Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 163 of 207
Found at i:50163710 original size:25 final size:25
Alignment explanation
Indices: 50163681--50163735 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
50163671 AGAGCCTTTA
50163681 ATCGGGAAGGTTCAAACGAACCAAT
1 ATCGGGAAGGTTCAAACGAACCAAT
* *
50163706 ATCGGGAAGGTTCAAGCGAGCCAAT
1 ATCGGGAAGGTTCAAACGAACCAAT
50163731 ATCGG
1 ATCGG
50163736 AAAACTCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (25 bp):
ATCGGGAAGGTTCAAACGAACCAAT
Found at i:50169488 original size:30 final size:29
Alignment explanation
Indices: 50169439--50169497 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
50169429 ATCAACACGC
*
50169439 TTTTATTTTAGCGACCAAATTAACCACTT
1 TTTTATTTTAACGACCAAATTAACCACTT
*
50169468 TTTTTTTTTAACGAACCAAATTAACCACTT
1 TTTTATTTTAACG-ACCAAATTAACCACTT
50169498 AAAATATGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.42
Consensus pattern (29 bp):
TTTTATTTTAACGACCAAATTAACCACTT
Found at i:50172297 original size:23 final size:23
Alignment explanation
Indices: 50172267--50172319 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
50172257 TTATCTGCAA
50172267 GGTAAAGTAAGGAGTGTGAGCTT
1 GGTAAAGTAAGGAGTGTGAGCTT
50172290 GGTAAAGTAAGGAGTGTGAGCTT
1 GGTAAAGTAAGGAGTGTGAGCTT
50172313 GGTAAAG
1 GGTAAAG
50172320 CTCAATGAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.25
Consensus pattern (23 bp):
GGTAAAGTAAGGAGTGTGAGCTT
Found at i:50179031 original size:25 final size:25
Alignment explanation
Indices: 50179003--50179083 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
50178993 ATGCTCAGAT
*
50179003 GAGCTATGAATCGGTATGCTCTCAC
1 GAGCTATGAATCGGTAAGCTCTCAC
* * * *
50179028 GAGCTGTAAATTGGTAGGCTCAT-AC
1 GAGCTATGAATCGGTAAGCTC-TCAC
*
50179053 GAGCTGTGAATCGGTAAGCTCTCAC
1 GAGCTATGAATCGGTAAGCTCTCAC
50179078 GAGCTA
1 GAGCTA
50179084 AAATTAGTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (25 bp):
GAGCTATGAATCGGTAAGCTCTCAC
Found at i:50179057 original size:50 final size:49
Alignment explanation
Indices: 50179003--50179109 Score: 142
Period size: 50 Copynumber: 2.2 Consensus size: 49
50178993 ATGCTCAGAT
* * * * *
50179003 GAGCTATGAATCGGTATGCTCTCACGAGCTGTAAATTGGTAGGCTCATAC
1 GAGCTATGAATCGGTAAGCTCTCACGAGCT-AAAATTAGTAAGCCCATAC
*
50179053 GAGCTGTGAATCGGTAAGCTCTCACGAGCTAAAATTAGTAAGCCCATAC
1 GAGCTATGAATCGGTAAGCTCTCACGAGCTAAAATTAGTAAGCCCATAC
*
50179102 AAGCTATG
1 GAGCTATG
50179110 GTGTGTCCGC
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
49 21 0.43
50 28 0.57
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (49 bp):
GAGCTATGAATCGGTAAGCTCTCACGAGCTAAAATTAGTAAGCCCATAC
Found at i:50180939 original size:12 final size:12
Alignment explanation
Indices: 50180922--50180951 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50180912 AGTGTATAAT
*
50180922 AAAATATTAAAA
1 AAAATATAAAAA
50180934 AAAATATAAAAA
1 AAAATATAAAAA
50180946 AAAATA
1 AAAATA
50180952 AATGAGACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATATAAAAA
Found at i:50182270 original size:16 final size:16
Alignment explanation
Indices: 50182251--50182284 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50182241 AATTTTATAT
50182251 TTTTAAAATTTTGAAA
1 TTTTAAAATTTTGAAA
*
50182267 TTTTATAATTTTGAAA
1 TTTTAAAATTTTGAAA
50182283 TT
1 TT
50182285 ATTTATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTTAAAATTTTGAAA
Found at i:50194657 original size:50 final size:49
Alignment explanation
Indices: 50194570--50194671 Score: 168
Period size: 50 Copynumber: 2.1 Consensus size: 49
50194560 TCTTATAGAG
* * *
50194570 AACATATGGAAAGTGTTAAACACGTTATATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGTATTAAAAACATTATATTCTTTCCAAAAAGAATTAT
50194619 AACATATGGAAAGTATTAACAAACATTATATTCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGTATTAA-AAACATTATATTCTTTCCAAAAAGAATTAT
50194669 AAC
1 AAC
50194672 TATCATGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 18 0.37
50 31 0.63
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.31
Consensus pattern (49 bp):
AACATATGGAAAGTATTAAAAACATTATATTCTTTCCAAAAAGAATTAT
Found at i:50196694 original size:17 final size:16
Alignment explanation
Indices: 50196674--50196716 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
50196664 TTGGGTTGAG
50196674 AAAATAATTTAATTAGAA
1 AAAATAATTTAA-TA-AA
*
50196692 AAATTAATTTAATAAA
1 AAAATAATTTAATAAA
50196708 AAAATAATT
1 AAAATAATT
50196717 AACTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 10 0.43
17 2 0.09
18 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATAATTTAATAAA
Found at i:50196701 original size:18 final size:15
Alignment explanation
Indices: 50196674--50196716 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
50196664 TTGGGTTGAG
50196674 AAAATAATTTAATTAGA
1 AAAATAATTTAA-TA-A
50196691 AAAATTAATTTAATAAA
1 AAAA-TAATTTAAT-AA
50196708 AAAATAATT
1 AAAATAATT
50196717 AACTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAATAATTTAATAA
Found at i:50198312 original size:9 final size:9
Alignment explanation
Indices: 50198298--50198328 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50198288 GTTAAACGAA
50198298 TCGAGTTAT
1 TCGAGTTAT
*
50198307 TCGAGTTAA
1 TCGAGTTAT
50198316 TCGAGTTAT
1 TCGAGTTAT
50198325 TCGA
1 TCGA
50198329 ATCAACTCGA
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:50198399 original size:9 final size:9
Alignment explanation
Indices: 50198382--50198418 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50198372 TGATTTTTTG
50198382 AATTCGAAT
1 AATTCGAAT
*
50198391 AACTCGAAT
1 AATTCGAAT
50198400 AATTCGAAT
1 AATTCGAAT
50198409 AATTCGAAT
1 AATTCGAAT
50198418 A
1 A
50198419 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50215331 original size:25 final size:25
Alignment explanation
Indices: 50215303--50215358 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
50215293 CATCGGATTT
50215303 CTTCAGAGTAAAAGAAATGGG-AGAA
1 CTTCAGAGTAAAAGAAATGGGAAG-A
*
50215328 CTTCAGTGTAAAAGAAATGGGAAGA
1 CTTCAGAGTAAAAGAAATGGGAAGA
50215353 CTTCAG
1 CTTCAG
50215359 CGTTCGGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.43, C:0.11, G:0.27, T:0.20
Consensus pattern (25 bp):
CTTCAGAGTAAAAGAAATGGGAAGA
Found at i:50217681 original size:23 final size:24
Alignment explanation
Indices: 50217632--50217681 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
50217622 AGCATTTAAT
50217632 TATT-TTTTTAAAAAATTCAAAAA
1 TATTATTTTTAAAAAATTCAAAAA
50217655 -ATTATTTTT-AAAAATT-AAAAA
1 TATTATTTTTAAAAAATTCAAAAA
50217676 CTATTA
1 -TATTA
50217682 AAATTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 9 0.38
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTATTTTTAAAAAATTCAAAAA
Found at i:50217690 original size:19 final size:19
Alignment explanation
Indices: 50217668--50217717 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
50217658 ATTTTTAAAA
*
50217668 ATTAAAAACTATTAAAATT
1 ATTAAAAAATATTAAAATT
* *
50217687 ATTAAAAAGTA-TAAATTT
1 ATTAAAAAATATTAAAATT
*
50217705 ATAAAAAAATATT
1 ATTAAAAAATATT
50217718 TTTAATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTAAAAAATATTAAAATT
Found at i:50218138 original size:11 final size:11
Alignment explanation
Indices: 50218123--50218227 Score: 67
Period size: 11 Copynumber: 9.4 Consensus size: 11
50218113 AAAAATTAAA
50218123 AAAAAGTATTTT
1 AAAAA-TATTTT
50218135 AAAAATATTTT
1 AAAAATATTTT
*
50218146 ---AA-A-GTT
1 AAAAATATTTT
*
50218152 AAAAAAATTTT
1 AAAAATATTTT
50218163 AAAAAGTATTTT
1 AAAAA-TATTTT
50218175 AAAAATATTTT
1 AAAAATATTTT
* * *
50218186 AAAATTAAAAATTA
1 -AAA--AATATTTT
50218200 AAAAATTAATTTT
1 AAAAA-T-ATTTT
50218213 AAAAATATTTT
1 AAAAATATTTT
50218224 AAAA
1 AAAA
50218228 TTAAAAAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 23
0.70 0.09 0.22
Matches are distributed among these distances:
6 2 0.03
7 1 0.01
8 2 0.03
9 2 0.03
10 1 0.01
11 30 0.41
12 19 0.26
13 11 0.15
14 5 0.07
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:50218167 original size:40 final size:39
Alignment explanation
Indices: 50218113--50218244 Score: 187
Period size: 40 Copynumber: 3.4 Consensus size: 39
50218103 AATTTATTTT
* *
50218113 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAGTTAA
1 AAAAATT-TAAAAAAGTATTTTAAAAATATTTTAAAATT-A
*
50218154 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATT-
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
50218192 AAAAA-TTAAAAAATTAATTTTAAAAATATTTTAAAATTA
1 AAAAATTTAAAAAAGT-ATTTTAAAAATATTTTAAAATTA
50218231 AAAAATTTAAAAAA
1 AAAAATTTAAAAAA
50218245 TAAATATATT
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
37 8 0.10
38 27 0.33
39 5 0.06
40 36 0.43
41 7 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (39 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:50218231 original size:17 final size:17
Alignment explanation
Indices: 50218190--50218256 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 17
50218180 TATTTTAAAA
50218190 TTAAAAATTAAAAA-A-
1 TTAAAAATTAAAAATAT
**
50218205 TT-AATTTTAAAAATAT
1 TTAAAAATTAAAAATAT
*
50218221 TTTAAAATTAAAAA-AT
1 TTAAAAATTAAAAATAT
* *
50218237 TTAAAAAATAAATATAT
1 TTAAAAATTAAAAATAT
50218254 TTA
1 TTA
50218257 TTATATCGGG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.22
15 3 0.07
16 15 0.37
17 14 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATTAAAAATAT
Found at i:50220560 original size:23 final size:23
Alignment explanation
Indices: 50220522--50220565 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50220512 ATTTTATCAA
*
50220522 ATTTTTGAAACATTTTCATTGAT
1 ATTTTTGAAACATTTTAATTGAT
* *
50220545 ATTTTTGAAGCTTTTTAATTG
1 ATTTTTGAAACATTTTAATTG
50220566 TAATTGGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (23 bp):
ATTTTTGAAACATTTTAATTGAT
Found at i:50224677 original size:297 final size:297
Alignment explanation
Indices: 50224143--50224743 Score: 852
Period size: 297 Copynumber: 2.0 Consensus size: 297
50224133 AGTTAGTTTT
* * * * *
50224143 TGTTTTAATAAGTGAATTAGTGTGTTTTAAGCTATTTTTTATACCCGAATTGGCCAAATGCGCCA
1 TGTTTTAATAAGTGAACTAGTGTGTTTTAAGCTATTTTTGAAACCCAAATTGGCCAAATACGCCA
* ** *
50224208 TAGGGAACCTAATGGTTGATTAAGTGTTGTAATGAGTCAATGGATTACAATAACATAATTGGTTA
66 AAGGGAACCTAATGGTTGATTAAGTACTGTAAGGAGTCAATGGATTACAATAACATAATTGGTTA
* * * * ** *
50224273 ATAAAGCAATTCATGGATTACATTAATATACTTGTATAATTGACCTCATATAGTTTTTGAATGCA
131 ATAAAGCAATTCATGAATTACATTAATACACTTGTATAATTAAACAAACATAGTTTTTGAATGCA
50224338 AAGAAAAATAGAAGAAAATATTGGCTCATGATCTGTCGTAATTTGATACATCAAATTAAGCTCTC
196 AAGAAAAATAGAAGAAAATATTGGCTCATGATCTGTCGTAATTTGATACATCAAATTAAGCTCTC
50224403 CATTACACTTGATGAGCTTATTCTCAAGAAATTTAAA
261 CATTACACTTGATGAGCTTATTCTCAAGAAATTTAAA
* * *
50224440 TGTTTTAATAAGTGAACTAGTGTGTTTTATGCTATTTTTGAAACCTAAATTGGCCAAATACGGCA
1 TGTTTTAATAAGTGAACTAGTGTGTTTTAAGCTATTTTTGAAACCCAAATTGGCCAAATACGCCA
* * * *
50224505 AAGGGAACTTAA-GAGTTGATTAAGTACTGTAGGGAGTCAATGGATTACATTAATATAATTGGTT
66 AAGGGAACCTAATG-GTTGATTAAGTACTGTAAGGAGTCAATGGATTACAATAACATAATTGGTT
* *
50224569 AATAACA-CAATTCATGAATTACA-TAATACACTTTGTATAATTAAACAAACGTGGTTTTTGAAT
130 AATAA-AGCAATTCATGAATTACATTAATACAC-TTGTATAATTAAACAAACATAGTTTTTGAAT
* *
50224632 GCAAAGCAAAATAGAA-AGAAATATTGGCTCATGATCT-TCCGTAATTTGATACATCAAATTAGG
193 GCAAAGAAAAATAGAAGA-AAATATTGGCTCATGATCTGT-CGTAATTTGATACATCAAATTAAG
* * *
50224695 CTCTCCATTACACTTTATGAGCTTATTCTCGAGCAATTTAAA
256 CTCTCCATTACACTTGATGAGCTTATTCTCAAGAAATTTAAA
50224737 TGTTTTA
1 TGTTTTA
50224744 TTATATTTTT
Statistics
Matches: 269, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
296 10 0.04
297 258 0.96
298 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (297 bp):
TGTTTTAATAAGTGAACTAGTGTGTTTTAAGCTATTTTTGAAACCCAAATTGGCCAAATACGCCA
AAGGGAACCTAATGGTTGATTAAGTACTGTAAGGAGTCAATGGATTACAATAACATAATTGGTTA
ATAAAGCAATTCATGAATTACATTAATACACTTGTATAATTAAACAAACATAGTTTTTGAATGCA
AAGAAAAATAGAAGAAAATATTGGCTCATGATCTGTCGTAATTTGATACATCAAATTAAGCTCTC
CATTACACTTGATGAGCTTATTCTCAAGAAATTTAAA
Found at i:50226937 original size:20 final size:19
Alignment explanation
Indices: 50226912--50226961 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
50226902 GACCATTAGT
50226912 TTAATTAATTTAAGGTTTAA
1 TTAATTAATTT-AGGTTTAA
* * *
50226932 TTAATTAAATTATGTTTGA
1 TTAATTAATTTAGGTTTAA
50226951 TTAACTTAATT
1 TTAA-TTAATT
50226962 ATATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
TTAATTAATTTAGGTTTAA
Found at i:50226953 original size:19 final size:19
Alignment explanation
Indices: 50226912--50226963 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
50226902 GACCATTAGT
* *
50226912 TTAATTAATTTAAGGTTTAA
1 TTAATTAAATT-ATGTTTAA
*
50226932 TTAATTAAATTATGTTTGA
1 TTAATTAAATTATGTTTAA
50226951 TTAACTT-AATTAT
1 TTAA-TTAAATTAT
50226964 ATATAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (19 bp):
TTAATTAAATTATGTTTAA
Found at i:50246081 original size:18 final size:18
Alignment explanation
Indices: 50246058--50246098 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
50246048 GCGACTCAGT
*
50246058 GGTAGCTGGTGCAATAGA
1 GGTAGCAGGTGCAATAGA
* *
50246076 GGTAGCAGGTGGAATGGA
1 GGTAGCAGGTGCAATAGA
50246094 GGTAG
1 GGTAG
50246099 ATGGGTTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.07, G:0.46, T:0.20
Consensus pattern (18 bp):
GGTAGCAGGTGCAATAGA
Found at i:50246727 original size:31 final size:31
Alignment explanation
Indices: 50246664--50246728 Score: 112
Period size: 32 Copynumber: 2.1 Consensus size: 31
50246654 ACTTACACAT
50246664 AACATTTACGCATAATAAAACTCAAACAAAA
1 AACATTTACGCATAATAAAACTCAAACAAAA
*
50246695 AACATTATACGCATAATAAACCTCAAACAAAA
1 AACATT-TACGCATAATAAAACTCAAACAAAA
50246727 AA
1 AA
50246729 TATGAAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.58, C:0.20, G:0.03, T:0.18
Consensus pattern (31 bp):
AACATTTACGCATAATAAAACTCAAACAAAA
Found at i:50248638 original size:18 final size:17
Alignment explanation
Indices: 50248615--50248648 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50248605 TTCTCATAAC
50248615 TTATAACTATAAAAAATA
1 TTATAACTA-AAAAAATA
*
50248633 TTATAATTAAAAAAAT
1 TTATAACTAAAAAAAT
50248649 GCTAATGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TTATAACTAAAAAAATA
Found at i:50251993 original size:21 final size:19
Alignment explanation
Indices: 50251945--50251995 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
50251935 GCCCTAGGTA
50251945 ATATGCAAA-C-ATTGTAT
1 ATATGCAAACCTATTGTAT
* *
50251962 ACATGTAAACCTATTTGTAGT
1 ATATGCAAACCTA-TTGTA-T
50251983 ATATGCAAACCTA
1 ATATGCAAACCTA
50251996 AATGTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 7 0.27
18 1 0.04
19 1 0.04
20 5 0.19
21 12 0.46
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (19 bp):
ATATGCAAACCTATTGTAT
Found at i:50252318 original size:34 final size:34
Alignment explanation
Indices: 50252236--50252324 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
50252226 AACACTATAC
* * * *
50252236 TATGATATGCGAACCCTAGGAATATGCGACCTTG
1 TATGTTATGCGAACCCTAGGTATACGCGACCTTA
* **
50252270 TATGATT-TGTGAACCCTAGGTATACGCGAGTTTA
1 TATG-TTATGCGAACCCTAGGTATACGCGACCTTA
*
50252304 TATGTTATGCGAACCGTAGGT
1 TATGTTATGCGAACCCTAGGT
50252325 TAATGCGAGC
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
33 2 0.05
34 41 0.93
35 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
TATGTTATGCGAACCCTAGGTATACGCGACCTTA
Found at i:50254274 original size:16 final size:16
Alignment explanation
Indices: 50254240--50254277 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50254230 TGTTAATAAA
*
50254240 TTTTA-TTTCTTTTAG
1 TTTTATTTTATTTTAG
*
50254255 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAG
50254271 TTTTATT
1 TTTTATT
50254278 ATTTTTCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATTTTAG
Found at i:50260677 original size:23 final size:23
Alignment explanation
Indices: 50260650--50260694 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
50260640 CGAAAATATT
50260650 AAATATATATA-TTTTTATTTTTA
1 AAATATA-ATAGTTTTTATTTTTA
50260673 AAATATAATAGTTTTTTATTTT
1 AAATATAATAG-TTTTTATTTT
50260695 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.15
23 7 0.35
24 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AAATATAATAGTTTTTATTTTTA
Found at i:50260805 original size:9 final size:9
Alignment explanation
Indices: 50260791--50260818 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
50260781 TTTTGTTACA
50260791 ACAATTAAT
1 ACAATTAAT
50260800 ACAATTAAT
1 ACAATTAAT
50260809 ACAATTAAT
1 ACAATTAAT
50260818 A
1 A
50260819 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:50260840 original size:68 final size:66
Alignment explanation
Indices: 50260761--50260902 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
50260751 TCAAGTTTGT
*
50260761 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
50260826 AAA
64 AAA
50260829 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
50260894 T
66 A
50260895 TTTACTAA
1 TTTACTAA
50260903 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:50260912 original size:16 final size:16
Alignment explanation
Indices: 50260891--50260932 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
50260881 AATAATTTGA
*
50260891 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
50260907 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
50260923 TAGTTTTAAT
1 TAATTTTAAT
50260933 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:50260916 original size:22 final size:23
Alignment explanation
Indices: 50260906--50260961 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
50260896 TTACTAACAA
* * *
50260906 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
50260928 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
50260951 TTAATTTTAAT
1 TTAATTTTAAT
50260962 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:50260921 original size:59 final size:66
Alignment explanation
Indices: 50260761--50260924 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
50260751 TCAAGTTTGT
*
50260761 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
50260826 AAA
64 AAA
50260829 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
50260892 AAT
64 AAA
*
50260895 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
50260925 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:50266447 original size:23 final size:23
Alignment explanation
Indices: 50266421--50266517 Score: 158
Period size: 23 Copynumber: 4.2 Consensus size: 23
50266411 TGTTATTGAT
50266421 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
**
50266444 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACATAA
*
50266467 TAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
*
50266490 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
50266513 CAGTG
1 CAGTG
50266518 TTGCACTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:50266474 original size:46 final size:46
Alignment explanation
Indices: 50266422--50266510 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
50266412 GTTATTGATC
50266422 AGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACATTTT
50266468 AGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
1 AGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACAT
50266511 ATCAGTGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AGTGGTAGCTTCGGCTACATAACAGTGGTAGCTTCGGCTACATTTT
Found at i:50270099 original size:22 final size:24
Alignment explanation
Indices: 50270049--50270099 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
50270039 TTGCAATGCT
50270049 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
50270074 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
50270095 TTTAT
1 TTTAT
50270100 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:50270261 original size:20 final size:20
Alignment explanation
Indices: 50270236--50270275 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50270226 AATATTTTCC
*
50270236 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
50270256 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
50270276 TCATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:50270422 original size:3 final size:3
Alignment explanation
Indices: 50270414--50270442 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50270404 TATTTCAAAG
50270414 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50270443 AGATATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50270813 original size:16 final size:14
Alignment explanation
Indices: 50270778--50270816 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
50270768 TGACTTGAAT
*
50270778 AATTCGAATAACTC
1 AATTCGATTAACTC
50270792 AATTCGATTAACTC
1 AATTCGATTAACTC
50270806 GAAATTCGATT
1 --AATTCGATT
50270817 TTTTTCGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (14 bp):
AATTCGATTAACTC
Found at i:50276552 original size:31 final size:31
Alignment explanation
Indices: 50276514--50276575 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50276504 GAAAAAAAGA
50276514 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
1 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
50276545 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
1 AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
50276576 TGAAAGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.23, T:0.48
Consensus pattern (31 bp):
AAACTTAATTTTTGTTGCTAAGGGTGTTGTT
Found at i:50278572 original size:77 final size:77
Alignment explanation
Indices: 50278445--50278606 Score: 324
Period size: 77 Copynumber: 2.1 Consensus size: 77
50278435 TGAGACAATC
50278445 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
50278510 CAAGTTCAATTA
66 CAAGTTCAATTA
50278522 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
50278587 CAAGTTCAATTA
66 CAAGTTCAATTA
50278599 TTAAAGTG
1 TTAAAGTG
50278607 GACAAAAAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 85 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (77 bp):
TTAAAGTGTTATGTCAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
CAAGTTCAATTA
Found at i:50278979 original size:29 final size:27
Alignment explanation
Indices: 50278927--50279011 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 27
50278917 TTAATATAAG
* *
50278927 AATAATTATATTAAGAATTTTATTAAATT
1 AATAATTAT-TTTA-AATTATATTAAATT
* * *
50278956 ATATATTTTTTATTAAATTATATTTAA-T
1 A-ATAATTATT-TTAAATTATATTAAATT
50278984 AATAATTATTTTAAATTATTATTAAATT
1 AATAATTATTTTAAATTA-TATTAAATT
50279012 GTTTATTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
26 8 0.18
27 13 0.30
28 3 0.07
29 12 0.27
30 8 0.18
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (27 bp):
AATAATTATTTTAAATTATATTAAATT
Found at i:50279175 original size:39 final size:39
Alignment explanation
Indices: 50279127--50279223 Score: 176
Period size: 39 Copynumber: 2.5 Consensus size: 39
50279117 TTTTTATGCA
50279127 ATTATGCCTCTATTCCATTCAACCAAACACAAGAATACT
1 ATTATGCCTCTATTCCATTCAACCAAACACAAGAATACT
* *
50279166 ATTACGCCTCTATTTCATTCAACCAAACACAAGAATACT
1 ATTATGCCTCTATTCCATTCAACCAAACACAAGAATACT
50279205 ATTATGCCTCTATTCCATT
1 ATTATGCCTCTATTCCATT
50279224 ACATTCAACC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.32
Consensus pattern (39 bp):
ATTATGCCTCTATTCCATTCAACCAAACACAAGAATACT
Found at i:50279265 original size:45 final size:44
Alignment explanation
Indices: 50279142--50279270 Score: 153
Period size: 39 Copynumber: 3.0 Consensus size: 44
50279132 GCCTCTATTC
*
50279142 CATTCAACCAAACACAAGAATACTATTACGCCTCTA-T---TT-
1 CATTCAACCAAACACAAGAATACTATTACGCATCTATTCCATTA
* *
50279181 CATTCAACCAAACACAAGAATACTATTATGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGAATACTATTACGCATCTATTCCATTA
* *
50279225 CATTCAACCAAACA-ATTGAATTGCTATTACGCATCTATTCCATTA
1 CATTCAACCAAACACA-AGAA-TACTATTACGCATCTATTCCATTA
50279270 C
1 C
50279271 GTCTTTATTT
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
39 35 0.45
40 1 0.01
43 3 0.04
44 17 0.22
45 22 0.28
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTCAACCAAACACAAGAATACTATTACGCATCTATTCCATTA
Found at i:50279271 original size:16 final size:15
Alignment explanation
Indices: 50279250--50279302 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
50279240 TTGAATTGCT
50279250 ATTACGCATCTATTCC
1 ATTACGC-TCTATTCC
* *
50279266 ATTACGTCTTTATTTC
1 ATTACG-CTCTATTCC
*
50279282 ATTACGCCTGTATTCC
1 ATTACG-CTCTATTCC
50279298 ATTAC
1 ATTAC
50279303 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (15 bp):
ATTACGCTCTATTCC
Found at i:50280696 original size:16 final size:16
Alignment explanation
Indices: 50280677--50280730 Score: 99
Period size: 16 Copynumber: 3.4 Consensus size: 16
50280667 GGAATCGAGA
50280677 CGTAATGGATTAGAAG
1 CGTAATGGATTAGAAG
50280693 CGTAATGGATTAGAAG
1 CGTAATGGATTAGAAG
*
50280709 CGTAATGGATTAGAGG
1 CGTAATGGATTAGAAG
50280725 CGTAAT
1 CGTAAT
50280731 AGCAATTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.31, T:0.26
Consensus pattern (16 bp):
CGTAATGGATTAGAAG
Found at i:50280698 original size:32 final size:32
Alignment explanation
Indices: 50280662--50280730 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
50280652 TTGGTTCGTT
*
50280662 GTAATGGAATCG-AGACGTAATGGATTAGAAGC
1 GTAATGGAATAGAAG-CGTAATGGATTAGAAGC
* *
50280694 GTAATGGATTAGAAGCGTAATGGATTAGAGGC
1 GTAATGGAATAGAAGCGTAATGGATTAGAAGC
50280726 GTAAT
1 GTAAT
50280731 AGCAATTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 31 0.94
33 2 0.06
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (32 bp):
GTAATGGAATAGAAGCGTAATGGATTAGAAGC
Found at i:50280768 original size:45 final size:44
Alignment explanation
Indices: 50280710--50280799 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
50280700 GATTAGAAGC
* *
50280710 GTAATGGATTAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGCAATAG-AATTC-ATGTGTTTGGTTGAAT
* * *
50280755 GTAATGGAATAGAGGTGCAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGCAATAGAATTCATGTGTTTGGTTGAAT
50280799 G
1 G
50280800 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.03
44 18 0.46
45 20 0.51
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGCAATAGAATTCATGTGTTTGGTTGAAT
Found at i:50280983 original size:18 final size:17
Alignment explanation
Indices: 50280962--50280996 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50280952 TTATTATTAA
*
50280962 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50280980 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50280997 TCTTAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:50281152 original size:120 final size:120
Alignment explanation
Indices: 50280942--50281414 Score: 751
Period size: 120 Copynumber: 4.0 Consensus size: 120
50280932 TTAACCATAT
* * *
50280942 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAGT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* * * * * * *
50281007 CAATATTCTTATCTGAATTTACTAAAATAATAACATATGATACTATAAAATATAT
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
50281062 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* **
50281127 AAATATTATTATATGAATTTTCT-AAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
50281181 TTTAACAT-A--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
50281243 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
* *
50281298 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAA-ATATAATTTAATAAAATTATTAATATT
1 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
50281361 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATA
66 AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATA
50281415 GATTAATAAT
Statistics
Matches: 332, Mismatches: 17, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
116 73 0.22
117 37 0.11
118 82 0.25
119 39 0.12
120 101 0.30
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAA
Found at i:50281217 original size:16 final size:16
Alignment explanation
Indices: 50281196--50281349 Score: 64
Period size: 16 Copynumber: 9.1 Consensus size: 16
50281186 CATAATTATT
50281196 AAATATAATTTAATAAA
1 AAATATAATTTAAT-AA
50281213 AATATATAATTTAATAA
1 AA-ATATAATTTAATAA
* * *
50281230 AATTCTTAATATTAAATATTC
1 AAAT-ATAAT-TT-AATA--A
**
50281251 TTATATGAATTTAAT-A
1 AAATAT-AATTTAATAA
50281267 AAATCATAATATATAAT-A
1 AAAT-ATAAT-T-TAATAA
** * **
50281285 CTATATAATATAATTT
1 AAATATAATTTAATAA
* *
50281301 AAA-ATAATTATTATTA
1 AAATATAATT-TAATAA
50281317 AA-TATAATTTAATAA
1 AAATATAATTTAATAA
50281332 AAATATAATTTAATAA
1 AAATATAATTTAATAA
50281348 AA
1 AA
50281350 TTATTAATAT
Statistics
Matches: 102, Mismatches: 21, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
15 15 0.15
16 34 0.33
17 18 0.18
18 21 0.21
19 7 0.07
20 3 0.03
21 4 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (16 bp):
AAATATAATTTAATAA
Found at i:50281346 original size:26 final size:26
Alignment explanation
Indices: 50281290--50281351 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
50281280 TAATACTATA
* *
50281290 TAATATAATTTAAAATAATTATTATT
1 TAATATAATTTAAAATAAATATAATT
*
50281316 AAATATAATTTAATAA-AAATATAATT
1 TAATATAATTTAA-AATAAATATAATT
*
50281342 TAATAAAATT
1 TAATATAATT
50281352 ATTAATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
TAATATAATTTAAAATAAATATAATT
Found at i:50294117 original size:5 final size:5
Alignment explanation
Indices: 50294107--50294153 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
50294097 TTTCATTGTC
50294107 TTTAT TTTAT TTTATT TTTATT TTTATT TCTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTT
50294154 TTTCATTCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 21 0.52
6 16 0.40
7 3 0.08
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:50294140 original size:7 final size:6
Alignment explanation
Indices: 50294107--50294154 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
50294097 TTTCATTGTC
50294107 TTTA-T TTTA-T TTTATT TTTATT TTTATT TCTTA-T TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT T-TTATT TTTATT TTTATT
50294152 TTT
1 TTT
50294155 TTCATTCATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
5 17 0.43
6 20 0.50
7 3 0.08
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:50294196 original size:21 final size:22
Alignment explanation
Indices: 50294145--50294198 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
50294135 TCTTATTTTA
*
50294145 TTTTATTTTTTTCATTCATTTC
1 TTTTATTTTTATCATTCATTTC
*
50294167 TTCTA-TTTTATCATT-A-TTC
1 TTTTATTTTTATCATTCATTTC
50294186 TTATTATTTTTAT
1 TT-TTATTTTTAT
50294199 TTCTCTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.19
20 3 0.11
21 15 0.56
22 4 0.15
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTATTTTTATCATTCATTTC
Found at i:50295987 original size:16 final size:18
Alignment explanation
Indices: 50295948--50295993 Score: 60
Period size: 16 Copynumber: 2.7 Consensus size: 18
50295938 TTTCTTTTTC
*
50295948 TTTTATGTTTATGTTTAT
1 TTTTATTTTTATGTTTAT
*
50295966 TGTTATTTTTA-G-TTAT
1 TTTTATTTTTATGTTTAT
50295982 TTTTATTTTTAT
1 TTTTATTTTTAT
50295994 TTTCTTAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.58
17 1 0.04
18 9 0.38
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTTATTTTTATGTTTAT
Found at i:50295995 original size:6 final size:6
Alignment explanation
Indices: 50295925--50295996 Score: 51
Period size: 6 Copynumber: 12.5 Consensus size: 6
50295915 AGTTTCTCTG
* * * * * * *
50295925 TTTTCT TTTTAG TTTTCT TTTT-C TTTTAT GTTTAT GTTTAT TGTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
50295972 TTTTA- -GTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
50295997 CTTAGACTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
4 3 0.06
5 4 0.08
6 44 0.86
ACGTcount: A:0.12, C:0.04, G:0.07, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:50296045 original size:26 final size:26
Alignment explanation
Indices: 50295978--50296045 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
50295968 TTATTTTTAG
*
50295978 TTATTTTTATTTTTATTTTCTTAGAC
1 TTATTTTTATTTTTATCTTCTTAGAC
* *
50296004 TTA-TTTCATTTCTTATCTT-TTGGAC
1 TTATTTTTATTT-TTATCTTCTTAGAC
50296029 TATATTTTTATTTTTAT
1 T-TATTTTTATTTTTAT
50296046 GGTTGTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 13 0.37
26 15 0.43
27 7 0.20
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (26 bp):
TTATTTTTATTTTTATCTTCTTAGAC
Found at i:50296992 original size:15 final size:15
Alignment explanation
Indices: 50296962--50296999 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50296952 TTATTGTTCT
50296962 AAAAAA-ATATCAAA
1 AAAAAATATATCAAA
* *
50296976 AAAATATATATCGAA
1 AAAAAATATATCAAA
50296991 AAAAAATAT
1 AAAAAATAT
50297000 TGATTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAAATATATCAAA
Found at i:50305828 original size:7 final size:6
Alignment explanation
Indices: 50305812--50305941 Score: 64
Period size: 7 Copynumber: 18.8 Consensus size: 6
50305802 AAGCTGTGAA
* *
50305812 TTTAATT TTTATAT TTTAATT TGTTTAT TTTAATT TTTATATT TTTATGT
1 TTTAA-T TTTA-AT TTTAA-T T-TTAAT TTTAA-T TTTA-A-T TTTA-AT
50305862 TTTATAT TTTGAAT TTTGAAT TTTGAAT TTTGAAT TTTGAAT TTTGAAT
1 TTTA-AT TTT-AAT TTT-AAT TTT-AAT TTT-AAT TTT-AAT TTT-AAT
*
50305911 TTTGAAAT TTTAAT TTT-AT ATTAAT TATTAA
1 TTT--AAT TTTAAT TTTAAT TTTAAT T-TTAA
50305942 ATTATTAAGT
Statistics
Matches: 107, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.04
6 12 0.11
7 72 0.67
8 19 0.18
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (6 bp):
TTTAAT
Found at i:50305842 original size:22 final size:21
Alignment explanation
Indices: 50305816--50305878 Score: 67
Period size: 20 Copynumber: 2.9 Consensus size: 21
50305806 TGTGAATTTA
50305816 ATTTTTATATTTTAATTTGTTT
1 ATTTTTATATTTTAATTT-TTT
*
50305838 A-TTTTA-ATTTTTATATTTTT
1 ATTTTTATATTTTAAT-TTTTT
50305858 ATGTTTTATATTTTGAATTTT
1 AT-TTTTATATTTT-AATTTT
50305879 GAATTTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 11 0.32
21 7 0.21
22 6 0.18
23 8 0.24
24 2 0.06
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (21 bp):
ATTTTTATATTTTAATTTTTT
Found at i:50305864 original size:15 final size:14
Alignment explanation
Indices: 50305812--50305928 Score: 100
Period size: 14 Copynumber: 8.3 Consensus size: 14
50305802 AAGCTGTGAA
50305812 TTTAATTTTTATAT
1 TTTAATTTTTATAT
50305826 TTTAATTTGTT-TAT
1 TTTAATTT-TTATAT
50305840 TTTAATTTTTATAT
1 TTTAATTTTTATAT
*
50305854 TTTTATGTTTTATAT
1 TTTAAT-TTTTATAT
*
50305869 TTTGAATTTTGA-AT
1 TTT-AATTTTTATAT
*
50305883 TTTGAATTTTGA-AT
1 TTT-AATTTTTATAT
*
50305897 TTTGAATTTTGA-AT
1 TTT-AATTTTTATAT
*
50305911 TTTGAAATTTTA-AT
1 TTT-AATTTTTATAT
50305925 TTTA
1 TTTA
50305929 TATTAATTAT
Statistics
Matches: 94, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
13 3 0.03
14 72 0.77
15 17 0.18
16 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:50305885 original size:21 final size:20
Alignment explanation
Indices: 50305867--50305927 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 20
50305857 TATGTTTTAT
50305867 ATTTTGAATTTTGAATTTTGA
1 ATTTTGAATTTT-AATTTTGA
50305888 ATTTTGAATTTTGAATTTTGA
1 ATTTTGAATTTT-AATTTTGA
50305909 ATTTTGAAATTTTAATTTT
1 ATTTTG-AATTTTAATTTT
50305928 ATATTAATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 33 0.85
22 6 0.15
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTAATTTTGA
Found at i:50307106 original size:8 final size:8
Alignment explanation
Indices: 50307093--50307121 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
50307083 AGTTTATTGG
50307093 AAAATTAT
1 AAAATTAT
50307101 AAAATTAT
1 AAAATTAT
50307109 AAAATTAT
1 AAAATTAT
50307117 AAAAT
1 AAAAT
50307122 AGTATAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:50311929 original size:48 final size:48
Alignment explanation
Indices: 50311875--50311974 Score: 200
Period size: 48 Copynumber: 2.1 Consensus size: 48
50311865 CTGGTCATGA
50311875 AGGAAGTTGGGGAGGATTTGATGGAGAAAATCAAGGAGTTTGTGGGAG
1 AGGAAGTTGGGGAGGATTTGATGGAGAAAATCAAGGAGTTTGTGGGAG
50311923 AGGAAGTTGGGGAGGATTTGATGGAGAAAATCAAGGAGTTTGTGGGAG
1 AGGAAGTTGGGGAGGATTTGATGGAGAAAATCAAGGAGTTTGTGGGAG
50311971 AGGA
1 AGGA
50311975 GGAGAGTGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.32, C:0.02, G:0.44, T:0.22
Consensus pattern (48 bp):
AGGAAGTTGGGGAGGATTTGATGGAGAAAATCAAGGAGTTTGTGGGAG
Found at i:50313044 original size:27 final size:27
Alignment explanation
Indices: 50313006--50313524 Score: 516
Period size: 27 Copynumber: 19.2 Consensus size: 27
50312996 ATTCTTAGGA
* *
50313006 AAAATTACCGAAATACTCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
*
50313033 AAAATTATCGAAATACCCTTGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
50313060 AAAATTATCGAAATACCTTCGATGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
*
50313087 AAAATTACCGAAATACCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
50313114 AAAATTA-CTGAAACACCCTAGAAGGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
**
50313141 AAAATTA-CTGAAATACCCTTAAAGGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
* * *
50313168 AAAATTATCGAAACACCTTTGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
50313195 AAAATTACCAAAATACCCTC-AATGGGT
1 AAAATTATCGAAATACCCTCGAA-GGGT
* * *
50313222 AAAATTA-CTAAAATACCCTCAAAAGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
** *
50313249 AAAATTA-CTGAAATAATCTCGAATGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
*
50313276 AAAATTA-CTGAAATACCCCCGAAGGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
**
50313303 AAAATTATCGAAATACCCTTAAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
50313330 AAAATTA-CTGAAACACCC-CTAAAGGGT
1 AAAATTATC-GAAATACCCTC-GAAGGGT
* *
50313357 AAAATTA-CTAAAATTCCCTCGAAGGGT
1 AAAATTATC-GAAATACCCTCGAAGGGT
* *
50313384 AAAATTATCGAAACACCCTCAAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * *
50313411 AAAAATTATTGAAATACCCTTGAAGGGA
1 -AAAATTATCGAAATACCCTCGAAGGGT
* * *
50313439 AAAATTACCAAAATAACCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* *
50313466 AAAATTATTGAAATGCCCTCGAAGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
* * *
50313493 AAAATTATCAAAATACCCCCGAGGGGT
1 AAAATTATCGAAATACCCTCGAAGGGT
50313520 AAAAT
1 AAAAT
50313525 GACCGTTTAC
Statistics
Matches: 415, Mismatches: 66, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.01
27 382 0.92
28 28 0.07
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (27 bp):
AAAATTATCGAAATACCCTCGAAGGGT
Found at i:50313141 original size:81 final size:81
Alignment explanation
Indices: 50313006--50313524 Score: 571
Period size: 81 Copynumber: 6.4 Consensus size: 81
50312996 ATTCTTAGGA
* * *
50313006 AAAATTACCGAAATACTCTCGAAGGGTAAAATTA-TCGAAATACCCTTGAAGGGTAAAATTATCG
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTACT-AAAATACCCTCGAAGGGTAAAATTATCG
* * *
50313070 AAATACCTTCGATGGGT
65 AAATACCCTCAAAGGGT
* * *
50313087 AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTGAAACACCCTAGAAGGGTAAAATTA-CTG
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATC-G
*
50313151 AAATACCCTTAAAGGGT
65 AAATACCCTCAAAGGGT
* * * * *
50313168 AAAATTATCGAAACACCTTTGAAGGGTAAAATTACCAAAATACCCTC-AATGGGTAAAATTA-CT
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAA-GGGTAAAATTATC-
* *
50313231 AAAATACCCTCAAAAGGT
64 GAAATACCCTCAAAGGGT
* ** * * *
50313249 AAAATTACTGAAATAATCTCGAATGGTAAAATTACTGAAATACCCCCGAAGGGTAAAATTATCGA
1 AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGA
*
50313314 AATACCCTTAAAGGGT
66 AATACCCTCAAAGGGT
* * * *
50313330 AAAATTACTGAAACACCC-CTAAAGGGTAAAATTACTAAAATTCCCTCGAAGGGTAAAATTATCG
1 AAAATTACCGAAATACCCTC-GAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCG
*
50313394 AAACACCCTCAAAGGGT
65 AAATACCCTCAAAGGGT
** * * * * *
50313411 AAAAATTATTGAAATACCCTTGAAGGGAAAAATTACCAAAATAACCTCGAAGGGTAAAATTATTG
1 -AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCG
* *
50313476 AAATGCCCTCGAAGGGT
65 AAATACCCTCAAAGGGT
* * * *
50313493 AAAATTATCAAAATACCCCCGAGGGGTAAAAT
1 AAAATTACCGAAATACCCTCGAAGGGTAAAAT
50313525 GACCGTTTAC
Statistics
Matches: 370, Mismatches: 60, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
80 4 0.01
81 294 0.79
82 72 0.19
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (81 bp):
AAAATTACCGAAATACCCTCGAAGGGTAAAATTACTAAAATACCCTCGAAGGGTAAAATTATCGA
AATACCCTCAAAGGGT
Found at i:50313782 original size:52 final size:52
Alignment explanation
Indices: 50313718--50313824 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 52
50313708 TTTGCCACAA
*
50313718 ATACTGTCACTGGCAGCTTTGCTGC-TATACTGATACTAGCAGCTCTACTGCG
1 ATACTGTCACTGGCAACTTTGCTGCGT-TACTGATACTAGCAGCTCTACTGCG
* * * *
50313770 ATACTGTTACTGGCAACTTTGCTGCGTTACTGATACTGGCAGCTTTGCTGCG
1 ATACTGTCACTGGCAACTTTGCTGCGTTACTGATACTAGCAGCTCTACTGCG
50313822 ATA
1 ATA
50313825 TTGGTGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (52 bp):
ATACTGTCACTGGCAACTTTGCTGCGTTACTGATACTAGCAGCTCTACTGCG
Found at i:50313821 original size:26 final size:26
Alignment explanation
Indices: 50313726--50313821 Score: 122
Period size: 26 Copynumber: 3.7 Consensus size: 26
50313716 AAATACTGTC
50313726 ACTGGCAGCTTTGCTGC-TATACTGAT
1 ACTGGCAGCTTTGCTGCGT-TACTGAT
* * * * *
50313752 ACTAGCAGCTCTACTGCGATACTGTT
1 ACTGGCAGCTTTGCTGCGTTACTGAT
*
50313778 ACTGGCAACTTTGCTGCGTTACTGAT
1 ACTGGCAGCTTTGCTGCGTTACTGAT
50313804 ACTGGCAGCTTTGCTGCG
1 ACTGGCAGCTTTGCTGCG
50313822 ATATTGGTGT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 57 1.00
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (26 bp):
ACTGGCAGCTTTGCTGCGTTACTGAT
Found at i:50313998 original size:30 final size:28
Alignment explanation
Indices: 50313943--50314043 Score: 103
Period size: 30 Copynumber: 3.5 Consensus size: 28
50313933 TTACTATTTG
*
50313943 GGGCTAAGGCCCACACTGTTACTGTATT
1 GGGCTAAGGCCCACACTGATACTGTATT
50313971 GGGCTAAGGCCCACATGCTGATACTGTATT
1 GGGCTAAGGCCCACA--CTGATACTGTATT
* * * * *
50314001 GGGTTATGACCCACACACTGCTACTGTATA
1 GGGCTAAG-GCC-CACACTGATACTGTATT
*
50314031 GGGCTATGGCCCA
1 GGGCTAAGGCCCA
50314044 GACTAATTCT
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
28 17 0.28
29 2 0.03
30 36 0.59
31 2 0.03
32 4 0.07
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCACACTGATACTGTATT
Found at i:50317739 original size:17 final size:18
Alignment explanation
Indices: 50317717--50317763 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
50317707 GTTTTAATTT
50317717 TTTATTTCAATTTTAA-G
1 TTTATTTCAATTTTAATG
* *
50317734 TTTATTTTAATTTTAATT
1 TTTATTTCAATTTTAATG
50317752 TTTATGTTCAAT
1 TTTAT-TTCAAT
50317764 AGGAGGGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 5 0.20
19 5 0.20
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTTCAATTTTAATG
Found at i:50320128 original size:71 final size:71
Alignment explanation
Indices: 50320040--50320178 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
50320030 TCTTAGAGAT
50320040 GAGGAAACTCGAAGACCACATAGTGTTATGTGGAAAATAGTGACAGTGAGAGGTAATGATGGACC
1 GAGGAAACTCGAAGACCACATAGTGTTATGTGGAAAATAGTGACAGTGAGAGGTAATGATGGACC
50320105 ATTGAC
66 ATTGAC
50320111 GAGGAAACTCGAAGACCACATAGTGTTATGTGGAAAATAGTGACAGTGAGAGGTAATGATGGACC
1 GAGGAAACTCGAAGACCACATAGTGTTATGTGGAAAATAGTGACAGTGAGAGGTAATGATGGACC
50320176 ATT
66 ATT
50320179 CTCTCCGAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (71 bp):
GAGGAAACTCGAAGACCACATAGTGTTATGTGGAAAATAGTGACAGTGAGAGGTAATGATGGACC
ATTGAC
Found at i:50321639 original size:27 final size:27
Alignment explanation
Indices: 50321609--50321669 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
50321599 TCATCTCCTA
* *
50321609 GGGGTATAACAGCCATTTTACCTTATT
1 GGGGTATAACAGCCATTTTACCCTATG
** * *
50321636 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATAACAGCCATTTTACCCTATG
50321663 GGGGTAT
1 GGGGTAT
50321670 TTCGTCATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGGTATAACAGCCATTTTACCCTATG
Found at i:50321670 original size:27 final size:27
Alignment explanation
Indices: 50321622--50321992 Score: 428
Period size: 27 Copynumber: 13.9 Consensus size: 27
50321612 GTATAACAGC
* *
50321622 CATTTTACCTTATTGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
50321649 CATTTTACCCTATGGGGGTATTTC-GT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
50321675 CATTCTA-CCT-TGTGGGGTATTTTGAT
1 CATTTTACCCTATG-GGGGTATTTCGGT
* *
50321701 CATTTTACCCTATGAGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * ***
50321728 CATTTTACCCTATAGGAGTATTTTTAT
1 CATTTTACCCTATGGGGGTATTTCGGT
* **
50321755 CATTTTACCCTCTGGGGGTATTTCTAT
1 CATTTTACCCTATGGGGGTATTTCGGT
* *
50321782 TATTTTACCCTATGAGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
*
50321809 CATTTTACCCTATGGGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGT
* *
50321836 CATTTTACCTTAT-GGGGTATTTCGAT
1 CATTTTACCCTATGGGGGTATTTCGGT
50321862 CATTTTACCCTAT-GGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
50321888 CATTCTACCCTATAGGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * **
50321915 CATTTTACCTTATGAGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTATTTCGGT
50321942 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCGGT
* * *
50321969 TATTTTACCTTATGAGGGTATTTC
1 CATTTTACCCTATGGGGGTATTTC
50321993 ATTCATTCTA
Statistics
Matches: 297, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
24 2 0.01
25 12 0.04
26 64 0.22
27 217 0.73
28 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCGGT
Found at i:50321882 original size:160 final size:160
Alignment explanation
Indices: 50321622--50322005 Score: 544
Period size: 160 Copynumber: 2.4 Consensus size: 160
50321612 GTATAACAGC
*
50321622 CATTTTACCTTATTGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCG-TCATTCTACCTT
1 CATTTTACCCTA-TGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCTT
* * * *
50321686 GTGGGGTATTTTGATCATTTTACCCTATGAGGGTATTTTGGTCATTTTACCCTATAGGAGTATTT
65 ATGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATAGGAGTA-TT
* * *
50321751 TTA-TCATTTTACCCTCTGGGGGTATTTCTA-T
129 TCAGTCATTTTACCCTATGAGGGTATTT-TAGT
* *
50321782 TATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCTT
1 CATTTTACCCTATG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCTT
*
50321847 ATGGGGTATTTCGATCATTTTACCCTATG-GGGTATTTCGGTCATTCTACCCTATAGGGGTATTT
65 ATGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATAGGAGTATTT
*
50321911 CAGTCATTTTACCTTATGAGGGTATTTTAGT
130 CAGTCATTTTACCCTATGAGGGTATTTTAGT
* * *
50321942 CATTTTACCCTATGGGGGTATTTCGGTTATTTTACCTTATGAGGGTATTTC-ATTCATTCTACCT
1 CATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGA-TCATTCTACCT
50322006 ATTTTTGGGT
Statistics
Matches: 201, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
159 9 0.04
160 153 0.76
161 39 0.19
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (160 bp):
CATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTCTACCTTA
TGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTCTACCCTATAGGAGTATTTC
AGTCATTTTACCCTATGAGGGTATTTTAGT
Found at i:50328524 original size:21 final size:21
Alignment explanation
Indices: 50328498--50328552 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
50328488 TGCCTTTGAA
50328498 GTCGCGACATCACAAAGGGAT
1 GTCGCGACATCACAAAGGGAT
50328519 GTCGCGACATCACAAAGGGAT
1 GTCGCGACATCACAAAGGGAT
*
50328540 GTCGTGACATCAC
1 GTCGCGACATCAC
50328553 TGCGTAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.16
Consensus pattern (21 bp):
GTCGCGACATCACAAAGGGAT
Found at i:50335066 original size:8 final size:8
Alignment explanation
Indices: 50335053--50335101 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
50335043 TGTGTTCTTC
50335053 ATTTTTTT
1 ATTTTTTT
50335061 ATTTTTTT
1 ATTTTTTT
*
50335069 ATTCTTTT
1 ATTTTTTT
50335077 ACTTTTATTT
1 A-TTTT-TTT
*
50335087 ATTTATTT
1 ATTTTTTT
*
50335095 AATTTTT
1 ATTTTTT
50335102 CTTTTACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 24 0.71
9 6 0.18
10 4 0.12
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (8 bp):
ATTTTTTT
Found at i:50336642 original size:18 final size:19
Alignment explanation
Indices: 50336619--50336663 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
50336609 TAGTTTTATA
50336619 ATTTATTTTCATTAT-TGAT
1 ATTTATTTTC-TTATCTGAT
*
50336638 A-TTATTGTCTTATCTGAT
1 ATTTATTTTCTTATCTGAT
50336656 ATTTATTT
1 ATTTATTT
50336664 ATTTATGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.18
18 12 0.55
19 6 0.27
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (19 bp):
ATTTATTTTCTTATCTGAT
Found at i:50341663 original size:17 final size:17
Alignment explanation
Indices: 50341643--50341676 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50341633 ATTTAACCAT
50341643 TTTAATTAATTAATTAA
1 TTTAATTAATTAATTAA
*
50341660 TTTACTTAATTAATTAA
1 TTTAATTAATTAATTAA
50341677 AACCCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATTAATTAATTAA
Found at i:50344907 original size:22 final size:22
Alignment explanation
Indices: 50344879--50344923 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
50344869 CTATGGACGT
50344879 TAGTACATCTGAGTTAGTCAAA
1 TAGTACATCTGAGTTAGTCAAA
50344901 TAGTACATCTGAGTTAGTCAAA
1 TAGTACATCTGAGTTAGTCAAA
50344923 T
1 T
50344924 CCTTAAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (22 bp):
TAGTACATCTGAGTTAGTCAAA
Found at i:50346986 original size:6 final size:6
Alignment explanation
Indices: 50346975--50347002 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
50346965 CAAATGGATT
50346975 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTT
50347003 TTTGAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.29, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTCC
Found at i:50377969 original size:18 final size:18
Alignment explanation
Indices: 50377942--50377980 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
50377932 TTTTTCTATC
*
50377942 TTTATTTCA-TTGTTTCT
1 TTTATTTCATTTCTTTCT
50377959 TTTATTTTCATTTCTTTCT
1 TTTA-TTTCATTTCTTTCT
50377978 TTT
1 TTT
50377981 GTTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTCATTTCTTTCT
Found at i:50383065 original size:18 final size:18
Alignment explanation
Indices: 50383038--50383076 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
50383028 TTTTTCTATC
*
50383038 TTTATTTCA-TTGTTTCT
1 TTTATTTCATTTCTTTCT
50383055 TTTATTTTCATTTCTTTCT
1 TTTA-TTTCATTTCTTTCT
50383074 TTT
1 TTT
50383077 GTTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 5 0.26
19 10 0.53
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTATTTCATTTCTTTCT
Found at i:50395781 original size:14 final size:14
Alignment explanation
Indices: 50395747--50395797 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
50395737 AATCCTAATT
*
50395747 TTTTTCTCCTTTT-
1 TTTTTCTTCTTTTC
*
50395760 TCTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
*
50395774 TTTTTCTT-TCTCTC
1 TTTTTCTTCT-TTTC
50395788 TTTTTCTTCT
1 TTTTTCTTCT
50395798 CTGTTTCGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 12 0.39
14 18 0.58
15 1 0.03
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:50395782 original size:11 final size:11
Alignment explanation
Indices: 50395757--50395841 Score: 57
Period size: 11 Copynumber: 7.3 Consensus size: 11
50395747 TTTTTCTCCT
50395757 TTTTCTTTCTTC
1 TTTTCTTT-TTC
50395769 TTTTCTTTTTC
1 TTTTCTTTTTC
50395780 TTTCTCTCTTTTTC
1 -TT-T-TCTTTTTC
* *
50395794 TTCTCTGTTTC
1 TTTTCTTTTTC
*
50395805 GTTCTACTTTGTTC
1 -TT-TTCTTT-TTC
50395819 --TTCTTTTTC
1 TTTTCTTTTTC
*
50395828 TATTCTTTTTC
1 TTTTCTTTTTC
50395839 TTT
1 TTT
50395842 CATTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
9 3 0.05
10 5 0.09
11 21 0.36
12 12 0.21
13 6 0.10
14 11 0.19
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:50395804 original size:25 final size:26
Alignment explanation
Indices: 50395760--50395822 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
50395750 TTCTCCTTTT
* * *
50395760 TCTTTCTTCTTTTCTTTTTCTTTCT-C
1 TCTTT-TTCTTCTCTGTTTCGTTCTAC
50395786 TCTTTTTCTTCTCTGTTTCGTTCTAC
1 TCTTTTTCTTCTCTGTTTCGTTCTAC
*
50395812 T-TTGTTCTTCT
1 TCTTTTTCTTCT
50395823 TTTTCTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.68
Consensus pattern (26 bp):
TCTTTTTCTTCTCTGTTTCGTTCTAC
Found at i:50396155 original size:17 final size:17
Alignment explanation
Indices: 50396133--50396167 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50396123 CACAACTAAC
50396133 TTCGTAAATATTTTTAA
1 TTCGTAAATATTTTTAA
50396150 TTCGTAAATATTTTTAA
1 TTCGTAAATATTTTTAA
50396167 T
1 T
50396168 AAATATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
TTCGTAAATATTTTTAA
Found at i:50398002 original size:12 final size:12
Alignment explanation
Indices: 50397987--50398013 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
50397977 AAATAATCGA
50397987 TAAAAAATAAAT
1 TAAAAAATAAAT
50397999 TAAAAAATAAAT
1 TAAAAAATAAAT
50398011 TAA
1 TAA
50398014 GGTAAGGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAAAATAAAT
Found at i:50402262 original size:277 final size:277
Alignment explanation
Indices: 50401768--50402322 Score: 1074
Period size: 277 Copynumber: 2.0 Consensus size: 277
50401758 TCTTAGCAAA
*
50401768 GCTTATGATCGGGTGTAATAGGATTTCTTGGCCAGAATATTGTCCAGATTGGGCTTCCATCAAGA
1 GCTTATGATCGGGTGCAATAGGATTTCTTGGCCAGAATATTGTCCAGATTGGGCTTCCATCAAGA
50401833 CTGGTTGGTTCTTATCATGCATTGTGTCTGCTCAGTCACTTATACGGTGGGCATTAATGCTGATG
66 CTGGTTGGTTCTTATCATGCATTGTGTCTGCTCAGTCACTTATACGGTGGGCATTAATGCTGATG
* *
50401898 TTGGTGAGAGTTTTGTTCCGTCTAGAGGCTTACAGTAGGGGGATCCTCTTAGTCCCTATCTTTTC
131 TTAGTGAGAGTTTTGTTCCGTCTAGAGGCTTACAGCAGGGGGATCCTCTTAGTCCCTATCTTTTC
50401963 CTCCTTTACTTTCTTGTTTGTTGAGGGAGACTAAGATTAAAAATGAGCTAAAGGGAGCTCTAATT
196 CTCCTTTACTTTCTTGTTTGTTGAGGGAGACTAAGATTAAAAATGAGCTAAAGGGAGCTCTAATT
50402028 GGTAGAAGGAATTTCAT
261 GGTAGAAGGAATTTCAT
50402045 GCTTATGATCGGGTGCAATAGGATTTCTTGGCCAGAATATTGTCCAGATTGGGCTTCCATCAAGA
1 GCTTATGATCGGGTGCAATAGGATTTCTTGGCCAGAATATTGTCCAGATTGGGCTTCCATCAAGA
50402110 CTGGTTGGTTCTTATCATGCATTGTGTCTGCTCAGTCACTTATACGGTGGGCATTAATGCTGATG
66 CTGGTTGGTTCTTATCATGCATTGTGTCTGCTCAGTCACTTATACGGTGGGCATTAATGCTGATG
50402175 TTAGTGAGAGTTTTGTTCCGTCTAGAGGCTTACAGCAGGGGGATCCTCTTAGTCCCTATCTTTTC
131 TTAGTGAGAGTTTTGTTCCGTCTAGAGGCTTACAGCAGGGGGATCCTCTTAGTCCCTATCTTTTC
*
50402240 CTCCTTTGCTTTCTTGTTTGTTGAGGGAGACTAAGATTAAAAATGAGCTAAAGGGAGCTCTAATT
196 CTCCTTTACTTTCTTGTTTGTTGAGGGAGACTAAGATTAAAAATGAGCTAAAGGGAGCTCTAATT
50402305 GGTAGAAGGAATTTCAT
261 GGTAGAAGGAATTTCAT
50402322 G
1 G
50402323 ATAACTCATT
Statistics
Matches: 274, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
277 274 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (277 bp):
GCTTATGATCGGGTGCAATAGGATTTCTTGGCCAGAATATTGTCCAGATTGGGCTTCCATCAAGA
CTGGTTGGTTCTTATCATGCATTGTGTCTGCTCAGTCACTTATACGGTGGGCATTAATGCTGATG
TTAGTGAGAGTTTTGTTCCGTCTAGAGGCTTACAGCAGGGGGATCCTCTTAGTCCCTATCTTTTC
CTCCTTTACTTTCTTGTTTGTTGAGGGAGACTAAGATTAAAAATGAGCTAAAGGGAGCTCTAATT
GGTAGAAGGAATTTCAT
Found at i:50403878 original size:95 final size:95
Alignment explanation
Indices: 50403715--50403890 Score: 343
Period size: 95 Copynumber: 1.9 Consensus size: 95
50403705 ATATGAATTC
*
50403715 TAAGAAACTCATTGCTATCTCTTTGTGGGCCCTTTGGTATAAGCGAAATAAGCTTGTTAATGAAG
1 TAAGAAACTCATTGCTATCTCTTTGTGGGCCCTTTGGTATAAGCGAAATAAGCTGGTTAATGAAG
50403780 GCCTAAAATTTAAGTTGCCGCTAGACGAAA
66 GCCTAAAATTTAAGTTGCCGCTAGACGAAA
50403810 TAAGAAACTCATTGCTATCTCTTTGTGGGCCCTTTGGTATAAGCGAAATAAGCTGGTTAATGAAG
1 TAAGAAACTCATTGCTATCTCTTTGTGGGCCCTTTGGTATAAGCGAAATAAGCTGGTTAATGAAG
50403875 GCCTAAAATTTAAGTT
66 GCCTAAAATTTAAGTT
50403891 CCATGAAACT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (95 bp):
TAAGAAACTCATTGCTATCTCTTTGTGGGCCCTTTGGTATAAGCGAAATAAGCTGGTTAATGAAG
GCCTAAAATTTAAGTTGCCGCTAGACGAAA
Found at i:50405153 original size:83 final size:83
Alignment explanation
Indices: 50405054--50405213 Score: 302
Period size: 83 Copynumber: 1.9 Consensus size: 83
50405044 TTAACGGATA
50405054 TATGTTTAACGCATGAACCACTAAAAAACAATAGTATTAGTAAATCATAATATTACTGTATATTA
1 TATGTTTAACGCATGAACCACTAAAAAACAATAGTATTAGTAAATCATAATATTACTGTATATTA
*
50405119 TAAAATTGTATACAATTG
66 TAAAACTGTATACAATTG
*
50405137 TATGTTTAACGCATGAACCACTAAAAACCAATAGTATTAGTAAATCATAATATTACTGTATATTA
1 TATGTTTAACGCATGAACCACTAAAAAACAATAGTATTAGTAAATCATAATATTACTGTATATTA
50405202 TAAAACTGTATA
66 TAAAACTGTATA
50405214 TTATAATATT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (83 bp):
TATGTTTAACGCATGAACCACTAAAAAACAATAGTATTAGTAAATCATAATATTACTGTATATTA
TAAAACTGTATACAATTG
Found at i:50405211 original size:15 final size:15
Alignment explanation
Indices: 50405191--50405219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
50405181 TCATAATATT
50405191 ACTGTATATTATAAA
1 ACTGTATATTATAAA
50405206 ACTGTATATTATAA
1 ACTGTATATTATAA
50405220 TATTATGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
ACTGTATATTATAAA
Found at i:50408544 original size:45 final size:45
Alignment explanation
Indices: 50408475--50408578 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 45
50408465 TACACGGTGG
* * *
50408475 ATCAGCACACAAC-ACCACCCTTATAGTCAATAGTACTCGG-TGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATAGTAC-CGGATGAA
* *
50408519 ATCAGCACATAGCAACCACCTTTATACTCAATGGTACCGGATGAA
1 ATCAGCACATAGCAACCACCCTTATACTCAATAGTACCGGATGAA
* *
50408564 TTCAGGACATAGCAA
1 ATCAGCACATAGCAA
50408579 TAACTTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 14 0.27
45 37 0.73
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCCTTATACTCAATAGTACCGGATGAA
Found at i:50415506 original size:44 final size:44
Alignment explanation
Indices: 50415444--50415830 Score: 219
Period size: 44 Copynumber: 8.3 Consensus size: 44
50415434 CTTTTATTTT
* * *
50415444 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
50415488 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
50415532 AATCTGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATC---TGC--TCCACTGTA--AT--C-TCAGGGAGATAAGAT--TACTAGCTTC
* *
50415586 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
*** *
50415630 AATCTGC-CTTGTTGTAATCTCAGGGAGATAAGATTTCTAGCTTC
1 AATCTGCTC-CACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * *
50415674 AATCTGATGCAATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTT
1 AATC---TG----CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTA-CTAGCTTC
* * * *
50415728 AATCCGCTCCACTGTAACCTCAGAGAGAT-CGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTC
* * *
50415772 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
*
50415816 AATCTACTCCACTGT
1 AATCTGCTCCACTGT
50415831 TGCTTAGGGA
Statistics
Matches: 260, Mismatches: 52, Indels: 62
0.70 0.14 0.17
Matches are distributed among these distances:
42 1 0.00
43 6 0.02
44 167 0.64
45 4 0.02
46 1 0.00
47 9 0.03
49 13 0.05
51 6 0.02
53 4 0.02
54 45 0.17
55 3 0.01
56 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:50415650 original size:142 final size:142
Alignment explanation
Indices: 50415394--50415820 Score: 721
Period size: 142 Copynumber: 3.0 Consensus size: 142
50415384 AGATAAGACT
* * *
50415394 TGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTAT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGT
50415459 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
50415524 CTGGCTTCAATC
131 CTGGCTTCAATC
* *
50415536 TGATGCGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGT
* *
50415601 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGC-CTTGTTGTAATCTCAGGGAGATAAGATT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTC-CGCTGTAATCTCAGGGAGATAAGATT
*
50415665 TCTAGCTTCAATC
130 TCTGGCTTCAATC
*
50415678 TGATGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGT
* * * *
50415743 AACCTCAGAGAGATCGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
50415808 CTGGCTTCAATC
131 CTGGCTTCAATC
50415820 T
1 T
50415821 ACTCCACTGT
Statistics
Matches: 266, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
141 1 0.00
142 264 0.99
143 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATC
Found at i:50426284 original size:21 final size:22
Alignment explanation
Indices: 50426239--50426293 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
50426229 TTGTTGCTAT
50426239 TTTCTTTATTGTTTTGCCACTA
1 TTTCTTTATTGTTTTGCCACTA
*
50426261 TTT-TTTATTGTTTTGCTA-TCA
1 TTTCTTTATTGTTTTGCCACT-A
*
50426282 TTTCTCTATTGT
1 TTTCTTTATTGT
50426294 ATTACTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 18 0.62
22 10 0.34
ACGTcount: A:0.13, C:0.15, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTCTTTATTGTTTTGCCACTA
Found at i:50433688 original size:25 final size:28
Alignment explanation
Indices: 50433654--50433725 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
50433644 TTTCAAAGGT
*
50433654 TTTAGCAGAAA-G-AAT-CACAAATTAG
1 TTTAGAAGAAACGAAATGCACAAATTAG
50433679 TTTAGAAGAAAACGAAATGCACAAATTAG
1 TTTAGAAG-AAACGAAATGCACAAATTAG
50433708 TTTAGAAGAAAACGAAAT
1 TTTAGAAG-AAACGAAAT
50433726 AACATTAATC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 7 0.17
26 3 0.07
27 1 0.02
28 3 0.07
29 28 0.67
ACGTcount: A:0.51, C:0.10, G:0.17, T:0.22
Consensus pattern (28 bp):
TTTAGAAGAAACGAAATGCACAAATTAG
Found at i:50433702 original size:29 final size:29
Alignment explanation
Indices: 50433669--50433725 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
50433659 CAGAAAGAAT
50433669 CACAAATTAGTTTAGAAGAAAACGAAATG
1 CACAAATTAGTTTAGAAGAAAACGAAATG
50433698 CACAAATTAGTTTAGAAGAAAACGAAAT
1 CACAAATTAGTTTAGAAGAAAACGAAAT
50433726 AACATTAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (29 bp):
CACAAATTAGTTTAGAAGAAAACGAAATG
Found at i:50448169 original size:16 final size:16
Alignment explanation
Indices: 50448148--50448178 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50448138 TTTCTAGTAT
50448148 TTTATTTACTAGCGTG
1 TTTATTTACTAGCGTG
50448164 TTTATTTACTAGCGT
1 TTTATTTACTAGCGT
50448179 ATTTGCTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.16, T:0.52
Consensus pattern (16 bp):
TTTATTTACTAGCGTG
Found at i:50457512 original size:17 final size:17
Alignment explanation
Indices: 50457470--50457513 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
50457460 AAAGACTGTT
* *
50457470 GAACAAAACAAGTTAGT
1 GAACAAAATAAGTTAGC
*
50457487 GAACAAAATACGTTAGC
1 GAACAAAATAAGTTAGC
50457504 GAACAAAATA
1 GAACAAAATA
50457514 TATAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.16
Consensus pattern (17 bp):
GAACAAAATAAGTTAGC
Found at i:50457536 original size:16 final size:17
Alignment explanation
Indices: 50457515--50457562 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
50457505 AACAAAATAT
50457515 ATAAATATATAAATAAA
1 ATAAATATATAAATAAA
*
50457532 A-AAATATTTATATATAAA
1 ATAAATA--TATAAATAAA
50457550 ATAAA-ATATAAAT
1 ATAAATATATAAAT
50457563 TGAATAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 11 0.42
17 1 0.04
18 11 0.42
19 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAATATATAAATAAA
Found at i:50457538 original size:22 final size:20
Alignment explanation
Indices: 50457508--50457562 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
50457498 GTTAGCGAAC
*
50457508 AAAATATATAAATATATAAATA
1 AAAAAATATAAATATAT-AA-A
**
50457530 AAAAAATATTTATATATAAA
1 AAAAAATATAAATATATAAA
*
50457550 ATAAAATATAAAT
1 AAAAAATATAAAT
50457563 TGAATAGTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.41
21 2 0.07
22 14 0.52
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATATAAATATATAAA
Found at i:50457545 original size:20 final size:20
Alignment explanation
Indices: 50457519--50457558 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
50457509 AAATATATAA
50457519 ATATATAAATAAAAAAATATTT
1 ATATAT-AA-AAAAAAATATTT
*
50457541 ATATATAAAATAAAATAT
1 ATATATAAAAAAAAATAT
50457559 AAATTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATATAAAAAAAAATATTT
Found at i:50458027 original size:20 final size:20
Alignment explanation
Indices: 50458002--50458070 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
50457992 AGTGGCTATT
* * *
50458002 AAATCAATTTGATAAAAATC
1 AAATCAAATTGATTAGAATC
50458022 AAATCAAATTGATTAGAATC
1 AAATCAAATTGATTAGAATC
*
50458042 AAATAAAATTGATTAGAATC
1 AAATCAAATTGATTAGAATC
*
50458062 AAATAAAAT
1 AAATCAAAT
50458071 AAGGATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (20 bp):
AAATCAAATTGATTAGAATC
Found at i:50461970 original size:24 final size:23
Alignment explanation
Indices: 50461941--50461986 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
50461931 TTAGTGAACA
50461941 AAATATATAAATATATAAATAAAC
1 AAATATATAAATATA-AAATAAAC
* *
50461965 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
50461987 ATATAAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:50462464 original size:20 final size:20
Alignment explanation
Indices: 50462441--50462481 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50462431 TTAAATCAAT
*
50462441 TTGATTAAAATCAAATTAAA
1 TTGATTAAAATCAAATAAAA
*
50462461 TTGATTAGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
50462481 T
1 T
50462482 CAGGATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:50464023 original size:12 final size:14
Alignment explanation
Indices: 50463993--50464024 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50463983 ATCAAATAAA
50463993 AAAAATTAGAATGT
1 AAAAATTAGAATGT
50464007 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
50464019 AAAAAT
1 AAAAAT
50464025 AAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:50464056 original size:34 final size:35
Alignment explanation
Indices: 50463986--50464063 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 35
50463976 TGTAAGAATC
* * * *
50463986 AAATAAAAAAAATTAGAATGTAAAAATTAAATTAA
1 AAATAAAAAAAATTAAAACGTAAAAATAAAACTAA
* *
50464021 AAATAAAAAATATTAAAACG-AAAACTAAAACTAA
1 AAATAAAAAAAATTAAAACGTAAAAATAAAACTAA
*
50464055 AACTAAAAA
1 AAATAAAAA
50464064 TAAAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
34 19 0.53
35 17 0.47
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.21
Consensus pattern (35 bp):
AAATAAAAAAAATTAAAACGTAAAAATAAAACTAA
Found at i:50464077 original size:7 final size:6
Alignment explanation
Indices: 50464006--50464075 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
50463996 AATTAGAATG
* * * * * *
50464006 TAAAAA TTAAAT TAAAAA TAAAAAA TATTAAAA CGAAAAC TAAAAC TAAAAC
1 TAAAAA TAAAAA TAAAAA T-AAAAA TA--AAAA -TAAAAA TAAAAA TAAAAA
50464058 TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA
50464076 ATGGCTAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
6 38 0.73
7 9 0.17
8 4 0.08
9 1 0.02
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:50464506 original size:10 final size:10
Alignment explanation
Indices: 50464491--50464517 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
50464481 TCTCCTTTCT
50464491 CTTCTTCAAC
1 CTTCTTCAAC
50464501 CTTCTTCAAC
1 CTTCTTCAAC
50464511 CTTCTTC
1 CTTCTTC
50464518 TGTTATCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.41, G:0.00, T:0.44
Consensus pattern (10 bp):
CTTCTTCAAC
Found at i:50467296 original size:14 final size:15
Alignment explanation
Indices: 50467274--50467350 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
50467264 CAATCAAACA
50467274 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
50467288 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
50467303 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
50467323 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
50467337 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
50467351 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:50467315 original size:20 final size:20
Alignment explanation
Indices: 50467290--50467329 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50467280 AATATTTTCC
*
50467290 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
50467310 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
50467330 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:50467335 original size:34 final size:35
Alignment explanation
Indices: 50467278--50467344 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
50467268 CAAACACCAG
*
50467278 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
50467313 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
50467345 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:50467351 original size:14 final size:14
Alignment explanation
Indices: 50467313--50467352 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50467303 ACAGAAAAGT
*
50467313 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
50467327 AAATCATTTTACGG
1 AAAACATTTTACAG
50467341 AAAACATTTTAC
1 AAAACATTTTAC
50467353 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:50469025 original size:16 final size:17
Alignment explanation
Indices: 50468985--50469035 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
50468975 TTATTTTTAA
50468985 TATATTA-TAAATATAT
1 TATATTATTAAATATAT
50469001 TATATTATTAAAT-TAT
1 TATATTATTAAATATAT
* *
50469017 TTTATTATTTATATATAT
1 TATATTA-TTAAATATAT
50469035 T
1 T
50469036 TAACTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 16 0.53
17 10 0.33
18 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTATTAAATATAT
Found at i:50484600 original size:26 final size:25
Alignment explanation
Indices: 50484517--50484603 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 25
50484507 GTAAGTCATG
* *
50484517 TAAT-GAGAAGCTCCAGAGAGCCAT
1 TAATCGAGAAGCTCTAGAGAGCAAT
* * *
50484541 TAA-CGGGAAGCT-TATACGAGCAAA
1 TAATCGAGAAGCTCTAGA-GAGCAAT
*
50484565 T-ATCGGGAAGCTCTAGAGAGGCAAT
1 TAATCGAGAAGCTCTAGAGA-GCAAT
50484590 TAATCGAGAAGCTC
1 TAATCGAGAAGCTC
50484604 CGAAGAGCCA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
23 3 0.06
24 27 0.55
25 8 0.16
26 11 0.22
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
TAATCGAGAAGCTCTAGAGAGCAAT
Found at i:50493270 original size:66 final size:66
Alignment explanation
Indices: 50493194--50493323 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
50493184 GATTCTTATT
* *
50493194 AGACAGCTGTCAACTGTGACGACAATTTTGGACGCAAACTAGAATTAACTCATACAACGACATTG
1 AGACAGCTGTCAACTGCGACGACAATTTTGGACACAAACTAGAATTAACTCATACAACGACATTG
50493259 C
66 C
* * * * * * * *
50493260 AGACATCTGTCGACTGCGGCGAGAATTTTGGACACAATCTGGAATTAACTCATGCAGCGACATT
1 AGACAGCTGTCAACTGCGACGACAATTTTGGACACAAACTAGAATTAACTCATACAACGACATT
50493324 AATGCAATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (66 bp):
AGACAGCTGTCAACTGCGACGACAATTTTGGACACAAACTAGAATTAACTCATACAACGACATTG
C
Found at i:50494311 original size:17 final size:17
Alignment explanation
Indices: 50494285--50494325 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
50494275 CTCAATACAC
*
50494285 TGAC-ATGAATATGTAA
1 TGACAATGAATATGCAA
50494301 TGACAATGAATATGCAA
1 TGACAATGAATATGCAA
*
50494318 TAACAATG
1 TGACAATG
50494326 TATACTTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (17 bp):
TGACAATGAATATGCAA
Found at i:50515889 original size:11 final size:11
Alignment explanation
Indices: 50515858--50515901 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
50515848 TTTCTCATTA
*
50515858 CTTTTCTTTAT
1 CTTTTCTTTTT
50515869 CTTCTTCTTTTT
1 CTT-TTCTTTTT
**
50515881 CTTTTCTTTCC
1 CTTTTCTTTTT
50515892 CTTTTCTTTT
1 CTTTTCTTTT
50515902 CATCAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (11 bp):
CTTTTCTTTTT
Done.