Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 112 of 182
Found at i:34022362 original size:22 final size:24
Alignment explanation
Indices: 34022328--34022371 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
34022318 TTTTTTGGTA
34022328 AAAAACTCGTTTATTAA-GTTTGG
1 AAAAACTCGTTTATTAATGTTTGG
34022351 AAAAACTC-TTTATTAATGTTT
1 AAAAACTCGTTTATTAATGTTT
34022372 AACAGAACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
AAAAACTCGTTTATTAATGTTTGG
Found at i:34023288 original size:27 final size:27
Alignment explanation
Indices: 34023258--34023611 Score: 186
Period size: 27 Copynumber: 12.9 Consensus size: 27
34023248 TATAACAATT
34023258 ATTTTACCCTTCGGGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* *
34023285 ATTTTACCCTAT-GAGGGTAGTTT-GGTC
1 ATTTTACCCT-TCGGGGGTA-TTTCAGTC
** *
34023312 ATTTTA-CCTTATAGGGGTAATTCAGTC
1 ATTTTACCCTT-CGGGGGTATTTCAGTC
* *
34023339 ATTTTAACCTAT-GGGAGTATTTC-GATC
1 ATTTTACCCT-TCGGGGGTATTTCAG-TC
* * * *
34023366 ATTCTACCCTACGGAGGTATTT-TGATC
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
** * *
34023393 ATTTTACCCTTCAAGGGTTTTTCAATC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* ** *
34023420 CTTTTAGTCTTC-GGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* * ** * *
34023446 ATTTTAACCTTTGAAGGTATTT-TGATT
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
* *
34023473 ATTTTACCCTTTGAGGGTATTTCAGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* * *
34023500 ATTTTACCCTTTGAGGGTATTTC-GATT
1 ATTTTACCCTTCGGGGGTATTTCAG-TC
* *
34023527 ATTTTACCCTTCGAGGGTAATTCGATATTTCGGTT
1 ATTTTACCCTTCG-GGG------G-TATTTCAGTC
*
34023562 ATTTTACCCTTCGGGGGTATTTCGGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTC
* *
34023589 ATTTTACCTTTCGAGGGTATTTC
1 ATTTTACCCTTCGGGGGTATTTC
34023612 GAGAGCTCTT
Statistics
Matches: 256, Mismatches: 47, Indels: 48
0.73 0.13 0.14
Matches are distributed among these distances:
25 1 0.00
26 26 0.10
27 191 0.75
28 11 0.04
29 1 0.00
34 4 0.02
35 21 0.08
36 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGGGGGTATTTCAGTC
Found at i:34023316 original size:54 final size:54
Alignment explanation
Indices: 34023258--34023545 Score: 255
Period size: 54 Copynumber: 5.4 Consensus size: 54
34023248 TATAACAATT
*
34023258 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTAGTTT-GGTC
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTA-TTTCGATC
** * *
34023312 ATTTTA-CCTTATAGGGGTAATTCAGTCATTTTAACCTATG-GGAGTATTTCGATC
1 ATTTTACCCTT-CGGGGGTATTTCAGTCATTTTACCCTATGAGG-GTATTTCGATC
* * * * * * *
34023366 ATTCTACCCTACGGAGGTATTT-TGATCATTTTACCCT-TCAAGGGTTTTTCAATC
1 ATTTTACCCTTCGGGGGTATTTCAG-TCATTTTACCCTAT-GAGGGTATTTCGATC
* ** * * * * * *
34023420 CTTTTAGTCTTC-GGGGTATTTCGGTCATTTTAACCTTTGAAGGTATTTTGATT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
* * * *
34023473 ATTTTACCCTTTGAGGGTATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATT
1 ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
*
34023527 ATTTTACCCTTCGAGGGTA
1 ATTTTACCCTTCGGGGGTA
34023546 ATTCGATATT
Statistics
Matches: 184, Mismatches: 40, Indels: 20
0.75 0.16 0.08
Matches are distributed among these distances:
53 47 0.26
54 132 0.72
55 5 0.03
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTTCGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATC
Found at i:34023368 original size:81 final size:80
Alignment explanation
Indices: 34023271--34023545 Score: 251
Period size: 81 Copynumber: 3.4 Consensus size: 80
34023261 TTACCCTTCG
* * *
34023271 GGGGTATTTC-AGTCATTTTACCCTATGAGGGTAGTTTGGTCATTTTA-CCTTATAGGGGTAATT
1 GGGGTATTTCGA-TCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAGGGGTATTT
34023334 CAGTCATTTTAACCTAT
65 CAGTCATTTTAACCT-T
* * *
34023351 GGGAGTATTTCGATCATTCTACCCTACG-GAGGTATTTTGATCATTTTACCCTTCA-A-GGGTTT
1 GGG-GTATTTCGATCATTTTACCCTATGAG-GGTATTTTGATCATTTTACCCTT-ATAGGGGTAT
* * **
34023413 TTCAATCCTTTTAGTCTT
63 TTCAGTCATTTTAACCTT
* * * * *
34023431 CGGGGTATTTCGGTCATTTTAACCTTTGAAGGTATTTTGATTATTTTACCCTT-T-GAGGGTATT
1 -GGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAG-GGGTATT
*
34023494 TCAGTCATTTTACCCTTT
64 TCAGTCATTTTAACC-TT
*
34023512 GAGGGTATTTCGATTATTTTACCCT-TCGAGGGTA
1 G-GGGTATTTCGATCATTTTACCCTAT-GAGGGTA
34023546 ATTCGATATT
Statistics
Matches: 156, Mismatches: 26, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
80 65 0.42
81 84 0.54
82 6 0.04
83 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (80 bp):
GGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTTATAGGGGTATTTC
AGTCATTTTAACCTT
Found at i:34023556 original size:35 final size:35
Alignment explanation
Indices: 34023517--34023585 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
34023507 CCTTTGAGGG
34023517 TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
1 TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
* * *
34023552 TATTTCGGTTATTTTACCCTTCGGGGGTATTTCG
1 TATTTCGATTATTTTACCCTTCGAGGGTAATTCG
34023586 GTCATTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (35 bp):
TATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
Found at i:34023569 original size:62 final size:62
Alignment explanation
Indices: 34023490--34023613 Score: 176
Period size: 62 Copynumber: 2.0 Consensus size: 62
34023480 CCTTTGAGGG
* *
34023490 TATTTCAGTCATTTTACCCTTTGAGGGTATTTCGATTATTTTACCCTTCGAGGGTAATTCGA
1 TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
* * * * * *
34023552 TATTTCGGTTATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCTTTCGAGGGTATTTCGA
1 TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
34023614 GAGCTCTTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (62 bp):
TATTTCAGTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTAATTCGA
Found at i:34027131 original size:27 final size:27
Alignment explanation
Indices: 34027098--34027577 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
34027088 TAAATTGTGC
*
34027098 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027125 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027152 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027179 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027206 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027233 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34027260 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34027288 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027315 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027342 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34027370 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34027398 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34027426 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
34027454 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
34027481 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34027508 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
34027536 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
34027563 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34027578 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:34027338 original size:82 final size:82
Alignment explanation
Indices: 34027098--34027577 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
34027088 TAAATTGTGC
*
34027098 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
34027162 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
34027179 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
34027243 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
34027260 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
34027325 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
34027342 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
34027407 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
34027426 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
34027491 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
34027508 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
34027573 GTGCG
66 GTGCG
34027578 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:34051365 original size:39 final size:40
Alignment explanation
Indices: 34051320--34051491 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
34051310 GCTCCTCGTT
* * *
34051320 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
34051360 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34051399 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
34051439 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
34051479 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
34051492 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34051504 original size:80 final size:79
Alignment explanation
Indices: 34051320--34051544 Score: 204
Period size: 80 Copynumber: 2.8 Consensus size: 79
34051310 GCTCCTCGTT
* * * * * * *
34051320 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
34051384 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * *
34051399 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAAAGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
34051464 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
** * * * *
34051479 CAAAAGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAAGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34051543 GA
63 GA
34051545 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 67 0.56
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAAGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:34051553 original size:41 final size:41
Alignment explanation
Indices: 34051476--34051553 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34051466 TTTGTATCTC
* * *
34051476 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34051517 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34051554 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34058895 original size:4 final size:4
Alignment explanation
Indices: 34058886--34058946 Score: 122
Period size: 4 Copynumber: 15.2 Consensus size: 4
34058876 ATTAAATCAA
34058886 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
34058934 TATG TATG TATG T
1 TATG TATG TATG T
34058947 CTATTGTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:34059953 original size:42 final size:42
Alignment explanation
Indices: 34059905--34060081 Score: 241
Period size: 42 Copynumber: 4.2 Consensus size: 42
34059895 GGTTTAGCGC
*
34059905 CTAGCAGGCTT-ATAGCCAGTGAAACAATATCAGACTTTACTT
1 CTAGCAGGCTTAAT-GCCAGTGAAACAATATCAGACTTTACGT
* *
34059947 CTAGCAGGCTTAATGCCAGTGAAATAATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* * *
34059989 CTAGCAGGTTTAATGTCGGTGAAACAATATCAGACTTTACGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
* * * *
34060031 CTAGCAGGCTTAATGCCGGTGAAAC-ATTTCAGACTATATGT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
34060072 CTAGCAGGCT
1 CTAGCAGGCT
34060082 AAGTGTCGGT
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
41 23 0.19
42 96 0.79
43 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTTTACGT
Found at i:34066501 original size:4 final size:4
Alignment explanation
Indices: 34066492--34066520 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
34066482 GTTATCAAAA
34066492 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
34066521 CTATTGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:34066906 original size:13 final size:13
Alignment explanation
Indices: 34066888--34066930 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
34066878 ATATGAAAGT
34066888 TATGAAAGTTAAG
1 TATGAAAGTTAAG
34066901 TATGAAAGTTAAG
1 TATGAAAGTTAAG
*
34066914 TATGAAAGTCAAG
1 TATGAAAGTTAAG
34066927 TATG
1 TATG
34066931 CATGTGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.30
Consensus pattern (13 bp):
TATGAAAGTTAAG
Found at i:34067611 original size:84 final size:83
Alignment explanation
Indices: 34067481--34067639 Score: 246
Period size: 84 Copynumber: 1.9 Consensus size: 83
34067471 CTTATTTCTA
* * * *
34067481 GTGAAACAATATTAGGCTTTACGTCTAGCAGGGTTAATGCCGGTGAAATAATTTCAGACTTTACA
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA-AATTTCAGACTATACA
34067546 TCTAGCAGGCTTAATGCTG
65 TCTAGCAGGCTTAATGCTG
* **
34067565 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGACTATATGT
1 GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTCAGACTATACAT
34067630 CTAGCAGGCT
66 CTAGCAGGCT
34067640 AAGTGCCGGT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
83 23 0.34
84 45 0.66
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (83 bp):
GTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAAAATTTCAGACTATACAT
CTAGCAGGCTTAATGCTG
Found at i:34067633 original size:41 final size:41
Alignment explanation
Indices: 34067497--34067650 Score: 211
Period size: 42 Copynumber: 3.7 Consensus size: 41
34067487 CAATATTAGG
* *
34067497 CTTTACGTCTAGCAGGGTTAATGCCGGTGAAATAATTTCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAA-CATTTCAGA
* * *
34067539 CTTTACATCTAGCAGGCTTAATGCTGGTGAAACAATATCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAAC-ATTTCAGA
34067581 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
1 CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
* *
34067622 CTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CTTTACGTCTAGCAGGCTTAA-TGCCGGTG
34067651 CACTGAATCA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.03
41 30 0.30
42 67 0.67
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (41 bp):
CTTTACGTCTAGCAGGCTTAATGCCGGTGAAACATTTCAGA
Found at i:34080414 original size:50 final size:49
Alignment explanation
Indices: 34080296--34080465 Score: 171
Period size: 50 Copynumber: 3.4 Consensus size: 49
34080286 TGCCAAAGAT
* * * * *
34080296 ATGTCCCAGACATAGTCTTACATGGGATGTT-TCTTGTACTGCCAATTCC
1 ATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAGTGCCAATGCC
* * * *
34080345 ATATCCCAGATATTGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATA-GTGCCAATGCC
** ** * *
34080395 ATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATAT-AGTGCCAATGCC
34080445 ATGTCCCAGACATGGTCTTAC
1 ATGTCCCAGACATGGTCTTAC
34080466 TTGAAACCTC
Statistics
Matches: 100, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 3 0.03
49 29 0.29
50 67 0.67
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (49 bp):
ATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAGTGCCAATGCC
Found at i:34080475 original size:50 final size:54
Alignment explanation
Indices: 34080392--34080520 Score: 158
Period size: 50 Copynumber: 2.4 Consensus size: 54
34080382 AGGTGCCCAT
**
34080392 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCTC-A-G-TGCCAAC
1 GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTCAATCTCAATGATGCCAAC
** *
34080442 GCCATGTCCCAGACATGGTCTTACTTGAAACCTCTCATAATCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTC--AATCTCAATGATGCCAAC
*
34080498 GCCATGTGCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
34080521 TTTGGGATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
50 32 0.48
53 5 0.07
54 1 0.01
55 1 0.01
56 28 0.42
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (54 bp):
GCCATGTCCCAGACATGGTCTTACGGGAAACCTCTCAATCTCAATGATGCCAAC
Found at i:34086608 original size:28 final size:28
Alignment explanation
Indices: 34086526--34086675 Score: 187
Period size: 28 Copynumber: 5.4 Consensus size: 28
34086516 GAGATTGGCG
* * * *
34086526 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
34086555 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34086582 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34086610 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34086638 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
34086665 CTGAGTGTGCG
1 CTAAGTGTGCG
34086676 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
27 42 0.39
28 54 0.50
29 11 0.10
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:34086616 original size:55 final size:55
Alignment explanation
Indices: 34086551--34086675 Score: 189
Period size: 55 Copynumber: 2.3 Consensus size: 55
34086541 TAAATTGTGC
*
34086551 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAG-TTGACTATAT
* * *
34086606 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
*
34086661 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34086676 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 39 0.61
56 25 0.39
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATATGAATATGTAGCACTAAGTGTGCGAGTTGACTATAT
Found at i:34102180 original size:25 final size:25
Alignment explanation
Indices: 34102118--34102229 Score: 86
Period size: 25 Copynumber: 4.5 Consensus size: 25
34102108 ACACACCACG
**
34102118 GCTCGTATGAGCTTACCGATTTGTA
1 GCTCGTATGAGCTTACCGATTTACA
* *
34102143 ACTCGTGA-AAGCTTACCGATTCT-CA
1 GCTCGT-ATGAGCTTACCGATT-TACA
*
34102168 GCTCGTATGAGCTTACTGATTTACA
1 GCTCGTATGAGCTTACCGATTTACA
* * * * *
34102193 ACTCGTGA-GAGCATACTGATTCATA
1 GCTCGT-ATGAGCTTACCGATTTACA
34102218 GCTCGTATGAGC
1 GCTCGTATGAGC
34102230 ATACATGTAC
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.04
25 64 0.91
26 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
GCTCGTATGAGCTTACCGATTTACA
Found at i:34102196 original size:50 final size:50
Alignment explanation
Indices: 34102118--34102229 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
34102108 ACACACCACG
** *
34102118 GCTCGTATGAGCTTACCGATTTGTAACTCGTGAAAGCTTACCGATTC-TCA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCAT-A
* * *
34102168 GCTCGTATGAGCTTACTGATTTACAACTCGTGAGAGCATACTGATTCATA
1 GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
34102218 GCTCGTATGAGC
1 GCTCGTATGAGC
34102230 ATACATGTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 54 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (50 bp):
GCTCGTATGAGCTTACCGATTTACAACTCGTGAAAGCATACCGATTCATA
Found at i:34102230 original size:25 final size:25
Alignment explanation
Indices: 34102160--34102233 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
34102150 AAAGCTTACC
* *
34102160 GATTCTCAGCTCGTATGAGCTTACT
1 GATTCACAGCTCGTATGAGCATACT
* *
34102185 GATTTACAACTCGTGA-GAGCATACT
1 GATTCACAGCTCGT-ATGAGCATACT
*
34102210 GATTCATAGCTCGTATGAGCATAC
1 GATTCACAGCTCGTATGAGCATAC
34102234 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
GATTCACAGCTCGTATGAGCATACT
Found at i:34105377 original size:27 final size:26
Alignment explanation
Indices: 34105347--34105522 Score: 145
Period size: 27 Copynumber: 6.5 Consensus size: 26
34105337 AATTGTACAG
* *
34105347 CACTAAATGTGCGATCTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
34105374 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
34105401 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
34105428 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
34105455 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
34105482 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
34105509 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
34105523 GACTCAATAG
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:34105460 original size:82 final size:81
Alignment explanation
Indices: 34105346--34105501 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
34105336 AAATTGTACA
*
34105346 GCACTAAATGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAATGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34105410 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
34105427 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAATGTGCGA-TCTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
34105491 GTGCGAGTTGA
64 GTGCGAATTGA
34105502 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
GCACTAAATGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34105468 original size:55 final size:54
Alignment explanation
Indices: 34105374--34105522 Score: 165
Period size: 55 Copynumber: 2.7 Consensus size: 54
34105364 GACTATGTTA
** * *
34105374 CACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCAG
* * ** *
34105428 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCAG
* * *
34105483 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
34105523 GACTCAATAG
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 36 0.44
55 44 0.54
56 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (54 bp):
CACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCAG
Found at i:34105513 original size:82 final size:81
Alignment explanation
Indices: 34105342--34105522 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
34105332 GATTAAATTG
* *
34105342 TACAGCACTAAATGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
34105407 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
34105423 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
34105486 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
34105505 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34105523 GACTCAATAG
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34111612 original size:200 final size:200
Alignment explanation
Indices: 34111262--34111631 Score: 650
Period size: 200 Copynumber: 1.9 Consensus size: 200
34111252 ACCTTGGAAG
34111262 AAGGTACTCAGATTTGGCCATAAAGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATTTC
1 AAGGTACTCAGATTTGGCCATAAAGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATTTC
* *
34111327 CGAACGAGTGGGGCCGGTTGCATATAGATTGATTTTGCCCCCTGAACTTGAAAGGATGCACGATG
66 CGAACGAGTGGGGCCGGTTGCATATAGATTGATTTTGCCCCCTGAACTTGAAAAGATGCACGACG
*
34111392 TCTTCCATGTTTCAATGCTTCGACGTTATAGATCCGATCCGTCACATGTGATTAATTCCTCAGAA
131 TCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCCGTCACATGTGATTAATTCCTCAGAA
34111457 GTTGA
196 GTTGA
*
34111462 AAGGTACTCAGATTTGGCCGTAAAGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATTTC
1 AAGGTACTCAGATTTGGCCATAAAGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATTTC
* *
34111527 CGAACGAGTGGGGCCGGTTGCATATAGATTGATTTTGCCTCCTGAACTTGAAAAGATTCACGACG
66 CGAACGAGTGGGGCCGGTTGCATATAGATTGATTTTGCCCCCTGAACTTGAAAAGATGCACGACG
* * * *
34111592 TCTTTCATGTTTCGATGCTTCGGCGCTATAGATCTGATCC
131 TCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCC
34111632 TTCGCACATA
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 160 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (200 bp):
AAGGTACTCAGATTTGGCCATAAAGGCAAGTTGAGCCCGAGATTCATTGGGCCGTACGAAATTTC
CGAACGAGTGGGGCCGGTTGCATATAGATTGATTTTGCCCCCTGAACTTGAAAAGATGCACGACG
TCTTCCATGTTTCAATGCTTCGACGCTATAGATCCGATCCGTCACATGTGATTAATTCCTCAGAA
GTTGA
Found at i:34113666 original size:27 final size:27
Alignment explanation
Indices: 34113635--34113812 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34113625 TAAATTGTAC
34113635 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
34113662 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
34113688 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* *
34113716 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGATTATGT
*
34113744 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* *
34113771 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
34113798 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34113813 GACTCCAAAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:34113749 original size:82 final size:81
Alignment explanation
Indices: 34113636--34113791 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
34113626 AAATTGTACA
* * *
34113636 GCACTAAGTGTGCGATTTGATTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34113700 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34113717 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34113782 TGCGAGTTGA
65 TGCGAATTGA
34113792 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34113803 original size:82 final size:81
Alignment explanation
Indices: 34113632--34113812 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
34113622 GATTAAATTG
* * *
34113632 TACAGCACTAAGTGTGCGATTTGATTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34113697 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34113713 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34113777 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34113795 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34113813 GACTCCAAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34117394 original size:46 final size:48
Alignment explanation
Indices: 34117270--34117394 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 48
34117260 CTAGTATAAG
* * *
34117270 AATGTCTGGGGCATGCATCGGCCACATTATG-AGAGCCAATGTAAGAC
1 AATGTCTGGGACATGCATCGGCTACATGATGTAGAGCCAATGTAAGAC
* ** ** *
34117317 CATGTCTGGGACATGCATCGGCCTTGA-GATGTA-AGCCGGTGTATGA-
1 AATGTCTGGGACATGCATCGG-CTACATGATGTAGAGCCAATGTAAGAC
34117363 AATGTCTGGGACATGCATCGGCTACATGATGT
1 AATGTCTGGGACATGCATCGGCTACATGATGT
34117395 GTTAGTGTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
45 3 0.05
46 25 0.40
47 32 0.51
48 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (48 bp):
AATGTCTGGGACATGCATCGGCTACATGATGTAGAGCCAATGTAAGAC
Found at i:34120951 original size:47 final size:47
Alignment explanation
Indices: 34120893--34121023 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
34120883 CACAATCGAT
* *
34120893 AAGTACCTATACCATGGCCCGTAGCTAAATAAAGGTAACTTATCTTG
1 AAGTACCTATACCATGGCCCGTAGCTAAATAAAGGTAACTCATCTTA
* * * * * *
34120940 GAGTACTTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTTA
1 AAGTACCTATACCATGGCCCGTAGCTAAATAAAGGTAACTCATCTTA
* * *
34120987 AAATACCTATATCATGGCCCGTAGCTAAATTAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCTAAATAAAGGTA
34121024 TTATTCACAC
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCTAAATAAAGGTAACTCATCTTA
Found at i:34129929 original size:27 final size:28
Alignment explanation
Indices: 34129873--34129941 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
34129863 ATATTAAGTC
34129873 CGCAC-CTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
34129900 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
34129927 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34129942 GCACAATTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:34134320 original size:42 final size:41
Alignment explanation
Indices: 34134274--34134428 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
34134264 CAAAGACTAT
*
34134274 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
*
34134316 GTGTAAAACCATATCTGGGATATGGCATCGATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGA-TTC
*** * * * *
34134358 GTGTAAGGTTATATATGGGCTATTGGCATTGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATT-C
*
34134401 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
34134429 TGGTATAGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 63 0.67
43 31 0.33
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTC
Found at i:34135540 original size:20 final size:20
Alignment explanation
Indices: 34135515--34135562 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
34135505 CCGGTTAGGG
*
34135515 ACACGGGCGTGTTCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
34135535 ACACGGGCGTGTCCCAAGCC
1 ACACGGGCGTGTCCCAAGCC
34135555 ACACGGGC
1 ACACGGGC
34135563 TTGCGGCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.31, T:0.10
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGCC
Found at i:34138937 original size:2 final size:2
Alignment explanation
Indices: 34138930--34138978 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
34138920 TTTCTTTTCA
*
34138930 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
34138972 TC TC TC T
1 TC TC TC T
34138979 TGAGAAAGGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:34142309 original size:22 final size:22
Alignment explanation
Indices: 34142281--34142326 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34142271 TTTGAGCTGC
34142281 TATGGACTTAAAAGTGGCTATG
1 TATGGACTTAAAAGTGGCTATG
34142303 TATGGACTTAAAAGTGGCTATG
1 TATGGACTTAAAAGTGGCTATG
34142325 TA
1 TA
34142327 ATTTAAGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (22 bp):
TATGGACTTAAAAGTGGCTATG
Found at i:34148096 original size:48 final size:48
Alignment explanation
Indices: 34148032--34148843 Score: 1588
Period size: 48 Copynumber: 16.9 Consensus size: 48
34148022 CAAGATAAAT
* * * *
34148032 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148080 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148128 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148176 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148224 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148272 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148320 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148368 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148416 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148464 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148512 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148560 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148608 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148656 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148704 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148752 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
34148800 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
34148844 GGAGGTGTGT
Statistics
Matches: 760, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 760 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:34149045 original size:37 final size:37
Alignment explanation
Indices: 34148990--34149088 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
34148980 GGAAATATAT
*
34148990 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
34149027 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
34149064 TCCGGGTAAGACCCGATAACTACGT
1 TCCGGGTAAGACCCGATGACTACGT
34149089 ATGGGGACTA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:34156760 original size:40 final size:40
Alignment explanation
Indices: 34156711--34156823 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
34156701 CAGAATTTAA
** *
34156711 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
34156751 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* *
34156791 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGG
34156824 CTTTGTGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 63 0.98
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:34159570 original size:22 final size:22
Alignment explanation
Indices: 34159543--34159665 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
34159533 ATGTGCATAT
34159543 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * *
34159565 ATGTGATGAATG-TGAACAT-GCATA
1 ATGTGAT-AAGGCCG-A-ATGGC-CA
*
34159589 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
* *
34159612 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
34159634 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
34159659 ATGTGAT
1 ATGTGAT
34159666 GAATATGAAC
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 24 0.33
23 17 0.23
24 16 0.22
25 16 0.22
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:34159580 original size:47 final size:47
Alignment explanation
Indices: 34159527--34159711 Score: 289
Period size: 47 Copynumber: 3.9 Consensus size: 47
34159517 GATAATTGTG
**
34159527 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
34159574 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
34159621 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
34159668 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
34159712 AATATATGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:34159970 original size:39 final size:38
Alignment explanation
Indices: 34159916--34160067 Score: 247
Period size: 37 Copynumber: 4.1 Consensus size: 38
34159906 GGAAATATAT
34159916 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAATTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-ATTG
*
34159955 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTA-TG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATTG
34159992 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT-TTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATTG
* *
34160029 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT-TTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATTG
34160066 TC
1 TC
34160068 TGAGCTAAAG
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
37 74 0.69
38 1 0.01
39 33 0.31
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (38 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATTG
Found at i:34161795 original size:157 final size:157
Alignment explanation
Indices: 34161509--34161821 Score: 608
Period size: 157 Copynumber: 2.0 Consensus size: 157
34161499 CAACATTTTA
34161509 GCTAATATTCCCCCTTGGCCAAATTTTCTAAGCCAAGACAAAAGCATCGATATGCTTGCCTCTAA
1 GCTAATATTCCCCCTTGGCCAAATTTTCTAAGCCAAGACAAAAGCATCGATATGCTTGCCTCTAA
34161574 CCGAATACATGCAACACCAATCTTCTTCCTATGGCCAAATATGCATGTCTATGTTGAGGCCGATT
66 CCGAATACATGCAACACCAATCTTCTTCCTATGGCCAAATATGCATGTCTATGTTGAGGCCGATT
34161639 ATATACTTAATACCACACATAAATGGG
131 ATATACTTAATACCACACATAAATGGG
*
34161666 GCTAATATTCCCCCTTGGCCGAATTTTCTAAGCCAAGACAAAAGCATCGATATGCTTGCCTCTAA
1 GCTAATATTCCCCCTTGGCCAAATTTTCTAAGCCAAGACAAAAGCATCGATATGCTTGCCTCTAA
*
34161731 CCGAATACATGCAACACCAATCTTCTTCCTATGGCCGAATATGCATGTCTATGTTGAGGCCGATT
66 CCGAATACATGCAACACCAATCTTCTTCCTATGGCCAAATATGCATGTCTATGTTGAGGCCGATT
34161796 ATATACTTAATACCACACATAAATGG
131 ATATACTTAATACCACACATAAATGG
34161822 CATACATTTT
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (157 bp):
GCTAATATTCCCCCTTGGCCAAATTTTCTAAGCCAAGACAAAAGCATCGATATGCTTGCCTCTAA
CCGAATACATGCAACACCAATCTTCTTCCTATGGCCAAATATGCATGTCTATGTTGAGGCCGATT
ATATACTTAATACCACACATAAATGGG
Found at i:34162206 original size:128 final size:128
Alignment explanation
Indices: 34161978--34162233 Score: 485
Period size: 128 Copynumber: 2.0 Consensus size: 128
34161968 ATATATATGT
*
34161978 GTGCAAGAGCCGAATCACAAATTTGATTATAACCAAATTTAAACATATATCCAAAACATAAATCT
1 GTGCAAAAGCCGAATCACAAATTTGATTATAACCAAATTTAAACATATATCCAAAACATAAATCT
*
34162043 TACCTACCGTGCAATAAGCATAAATCACACTTATGGATATACCATGGCCGATACTTCCAACAA
66 TACCTACCATGCAATAAGCATAAATCACACTTATGGATATACCATGGCCGATACTTCCAACAA
*
34162106 GTGCAAAAGCCGAATCACAAATTTGATTATAACCAAATTTAAACATATATCCAAAACATAAATTT
1 GTGCAAAAGCCGAATCACAAATTTGATTATAACCAAATTTAAACATATATCCAAAACATAAATCT
34162171 TACCTACCATGCAATAAGCATAAATCACACTTATGGATATACCATGGCCGATACTTCCAACAA
66 TACCTACCATGCAATAAGCATAAATCACACTTATGGATATACCATGGCCGATACTTCCAACAA
34162234 CACCAAATAA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.25
Consensus pattern (128 bp):
GTGCAAAAGCCGAATCACAAATTTGATTATAACCAAATTTAAACATATATCCAAAACATAAATCT
TACCTACCATGCAATAAGCATAAATCACACTTATGGATATACCATGGCCGATACTTCCAACAA
Found at i:34162764 original size:161 final size:161
Alignment explanation
Indices: 34162491--34162811 Score: 599
Period size: 161 Copynumber: 2.0 Consensus size: 161
34162481 CCTTAATATC
34162491 GACCTAAGATGACCGATTGCTTCACTCCTTCCTTCCTCCTCTCAATTCGGCCAAGAAGAACCAAA
1 GACCTAAGATGACCGATTGCTTCACTCCTTCCTTCCTCCTCTCAATTCGGCCAAGAAGAACCAAA
*
34162556 GAACACAACTTGTTTCCTTTCTTCCTTAGAACATTCAGCCAAGAGAAATGAAAAAAAAGATGGAC
66 GAACACAACTTATTTCCTTTCTTCCTTAGAACATTCAGCCAAGAGAAATGAAAAAAAAGATGGAC
34162621 ACTTTTTTTTTGTTTTCTTTCTTACCTTCAT
131 ACTTTTTTTTTGTTTTCTTTCTTACCTTCAT
34162652 GACCTAAGATGACCGATTGCTTCACTCCTTCCTTCCTCCTCTCAATTCGGCCAAGAAGAACCAAA
1 GACCTAAGATGACCGATTGCTTCACTCCTTCCTTCCTCCTCTCAATTCGGCCAAGAAGAACCAAA
* *
34162717 GAACACAACTTATTTCCTTTCTTCCTTAGTAA-ATTCTGCCTAGAGAAATGAAAAAAAAGATGGA
66 GAACACAACTTATTTCCTTTCTTCCTTAG-AACATTCAGCCAAGAGAAATGAAAAAAAAGATGGA
34162781 CACTTTTTTTTTGTTTTCTTTCTTACCTTCA
130 CACTTTTTTTTTGTTTTCTTTCTTACCTTCA
34162812 CGGCAATGGG
Statistics
Matches: 156, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
161 154 0.99
162 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (161 bp):
GACCTAAGATGACCGATTGCTTCACTCCTTCCTTCCTCCTCTCAATTCGGCCAAGAAGAACCAAA
GAACACAACTTATTTCCTTTCTTCCTTAGAACATTCAGCCAAGAGAAATGAAAAAAAAGATGGAC
ACTTTTTTTTTGTTTTCTTTCTTACCTTCAT
Found at i:34163290 original size:177 final size:177
Alignment explanation
Indices: 34162994--34163351 Score: 689
Period size: 177 Copynumber: 2.0 Consensus size: 177
34162984 TGGGGGGAAA
34162994 AATTGACATGCAAGTCCCCCATTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCAC
1 AATTGACATGCAAGTCCCCCATTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCAC
34163059 ATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCAAAGCT
66 ATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCAAAGCT
34163124 TAAAATTTTCACACATTTATTTTAGACAATAAATATCATATTCAAAT
131 TAAAATTTTCACACATTTATTTTAGACAATAAATATCATATTCAAAT
*
34163171 AATTGACATGCAAGTCCCCCCTTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCAC
1 AATTGACATGCAAGTCCCCCATTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCAC
* *
34163236 ATTTCAAAAATGTCACACATAAGTCCTATTGATTAAATTCACATGCAATTTACTAAATCGAAGCT
66 ATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCAAAGCT
34163301 TAAAATTTTCACACATTTATTTTAGACAATAAATATCATATTCAAAT
131 TAAAATTTTCACACATTTATTTTAGACAATAAATATCATATTCAAAT
34163348 AATT
1 AATT
34163352 TGGTGACTCG
Statistics
Matches: 178, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
177 178 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (177 bp):
AATTGACATGCAAGTCCCCCATTTTTCAACATGCACTAATAGGTCCTTATGTTTTGATCTATCAC
ATTTCAAAAATGTCACACATAAGTCCTATTGACTAAATTCACATGCAATTTACTAAATCAAAGCT
TAAAATTTTCACACATTTATTTTAGACAATAAATATCATATTCAAAT
Found at i:34172784 original size:50 final size:50
Alignment explanation
Indices: 34172695--34172929 Score: 326
Period size: 50 Copynumber: 4.7 Consensus size: 50
34172685 ATTTGGGTAA
* *
34172695 AGAGATCCCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
34172745 AGAGGTCCTATGTAAGACCATGTCTGGGACATTGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
34172795 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAACGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * *
34172845 AGAGGTCTCATGTAAGACCATGTTTTGGACATGGCATTGGCACCAAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
34172895 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
34172930 ACAGGCACCT
Statistics
Matches: 162, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 162 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:34172930 original size:50 final size:50
Alignment explanation
Indices: 34172695--34172986 Score: 325
Period size: 50 Copynumber: 5.8 Consensus size: 50
34172685 ATTTGGGTAA
*
34172695 AGAGATCCCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCACCGAGATG
* * * *
34172745 AGAGGTCCTATGTAAGACCATGTCTGGGACATTGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
34172795 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAACGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
34172845 AGAGGTCTCATGTAAGACCATGTTTTGGACATGGCATTGGCACCAAGTTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** * * *
34172895 AGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCACAGGCACCTATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
34172945 AGAACTCTCATGTAAGACCATATCTGAGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34172987 GTACAAAGCT
Statistics
Matches: 201, Mismatches: 40, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
50 201 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:34177237 original size:7 final size:7
Alignment explanation
Indices: 34177227--34177252 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34177217 TCCGTAAATT
34177227 CTAAACC
1 CTAAACC
34177234 CTAAACC
1 CTAAACC
34177241 CTAAACC
1 CTAAACC
34177248 CTAAA
1 CTAAA
34177253 AGATTCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:34177640 original size:20 final size:21
Alignment explanation
Indices: 34177605--34177646 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
34177595 GATCTTCATT
*
34177605 ACATCTACTAATTTCAATAAA
1 ACATCTACTAATTTCAAGAAA
*
34177626 ACATCT-CTTATTTCAAGAAA
1 ACATCTACTAATTTCAAGAAA
34177646 A
1 A
34177647 AAAATTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCTACTAATTTCAAGAAA
Found at i:34177647 original size:21 final size:21
Alignment explanation
Indices: 34177605--34177647 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34177595 GATCTTCATT
*
34177605 ACATCTACTAATTTCAATAAA
1 ACATCTACTAATTTCAAAAAA
*
34177626 ACATCT-CTTATTTCAAGAAAA
1 ACATCTACTAATTTCAA-AAAA
34177647 A
1 A
34177648 AAATTAAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (21 bp):
ACATCTACTAATTTCAAAAAA
Found at i:34188830 original size:44 final size:44
Alignment explanation
Indices: 34188707--34189254 Score: 238
Period size: 44 Copynumber: 12.5 Consensus size: 44
34188697 CTTCTCCACC
* ** * *
34188707 GCAACTTCA-GAGAGATAAGATTTGCCAACTTTAATGTGCCTCACT
1 GCAACTTCAGGAG-GATAAGACTTGCTTAC-TTAGTCTGCCTCACT
* * *
34188752 ACAACCTCAGGAGGATAAGACTTG-TTGATTTAGTCTGCCTCACT
1 GCAACTTCAGGAGGATAAGACTTGCTT-ACTTAGTCTGCCTCACT
* * *
34188796 GCAACTTCAGGAGGATAAGACTTACTTACCTAGTCT-ACTCCACT
1 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCCT-CACT
* * * *
34188840 GCAACTTCAGAGAGG-TAAGATCTGAGATT--TTAATCTGCTTCACT
1 GCAACTTCAG-GAGGATAAGA-CT-TGCTTACTTAGTCTGCCTCACT
* ** *
34188884 GCAACTTCAGG-GAGATAGGA-TTG-TCGGCTTTAATCTG-CTCCACT
1 GCAACTTCAGGAG-GATAAGACTTGCT-TAC-TTAGTCTGCCT-CACT
* * *
34188928 GCAACTTCAGG-GAGATAAGATTTGC-CATCTTCAGTCTGCCTCATT
1 GCAACTTCAGGAG-GATAAGACTTGCTTA-CTT-AGTCTGCCTCACT
34188973 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTG-CTCCACT
1 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCCT-CACT
* * * * * *
34189017 GCAACTTCA-GAGAGATAATACTAG-ATGC-GA-TCTG-CTCTCT
1 GCAACTTCAGGAG-GATAAGACTTGCTTACTTAGTCTGCCTCACT
* * * * *
34189057 GCAACTTCA-GAGAGATGAGATCTGAGATT--TTAATCCG-CTCACT
1 GCAACTTCAGGAG-GATAAGA-CT-TGCTTACTTAGTCTGCCTCACT
* * ** *
34189100 GCAGCTTCAGCGA-GATAGGA-TTG-TCGGCTTTAATCTG-CTCCACT
1 GCAACTTCAG-GAGGATAAGACTTGCT-TAC-TTAGTCTGCCT-CACT
* * *
34189144 GCAACTTCAAGGA-GATAAGATTTGC-CATCTTCAGTCTGCCTCGCT
1 GCAACTTC-AGGAGGATAAGACTTGCTTA-CTT-AGTCTGCCTCACT
* *
34189189 GCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGTCC-CACG
1 GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTG-CCTCACT
*
34189233 GCAACTTTAGG-GAGATAAGACT
1 GCAACTTCAGGAG-GATAAGACT
34189255 CGATTTGTTA
Statistics
Matches: 394, Mismatches: 63, Indels: 93
0.72 0.11 0.17
Matches are distributed among these distances:
39 1 0.00
40 23 0.06
41 10 0.03
42 6 0.02
43 44 0.11
44 195 0.49
45 103 0.26
46 12 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
GCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCCTCACT
Found at i:34188885 original size:88 final size:88
Alignment explanation
Indices: 34188780--34189034 Score: 302
Period size: 88 Copynumber: 2.9 Consensus size: 88
34188770 GACTTGTTGA
* *
34188780 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTACTTACCTAGTCTACTCCACTGCAAC
1 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTA-CTAGTCTGCTCCACTGCAAC
* *
34188845 TTCAGAGAGGTAAGATCTGAGAT-
65 TTCAGAGAGATAAGATCTGACATC
* * * * *
34188868 TTTAATCTGCTTCACTGCAACTTCAGG-GAGATAGGATTGTCGGCTT--TAATCTGCTCCACTGC
1 TTTAGTCTGCCTCACTGCAACTTCAGGAG-GATAAGACT-T--GCTTACTAGTCTGCTCCACTGC
* * *
34188930 AACTTCAGGGAGATAAGATTTGCCATC
62 AACTTCAGAGAGATAAGATCTGACATC
* *
34188957 TTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
1 TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTAC-TAGTCTGCTCCACTGCAAC
34189022 TTCAGAGAGATAA
65 TTCAGAGAGATAA
34189035 TACTAGATGC
Statistics
Matches: 138, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
86 4 0.03
87 1 0.01
88 68 0.49
89 61 0.44
90 1 0.01
91 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (88 bp):
TTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTAGTCTGCTCCACTGCAACT
TCAGAGAGATAAGATCTGACATC
Found at i:34188937 original size:132 final size:132
Alignment explanation
Indices: 34188665--34188947 Score: 301
Period size: 132 Copynumber: 2.1 Consensus size: 132
34188655 GCTCCACTAA
* * * *
34188665 AACTTCAGGGAGATAGGA-TTA-TTGGCTCTAATCTTCTCCACCGCAACTTCAGAGAGATAAGAT
1 AACTTCAGGGAGATAAGACTTACTT-AC-CTAGTCTACTCCACCGCAACTTCAGAGAGATAAGAT
* * * *
34188728 TTGCCAACTTTAATGTGCCTCACTACAACCTCAGGAGGATAAGACTTGTTGATTTAGTCTGCCTC
64 CTG-CAACTTTAATCTGCCTCACTACAACCTCAGGAGGATAAGACTTGTGGATTTAATCTGCCTC
34188793 ACTGC
128 ACTGC
* *
34188798 AACTTCA-GGAGGATAAGACTTACTTACCTAGTCTACTCCACTGCAACTTCAGAGAGGTAAGATC
1 AACTTCAGGGA-GATAAGACTTACTTACCTAGTCTACTCCACCGCAACTTCAGAGAGATAAGATC
* * * * * *
34188862 TG-AGATTTTAATCTGCTTCACTGCAACTTCAGG-GAGATAGGA-TTGTCGGCTTTAATCTG-CT
65 TGCA-ACTTTAATCTGCCTCACTACAACCTCAGGAG-GATAAGACTTGT-GGATTTAATCTGCCT
34188923 CCACTGC
127 -CACTGC
34188930 AACTTCAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
34188948 TTTGCCATCT
Statistics
Matches: 126, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
131 8 0.06
132 62 0.49
133 50 0.40
134 4 0.03
135 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (132 bp):
AACTTCAGGGAGATAAGACTTACTTACCTAGTCTACTCCACCGCAACTTCAGAGAGATAAGATCT
GCAACTTTAATCTGCCTCACTACAACCTCAGGAGGATAAGACTTGTGGATTTAATCTGCCTCACT
GC
Found at i:34189167 original size:216 final size:219
Alignment explanation
Indices: 34188646--34189254 Score: 802
Period size: 216 Copynumber: 2.8 Consensus size: 219
34188636 TTCTTCAAGG
** * * * * *
34188646 TTTTAATCCGCTCCACTAAAACTTCAGGGAGATAGGATTATTGGCTCTAATCTTCTCCACCGCAA
1 TTTTAATCCGCT-CACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAA
* * * * * *
34188711 CTTC-AGAGAGATAAGATTTGCCAACTTTAATGTGCCTCACTACAACCTCAGGAGGATAAGACTT
65 CTTCAAG-GAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTT
* *
34188775 G-TTGATTTAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTACTTACCTAGTCTACTCCA
129 GCTT-ATTTAGTCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTACATACCGAGTCTACTCCA
*
34188838 CTGCAACTTCAGAGAGGTAAGATCTGAGA
191 CTGCAACTTCAGAGAGATAAGATCTGAGA
*
34188867 TTTTAATCTGCTTCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAA
1 TTTTAATCCGC-TCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAA
* *
34188932 CTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCATTGCAACTTCAGGAGGATAAGACTTG
65 CTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG
* * * * * *
34188997 CTTACTTAGTCTGCTCCACTGCAACTTCAGAGAGATAATAC-TAGAT-GCGA-TCTGCT-CTCTG
130 CTTATTTAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTACATACCGAGTCTACTCCACTG
*
34189058 CAACTTCAGAGAGATGAGATCTGAGA
194 CAACTTCAGAGAGATAAGATCTGAGA
* *
34189084 TTTTAATCCGCTCACTGCAGCTTCAGCGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAAC
1 TTTTAATCCGCTCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAAC
*
34189149 TTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCGCTGCAACTTCAGGAGGATAAGACTTGC
66 TTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
* *
34189214 TTATTTAGTCTG-TCCCACGGCAACTTTAGGGAGATAAGACT
131 TTATTTAGTCTGCT-CCACTGCAACTTCA-GGAGATAAGACT
34189255 CGATTTGTTA
Statistics
Matches: 344, Mismatches: 36, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
215 1 0.00
216 146 0.42
217 39 0.11
218 5 0.01
219 2 0.01
220 3 0.01
221 141 0.41
222 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (219 bp):
TTTTAATCCGCTCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGCTCCACTGCAAC
TTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGC
TTATTTAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTACATACCGAGTCTACTCCACTGCA
ACTTCAGAGAGATAAGATCTGAGA
Found at i:34204226 original size:25 final size:26
Alignment explanation
Indices: 34204183--34204242 Score: 95
Period size: 25 Copynumber: 2.3 Consensus size: 26
34204173 TCAGGTAAGA
*
34204183 AAAGCCTTTGTGGTGTAATATGAAAG
1 AAAGCCTTTGTGGTCTAATATGAAAG
*
34204209 AAAGCTTTTGTGG-CTAATATGAAAG
1 AAAGCCTTTGTGGTCTAATATGAAAG
34204234 AAAGCCTTT
1 AAAGCCTTT
34204243 ATGGAGAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (26 bp):
AAAGCCTTTGTGGTCTAATATGAAAG
Found at i:34208288 original size:48 final size:48
Alignment explanation
Indices: 34208217--34208313 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
34208207 ATGGTGGAAA
*
34208217 ATGGTTTTGGCTTGAAAATTTGAGAGATATGATAGCTTGTCATCTTTT
1 ATGGTTTTGGCTTGAAAATTTGAGAAATATGATAGCTTGTCATCTTTT
34208265 ATGGTTTTGGCTTGAAAATTTGAGAAATATGATAGCTTGTCATCTTTT
1 ATGGTTTTGGCTTGAAAATTTGAGAAATATGATAGCTTGTCATCTTTT
34208313 A
1 A
34208314 ATTTCTTAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (48 bp):
ATGGTTTTGGCTTGAAAATTTGAGAAATATGATAGCTTGTCATCTTTT
Found at i:34226173 original size:29 final size:29
Alignment explanation
Indices: 34226143--34226200 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
34226133 CCTCAATTTT
*
34226143 AAAAAATTATAAAATATCATTTAATTATTA
1 AAAAAATTATAAAA-ATCATTAAATTATTA
**
34226173 AAAAAATTATTTAAATCATTAAATTATT
1 AAAAAATTATAAAAATCATTAAATTATT
34226201 TGATAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAAAATTATAAAAATCATTAAATTATTA
Found at i:34226177 original size:21 final size:21
Alignment explanation
Indices: 34226148--34226195 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
34226138 ATTTTAAAAA
* *
34226148 ATTATAAAATATCATTT-AATT
1 ATTA-AAAAAATCATTTAAATC
*
34226169 ATTAAAAAAATTATTTAAATC
1 ATTAAAAAAATCATTTAAATC
34226190 ATTAAA
1 ATTAAA
34226196 TTATTTGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTAAAAAAATCATTTAAATC
Found at i:34227287 original size:14 final size:14
Alignment explanation
Indices: 34227265--34227295 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34227255 TGAATATGTG
34227265 AAAAAAAATTAATT
1 AAAAAAAATTAATT
*
34227279 AAAATAAATTAATT
1 AAAAAAAATTAATT
34227293 AAA
1 AAA
34227296 TGTTTAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAAAATTAATT
Found at i:34227614 original size:23 final size:23
Alignment explanation
Indices: 34227588--34227654 Score: 89
Period size: 23 Copynumber: 2.7 Consensus size: 23
34227578 CCCGGGAAAT
34227588 TTTTTTATTTTTAATAATATATA
1 TTTTTTATTTTTAATAATATATA
34227611 TTTTTTATTTTTAATCAAATATATA
1 TTTTTTATTTTTAAT--AATATATA
34227636 TTTTTATATATATTTAATA
1 TTTTT-TAT-T-TTTAATA
34227655 TGGGTCGGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
23 15 0.38
25 13 0.33
26 4 0.10
27 1 0.03
28 6 0.15
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTTTATTTTTAATAATATATA
Found at i:34238209 original size:37 final size:37
Alignment explanation
Indices: 34238154--34238249 Score: 147
Period size: 37 Copynumber: 2.6 Consensus size: 37
34238144 TCAGTGTAAA
*
34238154 AGTAAGATTTGCTTGATTGAGCTTCATTCAATATAAC
1 AGTAAGATTTGCTCGATTGAGCTTCATTCAATATAAC
* *
34238191 AGTAAGATTTGCTCGATTGAGATTCATTCAGTATAAC
1 AGTAAGATTTGCTCGATTGAGCTTCATTCAATATAAC
* *
34238228 GGTAGGATTTGCTCGATTGAGC
1 AGTAAGATTTGCTCGATTGAGC
34238250 ATACTTTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (37 bp):
AGTAAGATTTGCTCGATTGAGCTTCATTCAATATAAC
Found at i:34242784 original size:18 final size:18
Alignment explanation
Indices: 34242761--34242795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34242751 AAGAAATAAG
34242761 CCTAAAAACTTAAAATAC
1 CCTAAAAACTTAAAATAC
**
34242779 CCTAAAATTTTAAAATA
1 CCTAAAAACTTAAAATA
34242796 AAATAAAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAAAAACTTAAAATAC
Found at i:34242880 original size:20 final size:20
Alignment explanation
Indices: 34242855--34242895 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34242845 TTGACCCATC
*
34242855 TTTTGCTT-CATCGTCCTTGT
1 TTTTGCTTGAATCG-CCTTGT
34242875 TTTTGCTTGAATCGCCTTGT
1 TTTTGCTTGAATCGCCTTGT
34242895 T
1 T
34242896 CCTTCCTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.07, C:0.22, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTTGCTTGAATCGCCTTGT
Found at i:34244153 original size:20 final size:20
Alignment explanation
Indices: 34244130--34244175 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
34244120 TAATTAGAAG
34244130 TAAAATAAATTAACGGTTCA
1 TAAAATAAATTAACGGTTCA
34244150 TAAAATAAATTAACGGTTCA
1 TAAAATAAATTAACGGTTCA
34244170 TAAAAT
1 TAAAAT
34244176 TGAAAAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (20 bp):
TAAAATAAATTAACGGTTCA
Found at i:34249049 original size:20 final size:19
Alignment explanation
Indices: 34249024--34249069 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
34249014 TTCATTCAAG
34249024 TTTCATATCTCAATTCATCA
1 TTTCATATCTCAATTC-TCA
*
34249044 TTTCATATCTCATTTCTCA
1 TTTCATATCTCAATTCTCA
*
34249063 TCTCATA
1 TTTCATA
34249070 ATCGTTTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTCATATCTCAATTCTCA
Found at i:34249134 original size:43 final size:43
Alignment explanation
Indices: 34249056--34249141 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
34249046 TCATATCTCA
* *
34249056 TTTCTCATCTCATAATCGTTTCTCATATTGTTCATTTTTATAT
1 TTTCTCATCTCATAATCATTTCTCATATTGTTCATTTCTATAT
* * *
34249099 TTTCTCATCTCATATTCATTTGTCATCTT-TGTCATTTCTATAT
1 TTTCTCATCTCATAATCATTTCTCATATTGT-TCATTTCTATAT
34249142 CAATCACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.03
43 36 0.97
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.56
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTGTTCATTTCTATAT
Found at i:34250270 original size:15 final size:15
Alignment explanation
Indices: 34250252--34250280 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34250242 TCTTCTTGTC
34250252 TTTCTTTCTTTTCTT
1 TTTCTTTCTTTTCTT
34250267 TTTCTTTCTTTTCT
1 TTTCTTTCTTTTCT
34250281 AAAGGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTTCTTTTCTT
Found at i:34252753 original size:20 final size:21
Alignment explanation
Indices: 34252728--34252767 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34252718 TACCAACTCA
34252728 AACCA-TTCA-ACCACTCACTT
1 AACCATTTCATACCA-TCACTT
34252748 AACCATTTCATACCATCACT
1 AACCATTTCATACCATCACT
34252768 AAGCATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCATTTCATACCATCACTT
Found at i:34254324 original size:40 final size:41
Alignment explanation
Indices: 34254280--34254389 Score: 120
Period size: 40 Copynumber: 2.7 Consensus size: 41
34254270 TTCAGTTCAG
* *
34254280 TTTCAATACAGTGGCATGTTTTACATGCCTACA-GTAACA-A
1 TTTCAATTCAATGGCATGTTTTACATGCCTA-AGGTAACATA
* *
34254320 TTTCAATTCAATGGCATGTATCT-CATGCTTAAGGTAACATA
1 TTTCAATTCAATGGCATGT-TTTACATGCCTAAGGTAACATA
* *
34254361 TTT-AATTCAATAGCATGTTTAACATGCCT
1 TTTCAATTCAATGGCATGTTTTACATGCCT
34254390 CCAATCTCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
39 2 0.03
40 50 0.86
41 6 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (41 bp):
TTTCAATTCAATGGCATGTTTTACATGCCTAAGGTAACATA
Found at i:34258270 original size:22 final size:23
Alignment explanation
Indices: 34258241--34258285 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
34258231 CCTTAATAAG
34258241 TTTTAAC-ATGAAAAA-AAGTCC
1 TTTTAACAATGAAAAATAAGTCC
34258262 TTTTCAACAAATGAAAAATAAGTC
1 TTTT-AAC-AATGAAAAATAAGTC
34258286 GGGGCCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 3 0.15
24 8 0.40
25 5 0.25
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (23 bp):
TTTTAACAATGAAAAATAAGTCC
Found at i:34259114 original size:13 final size:12
Alignment explanation
Indices: 34259085--34259123 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
34259075 GAGTGAAAAT
34259085 AAATTCTAAAT-A
1 AAATT-TAAATCA
34259097 AAATTTAAATTCA
1 AAATTTAAA-TCA
34259110 AAATTTAAATCA
1 AAATTTAAATCA
34259122 AA
1 AA
34259124 CAACAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 10 0.40
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATTTAAATCA
Found at i:34259669 original size:20 final size:21
Alignment explanation
Indices: 34259644--34259686 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34259634 AGCATTACAT
*
34259644 GTTAAGTCGAAA-TATAATGG
1 GTTAAGTCCAAATTATAATGG
*
34259664 GTTAAGTCCAAATTATCATGG
1 GTTAAGTCCAAATTATAATGG
34259685 GT
1 GT
34259687 AACAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GTTAAGTCCAAATTATAATGG
Found at i:34260672 original size:20 final size:20
Alignment explanation
Indices: 34260619--34260686 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
34260609 TATTGATTCC
* *
34260619 CTTACAAAATTGTCGAAATTT
1 CTTACAAAATT-ACTAAATTT
* *
34260640 CTTACGAAGTTACTAAATTT
1 CTTACAAAATTACTAAATTT
*
34260660 CTTATAAAATTACCT-AATTT
1 CTTACAAAATTA-CTAAATTT
*
34260680 ATTACAA
1 CTTACAA
34260687 TTTGTAAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
20 26 0.70
21 11 0.30
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (20 bp):
CTTACAAAATTACTAAATTT
Found at i:34260841 original size:20 final size:20
Alignment explanation
Indices: 34260798--34260841 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34260788 CTCTTTTATC
* *
34260798 ATTATTAAATCTCTTAGACT
1 ATTATTAAATCTCTTACACA
* *
34260818 ATTATTAGATTTCTTACACA
1 ATTATTAAATCTCTTACACA
34260838 ATTA
1 ATTA
34260842 CTAATGTGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTATTAAATCTCTTACACA
Found at i:34261017 original size:20 final size:20
Alignment explanation
Indices: 34260966--34261020 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
34260956 CTATTTTTTT
* *
34260966 TTACAAAATTACTAAATCTT
1 TTACAAAATTATTAAATCTC
* *
34260986 TTACAGAATTATTGAATCTC
1 TTACAAAATTATTAAATCTC
34261006 TTACAAAATTATTAA
1 TTACAAAATTATTAA
34261021 TGTTTATGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.40
Consensus pattern (20 bp):
TTACAAAATTATTAAATCTC
Found at i:34261137 original size:29 final size:29
Alignment explanation
Indices: 34261075--34261138 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
34261065 ATTTAATATA
**
34261075 TAATTTTATACATGAACTTTGATTTTGTG
1 TAATTTTATACATGAACTTTGATTTACTG
* *
34261104 AAATTTTATACATGAAATTTTGATTTACT-
1 TAATTTTATACATG-AACTTTGATTTACTG
34261133 TAATTT
1 TAATTT
34261139 CTCACAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.33, C:0.06, G:0.09, T:0.52
Consensus pattern (29 bp):
TAATTTTATACATGAACTTTGATTTACTG
Found at i:34263849 original size:51 final size:51
Alignment explanation
Indices: 34263773--34263873 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 51
34263763 TAATGAGATA
*
34263773 CTTTAATGGAAACATGAAGAAATTTCTTCACGCATTCCATGCTCCCAATGC
1 CTTTAATGGAAACATGAAGAAATTTCTTCACGCATTACATGCTCCCAATGC
34263824 CTTTAATGGAAACATGAAGAAATTTCTTCACGCATTACATGCTCCCAATG
1 CTTTAATGGAAACATGAAGAAATTTCTTCACGCATTACATGCTCCCAATG
34263874 TCACCACCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (51 bp):
CTTTAATGGAAACATGAAGAAATTTCTTCACGCATTACATGCTCCCAATGC
Found at i:34264571 original size:49 final size:50
Alignment explanation
Indices: 34264502--34264601 Score: 157
Period size: 49 Copynumber: 2.0 Consensus size: 50
34264492 AAAAAACAAA
* ** *
34264502 TTAAATTTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATAAAAT
1 TTAAATTTAAGTTCAATATCATGAATCAAAACCTCAACACTTTATAAAAT
34264552 TTAAA-TTAAGTTCAATATCATGAATCAAAACCTCAACACTTTATAAAAT
1 TTAAATTTAAGTTCAATATCATGAATCAAAACCTCAACACTTTATAAAAT
34264601 T
1 T
34264602 ATAACACATG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 41 0.89
50 5 0.11
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (50 bp):
TTAAATTTAAGTTCAATATCATGAATCAAAACCTCAACACTTTATAAAAT
Found at i:34266678 original size:19 final size:19
Alignment explanation
Indices: 34266597--34266696 Score: 107
Period size: 19 Copynumber: 5.1 Consensus size: 19
34266587 TTACTTTCTT
34266597 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
*
34266616 TTTTTGTAATGTTAATTATAA
1 -TTTT-TAGTGTTAATTATAA
*
34266637 TTGTTGTAGCAT-TTGA-T-TAA
1 TT-TT-TAG--TGTTAATTATAA
34266657 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
34266676 TTTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAA
34266695 TT
1 TT
34266697 ATAATGTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
16 1 0.01
17 3 0.04
18 4 0.06
19 26 0.38
20 11 0.16
21 20 0.29
22 3 0.04
23 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (19 bp):
TTTTTAGTGTTAATTATAA
Found at i:34267339 original size:9 final size:9
Alignment explanation
Indices: 34267325--34267353 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
34267315 TTGAAATCAC
34267325 AAATACTGT
1 AAATACTGT
34267334 AAATACTGT
1 AAATACTGT
34267343 AAATACTGT
1 AAATACTGT
34267352 AA
1 AA
34267354 TTATAACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (9 bp):
AAATACTGT
Found at i:34273348 original size:18 final size:19
Alignment explanation
Indices: 34273325--34273370 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
34273315 TTTTGTTTGT
34273325 AAATAATTAAATTA-ATAA
1 AAATAATTAAATTATATAA
*
34273343 AAATAAGT-AATTATATAA
1 AAATAATTAAATTATATAA
*
34273361 AAAAAATTAA
1 AAATAATTAA
34273371 GATCTAGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.22
18 17 0.74
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAATTAAATTATATAA
Found at i:34273685 original size:69 final size:69
Alignment explanation
Indices: 34273599--34273789 Score: 373
Period size: 69 Copynumber: 2.8 Consensus size: 69
34273589 AGAGTATTTT
*
34273599 GCACTTCTATAAATTATTCCCAACATATTATATAATATTATATCAAAGGGCAATCTGACACTCTG
1 GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAATCTGACACTCTG
34273664 ATCA
66 ATCA
34273668 GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAATCTGACACTCTG
1 GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAATCTGACACTCTG
34273733 ATCA
66 ATCA
34273737 GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAA
1 GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAA
34273790 ATTGATACTT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 121 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (69 bp):
GCACTTCTATAATTTATTCCCAACATATTATATAATATTATATCAAAGGGCAATCTGACACTCTG
ATCA
Found at i:34277234 original size:229 final size:228
Alignment explanation
Indices: 34276834--34277283 Score: 846
Period size: 229 Copynumber: 2.0 Consensus size: 228
34276824 AATTTCTTAA
*
34276834 ATAAAATGTGAATAAAAGGGAATATATAGAAATAAAATAGTAGTTACTACAAAGCAATAGAAGAA
1 ATAAAATGTGAATAAAAGGGAATATATAGAAAAAAAATAGTAGTTACTACAAAGCAATAGAAGAA
34276899 AATTTCCGTTTGTGATAAACTTTCAGGGAAATTTTCAAGACAACCTCGCATCCTCGCATGTCACC
66 AATTTCCGTTTGTGATAAACTTTCAGGGAAATTTTCAAGACAACCTCGCATCCTCGCATGTCACC
*
34276964 AGTTTGCTGGTTTTTCAATGATTTAGTTTTTCACCAATGGCATTCAAATCTGAGCATCTTAAACA
131 AGTTTGCTGGTTTTTCAATAATTTAGTTTTTCACCAATGGCATTCAAATCTGAGCATCTTAAACA
34277029 AAAGCTACAATATCTCAATTTGAGATTCAAATG
196 AAAGCTACAATATCTCAATTTGAGATTCAAATG
34277062 ATAAAATGTGAATAAAAGGGAATATATAGAAACAAAAATAGTAGTTACTACAAAGCAATAGAAGA
1 ATAAAATGTGAATAAAAGGGAATATATAGAAA-AAAAATAGTAGTTACTACAAAGCAATAGAAGA
* *
34277127 AAATTTCCGTTTGTGATAAACTTTCAGGGACATTTTCAAGACAACCTTGCATCCTCGCATGTCAC
65 AAATTTCCGTTTGTGATAAACTTTCAGGGAAATTTTCAAGACAACCTCGCATCCTCGCATGTCAC
*
34277192 CAGTTTGCTGGTTTTTCAATAATTTAGTTTTTCACCAATGGCATTCAACTCTGAGCATCTTAAAC
130 CAGTTTGCTGGTTTTTCAATAATTTAGTTTTTCACCAATGGCATTCAAATCTGAGCATCTTAAAC
34277257 AAAAGCTACAATATCTCAATTTGAGAT
195 AAAAGCTACAATATCTCAATTTGAGAT
34277284 GCTTGTGTTT
Statistics
Matches: 216, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
228 32 0.15
229 184 0.85
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (228 bp):
ATAAAATGTGAATAAAAGGGAATATATAGAAAAAAAATAGTAGTTACTACAAAGCAATAGAAGAA
AATTTCCGTTTGTGATAAACTTTCAGGGAAATTTTCAAGACAACCTCGCATCCTCGCATGTCACC
AGTTTGCTGGTTTTTCAATAATTTAGTTTTTCACCAATGGCATTCAAATCTGAGCATCTTAAACA
AAAGCTACAATATCTCAATTTGAGATTCAAATG
Found at i:34279128 original size:8 final size:8
Alignment explanation
Indices: 34279110--34279177 Score: 64
Period size: 8 Copynumber: 7.8 Consensus size: 8
34279100 AATTTTACAA
34279110 TTTTATAT
1 TTTTATAT
*
34279118 TTTATATTT
1 TTT-TATAT
34279127 TTTTATAT
1 TTTTATAT
*
34279135 TTTTACGATT
1 TTTTA-TA-T
34279145 TTTATATAAT
1 TTT-TAT-AT
34279155 TTTTAATAT
1 TTTT-ATAT
34279164 TTTTATAT
1 TTTTATAT
34279172 TTTTAT
1 TTTTAT
34279178 TAAAATTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
8 22 0.44
9 15 0.30
10 10 0.20
11 3 0.06
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (8 bp):
TTTTATAT
Found at i:34279132 original size:17 final size:16
Alignment explanation
Indices: 34279110--34279178 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 16
34279100 AATTTTACAA
34279110 TTTTATATTTTATATTT
1 TTTTATATTTT-TATTT
34279127 TTTTATATTTTTACGATTT
1 TTTTATATTTTT---ATTT
* *
34279146 TTATATAATTTTTAATAT
1 TTTTAT-ATTTTT-ATTT
34279164 TTTTATATTTTTATT
1 TTTTATATTTTTATT
34279179 AAAATTTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 3 0.07
17 17 0.40
18 8 0.19
19 9 0.21
20 6 0.14
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (16 bp):
TTTTATATTTTTATTT
Found at i:34279137 original size:9 final size:9
Alignment explanation
Indices: 34279110--34279175 Score: 57
Period size: 9 Copynumber: 7.3 Consensus size: 9
34279100 AATTTTACAA
34279110 TTTTATATT
1 TTTTATATT
*
34279119 TTATAT-TT
1 TTTTATATT
34279127 TTTTATA-T
1 TTTTATATT
*
34279135 TTTTACGATT
1 TTTTA-TATT
*
34279145 TTTATATAAT
1 TTT-TATATT
34279155 TTTTA-ATAT
1 TTTTATAT-T
34279164 TTTTATATT
1 TTTTATATT
34279173 TTT
1 TTT
34279176 ATTAAAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
8 14 0.31
9 18 0.40
10 11 0.24
11 2 0.04
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TTTTATATT
Found at i:34279156 original size:20 final size:19
Alignment explanation
Indices: 34279123--34279214 Score: 73
Period size: 19 Copynumber: 4.8 Consensus size: 19
34279113 TATATTTTAT
* *
34279123 ATTTTTTTATATTTTTACG
1 ATTTTTATATATTTTTAAG
*
34279142 ATTTTTATATAATTTTTAAT
1 ATTTTTATAT-ATTTTTAAG
*
34279162 ATTTTTATATTTTTATTAA-
1 ATTTTTATATATTT-TTAAG
* *
34279181 AATTTAATA-ATTTTTATA-
1 ATTTTTATATATTTTTA-AG
*
34279199 ATTTTTATTTATTTTT
1 ATTTTTATATATTTTT
34279215 CTTTTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.05
18 10 0.17
19 25 0.42
20 21 0.36
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (19 bp):
ATTTTTATATATTTTTAAG
Found at i:34279163 original size:29 final size:27
Alignment explanation
Indices: 34279142--34279230 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 27
34279132 TATTTTTACG
*
34279142 ATTTTTATATAATTTTTAATATTTTTAT
1 ATTTTTAT-TAATTTTTAATATTTTTAA
**
34279170 ATTTTTATTAAAATTTAATAATTTTTATA
1 ATTTTTATTAATTTTTAAT-ATTTTTA-A
* *
34279199 ATTTTTATTTATTTTT-CT-TTTTTATA
1 ATTTTTATTAATTTTTAATATTTTTA-A
34279225 ATTTTT
1 ATTTTT
34279231 GCCACATATT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 14 0.27
27 9 0.17
28 16 0.31
29 13 0.25
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (27 bp):
ATTTTTATTAATTTTTAATATTTTTAA
Found at i:34279201 original size:9 final size:9
Alignment explanation
Indices: 34279117--34279230 Score: 67
Period size: 9 Copynumber: 12.4 Consensus size: 9
34279107 CAATTTTATA
34279117 TTTTAT-AT
1 TTTTATAAT
*
34279125 TTTTTTATAT
1 TTTTATA-AT
* *
34279135 TTTTACGATT
1 TTTTA-TAAT
34279145 TTTATATAAT
1 TTT-TATAAT
34279155 TTTTA-ATAT
1 TTTTATA-AT
34279164 TTTTAT-AT
1 TTTTATAAT
*
34279172 TTTTATTAAAA
1 TTTTA-T-AAT
*
34279183 TTTAATAAT
1 TTTTATAAT
34279192 TTTTATAAT
1 TTTTATAAT
*
34279201 TTTTATTTAT
1 TTTTA-TAAT
*
34279211 TTTTCT--T
1 TTTTATAAT
34279218 TTTTATAAT
1 TTTTATAAT
34279227 TTTT
1 TTTT
34279231 GCCACATATT
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
7 6 0.07
8 13 0.16
9 31 0.38
10 23 0.28
11 8 0.10
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:34281270 original size:35 final size:33
Alignment explanation
Indices: 34281206--34281275 Score: 79
Period size: 35 Copynumber: 2.1 Consensus size: 33
34281196 AATGATTGAT
* *
34281206 AAAAGAAAAAAGGAAAAAGAAGTATGAAAACAA
1 AAAAGAAAAAAGAAAAAAGAAGTACGAAAACAA
*
34281239 AAAAGAAAAGAAAGAAAAAAGAA-TAACGAAAAGAA
1 AAAAG-AAA-AAAGAAAAAAGAAGT-ACGAAAACAA
34281274 AA
1 AA
34281276 GGAACTAGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 5 0.16
34 4 0.13
35 22 0.71
ACGTcount: A:0.76, C:0.03, G:0.17, T:0.04
Consensus pattern (33 bp):
AAAAGAAAAAAGAAAAAAGAAGTACGAAAACAA
Found at i:34281273 original size:19 final size:18
Alignment explanation
Indices: 34281213--34281275 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
34281203 GATAAAAGAA
* *
34281213 AAAAGGAAAAAGAAGTATG
1 AAAAGAAAAAAGAA-TAAG
*
34281232 AAAACAAAAAAGAA-AAG
1 AAAAGAAAAAAGAATAAG
34281249 -AAAGAAAAAAGAATAACG
1 AAAAGAAAAAAGAATAA-G
34281267 AAAAGAAAA
1 AAAAGAAAA
34281276 GGAACTAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
16 12 0.32
17 4 0.11
18 1 0.03
19 20 0.54
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAAGAATAAG
Found at i:34283110 original size:36 final size:36
Alignment explanation
Indices: 34283070--34283140 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
34283060 CATCAAGGCT
*
34283070 ACAATCAAAAGTTGTATACAATTAGAACTCTAAGAC
1 ACAATCAAAAGCTGTATACAATTAGAACTCTAAGAC
* *
34283106 ACAATTAGAAGCTGTATACAATTAGAACTCTAAGA
1 ACAATCAAAAGCTGTATACAATTAGAACTCTAAGA
34283141 TTACATAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (36 bp):
ACAATCAAAAGCTGTATACAATTAGAACTCTAAGAC
Found at i:34283111 original size:19 final size:19
Alignment explanation
Indices: 34283087--34283140 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
34283077 AAAGTTGTAT
34283087 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
34283106 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
34283123 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
34283141 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:34288155 original size:19 final size:19
Alignment explanation
Indices: 34288131--34288182 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
34288121 AGCTGTATAT
34288131 AATTAGAACTCTAAGACAC
1 AATTAGAACTCTAAGACAC
* *
34288150 AATTAGAAGCTGT-ATACAC
1 AATTAGAA-CTCTAAGACAC
34288169 --TTAGAACTCTAAGA
1 AATTAGAACTCTAAGA
34288183 TTACATAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 3 0.11
17 8 0.30
19 13 0.48
20 3 0.11
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (19 bp):
AATTAGAACTCTAAGACAC
Found at i:34295278 original size:12 final size:13
Alignment explanation
Indices: 34295254--34295282 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34295244 TGGCTATAAC
34295254 TATTGCATTTATT
1 TATTGCATTTATT
34295267 TATTGC-TTTATT
1 TATTGCATTTATT
34295279 TATT
1 TATT
34295283 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:34297583 original size:30 final size:30
Alignment explanation
Indices: 34297547--34297607 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
34297537 CTCATACGCC
34297547 ATAAGTCTAAGTCCCTTGAAAAGTTCAAGG
1 ATAAGTCTAAGTCCCTTGAAAAGTTCAAGG
*
34297577 ATAAGTCTGAGTCCCTTGAAAAGTTCAAGG
1 ATAAGTCTAAGTCCCTTGAAAAGTTCAAGG
34297607 A
1 A
34297608 ATTCAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (30 bp):
ATAAGTCTAAGTCCCTTGAAAAGTTCAAGG
Found at i:34302177 original size:24 final size:24
Alignment explanation
Indices: 34302150--34302208 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
34302140 TACAAATAAT
34302150 TATATTAATAATGTTATTAAATTA
1 TATATTAATAATGTTATTAAATTA
* * * *
34302174 TATATTATTATTTTTATTAACTTA
1 TATATTAATAATGTTATTAAATTA
*
34302198 TAT-TTAGTAAT
1 TATATTAATAAT
34302209 AAGTATACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (24 bp):
TATATTAATAATGTTATTAAATTA
Found at i:34302262 original size:20 final size:21
Alignment explanation
Indices: 34302226--34302273 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
34302216 CTAAAATATG
* *
34302226 ATTAAATTATTTATTTATTTTT
1 ATTAAATTA-TTATTTAATTAT
34302248 ATTAAATTA-TATTTAATTAT
1 ATTAAATTATTATTTAATTAT
34302268 ATTAAA
1 ATTAAA
34302274 ATTTAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 15 0.62
22 9 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTAAATTATTATTTAATTAT
Found at i:34302459 original size:16 final size:16
Alignment explanation
Indices: 34302438--34302488 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
34302428 TGAATTACTG
*
34302438 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
*
34302454 ATTACAACTCTATTCA
1 ATTACAACTCTATTCC
34302470 ATTACAAC-CTTATTCC
1 ATTACAACTC-TATTCC
34302486 ATT
1 ATT
34302489 CCAATGAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 1 0.03
16 30 0.97
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:34302770 original size:19 final size:17
Alignment explanation
Indices: 34302746--34302787 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
34302736 ATTAAGATAA
34302746 ATATTTTTAAATATAATAT
1 ATATTTTT-AATAT-ATAT
34302765 ATATTTTTAATATATAT
1 ATATTTTTAATATATAT
34302782 AT-TTTT
1 ATATTTT
34302788 GTGAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 6 0.26
18 5 0.22
19 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTTTAATATATAT
Found at i:34303628 original size:22 final size:22
Alignment explanation
Indices: 34303600--34303642 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34303590 TTGGTCTATT
*
34303600 AATAAAATGTACATGTAATATC
1 AATAAAAGGTACATGTAATATC
34303622 AATAAAAGGTACATGTAATAT
1 AATAAAAGGTACATGTAATAT
34303643 TTAAAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (22 bp):
AATAAAAGGTACATGTAATATC
Found at i:34303743 original size:17 final size:18
Alignment explanation
Indices: 34303709--34303748 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
34303699 TCTAATATTT
34303709 TAATAAAAATAAATAAAA
1 TAATAAAAATAAATAAAA
* *
34303727 TAATAAAATTTAA-AAAA
1 TAATAAAAATAAATAAAA
34303744 TAATA
1 TAATA
34303749 TTTTAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAATAAAAATAAATAAAA
Found at i:34305514 original size:22 final size:23
Alignment explanation
Indices: 34305488--34305547 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
34305478 ATATATATAT
34305488 TTTAT-AAAAACAGTAATACTAC
1 TTTATAAAAAACAGTAATACTAC
* * *
34305510 TTTATAAAAAATAGTAATATTTC
1 TTTATAAAAAACAGTAATACTAC
34305533 TTTATCAAACAAACA
1 TTTAT-AAA-AAACA
34305548 AATAGCCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 5 0.16
23 19 0.61
24 3 0.10
25 4 0.13
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (23 bp):
TTTATAAAAAACAGTAATACTAC
Found at i:34313842 original size:48 final size:48
Alignment explanation
Indices: 34313790--34313883 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
34313780 TATATCAAAA
*
34313790 AAATAAA-AAGAGAAAAAAATAAAAATAAAAATGTAAACAGCATAAATC
1 AAATAAATAA-AGAAAAAAATAAAAATAAAAATGTAAACAACATAAATC
* *
34313838 AAATAAATAAAGATAAAAATAAAAATAAAATTGTAAACAACATAAA
1 AAATAAATAAAGAAAAAAATAAAAATAAAAATGTAAACAACATAAA
34313884 AAACCAAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 40 0.95
49 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.17
Consensus pattern (48 bp):
AAATAAATAAAGAAAAAAATAAAAATAAAAATGTAAACAACATAAATC
Found at i:34314953 original size:15 final size:15
Alignment explanation
Indices: 34314912--34314970 Score: 68
Period size: 15 Copynumber: 4.1 Consensus size: 15
34314902 AATTTCTGGT
*
34314912 TTAGGCTAGTTGGGC
1 TTAGGCTAATTGGGC
*
34314927 -TAGGGT-ATTGGGC
1 TTAGGCTAATTGGGC
*
34314940 TTAGGCTAATTGGGT
1 TTAGGCTAATTGGGC
*
34314955 TTAGGCTAGTTGGGC
1 TTAGGCTAATTGGGC
34314970 T
1 T
34314971 AATGTAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 6 0.17
14 10 0.28
15 20 0.56
ACGTcount: A:0.15, C:0.10, G:0.39, T:0.36
Consensus pattern (15 bp):
TTAGGCTAATTGGGC
Found at i:34315393 original size:50 final size:50
Alignment explanation
Indices: 34315334--34315709 Score: 310
Period size: 50 Copynumber: 7.5 Consensus size: 50
34315324 TTTGGAAAGT
* * *
34315334 AAGATTTGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * ** ** * * *
34315384 AAGATTTGCCATTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGT
1 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* *
34315434 AAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * ** * * *
34315484 GAGATTCGCCGTTGTGGTTTTAATCTGTTCCACTGC-ATCGCCAGGGAAGT
1 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAAT-GTCGGGGAAGC
*
34315534 AAGATTCGACGA-TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCG-CCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * ** * * *
34315584 AAGATTCACCGA-TATGGCTTTAATCTGTTCCACTGC-ATCGCCAGGGAAGT
1 AAGATTCGCC-ATTGTGGCTTTAATCTTTTTAACTGCAAT-GTCGGGGAAGC
* * ** * * *
34315634 AACACTCGCCGCTGTGGCTTTAGTCTTCTTAACTGCAATGTTGGGGAAGC
1 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * *
34315684 AAGATACGCCGTCGTGGCTTTAATCT
1 AAGATTCGCCATTGTGGCTTTAATCT
34315710 ATTCTATTGC
Statistics
Matches: 248, Mismatches: 71, Indels: 14
0.74 0.21 0.04
Matches are distributed among these distances:
49 5 0.02
50 238 0.96
51 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:34315506 original size:100 final size:100
Alignment explanation
Indices: 34315330--34315709 Score: 528
Period size: 100 Copynumber: 3.8 Consensus size: 100
34315320 AACTTTTGGA
* * * *
34315330 AAGTAAGATTTGCCATTGTAGCTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTTGCCA
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
* *
34315395 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGG
66 TTGTGGCTTTAATCTGTTCCACTGCATCGCCAGGG
* *
34315430 AAGTAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCGCCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
34315495 TTGTGGTTTTAATCTGTTCCACTGCATCGCCAGGG
66 TTGTGGCTTTAATCTGTTCCACTGCATCGCCAGGG
* * *
34315530 AAGTAAGATTCGACGA-TGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACC
1 AAGTAAGATTCG-CCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCC
* *
34315594 GATATGGCTTTAATCTGTTCCACTGCATCGCCAGGG
65 GTTGTGGCTTTAATCTGTTCCACTGCATCGCCAGGG
* * ** * * * * *
34315630 AAGTAACACTCGCCGCTGTGGCTTTAGTCTTCTTAACTGCAATGTTGGGGAAGCAAGATACGCCG
1 AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
*
34315695 TCGTGGCTTTAATCT
66 TTGTGGCTTTAATCT
34315710 ATTCTATTGC
Statistics
Matches: 250, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 247 0.99
101 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCCATTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCCG
TTGTGGCTTTAATCTGTTCCACTGCATCGCCAGGG
Found at i:34315844 original size:87 final size:87
Alignment explanation
Indices: 34315728--34316312 Score: 906
Period size: 87 Copynumber: 6.7 Consensus size: 87
34315718 GCACTACTTG
* * * *
34315728 GGAGGCAAGGC-TGGTATCTTCGATTTGCTTCGCTGTCAGTGCTGGAAGGCAAGATCTGCTATCT
1 GGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCT
* *
34315792 TTAACCTGCTCTACTGCAACCGAT
64 TTAACCAGCTCCACTGCAACCGAT
* * * *
34315816 GGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATCAATGTAGGAAGGCAAGATCTGCCATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
* *
34315881 GACCAGCTCCACTACAACCGAT
66 AACCAGCTCCACTGCAACCGAT
*
34315903 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
*
34315968 AACCAGCTCCACTGCAACTGAT
66 AACCAGCTCCACTGCAACCGAT
* * * * *
34315990 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTCAATGCAAGAAGACAATATCTGCCATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
*
34316055 AACCAGCTCTACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
*
34316077 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
34316142 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
*
34316164 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTATCTTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
34316229 AACCAGCTCCACTGCAACCGAT
66 AACCAGCTCCACTGCAACCGAT
* * *
34316251 GGAGGTAAGGC-TT-TTTTCGATCTACTTCGCTGTCAATGCAAGAAGGCAAGATCTGCTATCTT
1 GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTT
34316313 CACTGATCTG
Statistics
Matches: 457, Mismatches: 39, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
85 46 0.10
86 2 0.00
87 395 0.86
88 11 0.02
89 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (87 bp):
GGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTT
AACCAGCTCCACTGCAACCGAT
Found at i:34316215 original size:43 final size:43
Alignment explanation
Indices: 34316079--34316215 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
34316069 CAACCGATGG
34316079 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
* * ** * * * * * *
34316122 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAA-CCGATGG-
1 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCGCTGTTAATGC-A-GGA
34316166 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
34316209 AGGCAAG
1 AGGCAAG
34316216 ATCTGCTATC
Statistics
Matches: 65, Mismatches: 20, Indels: 18
0.63 0.19 0.17
Matches are distributed among these distances:
42 17 0.26
43 19 0.29
44 12 0.18
45 17 0.26
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGA
Found at i:34317546 original size:7 final size:7
Alignment explanation
Indices: 34317527--34317569 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
34317517 TTAGCCTCTC
34317527 CATTTTT
1 CATTTTT
*
34317534 -ACTTTT
1 CATTTTT
34317540 CATTTTT
1 CATTTTT
34317547 CATTTTT
1 CATTTTT
*
34317554 CA-TTGT
1 CATTTTT
34317560 CATTTTT
1 CATTTTT
34317567 CAT
1 CAT
34317570 CCCTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 10 0.33
7 20 0.67
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.65
Consensus pattern (7 bp):
CATTTTT
Found at i:34317562 original size:13 final size:13
Alignment explanation
Indices: 34317536--34317569 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34317526 CCATTTTTAC
*
34317536 TTTTCATTTTTCAT
1 TTTTCA-TTGTCAT
34317550 TTTTCATTGTCAT
1 TTTTCATTGTCAT
34317563 TTTTCAT
1 TTTTCAT
34317570 CCCTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTCATTGTCAT
Found at i:34318515 original size:53 final size:55
Alignment explanation
Indices: 34318452--34318571 Score: 147
Period size: 53 Copynumber: 2.2 Consensus size: 55
34318442 TTTTGTCATT
* *
34318452 TTTTATTTTGATCTAGATTTTTCTTTTTTCATTCTTC-T-TTC-TTTTTCTCTCA
1 TTTTATTTTGATCTAGATTTTTCATTTTTCATTCTTCTTCTTCTTTTTTCTATCA
* * * * *
34318504 TTTTCATTTTGACCTTGATTTTTGATTTTTCTTTTTTCTTCTTCTTTTTTCTATCA
1 TTTT-ATTTTGATCTAGATTTTTCATTTTTCATTCTTCTTCTTCTTTTTTCTATCA
34318560 TTTTATTTTGAT
1 TTTTATTTTGAT
34318572 TTTTGATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.07
53 27 0.48
54 1 0.02
55 10 0.18
56 14 0.25
ACGTcount: A:0.12, C:0.15, G:0.05, T:0.68
Consensus pattern (55 bp):
TTTTATTTTGATCTAGATTTTTCATTTTTCATTCTTCTTCTTCTTTTTTCTATCA
Found at i:34322439 original size:21 final size:20
Alignment explanation
Indices: 34322415--34322460 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
34322405 TGAAATGCAA
34322415 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
34322436 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
34322456 T-AACC
1 TCAACC
34322461 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:34325450 original size:239 final size:239
Alignment explanation
Indices: 34325031--34325492 Score: 701
Period size: 239 Copynumber: 1.9 Consensus size: 239
34325021 CGAGCTTTCA
* * *
34325031 CCTATCTTCAACCGCCCCATCAAAGTATATCCCTCATTTCTCCGCATCATATTCATACAAGCATT
1 CCTATCTTCAACCACCCCATCAAAGTATATCCCTCATTTCTCCGCATCATATACATAAAAGCATT
* *
34325096 TCAATCAATTTATTGTATTTATTTCTATAGCATACAATACACCACCCATTAACACTTCAAATTAT
66 TCAAGCAATATATTGTATTTATTTCTATAGCATACAATACACCACCCATTAACACTTCAAATTAT
* *
34325161 AACTAAATAAACATCCAACATATATGCATGCAAGCATACCCAGTCACCAGGTTCATACACAACTA
131 AACTAAATAAACATCCAACATACATACATGCAAGCATACCCAGTCACCAGGTTCATACACAACTA
*
34325226 TGGGTTCATACAACACGAAATAGACACAGACTCATCAAAGTGTT
196 CGGGTTCATACAACACGAAATAGACACAGACTCATCAAAGTGTT
* * * * *
34325270 CCTATCTTTAACTACCCCATCAAAGTATATTCCTCCTTTCTCCTCATCATATACATAAAAGCATT
1 CCTATCTTCAACCACCCCATCAAAGTATATCCCTCATTTCTCCGCATCATATACATAAAAGCATT
* * * *
34325335 TCACGCAATATATTGTATTTATTTCTATAGCATACAGTACGCCACCCATTAACACTTCAATTTAT
66 TCAAGCAATATATTGTATTTATTTCTATAGCATACAATACACCACCCATTAACACTTCAAATTAT
* ** *
34325400 AACTAAATAAACATTCGAA-ATACATACATGCAAGCATACTTAGTCACCAGGTTTATACACAACT
131 AACTAAATAAACA-TCCAACATACATACATGCAAGCATACCCAGTCACCAGGTTCATACACAACT
* *
34325464 ACGGGTTCATACAACATGGAATAGACACA
195 ACGGGTTCATACAACACGAAATAGACACA
34325493 AGCTCATATC
Statistics
Matches: 199, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
239 195 0.98
240 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.29
Consensus pattern (239 bp):
CCTATCTTCAACCACCCCATCAAAGTATATCCCTCATTTCTCCGCATCATATACATAAAAGCATT
TCAAGCAATATATTGTATTTATTTCTATAGCATACAATACACCACCCATTAACACTTCAAATTAT
AACTAAATAAACATCCAACATACATACATGCAAGCATACCCAGTCACCAGGTTCATACACAACTA
CGGGTTCATACAACACGAAATAGACACAGACTCATCAAAGTGTT
Found at i:34326550 original size:15 final size:15
Alignment explanation
Indices: 34326526--34326555 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34326516 AATGAATTGC
34326526 ATGGACAAAATGAAA
1 ATGGACAAAATGAAA
*
34326541 ATGGAGAAAATGAAA
1 ATGGACAAAATGAAA
34326556 TCATTTGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.23, T:0.13
Consensus pattern (15 bp):
ATGGACAAAATGAAA
Found at i:34326618 original size:7 final size:6
Alignment explanation
Indices: 34326583--34326621 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
34326573 TGGTTTTCTA
* *
34326583 AAAATG GAAATG AAAATG GAAATG AAAATG ATAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
34326622 CATGGATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (6 bp):
AAAATG
Done.