Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 41 of 185
Found at i:12015382 original size:43 final size:42
Alignment explanation
Indices: 12015315--12015512 Score: 197
Period size: 43 Copynumber: 4.7 Consensus size: 42
12015305 ATATTCAGTG
*
12015315 ATACGGGGAATCAGCACTTAGCAACCCCATTCACAATTAAAA
1 ATACGGGGAATCAGCACGTAGCAACCCCATTCACAATTAAAA
* * * **
12015357 ATACGGTGGATTCAGCACGTAGCAACCACC-TTTA-TATTCAACG
1 ATACGG-GGAATCAGCACGTAGCAACC-CCATTCACAATT-AAAA
*
12015400 ATACGGGGAATCAGCACTTAGCAACCCCATTCACAATTAAAA
1 ATACGGGGAATCAGCACGTAGCAACCCCATTCACAATTAAAA
* * * **
12015442 ATACGGTGGATTCAGCACGTAGCAACCACC-TTTA-TATTCAACG
1 ATACGG-GGAATCAGCACGTAGCAACC-CCATTCACAATT-AAAA
*
12015485 ATACGGGGAATCAGCACTTAGCAACCCC
1 ATACGGGGAATCAGCACGTAGCAACCCC
12015513 TCAGGGAATC
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
41 4 0.03
42 59 0.46
43 61 0.48
44 4 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (42 bp):
ATACGGGGAATCAGCACGTAGCAACCCCATTCACAATTAAAA
Found at i:12015519 original size:26 final size:26
Alignment explanation
Indices: 12015490--12015565 Score: 152
Period size: 26 Copynumber: 2.9 Consensus size: 26
12015480 CAACGATACG
12015490 GGGAATCAGCACTTAGCAACCCCTCA
1 GGGAATCAGCACTTAGCAACCCCTCA
12015516 GGGAATCAGCACTTAGCAACCCCTCA
1 GGGAATCAGCACTTAGCAACCCCTCA
12015542 GGGAATCAGCACTTAGCAACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
12015566 TTTTATTGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.30, C:0.34, G:0.20, T:0.16
Consensus pattern (26 bp):
GGGAATCAGCACTTAGCAACCCCTCA
Found at i:12020445 original size:48 final size:47
Alignment explanation
Indices: 12020377--12020467 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 47
12020367 ATAACACTGT
**
12020377 TTGTGGACAAGCCATGACATAAATG-TCGATTAACGACCACATAACTCA
1 TTGTGGACAAGCCACCACATAAATGCT-GA-TAACGACCACATAACTCA
*
12020425 TTGTGGACAAGCCACCACATAATTGCTGATAACGACCACATAA
1 TTGTGGACAAGCCACCACATAAATGCTGATAACGACCACATAA
12020468 TCGTAGATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 14 0.36
48 24 0.62
49 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.22
Consensus pattern (47 bp):
TTGTGGACAAGCCACCACATAAATGCTGATAACGACCACATAACTCA
Found at i:12020476 original size:21 final size:22
Alignment explanation
Indices: 12020438--12020489 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
12020428 TGGACAAGCC
*
12020438 ACCACATAATTGCTGAT-AACG
1 ACCACATAATCGCTGATAAACG
*
12020459 ACCACATAATCG-TAGATAAACT
1 ACCACATAATCGCT-GATAAACG
12020481 ACCACATAA
1 ACCACATAA
12020490 CTTCCACCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 14 0.52
22 12 0.44
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.21
Consensus pattern (22 bp):
ACCACATAATCGCTGATAAACG
Found at i:12021397 original size:30 final size:30
Alignment explanation
Indices: 12021357--12021416 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
12021347 ATTTTTGGAC
12021357 TAAAGGTCATACCAAACAATAATATACAAA
1 TAAAGGTCATACCAAACAATAATATACAAA
* *
12021387 TAAAGTTCATACCAGACAATAATATACAAA
1 TAAAGGTCATACCAAACAATAATATACAAA
12021417 GAATGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.22
Consensus pattern (30 bp):
TAAAGGTCATACCAAACAATAATATACAAA
Found at i:12028626 original size:22 final size:22
Alignment explanation
Indices: 12028600--12028644 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
12028590 AATGAAATCG
12028600 AGAAACAAAAAAAAGAAA-TGAA
1 AGAAA-AAAAAAAAGAAATTGAA
* *
12028622 AGAAAAAGAACAAGAAATTGAA
1 AGAAAAAAAAAAAGAAATTGAA
12028644 A
1 A
12028645 AAGAGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.07
Consensus pattern (22 bp):
AGAAAAAAAAAAAGAAATTGAA
Found at i:12033414 original size:35 final size:35
Alignment explanation
Indices: 12033363--12033432 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
12033353 GTAATGAATA
*
12033363 CTTAATTTTCATAATTAGTTTATTCAGCTGACGAT
1 CTTAATTTTCACAATTAGTTTATTCAGCTGACGAT
*
12033398 CTTATTTTTCACAATTAGTTTATTCAGCTGACGAT
1 CTTAATTTTCACAATTAGTTTATTCAGCTGACGAT
12033433 AATCAATGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (35 bp):
CTTAATTTTCACAATTAGTTTATTCAGCTGACGAT
Found at i:12036837 original size:50 final size:50
Alignment explanation
Indices: 12036713--12036907 Score: 180
Period size: 50 Copynumber: 3.9 Consensus size: 50
12036703 GATAATAACA
* * * * *
12036713 TGCCAAAGCCATGTCCCAGACATGGTCTTAAATGGGATGTT-TCTTGTA-C
1 TGCCAATGCCATGTCCCAGACATGGTCTTAGATGGGA-GTTCTCATATAGG
* * * *
12036762 TGCCAATGCCATATCTCAGATATGGTCTTAGATAGGAGTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAGATGGGAGTTCTCATATAGG
* ** * *
12036812 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTA-GATGGGAGTTCTCATATAGG
* * * **
12036862 TGCCAACGCCATGTCTCAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAATGCCATGTCCCAGACATGGTCTTAGATGGGAGTTCTCATA
12036908 ACCTTAATGA
Statistics
Matches: 119, Mismatches: 23, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
48 3 0.03
49 37 0.31
50 77 0.65
51 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTAGATGGGAGTTCTCATATAGG
Found at i:12039896 original size:15 final size:15
Alignment explanation
Indices: 12039868--12039901 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
12039858 TCTATAGTCT
12039868 TCTATAGTTTTCACAA
1 TCTATAGTTTTCAC-A
12039884 TCTATAG-TTTCACA
1 TCTATAGTTTTCACA
12039898 TCTA
1 TCTA
12039902 AAGATCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 6 0.33
16 7 0.39
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (15 bp):
TCTATAGTTTTCACA
Found at i:12044027 original size:18 final size:19
Alignment explanation
Indices: 12044004--12044040 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12043994 GAAGAAAGAC
12044004 AGAAAAAGA-AATCAAAAA
1 AGAAAAAGAGAATCAAAAA
*
12044022 AGAAAAAGAGAATGAAAAA
1 AGAAAAAGAGAATCAAAAA
12044041 GAGCAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.03, G:0.16, T:0.05
Consensus pattern (19 bp):
AGAAAAAGAGAATCAAAAA
Found at i:12051879 original size:50 final size:50
Alignment explanation
Indices: 12051774--12051926 Score: 180
Period size: 50 Copynumber: 2.9 Consensus size: 50
12051764 GGGATGAGAC
* *
12051774 CCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGAGGTTATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACTGA-G--ATGAGAGGT
* *
12051830 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
* * * *
12051880 CCCTTGTAAGACTATGTCTGGGACATGGCATGGGCACTGATATGAGA
1 CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGA
12051927 ACTCTCTGGG
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 50 0.57
52 1 0.01
53 3 0.03
56 33 0.38
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT
Found at i:12052226 original size:20 final size:20
Alignment explanation
Indices: 12052201--12052239 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12052191 TGAGTTATTT
12052201 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
12052221 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
12052240 GCAGAAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:12053803 original size:25 final size:25
Alignment explanation
Indices: 12053774--12053838 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
12053764 TACTCCATAT
*
12053774 CTCGTGAGAGCATACTAATTTATAG
1 CTCGTGAGAGCATACTAATCTATAG
*
12053799 CTCGTGAGAGCATACTGATCTATAG
1 CTCGTGAGAGCATACTAATCTATAG
* *
12053824 CTCGAGTGAGCATAC
1 CTCGTGAGAGCATAC
12053839 CGATTCACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (25 bp):
CTCGTGAGAGCATACTAATCTATAG
Found at i:12075220 original size:21 final size:21
Alignment explanation
Indices: 12075190--12075243 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
12075180 CCCTCATCTT
*
12075190 TTTTTTATTTT-TATTTCAAAA
1 TTTTTAATTTTATATTTC-AAA
12075211 TTTTTAATTTTTATATTTCAAA
1 TTTTTAA-TTTTATATTTCAAA
12075233 TTTTATAATTT
1 TTTT-TAATTT
12075244 AATTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.21
22 14 0.48
23 9 0.31
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTTTATATTTCAAA
Found at i:12075227 original size:23 final size:22
Alignment explanation
Indices: 12075197--12075243 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
12075187 CTTTTTTTTA
12075197 TTTTTATTTCAAAATTTT-TAAT
1 TTTTTATTTC-AAATTTTATAAT
12075219 TTTTATATTTCAAATTTTATAAT
1 TTTT-TATTTCAAATTTTATAAT
12075242 TT
1 TT
12075244 AATTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATTTCAAATTTTATAAT
Found at i:12075244 original size:21 final size:21
Alignment explanation
Indices: 12075190--12075248 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
12075180 CCCTCATCTT
* *
12075190 TTTTTTATTTTTATTTCAAAA
1 TTTTTAATTTATATTTCAAAA
12075211 TTTTTAATTTTTATATTTC-AAA
1 TTTTTAA--TTTATATTTCAAAA
12075233 TTTTATAATTTA-ATTT
1 TTTT-TAATTTATATTT
12075249 TAATTATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 4 0.12
21 10 0.30
22 7 0.21
23 12 0.36
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTAATTTATATTTCAAAA
Found at i:12077727 original size:50 final size:51
Alignment explanation
Indices: 12077660--12077836 Score: 164
Period size: 50 Copynumber: 3.5 Consensus size: 51
12077650 TTTGGAAAGT
* * *
12077660 AAGATTCGCCATCGTGGCTTTAATCT-TTTTAACTACAATGTCGGGGAAGC
1 AAGATTCACCATTGTGGCTTTAATCTCTTTTAACTGCAATGTCGGGGAAGC
* * * * * *
12077710 AAGATTCACCATTGTGGCTTTAATCTGC-TCT-ACTGCACTGGCTGAGAGAGT
1 AAGATTCACCATTGTGGCTTTAATCT-CTTTTAACTGCAATGTCGGGGA-AGC
* ** * *
12077761 GAGATTCGTCATTGTGACTTTAAT-TCTTTTAACTGCAATGTCGGGAAAGC
1 AAGATTCACCATTGTGGCTTTAATCTCTTTTAACTGCAATGTCGGGGAAGC
* *
12077811 AAGATCCACCGTTGTGGCTTTAATCT
1 AAGATTCACCATTGTGGCTTTAATCT
12077837 GCTTCACTGA
Statistics
Matches: 95, Mismatches: 26, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
49 1 0.01
50 58 0.61
51 36 0.38
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (51 bp):
AAGATTCACCATTGTGGCTTTAATCTCTTTTAACTGCAATGTCGGGGAAGC
Found at i:12078022 original size:44 final size:44
Alignment explanation
Indices: 12077974--12078614 Score: 349
Period size: 44 Copynumber: 14.1 Consensus size: 44
12077964 AATCCGCTCC
*
12077974 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAGTCTGTTCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * *
12078018 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGTGATCTACCCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATC-----TG-T-T---CT
* * * * * * *
12078072 ACTGTAA-CTTC-AGAGAGATAAGATCATTTA-TTTTAATCCGCTCC
1 ACTGTAATC-TCAAG-GAGATAAGATTA-CTAGCTTCAATCTGTTCT
* * ** * *
12078116 ACTGTAATCTTAGGGAGATGGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * ** * *
12078160 GCTGTGATATCGGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTG-T----TCT
* * * * * * *
12078209 ACTCTACTATAACTTC-AGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCC
1 ACTGTA--AT--C-TCAAG-GAGATAAGAT--TACTAGCTTCAATCTGTTCT
* * * * * *
12078258 ACTGCAATCTCAGGGAGATAGGATTACTAGCTTCAATATGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * * * *
12078302 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * *
12078346 ACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * * * *
12078390 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * *
12078434 ACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * * * *
12078478 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * *
12078522 ACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
* * * * * *
12078566 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
12078610 ACTGT
1 ACTGT
12078615 TGCTTAGGGA
Statistics
Matches: 467, Mismatches: 98, Indels: 64
0.74 0.16 0.10
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 385 0.82
45 4 0.01
47 3 0.01
49 14 0.03
50 1 0.00
51 3 0.01
53 3 0.01
54 46 0.10
55 2 0.00
56 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAAGGAGATAAGATTACTAGCTTCAATCTGTTCT
Found at i:12078094 original size:142 final size:141
Alignment explanation
Indices: 12077913--12078605 Score: 750
Period size: 142 Copynumber: 5.0 Consensus size: 141
12077903 GAGATAAGAC
* * *
12077913 CTGATGCGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCTTTATCTTAATCCGCTCCACTG
1 CTGATGTGATCTACCCTACTGTAACTTCAGAGAGATAAGAT-CTTTATCTTAATCCGCTCCACTG
* * * * **
12077978 TAATCTCAAGGAGATAAGATTACTAGCTTCAGTCTGTTCTACTGTAATCTCAGGGAGATAAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
12078043 TCTGGCTTCAAT
130 TCTGGCTTCAAT
*
12078055 CTGATGTGATCTACCCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTG
1 CTGATGTGATCTACCCTACTGTAACTTCAGAGAGATAAGATC-TTTATCTTAATCCGCTCCACTG
* * * * *
12078120 TAATCTTAGGGAGATGGGATTACTAGCTTCAATCTGCTCCGCTGTGATATCGGGGAGATAAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
12078185 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* * * *
12078197 CTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGTGATCTACCCTACTGTAACTTCAGAGAGATAAGAT-CTTTATCTTAATCCGCTCCACTG
* *
12078262 CAATCTCAGGGAGATAGGATTACTAGCTTCAATATGCTCCGCTGTAATCTCAGGGAGATAAGATT
65 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
12078327 TCTGGCTTCAAT
130 TCTGGCTTCAAT
* * * * * **
12078339 C-----TG--CT--CC-ACTGTAATCTT-AGGGAGATAGGAT-TACTAGCTTCAATCTGCTCTGC
1 CTGATGTGATCTACCCTACTGTAA-CTTCAGAGAGATAAGATCT-TTATCTT-AATCCGCTCCAC
* * * * * *
12078392 TGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAATCTTAGGGAGATAGGA
63 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
* *
12078457 TTACTAGCTTCAAT
128 TTTCTGGCTTCAAT
* * ** *
12078471 C-----TG--CT---CTGCTGTAA-TCTCAGGGAGATAAGAT-TTCTGGCTTCAATCTGCTCCAC
1 CTGATGTGATCTACCCTACTGTAACT-TCAGAGAGATAAGATCTT-TATCTT-AATCCGCTCCAC
* *
12078524 TGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGA
63 TGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
12078589 TTTCTGGCTTCAAT
128 TTTCTGGCTTCAAT
12078603 CTG
1 CTG
12078606 CTCCACTGTT
Statistics
Matches: 478, Mismatches: 62, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
130 2 0.00
131 6 0.01
132 205 0.43
133 4 0.01
135 2 0.00
137 1 0.00
141 1 0.00
142 256 0.54
143 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (141 bp):
CTGATGTGATCTACCCTACTGTAACTTCAGAGAGATAAGATCTTTATCTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAAT
Found at i:12078377 original size:88 final size:88
Alignment explanation
Indices: 12078248--12078626 Score: 690
Period size: 88 Copynumber: 4.3 Consensus size: 88
12078238 CCTTTATTTT
* * * * *
12078248 AATCCGCTCCACTGCAATCTCAGGGAGATAGGATTACTAGCTTCAATATGCTCCGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
12078313 AGGGAGATAAGATTTCTGGCTTC
66 AGGGAGATAAGATTTCTGGCTTC
12078336 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
12078401 AGGGAGATAAGATTTCTGGCTTC
66 AGGGAGATAAGATTTCTGGCTTC
12078424 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
12078489 AGGGAGATAAGATTTCTGGCTTC
66 AGGGAGATAAGATTTCTGGCTTC
12078512 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
12078577 AGGGAGATAAGATTTCTGGCTTC
66 AGGGAGATAAGATTTCTGGCTTC
12078600 AATCTGCTCCACTGT--TGCTTAGGGAGA
1 AATCTGCTCCACTGTAAT-CTTAGGGAGA
12078627 CAAGATCTGT
Statistics
Matches: 285, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
86 1 0.00
87 10 0.04
88 274 0.96
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (88 bp):
AATCTGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCTGCTGTAATCTC
AGGGAGATAAGATTTCTGGCTTC
Found at i:12113847 original size:20 final size:20
Alignment explanation
Indices: 12113810--12113848 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12113800 TAGTATTTTG
**
12113810 TGTGGTGGTTAATTTGATGT
1 TGTGGTGGTTAAGATGATGT
*
12113830 TGTGTTGGTTAAGATGATG
1 TGTGGTGGTTAAGATGATG
12113849 GTAAGGAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.46
Consensus pattern (20 bp):
TGTGGTGGTTAAGATGATGT
Found at i:12124120 original size:15 final size:15
Alignment explanation
Indices: 12124087--12124121 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12124077 TAACCTTTAT
* *
12124087 TTTATTATTATTACT
1 TTTATTATTATAACC
12124102 TTTATTATTATAACC
1 TTTATTATTATAACC
12124117 TTTAT
1 TTTAT
12124122 ACATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTATTATTATAACC
Found at i:12140862 original size:51 final size:51
Alignment explanation
Indices: 12140776--12140976 Score: 228
Period size: 51 Copynumber: 4.0 Consensus size: 51
12140766 ATTAATGATA
* * *
12140776 CCGGTTCACATAGTAGCCTGAACATAGTACTACACATGTGACCATCACTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
* * * * * *
12140827 CCGATACATGTAGTAGTCTGCACATAGTACTACACACGTGATCA-AAGCTAT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA-CTAT
* * * *
12140878 CCGGTACGCATAGTATCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTAT
* *
12140928 CTGGTACACGTAGTAGCCTGCACATAGTACAACACATGTGACCATCACT
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
12140977 TTCACTTTCA
Statistics
Matches: 121, Mismatches: 25, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 4 0.03
50 40 0.33
51 75 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTAT
Found at i:12140992 original size:101 final size:102
Alignment explanation
Indices: 12140776--12140971 Score: 261
Period size: 102 Copynumber: 1.9 Consensus size: 102
12140766 ATTAATGATA
* * *
12140776 CCGGTTCACATAGTAGCCTGAACATAGTACTACACATGTGACCATCACTATCCGATACATGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
* * *
12140841 AGTCTGCACATAGTACTACACACGTGATCAAAGCTAT
66 AGCCTGCACATAGTACAACACACGTGACCAAAGCTAT
* * * * *
12140878 CCGGTACGCATAGTATCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
*
12140941 TAGCCTGCACATAGTACAACACATGTGACCA
65 TAGCCTGCACATAGTACAACACACGTGACCA
12140972 TCACTTTCAC
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 38 0.47
102 39 0.48
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACAACACACGTGACCAAAGCTAT
Found at i:12141003 original size:101 final size:102
Alignment explanation
Indices: 12140776--12141006 Score: 247
Period size: 101 Copynumber: 2.3 Consensus size: 102
12140766 ATTAATGATA
* *
12140776 CCGGTTCACATAGTAGCCTGA-ACATAGTACTACACATGTGACCATCACTATCCGATACATGTAG
1 CCGGTTCACATAGTAGCCT-ACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAG
* * *
12140840 TAGTCTGCACATAGTACTACACACGTGATCAAAGCTAT
65 TAGCCTGCACATAGTACAACACACGTGACCAAAGCTAT
* * * * * *
12140878 CCGGTACGCATAGTATCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
* * *
12140941 TAGCCTGCACATAGTACAACACATGTGACCATCA-CTTT
65 TAGCCTGCACATAGTACAACACACGTGACCA-AAGCTAT
* *
12140979 CAC-TTTCACATAGTGGCCTACACATAGT
1 C-CGGTTCACATAGTAGCCTACACATAGT
12141007 CCATGCCACA
Statistics
Matches: 105, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
101 61 0.58
102 40 0.38
103 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACAACACACGTGACCAAAGCTAT
Found at i:12145945 original size:38 final size:38
Alignment explanation
Indices: 12145901--12145982 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
12145891 GTTTCCCTAT
* * *
12145901 TCTTTCCTTAGTCGAACCTTCGCCTT-CTTACTTTTCCC
1 TCTTTCCCTAGCCGAACCTTCGCCTTGC-TACCTTTCCC
*
12145939 TCTTTCCCTAGCCGAACCTTTGCCTTGCTACCTTTCCC
1 TCTTTCCCTAGCCGAACCTTCGCCTTGCTACCTTTCCC
12145977 T-TTTCC
1 TCTTTCC
12145983 GGTTCGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 5 0.13
38 33 0.85
39 1 0.03
ACGTcount: A:0.10, C:0.39, G:0.09, T:0.43
Consensus pattern (38 bp):
TCTTTCCCTAGCCGAACCTTCGCCTTGCTACCTTTCCC
Found at i:12147892 original size:12 final size:12
Alignment explanation
Indices: 12147867--12147905 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12147857 ACTCGCTTCT
* *
12147867 TTACTTACTCAC
1 TTACTTGCTTAC
*
12147879 TTACTTGTTTAC
1 TTACTTGCTTAC
12147891 TTACTTGCTTAC
1 TTACTTGCTTAC
12147903 TTA
1 TTA
12147906 AATAAATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:12148342 original size:50 final size:50
Alignment explanation
Indices: 12148174--12148343 Score: 254
Period size: 50 Copynumber: 3.4 Consensus size: 50
12148164 ATATCTGGGT
* *
12148174 ATGGTCTTACATGGGAGT-TCTCATATCGGTGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGA-TCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
12148224 ATGGTCTTACGA-GGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTAC-ATGGGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* *
12148274 ATGGTCTTACATGGGATCTCTCATCTTGGTGCCAACGCCATGTCCCAGTC
1 ATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
12148324 ATGGTCTTACATGAGATCTC
1 ATGGTCTTACATGGGATCTC
12148344 ATTCCCTTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 108 0.98
51 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGATCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:12151617 original size:29 final size:29
Alignment explanation
Indices: 12151575--12151643 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
12151565 AATAAATGCC
* * *
12151575 TATTTTGGTAATTAATT-TTTTTCTTATCT
1 TATTTCGGTAATTAATTAATTTT-TTATAT
12151604 TATTTCGGTAATTAATTAATTTTTTATAT
1 TATTTCGGTAATTAATTAATTTTTTATAT
*
12151633 TATTTGGGTAA
1 TATTTCGGTAA
12151644 AAAAACCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.59
Consensus pattern (29 bp):
TATTTCGGTAATTAATTAATTTTTTATAT
Found at i:12152003 original size:10 final size:10
Alignment explanation
Indices: 12151988--12152023 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
12151978 TTTATATACT
12151988 TTTTTTTCAA
1 TTTTTTTCAA
12151998 TTTTTTAT-AA
1 TTTTTT-TCAA
12152008 TTTTTTTCAA
1 TTTTTTTCAA
12152018 TTTTTT
1 TTTTTT
12152024 GATATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:12152011 original size:21 final size:20
Alignment explanation
Indices: 12151988--12152049 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
12151978 TTTATATACT
12151988 TTTTTTTCAATTTTTTATAA
1 TTTTTTTCAATTTTTTATAA
12152008 TTTTTTTCAATTTTTTGAT-A
1 TTTTTTTCAATTTTTT-ATAA
* * *
12152028 TTATTTT-AACTTTTTAAAA
1 TTTTTTTCAATTTTTTATAA
12152047 TTT
1 TTT
12152050 ATAAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.03
19 10 0.28
20 23 0.64
21 2 0.06
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTTTCAATTTTTTATAA
Found at i:12152083 original size:22 final size:22
Alignment explanation
Indices: 12152047--12152099 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
12152037 CTTTTTAAAA
*
12152047 TTTATAAATATATATATTAGAA-T
1 TTTATAAA-AAATATATTA-AACT
*
12152070 TTTATAAAAAATATTTTAAACT
1 TTTATAAAAAATATATTAAACT
12152092 TTT-TAAAA
1 TTTATAAAA
12152100 CAAATTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 12 0.44
23 8 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTATAAAAAATATATTAAACT
Found at i:12156329 original size:12 final size:12
Alignment explanation
Indices: 12156312--12156368 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
12156302 TCACTCTTAT
12156312 TTTCTTTTTCGA
1 TTTCTTTTTCGA
* **
12156324 TTTCTTGTTCTC
1 TTTCTTTTTCGA
* *
12156336 TTTCATTTTCGT
1 TTTCTTTTTCGA
* *
12156348 TTTCATTTTCAA
1 TTTCTTTTTCGA
12156360 TTTCTTTTT
1 TTTCTTTTT
12156369 GTTTTTCCTT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.68
Consensus pattern (12 bp):
TTTCTTTTTCGA
Found at i:12156374 original size:18 final size:18
Alignment explanation
Indices: 12156311--12156375 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
12156301 CTCACTCTTA
*
12156311 TTTTCTTTTTCGATTTCT
1 TTTTCTTTTTCAATTTCT
* * * *
12156329 TGTTCTCTTTCATTTTCG
1 TTTTCTTTTTCAATTTCT
*
12156347 TTTTCATTTTCAATTTCT
1 TTTTCTTTTTCAATTTCT
*
12156365 TTTTGTTTTTC
1 TTTTCTTTTTC
12156376 CTTTTCACAT
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.08, C:0.17, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTCTTTTTCAATTTCT
Found at i:12157327 original size:18 final size:17
Alignment explanation
Indices: 12157292--12157345 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
12157282 AACACTTCAC
12157292 TTTTTT-TTCG-AA-TT
1 TTTTTTATTCGTAATTT
*
12157306 TTTTTTACTTCGTACTTT
1 TTTTTTA-TTCGTAATTT
*
12157324 TTTTTTATTCTTAATTT
1 TTTTTTATTCGTAATTT
12157341 TTTTT
1 TTTTT
12157346 CGTAATTTCC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 6 0.18
16 4 0.12
17 14 0.42
18 9 0.27
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTATTCGTAATTT
Found at i:12162491 original size:73 final size:73
Alignment explanation
Indices: 12162372--12162518 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 73
12162362 AATAATTATA
* *
12162372 TATCATTATTGGAATTTCTGATTAGTCCTAACGAGTCAACTGAAAGCATAATCTAGGTAAGTTCA
1 TATCATTATTGGAATTTCTGAGTAGTCCTAACGAGTCAACTCAAAGCATAATCTAGGTAAGTTCA
12162437 TAGTGCAT
66 TAGTGCAT
12162445 TATCATTATTGGAATTTCTGAGTAGTCCTAACGAGTCAACTCAAAGCATAATCTAGGTAAGTTCA
1 TATCATTATTGGAATTTCTGAGTAGTCCTAACGAGTCAACTCAAAGCATAATCTAGGTAAGTTCA
12162510 TAGTGCAT
66 TAGTGCAT
12162518 T
1 T
12162519 GATATGTATA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (73 bp):
TATCATTATTGGAATTTCTGAGTAGTCCTAACGAGTCAACTCAAAGCATAATCTAGGTAAGTTCA
TAGTGCAT
Found at i:12162869 original size:20 final size:20
Alignment explanation
Indices: 12162844--12162951 Score: 101
Period size: 20 Copynumber: 5.4 Consensus size: 20
12162834 GCTTGTACGA
*
12162844 GATTGCACTTTGGTGCCCCT
1 GATTGCACTTTGGTGCCTCT
* *
12162864 GATTGCACATTT-GTGTCTTT
1 GATTGCAC-TTTGGTGCCTCT
* *
12162884 GTTTGTACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
* *
12162904 AATTGCACTTTTGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
* * * *
12162924 GTTTACACTTCGGTGCCTTT
1 GATTGCACTTTGGTGCCTCT
12162944 GATTGCAC
1 GATTGCAC
12162952 AATTGTGCCT
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
19 3 0.04
20 61 0.91
21 3 0.04
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (20 bp):
GATTGCACTTTGGTGCCTCT
Found at i:12162909 original size:40 final size:40
Alignment explanation
Indices: 12162846--12162981 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
12162836 TTGTACGAGA
* * *
12162846 TTGCACTTTGGTGCCCCTGATTGCACATTTGTGTCTTTGT
1 TTGCACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTGT
* * * * *
12162886 TTGTACTTTGGTGCCTCTAATTGCACTTTTGTGCCTCTGT
1 TTGCACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTGT
* * *
12162926 TTACACTTCGGTGCCTTTGATTGCACAATTGTGCCTTT-T
1 TTGCACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTGT
12162965 TCTGCACTTCGGTGCCT
1 T-TGCACTTCGGTGCCT
12162982 TTATTACGCA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.03
40 78 0.98
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (40 bp):
TTGCACTTCGGTGCCTCTGATTGCACATTTGTGCCTTTGT
Found at i:12178177 original size:33 final size:32
Alignment explanation
Indices: 12178135--12178243 Score: 138
Period size: 33 Copynumber: 3.5 Consensus size: 32
12178125 CTTGGTGGAT
12178135 TCAGCACTTAGCAACCACCAGTGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCA-TGAGTCGGGGAA
12178168 TCAGCACTTAGCAACC-CC-TG-G--GGGGAA
1 TCAGCACTTAGCAACCACCATGAGTCGGGGAA
* *
12178195 TCAGCACTTAGCAACCACCAATGATTCGGGAAA
1 TCAGCACTTAGCAACCACC-ATGAGTCGGGGAA
*
12178228 TAAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
12178244 CCTTATACAA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
27 22 0.33
28 2 0.03
29 1 0.01
30 4 0.06
32 2 0.03
33 36 0.54
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (32 bp):
TCAGCACTTAGCAACCACCATGAGTCGGGGAA
Found at i:12178362 original size:76 final size:74
Alignment explanation
Indices: 12178191--12178397 Score: 251
Period size: 76 Copynumber: 2.8 Consensus size: 74
12178181 ACCCCTGGGG
* *
12178191 GGAATCAGCACTTAGCAACCACCAATGA-TTCGGGAAAT-AAGCACTTAGCAACCCCTTATACAA
1 GGAATCAGCACTTAGCAACCACCGATGATTTAGGG-AATCAA-CACTTAGCAACCCCTTATACAA
**
12178254 TCCGTTACAGT
64 TCCGAGACAGT
*
12178265 GGAATCAGCACTTACCAACCACCGATGATTTAGGGAATCAACACTTAGCAACCCCTT-T-CATAT
1 GGAATCAGCACTTAGCAACCACCGATGATTTAGGGAATCAACACTTAGCAACCCCTTATACA-AT
*
12178328 CTGAAGACACTGT
65 CCG-AGACA--GT
* * *
12178341 GGAATCAGCACTTAGAAACCACCGATGATTTGGGGAATCAGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCACCGATGATTTAGGGAATCAACACTTAGCAACCCCTT
12178398 GGGGGAATCA
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
72 2 0.02
73 5 0.04
74 48 0.41
75 7 0.06
76 55 0.47
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (74 bp):
GGAATCAGCACTTAGCAACCACCGATGATTTAGGGAATCAACACTTAGCAACCCCTTATACAATC
CGAGACAGT
Found at i:12184562 original size:40 final size:40
Alignment explanation
Indices: 12184493--12184645 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
12184483 AAAATTATTC
* * * **
12184493 TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCCC
1 TGATTGCACATACTTGCCCCTGTTCGTACTTTGGTACCAA
* * * *
12184533 TGATTACACATACTTGCCCATGTTTGTACTTTGATACCAA
1 TGATTGCACATACTTGCCCCTGTTCGTACTTTGGTACCAA
*
12184573 TGATTGCATATA-TGTGCCCCTGTTCGTACTTTGGTACCAA
1 TGATTGCACATACT-TGCCCCTGTTCGTACTTTGGTACCAA
* *
12184613 TGATTGCACATACATGCCCCTGTTTGTACTTTG
1 TGATTGCACATACTTGCCCCTGTTCGTACTTTG
12184646 ATTCCCATTA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 93 0.99
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACTTGCCCCTGTTCGTACTTTGGTACCAA
Found at i:12184631 original size:80 final size:80
Alignment explanation
Indices: 12184493--12184647 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 80
12184483 AAAATTATTC
** *
12184493 TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCCCTGATTACACATACTTGCCCATGTTT
1 TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCAATGATTACACATACATGCCCATGTTT
12184558 GTACTTTGATACCAA
66 GTACTTTGATACCAA
* * * * * *
12184573 TGATTGCATATATGTGCCCCTGTTCGTACTTTGGTACCAATGATTGCACATACATGCCCCTGTTT
1 TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCAATGATTACACATACATGCCCATGTTT
12184638 GTACTTTGAT
66 GTACTTTGAT
12184648 TCCCATTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (80 bp):
TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCAATGATTACACATACATGCCCATGTTT
GTACTTTGATACCAA
Found at i:12184671 original size:40 final size:40
Alignment explanation
Indices: 12184493--12184673 Score: 132
Period size: 40 Copynumber: 4.5 Consensus size: 40
12184483 AAAATTATTC
* * * * * * **
12184493 TGATTGCACATACGTACCCCTGTTCGTACTTCGGTACCCC
1 TGATTGCACTTTCGTGCCCCTGTTTGTACTTTGATACCAA
* * * * *
12184533 TGATTACACATACTTGCCCATGTTTGTACTTTGATACCAA
1 TGATTGCACTTTCGTGCCCCTGTTTGTACTTTGATACCAA
* *
12184573 TGATTGCA-TATAT-GTGCCCCTGTTCGTACTTTGGTACCAA
1 TGATTGCACT-T-TCGTGCCCCTGTTTGTACTTTGATACCAA
* * * * *
12184613 TGATTGCACATACATGCCCCTGTTTGTACTTTGATTCCCA
1 TGATTGCACTTTCGTGCCCCTGTTTGTACTTTGATACCAA
* *
12184653 TTAATGCACTTTCGTGCCCCT
1 TGATTGCACTTTCGTGCCCCT
12184674 CTTTATGCTC
Statistics
Matches: 109, Mismatches: 28, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (40 bp):
TGATTGCACTTTCGTGCCCCTGTTTGTACTTTGATACCAA
Found at i:12185916 original size:81 final size:81
Alignment explanation
Indices: 12185781--12185942 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
12185771 AGAGTTGTAA
12185781 CTAATTGGGGAAGCTTGTATATGCAAATATCGGCTAGGGGGTCTCTTTTGTGTGAGTTTCGACAA
1 CTAATTGGGGAAGCTTGTATATGCAAATATCGGCTAGGGGGTCTCTTTTGTGTGAGTTTCGACAA
*
12185846 TTTGAGAGCATTTTTT
66 TTTGAGAGCAGTTTTT
12185862 CTAATTGGGGAAGCTTGTATATGCAAATATCGGCTAGGGGGTCTCTTTTGTGTGAGTTTCGACAA
1 CTAATTGGGGAAGCTTGTATATGCAAATATCGGCTAGGGGGTCTCTTTTGTGTGAGTTTCGACAA
12185927 TTTGAGAGCAGTTTTT
66 TTTGAGAGCAGTTTTT
12185943 GGATATTATT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.22, C:0.12, G:0.28, T:0.38
Consensus pattern (81 bp):
CTAATTGGGGAAGCTTGTATATGCAAATATCGGCTAGGGGGTCTCTTTTGTGTGAGTTTCGACAA
TTTGAGAGCAGTTTTT
Found at i:12199127 original size:27 final size:27
Alignment explanation
Indices: 12199072--12199133 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
12199062 AAAGGTTGTT
* *
12199072 AAATGACCGAAATACCCCTGTAAGTTA
1 AAATGACTGAAATACCCCTGTAAGGTA
12199099 AAATGACTGAAATACCACC-G-AAGGGTA
1 AAATGACTGAAATACC-CCTGTAA-GGTA
12199126 AAATGACT
1 AAATGACT
12199134 ATTTTACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.06
27 27 0.87
28 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCCTGTAAGGTA
Found at i:12207439 original size:82 final size:82
Alignment explanation
Indices: 12207344--12207507 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 82
12207334 TGGTAATTGG
* *
12207344 CATTTTGAGGCTTTGTTGATAATTGTAGGAAATGAATATTAATGTGATGTTCTAGGTGAATTGCT
1 CATTTTGAAGCTTTGTTGATAATTGTAGGAAATGAATATGAATGTGATGTTCTAGGTGAATTGCT
12207409 TGATTGTTATGTATAAA
66 TGATTGTTATGTATAAA
* * *
12207426 CATTTTTAAGCTTTGTTGATAATTGTAGGACATGAATATGAATGTGATGTTCTGGGTGAATTGCT
1 CATTTTGAAGCTTTGTTGATAATTGTAGGAAATGAATATGAATGTGATGTTCTAGGTGAATTGCT
12207491 TGATTGTTATGTATAAA
66 TGATTGTTATGTATAAA
12207508 AATTGTGGTG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (82 bp):
CATTTTGAAGCTTTGTTGATAATTGTAGGAAATGAATATGAATGTGATGTTCTAGGTGAATTGCT
TGATTGTTATGTATAAA
Found at i:12208284 original size:51 final size:51
Alignment explanation
Indices: 12208164--12208348 Score: 171
Period size: 51 Copynumber: 3.6 Consensus size: 51
12208154 AAAGTCATGG
* * * * *
12208164 TCACGTGTGTAGTACTATTTGCAGGCTAGTATGTGTACCGGAAT-G--ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GAATAGTAAT-GA
* *
12208214 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAAT-GA
** *** * * *
12208265 TCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGAATTGTAATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGA
*
12208316 TCACATGTGTAGTACTATGCGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
12208349 TGAATTGATT
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
49 4 0.04
50 35 0.32
51 69 0.63
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGTAATGA
Found at i:12215249 original size:136 final size:135
Alignment explanation
Indices: 12215006--12215250 Score: 294
Period size: 135 Copynumber: 1.8 Consensus size: 135
12214996 CGAGCTATTG
* * * *
12215006 GTCGAAACGTAGCTACATGGTGCTGCTCCACAAGTTGTCAAGTCTCCACAAAAATGCCAGAACTC
1 GTCGAAACGTAGCTACATGGTGCTACTCAACAAGCTGTCAAGTATCCACAAAAATGCCAGAACTC
* * * * **
12215071 AGCCAACGATAGGACATTCAAGACCACCACCTGAAACATGGTAACTTGGGTCTGCTTACACAAGC
66 AACCAACCATAGGACAGTCAAGACCACAACCCAAAACATGGTAACTTGGGTCTGCTTACACAAGC
12215136 TGTCA
131 TGTCA
* * * ***
12215141 GTCGAAATGTAGCTACATGGTGCTACTCAACAAGCTGTCGAGTATCCGCAACAAATGTTGGAACT
1 GTCGAAACGTAGCTACATGGTGCTACTCAACAAGCTGTCAAGTATCCACAA-AAATGCCAGAACT
* * *
12215206 GAACC-ACCATTAGGACAGTCAAGTCCAGAACCCAAAACATGGTAA
65 CAACCAACCA-TAGGACAGTCAAGACCACAACCCAAAACATGGTAA
12215251 ACCCTAGTGA
Statistics
Matches: 89, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
135 47 0.53
136 42 0.47
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.20
Consensus pattern (135 bp):
GTCGAAACGTAGCTACATGGTGCTACTCAACAAGCTGTCAAGTATCCACAAAAATGCCAGAACTC
AACCAACCATAGGACAGTCAAGACCACAACCCAAAACATGGTAACTTGGGTCTGCTTACACAAGC
TGTCA
Found at i:12222669 original size:36 final size:36
Alignment explanation
Indices: 12222628--12222701 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
12222618 CGGTCTGACT
12222628 CCAACTCATACTTCACGCTCAGTGTGTCCGTCTGAA
1 CCAACTCATACTTCACGCTCAGTGTGTCCGTCTGAA
*
12222664 CCAACTCATACTTCACGCTCAGTGTGTCCGTGTGAA
1 CCAACTCATACTTCACGCTCAGTGTGTCCGTCTGAA
12222700 CC
1 CC
12222702 GCTAAAGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.34, G:0.18, T:0.27
Consensus pattern (36 bp):
CCAACTCATACTTCACGCTCAGTGTGTCCGTCTGAA
Found at i:12226391 original size:19 final size:19
Alignment explanation
Indices: 12226367--12226404 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12226357 GAAATGAATA
*
12226367 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
12226386 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
12226405 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:12227323 original size:19 final size:20
Alignment explanation
Indices: 12227290--12227329 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
12227280 GTATATATAT
12227290 ATAAAATAAAGAAAA-TAAA
1 ATAAAATAAAGAAAATTAAA
12227309 ATAAAATAACA-AAAATTAAA
1 ATAAAATAA-AGAAAATTAAA
12227329 A
1 A
12227330 ATGAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (20 bp):
ATAAAATAAAGAAAATTAAA
Found at i:12227583 original size:9 final size:9
Alignment explanation
Indices: 12227569--12227612 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
12227559 AGAGGTTAGG
12227569 TTTTTTTTC
1 TTTTTTTTC
12227578 TTTTTTTTC
1 TTTTTTTTC
*
12227587 TTTTTCTTC
1 TTTTTTTTC
*
12227596 ATTTTTTTTA
1 -TTTTTTTTC
12227606 TTTTTTT
1 TTTTTTT
12227613 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 24 0.77
10 7 0.23
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:12227618 original size:9 final size:9
Alignment explanation
Indices: 12227569--12227619 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
12227559 AGAGGTTAGG
*
12227569 TTTTTTTTC
1 TTTTTTTTA
*
12227578 TTTTTTTTC
1 TTTTTTTTA
*
12227587 TTTTTCTTCA
1 TTTTT-TTTA
12227597 TTTTTTTTA
1 TTTTTTTTA
12227606 -TTTTTTTA
1 TTTTTTTTA
12227614 TTTTTT
1 TTTTTT
12227620 ATTTTGGGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 8 0.22
9 22 0.59
10 7 0.19
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:12227969 original size:44 final size:44
Alignment explanation
Indices: 12227915--12228363 Score: 689
Period size: 44 Copynumber: 10.4 Consensus size: 44
12227905 TCCCGTCTAA
* *
12227915 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
12227959 TACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCTCAGTCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
12228003 CACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
12228047 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
12228091 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTTCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* * *
12228131 TACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCTGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
12228175 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
* *
12228219 TACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCCCC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
12228263 TACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
*
12228303 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
12228347 TACAGAGACGCCAAATC
1 TACAGAGACGCCAAATC
12228364 ATCTTGGATT
Statistics
Matches: 369, Mismatches: 28, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
40 76 0.21
44 293 0.79
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.27
Consensus pattern (44 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:12228183 original size:128 final size:129
Alignment explanation
Indices: 12227915--12228377 Score: 670
Period size: 128 Copynumber: 3.6 Consensus size: 129
12227905 TCCCGTCTAA
* *
12227915 TACAGAGACGCCAAATCCGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---T
* * * * *
12227980 ATCTTCAATCTGCTC-TCAGTCGCCACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGC
63 ATCTTCGATCTGCTCTTC-GCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGC
12228044 CGC
127 CGC
* *
12228047 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC-ATC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
* *
12228111 TTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCTGC
66 TTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
12228175 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATT
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC---T
* *
12228240 ATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCC
63 ATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCC
12228301 GC
128 GC
*
12228303 TACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-ATC
1 TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
* *
12228367 TTGGATTTGCT
66 TTCGATCTGCT
12228378 TCAACGTAAA
Statistics
Matches: 306, Mismatches: 20, Indels: 18
0.89 0.06 0.05
Matches are distributed among these distances:
124 12 0.04
128 197 0.64
129 2 0.01
132 95 0.31
ACGTcount: A:0.22, C:0.32, G:0.17, T:0.28
Consensus pattern (129 bp):
TACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATC
TTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGC
Found at i:12228205 original size:172 final size:172
Alignment explanation
Indices: 12227936--12228363 Score: 732
Period size: 172 Copynumber: 2.5 Consensus size: 172
12227926 CAAATCCGTT
* ** *
12227936 ATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCTCAG-T
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
* *
12228000 CGCCACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
66 -GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCT
* * *
12228065 GTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
130 ATTATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC
* *
12228108 ATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
12228173 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTA
66 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTA
12228238 TTATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC
131 TTATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC
*
12228280 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
12228345 GCTACAGAGACGCCAAATC
66 GCTACAGAGACGCCAAATC
12228364 ATCTTGGATT
Statistics
Matches: 241, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 240 1.00
173 1 0.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (172 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTA
TTATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC
Found at i:12228441 original size:172 final size:170
Alignment explanation
Indices: 12227936--12228462 Score: 665
Period size: 172 Copynumber: 3.1 Consensus size: 170
12227926 CAAATCCGTT
* ** * *
12227936 ATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCAATCTGCTCTCAGTC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
* *
12228001 GCCACGGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTG
66 GCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-G
*
12228066 -T-TATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAATC
127 CTATATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC
* * *
12228108 ATCTTCGATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTTGATCTGCTCTCCGCT
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
12228173 GCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAAT--C
66 GCTACAGAGACGCCAAATC---TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCGC
*
12228236 TATTATCTTCGATCTGCTCTCCGCCCCTACAGAGATGCCAAATC
128 TA-TATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC
12228280 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
1 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
* * ** * *
12228345 GCTACAGAGACGCCAAATC-ATCTTGGATTTGCT-T-CAACG-TAAACACGTGAAAGCCAAATCA
66 GCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCT--ACA-GAG-ACGCCAAATC-
* * * *
12228406 GCTATGTCTTCGATCTACTCCCCGCCTGATACAGAGATGCCAAATC
126 GCTATATCTTCGATCTGCTCTCCGCC-GCTACAGAGATGCCAAATC
*
12228452 ATCTTGGATCT
1 ATCTTCGATCT
12228463 ACTTCAACGT
Statistics
Matches: 317, Mismatches: 27, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
165 1 0.00
166 3 0.01
167 4 0.01
168 14 0.04
169 8 0.03
170 1 0.00
171 19 0.06
172 267 0.84
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (170 bp):
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCCGCC
GCTACAGAGACGCCAAATCTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCGCTAT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATC
Found at i:12228448 original size:88 final size:88
Alignment explanation
Indices: 12228325--12228545 Score: 354
Period size: 88 Copynumber: 2.5 Consensus size: 88
12228315 AAATCTGTTA
* * * * * *
12228325 TCTTTGATCTGCTCTCCGCC-GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
12228389 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
*
12228412 TCTTCGATCTACTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
12228477 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* *
12228500 TCTTCGATCTGCTCCCTGCCTGATACAGAAATGCCAAATCATCTTG
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTG
12228546 AAAATCTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 17 0.14
88 106 0.86
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTACTTCAACGTAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:12228489 original size:41 final size:41
Alignment explanation
Indices: 12228356--12228493 Score: 102
Period size: 41 Copynumber: 3.2 Consensus size: 41
12228346 CTACAGAGAC
* *
12228356 GCCAAATCATCTTGGATTTGCTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTACTTCAACGTAAACACGTGAAA
* ** * * *
12228397 GCCAAATCAGCTATGTCTTCGATCTAC-TCCCCGCCTGATACA-GAG-AT
1 GCCAAAT---C-A--TCTTGGATCTACTTCAACG--T-AAACACGTGAAA
12228444 GCCAAATCATCTTGGATCTACTTCAACGTAAACACGTGAAA
1 GCCAAATCATCTTGGATCTACTTCAACGTAAACACGTGAAA
12228485 GCCAAATCA
1 GCCAAATCA
12228494 GCTATGTCTT
Statistics
Matches: 71, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
39 4 0.06
40 3 0.04
41 28 0.39
42 4 0.06
43 1 0.01
44 2 0.03
45 1 0.01
46 4 0.06
47 17 0.24
48 3 0.04
49 4 0.06
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (41 bp):
GCCAAATCATCTTGGATCTACTTCAACGTAAACACGTGAAA
Found at i:12228777 original size:61 final size:64
Alignment explanation
Indices: 12228658--12228780 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 64
12228648 TCATGTATCC
*
12228658 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
* *
12228722 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATAAATCAAATGTTCCTAACTAAATG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATG
12228781 AATGGTTATG
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
61 28 0.51
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.36
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATAAATCAAATGCTCCTAACTAAATGTG
Found at i:12233147 original size:24 final size:24
Alignment explanation
Indices: 12233119--12233182 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 24
12233109 GATTCAACTC
* *
12233119 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCAAACAAATA
*
12233143 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAAACAAATA
12233167 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
12233183 CTCAAATCCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.17
Consensus pattern (24 bp):
CGCACACATAGTGCCAAACAAATA
Found at i:12233188 original size:24 final size:23
Alignment explanation
Indices: 12233119--12233194 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 23
12233109 GATTCAACTC
*
12233119 CGCACACATAGTGCCAAAT-AATTA
1 CGCACACATAGTGCC--ATCAAATA
12233143 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCAT-CAAATA
*
12233167 CGCACACATAGTGCCACTCAAATC
1 CGCACACATAGTGCCA-TCAAATA
12233191 CGCA
1 CGCA
12233195 TATCTAGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
22 2 0.04
24 44 0.94
25 1 0.02
ACGTcount: A:0.38, C:0.32, G:0.13, T:0.17
Consensus pattern (23 bp):
CGCACACATAGTGCCATCAAATA
Found at i:12240752 original size:12 final size:13
Alignment explanation
Indices: 12240718--12240803 Score: 58
Period size: 12 Copynumber: 7.1 Consensus size: 13
12240708 GCCAAATAAT
12240718 TACGCACACATAG
1 TACGCACACATAG
* *
12240731 TGC-CATACATA-
1 TACGCACACATAG
12240742 TACGCACACATAG
1 TACGCACACATAG
* * *
12240755 TGC-CATACA-AA
1 TACGCACACATAG
12240766 TACGCACACATAG
1 TACGCACACATAG
* * *
12240779 TGC-CATACA-AA
1 TACGCACACATAG
12240790 TACGCACACATAG
1 TACGCACACATAG
12240803 T
1 T
12240804 GCCACTCAAA
Statistics
Matches: 51, Mismatches: 16, Indels: 12
0.65 0.20 0.15
Matches are distributed among these distances:
11 8 0.16
12 34 0.67
13 9 0.18
ACGTcount: A:0.40, C:0.29, G:0.13, T:0.19
Consensus pattern (13 bp):
TACGCACACATAG
Found at i:12240814 original size:24 final size:24
Alignment explanation
Indices: 12240696--12240807 Score: 188
Period size: 24 Copynumber: 4.7 Consensus size: 24
12240686 GATTCAACTC
* * *
12240696 CGCACACATAGTGCCAAATAATTA
1 CGCACACATAGTGCCATACAAATA
*
12240720 CGCACACATAGTGCCATACATATA
1 CGCACACATAGTGCCATACAAATA
12240744 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
12240768 CGCACACATAGTGCCATACAAATA
1 CGCACACATAGTGCCATACAAATA
12240792 CGCACACATAGTGCCA
1 CGCACACATAGTGCCA
12240808 CTCAAATCTG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.18
Consensus pattern (24 bp):
CGCACACATAGTGCCATACAAATA
Found at i:12241045 original size:12 final size:13
Alignment explanation
Indices: 12241011--12241072 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 13
12241001 GCCAAATAAT
12241011 TACGCACACATAG
1 TACGCACACATAG
* *
12241024 TGC-CATACATA-
1 TACGCACACATAG
12241035 TACGCACACATAG
1 TACGCACACATAG
* * *
12241048 TGC-CATACA-AA
1 TACGCACACATAG
12241059 TACGCACACATAG
1 TACGCACACATAG
12241072 T
1 T
12241073 GCCACTCAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
11 5 0.14
12 24 0.69
13 6 0.17
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.19
Consensus pattern (13 bp):
TACGCACACATAG
Found at i:12241083 original size:24 final size:24
Alignment explanation
Indices: 12240919--12241076 Score: 169
Period size: 24 Copynumber: 6.7 Consensus size: 24
12240909 CATGAATGAG
*
12240919 ACGCACACATAGTGCCATACATAT
1 ACGCACACATAGTGCCATACAAAT
*
12240943 ACGTACACATAGTGCCATACAAAT
1 ACGCACACATAGTGCCATACAAAT
* * * * * * *
12240967 ATGC-GA-AT-CTACGATTCAACT
1 ACGCACACATAGTGCCATACAAAT
* * * *
12240988 CCGCACACATAGTGCCAAATAATT
1 ACGCACACATAGTGCCATACAAAT
*
12241012 ACGCACACATAGTGCCATACATAT
1 ACGCACACATAGTGCCATACAAAT
12241036 ACGCACACATAGTGCCATACAAAT
1 ACGCACACATAGTGCCATACAAAT
12241060 ACGCACACATAGTGCCA
1 ACGCACACATAGTGCCA
12241077 CTCAAATCTG
Statistics
Matches: 105, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
21 10 0.10
22 3 0.03
23 3 0.03
24 89 0.85
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.20
Consensus pattern (24 bp):
ACGCACACATAGTGCCATACAAAT
Found at i:12242274 original size:85 final size:85
Alignment explanation
Indices: 12242128--12242298 Score: 306
Period size: 85 Copynumber: 2.0 Consensus size: 85
12242118 CATCTAACCG
* * *
12242128 TATGCCCATTTAATCACCTATTTAAGTAGAAAATCAATATATGGGTTATAACAATATATTGACTA
1 TATGCCCATTTAATCACCTATTTAAGTAGAAAATCAACATATGGGTTATAACAAGACATTGACTA
12242193 CTAACTAAATTTTCATAAAA
66 CTAACTAAATTTTCATAAAA
*
12242213 TATGCCCATTTAATCACCTATTTAAGTAGAATATCAACATATGGGTTATAACAAGACATTGACTA
1 TATGCCCATTTAATCACCTATTTAAGTAGAAAATCAACATATGGGTTATAACAAGACATTGACTA
12242278 CTAACTAAATTTTCATAAAA
66 CTAACTAAATTTTCATAAAA
12242298 T
1 T
12242299 TTAATAGAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.35
Consensus pattern (85 bp):
TATGCCCATTTAATCACCTATTTAAGTAGAAAATCAACATATGGGTTATAACAAGACATTGACTA
CTAACTAAATTTTCATAAAA
Found at i:12258492 original size:115 final size:110
Alignment explanation
Indices: 12258308--12258610 Score: 294
Period size: 115 Copynumber: 2.7 Consensus size: 110
12258298 AATAAATTAG
* ** * * *
12258308 GGTTT-AAGGTACATTTTTAATTTTT-TAATTATTATTTATTTGTTTGATTTATAAACCTTATTA
1 GGTTTAAAGGAACATTTTT--TTTTTGTAACAATTATTTATTTGTTTGTTTTGT-AATCTTATTA
* * * * *
12258371 TTTGTCCTATTTTGA-GGTTTTGGAAAGGGAGGAGG-CAGCAGATTAA
63 ATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
12258417 GGTTTAAAGGAACATTTGTAATGTTTTTCCGTAACAATTATTTATTTGTTTGTTTTGTAATCTTC
1 GGTTTAAAGGAACATTT-T--T-TTTTT--GTAACAATTATTTATTTGTTTGTTTTGTAATCTT-
* *
12258482 ATTAAATGTCCCATTTT-ATGATTTTGGAAAGAGAGGAGGCAACAACAGACTAA
59 ATTAATTGTCCTATTTTGATGATTTTGGAAAGAGAGGAGG--ACAACAGACTAA
* ** *
12258535 GGTTTAAAGGTACATTTTTTTTTTGTAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATT-AT
1 GGTTTAAAGGAACATTTTTTTTTTGTAACAATTATTTATTTGTTTGTTTTGTAAT-CTTATTAAT
12258599 TGTCCTATTTTG
65 TGTCCTATTTTG
12258611 TGGTGTTGTG
Statistics
Matches: 160, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
109 5 0.03
110 10 0.06
111 12 0.08
112 36 0.22
113 4 0.03
114 11 0.07
115 56 0.35
117 1 0.01
118 25 0.16
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (110 bp):
GGTTTAAAGGAACATTTTTTTTTTGTAACAATTATTTATTTGTTTGTTTTGTAATCTTATTAATT
GTCCTATTTTGATGATTTTGGAAAGAGAGGAGGACAACAGACTAA
Found at i:12258589 original size:112 final size:112
Alignment explanation
Indices: 12258268--12258614 Score: 332
Period size: 112 Copynumber: 3.1 Consensus size: 112
12258258 GTGAAGAAAG
* * * * * *
12258268 TTTTATGGTATTGGAAGGAGAGGAGACAACAATAAATTAGGGTTT-AAGGTACATTTTTAATTTT
1 TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTT-ATTTT
* * * ** *
12258332 T-TAATTATTATTTATTTGTTTGATTTATAAACCTTATTATTTGTCCTA
65 TGTAATTATTATTTATTTGTTTGTTTTGT-AATCTTATTAAATGTCCCA
* * * *
12258380 TTTTGA-GGTTTTGGAAAGGGAGGAGG---CAGCAGATTAAGGTTTAAAGGAACATTTGTAATGT
1 TTTT-ATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTT-T--TAT
**
12258441 TTTTCCGTAACAATTATTTATTTGTTTGTTTTGTAATCTTCATTAAATGTCCCA
62 TTTT--GTAATTATTATTTATTTGTTTGTTTTGTAATCTT-ATTAAATGTCCCA
* *
12258495 TTTTATGATTTTGGAAAGAGAGGAGGCAACAACAGACTAAGGTTTAAAGGTACATTTTT-TTTTT
1 TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTTATTTTT
* * *
12258559 GTAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATT-ATTGTCCTA
66 GTAATTATTATTTATTTGTTTGTTTTGTAAT-CTTATTAAATGTCCCA
*
12258606 TTTTGTGGT
1 TTTTATGGT
12258615 GTTGTGTTAT
Statistics
Matches: 191, Mismatches: 30, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
109 12 0.06
110 10 0.05
111 15 0.08
112 56 0.29
113 5 0.03
114 11 0.06
115 56 0.29
117 1 0.01
118 25 0.13
ACGTcount: A:0.28, C:0.08, G:0.19, T:0.45
Consensus pattern (112 bp):
TTTTATGGTTTTGGAAAGAGAGGAGGCAACAACAGATTAAGGTTTAAAGGTACATTTTTATTTTT
GTAATTATTATTTATTTGTTTGTTTTGTAATCTTATTAAATGTCCCA
Found at i:12258946 original size:16 final size:16
Alignment explanation
Indices: 12258906--12258952 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
12258896 TTTCTTCAAC
*
12258906 ATTATTATTTTTT-CA
1 ATTATTATTTTTTGTA
**
12258921 ATTACAATTTTTTGTA
1 ATTATTATTTTTTGTA
12258937 ATTATTATTTATTTGT
1 ATTATTATTT-TTTGT
12258953 TTGAATGCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (16 bp):
ATTATTATTTTTTGTA
Found at i:12268711 original size:14 final size:14
Alignment explanation
Indices: 12268691--12268723 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12268681 ATGAGTGAAT
12268691 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
12268704 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
12268719 GGAAG
1 GGAAG
12268724 GTCTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:12272757 original size:31 final size:31
Alignment explanation
Indices: 12272719--12272836 Score: 136
Period size: 31 Copynumber: 3.9 Consensus size: 31
12272709 ATCAACTTAA
*
12272719 GAAAAAGTGTCAAGTTTAGGTACTAAATTAG
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
*
12272750 GAAAAAGTGTCAAGTTTGGGTACCAAATTA-
1 GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
** *
12272780 GATAAAA---AAAAGTTTAGATACCAAATTAG
1 GA-AAAAGTGTCAAGTTTAGGTACCAAATTAG
* *
12272809 AAAAAAGTGTCAAGTTCAGGTACCAAAT
1 GAAAAAGTGTCAAGTTTAGGTACCAAAT
12272837 ATTATATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
28 21 0.30
29 1 0.01
30 2 0.03
31 47 0.66
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GAAAAAGTGTCAAGTTTAGGTACCAAATTAG
Found at i:12272801 original size:28 final size:27
Alignment explanation
Indices: 12272761--12272814 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
12272751 AAAAAGTGTC
* *
12272761 AAGTTTGGGTACCAAATTAGATAAAAAA
1 AAGTTTAGATACCAAATTAGA-AAAAAA
12272789 AAGTTTAGATACCAAATTAGAAAAAA
1 AAGTTTAGATACCAAATTAGAAAAAA
12272815 GTGTCAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (27 bp):
AAGTTTAGATACCAAATTAGAAAAAAA
Found at i:12272850 original size:12 final size:12
Alignment explanation
Indices: 12272833--12272858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12272823 TTCAGGTACC
12272833 AAATATTATATT
1 AAATATTATATT
12272845 AAATATTATATT
1 AAATATTATATT
12272857 AA
1 AA
12272859 GCTTAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATATTATATT
Found at i:12273838 original size:30 final size:29
Alignment explanation
Indices: 12273802--12273858 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
12273792 AGGAGAAAAA
12273802 GTTGTGTTT-GGGATTTGAGAAAAAATTAGT
1 GTTGTGTTTAGGG-TTTGA-AAAAAATTAGT
12273832 GTTGTGTTTAGGGTTTGAAAAAAATTA
1 GTTGTGTTTAGGGTTTGAAAAAAATTA
12273859 ATTAAGAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.35
30 14 0.54
31 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (29 bp):
GTTGTGTTTAGGGTTTGAAAAAAATTAGT
Found at i:12274198 original size:49 final size:49
Alignment explanation
Indices: 12274145--12274310 Score: 271
Period size: 49 Copynumber: 3.4 Consensus size: 49
12274135 TGTTTTATTT
*
12274145 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAA
*
12274194 TTTTTATGTAATTTATTTTTCATATGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAA
* * *
12274243 TTTTTATGTAATTTA-TTATCATATGTGTTTTAAGTTTATTAGATTTATT
1 TTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTA-A
12274292 TTTTTATGTAATTTATTTG
1 TTTTTATGTAATTTATTTG
12274311 GCATGTTATT
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
48 30 0.28
49 77 0.71
50 2 0.02
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (49 bp):
TTTTTATGTAATTTATTTGTCATATGTGTTTTAGGTTTATTAGATTTAA
Found at i:12274207 original size:16 final size:16
Alignment explanation
Indices: 12274188--12274257 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
12274178 GGTTTATTAG
12274188 ATTTAATTTTTATGTA
1 ATTTAATTTTTATGTA
*
12274204 ATTTATTTTTCATATGT-
1 ATTTAATTTT--TATGTA
* * **
12274221 GTTTTAGGTTTAT-TA
1 ATTTAATTTTTATGTA
12274236 GATTTAATTTTTATGTA
1 -ATTTAATTTTTATGTA
12274253 ATTTA
1 ATTTA
12274258 TTATCATATG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
14 1 0.03
15 3 0.08
16 23 0.59
17 7 0.18
18 5 0.13
ACGTcount: A:0.27, C:0.01, G:0.10, T:0.61
Consensus pattern (16 bp):
ATTTAATTTTTATGTA
Found at i:12274403 original size:26 final size:27
Alignment explanation
Indices: 12274367--12274419 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
12274357 AGGTAAAAGA
*
12274367 TGAGATCATTGAGATGAAATTTGTGAG
1 TGAGATCATTGAGATGAAATTTATGAG
*
12274394 TGAGA-CATTGAGTTGAAATTTATGAG
1 TGAGATCATTGAGATGAAATTTATGAG
12274420 ATAAATTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (27 bp):
TGAGATCATTGAGATGAAATTTATGAG
Found at i:12275944 original size:14 final size:14
Alignment explanation
Indices: 12275925--12275959 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
12275915 CATATTTTTT
*
12275925 TTCTAATGGTACTA
1 TTCTAATGATACTA
12275939 TTCTAATGATACTA
1 TTCTAATGATACTA
12275953 TTCTAAT
1 TTCTAAT
12275960 ATGTAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (14 bp):
TTCTAATGATACTA
Found at i:12276625 original size:24 final size:24
Alignment explanation
Indices: 12276573--12276637 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
12276563 TTGGGGCATA
12276573 CGAGCCAAAGCTTGAGCCCAAGCC
1 CGAGCCAAAGCTTGAGCCCAAGCC
* *
12276597 TGAGCCTAAGCTTGA-CCCTGAA-CC
1 CGAGCCAAAGCTTGAGCCC--AAGCC
* *
12276621 CGAGCCAGAGCCTGAGC
1 CGAGCCAAAGCTTGAGC
12276638 GGTCGCATAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.12
Consensus pattern (24 bp):
CGAGCCAAAGCTTGAGCCCAAGCC
Found at i:12276815 original size:33 final size:33
Alignment explanation
Indices: 12276773--12276838 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
12276763 TATAACACCC
* *
12276773 GTATCCACCGCATTACTCTACTCCTCCCGGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
12276806 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
1 GTATCCACCGCAATACTCTACTCCTCCCAGCTT
12276839 AAGTTTATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.18, C:0.42, G:0.11, T:0.29
Consensus pattern (33 bp):
GTATCCACCGCAATACTCTACTCCTCCCAGCTT
Found at i:12277259 original size:48 final size:49
Alignment explanation
Indices: 12277093--12277299 Score: 269
Period size: 49 Copynumber: 4.3 Consensus size: 49
12277083 GTATTTATTT
* * **
12277093 AATTAGATTA-ATTGCAATATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGA-TACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
*
12277142 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGATCATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
* * *
12277191 AATTAGATGCATTACAACATTAAAACTTGGAACAGACTCTGTAAT-ATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
** * *
12277239 AATTAGATACATTACAACATTAAAACGAGGAAC-AACTTTGCAAT-TTA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
12277286 AATTAGATACATTA
1 AATTAGATACATTA
12277300 AATTACATAA
Statistics
Matches: 143, Mismatches: 14, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 24 0.17
48 35 0.24
49 84 0.59
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (49 bp):
AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTAATCATA
Found at i:12280894 original size:51 final size:49
Alignment explanation
Indices: 12280761--12280946 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 49
12280751 GTGAAAGTGA
* **
12280761 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATA-G-T
* * * *
12280811 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACTGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAG-T
* *
12280861 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGT
*
12280911 GATGGTCACATGTATAGTACTATGTGCAGGCTACTA
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
12280947 TGTGAACCGG
Statistics
Matches: 114, Mismatches: 17, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
50 42 0.37
51 71 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGT
Found at i:12281036 original size:46 final size:43
Alignment explanation
Indices: 12280952--12281036 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 43
12280942 TACTATGTGA
*
12280952 ACCGGTATCATTAATTATAAGGTGGTTTCTTCGTGCTGATCCC
1 ACCGGTATCATTAATTATAAGGTGGTTGCTTCGTGCTGATCCC
*
12280995 ACCGGATATCATTGATTATAAAGGGTGGTTGCTGT-GTGCTGA
1 ACCGG-TATCATTAATTAT-AA-GGTGGTTGCT-TCGTGCTGA
12281037 ATCCACTATG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
43 5 0.14
44 12 0.33
45 2 0.06
46 16 0.44
47 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
ACCGGTATCATTAATTATAAGGTGGTTGCTTCGTGCTGATCCC
Found at i:12281209 original size:15 final size:16
Alignment explanation
Indices: 12281175--12281210 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
12281165 TGATTGAAAG
*
12281175 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
12281191 TGAAAAAGTAAAATT-
1 TGAAAAAGTAAAATTA
12281206 TGAAA
1 TGAAA
12281211 CAGAATAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:12301942 original size:9 final size:9
Alignment explanation
Indices: 12301928--12301958 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12301918 GTTAAACGAA
12301928 TCGAGTTAT
1 TCGAGTTAT
*
12301937 TCGAGTTAA
1 TCGAGTTAT
12301946 TCGAGTTAT
1 TCGAGTTAT
12301955 TCGA
1 TCGA
12301959 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12302040 original size:9 final size:9
Alignment explanation
Indices: 12302011--12302047 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
12302001 TGAGTTTTCA
12302011 AATTCGAAT
1 AATTCGAAT
*
12302020 AACTCGAAT
1 AATTCGAAT
12302029 AATTCGAAT
1 AATTCGAAT
*
12302038 AATTAGAAT
1 AATTCGAAT
12302047 A
1 A
12302048 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:12321632 original size:50 final size:49
Alignment explanation
Indices: 12321507--12321637 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
12321497 CTGATAATAC
* * * * *
12321507 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTTCTATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCTATA
* * *
12321556 ATGCCAATGTCATATCCCAGAGATGGTCTTACATGAGA-GTTCTCATACTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTC-TA-TA
* * *
12321606 GTGCCCATGCCATGTCCCAGACATGGTTTTAC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC
12321638 GCGGGACCTC
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
48 5 0.08
49 33 0.50
50 28 0.42
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (49 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCTATA
Found at i:12321739 original size:50 final size:50
Alignment explanation
Indices: 12321570--12321739 Score: 173
Period size: 50 Copynumber: 3.4 Consensus size: 50
12321560 CAATGTCATA
* * ** * *
12321570 TCCCAGAGATGGTCTTACATGAGAGTTCTCATACT-AGTGCCCA-TGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-CTCGGTGCCAACT-CCATG
* ** *
12321620 TCCCAGACATGGTTTTACGCGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
* * ** *
12321670 TCCTAGATATGGAATTACATGGGACCTCTCATCTCGGTGCCAACTCCTTG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
12321720 TCCCAGACATGGTCTTACAT
1 TCCCAGACATGGTCTTACAT
12321740 AGGATCTCAT
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.02
50 94 0.98
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACTCCATG
Found at i:12325920 original size:50 final size:49
Alignment explanation
Indices: 12325793--12325922 Score: 176
Period size: 48 Copynumber: 2.7 Consensus size: 49
12325783 GAAGTTAGTA
* *
12325793 GCAGTTTACCTGCAAATCAGTGGTGGCTT-TCCACAAAGTGTTTTAGTG
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTG
* * * *
12325841 GTAGTATATCTGCATAT--GTGGTGGCTTGTCCACAATGTGTTATCAGTG
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTT-TCAGTG
12325889 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
1 GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCA
12325923 TAAATGGTGG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 10 0.14
47 12 0.17
48 32 0.46
50 15 0.22
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (49 bp):
GCAGTTTATCTGCAAATCAGTGGTGGCTTGTCCACAAAGTGTTTCAGTG
Found at i:12337674 original size:17 final size:18
Alignment explanation
Indices: 12337635--12337675 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
12337625 TTTTATAAGT
12337635 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
12337653 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
12337670 TGTGAA
1 TGTGAA
12337676 AGGAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:12337925 original size:23 final size:23
Alignment explanation
Indices: 12337899--12337951 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
12337889 AGTGTTATTG
12337899 ATCAGTGGTAGCTAT-GACTACAT
1 ATCAGTGGTAGCT-TCGACTACAT
*
12337922 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAT
12337945 ATCAGTG
1 ATCAGTG
12337952 TGGCACTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 1 0.04
23 27 0.96
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGACTACAT
Found at i:12347225 original size:21 final size:20
Alignment explanation
Indices: 12347196--12347243 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
12347186 TATTCCTTAG
12347196 AATTTTTTTAAAAAAAATTTA
1 AATTTTTTTAAAAAAAA-TTA
*
12347217 TAATTTTTTTTAAAAAAATTA
1 -AATTTTTTTAAAAAAAATTA
12347238 AATTTT
1 AATTTT
12347244 AAGTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 16 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTTTTTAAAAAAAATTA
Found at i:12351123 original size:14 final size:14
Alignment explanation
Indices: 12351090--12351140 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
12351080 AGAAATAATG
* *
12351090 AATTTCTAAATCATA
1 AATTTCAAAATTA-A
12351105 AATTTCAAAATTAA
1 AATTTCAAAATTAA
* *
12351119 AATTTTAAAATTCA
1 AATTTCAAAATTAA
12351133 AATTTCAA
1 AATTTCAA
12351141 TTCCCAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTCAAAATTAA
Found at i:12368874 original size:29 final size:29
Alignment explanation
Indices: 12368817--12368874 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
12368807 TCAATCTAGG
* *
12368817 TTATGTTAGGTTCGAATTATGGTTGAATT
1 TTATGTTAGGCTCGAATTATGGTAGAATT
12368846 TTATGTTTAGGCTCG-ATTA-GGTAGCAATT
1 TTATG-TTAGGCTCGAATTATGGTAG-AATT
12368875 GGACAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.16
29 13 0.52
30 8 0.32
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (29 bp):
TTATGTTAGGCTCGAATTATGGTAGAATT
Found at i:12368975 original size:2 final size:2
Alignment explanation
Indices: 12368968--12368992 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12368958 AAATTTTTAA
12368968 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
12368993 AACAGGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12371020 original size:18 final size:16
Alignment explanation
Indices: 12370996--12371075 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 16
12370986 ATTATTGTTA
12370996 AATTTTATTATTAAAAT
1 AATTTTATTATT-AAAT
*
12371013 ACATTTTAATATTAAAT
1 A-ATTTTATTATTAAAT
12371030 AA-TTTATTA-T-AAT
1 AATTTTATTATTAAAT
* * *
12371043 AATATTATTAATAATT
1 AATTTTATTATTAAAT
* * *
12371059 TATTATATTATCAAAT
1 AATTTTATTATTAAAT
12371075 A
1 A
12371076 TAAATAAGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
13 5 0.10
14 7 0.15
15 7 0.15
16 13 0.27
17 6 0.12
18 10 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTTTATTATTAAAT
Found at i:12371052 original size:14 final size:13
Alignment explanation
Indices: 12371022--12371065 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
12371012 TACATTTTAA
12371022 TATTA-AATAATT
1 TATTATAATAATT
12371034 TATTATAATAA--
1 TATTATAATAATT
12371045 TATTATTAATAATT
1 TATTA-TAATAATT
12371059 TATTATA
1 TATTATA
12371066 TTATCAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
11 5 0.18
12 11 0.39
13 7 0.25
14 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTATAATAATT
Found at i:12371059 original size:25 final size:23
Alignment explanation
Indices: 12371019--12371065 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 23
12371009 AAATACATTT
12371019 TAATATTAAATAATTTATTATAA
1 TAATATTAAATAATTTATTATAA
12371042 TAATATTATTAATAATTTATTATA
1 TAATATTA--AATAATTTATTATA
12371066 TTATCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATATTAAATAATTTATTATAA
Found at i:12372078 original size:5 final size:5
Alignment explanation
Indices: 12372068--12372092 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12372058 TAAGTGATTC
12372068 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
12372093 ATTTCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:12373495 original size:18 final size:19
Alignment explanation
Indices: 12373472--12373507 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
12373462 TCTTTTTCAC
12373472 GTTTTTCTTTTC-TCTTTA
1 GTTTTTCTTTTCTTCTTTA
12373490 GTTTTTCTTTTCTTCTTT
1 GTTTTTCTTTTCTTCTTT
12373508 CTTTGTTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.03, C:0.17, G:0.06, T:0.75
Consensus pattern (19 bp):
GTTTTTCTTTTCTTCTTTA
Found at i:12373735 original size:34 final size:34
Alignment explanation
Indices: 12373697--12373767 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
12373687 TCGTTCAAGT
* *
12373697 TGAGATCATGTATTA-TTTGTTTTGTTTGAATTTG
1 TGAGATCATGTA-GAGTTTGTTTTGTTCGAATTTG
*
12373731 TGAGATCGTGTAGAGTTTGTTTTGTTCGAATTTG
1 TGAGATCATGTAGAGTTTGTTTTGTTCGAATTTG
12373765 TGA
1 TGA
12373768 TTATTGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.20, C:0.04, G:0.25, T:0.51
Consensus pattern (34 bp):
TGAGATCATGTAGAGTTTGTTTTGTTCGAATTTG
Found at i:12374851 original size:15 final size:15
Alignment explanation
Indices: 12374831--12374860 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12374821 ACGATCCAAC
*
12374831 ATGATATGTTATGAT
1 ATGATAAGTTATGAT
12374846 ATGATAAGTTATGAT
1 ATGATAAGTTATGAT
12374861 CCATATGAAT
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:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (15 bp):
ATGATAAGTTATGAT
Found at i:12383021 original size:40 final size:40
Alignment explanation
Indices: 12382953--12383221 Score: 297
Period size: 40 Copynumber: 6.7 Consensus size: 40
12382943 AAGAAAATAT
* * * *
12382953 CCCCTGAATGCACATACGTACGCTTGTTTGTACTTCGGTA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
* * *
12382993 CCCCCAAATGCACATACGTGCCCCTGTTTCTACTTTGGTA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
12383033 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
* * *
12383073 CCCCCGAATGCACATATGTGCCCCTATTTTTACTTCGGTA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
* * * * * * **
12383113 CCCCTGAATACACATACATTCCCTTGTTTATACTTCAATA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
* * * *
12383153 CTCCTGAATGCACATACGTGCCCCTGTATGTACTTCAGTA
1 CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
* * *
12383193 -CTCCTACTTGCACATACGTGCCCCTGTTT
1 CCCCCGA-ATGCACATACGTGCCCCTGTTT
12383222 ATATTTTGGT
Statistics
Matches: 191, Mismatches: 37, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.32
Consensus pattern (40 bp):
CCCCCGAATGCACATACGTGCCCCTGTTTGTACTTCGGTA
Found at i:12384906 original size:9 final size:9
Alignment explanation
Indices: 12384894--12384932 Score: 69
Period size: 9 Copynumber: 4.3 Consensus size: 9
12384884 ATATTTATAG
12384894 AGTCATTAT
1 AGTCATTAT
12384903 AGTCATTAT
1 AGTCATTAT
12384912 AGTCATTAT
1 AGTCATTAT
*
12384921 AGACATTAT
1 AGTCATTAT
12384930 AGT
1 AGT
12384933 TAATTAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (9 bp):
AGTCATTAT
Found at i:12385313 original size:81 final size:81
Alignment explanation
Indices: 12385178--12385342 Score: 330
Period size: 81 Copynumber: 2.0 Consensus size: 81
12385168 TTTTCTCTTC
12385178 TTCCAGGCTGAACCTCACCATTGATGACCTAGGAAGTTTTGTTCATCTTTTGTCTTTGCATGGTA
1 TTCCAGGCTGAACCTCACCATTGATGACCTAGGAAGTTTTGTTCATCTTTTGTCTTTGCATGGTA
12385243 AGGAAATTGAATCATT
66 AGGAAATTGAATCATT
12385259 TTCCAGGCTGAACCTCACCATTGATGACCTAGGAAGTTTTGTTCATCTTTTGTCTTTGCATGGTA
1 TTCCAGGCTGAACCTCACCATTGATGACCTAGGAAGTTTTGTTCATCTTTTGTCTTTGCATGGTA
12385324 AGGAAATTGAATCATT
66 AGGAAATTGAATCATT
12385340 TTC
1 TTC
12385343 TTATAATTTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 84 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (81 bp):
TTCCAGGCTGAACCTCACCATTGATGACCTAGGAAGTTTTGTTCATCTTTTGTCTTTGCATGGTA
AGGAAATTGAATCATT
Found at i:12393351 original size:20 final size:20
Alignment explanation
Indices: 12393324--12393369 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
12393314 AGTGGATGGG
* *
12393324 GATATGATTTGATTTGTTAT
1 GATATGATTCGATTTGATAT
*
12393344 GCTATGATTCGATTTGATAT
1 GATATGATTCGATTTGATAT
12393364 GATATG
1 GATATG
12393370 TTATGATACG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (20 bp):
GATATGATTCGATTTGATAT
Found at i:12393369 original size:25 final size:25
Alignment explanation
Indices: 12393324--12393402 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
12393314 AGTGGATGGG
* * *
12393324 GATATGATTTGATTTGTTATGCTAT
1 GATACGATTTGATATGATATGCTAT
* *
12393349 GATTCGATTTGATATGATATGTTAT
1 GATACGATTTGATATGATATGCTAT
* *
12393374 GATACGATCT-AGCATGATATGCTAT
1 GATACGATTTGA-TATGATATGCTAT
12393399 GATA
1 GATA
12393403 TGATAAGTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 1 0.02
25 43 0.98
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (25 bp):
GATACGATTTGATATGATATGCTAT
Found at i:12393415 original size:25 final size:25
Alignment explanation
Indices: 12393361--12393415 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
12393351 TTCGATTTGA
* *
12393361 TATGATATGTTATGATACGATCTAG
1 TATGATATGCTATGATACGATCAAG
* *
12393386 CATGATATGCTATGATATGAT-AAG
1 TATGATATGCTATGATACGATCAAG
12393410 TTATGA
1 -TATGA
12393416 CTCATATGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 2 0.08
25 22 0.92
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.38
Consensus pattern (25 bp):
TATGATATGCTATGATACGATCAAG
Found at i:12402662 original size:265 final size:265
Alignment explanation
Indices: 12402189--12402723 Score: 912
Period size: 265 Copynumber: 2.0 Consensus size: 265
12402179 TCAGATTTCC
* * * *
12402189 TCTTTGGAAGGGAAGGTGGTACTTCTATCTTTTGCTTTTGGTGTTGATTCAACTTTTGAATTTGC
1 TCTTTGGAAGGGAAAGTGGAACTTCCATCTTTTGCTTTCGGTGTTGATTCAACTTTTGAATTTGC
12402254 TTCATTTGCAATTATCAATATTGTCCAAGAATGCTATCACCAATAATGCTTTTCATGGGTTTATG
66 TTCATTTGCAATTATCAATATTGTCCAAGAATGCTATCACCAATAATGCTTTTCATGGGTTTATG
12402319 GAACTATTCAGTTGGCTCTATTTTCACCTTAGCTTTACGACATAAATCTGTGACCTAGTGTGGAA
131 GAACTATTCAGTTGGCTCTATTTTCACCTTAGCTTTACGACATAAATCTGTGACCTAGTGTGGAA
* *
12402384 AATATATACAAACTTTACCTCTAGAAACACATTTACACATATATTTGTGAACCCATTTCCCTAAA
196 AATATATACAAACTTTACCTCCAGAAACACAGTTACACATATATTTGTGAACCCATTTCCCTAAA
12402449 AAAAT
261 AAAAT
* *
12402454 TCTTTGGAAGGGAAAGTGGAACTTCCATCTTTTGCTTTCGGTGTTGGTTTC-CCTTTTGAATTTG
1 TCTTTGGAAGGGAAAGTGGAACTTCCATCTTTTGCTTTCGGTGTT-GATTCAACTTTTGAATTTG
* **
12402518 CTTCATTTGCAATTATCAATATTGTCCAAGAATGGTATCACCAATAATGCTTTTTGTGGGTTTAT
65 CTTCATTTGCAATTATCAATATTGTCCAAGAATGCTATCACCAATAATGCTTTTCATGGGTTTAT
*
12402583 GGAACTATTCAGTTGGCTCTATTTTCACCTTAGCTTTACTG-CATAAATTTGTGACCTAGTGTGG
130 GGAACTATTCAGTTGGCTCTATTTTCACCTTAGCTTTAC-GACATAAATCTGTGACCTAGTGTGG
*
12402647 AAAATATATACAAACTTTACCTCCAGAAACACAGTTACACATATATTTGTGAATCCATTTCCCTA
194 AAAATATATACAAACTTTACCTCCAGAAACACAGTTACACATATATTTGTGAACCCATTTCCCTA
*
12402712 AGAAAAT
259 AAAAAAT
12402719 TCTTT
1 TCTTT
12402724 TTTTTCTGAG
Statistics
Matches: 254, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
265 249 0.98
266 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (265 bp):
TCTTTGGAAGGGAAAGTGGAACTTCCATCTTTTGCTTTCGGTGTTGATTCAACTTTTGAATTTGC
TTCATTTGCAATTATCAATATTGTCCAAGAATGCTATCACCAATAATGCTTTTCATGGGTTTATG
GAACTATTCAGTTGGCTCTATTTTCACCTTAGCTTTACGACATAAATCTGTGACCTAGTGTGGAA
AATATATACAAACTTTACCTCCAGAAACACAGTTACACATATATTTGTGAACCCATTTCCCTAAA
AAAAT
Found at i:12416130 original size:23 final size:23
Alignment explanation
Indices: 12416072--12416132 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
12416062 ATTATATTTT
* *
12416072 TATATTATTATAAATTTAAAATA
1 TATATTATTTTATATTTAAAATA
** *
12416095 TATAAAATCTTATATTTATAAA-A
1 TATATTATTTTATATTTA-AAATA
12416118 TATATTATTTTATAT
1 TATATTATTTTATAT
12416133 CAAGATTTTA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATTATTTTATATTTAAAATA
Found at i:12416168 original size:23 final size:25
Alignment explanation
Indices: 12416141--12416196 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
12416131 ATCAAGATTT
*
12416141 TATAAAATAT-ATTT-TTCCAAATA
1 TATAAAATATAATTTATACCAAATA
12416164 TATAAAATATAATTTATACCAAATA
1 TATAAAATATAATTTATACCAAATA
12416189 TATAAAAT
1 TATAAAAT
12416197 CTAAAATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 10 0.33
24 4 0.13
25 16 0.53
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (25 bp):
TATAAAATATAATTTATACCAAATA
Found at i:12416225 original size:17 final size:18
Alignment explanation
Indices: 12416205--12416239 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12416195 ATCTAAAATG
*
12416205 TATAAAA-ATCATATTTT
1 TATAAAATATCAAATTTT
12416222 TATAAAATATCAAATTTT
1 TATAAAATATCAAATTTT
12416240 ATGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TATAAAATATCAAATTTT
Found at i:12424966 original size:85 final size:84
Alignment explanation
Indices: 12424835--12425001 Score: 201
Period size: 85 Copynumber: 2.0 Consensus size: 84
12424825 AGTTTCTCTA
* * ** *
12424835 TTTTTTTTACTCAATTGAGCACTTAAATTTTCAAAACATATTAAAAAGTCCTCAAACCTCTTCAA
1 TTTTTTTCACTCAATTGAGCACTTAAATTTTCAAAACATAATAAAAAACCCTCAAAACTCTTCAA
12424900 AAAATACAATTAAGCCCCAG
66 AAAA-ACAATTAAGCCCCAG
* * * * *
12424920 TTTTTTTCACTCAATTGGGTACTTGAATTTTCAAAATGCATAA-AAAAAACCCTCAAAATTGTTC
1 TTTTTTTCACTCAATTGAGCACTTAAATTTTCAAAA--CATAATAAAAAACCCTCAAAACTCTTC
*
12424984 AAAAAAGCAATTAAGCCC
64 AAAAAAACAATTAAGCCC
12425002 TACTCTTATT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 43 0.62
86 22 0.32
87 4 0.06
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (84 bp):
TTTTTTTCACTCAATTGAGCACTTAAATTTTCAAAACATAATAAAAAACCCTCAAAACTCTTCAA
AAAAACAATTAAGCCCCAG
Found at i:12425055 original size:28 final size:27
Alignment explanation
Indices: 12425009--12425073 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
12424999 CCCTACTCTT
*
12425009 ATTAAAAATTAGAAAAAATTTTGAAAAA
1 ATTAAAAATTAGAAAAAA-TTAGAAAAA
*
12425037 ATTAAAATTTATG-AAAAATTAGAAAAAA
1 ATTAAAAATTA-GAAAAAATTAG-AAAAA
12425065 ATTATAAAA
1 ATTA-AAAA
12425074 ATCGTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 24 0.77
29 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (27 bp):
ATTAAAAATTAGAAAAAATTAGAAAAA
Found at i:12425091 original size:37 final size:37
Alignment explanation
Indices: 12425050--12425123 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
12425040 AAAATTTATG
*
12425050 AAAAATTAGAAAAAAATTATAAAAATCGTAAAAAAATA
1 AAAAATT-GAAAAAAATTATAAAAATCATAAAAAAATA
* **
12425088 AAAAATTGTAAAATTTTATAAAAATCATAAAAAAAT
1 AAAAATTGAAAAAAATTATAAAAATCATAAAAAAAT
12425124 TAACAACCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (37 bp):
AAAAATTGAAAAAAATTATAAAAATCATAAAAAAATA
Found at i:12425338 original size:29 final size:28
Alignment explanation
Indices: 12425302--12425396 Score: 84
Period size: 28 Copynumber: 3.3 Consensus size: 28
12425292 TTATATTTTA
*
12425302 TATAATTTTCTTACAATTTTATAAAATTT
1 TATAATTTTTTTA-AATTTTATAAAATTT
* * *
12425331 TATAATTTTTTTATATTTCTAT-ATATCT
1 TATAATTTTTTTAAATTT-TATAAAATTT
* *
12425359 TATGATTTTTTTATGATTTTTATAAAATTT
1 TATAATTTTTTTA--AATTTTATAAAATTT
*
12425389 TACAATTT
1 TATAATTT
12425397 ATATATATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
28 20 0.39
29 18 0.35
30 13 0.25
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TATAATTTTTTTAAATTTTATAAAATTT
Found at i:12425517 original size:27 final size:27
Alignment explanation
Indices: 12425413--12425521 Score: 98
Period size: 25 Copynumber: 4.0 Consensus size: 27
12425403 ATTTACGATT
* *
12425413 TTTATATTTTTTTTCTAATTTTTAATA
1 TTTATAGTTTTTTTATAATTTTTAATA
* *
12425440 TTTGAATA-TTTTTATTAAAATTTAATAATA
1 TTT--ATAGTTTTT-TTATAATTT-TTAATA
* * *
12425470 TTTATAGCTTTTAT-TGA-TTTTAATA
1 TTTATAGTTTTTTTATAATTTTTAATA
12425495 TTTATAGTTTTTTTATAATTTTTAATA
1 TTTATAGTTTTTTTATAATTTTTAATA
12425522 AAAGCAGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
25 17 0.27
26 4 0.06
27 12 0.19
28 9 0.14
29 14 0.22
30 8 0.12
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTATAGTTTTTTTATAATTTTTAATA
Found at i:12425702 original size:88 final size:90
Alignment explanation
Indices: 12425529--12425702 Score: 264
Period size: 88 Copynumber: 2.0 Consensus size: 90
12425519 ATAAAAGCAG
*
12425529 GGGCTTAATTGATTTTCTTGAAAAAGTTTGAGGGTCTTTTTGATGCATTTTAAAAGTTCAAGTAC
1 GGGCTTAATTGATTTTCTTGAAAAAGTTTGAGGGACTTTTTGATGCATTTTAAAAGTTCAAGTAC
* * * *
12425594 CCAATTGAGTGCAAAGAAAAATAGA
66 CCAAATGAATGAAAAAAAAAATAGA
*
12425619 GGGCTTAATTGCA-TTT-TTGAAAAGGTTTGA-GGACTTTTTGATGCATTTTAAAAGTTCAAGTA
1 GGGCTTAATTG-ATTTTCTTGAAAAAGTTTGAGGGACTTTTTGATGCATTTTAAAAGTTCAAGTA
12425681 CCCAAATGAATGAAAAAAAAAA
65 CCCAAATGAATGAAAAAAAAAA
12425703 GTGACTTAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
88 49 0.64
89 13 0.17
90 14 0.18
91 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (90 bp):
GGGCTTAATTGATTTTCTTGAAAAAGTTTGAGGGACTTTTTGATGCATTTTAAAAGTTCAAGTAC
CCAAATGAATGAAAAAAAAAATAGA
Found at i:12427979 original size:36 final size:36
Alignment explanation
Indices: 12427936--12428004 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
12427926 ATTAGAGTGG
* *
12427936 GAAAGAAAGAGATATGCGAA-AAAGATAGAGAAACAA
1 GAAAGAAAGAGACATG-GAAGAAACATAGAGAAACAA
*
12427972 GAAAGAAATAGACATGGAAGAAACATAGAGAAA
1 GAAAGAAAGAGACATGGAAGAAACATAGAGAAA
12428005 TGAGAGAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 3 0.10
36 26 0.90
ACGTcount: A:0.61, C:0.06, G:0.25, T:0.09
Consensus pattern (36 bp):
GAAAGAAAGAGACATGGAAGAAACATAGAGAAACAA
Done.