Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1483171 original size:2 final size:2
Alignment explanation
Indices: 1483164--1483199 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1483154 TGAGAAAATA
1483164 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1483200 TACAAAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1490304 original size:10 final size:10
Alignment explanation
Indices: 1490289--1490333 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
1490279 AGAATAAATT
1490289 TTTATTTGAA
1 TTTATTTGAA
*
1490299 TTTATTT-TA
1 TTTATTTGAA
*
1490308 TTTTTTTGAA
1 TTTATTTGAA
*
1490318 TTTATTTGTA
1 TTTATTTGAA
1490328 TTTATT
1 TTTATT
1490334 AAATATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (10 bp):
TTTATTTGAA
Found at i:1490317 original size:19 final size:21
Alignment explanation
Indices: 1490288--1490330 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
1490278 TAGAATAAAT
1490288 TTTTATTTGAATTTATTT-TA
1 TTTTATTTGAATTTATTTGTA
1490308 TTTT-TTTGAATTTATTTGTA
1 TTTTATTTGAATTTATTTGTA
1490328 TTT
1 TTT
1490331 ATTAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (21 bp):
TTTTATTTGAATTTATTTGTA
Found at i:1490342 original size:29 final size:28
Alignment explanation
Indices: 1490289--1490350 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
1490279 AGAATAAATT
* * * *
1490289 TTTATTTGAATTTATTTTATTTTTTTGAA
1 TTTATTTGAATTTA-TTAAATATTTTAAA
*
1490318 TTTATTTGTATTTATTAAATATTTTAAA
1 TTTATTTGAATTTATTAAATATTTTAAA
1490346 TTTAT
1 TTTAT
1490351 GTTTTTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (28 bp):
TTTATTTGAATTTATTAAATATTTTAAA
Found at i:1490412 original size:15 final size:15
Alignment explanation
Indices: 1490371--1490413 Score: 63
Period size: 13 Copynumber: 3.0 Consensus size: 15
1490361 TTTAATTAAA
1490371 ATTAAATATATTTAT
1 ATTAAATATATTTAT
*
1490386 ATT-CAT-TATTTAT
1 ATTAAATATATTTAT
1490399 ATTAAATATATTTAT
1 ATTAAATATATTTAT
1490414 TCACAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 4 0.17
15 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATATTTAT
Found at i:1490561 original size:20 final size:21
Alignment explanation
Indices: 1490513--1490569 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
1490503 AATATTTTTG
*
1490513 TTAATTTTAAATATAAAATAA
1 TTAATATTAAATATAAAATAA
* *
1490534 -TAAAATTAAATAT-TAATAA
1 TTAATATTAAATATAAAATAA
1490553 TTAATATTATAA-ATAAA
1 TTAATATTA-AATATAAA
1490570 TAAAACACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 5 0.18
20 20 0.71
21 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATATTAAATATAAAATAA
Found at i:1490908 original size:17 final size:17
Alignment explanation
Indices: 1490883--1490923 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
1490873 AAATAATTAA
*
1490883 AATATAACAT-AAAATAT
1 AATACAACATGAAAA-AT
1490900 AATACAACATGAAAAAT
1 AATACAACATGAAAAAT
1490917 AATACAA
1 AATACAA
1490924 ACACGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.66, C:0.10, G:0.02, T:0.22
Consensus pattern (17 bp):
AATACAACATGAAAAAT
Found at i:1491681 original size:29 final size:30
Alignment explanation
Indices: 1491625--1491683 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
1491615 GGAACAAAAT
* * *
1491625 TTTTTAATATTTACAAATAAACTTTTAAAC
1 TTTTTAATAATTACAAAAAAACTCTTAAAC
*
1491655 TTTTTAA-AATTACAAAAAAAGTCTTAAAC
1 TTTTTAATAATTACAAAAAAACTCTTAAAC
1491684 AATCGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (30 bp):
TTTTTAATAATTACAAAAAAACTCTTAAAC
Found at i:1495862 original size:19 final size:20
Alignment explanation
Indices: 1495833--1495882 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
1495823 ATATACGTGA
1495833 AATTAATAAAAAAT-T-AAAT
1 AATT-ATAAAAAATGTGAAAT
1495852 AA-TATATAAAAATGTGAAAT
1 AATTATA-AAAAATGTGAAAT
1495872 AATTATAAAAA
1 AATTATAAAAA
1495883 GTAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 3 0.11
20 10 0.37
21 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAATGTGAAAT
Found at i:1495864 original size:18 final size:17
Alignment explanation
Indices: 1495841--1495887 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
1495831 GAAATTAATA
1495841 AAAAATTAAATAATATAT
1 AAAAATTAAATAAT-TAT
1495859 AAAAATGTGAAATAATTAT
1 AAAAAT-T-AAATAATTAT
*
1495878 AAAAAGTAAA
1 AAAAATTAAA
1495888 AAAAATAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 3 0.12
18 7 0.27
19 9 0.35
20 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAAATTAAATAATTAT
Found at i:1496436 original size:104 final size:105
Alignment explanation
Indices: 1496298--1496538 Score: 328
Period size: 105 Copynumber: 2.3 Consensus size: 105
1496288 ATCAAGTATA
* ** *
1496298 ATGAAATTTAA-TAATAAATAATTATC-TAAAACAAAATTATATTA-TAAATTAATTACTAAATT
1 ATGAAATTAAATTAATAAA-AATT-TCATAGTACAAAATTATAATACTAAATTAATTACTAAATT
*
1496360 AAATCAGTTAACTTTGTTTAATATTTTTAAATTTT-AAAATTT
64 AAATCAGTTAA-TTTGTTTAATATTTTTAAATTTTAAAAATGT
*
1496402 ATGAAATTAAATTAATAAAAATTTCATAGTACAAAATTATAATACTAAATTAATTAGTAAATTAA
1 ATGAAATTAAATTAATAAAAATTTCATAGTACAAAATTATAATACTAAATTAATTACTAAATTAA
* * *
1496467 ATTAGTTAATTTTTTTGATATTTTTAAATTTTAAAAATGT
66 ATCAGTTAATTTGTTTAATATTTTTAAATTTTAAAAATGT
* *
1496507 ATAAAATTAAATTACTAAAAATTTCATAGTAC
1 ATGAAATTAAATTAATAAAAATTTCATAGTAC
1496539 GTAAAAATTT
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
103 2 0.02
104 50 0.41
105 70 0.57
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.43
Consensus pattern (105 bp):
ATGAAATTAAATTAATAAAAATTTCATAGTACAAAATTATAATACTAAATTAATTACTAAATTAA
ATCAGTTAATTTGTTTAATATTTTTAAATTTTAAAAATGT
Found at i:1497740 original size:2 final size:2
Alignment explanation
Indices: 1497733--1497763 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1497723 GGAAGAAAAT
1497733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1497764 TGTATAGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1499687 original size:255 final size:255
Alignment explanation
Indices: 1499227--1500000 Score: 1532
Period size: 255 Copynumber: 3.0 Consensus size: 255
1499217 AAAAAGTGAT
1499227 CTGT-ATATAAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACA
1 CTGTGATAT-AAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACA
1499291 GCTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATA
65 GCTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATA
1499356 CTCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTA
130 CTCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTA
1499421 ACGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
195 ACGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
1499482 CTGTGATATAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACAG
1 CTGTGATATAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACAG
1499547 CTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATAC
66 CTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATAC
1499612 TCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTAA
131 TCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTAA
1499677 CGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
196 CGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
1499737 CTGTGATATAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACAG
1 CTGTGATATAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACAG
1499802 CTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATAC
66 CTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATAC
1499867 TCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTAA
131 TCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTAA
1499932 CGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
196 CGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
1499992 CTGTGATAT
1 CTGTGATAT
1500001 GACTCTCTCC
Statistics
Matches: 518, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
255 514 0.99
256 4 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (255 bp):
CTGTGATATAAATAGTAACTCATTAGCCAGTCTGCCATATTTGACATGGTCTCTTCCAGTGACAG
CTTCAAGCAGGACACCAAAGCTGTAAATATCACTCCGCTCATTTAAGAAGCCAGTCTTAGCATAC
TCTGGTGCCACATAACTGCAATTTACATGATAAATTTTCAATCAGAAGATACTTAGATACAGTAA
CGGATTGTTTCTGGAGAGAATAAGAATTTAGAATTTACCTAAAAGTCCCTATAACTCTAG
Found at i:1502236 original size:21 final size:21
Alignment explanation
Indices: 1502210--1502252 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1502200 TTCCTTGGGC
1502210 ATTCAAAGAAGCAAAGAAAAA
1 ATTCAAAGAAGCAAAGAAAAA
1502231 ATTCAAAGAAGCAAAGAAAAA
1 ATTCAAAGAAGCAAAGAAAAA
1502252 A
1 A
1502253 AAGCCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.67, C:0.09, G:0.14, T:0.09
Consensus pattern (21 bp):
ATTCAAAGAAGCAAAGAAAAA
Found at i:1502837 original size:20 final size:19
Alignment explanation
Indices: 1502792--1502839 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
1502782 TACGTTATAT
1502792 TTAATTAA-TTTTTAAATA
1 TTAATTAATTTTTTAAATA
*
1502810 TTATATTAATTTTTGTAATTA
1 TTA-ATTAATTTTT-TAAATA
1502831 TTAATTAAT
1 TTAATTAAT
1502840 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 5 0.19
20 10 0.38
21 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTAATTAATTTTTTAAATA
Found at i:1502917 original size:8 final size:8
Alignment explanation
Indices: 1502904--1503002 Score: 62
Period size: 8 Copynumber: 11.6 Consensus size: 8
1502894 TAAATAATAA
1502904 ATTTAAAT
1 ATTTAAAT
1502912 ATTT-AA-
1 ATTTAAAT
1502918 ATTTAATATT
1 ATTTAA-A-T
1502928 ATTTAAAT
1 ATTTAAAT
1502936 ATTTAATTATT
1 ATTTAA--A-T
1502947 ATTT-AAT
1 ATTTAAAT
*
1502954 -TTTATATT
1 ATTTA-AAT
*
1502962 TTTTAAAAAT
1 ATTT--AAAT
1502972 ATTTAATAT
1 ATTTAA-AT
1502981 ATTTAAAT
1 ATTTAAAT
1502989 ATTTAATAT
1 ATTTAA-AT
1502998 ATTTA
1 ATTTA
1503003 GATTTTCAAC
Statistics
Matches: 74, Mismatches: 3, Indels: 27
0.71 0.03 0.26
Matches are distributed among these distances:
6 7 0.09
7 4 0.05
8 25 0.34
9 19 0.26
10 13 0.18
11 6 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
ATTTAAAT
Found at i:1502948 original size:19 final size:19
Alignment explanation
Indices: 1502918--1503000 Score: 81
Period size: 17 Copynumber: 4.6 Consensus size: 19
1502908 AAATATTTAA
1502918 ATTTAA-TATTATTTAAAT
1 ATTTAATTATTATTTAAAT
1502936 ATTTAATTATTATTT-AAT
1 ATTTAATTATTATTTAAAT
*
1502954 -TTTATATT-TT-TTAAAAAT
1 ATTTA-ATTATTATT-TAAAT
1502972 ATTTAA-TA-TATTTAAAT
1 ATTTAATTATTATTTAAAT
1502989 ATTTAATATATT
1 ATTTAAT-TATT
1503001 TAGATTTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
16 2 0.04
17 18 0.34
18 18 0.34
19 14 0.26
20 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTAATTATTATTTAAAT
Found at i:1502952 original size:35 final size:33
Alignment explanation
Indices: 1502904--1503002 Score: 105
Period size: 34 Copynumber: 2.9 Consensus size: 33
1502894 TAAATAATAA
1502904 ATTTAA-ATATTTAAATTTAATATTATTTAAAT
1 ATTTAATATATTTAAATTTAATATTATTTAAAT
* *
1502936 ATTTAATTATTATTT-AATTTTATATTTTTTAAAAAT
1 ATTTAA-TA-TATTTAAATTTAATATTATTT--AAAT
1502972 ATTTAATATATTTAAATATTTAATA-TATTTA
1 ATTTAATATATTT-AA-ATTTAATATTATTTA
1503003 GATTTTCAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
32 6 0.11
34 20 0.36
35 7 0.13
36 15 0.27
37 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
ATTTAATATATTTAAATTTAATATTATTTAAAT
Found at i:1502982 original size:9 final size:9
Alignment explanation
Indices: 1502970--1503002 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1502960 TTTTTTAAAA
1502970 ATATTTAAT
1 ATATTTAAT
1502979 ATATTTAA-
1 ATATTTAAT
1502987 ATATTTAAT
1 ATATTTAAT
1502996 ATATTTA
1 ATATTTA
1503003 GATTTTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATATTTAAT
Found at i:1503143 original size:18 final size:18
Alignment explanation
Indices: 1503109--1503143 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1503099 ATTATATAAA
*
1503109 TTTAAATATTTAAAAATT
1 TTTAAATATTCAAAAATT
*
1503127 TTTAAATATTCACAAAT
1 TTTAAATATTCAAAAAT
1503144 GCACTTACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTAAATATTCAAAAATT
Found at i:1503973 original size:23 final size:22
Alignment explanation
Indices: 1503912--1503976 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
1503902 CGTATTAATT
* *
1503912 ATTATTTTAATAAAAT-AAAAA
1 ATTATATTAATAAATTAAAAAA
* *
1503933 ATAATATTTAATTTAATTAAAAAA
1 ATTATA-TTAA-TAAATTAAAAAA
1503957 ATTTATATTAATAAATTAAA
1 A-TTATATTAATAAATTAAA
1503977 GTATTAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.12
22 4 0.12
23 12 0.35
24 10 0.29
25 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTATATTAATAAATTAAAAAA
Found at i:1504367 original size:23 final size:23
Alignment explanation
Indices: 1504324--1504367 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1504314 TTTAAAGTTA
*
1504324 TTTTATTTTAAGATATGATTTAT
1 TTTTATTTTAAGATATAATTTAT
1504347 TTTTATTTATAAGAT-TAATTT
1 TTTTATTT-TAAGATATAATTT
1504368 GATTAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTATTTTAAGATATAATTTAT
Found at i:1504655 original size:16 final size:16
Alignment explanation
Indices: 1504630--1504703 Score: 58
Period size: 16 Copynumber: 4.6 Consensus size: 16
1504620 CTTTAGGAAA
1504630 AAAAAGAAAGAAAAAAG
1 AAAAA-AAAGAAAAAAG
*
1504647 AAAAAAAAGAAAGAAG
1 AAAAAAAAGAAAAAAG
* * * **
1504663 AAGAACAAGGAATGAG
1 AAAAAAAAGAAAAAAG
* * *
1504679 AGAAAAAATAAAAAAT
1 AAAAAAAAGAAAAAAG
1504695 AAAAAAAAG
1 AAAAAAAAG
1504704 GGTCACTTGT
Statistics
Matches: 41, Mismatches: 16, Indels: 1
0.71 0.28 0.02
Matches are distributed among these distances:
16 36 0.88
17 5 0.12
ACGTcount: A:0.77, C:0.01, G:0.18, T:0.04
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:1507642 original size:21 final size:20
Alignment explanation
Indices: 1507616--1507664 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1507606 TAATCAAGAC
*
1507616 TTAATAAATAATTAGA-TAAA
1 TTAATAAA-AATTAAACTAAA
1507636 TTTAATACAAAATTAAACTAAA
1 -TTAATA-AAAATTAAACTAAA
1507658 TTAATAA
1 TTAATAA
1507665 TATATAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAATAAAAATTAAACTAAA
Found at i:1512180 original size:40 final size:39
Alignment explanation
Indices: 1512104--1512181 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1512094 GGTAAAAAGA
* * *
1512104 CATAATGTATCGATACATTGTAGAATATATCTATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1512143 CATACATGTATCGATATATTGAAAAATTTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1512182 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1512785 original size:32 final size:30
Alignment explanation
Indices: 1512742--1513815 Score: 1214
Period size: 32 Copynumber: 36.1 Consensus size: 30
1512732 TTTTTAAAAA
* *
1512742 AAAAGGGTGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTGCCACTGACTT-TGTGGGCTTTG
** *
1512773 AAAAGAATTGCCACTGACTCGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACT-TTGTGGGCTTTG
* *
1512805 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
*
1512837 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
* *
1512869 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACTT-TGTGGGCTTTG
* *
1512901 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
* * * *
1512933 GAATGGGTTGCCACCGACTTGTGTGGGCTTTA
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
*
1512965 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
* *
1512997 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACTT-TGTGGGCTTTG
* *
1513029 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
* *
1513061 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACTT-TGTGGGCTTTG
*
1513093 AAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTT-TGTGGGCTTTG
* *
1513125 AAAATGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACTT-TGTGGGCTTTG
** * *
1513157 -AAAGAATGCCACTAAC-TTGTGGGCTCTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
* * *
1513185 -AAATGGTACCACTAAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513213 -AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
* *
1513241 AAAAGAGCGCCACTGA-TTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513270 AAAAGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513299 -AAAGGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGG-GTGCCACTGACTTTGTGGGCTTTG
*
1513328 -AAAGGGTGCCACTAAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513356 -AAAGGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGG-GTGCCACTGACTTTGTGGGCTTTG
1513385 -AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513413 AAAAGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513442 -AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513470 -AAAGGGTGCCACTAAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513498 AAAAGAGTGCCACTGA-TTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513527 AAAAGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513556 -AAAGGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGG-GTGCCACTGACTTTGTGGGCTTTG
*
1513585 -AAAGGGTGCCACTGA-GTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513613 -AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513641 AAAAGAGTGCCACTGA-TTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513670 AAAAGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513699 -AAAGGGTGCCATTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513727 -AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513755 AAAAGAGTGCCACTGA-TTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
*
1513784 AAAAGAGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTTGTGGGCTTTG
1513813 AAA
1 AAA
1513816 GGGATGAACA
Statistics
Matches: 958, Mismatches: 56, Indels: 60
0.89 0.05 0.06
Matches are distributed among these distances:
28 272 0.28
29 327 0.34
30 9 0.01
31 14 0.01
32 328 0.34
33 8 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (30 bp):
AAAAGGGTGCCACTGACTTTGTGGGCTTTG
Found at i:1513340 original size:143 final size:143
Alignment explanation
Indices: 1512742--1513815 Score: 1231
Period size: 143 Copynumber: 7.2 Consensus size: 143
1512732 TTTTTAAAAA
* * * *
1512742 AAAAGGGTGCCACTAACTTATGTGGGCCTTGAAAAGAATTGCCACTGACTCGTGTGGGCTTTGAA
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-AGTGCCACTGA-T-TTGTGGGCTTTGAA
* * * *
1512807 ATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAA
61 AAGAG-TGCCACTGAC-T-TGTGGGCTTTG-AAAGGG-TGCCACTGAC-T-TGTGGGCTTTG-AA
* *
1512872 ATGGTTGCCACCGACTTGTGTGGGCTTTG
118 A-GGGTGCCACTGAC-T-TGTGGGCTTTG
* * * * * * *
1512901 AAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTAA
1 AAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTGA
* * * *
1512966 AAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAATGGTTGCCACCGACTTGTGTGGGCTTTGAA
60 AAAGAG-TGCCACTGAC-T-TGTGGGCTTTG-AAA-GGGTGCCACTGAC-T-TGTGGGCTTTGAA
*
1513031 ATGGGTTGCCACCGACTTGTGTGGGCTTTG
118 A-GGG-TGCCACTGAC-T-TGTGGGCTTTG
* * * *
1513061 AAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 AAAA-GGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGA-TT-TGTGGGCTTTGA
* ** * * *
1513126 AAATG-GTTGCCACCGACTTGTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTCTGAAATG
60 AAA-GAG-TGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1513190 GTACCACTAACTTGTGGGCTTTG
121 GTGCCACTGACTTGTGGGCTTTG
*
1513213 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGCGCCACTGATTTGTGGGCTTTGAAAAGAG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAG
*
1513277 TGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTA
66 TGCCACTGACTTGTGGGCTTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1513342 ACTTGTGGGCTTTG
130 ACTTGTGGGCTTTG
* *
1513356 -AAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 AAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
*
1513419 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTA
65 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTG
1513484 ACTTGTGGGCTTTG
130 ACTTGTGGGCTTTG
* * * *
1513498 AAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAG
*
1513563 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAGTTGTGGGCTTTGAAAGGGTGCCACTGA
66 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
1513628 CTTGTGGGCTTTG
131 CTTGTGGGCTTTG
* * * *
1513641 AAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAG
* *
1513705 TGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
66 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTG
*
1513770 ATTTGTGGGCTTTG
130 ACTTGTGGGCTTTG
*
1513784 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAA
1513816 GGGATGAACA
Statistics
Matches: 845, Mismatches: 57, Indels: 42
0.90 0.06 0.04
Matches are distributed among these distances:
142 140 0.17
143 339 0.40
144 33 0.04
145 16 0.02
146 2 0.00
147 7 0.01
148 17 0.02
149 1 0.00
150 11 0.01
151 3 0.00
152 11 0.01
153 1 0.00
154 7 0.01
155 2 0.00
156 13 0.02
157 1 0.00
158 9 0.01
159 15 0.02
160 212 0.25
161 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (143 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAG
TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
CTTGTGGGCTTTG
Found at i:1513653 original size:257 final size:263
Alignment explanation
Indices: 1512781--1513817 Score: 1415
Period size: 257 Copynumber: 3.9 Consensus size: 263
1512771 TGAAAAGAAT
1512781 TGCCACTGACTCGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTT
1 TGCCACTGACT--TGTGGGCTTTGAAA-GGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTT
*
1512846 GCCACCGACTTGTGTGGGCTTTGAAAATG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTT
63 GCCACCGACTTGTGTGGGCTTTGAAAA-GAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-T
* * * * *
1512910 GCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTG
122 GCCACTGAC-T-TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TG
* *
1512975 CCACCGACTTGTGTGGGCTTTGAAAATG-GTTGCCACCGACTTGTGTGGGCTTTGAAATGG-GTT
180 CCACTGA-TT-TGTGGGCTTTGAAAA-GAG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGAG-T
* *
1513038 GCCACCGACTTGTGTGGGCTTTGAAAATGGT
237 GCCACTGAC-T-TGTGGGCTTTG-AAA-GGG
* *
1513069 TGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAATGGTT
1 TGCCACTGAC-T-TGTGGGCTTTG-AAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTT
* * * * *
1513134 GCCACCGACTTGTGTGGGCTTTG-AAAGAATGCCACTAACTTGTGGGCTCTGAAATGGTACCACT
63 GCCACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACT
* *
1513198 AACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGCGCCACTGATTTGTG
128 GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTG
1513263 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG
193 GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG
1513328 AAAGGG
258 AAAGGG
* *
1513334 TGCCACTAACTTGTGGGCTTTGAAAGGAG-TGCCACTGAC-T-TGTGGGCTTTG-AAAGGG-TGC
1 TGCCACTGACTTGTGGGCTTTGAAAGG-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGC
*
1513394 CACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
65 CACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
*
1513457 CTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGG
130 CTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGG
1513522 CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAA
195 CTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAA
1513587 AGGG
260 AGGG
* * *
1513591 TGCCACTGAGTTGTGGGCTTTGAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCC
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCC
* *
1513652 ACTGA-TT-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGAC
66 ACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC
1513715 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
131 TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1513780 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
196 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1513818 GATGAACATT
Statistics
Matches: 703, Mismatches: 37, Indels: 49
0.89 0.05 0.06
Matches are distributed among these distances:
256 34 0.05
257 367 0.52
258 9 0.01
259 5 0.01
260 11 0.02
261 1 0.00
262 14 0.02
263 12 0.02
264 1 0.00
265 10 0.01
266 3 0.00
267 11 0.02
268 1 0.00
269 11 0.02
270 15 0.02
271 1 0.00
272 10 0.01
273 16 0.02
274 2 0.00
275 7 0.01
276 16 0.02
277 1 0.00
278 9 0.01
279 6 0.01
280 10 0.01
281 1 0.00
282 7 0.01
283 2 0.00
284 13 0.02
285 1 0.00
286 9 0.01
287 3 0.00
288 80 0.11
289 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (263 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCC
ACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAC
TTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAA
GGG
Found at i:1513816 original size:114 final size:114
Alignment explanation
Indices: 1512743--1513818 Score: 1228
Period size: 114 Copynumber: 9.1 Consensus size: 114
1512733 TTTTAAAAAA
* * **
1512743 AAAGGGTGCCACTAACTTATGTGGGCCTTGAAAAGAATTGCCACTGACTCGTGTGGGCTTTGAAA
1 AAAGGGTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAA
* * * *
1512808 TGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
60 AGAG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* * * *
1512869 AAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 -AAA-GGGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGA
* * * * *
1512934 AATGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
58 AAAGAG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* * *
1512997 AAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGA
1 -AAA-GGGTGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGA
* *
1513062 AAATG-GTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTG
58 AAA-GAG-TGCCACTGA-TT-TGTGGGCTTTGAAAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* * ** * * *
1513125 AAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAAGAATGCCACTAACTTGTGGGCTCTGAAATG
1 -AAA-GGGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
* * *
1513190 -GTACCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
62 AGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
1513241 AAAAGAGCGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAG
1 -AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG
* *
1513306 TGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTG
64 TGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
1513356 AAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
*
1513421 GCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
65 GCCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
1513470 AAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGT
1 AAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGT
*
1513535 GCCACTGACTTGTGGGCTTTG-AAAGGAGTGCCACTGACTTGTGGGCTTTG
65 GCCACTGATTTGTGGGCTTTGAAAAGG-GTGCCACTGACTTGTGGGCTTTG
*
1513585 AAAGGGTGCCACTGAGTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
*
1513650 CCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
66 CCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
*
1513699 AAAGGGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
1 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
*
1513764 CCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
66 CCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
1513813 AAAGGG
1 AAAGGG
1513819 ATGAACATTC
Statistics
Matches: 885, Mismatches: 53, Indels: 35
0.91 0.05 0.04
Matches are distributed among these distances:
113 33 0.04
114 376 0.42
115 130 0.15
116 15 0.02
117 1 0.00
118 9 0.01
119 6 0.01
120 11 0.01
121 1 0.00
122 6 0.01
123 2 0.00
124 13 0.01
125 1 0.00
126 8 0.01
127 7 0.01
128 264 0.30
129 2 0.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.29
Consensus pattern (114 bp):
AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTG
CCACTGATTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:1515052 original size:1 final size:1
Alignment explanation
Indices: 1515048--1515106 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
1515038 TTTTTTGCTA
* * * * * * *
1515048 TTTTTTCTTTTTTTGTTTTTTGTTTTGTTTTTTTTTTGTGTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1515107 GGGTGTAAAG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:1515066 original size:13 final size:12
Alignment explanation
Indices: 1515050--1515106 Score: 80
Period size: 13 Copynumber: 4.7 Consensus size: 12
1515040 TTTTGCTATT
1515050 TTTTCTTTTTTTG
1 TTTT-TTTTTTTG
*
1515063 TTTTTTGTTTTG
1 TTTTTTTTTTTG
1515075 -TTTTTTTTTTG
1 TTTTTTTTTTTG
1515086 TGTTTTTTTTTTG
1 T-TTTTTTTTTTG
1515099 TTTTTTTT
1 TTTTTTTT
1515107 GGGTGTAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
11 10 0.25
12 14 0.35
13 16 0.40
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:1515067 original size:25 final size:25
Alignment explanation
Indices: 1515038--1515106 Score: 83
Period size: 24 Copynumber: 2.8 Consensus size: 25
1515028 CCCTTCTATT
1515038 TTTTTTGCTATTT-TTTCTTTTTT-TG
1 TTTTTTG-T-TTTGTTTCTTTTTTGTG
*
1515063 TTTTTTGTTTTGTTTTTTTTTTGTG
1 TTTTTTGTTTTGTTTCTTTTTTGTG
1515088 TTTTTT-TTTTGTTT-TTTTT
1 TTTTTTGTTTTGTTTCTTTTT
1515107 GGGTGTAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
23 8 0.20
24 18 0.44
25 15 0.37
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.86
Consensus pattern (25 bp):
TTTTTTGTTTTGTTTCTTTTTTGTG
Found at i:1515084 original size:11 final size:11
Alignment explanation
Indices: 1515055--1515106 Score: 77
Period size: 12 Copynumber: 4.5 Consensus size: 11
1515045 CTATTTTTTC
1515055 TTTTTTTGTTT
1 TTTTTTTGTTT
1515066 TTTGTTTTGTTTT
1 TTT-TTTTG-TTT
1515079 TTTTTTGTGTTT
1 TTTTTT-TGTTT
1515091 TTTTTTTGTTT
1 TTTTTTTGTTT
1515102 TTTTT
1 TTTTT
1515107 GGGTGTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.34
12 17 0.45
13 8 0.21
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1515112 original size:24 final size:25
Alignment explanation
Indices: 1515061--1515112 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
1515051 TTTCTTTTTT
**
1515061 TGTTTTTTGTTTTGTTTTTTTTTTG
1 TGTTTTTTGTTTTGTTTTTTTTGGG
1515086 TGTTTTTT-TTTTGTTTTTTTTGGG
1 TGTTTTTTGTTTTGTTTTTTTTGGG
1515110 TGT
1 TGT
1515113 AAAGGACGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (25 bp):
TGTTTTTTGTTTTGTTTTTTTTGGG
Found at i:1526088 original size:20 final size:20
Alignment explanation
Indices: 1526060--1526134 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1526050 TCATACCCTG
1526060 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1526080 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
1526100 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
1526120 ATGTATCGATACATT
1 ATGTATCGATACATT
1526135 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1526127 original size:40 final size:39
Alignment explanation
Indices: 1526060--1526137 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1526050 TCATACCCTG
* *
1526060 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
1526100 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
1526138 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:1527080 original size:22 final size:22
Alignment explanation
Indices: 1527046--1527099 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1527036 AGCCTTTGAC
1527046 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1527067 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
1527089 CATGCATTTTT
1 CATGCATTTTT
1527100 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:1531927 original size:52 final size:52
Alignment explanation
Indices: 1531834--1531961 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1531824 CACTGATCTT
*
1531834 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1531885 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1531937 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1531962 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1536457 original size:86 final size:86
Alignment explanation
Indices: 1536311--1536475 Score: 271
Period size: 86 Copynumber: 1.9 Consensus size: 86
1536301 CAAGGGTATG
*
1536311 CATATGGGATGTAGGCTCATACTGATAAAGATGATCACTAGCTCTGCCACTAACTAACAAATTAA
1 CATATGGGATGTAGGCTCATACTGATAAAGATGATCACTAGCTCTGCCACTAAATAACAAATTAA
1536376 AAACATTGATATCAGCAATGA
66 AAACATTGATATCAGCAATGA
*
1536397 CATATGGGATGTAGGCTCATACTGATAAAGACT-ATCACTAGCT-TCGCCACTAAATGACAAATT
1 CATATGGGATGTAGGCTCATACTGATAAAGA-TGATCACTAGCTCT-GCCACTAAATAACAAATT
*
1536460 AGAAACATTGATATCA
64 AAAAACATTGATATCA
1536476 TCAACGATAT
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
85 1 0.01
86 72 0.97
87 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (86 bp):
CATATGGGATGTAGGCTCATACTGATAAAGATGATCACTAGCTCTGCCACTAAATAACAAATTAA
AAACATTGATATCAGCAATGA
Found at i:1541126 original size:92 final size:92
Alignment explanation
Indices: 1541002--1541196 Score: 259
Period size: 92 Copynumber: 2.1 Consensus size: 92
1540992 GCATTGGTCT
* * * *
1541002 CATTTACAATCAATCAACTTTTCAGCTTTTCTACC-AAAAGAAATTTGATTCTTAAATATAATTC
1 CATTTACAATCAATCAACTTTTCAGCTTTTCTACCAAAAAG-AATCTGATTCTCAAATACAATTA
*
1541066 ATGCATTAATCTAATTCTTAAAATCTGA
65 ATGCATTAATCTAATCCTTAAAATCTGA
** *
1541094 CATTTACAATCAATCAACTTTTC-TTTCTTTCTACCAAAAAGAATCTGATTCTCAGATACAATTA
1 CATTTACAATCAATCAACTTTTCAGCT-TTTCTACCAAAAAGAATCTGATTCTCAAATACAATTA
* * *
1541158 ATGCATTAGTCTAATCCTTATAGTCTGA
65 ATGCATTAATCTAATCCTTAAAATCTGA
1541186 CATTTACAATC
1 CATTTACAATC
1541197 CATGCATTAC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
91 1 0.01
92 84 0.93
93 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.38
Consensus pattern (92 bp):
CATTTACAATCAATCAACTTTTCAGCTTTTCTACCAAAAAGAATCTGATTCTCAAATACAATTAA
TGCATTAATCTAATCCTTAAAATCTGA
Found at i:1541269 original size:18 final size:19
Alignment explanation
Indices: 1541229--1541269 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
1541219 TTTTTTGCAT
* *
1541229 ATCAGAAAGAATCTGATTC
1 ATCATAAAGAATCTGATGC
1541248 -TCATAAAGAATCT-ATGC
1 ATCATAAAGAATCTGATGC
1541265 ATCAT
1 ATCAT
1541270 GCATTAGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (19 bp):
ATCATAAAGAATCTGATGC
Found at i:1541559 original size:165 final size:163
Alignment explanation
Indices: 1541271--1541711 Score: 485
Period size: 165 Copynumber: 2.7 Consensus size: 163
1541261 ATGCATCATG
*
1541271 CATTAGTCTTATCAACTTTTTTCATATCAG-AAGAAATTTGATTCCCA-TCAGCAATCTATACAT
1 CATTAGTCTTATCAACTTTTTTCATATCAGAAAG-AATTTGATTCCCATTAAG-AATCTATACAT
* * * * * * * *
1541334 TAATCACATCTATTTCAAAACAAAATCCATGCATTAGTCCTATCTTTCGAATTTCAATCCATGCA
64 TTATCATATTTA-TTCAAAA-AAAATCTATGCATTAGTCTTATCTTTTGAACTCCAATCCATGCA
* * * *
1541399 TTAGTCTATTTCTTGCAGTCCAATATTTACAATCCATA
127 TTAGTCTATTCCTTACAGTCCAACATTTACAA-ACATA
* * * * *
1541437 TATTAGTCTTATTAACTTTTTCCATATTAGAAAGAATTTAATTCCCATTAAGAATCTA-AGCATT
1 CATTAGTCTTATCAACTTTTTTCATATCAGAAAGAATTTGATTCCCATTAAGAATCTATA-CATT
*
1541501 TATCATATTTATTCAAAAAAAATTTTATGCATTAGTCTTATCTTTTGAACTCCAATCCATGCATT
65 TATCATATTTATTCAAAAAAAA-TCTATGCATTAGTCTTATCTTTTGAACTCCAATCCATGCATT
* *** *
1541566 AGTTTATTCCTTACAGTTTGACATTTACAAACATG
129 AGTCTATTCCTTACAGTCCAACATTTACAAACATA
* * * * * *
1541601 CATTAGTTTTATCAA-TTTCTTTCATATCAGAAAAAATCTGATTTCCATTAAAAATTTATACATT
1 CATTAGTCTTATCAACTTT-TTTCATATCAGAAAGAATTTGATTCCCATTAAGAATCTATACATT
*
1541665 TATCATATTTATTCAAAAATAGAATCTATGCATTAGTCTCATCTTTT
65 TATCATATTTATTCAAAAA-A-AATCTATGCATTAGTCTTATCTTTT
1541712 AAATTTTGAT
Statistics
Matches: 230, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
163 3 0.01
164 73 0.32
165 90 0.39
166 58 0.25
167 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (163 bp):
CATTAGTCTTATCAACTTTTTTCATATCAGAAAGAATTTGATTCCCATTAAGAATCTATACATTT
ATCATATTTATTCAAAAAAAATCTATGCATTAGTCTTATCTTTTGAACTCCAATCCATGCATTAG
TCTATTCCTTACAGTCCAACATTTACAAACATA
Found at i:1541837 original size:39 final size:40
Alignment explanation
Indices: 1541687--1541838 Score: 123
Period size: 39 Copynumber: 3.9 Consensus size: 40
1541677 TCAAAAATAG
* *
1541687 AATCTATGCATTAGTC-TCATCTTTTAAATTTTGAT-AAAA
1 AATCTATACATTAGTCAT-ATCTTTTAAATTTTAATAAAAA
* * * * * ** *
1541726 AATTTATATATTAATCACATCTTTTAGATTCAAAT-AAAT
1 AATCTATACATTAGTCATATCTTTTAAATTTTAATAAAAA
* * * *
1541765 AATCTATACATTACTAATATCTTTCAAAATTTAATAAAAA
1 AATCTATACATTAGTCATATCTTTTAAATTTTAATAAAAA
* *
1541805 AATC-ATGCATTAGTCATATCTTTTAGATTTTAAT
1 AATCTATACATTAGTCATATCTTTTAAATTTTAAT
1541839 TAACTCTAAA
Statistics
Matches: 84, Mismatches: 27, Indels: 4
0.73 0.23 0.03
Matches are distributed among these distances:
39 77 0.92
40 7 0.08
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.43
Consensus pattern (40 bp):
AATCTATACATTAGTCATATCTTTTAAATTTTAATAAAAA
Found at i:1542149 original size:14 final size:14
Alignment explanation
Indices: 1542130--1542162 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1542120 CATATGTAAA
1542130 AAAAATATATTT-TG
1 AAAAATAT-TTTCTG
1542144 AAAAATATTTTCTG
1 AAAAATATTTTCTG
1542158 AAAAA
1 AAAAA
1542163 CCTATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (14 bp):
AAAAATATTTTCTG
Found at i:1542422 original size:9 final size:11
Alignment explanation
Indices: 1542395--1542436 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
1542385 TAACAATTCA
1542395 AATATTTATAT
1 AATATTTATAT
1542406 AATATTTATAT
1 AATATTTATAT
1542417 -AT-TTTATAT
1 AATATTTATAT
* *
1542426 TATAATTATAT
1 AATATTTATAT
1542437 TTAAAAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 7 0.25
10 4 0.14
11 17 0.61
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATATTTATAT
Found at i:1542424 original size:20 final size:20
Alignment explanation
Indices: 1542399--1542436 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1542389 AATTCAAATA
*
1542399 TTTATATAATATTTATATAT
1 TTTATATAATAATTATATAT
*
1542419 TTTATATTATAATTATAT
1 TTTATATAATAATTATAT
1542437 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATATAATAATTATATAT
Found at i:1542426 original size:26 final size:27
Alignment explanation
Indices: 1542396--1542465 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
1542386 AACAATTCAA
* *
1542396 ATATTTATATAATATTT-ATATATTTT
1 ATATTTATATAATATTTAAAATATTAT
*
1542422 ATA-TTATAATTATATTTAAAAATATTAT
1 ATATTTAT-ATAATATTT-AAAATATTAT
1542450 ATATTTATATAA-ATTT
1 ATATTTATATAATATTT
1542466 TGAAAATTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
25 4 0.11
26 11 0.31
27 4 0.11
28 13 0.36
29 4 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATATTTATATAATATTTAAAATATTAT
Found at i:1542462 original size:21 final size:21
Alignment explanation
Indices: 1542422--1542462 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1542412 TATATATTTT
*
1542422 ATATTATAATTATATTTAAAA
1 ATATTATAATTATATATAAAA
1542443 ATATTATATATT-TATATAAA
1 ATATTATA-ATTATATATAAA
1542463 TTTTGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATATTATAATTATATATAAAA
Found at i:1546554 original size:53 final size:53
Alignment explanation
Indices: 1546485--1546633 Score: 203
Period size: 51 Copynumber: 2.8 Consensus size: 53
1546475 TTTTAACTAG
* * * *
1546485 ATGTATTGATATATTGAAAAATGTATTGATACATCTGGGGAAAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGGAAAAAAAGACAGA
* *
1546538 ATGTATCGATACATTGAAGAATGTATCGATACATCT-GGG-TAAAAAGATAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGGAAAAAAAGACAGA
* * *
1546589 ATGTATCAATACATTGAAGAATGTATCGATATATCTGGGTAAAAA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGGAAAAA
1546634 TGTGACTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 44 0.52
52 5 0.06
53 35 0.42
ACGTcount: A:0.43, C:0.08, G:0.20, T:0.29
Consensus pattern (53 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGGAAAAAAAGACAGA
Found at i:1547432 original size:18 final size:19
Alignment explanation
Indices: 1547407--1547456 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
1547397 TGCATATTAT
1547407 TATTTAATATAAATGTAAG
1 TATTTAATATAAATGTAAG
* *
1547426 T-TTTAATA-ATATGTAAT
1 TATTTAATATAAATGTAAG
*
1547443 TATTTAACATAAAT
1 TATTTAATATAAAT
1547457 ATCATTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.32
18 13 0.52
19 4 0.16
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (19 bp):
TATTTAATATAAATGTAAG
Found at i:1547445 original size:36 final size:34
Alignment explanation
Indices: 1547371--1547503 Score: 108
Period size: 36 Copynumber: 3.8 Consensus size: 34
1547361 TAATTTAATT
* * * *
1547371 ATTATTT-A-ATAAATATATTTTTAATATGCATATT
1 ATTATTTAATATAAATATAATTTTAATA--AATGTA
*
1547405 ATTATTTAATATAAATGTAAGTTTTAATAATATGTA
1 ATTATTTAATATAAATATAA-TTTTAATAA-ATGTA
* * * * *
1547441 ATTATTTAACATAAATATCATTTAAATTTAAATTTT
1 ATTATTTAATATAAATATAATTTTAA--TAAATGTA
1547477 ATTATTTAATATAAATATAATTTTAAT
1 ATTATTTAATATAAATATAATTTTAAT
1547504 TATTATTTAC
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
34 8 0.10
35 6 0.08
36 54 0.68
37 11 0.14
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (34 bp):
ATTATTTAATATAAATATAATTTTAATAAATGTA
Found at i:1547455 original size:72 final size:69
Alignment explanation
Indices: 1547371--1547503 Score: 169
Period size: 72 Copynumber: 1.9 Consensus size: 69
1547361 TAATTTAATT
* ** *
1547371 ATTATTTAATAAATAT-ATTTTTAATATGCATATTATTATTTAATATAAATGTAAGTTTTAATAA
1 ATTATTTAATAAATATCA-TTTAAATATAAATATTATTATTTAATATAAATATAA-TTTTAATAA
1547435 TATGTA
64 TATGTA
* *
1547441 ATTATTTAACATAAATATCATTTAAATTTAAATTTTATTATTTAATATAAATATAATTTTAAT
1 ATTATTT-A-ATAAATATCATTTAAATATAAATATTATTATTTAATATAAATATAATTTTAAT
1547504 TATTATTTAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
70 7 0.13
71 8 0.15
72 38 0.70
73 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (69 bp):
ATTATTTAATAAATATCATTTAAATATAAATATTATTATTTAATATAAATATAATTTTAATAATA
TGTA
Found at i:1548152 original size:16 final size:16
Alignment explanation
Indices: 1548114--1548232 Score: 100
Period size: 16 Copynumber: 7.5 Consensus size: 16
1548104 AAAGTCAACA
* *
1548114 ACCCGAATTCGAAATT
1 ACCCGAATCCGAAATG
*
1548130 ACTCGAA-CCTGAAATG
1 ACCCGAATCC-GAAATG
1548146 ACCCGAATCC-ATAATG
1 ACCCGAATCCGA-AATG
* * *
1548162 ACTCGAACCCGATATG
1 ACCCGAATCCGAAATG
**
1548178 A-CTAAATCCGAAATG
1 ACCCGAATCCGAAATG
**
1548193 ATTCGAATCCGAAATG
1 ACCCGAATCCGAAATG
*
1548209 ACCCGAACCCGAAATG
1 ACCCGAATCCGAAATG
1548225 ACCCGAAT
1 ACCCGAAT
1548233 AATTAAAACT
Statistics
Matches: 79, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
15 12 0.15
16 64 0.81
17 3 0.04
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (16 bp):
ACCCGAATCCGAAATG
Found at i:1548232 original size:32 final size:32
Alignment explanation
Indices: 1548114--1548232 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 32
1548104 AAAGTCAACA
* *
1548114 ACCCGAATTCGAAATTACTCGAA-CCTGAAATG
1 ACCCGAATCCGAAATGACTCGAATCC-GAAATG
* *
1548146 ACCCGAATCC-ATAATGACTCGAACCCGATATG
1 ACCCGAATCCGA-AATGACTCGAATCCGAAATG
** *
1548178 A-CTAAATCCGAAATGATTCGAATCCGAAATG
1 ACCCGAATCCGAAATGACTCGAATCCGAAATG
* *
1548209 ACCCGAACCCGAAATGACCCGAAT
1 ACCCGAATCCGAAATGACTCGAAT
1548233 AATTAAAACT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
31 25 0.36
32 43 0.61
33 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.18
Consensus pattern (32 bp):
ACCCGAATCCGAAATGACTCGAATCCGAAATG
Found at i:1549259 original size:31 final size:31
Alignment explanation
Indices: 1549221--1549284 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1549211 TGCTAAACTT
*
1549221 GATTAACCCGAATCCAAAATAACCTGAACCC
1 GATTAACCCGAATCCAAAATAACCCGAACCC
* *
1549252 GATTAACCCGAATCTAGAATAACCCGAACCC
1 GATTAACCCGAATCCAAAATAACCCGAACCC
1549283 GA
1 GA
1549285 AACAACACGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.31, G:0.12, T:0.16
Consensus pattern (31 bp):
GATTAACCCGAATCCAAAATAACCCGAACCC
Found at i:1549276 original size:16 final size:16
Alignment explanation
Indices: 1549224--1549279 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
1549214 TAAACTTGAT
*
1549224 TAACCCGAATCCAAAA
1 TAACCCGAATCCAGAA
* * *
1549240 TAACCTGAA-CCCGAT
1 TAACCCGAATCCAGAA
*
1549255 TAACCCGAATCTAGAA
1 TAACCCGAATCCAGAA
1549271 TAACCCGAA
1 TAACCCGAA
1549280 CCCGAAACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
15 11 0.35
16 20 0.65
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (16 bp):
TAACCCGAATCCAGAA
Found at i:1549311 original size:16 final size:16
Alignment explanation
Indices: 1549292--1549360 Score: 77
Period size: 16 Copynumber: 4.2 Consensus size: 16
1549282 CGAAACAACA
*
1549292 CGAACCCGAAGTGATC
1 CGAACCCGAAATGATC
*
1549308 CGAACTCGAAATGATC
1 CGAACCCGAAATGATC
1549324 CGAACCC-AATATGATC
1 CGAACCCGAA-ATGATC
* *
1549340 CGAACTCGAAAATAATC
1 CGAACCCG-AAATGATC
1549357 CGAA
1 CGAA
1549361 AATTATAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
15 2 0.04
16 32 0.71
17 9 0.20
18 2 0.04
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.16
Consensus pattern (16 bp):
CGAACCCGAAATGATC
Found at i:1549318 original size:32 final size:32
Alignment explanation
Indices: 1549275--1549350 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
1549265 CTAGAATAAC
* *
1549275 CCGAACCCGAAA-CAACACGAACCCGAA-GTGAT
1 CCGAACTCGAAATCAAC-CGAACCC-AATATGAT
* *
1549307 CCGAACTCGAAATGATCCGAACCCAATATGAT
1 CCGAACTCGAAATCAACCGAACCCAATATGAT
1549339 CCGAACTCGAAA
1 CCGAACTCGAAA
1549351 ATAATCCGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 2 0.05
32 34 0.89
33 2 0.05
ACGTcount: A:0.39, C:0.32, G:0.17, T:0.12
Consensus pattern (32 bp):
CCGAACTCGAAATCAACCGAACCCAATATGAT
Found at i:1549654 original size:2 final size:2
Alignment explanation
Indices: 1549647--1549677 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1549637 CAAATTTCTC
1549647 AT AT AT 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 AT AT AT A
1549678 AGGAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1562931 original size:21 final size:20
Alignment explanation
Indices: 1562898--1562993 Score: 102
Period size: 21 Copynumber: 4.6 Consensus size: 20
1562888 CCTTAAGTCA
* *
1562898 CAAACAGGACCTACAGTGCC
1 CAAACAGAACCTACAGTACC
*
1562918 CAAACCAGCACCTACAGTACC
1 CAAA-CAGAACCTACAGTACC
* *
1562939 CTAAACAGAACCTAAAGCACC
1 C-AAACAGAACCTACAGTACC
1562960 TCAAACAGAACCTACAGTACCC
1 -CAAACAGAACCTACAGTA-CC
*
1562982 CAAACAGCACCT
1 CAAACAGAACCT
1562994 CAAACAGAAC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
20 4 0.06
21 54 0.84
22 6 0.09
ACGTcount: A:0.41, C:0.38, G:0.11, T:0.10
Consensus pattern (20 bp):
CAAACAGAACCTACAGTACC
Found at i:1563018 original size:30 final size:33
Alignment explanation
Indices: 1562954--1563029 Score: 104
Period size: 30 Copynumber: 2.4 Consensus size: 33
1562944 CAGAACCTAA
1562954 AGCACCTCAAACAGAACCTACAGTACCCCAAAC
1 AGCACCTCAAACAGAACCTACAGTACCCCAAAC
*
1562987 AGCACCTCAAACAGAACC-A-A-TACCTCAAAC
1 AGCACCTCAAACAGAACCTACAGTACCCCAAAC
* *
1563017 AGAACCACAAACA
1 AGCACCTCAAACA
1563030 ACACCTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 20 0.50
31 1 0.03
32 1 0.03
33 18 0.45
ACGTcount: A:0.47, C:0.37, G:0.08, T:0.08
Consensus pattern (33 bp):
AGCACCTCAAACAGAACCTACAGTACCCCAAAC
Found at i:1564062 original size:16 final size:16
Alignment explanation
Indices: 1564043--1564073 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1564033 TTTAAGAACA
1564043 GCATATTCATTTCACG
1 GCATATTCATTTCACG
1564059 GCATATTCATTTCAC
1 GCATATTCATTTCAC
1564074 AGCAGAAATA
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:0.26, C:0.26, G:0.10, T:0.39
Consensus pattern (16 bp):
GCATATTCATTTCACG
Found at i:1565796 original size:51 final size:51
Alignment explanation
Indices: 1565684--1565841 Score: 160
Period size: 50 Copynumber: 3.2 Consensus size: 51
1565674 TTTTATCTGA
* * * * * * *
1565684 AAAACAACCACCTCTCAAGACCGCTAAGAACATGATACGAT-ACTACACCT
1 AAAACAACCACCTCTCAAGACCACCAAGAGCCTAATCCCATCACTACACCT
* * * *
1565734 GAAATAACCACCTCTCGAGACCCCCAAGAGCCTAATCCCATCACTACACCT
1 AAAACAACCACCTCTCAAGACCACCAAGAGCCTAATCCCATCACTACACCT
* * *
1565785 AAAACAACCACCTATCAAGACCACC--GAGCCTAATCCTATCACTACACTT
1 AAAACAACCACCTCTCAAGACCACCAAGAGCCTAATCCCATCACTACACCT
*
1565834 GAAACAAC
1 AAAACAAC
1565842 TCTCTCAAGA
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 29 0.33
50 31 0.35
51 29 0.33
ACGTcount: A:0.39, C:0.36, G:0.09, T:0.16
Consensus pattern (51 bp):
AAAACAACCACCTCTCAAGACCACCAAGAGCCTAATCCCATCACTACACCT
Found at i:1565839 original size:49 final size:50
Alignment explanation
Indices: 1565725--1565841 Score: 155
Period size: 49 Copynumber: 2.3 Consensus size: 50
1565715 ATGATACGAT
* * * *
1565725 ACTACACCTGAAATAACCACCTCTCGAGACCCCCAAGAGCCTAATCCCATC
1 ACTACACCTGAAACAACCACCTATCAAGACCACC-AGAGCCTAATCCCATC
* *
1565776 ACTACACCTAAAACAACCACCTATCAAGACCACC-GAGCCTAATCCTATC
1 ACTACACCTGAAACAACCACCTATCAAGACCACCAGAGCCTAATCCCATC
*
1565825 ACTACACTTGAAACAAC
1 ACTACACCTGAAACAAC
1565842 TCTCTCAAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 29 0.50
51 29 0.50
ACGTcount: A:0.38, C:0.38, G:0.08, T:0.16
Consensus pattern (50 bp):
ACTACACCTGAAACAACCACCTATCAAGACCACCAGAGCCTAATCCCATC
Found at i:1568870 original size:20 final size:20
Alignment explanation
Indices: 1568845--1568882 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1568835 CACACAACAG
* *
1568845 AAAAAAATAACAAAAATCAC
1 AAAAAAAAAAAAAAAATCAC
1568865 AAAAAAAAAAAAAAAATC
1 AAAAAAAAAAAAAAAATC
1568883 GAAAGTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.82, C:0.11, G:0.00, T:0.08
Consensus pattern (20 bp):
AAAAAAAAAAAAAAAATCAC
Found at i:1570461 original size:2 final size:2
Alignment explanation
Indices: 1570454--1570502 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
1570444 AAATGAGCTT
*
1570454 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1570495 TA TA -A TA T
1 TA TA TA TA T
1570503 GAATTTGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 2 0.05
2 41 0.95
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1570513 original size:2 final size:2
Alignment explanation
Indices: 1570508--1570532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1570498 AATATGAATT
1570508 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1570533 AAAAAATTTT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1579304 original size:2 final size:2
Alignment explanation
Indices: 1579299--1579331 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1579289 TGTGTGTGTG
1579299 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1579332 GGTAGGAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1579721 original size:2 final size:2
Alignment explanation
Indices: 1579714--1579738 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1579704 AGCTTATCAT
1579714 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1579739 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1581111 original size:11 final size:11
Alignment explanation
Indices: 1581075--1581133 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
1581065 GTTACTTGTA
*
1581075 TTTTT-TTTTT
1 TTTTTATTTTC
*
1581085 TTTTTCATTCTC
1 TTTTT-ATTTTC
1581097 -TTTTATTTT-
1 TTTTTATTTTC
1581106 TATTTTATTTTC
1 T-TTTTATTTTC
1581118 TTTTTATTTTAC
1 TTTTTATTTT-C
1581130 TTTT
1 TTTT
1581134 GCTTTGTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 9 0.22
11 22 0.55
12 9 0.22
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTATTTTC
Found at i:1581127 original size:27 final size:27
Alignment explanation
Indices: 1581073--1581133 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
1581063 GGGTTACTTG
* * *
1581073 TATTTTTTTTTTTTTTTCATTCTCTTT
1 TATTTTTATTTTATTTTCATTCTATTT
* *
1581100 TATTTTTATTTTATTTTCTTTTTATTT
1 TATTTTTATTTTATTTTCATTCTATTT
*
1581127 TACTTTT
1 TATTTTT
1581134 GCTTTGTCCC
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:0.11, C:0.08, G:0.00, T:0.80
Consensus pattern (27 bp):
TATTTTTATTTTATTTTCATTCTATTT
Found at i:1581245 original size:33 final size:32
Alignment explanation
Indices: 1581208--1581277 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
1581198 TATATTATGA
*
1581208 ATATAATAAAAAT-ATATAAA-TATTTTAAAATTT
1 ATATAACAAAAATAAT-TAAATTA-TTT-AAATTT
*
1581241 ATATAACATAAATAATTAAATTATTTAAATTT
1 ATATAACAAAAATAATTAAATTATTTAAATTT
1581273 ATATA
1 ATATA
1581278 CATATATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 11 0.33
33 18 0.55
34 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
ATATAACAAAAATAATTAAATTATTTAAATTT
Found at i:1581900 original size:25 final size:25
Alignment explanation
Indices: 1581872--1581919 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1581862 TTTATAAAAA
*
1581872 AATATAATTATTATATTTAAATTTT
1 AATATAATTATTATATATAAATTTT
* *
1581897 AATATATTTTTTATATATAAATT
1 AATATAATTATTATATATAAATT
1581920 AAATAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
AATATAATTATTATATATAAATTTT
Found at i:1583781 original size:1 final size:1
Alignment explanation
Indices: 1583775--1583812 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
1583765 AAGTAGAAAT
* *
1583775 AAAAAAAAAAAAAAAATAAATAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1583813 GATGAAGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:1583797 original size:21 final size:21
Alignment explanation
Indices: 1583771--1583811 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1583761 TTTGAAGTAG
1583771 AAATAAAAAAAAAAAAAAAAT
1 AAATAAAAAAAAAAAAAAAAT
1583792 AAATAAAAAAAAAAAAAAAA
1 AAATAAAAAAAAAAAAAAAA
1583812 AGATGAAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (21 bp):
AAATAAAAAAAAAAAAAAAAT
Found at i:1584513 original size:15 final size:15
Alignment explanation
Indices: 1584495--1584530 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1584485 ATATTATTTA
1584495 TTTTTATTTCTTAAT
1 TTTTTATTTCTTAAT
*
1584510 TTTTTATTTTTTAAT
1 TTTTTATTTCTTAAT
*
1584525 TATTTA
1 TTTTTA
1584531 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTATTTCTTAAT
Found at i:1586205 original size:13 final size:13
Alignment explanation
Indices: 1586189--1586213 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1586179 ATCAATTATA
1586189 ATAAATATTGATT
1 ATAAATATTGATT
1586202 ATAAATATTGAT
1 ATAAATATTGAT
1586214 AATGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATAAATATTGATT
Found at i:1586624 original size:24 final size:24
Alignment explanation
Indices: 1586602--1586654 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
1586592 AATTTTAAAT
1586602 AATTATCTCAATTTAAAATTAAAAAA
1 AATTATC-CAATTTAAAATT-AAAAA
*
1586628 AATTATCCTATTTAAAATTCAAAAA
1 AATTATCCAATTTAAAATT-AAAAA
1586653 AA
1 AA
1586655 GATCTTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTATCCAATTTAAAATTAAAAA
Found at i:1586646 original size:25 final size:26
Alignment explanation
Indices: 1586602--1586672 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 26
1586592 AATTTTAAAT
*
1586602 AATTATCTCAATTTAAAATT-AAAAAA
1 AATTATC-CTATTTAAAATTCAAAAAA
1586628 AATTATCCTATTTAAAATTCAAAAAA
1 AATTATCCTATTTAAAATTCAAAAAA
1586654 AGATCTTATCCTAATTTAA
1 A-A--TTATCCT-ATTTAA
1586673 GGGAACAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
25 11 0.28
26 14 0.36
27 1 0.03
29 7 0.18
30 6 0.15
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.37
Consensus pattern (26 bp):
AATTATCCTATTTAAAATTCAAAAAA
Found at i:1587915 original size:20 final size:20
Alignment explanation
Indices: 1587892--1588039 Score: 109
Period size: 20 Copynumber: 6.8 Consensus size: 20
1587882 AGGTACCCAG
1587892 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
1587912 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
*
1587932 ATATATCGATACATTCTATCCTTTTACCCA
1 ATGTATCGATACA---T-T-C--TT---CA
*
1587962 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTCTTCA
* *
1587983 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
****
1588003 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTCTTCA
1588023 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
1588040 GTCTTTTTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
19 1 0.01
20 80 0.75
21 3 0.03
23 1 0.01
24 3 0.03
25 1 0.01
27 3 0.03
28 1 0.01
30 2 0.02
31 12 0.11
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1587990 original size:51 final size:50
Alignment explanation
Indices: 1587912--1588087 Score: 174
Period size: 51 Copynumber: 3.7 Consensus size: 50
1587902 ACATTCTTCA
* *
1587912 ATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTAT-CTTTTACCCAG
* *
1587963 ATGTATCGATACATTTTTCAATGTATCGATACA-TGTA-----T---GA-
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTACCCAG
**** * *
1588003 ATGTATCGATACATTGAAGAATGTATCGATACATTCTGTCTTTTTACCCGG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATC-TTTTACCCAG
1588054 ATGTATCGATACATTTTTCAATGTATCGATACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
1588088 CTAGTTAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
40 29 0.30
41 3 0.03
44 1 0.01
47 1 0.01
50 3 0.03
51 61 0.62
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (50 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTACCCAG
Found at i:1588010 original size:71 final size:71
Alignment explanation
Indices: 1587885--1588017 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
1587875 TATGAAAAGG
*
1587885 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTTCAATATATCGATACATTCTA
1 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCATCAATATATCGATACATTCTA
1587950 TCCTTT
66 TCCTTT
* * *
1587956 TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATGT-ATGAATGTATCGATACATT
1 TACCCAGATGTATCGATACATTCTTCAATGTATCGATACAT-TCATCAATATATCGATACATT
1588018 GAAGAATGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
71 56 0.98
72 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (71 bp):
TACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCATCAATATATCGATACATTCTA
TCCTTT
Found at i:1588048 original size:91 final size:91
Alignment explanation
Indices: 1587892--1588087 Score: 286
Period size: 91 Copynumber: 2.2 Consensus size: 91
1587882 AGGTACCCAG
* **
1587892 ATGTATCGATACATTCTTCAATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTTT
1 ATGTATCGATACATTCATCAATGTATCGATACATTCAACAATATATCGATACATTCTATCCTTTT
1587957 ACCCAGATGTATCGATACATTTTTCA
66 ACCCAGATGTATCGATACATTTTTCA
* * * * * *
1587983 ATGTATCGATACATGT-ATGAATGTATCGATACATTGAAGAATGTATCGATACATTCTGTCTTTT
1 ATGTATCGATACAT-TCATCAATGTATCGATACATTCAACAATATATCGATACATTCTATCCTTT
*
1588047 TACCCGGATGTATCGATACATTTTTCA
65 TACCCAGATGTATCGATACATTTTTCA
1588074 ATGTATCGATACAT
1 ATGTATCGATACAT
1588088 CTAGTTAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 93 0.99
92 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (91 bp):
ATGTATCGATACATTCATCAATGTATCGATACATTCAACAATATATCGATACATTCTATCCTTTT
ACCCAGATGTATCGATACATTTTTCA
Found at i:1588538 original size:14 final size:14
Alignment explanation
Indices: 1588510--1588539 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1588500 ATATCTTAGC
1588510 AAAACATCAACAAA
1 AAAACATCAACAAA
1588524 AAAAC-TCAACAAA
1 AAAACATCAACAAA
1588537 AAA
1 AAA
1588540 GTCAATTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.73, C:0.20, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAACATCAACAAA
Found at i:1590352 original size:27 final size:27
Alignment explanation
Indices: 1590314--1590386 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
1590304 TATCATTGTT
1590314 GGGGATACTCCAACCCCATGCCTCCGA
1 GGGGATACTCCAACCCCATGCCTCCGA
* *
1590341 GGGGATACTCCAACCCCATTCCTCTGA
1 GGGGATACTCCAACCCCATGCCTCCGA
* * *
1590368 GAGGATACTCTAATCCCAT
1 GGGGATACTCCAACCCCAT
1590387 TTTTAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCATGCCTCCGA
Found at i:1592337 original size:20 final size:20
Alignment explanation
Indices: 1592299--1592337 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1592289 GGCCACTTTT
*
1592299 TTTTTTTTATTGATGTTCAA
1 TTTTTTTTATTGATATTCAA
* *
1592319 TTTTTTTTCTTGCTATTCA
1 TTTTTTTTATTGATATTCA
1592338 TTCCCATTAT
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:0.15, C:0.10, G:0.08, T:0.67
Consensus pattern (20 bp):
TTTTTTTTATTGATATTCAA
Found at i:1598461 original size:26 final size:25
Alignment explanation
Indices: 1598431--1598484 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
1598421 TTGCATATCA
1598431 TTTCATATTCTTGT-GCCACTATCACC
1 TTTCATATTCTT-TAGCC-CTATCACC
* *
1598457 TTTCATCTTCTTTATCCCTATCACC
1 TTTCATATTCTTTAGCCCTATCACC
1598482 TTT
1 TTT
1598485 TTACTTCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.17, C:0.31, G:0.04, T:0.48
Consensus pattern (25 bp):
TTTCATATTCTTTAGCCCTATCACC
Found at i:1602045 original size:10 final size:10
Alignment explanation
Indices: 1602029--1602089 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
1602019 CGTCCTTTAC
1602029 ACAAAAAAAA
1 ACAAAAAAAA
*
1602039 CCAAAAAAAA
1 ACAAAAAAAA
*
1602049 ACAAAACAAA
1 ACAAAAAAAA
**
1602059 A-AAAAACCA
1 ACAAAAAAAA
*
1602068 AGAAAAAAATA
1 ACAAAAAAA-A
*
1602079 GCAAAAAAAA
1 ACAAAAAAAA
1602089 A
1 A
1602090 GAGAGGGGTC
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
9 6 0.16
10 24 0.63
11 8 0.21
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.02
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:1602066 original size:26 final size:25
Alignment explanation
Indices: 1602031--1602089 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
1602021 TCCTTTACAC
1602031 AAAAAAAACCAAAAAAAAACAAAACA
1 AAAAAAAACCAAAAAAAAA-AAAACA
* * *
1602057 AAAAAAAACCAAGAAAAAAATAGCA
1 AAAAAAAACCAAAAAAAAAAAAACA
1602082 AAAAAAAA
1 AAAAAAAA
1602090 GAGAGGGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 12 0.40
26 18 0.60
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.02
Consensus pattern (25 bp):
AAAAAAAACCAAAAAAAAAAAAACA
Found at i:1602076 original size:15 final size:15
Alignment explanation
Indices: 1602031--1602065 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1602021 TCCTTTACAC
*
1602031 AAAAA-AAACCAAAA
1 AAAAACAAAACAAAA
1602045 AAAAACAAAACAAAA
1 AAAAACAAAACAAAA
1602060 AAAAAC
1 AAAAAC
1602066 CAAGAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAACAAAA
Found at i:1603380 original size:28 final size:28
Alignment explanation
Indices: 1603310--1603995 Score: 858
Period size: 28 Copynumber: 24.0 Consensus size: 28
1603300 ATGTTCATCC
*
1603310 CTTTCAAAGCCCACAAGTCAGTGGCATT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
1603338 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
* * * *
1603367 CTTTCAAAACCCACAAGTCAGTAGTACCC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-CT
*
1603396 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1603424 CTTTCAAAGCCCAGAAGTCAATGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
1603452 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1603480 CTTTCAAAGCTCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
1603508 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
1603537 CTTTTCAAAGCCCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1603566 TTTTCAAAGCCCACCAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
1603594 CTTTCAAAGCCCACAAGTCAGTGGCATT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
*
1603622 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1603650 CTTTCAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* * *
1603678 CTTTTAAAGCCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1603706 CTTTTCAAAGCCCACAAGTTAGTGACACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
** *
1603735 CTTTCAAAAACCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
1603763 CTTTCAAAGCCCACAAGTCAGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCACT
* *
1603791 CTTTTCAAAGCCAACAAGTTAGTGGCA-T
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
1603819 CTTTTCAAAGCCCATAAGTCAGTGGCAC-
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
1603847 CATTTCAAAGCCCATAAGTCAGTGGCAC-
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
1603875 CATTTCAAAGCTCACAAGTCAGTGGCACT
1 C-TTTCAAAGCCCACAAGTCAGTGGCACT
*
1603904 CTTTTCAAAGCCCACAAG-CTAGTGGTTACT
1 C-TTTCAAAGCCCACAAGTC-AGTGG-CACT
* *
1603934 CTTTTCAAAGCCTACACGAGTCGGTGGCAACT
1 C-TTTCAAAGCC--CACAAGTCAGTGGC-ACT
*
1603966 CTTTTCAAAGCCCACATAAGTTAGTGGCAC
1 C-TTTCAAAGCCCAC--AAGTCAGTGGCAC
1603996 CATTTTTTTA
Statistics
Matches: 585, Mismatches: 58, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
28 359 0.61
29 173 0.30
30 18 0.03
31 2 0.00
32 32 0.05
33 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTCAGTGGCACT
Found at i:1603454 original size:85 final size:85
Alignment explanation
Indices: 1603308--1603996 Score: 893
Period size: 85 Copynumber: 8.0 Consensus size: 85
1603298 GAATGTTCAT
* *
1603308 CCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
1603372 AAAACCCACAAGTCAGTAGTA
65 AAAGCCCACAAGTCAGTGGCA
* *
1603393 CCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAGAAGTCAATGGCACTC-TTTC
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1603457 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
* * *
1603478 CTCTTTCAAAGCTCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
1603543 AAAGCCCACAAGTCAGTGGCA
65 AAAGCCCACAAGTCAGTGGCA
** * *
1603564 CTTTTTCAAAGCCCACCAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTC-TTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1603628 AAGCCCACAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * * *
1603648 CCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTTAAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* *
1603713 AAGCCCACAAGTTAGTGACA
66 AAGCCCACAAGTCAGTGGCA
* **
1603733 CTCTTTCAAAAACCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* *
1603798 AAGCCAACAAGTTAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * * * * *
1603818 TCTTTTCAAAGCCCATAAGTCAGTGGCACCATTTCAAAGCCCATAAGTCAGTGGCAC-CATTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
*
1603882 AAGCTCACAAGTCAGTGGCA
66 AAGCCCACAAGTCAGTGGCA
* * * * *
1603902 CTCTTTTCAAAGCCCACAAG-CTAGTGGTTACTCTTTTCAAAGCCTACACGAGTCGGTGGCAACT
1 C-CCTTTCAAAGCCCACAAGTC-AGTGG-CAC-CCTTTCAAAGCC--CACAAGTCAGTGGC-ACT
*
1603966 CTTTTCAAAGCCCACATAAGTTAGTGGCA
59 CTTTTCAAAGCCCAC--AAGTCAGTGGCA
1603995 CC
1 CC
1603997 ATTTTTTTAA
Statistics
Matches: 532, Mismatches: 58, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
84 128 0.24
85 272 0.51
86 82 0.15
87 11 0.02
89 11 0.02
90 2 0.00
91 13 0.02
92 1 0.00
93 12 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (85 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
AAGCCCACAAGTCAGTGGCA
Found at i:1603514 original size:113 final size:114
Alignment explanation
Indices: 1603308--1603996 Score: 917
Period size: 113 Copynumber: 6.0 Consensus size: 114
1603298 GAATGTTCAT
*
1603308 CCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
1603372 AAAACCCACAAGTCAGTAGTACCCCTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1603422 CCCTTTCAAAGCCCAGAAGTCAATGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* *
1603485 AAAGCTCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * *
1603535 CTCTTTTCAAAGCCCACAAGTCAGTGGCACT-TTTTCAAAGCCCACCAGTCAGTGGCAC-CCTTT
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT
**
1603598 CAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCA
65 CAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1603648 CCCTTTCAAAGCCCACAAGTTAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCACCCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * * **
1603712 AAAGCCCACAAGTTAGTGACACTCTTTCAAAAACCACAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
1603761 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCAACAAGTTAGTGGCA-TCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
* * *
1603825 AAAGCCCATAAGTCAGTGGCACCATTTCAAAGCCCATAAGTCAGTGGCA
66 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
1603874 CCATTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTTACTCTTT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC-AGTGG-CACTCTTT
* * * *
1603938 TCAAAGCCTACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACATAAGTTAGTGGCA
64 TCAAAGCC--CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCAC--AAGTCAGTGGCA
1603995 CC
1 CC
1603997 ATTTTTTTAA
Statistics
Matches: 509, Mismatches: 50, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
112 49 0.10
113 284 0.56
114 124 0.24
115 13 0.03
117 11 0.02
118 2 0.00
119 13 0.03
121 13 0.03
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (114 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1604668 original size:51 final size:51
Alignment explanation
Indices: 1604590--1604725 Score: 218
Period size: 51 Copynumber: 2.7 Consensus size: 51
1604580 ATATGTATGA
*
1604590 ATGTATCGATACATTCTTCAATATATCGATACATTCTATCCTTTTACCCAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCCAG
* * * *
1604641 ATGTATCGATACATTCTTCAATGTATCGATATATTCTGTCTTTTTACCCGG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCCAG
*
1604692 ATGTATCGATACATTTTTCAATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACAT
1604726 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (51 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCCAG
Found at i:1606979 original size:95 final size:96
Alignment explanation
Indices: 1606867--1607096 Score: 381
Period size: 95 Copynumber: 2.4 Consensus size: 96
1606857 ATTTTATTCA
* *
1606867 TTGGGGATACTCTAACCCCATGCCTCCGAGGGGATACTCCAACCCCGTTTTTAAACTTGCCAAGA
1 TTGGGGATACTCCAACCCCATGCCTCTGAGGGGATACTCCAACCCCGTTTTTAAACTTGCCAAGA
*
1606932 TCATTCTTA-TTTTTGCCTAAATTATCATTG
66 TCATTCTTATTTTTTACCTAAATTATCATTG
1606962 TTGGGGATACTCCAACCCCATGCCTCTGAGGGGATACTCCAACCCCGTTTTTAAACTTGCCAAGA
1 TTGGGGATACTCCAACCCCATGCCTCTGAGGGGATACTCCAACCCCGTTTTTAAACTTGCCAAGA
1607027 TCATTCTTATTTTTTACCTAAATTATCATTG
66 TCATTCTTATTTTTTACCTAAATTATCATTG
* * * * *
1607058 TCGGGGACACTCCAACCACATTCATCTGAGGGGATACTC
1 TTGGGGATACTCCAACCCCATGCCTCTGAGGGGATACTC
1607097 TAACTCCATT
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
95 72 0.57
96 54 0.43
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (96 bp):
TTGGGGATACTCCAACCCCATGCCTCTGAGGGGATACTCCAACCCCGTTTTTAAACTTGCCAAGA
TCATTCTTATTTTTTACCTAAATTATCATTG
Found at i:1607611 original size:9 final size:9
Alignment explanation
Indices: 1607597--1607624 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1607587 ATATCGAGTC
1607597 GAAACCAAT
1 GAAACCAAT
1607606 GAAACCAAT
1 GAAACCAAT
1607615 GAAACCAAT
1 GAAACCAAT
1607624 G
1 G
1607625 TTAAGTCAAA
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:0.54, C:0.21, G:0.14, T:0.11
Consensus pattern (9 bp):
GAAACCAAT
Found at i:1610229 original size:18 final size:18
Alignment explanation
Indices: 1610206--1610241 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1610196 GATCTTTTAG
1610206 AACTCTCCA-AGTATTGGA
1 AACTCTCCAGA-TATTGGA
1610224 AACTCTCCAGATATTGGA
1 AACTCTCCAGATATTGGA
1610242 CTTATGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
AACTCTCCAGATATTGGA
Found at i:1610503 original size:18 final size:20
Alignment explanation
Indices: 1610469--1610505 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
1610459 CAATGCATTT
1610469 ATATATATAAAATAATTAAA
1 ATATATATAAAATAATTAAA
1610489 ATATA-ATAAAA-AATTAA
1 ATATATATAAAATAATTAA
1610506 TATTTTTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATATATATAAAATAATTAAA
Found at i:1618703 original size:9 final size:9
Alignment explanation
Indices: 1618691--1618751 Score: 65
Period size: 9 Copynumber: 7.1 Consensus size: 9
1618681 CTCTCTCTAT
1618691 TATCTCTCC
1 TATCTCTCC
1618700 TATCTCTCC
1 TATCTCTCC
* *
1618709 T-CCTAT-C
1 TATCTCTCC
*
1618716 -ATCCCTCC
1 TATCTCTCC
*
1618724 TATCTCTAC
1 TATCTCTCC
1618733 TATCTCTCC
1 TATCTCTCC
1618742 TATCTCTCC
1 TATCTCTCC
1618751 T
1 T
1618752 CCTATCATCC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
7 3 0.07
8 4 0.10
9 34 0.83
ACGTcount: A:0.13, C:0.44, G:0.00, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1618709 original size:42 final size:42
Alignment explanation
Indices: 1618662--1618781 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
1618652 CTTCTTCTCT
* *
1618662 TCTCCTCCTATCATCCCTCCTCTCTCTATTATCTCTCCTATC
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATC
1618704 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATC
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATC
* *
1618746 TCTCCTCCTATCATCCCTCCTATCTCTTCTTTCTCT
1 TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
1618782 TTGAGGGCTA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.12, C:0.45, G:0.00, T:0.43
Consensus pattern (42 bp):
TCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTATC
Found at i:1618711 original size:12 final size:12
Alignment explanation
Indices: 1618696--1618772 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
1618686 TCTATTATCT
1618696 CTCCTATCTCTC
1 CTCCTATCTCTC
1618708 CTCCTATCATC-C
1 CTCCTATC-TCTC
1618720 CTCCTA--TCT-
1 CTCCTATCTCTC
*
1618729 CTACTA--TCT-
1 CTCCTATCTCTC
1618738 CTCCTATCTCTC
1 CTCCTATCTCTC
1618750 CTCCTATCATC-C
1 CTCCTATC-TCTC
1618762 CTCCTATCTCT
1 CTCCTATCTCT
1618773 TCTTTCTCTT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
9 15 0.27
11 5 0.09
12 32 0.57
13 4 0.07
ACGTcount: A:0.13, C:0.47, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:1621622 original size:15 final size:15
Alignment explanation
Indices: 1621591--1621645 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
1621581 TGTGATTTAA
*
1621591 TTAAA-ATAAAATTTT
1 TTAAATATAAAA-ATT
*
1621606 TTAAATATAAAAGTT
1 TTAAATATAAAAATT
**
1621621 TTTCAT-TAAAAATT
1 TTAAATATAAAAATT
1621635 TTAAATATAAA
1 TTAAATATAAA
1621646 TTTTTACACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 11 0.34
15 15 0.47
16 6 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (15 bp):
TTAAATATAAAAATT
Found at i:1621714 original size:27 final size:31
Alignment explanation
Indices: 1621679--1621734 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
1621669 ATATTATTTT
1621679 AATTAAATTA-TA-A-C-ATAATTTTAACCA
1 AATTAAATTACTACATCAATAATTTTAACCA
*
1621706 AATTTAATTACTACATCAATAATTTTAAC
1 AATTAAATTACTACATCAATAATTTTAAC
1621735 AAAAAGTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 2 0.08
29 1 0.04
30 1 0.04
31 11 0.46
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (31 bp):
AATTAAATTACTACATCAATAATTTTAACCA
Found at i:1622512 original size:3 final size:3
Alignment explanation
Indices: 1622506--1622541 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1622496 CTCATAATAA
1622506 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1622542 ACACGATTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1626201 original size:14 final size:13
Alignment explanation
Indices: 1626153--1626234 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 13
1626143 TATTATATAA
*
1626153 ATTTAAATATTTAT
1 ATTTAATTATTT-T
*
1626167 ATTT-A-TGTTTT
1 ATTTAATTATTTT
1626178 ATTTAATTATTTT
1 ATTTAATTATTTT
1626191 ATTTAAATTATATTT
1 ATTT-AATTAT-TTT
* *
1626206 ATATATTCGTATTTT
1 ATTTAAT--TATTTT
1626221 ATTT--TTATTTT
1 ATTTAATTATTTT
1626232 ATT
1 ATT
1626235 CGGAAGAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
11 14 0.25
12 5 0.09
13 11 0.19
14 12 0.21
15 12 0.21
16 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.66
Consensus pattern (13 bp):
ATTTAATTATTTT
Found at i:1626204 original size:24 final size:25
Alignment explanation
Indices: 1626153--1626212 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
1626143 TATTATATAA
** *
1626153 ATTTAAATATTTATATTTATGTTTT
1 ATTTAAATATTTATATTTAAATTAT
*
1626178 ATTTAATTATTT-TATTTAAATTAT
1 ATTTAAATATTTATATTTAAATTAT
*
1626202 ATTTATATATT
1 ATTTAAATATT
1626213 CGTATTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATTTAAATATTTATATTTAAATTAT
Found at i:1627608 original size:16 final size:16
Alignment explanation
Indices: 1627589--1627627 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1627579 TTTGAGCATG
1627589 AAATTATTTAAATTTA
1 AAATTATTTAAATTTA
*
1627605 AAA-TATTTTAAATTTC
1 AAATTA-TTTAAATTTA
1627621 AAATTAT
1 AAATTAT
1627628 GTGATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTATTTAAATTTA
Found at i:1632036 original size:2 final size:2
Alignment explanation
Indices: 1632029--1632065 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1632019 GAATGGGTGG
1632029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1632066 TGAAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1638353 original size:16 final size:17
Alignment explanation
Indices: 1638321--1638361 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
1638311 TTTTAAATAT
1638321 TATTAAATTAAATTACA
1 TATTAAATTAAATTACA
* *
1638338 TTTTAATTTAAA-TACA
1 TATTAAATTAAATTACA
1638354 TATTAAAT
1 TATTAAAT
1638362 CTTTAAAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
TATTAAATTAAATTACA
Found at i:1638692 original size:15 final size:15
Alignment explanation
Indices: 1638672--1638712 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1638662 ATGTTATAAT
* **
1638672 ATCACATTTTCAGCA
1 ATCACATTTTAAAAA
1638687 ATCACATTTTAAAAA
1 ATCACATTTTAAAAA
1638702 ATCACATTTTA
1 ATCACATTTTA
1638713 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (15 bp):
ATCACATTTTAAAAA
Found at i:1639281 original size:46 final size:46
Alignment explanation
Indices: 1639214--1639307 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
1639204 ATAATTATTG
1639214 AGCCAAATTTAAAATTTTCGATTAAATCTAAATAACTTACGAACAC
1 AGCCAAATTTAAAATTTTCGATTAAATCTAAATAACTTACGAACAC
1639260 AGCCAAATTTAAAATTTTCGATTAAATCTAAATAACTTACGAACAC
1 AGCCAAATTTAAAATTTTCGATTAAATCTAAATAACTTACGAACAC
1639306 AG
1 AG
1639308 ATATCTCGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (46 bp):
AGCCAAATTTAAAATTTTCGATTAAATCTAAATAACTTACGAACAC
Found at i:1639930 original size:19 final size:19
Alignment explanation
Indices: 1639906--1639970 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
1639896 GTTTTAAATA
*
1639906 ATAATTATGATATTATATT
1 ATAATTATTATATTATATT
*
1639925 ATAATTATTATTTTATAATT
1 ATAATTATTATATTAT-ATT
* *
1639945 TTAATTTTTTATATT-TATT
1 ATAA-TTATTATATTATATT
1639964 ATAATTA
1 ATAATTA
1639971 ATTGTGATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.05
19 20 0.54
20 7 0.19
21 8 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATAATTATTATATTATATT
Found at i:1639934 original size:22 final size:22
Alignment explanation
Indices: 1639903--1639985 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 22
1639893 AGGGTTTTAA
*
1639903 ATAATAATTATGATATTATATT
1 ATAATTATTATGATATTATATT
1639925 ATAATTATTAT--T-TTATAATT
1 ATAATTATTATGATATTAT-ATT
* *
1639945 TTAATT-TT-TTATATT-TATT
1 ATAATTATTATGATATTATATT
* *
1639964 ATAATTAATTGTGATAATATAT
1 ATAATT-ATTATGATATTATAT
1639986 CCTATTATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
18 1 0.02
19 14 0.29
20 11 0.23
21 4 0.08
22 15 0.31
23 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (22 bp):
ATAATTATTATGATATTATATT
Found at i:1648316 original size:27 final size:28
Alignment explanation
Indices: 1648263--1648318 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
1648253 ATCAATTTTC
*
1648263 AAATAATTTAAAATTAATTTTACTATTTA
1 AAATAATTTAAAA-TAATTTTAATATTTA
1648292 AAATAATATTAAAA-AA-TTTAATATTTA
1 AAATAAT-TTAAAATAATTTTAATATTTA
1648319 CAATTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 10 0.40
28 2 0.08
29 7 0.28
30 6 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
AAATAATTTAAAATAATTTTAATATTTA
Found at i:1650934 original size:3 final size:3
Alignment explanation
Indices: 1650928--1650969 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
1650918 TATCATCATC
1650928 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1650970 TTCTTTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1651250 original size:16 final size:15
Alignment explanation
Indices: 1651227--1651278 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
1651217 TTAAAATATT
1651227 TTTTATATATATAAA
1 TTTTATATATATAAA
1651242 TTTTGATATAT-TAATA
1 TTTT-ATATATATAA-A
*
1651258 TTTTATATTTTATAAA
1 TTTTATA-TATATAAA
1651274 TTTTA
1 TTTTA
1651279 AAATATGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 10 0.31
16 19 0.59
17 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (15 bp):
TTTTATATATATAAA
Found at i:1651252 original size:14 final size:15
Alignment explanation
Indices: 1651227--1651265 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
1651217 TTAAAATATT
1651227 TTTTATATATATAA-A
1 TTTTATATAT-TAATA
1651242 TTTTGATATATTAATA
1 TTTT-ATATATTAATA
1651258 TTTTATAT
1 TTTTATAT
1651266 TTTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTATATATTAATA
Found at i:1651653 original size:16 final size:18
Alignment explanation
Indices: 1651632--1651669 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1651622 CGTTATATAA
1651632 ATTTTA-AT-ATATTTAT
1 ATTTTATATCATATTTAT
1651648 ATTTTATATCATATTTAT
1 ATTTTATATCATATTTAT
1651666 ATTT
1 ATTT
1651670 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTTTATATCATATTTAT
Found at i:1651671 original size:24 final size:23
Alignment explanation
Indices: 1651639--1651691 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
1651629 TAAATTTTAA
1651639 TATATTTA-TATT-TTATATCATATT
1 TATATTTATTATTATTAT-T-ATA-T
1651663 TATATTTATTATTATTATTATAT
1 TATATTTATTATTATTATTATAT
1651686 TATATT
1 TATATT
1651692 CGTGTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 7 0.26
24 11 0.41
25 5 0.19
26 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATATTTATTATTATTATTATAT
Found at i:1652771 original size:2 final size:2
Alignment explanation
Indices: 1652764--1652791 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1652754 TTTTCCTTCC
1652764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1652792 GACAGTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.