGGG AATGGG AATGGG
* *
49610035 AGGA-GGG AACGGTGGA AGAGGGG AGATGGG AATGGG AAATGGG AAATGGG
1 A--ATGGG AA---TGGG A-ATGGG A-ATGGG AATGGG -AATGGG -AATGGG
*
49610085 AACGGG AAATGGG AATGGG
1 AATGGG -AATGGG AATGGG
49610104 TATTGCATGG
Statistics
Matches: 94, Mismatches: 8, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
5 1 0.01
6 46 0.49
7 42 0.45
8 1 0.01
9 3 0.03
10 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.50, T:0.13
Consensus pattern (6 bp):
AATGGG
Found at i:49610076 original size:13 final size:13
Alignment explanation
Indices: 49610055--49610103 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
49610045 GGTGGAAGAG
49610055 GGGAGATGGG-AAT
1 GGGA-ATGGGAAAT
49610068 GGGAAATGGGAAAT
1 GGG-AATGGGAAAT
*
49610082 GGGAACGGGAAAT
1 GGGAATGGGAAAT
49610095 GGGAATGGG
1 GGGAATGGG
49610104 TATTGCATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 25 0.78
14 7 0.22
ACGTcount: A:0.35, C:0.02, G:0.51, T:0.12
Consensus pattern (13 bp):
GGGAATGGGAAAT
Found at i:49610238 original size:30 final size:30
Alignment explanation
Indices: 49610191--49610628 Score: 613
Period size: 30 Copynumber: 15.1 Consensus size: 30
49610181 TGTATTTAAA
* *
49610191 ATTTTAAAAAT-AAAAAATATATGTAATGG
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610220 ATTTTAAAAATAAAAAAATACT-TGTAGTGT
1 ATTTTAAAAATAAAAAAATA-TATGTAGTGT
*
49610250 ATTTT-AAAAT----ATATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610275 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
49610304 ATTCTAGAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* * * *
49610334 ATTTT-AAAAT--ATATATATATGAATTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
49610361 ATTTTAAAAGTAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610391 ATTTTAAAAATAAAAAATATATATGTAGTGT
1 ATTTTAAAAATAAAAAA-ATATATGTAGTGT
49610422 ATTTTAAAAAT-AAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
49610451 ATTTTAAAAATAAAAAAATATGTGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610481 ATTTTAAAAAT--AAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
*
49610509 ATTTTAAAAATAAAAAAATATGTGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610539 ATTTTAAAAAT--AAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610567 ATTTT-AAAATAAAAAAATATATGTAGTGT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
* *
49610596 ATTGTAAAAATAAAAAAATATATGTAGTAT
1 ATTTTAAAAATAAAAAAATATATGTAGTGT
49610626 ATT
1 ATT
49610629 CGGCGTATTC
Statistics
Matches: 367, Mismatches: 24, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
24 1 0.00
25 17 0.05
26 5 0.01
27 23 0.06
28 52 0.14
29 88 0.24
30 156 0.43
31 25 0.07
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.38
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATATATGTAGTGT
Found at i:49610468 original size:147 final size:144
Alignment explanation
Indices: 49610191--49610628 Score: 647
Period size: 147 Copynumber: 3.0 Consensus size: 144
49610181 TGTATTTAAA
*
49610191 ATTTTAAAAATAAAAAATATATGTAATGGATTTTAAAAATAAAAAAATACTTGTAGTGTATTTT-
1 ATTTTAAAAAT-AAAAATATATG-AATGTATTTTAAAAATAAAAAAATA-TTGTAGTGTATTTTA
*
49610255 AAAAT---ATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTCTAGAAATAA
63 AAAATAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTCTAAAAATAA
49610317 AAAAATATATGTAGTGT
128 AAAAATATATGTAGTGT
* * *
49610334 ATTTT-AAAATATATATATATGAATTGTATTTTAAAAGTAAAAAAATATATGTAGTGTATTTTAA
1 ATTTTAAAAATAAAAATATATGAA-TGTATTTTAAAAATAAAAAAATAT-TGTAGTGTATTTTAA
*
49610398 AAATAAAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTTTAAAAATA
64 AAAT--AAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTCTAAAAATA
*
49610463 AAAAAATATGTGTAGTGT
127 AAAAAATATATGTAGTGT
*
49610481 ATTTTAAAAATAAAAATATATGTAGTGTATTTTAAAAATAAAAAAATATGTGTAGTGTATTTTAA
1 ATTTTAAAAATAAAAATATATG-AATGTATTTTAAAAATAAAAAAATAT-TGTAGTGTATTTTAA
*
49610546 AAATAAAA-ATATATGTAGTGTATTTT-AAAATAAAAAAATATATGTAGTGTATTGTAAAAATAA
64 AAATAAAATATATATGTAGTGTATTTTAAAAAT-AAAAAATATATGTAGTGTATTCTAAAAATAA
*
49610609 AAAAATATATGTAGTAT
128 AAAAATATATGTAGTGT
49610626 ATT
1 ATT
49610629 CGGCGTATTC
Statistics
Matches: 269, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
140 3 0.01
141 43 0.16
142 10 0.04
143 5 0.02
144 5 0.02
145 66 0.25
146 4 0.01
147 76 0.28
148 56 0.21
149 1 0.00
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.38
Consensus pattern (144 bp):
ATTTTAAAAATAAAAATATATGAATGTATTTTAAAAATAAAAAAATATTGTAGTGTATTTTAAAA
ATAAAATATATATGTAGTGTATTTTAAAAATAAAAAATATATGTAGTGTATTCTAAAAATAAAAA
AATATATGTAGTGT
Found at i:49611061 original size:21 final size:21
Alignment explanation
Indices: 49611037--49611089 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
49611027 CATTGTTTCT
*
49611037 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
49611058 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
49611079 AATCTCACCGC
1 AATCTCACCGC
49611090 CACCGCTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:49615126 original size:42 final size:43
Alignment explanation
Indices: 49615026--49615126 Score: 97
Period size: 42 Copynumber: 2.4 Consensus size: 43
49615016 ATAATCTTGT
*
49615026 TTATTTAAATTT-T-TTTTTCAAATCTGATAGTTTAAATATAA
1 TTATTTATATTTATATTTTTCAAATCTGATAGTTTAAATATAA
* * *
49615067 ATATTT-T-TTATATTATTTCTTCAGATCTTATA-TTT-AATATAA
1 TTATTTATATT-TA-TATTT-TTCAAATCTGATAGTTTAAATATAA
49615109 TTATTTATATTTATATTT
1 TTATTTATATTTATATTT
49615127 ATATTTGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 5 0.10
42 18 0.38
43 9 0.19
44 13 0.27
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (43 bp):
TTATTTATATTTATATTTTTCAAATCTGATAGTTTAAATATAA
Found at i:49616300 original size:20 final size:20
Alignment explanation
Indices: 49616260--49616319 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
49616250 AATTTTGAAA
49616260 GCATACCAAAAAATCA-AAGG
1 GCATACCAAAAAAT-ATAAGG
*
49616280 GCATACCAAAAAATATGAGG
1 GCATACCAAAAAATATAAGG
* **
49616300 GAATATAAAAAAATATAAGG
1 GCATACCAAAAAATATAAGG
49616320 AAGTACCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.15
Consensus pattern (20 bp):
GCATACCAAAAAATATAAGG
Found at i:49616330 original size:20 final size:20
Alignment explanation
Indices: 49616282--49616330 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
49616272 ATCAAAGGGC
*
49616282 ATACCAAAAAATATGAGGGA
1 ATACCAAAAAATATGAAGGA
**
49616302 ATATAAAAAAATAT-AAGGA
1 ATACCAAAAAATATGAAGGA
49616321 AGTACCAAAA
1 A-TACCAAAA
49616331 CTTATGAGAG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (20 bp):
ATACCAAAAAATATGAAGGA
Found at i:49616392 original size:20 final size:19
Alignment explanation
Indices: 49616351--49616402 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
49616341 AATATCAAAC
*
49616351 CCAAAAATATGATGAAGTA
1 CCAAAAATATGATGAAGAA
49616370 CCAAAAATTATGA-GAAAGAA
1 CCAAAAA-TATGATG-AAGAA
49616390 CCAGAAAATATGA
1 CCA-AAAATATGA
49616403 AGGAAAGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (19 bp):
CCAAAAATATGATGAAGAA
Found at i:49616431 original size:20 final size:21
Alignment explanation
Indices: 49616406--49616446 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
49616396 AATATGAAGG
49616406 AAAGAGAATACC-AAAACTAC
1 AAAGAGAATACCAAAAACTAC
*
49616426 AAAGAGAGTACCAAAAACTAC
1 AAAGAGAATACCAAAAACTAC
49616447 GAGGAAGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAGAGAATACCAAAAACTAC
Found at i:49616708 original size:20 final size:21
Alignment explanation
Indices: 49616683--49616735 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
49616673 TACGAGGGAG
49616683 GAAGTATCAAAAATTTTA-AA
1 GAAGTATCAAAAATTTTATAA
* *
49616703 GAAGTAT-TAAAA-TTTATGA
1 GAAGTATCAAAAATTTTATAA
49616722 GAA-TATCAAAAATT
1 GAAGTATCAAAAATT
49616736 ACGAAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.26
19 12 0.44
20 8 0.30
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.32
Consensus pattern (21 bp):
GAAGTATCAAAAATTTTATAA
Found at i:49617563 original size:21 final size:22
Alignment explanation
Indices: 49617534--49617574 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49617524 TATATAAATT
*
49617534 TTTTTATTATGA-TTAATATAA
1 TTTTAATTATGATTTAATATAA
49617555 TTTTAATTATGATTTAATAT
1 TTTTAATTATGATTTAATAT
49617575 CAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TTTTAATTATGATTTAATATAA
Found at i:49620956 original size:2 final size:2
Alignment explanation
Indices: 49620949--49620996 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
49620939 CACTGCACTG
49620949 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
49620991 CT CT CT
1 CT CT CT
49620997 GTCTGCAAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:49622188 original size:31 final size:31
Alignment explanation
Indices: 49622150--49622224 Score: 109
Period size: 31 Copynumber: 2.4 Consensus size: 31
49622140 ATGGTTCAAA
*
49622150 GTTTCAATTTTTCTTT-TTTCTTTTTCT-AAAG
1 GTTTCAATCTTTCTTTCTTT-TTTTT-TAAAAG
49622181 GTTTCAATCTTTCTTTCTTTTTTTTTAAAAG
1 GTTTCAATCTTTCTTTCTTTTTTTTTAAAAG
49622212 GTTTCAATCTTTC
1 GTTTCAATCTTTC
49622225 ATAGATTTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 1 0.02
31 37 0.90
32 3 0.07
ACGTcount: A:0.17, C:0.15, G:0.07, T:0.61
Consensus pattern (31 bp):
GTTTCAATCTTTCTTTCTTTTTTTTTAAAAG
Found at i:49628239 original size:24 final size:24
Alignment explanation
Indices: 49628212--49628261 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
49628202 TTAAATAAAC
*
49628212 TTAAATGAAAAGTCAATAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
*
49628236 TTAAATGAAAGGTCAAGAGTTATG
1 TTAAATGAAAAGTCAAGAGTTATG
49628260 TT
1 TT
49628262 TTTTAATGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.20, T:0.34
Consensus pattern (24 bp):
TTAAATGAAAAGTCAAGAGTTATG
Found at i:49634882 original size:22 final size:22
Alignment explanation
Indices: 49634845--49634887 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49634835 GTTATCAATG
*
49634845 GCAGTTTATCTACAAACCAGTA
1 GCAGTTTACCTACAAACCAGTA
* *
49634867 GCAGTTTACCTGCAAATCAGT
1 GCAGTTTACCTACAAACCAGT
49634888 GGTGGCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (22 bp):
GCAGTTTACCTACAAACCAGTA
Found at i:49644306 original size:189 final size:189
Alignment explanation
Indices: 49643977--49644320 Score: 557
Period size: 189 Copynumber: 1.8 Consensus size: 189
49643967 ATCCAATATC
* * *
49643977 GATACTTTTCATATGGTATTGATAAAAGTCCATTTGTTTTGATATCTTTAGCTCCAACGATCTCT
1 GATACTTTTCATATGGTATCGATAAAAGTCCATTTGTTTCGATATCTTTAGCTCCAACGATCACT
* * *
49644042 GAAGTTTGCATTAAGTGCTAATAGTATTGATACTCGTAGACAAAGTATCAATACCTTTTGTTGCA
66 GAACTTTGCATTAAATGCTAATAGTATTGATACTCATAGACAAAGTATCAATACCTTTTGTTGCA
*
49644107 GGTGAATTTAATGATATGGTATTTTTACATTTTGTTTTCAACCAATTTAGCTAAGTATT
131 GGTAAATTTAATGATATGGTATTTTTACATTTTGTTTTCAACCAATTTAGCTAAGTATT
* *
49644166 GATACTTTTCCTA-GGTATCGATAAAAGTCCATTTGTATTCGATATCTTTAGCTCCAACGGTCAC
1 GATACTTTTCATATGGTATCGATAAAAGTCCATTTGT-TTCGATATCTTTAGCTCCAACGATCAC
*
49644230 TGAACTTTGCATTAAATGCTAATAGTATTGATACTCATAGACAAAGTATCGATACCTTTTGTTGC
65 TGAACTTTGCATTAAATGCTAATAGTATTGATACTCATAGACAAAGTATCAATACCTTTTGTTGC
*
49644295 AAGG-AAATTTAATGATCTGGTATTTT
130 -AGGTAAATTTAATGATATGGTATTTT
49644321 CATCTCCAAC
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
188 22 0.15
189 117 0.82
190 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.40
Consensus pattern (189 bp):
GATACTTTTCATATGGTATCGATAAAAGTCCATTTGTTTCGATATCTTTAGCTCCAACGATCACT
GAACTTTGCATTAAATGCTAATAGTATTGATACTCATAGACAAAGTATCAATACCTTTTGTTGCA
GGTAAATTTAATGATATGGTATTTTTACATTTTGTTTTCAACCAATTTAGCTAAGTATT
Found at i:49645562 original size:97 final size:97
Alignment explanation
Indices: 49645443--49645643 Score: 323
Period size: 97 Copynumber: 2.1 Consensus size: 97
49645433 TTGCTCAACT
* * *
49645443 AGTGGTTCATCCACAACGTATTAGCAGCTTTTATTTACACAGACGAATGGTTTATCCACAAATAT
1 AGTGGTTCATCCACAACATATTAGCAGCTTTTATTTACACAGACAAATAGTTTATCCACAAATAT
*
49645508 ATTCTTATCATTAGC-AGTCATCTGTAATGATC
66 ATT-TTATCATTAGCAAGTCATCTGCAATGATC
*
49645540 AGTGGTTCATCCACAACATATTAGCAGCTTTTATTTGCACAGACAAATAGTTTATCCACAAATAT
1 AGTGGTTCATCCACAACATATTAGCAGCTTTTATTTACACAGACAAATAGTTTATCCACAAATAT
*
49645605 ATTTTATCATTAGCAATTCATCTGCAATGATC
66 ATTTTATCATTAGCAAGTCATCTGCAATGATC
*
49645637 AATGGTT
1 AGTGGTT
49645644 TATTCATAAC
Statistics
Matches: 96, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 11 0.11
97 85 0.89
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (97 bp):
AGTGGTTCATCCACAACATATTAGCAGCTTTTATTTACACAGACAAATAGTTTATCCACAAATAT
ATTTTATCATTAGCAAGTCATCTGCAATGATC
Found at i:49646745 original size:42 final size:42
Alignment explanation
Indices: 49646649--49646749 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
49646639 TATACTTTGA
* ** *
49646649 TTTATTTGATGATGCACTTACATGCTAGTATATTTGCTTCGG
1 TTTATCTGATGATGCACTTACATGAAAGTATATTTGCTTCAG
** ** **
49646691 TACATCCAATGATGCACTTATGTGAAAGTATATTTGCTTCAG
1 TTTATCTGATGATGCACTTACATGAAAGTATATTTGCTTCAG
49646733 TTTATCTGATGATGCAC
1 TTTATCTGATGATGCAC
49646750 CATGTGTGCC
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTATCTGATGATGCACTTACATGAAAGTATATTTGCTTCAG
Found at i:49646772 original size:43 final size:43
Alignment explanation
Indices: 49646675--49646812 Score: 129
Period size: 43 Copynumber: 3.2 Consensus size: 43
49646665 CTTACATGCT
* * * * ** **
49646675 AGTATATTTGCTTCGGTACATCCAATGATGCA-CTTATGTGAA
1 AGTATAATTGCTTCGATTCATCCGATGATGCACCTCGTGTGCC
* * *
49646717 AGTATATTTGCTTC-AGTTTATCTGATGATGCACCAT-GTGTGCC
1 AGTATAATTGCTTCGA-TTCATCCGATGATGCACC-TCGTGTGCC
*
49646760 AGTATAATTGCTTCGATTCGTCCGATGATGCACCTCGTGTGCC
1 AGTATAATTGCTTCGATTCATCCGATGATGCACCTCGTGTGCC
49646803 AGTATAATTG
1 AGTATAATTG
49646813 TTTTGGCTTG
Statistics
Matches: 79, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 27 0.34
43 50 0.63
44 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (43 bp):
AGTATAATTGCTTCGATTCATCCGATGATGCACCTCGTGTGCC
Found at i:49646828 original size:43 final size:43
Alignment explanation
Indices: 49646740--49646850 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
49646730 CAGTTTATCT
*
49646740 GATGATGCACCATGTGTGCCAGTATAATTGCTTCGATTCGTCC
1 GATGATGCACCATGTGTGCCAGTATAATTGCTTCGATTCGCCC
* * *
49646783 GATGATGCACC-TCGTGTGCCAGTATAATTGTTTTGGCTT-GCCC
1 GATGATGCACCAT-GTGTGCCAGTATAATTG-CTTCGATTCGCCC
* *
49646826 GATGATGCACTATGTGTGCTAGTAT
1 GATGATGCACCATGTGTGCCAGTAT
49646851 CTTTCCTTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 52 0.88
44 6 0.10
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (43 bp):
GATGATGCACCATGTGTGCCAGTATAATTGCTTCGATTCGCCC
Found at i:49656720 original size:22 final size:22
Alignment explanation
Indices: 49656692--49656736 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
49656682 CAAACAAGTC
49656692 CGTGTTCCGAGTAATGTATACT
1 CGTGTTCCGAGTAATGTATACT
49656714 CGTGTTCCGAGTAATGTATACT
1 CGTGTTCCGAGTAATGTATACT
49656736 C
1 C
49656737 TAACATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (22 bp):
CGTGTTCCGAGTAATGTATACT
Found at i:49668567 original size:10 final size:10
Alignment explanation
Indices: 49668539--49668572 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
49668529 CGCTTTTCAA
*
49668539 AAAAGAAAAG
1 AAAACAAAAG
49668549 AAGAACAAAAG
1 AA-AACAAAAG
49668560 AAAACAAAAG
1 AAAACAAAAG
49668570 AAA
1 AAA
49668573 GAGGAGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAACAAAAG
Found at i:49668610 original size:15 final size:15
Alignment explanation
Indices: 49668590--49668620 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49668580 ACCTCCAAAG
49668590 AAAATAAAAATAATC
1 AAAATAAAAATAATC
49668605 AAAATAAAAATAATC
1 AAAATAAAAATAATC
49668620 A
1 A
49668621 TAACAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAATC
Found at i:49669789 original size:29 final size:29
Alignment explanation
Indices: 49669756--49669837 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
49669746 CTGTTGACGC
* * * * *
49669756 CACACGGCCGTGTGGTAGGCCGTGTGCGA
1 CACACGACCGCGTGATAGGCCATGTGCAA
49669785 CACACGACCGCGTGATAGGCCATGTGCAA
1 CACACGACCGCGTGATAGGCCATGTGCAA
*
49669814 CACACGATCGCGTGATAGGCCATG
1 CACACGACCGCGTGATAGGCCATG
49669838 GCCATTTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.16
Consensus pattern (29 bp):
CACACGACCGCGTGATAGGCCATGTGCAA
Found at i:49671805 original size:3 final size:3
Alignment explanation
Indices: 49671790--49671819 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
49671780 AAAATAAAAC
*
49671790 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49671820 CATTAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:49671808 original size:15 final size:15
Alignment explanation
Indices: 49671782--49671845 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
49671772 AATAAAGGAA
*
49671782 AATAA-AACTAATAAC
1 AATAATAAC-AATAAT
*
49671797 AATAATAATAATAAT
1 AATAATAACAATAAT
*
49671812 AATAATAACATTAA-
1 AATAATAACAATAAT
*
49671826 AATAATTAACTA-AAT
1 AATAA-TAACAATAAT
49671841 AATAA
1 AATAA
49671846 AATTGCTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
14 7 0.17
15 31 0.77
16 2 0.05
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:49673485 original size:44 final size:44
Alignment explanation
Indices: 49673359--49673464 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
49673349 TTGACCCACT
* * * *
49673359 CCACTGCAACCTCAGGGAAATCGAACTCATATCTTCAACTGGTC
1 CCACTGCAACTTCAGGGGAATCAAACTCATATCTTCAACTGGCC
49673403 CCACTGCAACTTCAGGGGAATCAAACTCATATCTTCAACTGGCC
1 CCACTGCAACTTCAGGGGAATCAAACTCATATCTTCAACTGGCC
49673447 CCACTGCAACTTCAGGGG
1 CCACTGCAACTTCAGGGG
49673465 GATAAGATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGGAATCAAACTCATATCTTCAACTGGCC
Found at i:49673766 original size:129 final size:130
Alignment explanation
Indices: 49673530--49673797 Score: 360
Period size: 129 Copynumber: 2.1 Consensus size: 130
49673520 TGATTTATAG
* * * * *
49673530 CTTCCATCTATTCCACTACAACTTCAGGGGAATAAGACTTGCTGTCTTCAGTCTACTCTACTGCA
1 CTTCGATCTATCCCACTACAACTTCAGGGGAATAAGACCTACTGTCTTCAGTCTACTCCACTGCA
* * *
49673595 TCCTCAGTGAGATAGAACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCAT
66 ACCTCAGGGAGAAAGAACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCAT
* * * *
49673660 CTTCGATCTATCCCACTGCAACTTTAGGGGGATAAGACCTACT-TACTT-AGTCTGCTCCACTGC
1 CTTCGATCTATCCCACTACAACTTCAGGGGAATAAGACCTACTGT-CTTCAGTCTACTCCACTGC
* * ***
49673723 AACCTCAGGGAGAAAGGATTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTTCA
65 AACCTCAGGGAGAAAGAACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCA
49673788 T
130 T
49673789 CTTCGATCT
1 CTTCGATCT
49673798 GCTCCGCTAC
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
129 81 0.68
130 39 0.32
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (130 bp):
CTTCGATCTATCCCACTACAACTTCAGGGGAATAAGACCTACTGTCTTCAGTCTACTCCACTGCA
ACCTCAGGGAGAAAGAACTCGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCAT
Found at i:49673925 original size:128 final size:128
Alignment explanation
Indices: 49673748--49674003 Score: 440
Period size: 128 Copynumber: 2.0 Consensus size: 128
49673738 GGATTCGTGG
***
49673748 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTTTTCATCTTCGATCTGCTCCGCTACTGCTT
1 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTT
* *
49673813 AGGGAGACGAGATCTGTAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTGA
66 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACAGCTGGTCAGGGACATAGGACTTGTGA
* * *
49673876 CTTAAATCTGCTTCTTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTACTGCTT
1 CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTT
49673941 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACAGCTGGTCAGGGACATAGGACTTGTGA
66 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACAGCTGGTCAGGGACATAGGACTTGTGA
49674004 TTTCACCGAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 120 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (128 bp):
CTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCGATCTGCTCCGCTACTGCTT
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACAGCTGGTCAGGGACATAGGACTTGTGA
Found at i:49675233 original size:14 final size:14
Alignment explanation
Indices: 49675214--49675247 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49675204 TTAGCCTCTC
*
49675214 CATTTTTACTTTTT
1 CATTTTTACTTTCT
*
49675228 CATTTTTCCTTTCT
1 CATTTTTACTTTCT
49675242 CATTTT
1 CATTTT
49675248 CATTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.00, T:0.68
Consensus pattern (14 bp):
CATTTTTACTTTCT
Found at i:49676091 original size:14 final size:14
Alignment explanation
Indices: 49676059--49676100 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
49676049 TCAGCCTCTC
*
49676059 ATTTTCATTTTCCTT
1 ATTTTCATTTT-TTT
49676074 -TTTTCATTTTTTT
1 ATTTTCATTTTTTT
*
49676087 ATTTTGATTTTTTT
1 ATTTTCATTTTTTT
49676101 CATCTAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (14 bp):
ATTTTCATTTTTTT
Found at i:49676209 original size:15 final size:15
Alignment explanation
Indices: 49676191--49676241 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
49676181 CTTCTTTTCG
49676191 TTTTTTATTTTGATT
1 TTTTTTATTTTGATT
*
49676206 TTTTTTCACTTTTCA-T
1 TTTTTT-A-TTTTGATT
*
49676222 TTTTTTACTTTGATT
1 TTTTTTATTTTGATT
49676237 TTTTT
1 TTTTT
49676242 CATCTAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 4 0.13
15 13 0.43
16 8 0.27
17 5 0.17
ACGTcount: A:0.12, C:0.08, G:0.04, T:0.76
Consensus pattern (15 bp):
TTTTTTATTTTGATT
Found at i:49676218 original size:30 final size:32
Alignment explanation
Indices: 49676175--49676241 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
49676165 TTGATTTTTC
* *
49676175 TTTTTTCTTCTTTTC-GTTTTTTATTTTGATT
1 TTTTTTCTACTTTTCAGTTTTTTACTTTGATT
*
49676206 TTTTTTC-ACTTTTCATTTTTTTACTTTGATT
1 TTTTTTCTACTTTTCAGTTTTTTACTTTGATT
49676237 TTTTT
1 TTTTT
49676242 CATCTAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.09, C:0.10, G:0.04, T:0.76
Consensus pattern (32 bp):
TTTTTTCTACTTTTCAGTTTTTTACTTTGATT
Found at i:49676247 original size:141 final size:142
Alignment explanation
Indices: 49676074--49676353 Score: 508
Period size: 142 Copynumber: 2.0 Consensus size: 142
49676064 CATTTTCCTT
*
49676074 TTTTCATTTTTTTATTTTGATTTTTTTCATCTAGATTTTTCTC-TTTTTCATTCTTCATTCTTTT
1 TTTTCATTTTTTTACTTTGATTTTTTTCATCTAGATTTTTCTCTTTTTTCATTCTTCATTCTTTT
*
49676138 TCTCTTATTTTCATTTTGACATTGATTTTGATTTTTCTTTTTTCTTCTTTTCGTTTTTTATTTTG
66 TCTCTTATTTTCATTTTGACATTGATTTTGATTTTTCTTTTTTCTTCTTTTCGTTTTTGATTTTG
49676203 ATTTTTTTTCAC
131 ATTTTTTTTCAC
*
49676215 TTTTCATTTTTTTACTTTGATTTTTTTCATCTAGATTTTTCTCTTTTTTCATTCTTCTTTCTTTT
1 TTTTCATTTTTTTACTTTGATTTTTTTCATCTAGATTTTTCTCTTTTTTCATTCTTCATTCTTTT
* *
49676280 TCTCTTATTTTCATTTTGACCTTGATTTTGATTTTTCTTTTTTCTTCTTTTTGTTTTTGATTTTG
66 TCTCTTATTTTCATTTTGACATTGATTTTGATTTTTCTTTTTTCTTCTTTTCGTTTTTGATTTTG
49676345 ATTTTTTTT
131 ATTTTTTTT
49676354 AATTGGATCT
Statistics
Matches: 133, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
141 42 0.32
142 91 0.68
ACGTcount: A:0.11, C:0.13, G:0.05, T:0.70
Consensus pattern (142 bp):
TTTTCATTTTTTTACTTTGATTTTTTTCATCTAGATTTTTCTCTTTTTTCATTCTTCATTCTTTT
TCTCTTATTTTCATTTTGACATTGATTTTGATTTTTCTTTTTTCTTCTTTTCGTTTTTGATTTTG
ATTTTTTTTCAC
Found at i:49676316 original size:35 final size:35
Alignment explanation
Indices: 49676276--49676354 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
49676266 TTCTTCTTTC
49676276 TTTTTCTCTTATT-TTCATTTTGACCTTGATTTTGA
1 TTTTTCT-TTATTCTTCATTTTGACCTTGATTTTGA
* * ***
49676311 TTTTTCTTTTTTCTTCTTTTTGTTTTTGATTTTGA
1 TTTTTCTTTATTCTTCATTTTGACCTTGATTTTGA
49676346 TTTTT-TTTA
1 TTTTTCTTTA
49676355 ATTGGATCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 7 0.19
35 30 0.81
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (35 bp):
TTTTTCTTTATTCTTCATTTTGACCTTGATTTTGA
Done.