Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 212 of 218
Found at i:63082913 original size:36 final size:36
Alignment explanation
Indices: 63082873--63082952 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
63082863 ATACATATAA
*
63082873 ATATATATACT-TATAAAAATAAAAAT-ATGTATATGT
1 ATATATATA-TATATAAAAAGAAAAATGA-GTATATGT
* *
63082909 ATATAGATATATATAAAAAGAAATATGAGTATATGT
1 ATATATATATATATAAAAAGAAAAATGAGTATATGT
63082945 ATATATAT
1 ATATATAT
63082953 TAAACAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 36 0.95
37 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.38
Consensus pattern (36 bp):
ATATATATATATATAAAAAGAAAAATGAGTATATGT
Found at i:63083094 original size:3 final size:3
Alignment explanation
Indices: 63083083--63083167 Score: 127
Period size: 3 Copynumber: 28.3 Consensus size: 3
63083073 CAATAATACC
* * *
63083083 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
63083128 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
63083168 GCAAAAGTAC
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 1 0.01
3 73 0.99
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:63084212 original size:15 final size:15
Alignment explanation
Indices: 63084192--63084227 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
63084182 TTTGTTTGTA
63084192 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
63084207 ATTGGGTTTGTGGGT
1 ATTGGGTTTGTGGGT
63084222 ATTGGG
1 ATTGGG
63084228 CCGGACAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.08, C:0.00, G:0.47, T:0.44
Consensus pattern (15 bp):
ATTGGGTTTGTGGGT
Found at i:63084758 original size:15 final size:15
Alignment explanation
Indices: 63084738--63084793 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
63084728 AAACATTATC
63084738 ACAACAACCTTGAAA
1 ACAACAACCTTGAAA
63084753 ACAACAACCTT--AA
1 ACAACAACCTTGAAA
*
63084766 TCTACACAACCTTGAAA
1 AC-A-ACAACCTTGAAA
63084783 ACAACAACCTT
1 ACAACAACCTT
63084794 AATCTACTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 3 0.09
14 1 0.03
15 27 0.77
16 1 0.03
17 3 0.09
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (15 bp):
ACAACAACCTTGAAA
Found at i:63084776 original size:30 final size:30
Alignment explanation
Indices: 63084741--63084800 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
63084731 CATTATCACA
63084741 ACAACCTTGAAAACAACAACCTTAATCTAC
1 ACAACCTTGAAAACAACAACCTTAATCTAC
63084771 ACAACCTTGAAAACAACAACCTTAATCTAC
1 ACAACCTTGAAAACAACAACCTTAATCTAC
63084801 TTCTTAGACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.30, G:0.03, T:0.20
Consensus pattern (30 bp):
ACAACCTTGAAAACAACAACCTTAATCTAC
Found at i:63088100 original size:24 final size:23
Alignment explanation
Indices: 63088056--63088101 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
63088046 AAATTGTATG
* *
63088056 AATGAATAAATAATTATAATAAT
1 AATGAATAAATAATAACAATAAT
*
63088079 AATGAGATAAGTAATAACAATAA
1 AATGA-ATAAATAATAACAATAA
63088102 ATACAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (23 bp):
AATGAATAAATAATAACAATAAT
Found at i:63089706 original size:23 final size:23
Alignment explanation
Indices: 63089676--63089735 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
63089666 TTTTCCAGTA
63089676 ACTTATTTTTTTAATTATTCAAT
1 ACTTATTTTTTTAATTATTCAAT
63089699 ACTTATTTTTTTAATTATTCAAT
1 ACTTATTTTTTTAATTATTCAAT
63089722 ACTTATTTTTTTAA
1 ACTTATTTTTTTAA
63089736 CACAATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (23 bp):
ACTTATTTTTTTAATTATTCAAT
Found at i:63090012 original size:20 final size:20
Alignment explanation
Indices: 63089987--63090026 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
63089977 AATATTTTCC
*
63089987 AGTAAATCACTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
* *
63090007 AGTAAAACATTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
63090027 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:63090035 original size:34 final size:35
Alignment explanation
Indices: 63089975--63090041 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
63089965 CAAACACCAG
*
63089975 AAAATATTTTCCAGTAAATCACTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCACTTTACAGAAAAGT
* *
63090010 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCACTTTACAGAAAA
63090042 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCACTTTACAGAAAAGT
Found at i:63107985 original size:24 final size:24
Alignment explanation
Indices: 63107940--63107985 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
63107930 ATTTTAATTG
**
63107940 TATAATAATTATATATTTTTTTCA
1 TATAATAATTATATATAATTTTCA
* *
63107964 TATATTAATTATGTATAATTTT
1 TATAATAATTATATATAATTTT
63107986 ACACACAGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TATAATAATTATATATAATTTTCA
Found at i:63114010 original size:31 final size:28
Alignment explanation
Indices: 63113942--63114011 Score: 70
Period size: 31 Copynumber: 2.4 Consensus size: 28
63113932 ACATAATGAC
63113942 CAAACTTTTCAAAATGTTCAATAAGGAT
1 CAAACTTTTCAAAATGTTCAATAAGGAT
* *
63113970 TAAATCTTTTCAAAA-GTACTCAAATAAGTAT
1 CAAA-CTTTTCAAAATGT--TC-AATAAGGAT
63114001 CAAACCTTTTC
1 CAAA-CTTTTC
63114012 GAAGGTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.15
29 10 0.29
30 2 0.06
31 17 0.50
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (28 bp):
CAAACTTTTCAAAATGTTCAATAAGGAT
Found at i:63119530 original size:17 final size:18
Alignment explanation
Indices: 63119508--63119545 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
63119498 AAAAAATATA
*
63119508 AGATGAAAAGTTAAA-AG
1 AGATGAAAAATTAAATAG
63119525 AGATGAAAAATTAAATAG
1 AGATGAAAAATTAAATAG
63119543 AGA
1 AGA
63119546 GCTAAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (18 bp):
AGATGAAAAATTAAATAG
Found at i:63121142 original size:15 final size:15
Alignment explanation
Indices: 63121124--63121175 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
63121114 TAAATATAAT
63121124 AATAATTTATATTTA
1 AATAATTTATATTTA
63121139 AATAATTTA-ATTTA
1 AATAATTTATATTTA
* *
63121153 ATGACAAATTATATTTA
1 A--ATAATTTATATTTA
63121170 AATAAT
1 AATAAT
63121176 CTAATATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 6 0.20
15 12 0.40
16 6 0.20
17 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (15 bp):
AATAATTTATATTTA
Found at i:63130445 original size:19 final size:19
Alignment explanation
Indices: 63130421--63130461 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
63130411 GTTCCCACAT
63130421 GACCATATTCACTATTGAG
1 GACCATATTCACTATTGAG
63130440 GACCATATTCACTATTGAG
1 GACCATATTCACTATTGAG
63130459 GAC
1 GAC
63130462 TTAAAAAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (19 bp):
GACCATATTCACTATTGAG
Found at i:63135772 original size:14 final size:14
Alignment explanation
Indices: 63135753--63135781 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
63135743 TCACCGAGCC
63135753 AGTTTGGTTGGGCT
1 AGTTTGGTTGGGCT
63135767 AGTTTGGTTGGGCT
1 AGTTTGGTTGGGCT
63135781 A
1 A
63135782 AATGACCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.41, T:0.41
Consensus pattern (14 bp):
AGTTTGGTTGGGCT
Found at i:63140880 original size:14 final size:14
Alignment explanation
Indices: 63140861--63140892 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
63140851 TCCAATCACC
63140861 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63140875 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
63140889 GGGC
1 GGGC
63140893 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:63141583 original size:17 final size:20
Alignment explanation
Indices: 63141543--63141583 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 20
63141533 TATTATTTAC
63141543 CAAAATATATAAAAAAACAA
1 CAAAATATATAAAAAAACAA
63141563 -AAAATA-A-AAAAAAA-AA
1 CAAAATATATAAAAAAACAA
63141579 CAAAA
1 CAAAA
63141584 AACTTGCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 2 0.10
17 11 0.55
18 1 0.05
19 6 0.30
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (20 bp):
CAAAATATATAAAAAAACAA
Found at i:63142241 original size:19 final size:19
Alignment explanation
Indices: 63142217--63142314 Score: 128
Period size: 19 Copynumber: 5.3 Consensus size: 19
63142207 TCTAATTAAG
63142217 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
63142236 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
63142254 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
63142273 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
63142291 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
63142310 TAATA
1 TAATA
63142315 GTTTATTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.46
19 35 0.54
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:63142258 original size:37 final size:37
Alignment explanation
Indices: 63142217--63142314 Score: 196
Period size: 37 Copynumber: 2.6 Consensus size: 37
63142207 TCTAATTAAG
63142217 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
63142254 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
63142291 TAATAACTCTATTTTAATTTAATA
1 TAATAACTCTATTTTAATTTAATA
63142315 GTTTATTAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:63142389 original size:37 final size:37
Alignment explanation
Indices: 63142342--63142630 Score: 508
Period size: 37 Copynumber: 7.8 Consensus size: 37
63142332 AGTTTACTTA
63142342 ATTTT-TTAAATTAAAATAGAGTTATTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
*
63142378 ATTTTATTAAATTAAAATAGAGTTATTAAATGAAAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
*
63142415 ATTTTATTAAATTAAAATAGATTTATTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
* *
63142452 AGTTTATTAAATTAAAATAGAGTTGTTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
*
63142489 AGTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
*
63142526 ATTTTATTAAATTAAAATAGAATTATTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
*
63142563 AGTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
63142600 ATTTTATTAAATTAAAATAGAGTTATTAAAT
1 ATTTTATTAAATTAAAATAGAGTTATTAAAT
63142631 AAAAAAGTGA
Statistics
Matches: 240, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
36 5 0.02
37 235 0.98
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (37 bp):
ATTTTATTAAATTAAAATAGAGTTATTAAATGAGAAT
Found at i:63144013 original size:18 final size:19
Alignment explanation
Indices: 63143986--63144021 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
63143976 TTTATAAAAA
63143986 AATTTGATTTTATATTGAT
1 AATTTGATTTTATATTGAT
*
63144005 AATTT-ATTTTTTATTGA
1 AATTTGATTTTATATTGA
63144022 ACCGATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTGATTTTATATTGAT
Found at i:63151364 original size:25 final size:25
Alignment explanation
Indices: 63151330--63151379 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
63151320 ACTGAGTTAA
63151330 GCATTAACTTCAGTCTGTTAAAGTC
1 GCATTAACTTCAGTCTGTTAAAGTC
63151355 GCATTAACTTCAGTCTGTTAAAGTC
1 GCATTAACTTCAGTCTGTTAAAGTC
63151380 TGTTGCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (25 bp):
GCATTAACTTCAGTCTGTTAAAGTC
Found at i:63151586 original size:36 final size:36
Alignment explanation
Indices: 63151539--63151610 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
63151529 TTTCTTCTTT
*
63151539 GTATTCAAGATTTTATCTTTGATATAGGATCTAACA
1 GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
63151575 GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
1 GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
63151611 TGGTATCAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (36 bp):
GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
Found at i:63156068 original size:25 final size:25
Alignment explanation
Indices: 63156034--63156083 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
63156024 ACTGAGTTAA
63156034 GCATTAACTTCAGTCTGTTAAAGTC
1 GCATTAACTTCAGTCTGTTAAAGTC
63156059 GCATTAACTTCAGTCTGTTAAAGTC
1 GCATTAACTTCAGTCTGTTAAAGTC
63156084 TGTTGCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (25 bp):
GCATTAACTTCAGTCTGTTAAAGTC
Found at i:63156285 original size:37 final size:36
Alignment explanation
Indices: 63156235--63156307 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 36
63156225 TTTCTTCTTT
63156235 GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
1 GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
63156271 GTATTCAAAGATTTTATCTTTGATATAGAATCTAACA
1 GTATTC-AAGATTTTATCTTTGATATAGAATCTAACA
63156308 TTATGAACCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 6 0.17
37 30 0.83
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (36 bp):
GTATTCAAGATTTTATCTTTGATATAGAATCTAACA
Found at i:63158096 original size:42 final size:42
Alignment explanation
Indices: 63158037--63158120 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
63158027 AATTCTTACT
63158037 CGAATATTGTCTTTAATTGAATCTTGATTTGATTTGTTTGGC
1 CGAATATTGTCTTTAATTGAATCTTGATTTGATTTGTTTGGC
63158079 CGAATATTGTCTTTAATTGAATCTTGATTTGATTTGTTTGGC
1 CGAATATTGTCTTTAATTGAATCTTGATTTGATTTGTTTGGC
63158121 TGTTGACACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (42 bp):
CGAATATTGTCTTTAATTGAATCTTGATTTGATTTGTTTGGC
Found at i:63160791 original size:16 final size:18
Alignment explanation
Indices: 63160760--63160793 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
63160750 TGATAAAAAT
63160760 ATAGTTTCATTATTTTTA
1 ATAGTTTCATTATTTTTA
63160778 ATAGTTT-A-TATTTTTA
1 ATAGTTTCATTATTTTTA
63160794 TAATTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (18 bp):
ATAGTTTCATTATTTTTA
Found at i:63164624 original size:606 final size:608
Alignment explanation
Indices: 63163425--63164650 Score: 2075
Period size: 606 Copynumber: 2.0 Consensus size: 608
63163415 AAAAGTAATT
*
63163425 TTTATTTCATGCAATTAATGTAAATTAATATTATTGAAATTGTTGAGCATAATTAAAATATTACA
1 TTTATTGCATGCAATTAATGTAAATTAATATTATTGAAATTGTTGAGCATAATTAAAATATTACA
63163490 CCAAATAAAACCTTCAAAACAATAAACAAAAGCTTGAATGAAAATAATATAGGCTTCAAAACCAT
66 CCAAATAAAACCTTCAAAACAATAAACAAAAGCTTGAATGAAAATAATATAGGCTTCAAAACCAT
* *
63163555 AATTAAAAACTACTAGTTAAATTACATATTGGTCACTCGAATTCATAAAGTTGTAAAATAGTAAT
131 AAATAAAAACTACTAGTTAAATTACATATTGGTCACTCGAATTCATAAAGTTATAAAATAGTAAT
*
63163620 AAAATTATTCGAAGTTTTTATTTAAGTTAGTTAACAGTTAAAATCGTTATTGTATAGTTTTCTCC
196 AAAATTATTCGAAGTTTTTATTTAAGTTACTTAACAGTTAAAATCGTTATTGTATAGTTTTCTCC
* * *
63163685 ATTTGCATCGCTTGCACAAATCGAAAACTGTTTTTCTCCTTTTCTTGTACGGTTCAATTTCTTTT
261 ATTCGCATCGCTTGCACAAATCGAAAACTGTTTTTCCCCTTTTCTTGTACGGTTCAAATTCTTTT
* * * * *
63163750 CATATTTATGAACTAAAATCCAACTAATTTTCTTCTTCGATCTCCAACACTGACTGTCAGATCGA
326 CATATTTACGAACCAAAATCCAAATAACTTTCTTCTTCAATCTCCAACACTGACTGTCAGATCGA
*
63163815 CTTGGATCTAAGTTATATTCTTCTATTTCTTGATGGGTACTGATTTACCATACTATTCGTCGAAT
391 CTTGGATCTAAGTTATATTCTTCTATTTCTTGATGGGTACTGATCTACCATACTATTCGTCGAAT
**
63163880 TGTTGTTTGAAGCTTGTAAACCAAACTTAAATTTAATGACTTAAATAAAATCTTTTGAATTAATA
456 TGTTGTTTGAAGCTTGTAAACCAAACTTAAAGCTAATGACTTAAATAAAATCTTTTGAATTAATA
*
63163945 ATTATTTTATATCTAAATAATTAATTAAAATATAAACTTATTAATATTTAATAACCTTAGATCTA
521 ATTATTTTATATCTAAATAATTAATCAAAATATAAACTTATTAATATTTAATAACCTTAGATCTA
*
63164010 ATTTT-AAAA-AAAAAATCCATC
586 ATTTTAAAAAGAAAAAATACATC
63164031 TTTATTGCATGCAATTAATGTAAATTAATATTATTGAAATTGTTGAGCATAATTAAAATATTACA
1 TTTATTGCATGCAATTAATGTAAATTAATATTATTGAAATTGTTGAGCATAATTAAAATATTACA
* *
63164096 CCAAATAAAACCTTCAAAACCATAAACAAAAGCTTGAATGAAAATAATATAGGCTTCAAAACCGT
66 CCAAATAAAACCTTCAAAACAATAAACAAAAGCTTGAATGAAAATAATATAGGCTTCAAAACCAT
*
63164161 AAATAAAAACTACTAGTTAAATTATATATTGGTCACTCGAATTCATAAAGTTATAAAATAGTAAT
131 AAATAAAAACTACTAGTTAAATTACATATTGGTCACTCGAATTCATAAAGTTATAAAATAGTAAT
* * * * *
63164226 AAAGTTATTTGAAGTTTTTATTTTAGTTACTTAACAGTTAAAATTGTTATTGTATAGTTTTTTCC
196 AAAATTATTCGAAGTTTTTATTTAAGTTACTTAACAGTTAAAATCGTTATTGTATAGTTTTCTCC
*
63164291 GTTCGCATCGCTTGCACAAATCGAAAACT-TTTCTTCCCCTTTTCTTGTACGGTTCAAATT-TTT
261 ATTCGCATCGCTTGCACAAATCGAAAACTGTTT-TTCCCCTTTTCTTGTACGGTTCAAATTCTTT
* *
63164354 TCATTTTTACGAACCAAAATCCAAATAACTTTCTTCTTCAATCTCCAACACTGACTGTCAGATTG
325 TCATATTTACGAACCAAAATCCAAATAACTTTCTTCTTCAATCTCCAACACTGACTGTCAGATCG
*
63164419 ACTTGGATCTAAGTTATGTTCTTCTATTTCTTGATGGGTACTGATCTACCATACTATTCGTCGAA
390 ACTTGGATCTAAGTTATATTCTTCTATTTCTTGATGGGTACTGATCTACCATACTATTCGTCGAA
63164484 TTGTTGTTTGAAGCTTGTAAACCAAACTTAAAGCTAATGACTTAAATAAAATCTTTTGAATAGTA
455 TTGTTGTTTGAAGCTTGTAAACCAAACTTAAAGCTAATGACTTAAATAAAATCTTTTGAAT--TA
* * ** * *
63164549 GTGATTATTTTATATCTAGTTAATTAATCAAAATATAAATTTATTAATATTTAATAACCTTGGAT
518 ATAATTATTTTATATCTAAATAATTAATCAAAATATAAACTTATTAATATTTAATAACCTTAGAT
63164614 CTAA-TTTAAAAAGAAAAAATACATC
583 CTAATTTTAAAAAGAAAAAATACATC
63164639 TTTATTGCATGC
1 TTTATTGCATGC
63164651 CATGTGACTG
Statistics
Matches: 580, Mismatches: 35, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
605 186 0.32
606 303 0.52
607 68 0.12
608 23 0.04
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (608 bp):
TTTATTGCATGCAATTAATGTAAATTAATATTATTGAAATTGTTGAGCATAATTAAAATATTACA
CCAAATAAAACCTTCAAAACAATAAACAAAAGCTTGAATGAAAATAATATAGGCTTCAAAACCAT
AAATAAAAACTACTAGTTAAATTACATATTGGTCACTCGAATTCATAAAGTTATAAAATAGTAAT
AAAATTATTCGAAGTTTTTATTTAAGTTACTTAACAGTTAAAATCGTTATTGTATAGTTTTCTCC
ATTCGCATCGCTTGCACAAATCGAAAACTGTTTTTCCCCTTTTCTTGTACGGTTCAAATTCTTTT
CATATTTACGAACCAAAATCCAAATAACTTTCTTCTTCAATCTCCAACACTGACTGTCAGATCGA
CTTGGATCTAAGTTATATTCTTCTATTTCTTGATGGGTACTGATCTACCATACTATTCGTCGAAT
TGTTGTTTGAAGCTTGTAAACCAAACTTAAAGCTAATGACTTAAATAAAATCTTTTGAATTAATA
ATTATTTTATATCTAAATAATTAATCAAAATATAAACTTATTAATATTTAATAACCTTAGATCTA
ATTTTAAAAAGAAAAAATACATC
Found at i:63165353 original size:12 final size:12
Alignment explanation
Indices: 63165336--63165360 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63165326 TACTGCACTT
63165336 TATCATCAGTAA
1 TATCATCAGTAA
63165348 TATCATCAGTAA
1 TATCATCAGTAA
63165360 T
1 T
63165361 TCAATGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCATCAGTAA
Found at i:63167141 original size:14 final size:14
Alignment explanation
Indices: 63167122--63167148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63167112 ACAAGCGAAC
63167122 TGTTATGAACCAAG
1 TGTTATGAACCAAG
63167136 TGTTATGAACCAA
1 TGTTATGAACCAA
63167149 TTAAAACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
TGTTATGAACCAAG
Found at i:63174802 original size:25 final size:25
Alignment explanation
Indices: 63174746--63174804 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
63174736 CTCAAGTCGT
* *
63174746 AAGAGCTTACAGTTATTCAGCTCGG
1 AAGAGCTTACAGATATTAAGCTCGG
* *
63174771 AAAAGCTTACTGATATTAAGCTCGG
1 AAGAGCTTACAGATATTAAGCTCGG
*
63174796 ATGAGCTTA
1 AAGAGCTTA
63174805 ATGTTTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (25 bp):
AAGAGCTTACAGATATTAAGCTCGG
Found at i:63182497 original size:21 final size:20
Alignment explanation
Indices: 63182473--63182543 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 20
63182463 ATATTACACC
63182473 AAATAAAACCTTCAAAACCAT
1 AAATAAAA-CTTCAAAACCAT
* *
63182494 AAATAAAAGCTTGAATGAA-AAT
1 AAATAAAA-CTTCAA--AACCAT
*
63182516 -AATATAGACTTCAAAACCAT
1 AAATA-AAACTTCAAAACCAT
63182536 AAATAAAA
1 AAATAAAA
63182544 ACTATTAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
19 2 0.05
20 4 0.11
21 26 0.68
22 4 0.11
23 2 0.05
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (20 bp):
AAATAAAACTTCAAAACCAT
Found at i:63183744 original size:8 final size:8
Alignment explanation
Indices: 63183731--63183755 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
63183721 GCAAATAATA
63183731 TATATATG
1 TATATATG
63183739 TATATATG
1 TATATATG
63183747 TATATATG
1 TATATATG
63183755 T
1 T
63183756 GAGAGTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TATATATG
Found at i:63191577 original size:11 final size:11
Alignment explanation
Indices: 63191550--63191592 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
63191540 TGACCTTTCC
63191550 AAGGTATGGG-
1 AAGGTATGGGA
*
63191560 TAGGTATGGGA
1 AAGGTATGGGA
*
63191571 AAGGTATGGGC
1 AAGGTATGGGA
63191582 AAGGTATGGGA
1 AAGGTATGGGA
63191593 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:63191589 original size:22 final size:21
Alignment explanation
Indices: 63191550--63191592 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
63191540 TGACCTTTCC
*
63191550 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
63191571 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
63191593 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:63195655 original size:18 final size:18
Alignment explanation
Indices: 63195632--63195724 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
63195622 CCCAACTACT
*
63195632 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
63195650 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
63195668 ATATATGTGAATAGTACT
1 GTATACGTGAATAGTACC
***
63195686 GTATACGTGAATAGTGTT
1 GTATACGTGAATAGTACC
63195704 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
63195722 GTA
1 GTA
63195725 AACGGTCGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:63195690 original size:36 final size:36
Alignment explanation
Indices: 63195633--63195724 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
63195623 CCAACTACTG
*
63195633 TATACGTGAACAGTACCGTATACATGAATAGTGCCA
1 TATACGTGAATAGTACCGTATACATGAATAGTGCCA
* * * ***
63195669 TATATGTGAATAGTACTGTATACGTGAATAGTGTTG
1 TATACGTGAATAGTACCGTATACATGAATAGTGCCA
63195705 TATACGTGAATAGTACCGTA
1 TATACGTGAATAGTACCGTA
63195725 AACGGTCGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.32
Consensus pattern (36 bp):
TATACGTGAATAGTACCGTATACATGAATAGTGCCA
Found at i:63196273 original size:10 final size:10
Alignment explanation
Indices: 63196257--63196298 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
63196247 TGACCTTTCC
63196257 AAGGTATGGG
1 AAGGTATGGG
*
63196267 TAGGTATGGG
1 AAGGTATGGG
63196277 AAAGGTATGGG
1 -AAGGTATGGG
*
63196288 CAGGTATGGG
1 AAGGTATGGG
63196298 A
1 A
63196299 TATATTCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (10 bp):
AAGGTATGGG
Found at i:63196283 original size:21 final size:21
Alignment explanation
Indices: 63196257--63196298 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
63196247 TGACCTTTCC
*
63196257 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGCAGGTATGGGA
63196278 AAGGTATGGGCAGGTATGGGA
1 AAGGTATGGGCAGGTATGGGA
63196299 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.48, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGCAGGTATGGGA
Found at i:63198180 original size:13 final size:13
Alignment explanation
Indices: 63198162--63198189 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63198152 AAGATAATTA
63198162 TTCAATTACTTTG
1 TTCAATTACTTTG
63198175 TTCAATTACTTTG
1 TTCAATTACTTTG
63198188 TT
1 TT
63198190 TTATTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (13 bp):
TTCAATTACTTTG
Found at i:63203565 original size:15 final size:15
Alignment explanation
Indices: 63203540--63203574 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
63203530 GACTCTATTT
*
63203540 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
63203554 TAATTAATATTAAGA
1 TAATTAATATTAAGA
63203569 TAATTA
1 TAATTA
63203575 TTAAAGATTA
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:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:63208416 original size:25 final size:25
Alignment explanation
Indices: 63208387--63208445 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
63208377 CCTCGATGAT
**
63208387 CTTACTGTTATTCTGCTCGGAAGAG
1 CTTACTGTTATTAAGCTCGGAAGAG
* * *
63208412 TTTACTGATATTAAGCTCGGATGAG
1 CTTACTGTTATTAAGCTCGGAAGAG
63208437 CTTACTGTT
1 CTTACTGTT
63208446 TATCGCTCGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (25 bp):
CTTACTGTTATTAAGCTCGGAAGAG
Found at i:63212203 original size:12 final size:12
Alignment explanation
Indices: 63212186--63212210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63212176 TACTGCACTT
63212186 TATCATCAGTAA
1 TATCATCAGTAA
63212198 TATCATCAGTAA
1 TATCATCAGTAA
63212210 T
1 T
63212211 TCAATGTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TATCATCAGTAA
Found at i:63217963 original size:9 final size:9
Alignment explanation
Indices: 63217949--63217979 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
63217939 GTTAAACGAA
63217949 TCGAGTTAT
1 TCGAGTTAT
*
63217958 TCGAGTTAA
1 TCGAGTTAT
63217967 TCGAGTTAT
1 TCGAGTTAT
63217976 TCGA
1 TCGA
63217980 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:63218050 original size:9 final size:9
Alignment explanation
Indices: 63218033--63218069 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
63218023 TGAGTTTTCG
63218033 AATTCGAAT
1 AATTCGAAT
*
63218042 AACTCGAAT
1 AATTCGAAT
63218051 AATTCGAAT
1 AATTCGAAT
63218060 AATTCGAAT
1 AATTCGAAT
63218069 A
1 A
63218070 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:63224728 original size:36 final size:37
Alignment explanation
Indices: 63224671--63224741 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
63224661 TAAATTAATT
* *
63224671 TTATTTGCTTCAAAATAAAAAATAGAATAATTAAAGA
1 TTATTTGCTTAAAAATAAAAAATAAAATAATTAAAGA
*
63224708 TTATTTTCTTAAAAAT-AAAAATAAAATAATTAAA
1 TTATTTGCTTAAAAATAAAAAATAAAATAATTAAA
63224742 TTAAGTTTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 17 0.55
37 14 0.45
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (37 bp):
TTATTTGCTTAAAAATAAAAAATAAAATAATTAAAGA
Found at i:63225845 original size:5 final size:5
Alignment explanation
Indices: 63225837--63225893 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
63225827 TTTATATATA
*
63225837 ATAAT ATAAT ATAAT ATAAT A-ACAT ACTTAT -TAAT -TAAGT A-AAT
1 ATAAT ATAAT ATAAT ATAAT ATA-AT A-TAAT ATAAT ATAA-T ATAAT
63225881 ATAAT ATAAT ATA
1 ATAAT ATAAT ATA
63225894 CAACTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 9 0.20
5 33 0.75
6 2 0.05
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:63225887 original size:34 final size:32
Alignment explanation
Indices: 63225844--63225915 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
63225834 ATAATAATAT
63225844 AATATAATATAATA-ACATACTTATT-AATTAAGTA
1 AATATAATATAATATACA-ACTT-TTAAATTAA--A
63225878 AATATAATATAATATACAACTTTTAAATTAAA
1 AATATAATATAATATACAACTTTTAAATTAAA
63225910 AATATA
1 AATATA
63225916 TTAGATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
32 7 0.19
33 2 0.06
34 24 0.67
35 3 0.08
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
AATATAATATAATATACAACTTTTAAATTAAA
Found at i:63234734 original size:40 final size:40
Alignment explanation
Indices: 63234684--63234777 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
63234674 GTTTGGATAA
63234684 AAAACGCCGCTAAAGATCGAGCATTAG-TGGCAATTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCT-GCAATTTTTGG
* * *
63234724 AAAACGCCGCTAAAGGTCGAGTATTAGCTGCACTTTTTGG
1 AAAACGCCGCTAAAGATCGAGCATTAGCTGCAATTTTTGG
63234764 AAAACGCCGCTAAA
1 AAAACGCCGCTAAA
63234778 AACAACCATT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 49 0.98
41 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCGAGCATTAGCTGCAATTTTTGG
Found at i:63234955 original size:14 final size:14
Alignment explanation
Indices: 63234926--63234966 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
63234916 CAAGTAATTA
63234926 TATGGATTTAAGGAT
1 TATGGA-TTAAGGAT
*
63234941 TATGGATTAATGAT
1 TATGGATTAAGGAT
*
63234955 TATGGTTTAAGG
1 TATGGATTAAGG
63234967 GTTGGGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.32, C:0.00, G:0.27, T:0.41
Consensus pattern (14 bp):
TATGGATTAAGGAT
Found at i:63234998 original size:7 final size:7
Alignment explanation
Indices: 63234986--63235020 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
63234976 TGAGGTTTAA
63234986 GGGTTAG
1 GGGTTAG
63234993 GGGTTAG
1 GGGTTAG
63235000 GGGTTAG
1 GGGTTAG
*
63235007 GTGTTAG
1 GGGTTAG
*
63235014 GGATTAG
1 GGGTTAG
63235021 AATTTAGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.31
Consensus pattern (7 bp):
GGGTTAG
Found at i:63238472 original size:43 final size:43
Alignment explanation
Indices: 63238411--63238495 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
63238401 CAATGATGTA
* *
63238411 CAAGATTTCTTTGATTAAGTAAATGTATTATATCTTTTATTAT
1 CAAGATTTCTTTGATTAAGAAAATGCATTATATCTTTTATTAT
* *
63238454 CAAGATTTAC-TTGATTAAGAAAATGCATTGTATGTTTTATTA
1 CAAGATTT-CTTTGATTAAGAAAATGCATTATATCTTTTATTA
63238496 CCTTGCATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 36 0.97
44 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (43 bp):
CAAGATTTCTTTGATTAAGAAAATGCATTATATCTTTTATTAT
Found at i:63238863 original size:43 final size:42
Alignment explanation
Indices: 63238816--63239032 Score: 229
Period size: 43 Copynumber: 5.1 Consensus size: 42
63238806 TTTCACGACA
** *
63238816 TTTGTGAGAAAAGTACCGTTAAAAGTGATGATCTATAGCGGCG
1 TTTGTG-GAAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
* * * *
63238859 TTTGTGGTAAAAGCGTCGTTAAAATTCATGACCT-TAGCGTCG
1 TTTGTGG-AAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
* **
63238901 TTTGTGGAAAAAGTGTTGTTAAAAGTCATGATCTATAGCGGCG
1 TTTGTGG-AAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
* * * *
63238944 TTTGTGGGAAAAGCGCTGCTAAAAGTCATGATCTTTAGCAGCG
1 TTTGT-GGAAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
* * *
63238987 TTTGTGTGAAAAGCGCCGCTAAAAGTCTTGTTCTATAGCGGCG
1 TTTGTG-GAAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
63239030 TTT
1 TTT
63239033 CTTTCTAAAA
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
42 38 0.26
43 107 0.73
44 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (42 bp):
TTTGTGGAAAAGCGCCGTTAAAAGTCATGATCTATAGCGGCG
Found at i:63238913 original size:85 final size:86
Alignment explanation
Indices: 63238816--63239032 Score: 255
Period size: 85 Copynumber: 2.5 Consensus size: 86
63238806 TTTCACGACA
* * * *
63238816 TTTGT-GAGAAAAGTACCGTTAAAAGTGATGATCTATAGCGGCGTTTGTGGTAAAAGCG-TCGTT
1 TTTGTGGA-AAAAGTGCCGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCT-GCT
*
63238879 AAAATTCATGA-CCTTAGC-GTCG
64 AAAAGTCATGATCCTTAGCAG-CG
**
63238901 TTTGTGGAAAAAGTGTTGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAA
1 TTTGTGGAAAAAGTGCCGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAA
*
63238966 AAGTCATGATCTTTAGCAGCG
66 AAGTCATGATCCTTAGCAGCG
* * * *
63238987 TTTGTGTG-AAAAGCGCCGCTAAAAGTCTTGTTCTATAGCGGCGTTT
1 TTTGTG-GAAAAAGTGCCGTTAAAAGTCATGATCTATAGCGGCGTTT
63239033 CTTTCTAAAA
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
85 62 0.55
86 49 0.43
87 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (86 bp):
TTTGTGGAAAAAGTGCCGTTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAAAAGCGCTGCTAA
AAGTCATGATCCTTAGCAGCG
Found at i:63239795 original size:34 final size:34
Alignment explanation
Indices: 63239747--63239814 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
63239737 CTCCCTCTCC
63239747 ATCCATCTTCATATTCAATATCCATTTCATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
* * * *
63239781 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
63239815 TTCTCGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATCCATTTCATGCAT
Found at i:63249135 original size:73 final size:73
Alignment explanation
Indices: 63248982--63249122 Score: 219
Period size: 73 Copynumber: 1.9 Consensus size: 73
63248972 TCTTAGATTT
* * * *
63248982 AAAAAAGGGATCATGCCCAGTAAGTTAGGACGCGATCTTTTCTTAATTCCTGAAATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
63249047 CTTGAGGA
66 CTTGAGGA
** *
63249055 AAAAAAGAGATCATGCCTTGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
63249120 CTT
66 CTT
63249123 TGGTTTGAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 61 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (73 bp):
AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CTTGAGGA
Found at i:63249560 original size:19 final size:19
Alignment explanation
Indices: 63249538--63249621 Score: 53
Period size: 19 Copynumber: 4.1 Consensus size: 19
63249528 ATTTATAAAT
63249538 TGTAAAATATAAAAATATA
1 TGTAAAATATAAAAATATA
63249557 TGTATATGTGAATTATAAAAATATA
1 TGTA-A----AA-TATAAAAATATA
* *
63249582 TATAAAATATATATAATAT-
1 TGTAAAATATA-AAAATATA
* *
63249601 TTTTAAATATAAAGAATATA
1 TGTAAAATATAAA-AATATA
63249621 T
1 T
63249622 ATAAGTATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
18 1 0.02
19 22 0.43
20 10 0.20
24 3 0.06
25 15 0.29
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
TGTAAAATATAAAAATATA
Found at i:63252889 original size:17 final size:18
Alignment explanation
Indices: 63252867--63252907 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
63252857 CGAATCCTTC
63252867 TTTTCTATTT-TTGCTAT-
1 TTTTCTATTTGTTGC-ATG
*
63252884 TTTTCTTTTTGTTGCATG
1 TTTTCTATTTGTTGCATG
63252902 TTTTCT
1 TTTTCT
63252908 TTCCTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.07, C:0.12, G:0.10, T:0.71
Consensus pattern (18 bp):
TTTTCTATTTGTTGCATG
Found at i:63252905 original size:18 final size:17
Alignment explanation
Indices: 63252867--63252909 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
63252857 CGAATCCTTC
*
63252867 TTTTCTATTTTTGCTAT
1 TTTTCTTTTTTTGCTAT
63252884 TTTTCTTTTTGTTGC-AT
1 TTTTCTTTTT-TTGCTAT
63252901 GTTTTCTTT
1 -TTTTCTTT
63252910 CCTTTTGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (17 bp):
TTTTCTTTTTTTGCTAT
Found at i:63253528 original size:19 final size:19
Alignment explanation
Indices: 63253504--63253549 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
63253494 TGTAAGCAAT
63253504 AACACCAAGAGATCCATTA
1 AACACCAAGAGATCCATTA
63253523 AACACCAAGAGATCCATTA
1 AACACCAAGAGATCCATTA
63253542 AACACCAA
1 AACACCAA
63253550 TACCTCGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.09, T:0.13
Consensus pattern (19 bp):
AACACCAAGAGATCCATTA
Found at i:63254636 original size:46 final size:46
Alignment explanation
Indices: 63254532--63254785 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
63254522 TACTTATGAT
* *
63254532 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
63254575 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
63254621 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
63254667 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
63254713 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
63254759 CACTTATCACTTTATCACTTTATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
63254786 AGTACTCAAA
Statistics
Matches: 203, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
43 10 0.05
44 5 0.02
45 20 0.10
46 168 0.83
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:63257909 original size:26 final size:26
Alignment explanation
Indices: 63257863--63257914 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
63257853 TATTTTAGCT
*
63257863 ATTTTATTATTAAATTAATTATTTTA
1 ATTTTATTATCAAATTAATTATTTTA
*
63257889 ATTTTATTATCACTATT-ATTATTTTA
1 ATTTTATTATCA-AATTAATTATTTTA
63257915 CCCTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
ATTTTATTATCAAATTAATTATTTTA
Found at i:63258094 original size:3 final size:3
Alignment explanation
Indices: 63258086--63258128 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
63258076 TAAATTGTTA
* * *
63258086 ATT ATT ATT ATT ATT ATT AATC ATC ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
63258129 CTTAAATTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:63260746 original size:12 final size:12
Alignment explanation
Indices: 63260729--63260753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63260719 GGTGTTCATT
63260729 CGGTTAACCGAC
1 CGGTTAACCGAC
63260741 CGGTTAACCGAC
1 CGGTTAACCGAC
63260753 C
1 C
63260754 CGAAATTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:63260938 original size:9 final size:9
Alignment explanation
Indices: 63260912--63260962 Score: 68
Period size: 9 Copynumber: 5.8 Consensus size: 9
63260902 TTTGGTTAAA
*
63260912 AATTACCCA
1 AATTACCCG
63260921 AATTACCCG
1 AATTACCCG
63260930 AATTACCCG
1 AATTACCCG
*
63260939 -ATTAACCG
1 AATTACCCG
*
63260947 AATTAACCG
1 AATTACCCG
63260956 AATTACC
1 AATTACC
63260963 TAAAAATTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
8 7 0.18
9 31 0.82
ACGTcount: A:0.39, C:0.29, G:0.08, T:0.24
Consensus pattern (9 bp):
AATTACCCG
Found at i:63260947 original size:17 final size:17
Alignment explanation
Indices: 63260912--63260956 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
63260902 TTTGGTTAAA
* *
63260912 AATTACCCAAATTACCCG
1 AATTACCC-GATTAACCG
63260930 AATTACCCGATTAACCG
1 AATTACCCGATTAACCG
*
63260947 AATTAACCGA
1 AATTACCCGA
63260957 ATTACCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (17 bp):
AATTACCCGATTAACCG
Found at i:63262210 original size:31 final size:29
Alignment explanation
Indices: 63262141--63262214 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
63262131 ACAAAATAAT
**
63262141 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
63262170 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
63262201 AACAAAAGTGACTA
1 AACATAAGTGACTA
63262215 CTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:63265098 original size:13 final size:13
Alignment explanation
Indices: 63265080--63265109 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
63265070 CTCCAAAATA
63265080 CATTAAAACAATT
1 CATTAAAACAATT
63265093 CATTAAAACAATT
1 CATTAAAACAATT
63265106 CATT
1 CATT
63265110 GTAGTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATTAAAACAATT
Found at i:63265436 original size:21 final size:21
Alignment explanation
Indices: 63265407--63265460 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
63265397 ATTATATTGA
63265407 AATGATATTTATATTTATGAT
1 AATGATATTTATATTTATGAT
* * *
63265428 AATGTTATTTATCTTTGTGAT
1 AATGATATTTATATTTATGAT
* *
63265449 AATTAAATTTAT
1 AATGATATTTAT
63265461 CTAGCCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATGATATTTATATTTATGAT
Found at i:63281889 original size:29 final size:29
Alignment explanation
Indices: 63281857--63281912 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
63281847 TCCGCATCCC
63281857 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
63281886 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
63281913 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:63286926 original size:40 final size:41
Alignment explanation
Indices: 63286869--63286958 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
63286859 TCCTCGTAGG
* *
63286869 CGCGATTTGTGTCCACGTAAGC-AAAGCGCGCTGACGTGGA
1 CGCGATTTGTGTACACGTAACCGAAAGCGCGCTGACGTGGA
** * *
63286909 CGCGATTTGCTG-ACACGTCCCCTGACATCGCGCTGACGTGGA
1 CGCGATTTG-TGTACACGTAACC-GAAAGCGCGCTGACGTGGA
63286951 CGCGATTT
1 CGCGATTT
63286959 TGGGGAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.37
41 2 0.05
42 24 0.59
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (41 bp):
CGCGATTTGTGTACACGTAACCGAAAGCGCGCTGACGTGGA
Found at i:63291124 original size:29 final size:29
Alignment explanation
Indices: 63291092--63291147 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
63291082 TCCGCATCCC
63291092 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
63291121 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
63291148 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:63292800 original size:23 final size:24
Alignment explanation
Indices: 63292755--63292800 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
63292745 AAGGTAGTTT
*
63292755 TTTTTTCTCGTCTCTGCTCTTTTC
1 TTTTTTCTCGTCTCTGCTATTTTC
* *
63292779 TTTTTTC-CGTCTGTTCTATTTT
1 TTTTTTCTCGTCTCTGCTATTTT
63292801 ACTTGCGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.02, C:0.24, G:0.09, T:0.65
Consensus pattern (24 bp):
TTTTTTCTCGTCTCTGCTATTTTC
Found at i:63292833 original size:19 final size:18
Alignment explanation
Indices: 63292798--63292832 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63292788 TCTGTTCTAT
63292798 TTTACTTGCGTTTTTTTA
1 TTTACTTGCGTTTTTTTA
63292816 TTTACTTGCGTTTTTTT
1 TTTACTTGCGTTTTTTT
63292833 TTTTGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTACTTGCGTTTTTTTA
Found at i:63293710 original size:11 final size:11
Alignment explanation
Indices: 63293670--63293852 Score: 112
Period size: 11 Copynumber: 17.9 Consensus size: 11
63293660 GGCCCATTTT
63293670 TATTTT-AAAA
1 TATTTTAAAAA
63293680 -ATTTTAAAAA
1 TATTTTAAAAA
**
63293690 -ATTAAAAAAAA
1 TATT-TTAAAAA
63293701 TATTTTAAAAA
1 TATTTTAAAAA
**
63293712 TATTTTTTAAA
1 TATTTTAAAAA
63293723 TATTTT--AAA
1 TATTTTAAAAA
*
63293732 -A-TTAAAAAA
1 TATTTTAAAAA
63293741 TATTTTAAAAA
1 TATTTTAAAAA
63293752 TATTTTAAAAA
1 TATTTTAAAAA
63293763 TATTTT--AAA
1 TATTTTAAAAA
63293772 -A--TTAAAAA
1 TATTTTAAAAA
* ***
63293780 AATAAAAAAAA
1 TATTTTAAAAA
*
63293791 GTATTTTAAAAG
1 -TATTTTAAAAA
63293803 TATTTT-AAAA
1 TATTTTAAAAA
63293813 T-TTTTAAAAA
1 TATTTTAAAAA
63293823 -A--TTAAAAA
1 TATTTTAAAAA
* *
63293831 GTATGTAAAAAA
1 -TATTTTAAAAA
63293843 TATTTTAAAA
1 TATTTTAAAA
63293853 TTAAAAAAAT
Statistics
Matches: 135, Mismatches: 19, Indels: 37
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.01
7 2 0.01
8 12 0.09
9 19 0.14
10 17 0.13
11 68 0.50
12 15 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:63293750 original size:40 final size:40
Alignment explanation
Indices: 63293672--63293860 Score: 174
Period size: 40 Copynumber: 4.7 Consensus size: 40
63293662 CCCATTTTTA
63293672 TTTTAAAA-ATTTTAAAAAATTAAAAAAAATATTTTAAAAATAT
1 TTTTAAAATATTTT--AAAATT--AAAAAATATTTTAAAAATAT
*
63293715 TTTTTAAATATTTTAAAATTAAAAAATATTTTAAAAATAT
1 TTTTAAAATATTTTAAAATTAAAAAATATTTTAAAAATAT
* ***
63293755 TTTAAAAATATTTTAAAATTAAAAAA-ATAAAAAAAAGTA-
1 TTTTAAAATATTTTAAAATTAAAAAATATTTTAAAAA-TAT
*
63293794 TTTTAAAAGTATTTTAAAATTTTTAAAAA-A--TTAAAAAGTAT
1 TTTTAAAA-TATTTTAAAA--TTAAAAAATATTTTAAAAA-TAT
* **
63293835 GTAAAAAATATTTTAAAATTAAAAAA
1 TTTTAAAATATTTTAAAATTAAAAAA
63293861 ATAAATATAT
Statistics
Matches: 126, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
38 7 0.06
39 14 0.11
40 74 0.59
41 5 0.04
42 14 0.11
43 7 0.06
44 5 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (40 bp):
TTTTAAAATATTTTAAAATTAAAAAATATTTTAAAAATAT
Found at i:63296070 original size:23 final size:24
Alignment explanation
Indices: 63296019--63296070 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
63296009 CTGTTGTTAT
63296019 TATTATAATATTATTAATCTAATTA
1 TATT-TAATATTATTAATCTAATTA
63296044 -ATTTAATATTATT-AT-TACATTA
1 TATTTAATATTATTAATCTA-ATTA
63296066 TATTT
1 TATTT
63296071 CTTTTTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 6 0.24
23 14 0.56
24 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTAATATTATTAATCTAATTA
Found at i:63304962 original size:12 final size:13
Alignment explanation
Indices: 63304945--63304977 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
63304935 AATGTGAAAC
63304945 AGAAAGAAATTGA
1 AGAAAGAAATTGA
*
63304958 A-AAAGAAGTTGA
1 AGAAAGAAATTGA
63304970 AGAAAGAA
1 AGAAAGAA
63304978 GAGAAAATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (13 bp):
AGAAAGAAATTGA
Found at i:63309259 original size:10 final size:10
Alignment explanation
Indices: 63309244--63309360 Score: 53
Period size: 10 Copynumber: 11.4 Consensus size: 10
63309234 TTTTTATTTT
63309244 AAAAATTTAA
1 AAAAATTTAA
*
63309254 AAAAATTAAA
1 AAAAATTTAA
63309264 AAAAGTATTTTAA
1 AAAA--A-TTTAA
* *
63309277 AAATATTTTTA
1 AAA-AATTTAA
*
63309288 AAATATTT--
1 AAAAATTTAA
* *
63309296 TAAAATTTTA
1 AAAAATTTAA
*
63309306 AAAAATTAAA
1 AAAAATTTAA
63309316 AAAAGTATTTTAA
1 AAAA--A-TTTAA
*
63309329 AAATATTT--
1 AAAAATTTAA
* *
63309337 TAAAATTTTA
1 AAAAATTTAA
63309347 AAAAATTTAA
1 AAAAATTTAA
63309357 AAAA
1 AAAA
63309361 GTATGTAAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
8 12 0.15
10 42 0.53
11 8 0.10
12 2 0.03
13 14 0.18
14 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:63309278 original size:11 final size:10
Alignment explanation
Indices: 63309264--63309383 Score: 68
Period size: 11 Copynumber: 11.5 Consensus size: 10
63309254 AAAAATTAAA
63309264 AAAAGTATTTT
1 AAAA-TATTTT
63309275 AAAAATATTTTT
1 -AAAATA-TTTT
63309287 AAAATATTTT
1 AAAATATTTT
63309297 -AAA-ATTTT
1 AAAATATTTT
* **
63309305 AAAAAATTAAA
1 AAAATATT-TT
63309316 AAAAGTATTTT
1 AAAA-TATTTT
63309327 AAAAATATTTT
1 -AAAATATTTT
63309338 -AAA-ATTTT
1 AAAATATTTT
* *
63309346 AAAAAATTTAA
1 AAAATATTT-T
**
63309357 AAAAGTATGTAA
1 AAAA-TAT-TTT
63309369 AAAATATTTT
1 AAAATATTTT
63309379 AAAAT
1 AAAAT
63309384 TAAAAAAATA
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
8 10 0.11
9 12 0.14
10 17 0.20
11 25 0.29
12 22 0.25
13 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
AAAATATTTT
Found at i:63309309 original size:52 final size:51
Alignment explanation
Indices: 63309238--63309382 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 51
63309228 GGCCCATTTT
*
63309238 TATTTTAAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAA
1 TATTTT-AAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATA-TTTTAAAA
63309291 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
* * *
63309342 T-TTTAAAAAATTTAAAAAAGTATGTAAAAAA-TATTTTAAAA
1 TATTTTAAAATTTTAAAAAA-T-T-AAAAAAAGTATTTTAAAA
63309383 TTAAAAAAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
50 16 0.19
51 10 0.12
52 47 0.55
53 12 0.14
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (51 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:63309334 original size:41 final size:41
Alignment explanation
Indices: 63309275--63309392 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
63309265 AAAGTATTTT
*
63309275 AAAAA-TATTTTTAAAATATTTTAAAATTTTAAAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTTTAAAAAATTAA
*
63309315 AAAAAGTATTTTAAAAATATTTTAAAATTTTAAAAAATTTA
1 AAAAAGTATTTTAAAAATATTTTAAAATTTTAAAAAATTAA
* * *
63309356 AAAAAGTATGTAAAAAATATTTTAAAA-TTAAAAAAAT
1 AAAAAGTATTTTAAAAATATTTTAAAATTTTAAAAAAT
63309393 AAATATATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 14 0.19
41 58 0.81
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (41 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTTTAAAAAATTAA
Found at i:63318314 original size:21 final size:22
Alignment explanation
Indices: 63318288--63318334 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
63318278 CTCTGCTCAA
*
63318288 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
63318309 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
63318331 ACTC
1 ACTC
63318335 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:63320336 original size:360 final size:360
Alignment explanation
Indices: 63319670--63320393 Score: 1430
Period size: 360 Copynumber: 2.0 Consensus size: 360
63319660 TCTGACTCTG
63319670 CTTCACTATTGCATTCTGCAACATTTGCATCTTGCGGAGTCTTCCCTTTTTTCTTCAATTTTGGA
1 CTTCACTATTGCATTCTGCAACATTTGCATCTTGCGGAGTCTTCCCTTTTTTCTTCAATTTTGGA
63319735 CAATCTTTCTTCCAATGTCCTTTTTCTTTGCAAAAGGAACATTCATCTTTGGCAACAGCTCGACC
66 CAATCTTTCTTCCAATGTCCTTTTTCTTTGCAAAAGGAACATTCATCTTTGGCAACAGCTCGACC
63319800 TTTGGACTTTCTTCTCTTCCCATTAGACTGACTTTGCTGACGACCTCTTGTTACCAATGCTTCCA
131 TTTGGACTTTCTTCTCTTCCCATTAGACTGACTTTGCTGACGACCTCTTGTTACCAATGCTTCCA
63319865 CTGCTGCTTCACCTGAACCTTTCAACTTATCCTTTCGGCGTAGTTCATAGCTATACAATGCAGCA
196 CTGCTGCTTCACCTGAACCTTTCAACTTATCCTTTCGGCGTAGTTCATAGCTATACAATGCAGCA
63319930 GTTACTTCATTGAAAGTTACTTCCGATTTTCCATGAAGTAGAGTAGTTTCAAGGTACTCAAACTC
261 GTTACTTCATTGAAAGTTACTTCCGATTTTCCATGAAGTAGAGTAGTTTCAAGGTACTCAAACTC
63319995 CTCAGGAAGCGATCCCAACAACATTAACGCCAAGT
326 CTCAGGAAGCGATCCCAACAACATTAACGCCAAGT
*
63320030 CTTCCCTATTGCATTCTGCAACATTTGCATCTTGCGGAGTCTTCCCTTTTTTCTTCAATTTTGGA
1 CTTCACTATTGCATTCTGCAACATTTGCATCTTGCGGAGTCTTCCCTTTTTTCTTCAATTTTGGA
*
63320095 CAATCTTTCTTCCAATGTCCTTTTTCTTTGCAAAAGGAACATTCATCTTTGGCAATAGCTCGACC
66 CAATCTTTCTTCCAATGTCCTTTTTCTTTGCAAAAGGAACATTCATCTTTGGCAACAGCTCGACC
63320160 TTTGGACTTTCTTCTCTTCCCATTAGACTGACTTTGCTGACGACCTCTTGTTACCAATGCTTCCA
131 TTTGGACTTTCTTCTCTTCCCATTAGACTGACTTTGCTGACGACCTCTTGTTACCAATGCTTCCA
63320225 CTGCTGCTTCACCTGAACCTTTCAACTTATCCTTTCGGCGTAGTTCATAGCTATACAATGCAGCA
196 CTGCTGCTTCACCTGAACCTTTCAACTTATCCTTTCGGCGTAGTTCATAGCTATACAATGCAGCA
63320290 GTTACTTCATTGAAAGTTACTTCCGATTTTCCATGAAGTAGAGTAGTTTCAAGGTACTCAAACTC
261 GTTACTTCATTGAAAGTTACTTCCGATTTTCCATGAAGTAGAGTAGTTTCAAGGTACTCAAACTC
63320355 CTCAGGAAGCGATCCCAACAACATTAACGCCAAGT
326 CTCAGGAAGCGATCCCAACAACATTAACGCCAAGT
63320390 CTTC
1 CTTC
63320394 GTCTTCAAAA
Statistics
Matches: 362, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
360 362 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (360 bp):
CTTCACTATTGCATTCTGCAACATTTGCATCTTGCGGAGTCTTCCCTTTTTTCTTCAATTTTGGA
CAATCTTTCTTCCAATGTCCTTTTTCTTTGCAAAAGGAACATTCATCTTTGGCAACAGCTCGACC
TTTGGACTTTCTTCTCTTCCCATTAGACTGACTTTGCTGACGACCTCTTGTTACCAATGCTTCCA
CTGCTGCTTCACCTGAACCTTTCAACTTATCCTTTCGGCGTAGTTCATAGCTATACAATGCAGCA
GTTACTTCATTGAAAGTTACTTCCGATTTTCCATGAAGTAGAGTAGTTTCAAGGTACTCAAACTC
CTCAGGAAGCGATCCCAACAACATTAACGCCAAGT
Found at i:63326601 original size:34 final size:34
Alignment explanation
Indices: 63326553--63326620 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
63326543 CTCCCTCTCC
63326553 ATCCATCTTCATATTCAATATCCATTTCATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
* * * *
63326587 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
63326621 TTCTCGTTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATCCATTTCATGCAT
Found at i:63341322 original size:21 final size:21
Alignment explanation
Indices: 63341296--63341336 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63341286 AGACGAGCAA
* *
63341296 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
63341317 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
63341337 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:63345997 original size:72 final size:72
Alignment explanation
Indices: 63345880--63346022 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
63345870 TCCCGTATTT
* *
63345880 AAAAAAGGGATCATGCCCAATAAGTTAGGACGCGATCTTTTCTTAATTCCCGAAATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
*
63345945 CTTGAGG
66 CATGAGG
* * *
63345952 AAAAAAGGGATCATGCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
63346017 CATGAG
66 CATGAG
63346023 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (72 bp):
AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTCCCGAAATCGTTTAAAA
CATGAGG
Found at i:63347856 original size:131 final size:131
Alignment explanation
Indices: 63347683--63348003 Score: 446
Period size: 131 Copynumber: 2.4 Consensus size: 131
63347673 ATACTGCAAC
* * * *
63347683 CTCAGTGAGATAAGACTAGTGGCTTCAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
1 CTCAGGGAGATAGGA-TGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATC
** * * * *
63347748 GTCTTTGATCTGCTCTACTACTGCTTAGGGAGACAAGATCTGCAATCTTGAACCTACTCCACTGC
65 ACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
63347813 TG
130 TG
* *
63347815 CTCAGGGAGATAGGATGGTGGCTTAAATCTACTTCCTTACTACCTT-AGGAAGATAAGATTCATC
1 CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGA-GAAGATAAGATTCATC
* *
63347879 ACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTATTCCACTAT
65 ACCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTAC
63347944 TG
130 TG
* * * *
63347946 CTCAGGGAGACAAGGCTGGTGGCTTAAATCCGCTTCCCTACTACCTTGGGAAGATAAG
1 CTCAGGGAGA-TAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAG
63348004 GTATGATACG
Statistics
Matches: 166, Mismatches: 20, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
130 1 0.01
131 112 0.67
132 53 0.32
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (131 bp):
CTCAGGGAGATAGGATGGTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCATCA
CCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTACT
G
Found at i:63347940 original size:44 final size:44
Alignment explanation
Indices: 63347764--63347959 Score: 127
Period size: 44 Copynumber: 4.5 Consensus size: 44
63347754 GATCTGCTCT
*
63347764 ACTACTGCTTAGGGAGACAAGATCTGCAATCTTGAACCTACTCC
1 ACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCC
* * * * * * * *
63347808 ACTGCTGCTCAGGGAGATAGGATGGTG---GCTTAAATCTACTTCC
1 ACTACTGCTTAGGGAGACAAGAT-CTGCAATCTTCAACCTAC-TCC
* * * * * *
63347851 TTACTAC--CTTAGGAAGATAAGAT-T-CATCACCTTCGATCTGCTCC
1 --ACTACTGCTTAGGGAGACAAGATCTGCA--ATCTTCAACCTACTCC
*
63347895 ACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTATTCC
1 ACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCC
* *
63347939 ACTATTGCTCAGGGAGACAAG
1 ACTACTGCTTAGGGAGACAAG
63347960 GCTGGTGGCT
Statistics
Matches: 114, Mismatches: 25, Indels: 26
0.69 0.15 0.16
Matches are distributed among these distances:
41 1 0.01
42 14 0.12
43 16 0.14
44 66 0.58
45 15 0.13
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (44 bp):
ACTACTGCTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCC
Found at i:63348114 original size:50 final size:50
Alignment explanation
Indices: 63348055--63348216 Score: 173
Period size: 50 Copynumber: 3.2 Consensus size: 50
63348045 ATCGGCAATT
* * *
63348055 TAGCTTTAATCTATTTAACTGCAATGCCGAGAAAGCAAGATTCACCGTTG
1 TAGCTTCAATCTATTTAACTGCAATGCCGAGGAAGCAAGATTCACTGTTG
* ** * * * * *
63348105 TAGCTTTAATCTATTCCACTACACTGCC-AGGGAAGTAAGATTCACTATCG
1 TAGCTTCAATCTATTTAACTGCAATGCCGA-GGAAGCAAGATTCACTGTTG
* * *
63348155 TAGCTTCAATCTATTTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTG
1 TAGCTTCAATCTATTTAACTGCAATGCCGAGGAAGCAAGATTCACTGTTG
*
63348205 TATCTTCAATCT
1 TAGCTTCAATCT
63348217 GTTCCACTAC
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 87 0.98
51 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (50 bp):
TAGCTTCAATCTATTTAACTGCAATGCCGAGGAAGCAAGATTCACTGTTG
Found at i:63348172 original size:100 final size:100
Alignment explanation
Indices: 63348055--63348234 Score: 270
Period size: 100 Copynumber: 1.8 Consensus size: 100
63348045 ATCGGCAATT
* *
63348055 TAGCTTTAATCTATTTAACTGCAATGCCGAGAAAGCAAGATTCACCGTTGTAGCTTTAATCTATT
1 TAGCTTCAATCTATTTAACTGCAATGCCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
*
63348120 CCACTACACTGCCAGGGAAGTAAGATTCACTATCG
66 CCACTACACCGCCAGGGAAGTAAGATTCACTATCG
* * * * * * *
63348155 TAGCTTCAATCTATTTAATTGCAATGTCGAGGAAGCAAGATTCGCTGTTGTATCTTCAATCTGTT
1 TAGCTTCAATCTATTTAACTGCAATGCCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
63348220 CCACTACACCGCCAG
66 CCACTACACCGCCAG
63348235 ATAAAAGATT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 70 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (100 bp):
TAGCTTCAATCTATTTAACTGCAATGCCGAGAAAGCAAGATTCACCGTTGTAGCTTCAATCTATT
CCACTACACCGCCAGGGAAGTAAGATTCACTATCG
Found at i:63350169 original size:102 final size:102
Alignment explanation
Indices: 63349993--63350301 Score: 591
Period size: 102 Copynumber: 3.0 Consensus size: 102
63349983 AGATGAATTG
*
63349993 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATCTATGCCCCACATAGAGAAAGTCT
1 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATTTATGCCCCACATAGAGAAAGTCT
63350058 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
66 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
* *
63350095 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGAAATTTATGCCCCACATAGAGAAATTCT
1 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATTTATGCCCCACATAGAGAAAGTCT
63350160 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
66 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
63350197 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATTTATGCCCCACATAGAGAAAGTCT
1 ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATTTATGCCCCACATAGAGAAAGTCT
63350262 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
66 ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
63350299 ATG
1 ATG
63350302 GATCTTGTCT
Statistics
Matches: 202, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 202 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (102 bp):
ATGACCGTCAGAAGCTTTTGGCAAGATTGGCCTACTGACATTTATGCCCCACATAGAGAAAGTCT
ATGGAAAAGTCATAACATGAAGGGATGAATGAGGCAC
Found at i:63353217 original size:73 final size:73
Alignment explanation
Indices: 63353064--63353204 Score: 210
Period size: 73 Copynumber: 1.9 Consensus size: 73
63353054 TCTTAGATTT
* ** *
63353064 AAAAAAGGGATCATGCCCAGTAAGTTAGGATGCGATCTTTTCTTAATTCCTGAAATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAAATCGTTTAAAA
63353129 CTTGAGGA
66 CTTGAGGA
** * *
63353137 AAAAAAGAGATCATGCCTTGTAAGTTAGGACACGATCTCTTCTTAATTCTTGAGATCGTTTAAAA
1 AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAAATCGTTTAAAA
63353202 CTT
66 CTT
63353205 TGGTTTGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (73 bp):
AAAAAAGAGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCTGAAATCGTTTAAAA
CTTGAGGA
Found at i:63354848 original size:16 final size:18
Alignment explanation
Indices: 63354829--63354865 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
63354819 TTCTTTTCTA
63354829 TTTTTGCTA-TT-TTTTC
1 TTTTTGCTACTTGTTTTC
*
63354845 TTTTTGTTACTTGTTTTC
1 TTTTTGCTACTTGTTTTC
63354863 TTT
1 TTT
63354866 CCTTTTGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.05, C:0.11, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTTGCTACTTGTTTTC
Found at i:63357030 original size:18 final size:18
Alignment explanation
Indices: 63356988--63357031 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
63356978 CGAATCCTTC
* *
63356988 TTTTCTATTTTTGCTATT
1 TTTTCTTTTTTTGCTATG
63357006 TTTTCTTTTTGTTGC-ATG
1 TTTTCTTTTT-TTGCTATG
63357024 TTTTCTTT
1 TTTTCTTT
63357032 CCTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.07, C:0.11, G:0.09, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTTTGCTATG
Found at i:63358736 original size:46 final size:46
Alignment explanation
Indices: 63358636--63358973 Score: 538
Period size: 46 Copynumber: 7.6 Consensus size: 46
63358626 TACTTATGAT
*
63358636 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-A-GACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATG-CTAC
* *
63358679 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
63358725 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
63358771 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
63358817 CAC-T-T-A-----TCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
63358855 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
63358901 CACTTATCTCTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
*
63358947 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
63358974 AGTACTCAAA
Statistics
Matches: 276, Mismatches: 7, Indels: 21
0.91 0.02 0.07
Matches are distributed among these distances:
38 35 0.13
39 1 0.00
40 1 0.00
41 1 0.00
43 11 0.04
44 6 0.02
45 20 0.07
46 200 0.72
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:63358837 original size:84 final size:85
Alignment explanation
Indices: 63358739--63358973 Score: 391
Period size: 84 Copynumber: 2.7 Consensus size: 85
63358729 TATCACTTTG
63358739 TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTG
1 TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTG
63358804 TAGCTAATGCTACCACTTA-
66 TAGCTAATGCTACCACTTAT
63358823 TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTG
1 TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTG
63358888 TAGCTAATGCTACCACTTATCTCTTT
66 TAGCTAATGCTACCACTTA------T
*
63358914 GTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
1 -TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGA
63358974 AGTACTCAAA
Statistics
Matches: 142, Mismatches: 1, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
84 84 0.59
92 58 0.41
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (85 bp):
TCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTG
TAGCTAATGCTACCACTTAT
Found at i:63358842 original size:130 final size:130
Alignment explanation
Indices: 63358636--63358963 Score: 507
Period size: 130 Copynumber: 2.5 Consensus size: 130
63358626 TACTTATGAT
* * * *
63358636 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGACTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA-A-T---GC-TACCAC-TTATCACTT
63358699 GATCAGATAAGTGTAACTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
59 GATCAGATAAGTGTAACTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
63358764 ATGCTAC
124 ATGCTAC
63358771 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTGATCAGA
* *
63358836 TAAGTGTAGCTAATGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
66 TAAGTGTAACTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* *
63358901 CACTTATCTCTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTGATCA
63358964 CTTGATCAGA
Statistics
Matches: 183, Mismatches: 8, Indels: 9
0.92 0.04 0.05
Matches are distributed among these distances:
130 139 0.76
131 5 0.03
132 1 0.01
135 11 0.06
136 6 0.03
137 21 0.11
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (130 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTGATCAGA
TAAGTGTAACTAAGGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:63361620 original size:3 final size:3
Alignment explanation
Indices: 63361612--63361654 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
63361602 TAAATTGTTA
* * *
63361612 ATT ATT ATT ATT ATT ATT AATC ATC ATT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
63361655 CTTAAATTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:63364435 original size:9 final size:9
Alignment explanation
Indices: 63364421--63364498 Score: 50
Period size: 9 Copynumber: 8.3 Consensus size: 9
63364411 TTTTGGTTAA
63364421 AAATTACCC
1 AAATTACCC
63364430 AAATTACCC
1 AAATTACCC
* *
63364439 -GATTAACC
1 AAATTACCC
* *
63364447 GAATTAACC
1 AAATTACCC
* *
63364456 GAATTACCTGA
1 AAATTACC--C
63364467 AAATTACCC
1 AAATTACCC
*
63364476 GAATTACCC
1 AAATTACCC
63364485 AAAAATTACCC
1 --AAATTACCC
63364496 AAA
1 AAA
63364499 AAGTTTGGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.11
9 34 0.62
11 15 0.27
ACGTcount: A:0.45, C:0.27, G:0.06, T:0.22
Consensus pattern (9 bp):
AAATTACCC
Found at i:63364477 original size:20 final size:20
Alignment explanation
Indices: 63364448--63364495 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
63364438 CGATTAACCG
* **
63364448 AATTAACCGAATTACCTGAA
1 AATTACCCGAATTACCCAAA
63364468 AATTACCCGAATTACCCAAA
1 AATTACCCGAATTACCCAAA
63364488 AATTACCC
1 AATTACCC
63364496 AAAAAGTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.27, G:0.06, T:0.23
Consensus pattern (20 bp):
AATTACCCGAATTACCCAAA
Found at i:63365726 original size:31 final size:29
Alignment explanation
Indices: 63365657--63365730 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
63365647 ACAAAATAAT
**
63365657 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
63365686 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
63365717 AACAAAAGTGACTA
1 AACATAAGTGACTA
63365731 CTTTTGTAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:63368614 original size:13 final size:13
Alignment explanation
Indices: 63368596--63368625 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
63368586 CTCCAAAATA
63368596 CATTAAAACAATT
1 CATTAAAACAATT
63368609 CATTAAAACAATT
1 CATTAAAACAATT
63368622 CATT
1 CATT
63368626 GTAGTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
CATTAAAACAATT
Found at i:63368950 original size:21 final size:21
Alignment explanation
Indices: 63368921--63368974 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
63368911 ATTATATTGA
63368921 AATGATATTTATATTTATGAT
1 AATGATATTTATATTTATGAT
* * *
63368942 AATGTTATTTATCTTTGTGAT
1 AATGATATTTATATTTATGAT
* *
63368963 AATTAAATTTAT
1 AATGATATTTAT
63368975 CTAGCCATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (21 bp):
AATGATATTTATATTTATGAT
Found at i:63383322 original size:34 final size:34
Alignment explanation
Indices: 63383262--63383329 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
63383252 CTCCCTCTCC
*
63383262 ATCCATCTTTATATTCAATATCCATTTCATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
* * * *
63383296 ATCCTTCTTCATATTCAGTATTCATTTGATGCAT
1 ATCCATCTTCATATTCAATATCCATTTCATGCAT
63383330 TTCTCGTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (34 bp):
ATCCATCTTCATATTCAATATCCATTTCATGCAT
Found at i:63383899 original size:40 final size:40
Alignment explanation
Indices: 63383840--63383915 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
63383830 GTTTGGACAA
* *
63383840 AAAATGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGG
1 AAAATGCCACTAAAAATCGAGCATTAGCGACACTTTATGG
* *
63383880 AAAATGCCACTAAAGATCGAGCATTTGCGACACTTT
1 AAAATGCCACTAAAAATCGAGCATTAGCGACACTTT
63383916 TCAGAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (40 bp):
AAAATGCCACTAAAAATCGAGCATTAGCGACACTTTATGG
Found at i:63383927 original size:40 final size:40
Alignment explanation
Indices: 63383840--63383947 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 40
63383830 GTTTGGACAA
* * *
63383840 AAAATGCCGCTAAAAATCGAGCATTAGCGGCACTTTATGG
1 AAAATGCCACTAAAAATCGAGCATTAGCGACACTTTATAG
* *
63383880 AAAATGCCACTAAAGATCGAGCATTTGCGACACTTT-TCAG
1 AAAATGCCACTAAAAATCGAGCATTAGCGACACTTTAT-AG
* * * *
63383920 AACATGCCGCTGAAAAT-GAGCATCAGCG
1 AAAATGCCACTAAAAATCGAGCATTAGCG
63383948 GCGTTTTTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 10 0.18
40 46 0.82
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAATGCCACTAAAAATCGAGCATTAGCGACACTTTATAG
Found at i:63384095 original size:38 final size:39
Alignment explanation
Indices: 63384010--63384151 Score: 142
Period size: 41 Copynumber: 3.6 Consensus size: 39
63384000 TGACCTTTCA
* *
63384010 GGGCTTTAGCGGCATTTTTGAATAAGCGCCACTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCG-C-CTAATGCTCG
*
63384051 GGGCTTTAGTGGCGTTTTTGAAGAAGCG-CTAATGCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCTAATGCTCG
* * * * * *
63384089 GTGCTTTAGCGGCGTTTTTGAAAAAACTCTGCTAGTTCTCG
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGC--CTAATGCTCG
* *
63384130 GGCCTTTAGCGGCGCTTTTGAA
1 GGGCTTTAGCGGCGTTTTTGAA
63384152 AATTCAATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 33 0.39
41 52 0.61
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (39 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCTAATGCTCG
Found at i:63384435 original size:22 final size:22
Alignment explanation
Indices: 63384408--63384454 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
63384398 TTATAGTTTA
*
63384408 GGGTTTAAGGTTTAGGGGTTAG
1 GGGTTTAAGATTTAGGGGTTAG
* * *
63384430 GGGTTTATGATTTATGGTTTAG
1 GGGTTTAAGATTTAGGGGTTAG
63384452 GGG
1 GGG
63384455 ATAGGGATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (22 bp):
GGGTTTAAGATTTAGGGGTTAG
Found at i:63384472 original size:29 final size:29
Alignment explanation
Indices: 63384407--63384480 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
63384397 ATTATAGTTT
* * *
63384407 AGGGTTTAAGGTTTAGGGGTTAGGGGTTT
1 AGGGTTTAAGGTTTAGGGGATAGGGATTA
* * *
63384436 ATGATTTATGGTTTAGGGGATAGGGATTA
1 AGGGTTTAAGGTTTAGGGGATAGGGATTA
*
63384465 AGGGTTTAGGGTTTAG
1 AGGGTTTAAGGTTTAG
63384481 ATTAATTAGT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (29 bp):
AGGGTTTAAGGTTTAGGGGATAGGGATTA
Found at i:63384475 original size:7 final size:7
Alignment explanation
Indices: 63384403--63384480 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
63384393 TATCATTATA
63384403 GTTTAGG
1 GTTTAGG
*
63384410 GTTTAAG
1 GTTTAGG
63384417 GTTTAGG
1 GTTTAGG
*
63384424 GGTTAGGG
1 GTTTA-GG
*
63384432 GTTTATG
1 GTTTAGG
* *
63384439 ATTTATG
1 GTTTAGG
63384446 GTTTAGG
1 GTTTAGG
**
63384453 GGATAGG
1 GTTTAGG
*
63384460 GATTAAGG
1 G-TTTAGG
63384468 GTTTAGG
1 GTTTAGG
63384475 GTTTAG
1 GTTTAG
63384481 ATTAATTAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
7 45 0.82
8 10 0.18
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:63390014 original size:29 final size:29
Alignment explanation
Indices: 63389959--63390014 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
63389949 TCCGCATCCC
*
63389959 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTACATGCCT
* * *
63389988 TCTTCATATTTAGTATTCATTAGATGC
1 TCTTCATATTCAGTATCCATTACATGC
63390015 ATCTCTCGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.46
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTACATGCCT
Found at i:63394815 original size:40 final size:41
Alignment explanation
Indices: 63394758--63394847 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
63394748 TCCTCGTAGG
* *
63394758 CGCGATTTGTGTCCACGTAAGC-AAAGCGCGCTGACGTGGA
1 CGCGATTTGTGTACACGTAACCGAAAGCGCGCTGACGTGGA
** * *
63394798 CGCGATTTGCTG-ACACGTCCCCTGACATCGCGCTGACGTGGA
1 CGCGATTTG-TGTACACGTAACC-GAAAGCGCGCTGACGTGGA
63394840 CGCGATTT
1 CGCGATTT
63394848 TGGGGAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 15 0.37
41 2 0.05
42 24 0.59
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (41 bp):
CGCGATTTGTGTACACGTAACCGAAAGCGCGCTGACGTGGA
Found at i:63399012 original size:29 final size:29
Alignment explanation
Indices: 63398980--63399035 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
63398970 TCCGCATCCC
63398980 TCTTCATATTCAGTATCCATTTCATGCCT
1 TCTTCATATTCAGTATCCATTTCATGCCT
* * *
63399009 TCTTCATATTTAGTATTCATTTGATGC
1 TCTTCATATTCAGTATCCATTTCATGC
63399036 ATCTCTCGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (29 bp):
TCTTCATATTCAGTATCCATTTCATGCCT
Found at i:63400719 original size:19 final size:18
Alignment explanation
Indices: 63400684--63400718 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63400674 TCTGTTCTAT
63400684 TTTACTTGCGTTTTTTTA
1 TTTACTTGCGTTTTTTTA
63400702 TTTACTTGCGTTTTTTT
1 TTTACTTGCGTTTTTTT
63400719 TTTTGAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.69
Consensus pattern (18 bp):
TTTACTTGCGTTTTTTTA
Found at i:63401596 original size:11 final size:11
Alignment explanation
Indices: 63401556--63401729 Score: 90
Period size: 11 Copynumber: 16.9 Consensus size: 11
63401546 GGCCCATTTT
63401556 TATTTT-AAAA
1 TATTTTAAAAA
63401566 -ATTTTAAAAA
1 TATTTTAAAAA
**
63401576 -ATTAAAAAAA
1 TATTTTAAAAA
63401586 GTATTTTAAAAA
1 -TATTTTAAAAA
**
63401598 TATTTTTTAAA
1 TATTTTAAAAA
63401609 TATTTT--AAA
1 TATTTTAAAAA
**
63401618 -ATTAAAAAAA
1 TATTTTAAAAA
63401628 TATTTTAAAAA
1 TATTTTAAAAA
63401639 TATTTT--AAA
1 TATTTTAAAAA
*
63401648 -A-TTAAAAAA
1 TATTTTAAAAA
* ***
63401657 AATAAAAAAAA
1 TATTTTAAAAA
*
63401668 GTATTTTAAAAG
1 -TATTTTAAAAA
63401680 TATTTT-AAAA
1 TATTTTAAAAA
63401690 T-TTTTAAAAA
1 TATTTTAAAAA
63401700 -A--TTAAAAA
1 TATTTTAAAAA
* *
63401708 GTATGTAAAAAA
1 -TATTTTAAAAA
63401720 TATTTTAAAA
1 TATTTTAAAA
63401730 TTAAAAAAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 33
0.69 0.12 0.18
Matches are distributed among these distances:
7 2 0.02
8 11 0.09
9 18 0.14
10 25 0.20
11 49 0.39
12 20 0.16
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:63401629 original size:30 final size:30
Alignment explanation
Indices: 63401593--63401657 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
63401583 AAAGTATTTT
**
63401593 AAAAATATTTTTTAAATATTTTAAAATTAA
1 AAAAATATTTTAAAAATATTTTAAAATTAA
63401623 AAAAATATTTTAAAAATATTTTAAAATTAA
1 AAAAATATTTTAAAAATATTTTAAAATTAA
63401653 AAAAA
1 AAAAA
63401658 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AAAAATATTTTAAAAATATTTTAAAATTAA
Found at i:63401637 original size:41 final size:42
Alignment explanation
Indices: 63401558--63401730 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 42
63401548 CCCATTTTTA
*
63401558 TTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATT
1 TTTTAAATATTTT-AAAAATTAAAAAAAGTATTTTAAAAATA-T
63401602 TTTTAAATATTTT-AAAATTAAAAAAA-TATTTTAAAAATA-
1 TTTTAAATATTTTAAAAATTAAAAAAAGTATTTTAAAAATAT
** * *
63401641 TTTTAAA-ATTAAAAAAAATAAAAAAAAGTATTTTAAAAGTAT
1 TTTTAAATATT-TTAAAAATTAAAAAAAGTATTTTAAAAATAT
* * *
63401683 TTTAAAAT-TTTTAAAAAATT--AAAAAGTATGTAAAAAATAT
1 TTTTAAATATTTT-AAAAATTAAAAAAAGTATTTTAAAAATAT
*
63401723 TTTAAAAT
1 TTTTAAAT
63401731 TAAAAAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
38 3 0.03
39 7 0.06
40 37 0.33
41 25 0.23
42 27 0.24
44 12 0.11
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (42 bp):
TTTTAAATATTTTAAAAATTAAAAAAAGTATTTTAAAAATAT
Found at i:63401673 original size:30 final size:30
Alignment explanation
Indices: 63401606--63401678 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
63401596 AATATTTTTT
***
63401606 AAATATTTTAAAATTAAAAAAATATTTTAA
1 AAATATTTTAAAATTAAAAAAATATAAAAA
63401636 AAATATTTTAAAATTAAAAAAA-ATAAAAA
1 AAATATTTTAAAATTAAAAAAATATAAAAA
63401665 AAAGTATTTTAAAA
1 AAA-TATTTTAAAA
63401679 GTATTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
29 7 0.18
30 32 0.82
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (30 bp):
AAATATTTTAAAATTAAAAAAATATAAAAA
Found at i:63401724 original size:81 final size:81
Alignment explanation
Indices: 63401556--63401742 Score: 245
Period size: 82 Copynumber: 2.3 Consensus size: 81
63401546 GGCCCATTTT
* * *
63401556 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTTAAATATTTTAAAATT
1 TATTTT-AAAA-TTAAAAAAATAAAAAAAAGTATTTTAAAAATATTTTTAAAATATTTTAAAATT
* *
63401621 AAAAAAATATTTTAAAAA
64 AAAAAAATATGTAAAAAA
*
63401639 TATTTTAAAATTAAAAAAAATAAAAAAAAGTATTTTAAAAGTA-TTTTAAAAT-TTTTAAAAAAT
1 TATTTTAAAATT-AAAAAAATAAAAAAAAGTATTTTAAAAATATTTTTAAAATATTTT--AAAAT
*
63401702 T-AAAAAGTATGTAAAAAA
63 TAAAAAAATATGTAAAAAA
63401720 TATTTTAAAATTAAAAAAATAAA
1 TATTTTAAAATTAAAAAAATAAA
63401743 TATATTTATT
Statistics
Matches: 94, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
80 15 0.16
81 36 0.38
82 37 0.39
83 6 0.06
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (81 bp):
TATTTTAAAATTAAAAAAATAAAAAAAAGTATTTTAAAAATATTTTTAAAATATTTTAAAATTAA
AAAAATATGTAAAAAA
Done.