Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold20
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: 3599867
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 51021 characters in sequence are not A, C, G, or T
File 7 of 25
Found at i:927986 original size:16 final size:16
Alignment explanation
Indices: 927953--927986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
927943 GCCTTTGCAC
**
927953 TTTTTTTTGTTTTGTT
1 TTTTTTTTGTTTACTT
927969 TTTTTTTTGTTTACTT
1 TTTTTTTTGTTTACTT
927985 TT
1 TT
927987 GACTGTTCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.03, C:0.03, G:0.09, T:0.85
Consensus pattern (16 bp):
TTTTTTTTGTTTACTT
Found at i:934928 original size:52 final size:52
Alignment explanation
Indices: 934850--934979 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
934840 CCCGAAATAT
* *
934850 GAAAATTTGCATGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGG
934902 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
* *
934954 GCAAA-TTGCCTACATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
934980 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 20 0.27
52 48 0.66
53 5 0.07
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
Found at i:934992 original size:51 final size:52
Alignment explanation
Indices: 934850--934999 Score: 162
Period size: 52 Copynumber: 2.9 Consensus size: 52
934840 CCCGAAATAT
* * **
934850 GAAAATTTGCATGCATGTATCGATAC-ATTTAATAGTGTATCGATACATCTGG
1 GAAAATTTGCCTACATGTATCGATACAAGATAA-AGTGTATCGATACATCTGG
* *** *
934902 GAAAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGG
1 GAAAATTTGCCTACATGTATCGATACAAGATAAAGTGTATCGATACATCTGG
* *
934954 GCAAA-TTGCCTACATGTATCGATACAAAGAT-CAGTGTATCGATACA
1 GAAAATTTGCCTACATGTATCGATAC-AAGATAAAGTGTATCGATACA
935000 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
51 32 0.37
52 49 0.57
53 5 0.06
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (52 bp):
GAAAATTTGCCTACATGTATCGATACAAGATAAAGTGTATCGATACATCTGG
Found at i:935006 original size:13 final size:13
Alignment explanation
Indices: 934988--935012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934978 CAAAGATCAG
934988 TGTATCGATACAA
1 TGTATCGATACAA
935001 TGTATCGATACA
1 TGTATCGATACA
935013 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:935093 original size:13 final size:13
Alignment explanation
Indices: 935075--935099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
935065 CAAAAAAATA
935075 TGTATCGATACAT
1 TGTATCGATACAT
935088 TGTATCGATACA
1 TGTATCGATACA
935100 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:935332 original size:10 final size:10
Alignment explanation
Indices: 935317--935360 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
935307 TTGTCCGGAC
935317 AAATTGTCAA
1 AAATTGTCAA
935327 AAATTGTCAA
1 AAATTGTCAA
935337 AAATTGTC--
1 AAATTGTCAA
935345 AAATTGTCAA
1 AAATTGTCAA
935355 AAATTG
1 AAATTG
935361 GCCCGGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.25
10 24 0.75
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (10 bp):
AAATTGTCAA
Found at i:935348 original size:18 final size:19
Alignment explanation
Indices: 935317--935360 Score: 72
Period size: 18 Copynumber: 2.3 Consensus size: 19
935307 TTGTCCGGAC
935317 AAATTGTCAAAAATTGTCAA
1 AAATTGTC-AAAATTGTCAA
935337 AAATTGTC-AAATTGTCAA
1 AAATTGTCAAAATTGTCAA
935355 AAATTG
1 AAATTG
935361 GCCCGGACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.67
20 8 0.33
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.32
Consensus pattern (19 bp):
AAATTGTCAAAATTGTCAA
Found at i:935886 original size:18 final size:17
Alignment explanation
Indices: 935863--935896 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
935853 TTTATTTTTA
*
935863 TAAATATCTTCTAAATAC
1 TAAATAT-TTCAAAATAC
935881 TAAATATTTCAAAATA
1 TAAATATTTCAAAATA
935897 AAAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATATTTCAAAATAC
Found at i:936300 original size:22 final size:22
Alignment explanation
Indices: 936254--936306 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
936244 TAAAAATATA
* *
936254 AATTATTTATTATTTTGTTACT
1 AATTATTTATTATTATATTACT
*
936276 AATTATTTATTATTATATTATT
1 AATTATTTATTATTATATTACT
*
936298 AATTGTTTA
1 AATTATTTA
936307 CTATCATACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
AATTATTTATTATTATATTACT
Found at i:936319 original size:22 final size:22
Alignment explanation
Indices: 936275--936319 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
936265 ATTTTGTTAC
* * *
936275 TAATTATTTATTATTATATTAT
1 TAATTATTTACTATCATACTAT
*
936297 TAATTGTTTACTATCATACTAT
1 TAATTATTTACTATCATACTAT
936319 T
1 T
936320 TTATCAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATTATTTACTATCATACTAT
Found at i:936455 original size:14 final size:14
Alignment explanation
Indices: 936428--936462 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
936418 TTTTTTTATG
936428 TTATTATCACTATA
1 TTATTATCACTATA
936442 TTATTGATCA-TATA
1 TTATT-ATCACTATA
936456 TTATTAT
1 TTATTAT
936463 ATAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 14 0.70
15 4 0.20
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (14 bp):
TTATTATCACTATA
Found at i:938805 original size:23 final size:23
Alignment explanation
Indices: 938779--938827 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
938769 TTAATTTAAA
*
938779 TAAATA-GATAAAAATTATTTATT
1 TAAATAGGAT-AAAATTATTCATT
*
938802 TAAATAGGATAAATTTATTCATT
1 TAAATAGGATAAAATTATTCATT
938825 TAA
1 TAA
938828 TTCATTATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (23 bp):
TAAATAGGATAAAATTATTCATT
Found at i:939961 original size:106 final size:103
Alignment explanation
Indices: 939681--939961 Score: 289
Period size: 106 Copynumber: 2.7 Consensus size: 103
939671 TAATTTTATG
* * *
939681 TAGACTTTGTTTTTTAATATTTAATTAGTTTATATTTAAATAAATTAATAAAAATTACATATTTA
1 TAGACTTT-ATTTTTAATATTT-ATTAATTTAAATTTAAATAAATTAAT-AAAATTACATATTTA
* ** * **
939746 A-ATAAAAATTTTTATTAATTTAAATTAATTTTATATTATG
63 ATAGAAAAAAATTTATTAATTTAAATTAATTTAATATTACA
* * * *
939786 T-GAACTCTATTTTTAAATATCTATTAATTTAAATTTAAATAAATAAATAAAATTACATAGTTAA
1 TAG-ACTTTATTTTT-AATATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAA
* *
939850 GTAGAAAAAAATTTGTTAATTTTAATATAGA-TTAATATTACA
64 -TAGAAAAAAATTTATTAATTTAAAT-TA-ATTTAATATTACA
* * *
939892 TAGACTTTATTTTTAATTATTTATTAATTTAAATTTAAATAAATTAGTAAAGTTACAAATTTAAC
1 TAGACTTTATTTTTAA-TATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAA-
939957 TAGAA
64 TAGAA
939962 TGCCTTTCTT
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
103 15 0.10
104 29 0.20
105 32 0.22
106 67 0.46
107 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (103 bp):
TAGACTTTATTTTTAATATTTATTAATTTAAATTTAAATAAATTAATAAAATTACATATTTAATA
GAAAAAAATTTATTAATTTAAATTAATTTAATATTACA
Found at i:943751 original size:21 final size:20
Alignment explanation
Indices: 943719--943759 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
943709 TACGTGAATA
943719 TTTTTTAATAATAATTATAT
1 TTTTTTAATAATAATTATAT
943739 TTTTTTAATTAATAATTATAT
1 TTTTTTAA-TAATAATTATAT
943760 ATATTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAATAATAATTATAT
Found at i:943844 original size:14 final size:14
Alignment explanation
Indices: 943805--943856 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
943795 ATAAATTATG
*
943805 TAAATTTTAATTAAA
1 TAAA-TTTAATTTAA
*
943820 TAAATTT-ATTTGA
1 TAAATTTAATTTAA
943833 TAAATTTAATTTAA
1 TAAATTTAATTTAA
*
943847 CGAAATTTAA
1 -TAAATTTAA
943857 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 11 0.35
14 8 0.26
15 12 0.39
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (14 bp):
TAAATTTAATTTAA
Found at i:945584 original size:10 final size:10
Alignment explanation
Indices: 945564--945624 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
945554 GTTCTCAATG
*
945564 TTAATTTTTT
1 TTAAATTTTT
*
945574 TTCAATTTTT
1 TTAAATTTTT
*
945584 TT--CTTTTT
1 TTAAATTTTT
*
945592 TTAAAATTTT
1 TTAAATTTTT
945602 TTAAATTTTT
1 TTAAATTTTT
* *
945612 TTTAATTATT
1 TTAAATTTTT
945622 TTA
1 TTA
945625 TAGTTTTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 7 0.17
10 33 0.82
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (10 bp):
TTAAATTTTT
Found at i:945639 original size:36 final size:39
Alignment explanation
Indices: 945599--945671 Score: 107
Period size: 36 Copynumber: 1.9 Consensus size: 39
945589 TTTTTAAAAT
*
945599 TTTTTAAATTTTTTTTAA-T-T-ATTTTATAGTTTTTAG
1 TTTTTAAAATTTTTTTAAGTATGATTTTATAGTTTTTAG
*
945635 TTTTTAAAATTTTTTTAAGTATGTTTTTATAGTTTTT
1 TTTTTAAAATTTTTTTAAGTATGATTTTATAGTTTTT
945672 TAAGTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 17 0.53
37 1 0.03
38 1 0.03
39 13 0.41
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (39 bp):
TTTTTAAAATTTTTTTAAGTATGATTTTATAGTTTTTAG
Found at i:945670 original size:23 final size:22
Alignment explanation
Indices: 945634--945676 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
945624 ATAGTTTTTA
945634 GTTTTTAAAATTTTTTTAAGTAT
1 GTTTTTAAAA-TTTTTTAAGTAT
* *
945657 GTTTTTATAGTTTTTTAAGT
1 GTTTTTAAAATTTTTTAAGT
945677 TATATTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (22 bp):
GTTTTTAAAATTTTTTAAGTAT
Found at i:945692 original size:22 final size:21
Alignment explanation
Indices: 945642--945694 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
945632 TAGTTTTTAA
* *
945642 AATTTTTTTAAGTATGTTTTT
1 AATTTTTTTAAGTATATTATT
*
945663 ATAGTTTTTTAAGTTATATTATT
1 A-ATTTTTTTAAG-TATATTATT
945686 AATTTTTTT
1 AATTTTTTT
945695 GGACTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (21 bp):
AATTTTTTTAAGTATATTATT
Found at i:951075 original size:109 final size:109
Alignment explanation
Indices: 950884--951104 Score: 442
Period size: 109 Copynumber: 2.0 Consensus size: 109
950874 ATCTCGTGGA
950884 ACATGTGAAATTTATGATTCTATTTTACACCACACTAGAAGCTCAGAGGAATATAAAAGGTTTTC
1 ACATGTGAAATTTATGATTCTATTTTACACCACACTAGAAGCTCAGAGGAATATAAAAGGTTTTC
950949 AAGGCCAAAATGTCTTTTGTAACCTCTGGGAGTACTGAGAGGAT
66 AAGGCCAAAATGTCTTTTGTAACCTCTGGGAGTACTGAGAGGAT
950993 ACATGTGAAATTTATGATTCTATTTTACACCACACTAGAAGCTCAGAGGAATATAAAAGGTTTTC
1 ACATGTGAAATTTATGATTCTATTTTACACCACACTAGAAGCTCAGAGGAATATAAAAGGTTTTC
951058 AAGGCCAAAATGTCTTTTGTAACCTCTGGGAGTACTGAGAGGAT
66 AAGGCCAAAATGTCTTTTGTAACCTCTGGGAGTACTGAGAGGAT
951102 ACA
1 ACA
951105 AAAGGTTTTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 112 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (109 bp):
ACATGTGAAATTTATGATTCTATTTTACACCACACTAGAAGCTCAGAGGAATATAAAAGGTTTTC
AAGGCCAAAATGTCTTTTGTAACCTCTGGGAGTACTGAGAGGAT
Found at i:951924 original size:13 final size:12
Alignment explanation
Indices: 951904--951944 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
951894 TGAAAAGAAT
951904 TTTTTTATTTTA
1 TTTTTTATTTTA
951916 TTTTGTTA--TTA
1 TTTT-TTATTTTA
*
951927 TTTTTTATTATA
1 TTTTTTATTTTA
951939 TTTTTT
1 TTTTTT
951945 TAAATTTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
10 3 0.12
11 7 0.28
12 12 0.48
13 3 0.12
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:952863 original size:24 final size:21
Alignment explanation
Indices: 952828--952897 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
952818 AGAGGCTCGA
* *
952828 GCTGTTGTCGTGTTCGTGGTT
1 GCTGTTGCCGTGTTCGTGGAT
*
952849 GCTGCTATTGCCGTGTTCATGGAT
1 GCTG---TTGCCGTGTTCGTGGAT
* *
952873 GCTGTTGCTGTGTTCGTGGAA
1 GCTGTTGCCGTGTTCGTGGAT
952894 GCTG
1 GCTG
952898 GAAGAGGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
21 22 0.55
24 18 0.45
ACGTcount: A:0.07, C:0.17, G:0.36, T:0.40
Consensus pattern (21 bp):
GCTGTTGCCGTGTTCGTGGAT
Found at i:952923 original size:31 final size:30
Alignment explanation
Indices: 952887--952978 Score: 121
Period size: 31 Copynumber: 3.0 Consensus size: 30
952877 TTGCTGTGTT
*
952887 CGTGGAAGCTGGAAGAGGCTTGAGCTGCTG
1 CGTGGAAGCTGGAAGAGGCTCGAGCTGCTG
952917 CTGTGGAAGCTGGAAGAGGCTCGAGCTGCTGG
1 C-GTGGAAGCTGGAAGAGGCTCGAGCTGCT-G
* * * *
952949 CATAGAAGCTGAAAGAAGCTCGAGCTGCTG
1 CGTGGAAGCTGGAAGAGGCTCGAGCTGCTG
952979 GTTTTGAGTG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 2 0.04
31 51 0.93
32 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.18
Consensus pattern (30 bp):
CGTGGAAGCTGGAAGAGGCTCGAGCTGCTG
Found at i:953192 original size:72 final size:72
Alignment explanation
Indices: 953070--953278 Score: 240
Period size: 72 Copynumber: 2.9 Consensus size: 72
953060 CTTCTTACCA
* * * *
953070 TGGAAGCTGGAAA-AGGCTCGAGCTGCTGGTTCATGAAGGTTGCTACTGTGCTCGTAGAAGCTGC
1 TGGAAGCT-GAAAGAGGCTCGAGCTGCTGGTTCATGGAGGCTGCTGCTGTGCTCGTGGAAGCTGC
953134 TGCTGCCG
65 TGCTGCCG
* * * *
953142 TGGAAGCTGAAAGAGGCTCGAGCTGTTAGTTCATGGATGCTGCTGTTGTGCTCGTGGAAGCTGCT
1 TGGAAGCTGAAAGAGGCTCGAGCTGCTGGTTCATGGAGGCTGCTGCTGTGCTCGTGGAAGCTGCT
* *
953207 GTTGCCT
66 GCTGCCG
* * * * * * * *
953214 TGGAAGTTGGAGGAAGCTCGAGCTACTGGTTCGTGGAGGCTGTTGCTGTGCTCGTGGAAGTTGCT
1 TGGAAGCTGAAAGAGGCTCGAGCTGCTGGTTCATGGAGGCTGCTGCTGTGCTCGTGGAAGCTGCT
953279 ACTGGTGGAT
Statistics
Matches: 114, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
71 4 0.04
72 110 0.96
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.28
Consensus pattern (72 bp):
TGGAAGCTGAAAGAGGCTCGAGCTGCTGGTTCATGGAGGCTGCTGCTGTGCTCGTGGAAGCTGCT
GCTGCCG
Found at i:953553 original size:107 final size:105
Alignment explanation
Indices: 953429--953639 Score: 325
Period size: 107 Copynumber: 2.0 Consensus size: 105
953419 CCCCTTGCAT
* *
953429 GTTGCTTTGCCTTCCACTTCTTCCCGTTGCCATGCTTCACATGTTGTCCACTTTC-TTTCACATT
1 GTTGCTTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTGTCCACTTTCGTTT-ACATT
* *
953493 GGATTCCTTTCTTTTTCTTCTTTTTTATGTTCTATCTCTTCAC
65 GGATTCCATT-TTTTT-TTCTTTTTTATGTTCTAGCTCTTCAC
* *
953536 GTTGTTTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTGTCCACTTTCGTTTACGTTG
1 GTTGCTTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTGTCCACTTTCGTTTACATTG
*
953601 GCTTCCATTTTTTTTTCTTTTTTATGTTCTAGCTCTTCA
66 GATTCCATTTTTTTTTCTTTTTTATGTTCTAGCTCTTCA
953640 TGTTATGCTG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
105 24 0.25
106 5 0.05
107 64 0.67
108 3 0.03
ACGTcount: A:0.10, C:0.28, G:0.12, T:0.50
Consensus pattern (105 bp):
GTTGCTTTGCCCTCCACTTCTTCCCGTTGCCATGCTTCACATGCTGTCCACTTTCGTTTACATTG
GATTCCATTTTTTTTTCTTTTTTATGTTCTAGCTCTTCAC
Found at i:953962 original size:22 final size:21
Alignment explanation
Indices: 953910--953967 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
953900 TTACTTTTAA
*
953910 TGATTTC-TAATTTTATTTTT
1 TGATTTCTTTATTTTATTTTT
*
953930 TGATGGT-TTTATTTTATTTCTT
1 TGAT-TTCTTTATTTTATTT-TT
953952 TGATTTCTTTAATTTT
1 TGATTTCTTT-ATTTT
953968 TGTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 9 0.30
23 5 0.17
ACGTcount: A:0.17, C:0.05, G:0.09, T:0.69
Consensus pattern (21 bp):
TGATTTCTTTATTTTATTTTT
Found at i:954012 original size:27 final size:24
Alignment explanation
Indices: 953972--954037 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 24
953962 AATTTTTGTT
953972 TTTTTTTATTTTTTGATTTTCTATAA
1 TTTTTTTATTTTTTGATTTT-T-TAA
*
953998 TTTTTTTGTTATTTTGATTTTTTAA
1 TTTTTTTATT-TTTTGATTTTTTAA
*
954023 TTTTTTGAATTTTTT
1 TTTTTT-TATTTTTT
954038 AATTAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 13 0.37
26 12 0.34
27 10 0.29
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTTTTATTTTTTGATTTTTTAA
Found at i:954037 original size:34 final size:31
Alignment explanation
Indices: 953936--954037 Score: 114
Period size: 34 Copynumber: 3.0 Consensus size: 31
953926 TTTTTGATGG
953936 TTTTATTTTATTTCTTTGATTTCTTTAATTTTT
1 TTTTATTTTATTT-TTTGATTT-TTTAATTTTT
*
953969 GTTTTTTTTTATTTTTTGATTTTCTATAATTTTT
1 -TTTTATTTTATTTTTTGATTTT-T-TAATTTTT
*
954003 TTGTTATTTTGATTTTTTAATTTTTTGAATTTTT
1 TT-TTATTTT-ATTTTTTGATTTTTT-AATTTTT
954037 T
1 T
954038 AATTAATTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
32 1 0.02
33 12 0.20
34 35 0.58
35 12 0.20
ACGTcount: A:0.16, C:0.03, G:0.06, T:0.75
Consensus pattern (31 bp):
TTTTATTTTATTTTTTGATTTTTTAATTTTT
Found at i:954041 original size:17 final size:16
Alignment explanation
Indices: 953941--954037 Score: 65
Period size: 17 Copynumber: 5.8 Consensus size: 16
953931 GATGGTTTTA
953941 TTTT-ATTTCTTTGATT
1 TTTTAATTT-TTTGATT
*
953957 TCTTTAA-TTTTTGTTTT
1 T-TTTAATTTTTTG-ATT
*
953974 TTTTTATTTTTTGATT
1 TTTTAATTTTTTGATT
953990 TTCTATAATTTTTTTG-TT
1 TT-T-TAA-TTTTTTGATT
* *
954008 ATTTTGATTTTTTAATT
1 -TTTTAATTTTTTGATT
954025 TTTTGAATTTTTT
1 TTTT-AATTTTTT
954038 AATTAATTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
16 23 0.36
17 26 0.41
18 6 0.09
19 9 0.14
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTTAATTTTTTGATT
Found at i:954055 original size:43 final size:43
Alignment explanation
Indices: 953972--954055 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
953962 AATTTTTGTT
* ** *
953972 TTTTTTTATTTTTTGATTTTCTATAATTTTTTTGTTATTTTGA
1 TTTTTTAATTTTTTGATTTTCTATAATTAATTTATTATTTTGA
954015 TTTTTTAATTTTTTGAATTTT-T-TAATTAATTTATTGATTTT
1 TTTTTTAATTTTTTG-ATTTTCTATAATTAATTTATT-ATTTT
954056 TGTGAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 10 0.29
43 20 0.57
44 5 0.14
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.73
Consensus pattern (43 bp):
TTTTTTAATTTTTTGATTTTCTATAATTAATTTATTATTTTGA
Found at i:954603 original size:42 final size:42
Alignment explanation
Indices: 954557--954809 Score: 275
Period size: 42 Copynumber: 6.1 Consensus size: 42
954547 AGGCAATCTT
* * *
954557 CAGGGTCAAAGTCGAAAGACAGACTGAGGGAAGGAAAGTCTC
1 CAGGGTCAAAGACGAAAGGCAGACTAAGGGAAGGAAAGTCTC
* * *
954599 CAGGGTCAAA-ACCGATAGGCAGAATAAGGGTAGGAAAGTCTC
1 CAGGGTCAAAGA-CGAAAGGCAGACTAAGGGAAGGAAAGTCTC
* * *
954641 CAGGGTC-AAG-CTGACAGGCAGACTGAGGCAAGGAAAGTCTC
1 CAGGGTCAAAGAC-GAAAGGCAGACTAAGGGAAGGAAAGTCTC
* ** * *
954682 CAAGGTCAAAGTTGACAGGCAGACTAAGGGTAGGAAAGTCTC
1 CAGGGTCAAAGACGAAAGGCAGACTAAGGGAAGGAAAGTCTC
*
954724 CAGGGTCAAA-ACAGATAGGCAGACTAAGGGAAGGAAAGTCTC
1 CAGGGTCAAAGAC-GAAAGGCAGACTAAGGGAAGGAAAGTCTC
* *
954766 CA-GGTCAAA-ACTAATAGGCAGACTAAGAGAAGGAAAGTCTC
1 CAGGGTCAAAGACGAA-AGGCAGACTAAGGGAAGGAAAGTCTC
954807 CAG
1 CAG
954810 AAGTTTAATG
Statistics
Matches: 179, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
40 2 0.01
41 68 0.38
42 109 0.61
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.13
Consensus pattern (42 bp):
CAGGGTCAAAGACGAAAGGCAGACTAAGGGAAGGAAAGTCTC
Found at i:954689 original size:83 final size:84
Alignment explanation
Indices: 954576--954809 Score: 328
Period size: 83 Copynumber: 2.8 Consensus size: 84
954566 AGTCGAAAGA
* * *
954576 CAGACTGAGGGAAGGAAAGTCTCCAGGGTCAAAACCGATAGGCAGAATAAGGGTAGGAAAGTCTC
1 CAGACTGAGGGAAGGAAAGTCTCCAAGGTCAAAACTGATAGGCAGACTAAGGGTAGGAAAGTCTC
* *
954641 CAGGGTC-AAGCTGACAGG
66 CAGGGTCAAAACAGACAGG
* ** *
954659 CAGACTGAGGCAAGGAAAGTCTCCAAGGTCAAAGTTGACAGGCAGACTAAGGGTAGGAAAGTCTC
1 CAGACTGAGGGAAGGAAAGTCTCCAAGGTCAAAACTGATAGGCAGACTAAGGGTAGGAAAGTCTC
*
954724 CAGGGTCAAAACAGATAGG
66 CAGGGTCAAAACAGACAGG
* * * *
954743 CAGACTAAGGGAAGGAAAGTCTCC-AGGTCAAAACTAATAGGCAGACTAAGAGAAGGAAAGTCTC
1 CAGACTGAGGGAAGGAAAGTCTCCAAGGTCAAAACTGATAGGCAGACTAAGGGTAGGAAAGTCTC
954807 CAG
66 CAG
954810 AAGTTTAATG
Statistics
Matches: 132, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
83 102 0.77
84 30 0.23
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.14
Consensus pattern (84 bp):
CAGACTGAGGGAAGGAAAGTCTCCAAGGTCAAAACTGATAGGCAGACTAAGGGTAGGAAAGTCTC
CAGGGTCAAAACAGACAGG
Found at i:954753 original size:125 final size:125
Alignment explanation
Indices: 954560--954808 Score: 358
Period size: 125 Copynumber: 2.0 Consensus size: 125
954550 CAATCTTCAG
* *
954560 GGTCAAAGTCGAAAGACAGACTGAGGGAAGGAAAGTCTCCAGGGTCAAAACCGATAGGCAGAATA
1 GGTCAAAGTCGAAAGACAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAACAGATAGGCAGAATA
* * * *
954625 AGGGTAGGAAAGTCTCCAGGGTC-AAGCTGACAGGCAGACTGAG-GCAAGGAAAGTCTCCAA
66 AGGGAAGGAAAGTCTCCA-GGTCAAAACTAACAGGCAGACTAAGAG-AAGGAAAGTCTCCAA
* * * * *
954685 GGTCAAAGTTGACAGGCAGACTAAGGGTAGGAAAGTCTCCAGGGTCAAAACAGATAGGCAGACTA
1 GGTCAAAGTCGAAAGACAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAACAGATAGGCAGAATA
*
954750 AGGGAAGGAAAGTCTCCAGGTCAAAACTAATAGGCAGACTAAGAGAAGGAAAGTCTCCA
66 AGGGAAGGAAAGTCTCCAGGTCAAAACTAACAGGCAGACTAAGAGAAGGAAAGTCTCCA
954809 GAAGTTTAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 4 0.04
125 105 0.95
126 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.31, T:0.14
Consensus pattern (125 bp):
GGTCAAAGTCGAAAGACAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAACAGATAGGCAGAATA
AGGGAAGGAAAGTCTCCAGGTCAAAACTAACAGGCAGACTAAGAGAAGGAAAGTCTCCAA
Found at i:966927 original size:20 final size:19
Alignment explanation
Indices: 966898--966973 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 19
966888 AAAAAGACAT
966898 AATGTATCGATACATTGTA
1 AATGTATCGATACATTGTA
* *
966917 GAATATATCGATACATTCATA
1 -AATGTATCGATACATT-GTA
* * *
966938 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-TA
966958 AATGTATCGATACATT
1 AATGTATCGATACATT
966974 TGGGTAAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATTGTA
Found at i:966966 original size:40 final size:39
Alignment explanation
Indices: 966895--966973 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
966885 GGTAAAAAGA
* *
966895 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
966934 CATACATGTATCGATATATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACATT
966974 TGGGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:967416 original size:23 final size:23
Alignment explanation
Indices: 967344--967415 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 23
967334 CAAAATGATG
*
967344 AAAAAAT-CAAAAGCAAAAGC-AC
1 AAAAAATGCAAAAGCAAAA-CAAA
*
967366 AAAAAATG-AAAAGAAAAACAAA
1 AAAAAATGCAAAAGCAAAACAAA
*
967388 AAAAAGATGCAAAAGCAAAATAAA
1 AAAAA-ATGCAAAAGCAAAACAAA
967412 AAAA
1 AAAA
967416 GGGGAACAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 22 0.52
23 3 0.07
24 16 0.38
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.06
Consensus pattern (23 bp):
AAAAAATGCAAAAGCAAAACAAA
Found at i:968727 original size:28 final size:28
Alignment explanation
Indices: 968681--969464 Score: 365
Period size: 27 Copynumber: 28.6 Consensus size: 28
968671 CACTATTTCG
*
968681 TGGCAT-CTTTTTAAGTCCACAACTCCA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
968708 TGGCATCCTTTTAAAGTCCACAACTCCA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* *
968736 T-GCATCCTTTTAAA-TCCATAACTCCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
*
968762 TGGCATCCTTTT-AAGTCCACAACTCCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* *
968789 TAGCATCCTTTT-AAGTCCACAAGTCCA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * * * *
968816 TGGTAACATTTTTAAGCCCACAAGT-CA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * *
968843 GTGGCAT-CTTTCCAAAGCCCACAAGT-CA
1 -TGGCATCCTTT-TAAAGTCCACAACTCCA
* * * *
968871 GTGGCACCCCTTTTTAAG-CCTATAACTCCG
1 -TGGCA-TCCTTTTAAAGTCC-ACAACTCCA
* * *
968901 TGGCA-CCTTTTAAAGTTCATAACTCCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* *
968928 TAGCA-CCCTTTAAAGTCCACAACTCCA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* ***
968955 TGGCA-CCTTTTTAAGTCCACAACTTTG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * * *
968982 TGGCACCCTTTT-AGGTCCATAACTTCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * *
969009 TGGCTTCCTTTTAAAATCCATAACTCCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * **
969037 TGGCACCCTTTTAAA-TCCAGAACTCTG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * *
969064 TGGCA-CTTTTTTAAAGTCCACCATTCCA
1 TGGCATC-CTTTTAAAGTCCACAACTCCA
* * * *
969092 TGGCACCCTTTT-AGGTCCACAATTCTA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* *
969119 TGGCA-GCTATTT-AAGTCCACAACTCCG
1 TGGCATCCT-TTTAAAGTCCACAACTCCA
* *
969146 TGGCACCCTTTT-AAGTCCACAACTCTA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * * *
969173 TCGTA-CCTTTT-AAGTCCACAAGTTCG
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * *
969199 TGGCATCATTTCAAAGCCCACAAGT-CA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* * * * * *
969226 GTAGCATCCTTTCAAA-ACCTACAAGTTCG
1 -TGGCATCCTTTTAAAGTCC-ACAACTCCA
* *
969255 TGGCAT-CTTTCCAAAGTCCACAAGTCCA
1 TGGCATCCTTT-TAAAGTCCACAACTCCA
** * * *
969283 TGGCATGATTTCAAAGCCCACAAGT-CA
1 TGGCATCCTTTTAAAGTCCACAACTCCA
* *
969310 GTGGCATCCTTTCAAAG-CCACAAGT-CA
1 -TGGCATCCTTTTAAAGTCCACAACTCCA
* *
969337 GTGGCATCCTTTCAAAG-CCACAAGT-CA
1 -TGGCATCCTTTTAAAGTCCACAACTCCA
* * * * *
969364 GCGGCATCCTTTCAAAGCCCACAAGT-TA
1 -TGGCATCCTTTTAAAGTCCACAACTCCA
* * *
969392 GTGGCAACCTTTCAAAG-CCTACAAAT-CA
1 -TGGCATCCTTTTAAAGTCC-ACAACTCCA
* * **
969420 GTGGCA-CCTTTTCAAAGCCCACAAGTCTG
1 -TGGCATCCTTTT-AAAGTCCACAACTCCA
*
969449 TGGCACCCTTTTAAAG
1 TGGCATCCTTTTAAAG
969465 CCCAAGAGTT
Statistics
Matches: 624, Mismatches: 100, Indels: 65
0.79 0.13 0.08
Matches are distributed among these distances:
26 36 0.06
27 315 0.50
28 241 0.39
29 27 0.04
30 5 0.01
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCATCCTTTTAAAGTCCACAACTCCA
Found at i:969031 original size:109 final size:107
Alignment explanation
Indices: 968677--969203 Score: 388
Period size: 109 Copynumber: 4.8 Consensus size: 107
968667 AATCCACTAT
* * * * * *
968677 TTCGTGGCATCTTTTTAAGTCCACAACTCCATGGCATCCTTTTAAAGTCCACAACTCCAT-GCAT
1 TTCGTGGCACCTTTTAAAGTCCATAACTCCGTGGCA-CCCTTTAAAGTCCACAACTCTATGGCA-
* * * * * *
968741 CC-TTTTAAATCCATAACTCCGTGGCATCCTTTTAAGTCCACAAC
64 CCTTTTTAAGTCCACAA-TTCGTGGCACCCTTTTAGGTCCATAAC
* * * * * * ** * * *
968785 TCCGTAGCATCCTTTT-AAGTCCACAAGTCCATGGTAACATTTTTAAGCCCACAAGTC-AGTGGC
1 TTCGTGGCA-CCTTTTAAAGTCCATAACTCCGTGG-CACCCTTTAAAGTCCACAACTCTA-TGGC
* ** * * *
968848 ATCTTTCCAAAGCCCACAAGTCAGTGGCACCCCTTTTTAAG-CCTATAAC
63 ACCTTT-TTAAGTCCACAATTC-GTGGCA-CCC-TTTTAGGTCC-ATAAC
* * * *
968897 TCCGTGGCACCTTTTAAAGTTCATAACTCCGTAGCACCCTTTAAAGTCCACAACTCCATGGCACC
1 TTCGTGGCACCTTTTAAAGTCCATAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACC
*
968962 TTTTTAAGTCCACAACTTTGTGGCACCCTTTTAGGTCCATAAC
66 TTTTTAAGTCCACAA-TTCGTGGCACCCTTTTAGGTCCATAAC
* * * *
969005 TTCGTGGCTTCCTTTTAAAATCCATAACTCCGTGGCACCCTTTTAAA-TCCAGAACTCTGTGGCA
1 TTCGTGGC-ACCTTTTAAAGTCCATAACTCCGTGGCACCC-TTTAAAGTCCACAACTCTATGGCA
* * * *
969069 CTTTTTTAAAGTCCACCATTCCATGGCACCCTTTTAGGTCCACAA-
64 CCTTTTT-AAGTCCACAATT-CGTGGCACCCTTTTAGGTCCATAAC
* * * * * *
969114 TTCTATGGCAGCTATTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATCGTA
1 TTC-GTGGCACCT-TTTAAAGTCCATAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCA
969178 CC-TTTTAAGTCCACAAGTTCGTGGCA
64 CCTTTTTAAGTCCACAA-TTCGTGGCA
969204 TCATTTCAAA
Statistics
Matches: 333, Mismatches: 64, Indels: 45
0.75 0.14 0.10
Matches are distributed among these distances:
107 16 0.05
108 71 0.21
109 106 0.32
110 71 0.21
111 36 0.11
112 33 0.10
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (107 bp):
TTCGTGGCACCTTTTAAAGTCCATAACTCCGTGGCACCCTTTAAAGTCCACAACTCTATGGCACC
TTTTTAAGTCCACAATTCGTGGCACCCTTTTAGGTCCATAAC
Found at i:969465 original size:28 final size:28
Alignment explanation
Indices: 969188--970608 Score: 1637
Period size: 28 Copynumber: 50.6 Consensus size: 28
969178 CCTTTTAAGT
*
969188 CCACAAGTTC-GTGGCATCATTTCAAAGC
1 CCACAAG-TCAGTGGCATCCTTTCAAAGC
* *
969216 CCACAAGTCAGTAGCATCCTTTCAAAAC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969244 CTACAAGTTC-GTGGCAT-CTTTCCAAAGT
1 CCACAAG-TCAGTGGCATCCTTT-CAAAGC
**
969272 CCACAAGTCCA-TGGCATGATTTCAAAGC
1 CCACAAGT-CAGTGGCATCCTTTCAAAGC
969300 CCACAAGTCAGTGGCATCCTTTCAAAG-
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
969327 CCACAAGTCAGTGGCATCCTTTCAAAG-
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969354 CCACAAGTCAGCGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969382 CCACAAGTTAGTGGCAACCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969410 CTACAAATCAGTGGCA-CCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* * *
969438 CCACAAGTCTGTGGCACCCTTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969466 CCA-AGAGTTAGTGGCATCATTTCAAAGC
1 CCACA-AGTCAGTGGCATCCTTTCAAAGC
*
969494 CCA-AGAGTTAGTGGCATCCTTTCAAAGC
1 CCACA-AGTCAGTGGCATCCTTTCAAAGC
* * *
969522 CCACCAGTCGGTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969550 CCACAAATCAGTGACATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
969578 CCACCAGTCGGTGGCGTCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
969606 CCACAAGTTAGTGGCAGCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969634 CCATAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969662 CCACAAGTCTGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969690 CCATAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969718 CCACAAATCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969746 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969774 CCACAAGTCAGTGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
969802 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969830 CCACAAGTCAGTGACATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
969858 CCATAAGTCATTGGCATCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
969886 TCACAAGTCAGTGGCA-CCATTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
*
969914 CCACAAGTTAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
969942 CCACAAGTCAGTGAC-GCCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
*
969970 CCACAAGTCAGTGGTATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
** *
969998 AAACAAGTCAGTGGCATCCTTGCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
970026 CCACAAATCAATGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
970054 CCACAAGTCAGTGACACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
970082 CCACAAGTCAGTGGAATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
970110 CCACAAGTCAATGGCACCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
970138 CCATAAGAT-AGTGGCACCCTTTCAAAGC
1 CCACAAG-TCAGTGGCATCCTTTCAAAGC
* *
970166 CCACAAGTTAGTGGCATCCTTTTAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
970194 CCACAAGTCAGTGGCATCCATTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
**
970222 CCACAAGTCAGTGGCATCAATTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * * *
970250 CCATAAGTCCGTGACATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
970278 CCACAAGTTAGTGGCTTCATTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* * *
970306 CCACCAGTCTGTGGCATCCTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
** * **
970334 CCACAAACCAATGGCATATTTTCAAAAGC
1 CCACAAGTCAGTGGCATCCTTTC-AAAGC
* *
970363 CCACAAGTTAGTGGCACCCCTTTCAAAGC
1 CCACAAGTCAGTGGCA-TCCTTTCAAAGC
* *
970392 CTACAAGTCAGTGGCATCCTTTCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* ** * ** *
970420 CTACAAACCTGTGGCACTTTTTTGAAAGC
1 CCACAAGTCAGTGGCA-TCCTTTCAAAGC
* *
970449 CTACAAGTCAGTGGCACCCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
970478 CCACAAGTCAGTCGCAACCCTTTCAAAGC
1 CCACAAGTCAGTGGC-ATCCTTTCAAAGC
* * * *
970507 CTACAAGTTAGTGGCATCCTTCCAAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
**
970535 CCACAAAACCAGTGGCA-CCTTTTCAAAAGC
1 CCAC-AAGTCAGTGGCATCC-TTTC-AAAGC
* *
970565 CCACAAGTTAGTGGCA-CCTTTTCAAAGT
1 CCACAAGTCAGTGGCATCC-TTTCAAAGC
* *
970593 TCACTAGTCAGTGGCA
1 CCACAAGTCAGTGGCA
970609 ACTTATTTCA
Statistics
Matches: 1187, Mismatches: 180, Indels: 52
0.84 0.13 0.04
Matches are distributed among these distances:
27 69 0.06
28 964 0.81
29 138 0.12
30 16 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:970673 original size:63 final size:64
Alignment explanation
Indices: 970598--970737 Score: 183
Period size: 63 Copynumber: 2.2 Consensus size: 64
970588 AAAGTTCACT
* * * * *
970598 AGTCAGTGGCAACTTATTTCAAAACCCACATAAGTTGGTGGAAACTCATTTCAAA-CCCACACA
1 AGTCGGTGGCAACTAATTTCAAAACCCACACAAGTCGGTGGAAACCCATTTCAAAGCCCACACA
* * * *
970661 AGTCGGTGGCAACTAATTTGAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACTCA
1 AGTCGGTGGCAACTAATTTCAAAACCCACACAAGTCGGTGGAAACCCATTTCAAAGCCCACACA
*
970725 AGTCGGTCGCAAC
1 AGTCGGTGGCAAC
970738 CCTTTTTGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 47 0.71
64 19 0.29
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (64 bp):
AGTCGGTGGCAACTAATTTCAAAACCCACACAAGTCGGTGGAAACCCATTTCAAAGCCCACACA
Found at i:970689 original size:32 final size:32
Alignment explanation
Indices: 970598--970765 Score: 185
Period size: 32 Copynumber: 5.3 Consensus size: 32
970588 AAAGTTCACT
* * * *
970598 AGTCAGTGGCAACTTATTTCAAAACCCACATA
1 AGTCGGTGGCAACTCATTTCAAAGCCCACACA
* *
970630 AGTTGGTGGAAACTCATTTCAAA-CCCACACA
1 AGTCGGTGGCAACTCATTTCAAAGCCCACACA
* *
970661 AGTCGGTGGCAACTAATTTGAAAGCCCACACA
1 AGTCGGTGGCAACTCATTTCAAAGCCCACACA
* *
970693 AGTCGGTGGCAACCCATTTCAAAGCCCACTCA
1 AGTCGGTGGCAACTCATTTCAAAGCCCACACA
* * * **
970725 AGTCGGTCGCAACCCTTTTTGAAGCCCACACA
1 AGTCGGTGGCAACTCATTTCAAAGCCCACACA
*
970757 AGTTGGTGG
1 AGTCGGTGG
970766 GAACCTCTCT
Statistics
Matches: 115, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
31 26 0.23
32 89 0.77
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (32 bp):
AGTCGGTGGCAACTCATTTCAAAGCCCACACA
Found at i:970781 original size:64 final size:64
Alignment explanation
Indices: 970622--970828 Score: 194
Period size: 64 Copynumber: 3.3 Consensus size: 64
970612 TATTTCAAAA
* * * *
970622 CCCACATAAGTTGGT-GGAAACTCATTTCAAA-CCCACACAAGTCGGTGGCAA-CTAATTTGAAA
1 CCCACACAAGTTGGTGGGAACCTCATTTCAAAGCCCACTCAAGTCGGTGGCAACCT-TTTTG-AA
970684 G
64 G
* * *
970685 CCCACACAAGTCGGTGGCAACC-CATTTCAAAGCCCACTCAAGTCGGTCGCAACCCTTTTTGAAG
1 CCCACACAAGTTGGTGGGAACCTCATTTCAAAGCCCACTCAAGTCGGTGGCAA-CCTTTTTGAAG
* * * * * *
970749 CCCACACAAGTTGGTGGGAACCTC-TCTGAAAGCTTGCA-T-AAGCCGGTGGGAACCTTTTTAAA
1 CCCACACAAGTTGGTGGGAACCTCATTTCAAAGC--CCACTCAAGTCGGTGGCAACCTTTTTGAA
*
970811 A
64 G
970812 CCCACACAAGTTGGTGG
1 CCCACACAAGTTGGTGG
970829 CATCGTTTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
63 48 0.40
64 62 0.52
65 6 0.05
66 4 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (64 bp):
CCCACACAAGTTGGTGGGAACCTCATTTCAAAGCCCACTCAAGTCGGTGGCAACCTTTTTGAAG
Found at i:980301 original size:179 final size:179
Alignment explanation
Indices: 979997--980352 Score: 541
Period size: 179 Copynumber: 2.0 Consensus size: 179
979987 TTGGTTAGCG
* * * *
979997 TAGATTCAACAACTCTATAATCTATAGAGTTTTTGATATTGTAGTGCTTGATAGCTAAAAGCACT
1 TAGATTCAACAACTCTATAATCTACAAAGCTTTTGATATTGTAGTGCTTGATAGCTAAAAGCACC
* * * * *
980062 GTCTTTTTTGTAACAAATTGCATCCCAATACAAAGACCACCGATAGATGGAGTCTAGGTTGACGG
66 GCCTCTTTTGTAACAAATTGCATCCCAACACAAAGACCACCAATAGATGGAGTATAGGTTGACGG
** *
980127 CATACCTAATGTATGTGCATATTCTGAAAATTCTACCATGTGCATTGCA
131 CATACCTAATGTATGAACATATTCTAAAAATTCTACCATGTGCATTGCA
* *
980176 TAGATTCAACAACTTTGTAATCTACAAAGCTTTTGATATTGTAGTGCTTGATAGCTAAAAGCACC
1 TAGATTCAACAACTCTATAATCTACAAAGCTTTTGATATTGTAGTGCTTGATAGCTAAAAGCACC
* * * *
980241 GCCTCTTTTGTTACAAATTGCATCCCAACACAAAGATCACCAATAGATGGATTATAGGTTGATGG
66 GCCTCTTTTGTAACAAATTGCATCCCAACACAAAGACCACCAATAGATGGAGTATAGGTTGACGG
*
980306 CATACCTAATGTATGAACATATTCTAAAAATTCTGCCATGTGCATTG
131 CATACCTAATGTATGAACATATTCTAAAAATTCTACCATGTGCATTG
980353 TGTCCAAATT
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
179 158 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (179 bp):
TAGATTCAACAACTCTATAATCTACAAAGCTTTTGATATTGTAGTGCTTGATAGCTAAAAGCACC
GCCTCTTTTGTAACAAATTGCATCCCAACACAAAGACCACCAATAGATGGAGTATAGGTTGACGG
CATACCTAATGTATGAACATATTCTAAAAATTCTACCATGTGCATTGCA
Found at i:981530 original size:89 final size:89
Alignment explanation
Indices: 981419--982095 Score: 683
Period size: 89 Copynumber: 7.6 Consensus size: 89
981409 ATATTTTCTA
* * * * * *
981419 TCATGTCAGAAGGAATCTGATACCCACATACATCTGACACATCTTCCGGGTTTTAAGAAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
981484 TAGGCATTAGTTAAATTTTTTTCG
66 TAGGCATTAGTTAAATTTTTTTCG
* * * * *
981508 TCGTGTTAGAAAGAGTCTGATACCCGCATGCATCTGTCATATCTTTCGGGTTTCGAGAAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
* *
981573 TCA-GCATTAGTCAAA-TATTTTCTG
66 T-AGGCATTAGTTAAATTTTTTTC-G
** * * *
981597 TGGTGTCAGAAAGAATCTGATACCCACATGTATCTGTCACATCTTTTGGGTTTCAAGAAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
981662 TAGGCATTAGTTAAATTTTTTTCG
66 TAGGCATTAGTTAAATTTTTTTCG
* * * * * *
981686 TCATGTTAGAAGGAGTTTGATACCCACATGCATCTGTCACATCTTTCGAGTTCCAAGCAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
*
981751 TCA-ACATTAGTTAAATATTTTCTAT-G
66 T-AGGCATTAGTTAAAT-TTTT-T-TCG
* *
981777 -C-TGTTAGAAAGAATCTGATACCCACATGCATTTGTTACATCTTTCGGGTTTCAAGAAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
* * * *
981840 TAGACACTAGTCAAATATTTTTT-A
66 TAGGCATTAGTTAAAT-TTTTTTCG
* * * * * * * *
981864 TCATGTCAGAAGGAATCTGATACCTATATGCATCTATCACATCTTT-TGGATTCTAAAAAATTTA
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTC-AAGAAATTTA
* *
981928 TAAGGCATTAGTCAAATATTTTTT-G
65 TTAGGCATTAGTTAAAT-TTTTTTCG
** * * * * * * * *
981953 TTGTGTCAAAAAGAATTTGATATCTACATGCATTTGTCACATCTTTCGGGTTTTAATAAATTTAT
1 TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
*
982018 TAGGCATTAGTTAAATATTTTTCG
66 TAGGCATTAGTTAAATTTTTTTCG
* * *
982042 TCAT-TTCA-AAAGGAATCTGATACCCACATGCCTCTATCACATCTTTCGAGTTTC
1 TCATGTT-AGAAA-GAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTC
982096 GGGTTCTAGG
Statistics
Matches: 485, Mismatches: 87, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
87 1 0.00
88 24 0.05
89 440 0.91
90 17 0.04
91 2 0.00
92 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (89 bp):
TCATGTTAGAAAGAATCTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTAT
TAGGCATTAGTTAAATTTTTTTCG
Found at i:981709 original size:178 final size:178
Alignment explanation
Indices: 981399--982095 Score: 853
Period size: 178 Copynumber: 3.9 Consensus size: 178
981389 TTTGTCATAT
** * * *
981399 CATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCTGATACCCACATACATCTGACACATCTT
1 CATTAGTCAAATATTTTCTATGGTGTCAGAAAGAATCTGATACCCACATGCATCTGTCACATCTT
* * * * *
981464 CCGGGTTTTAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCGTGTTAGAAAGAGTCTGAT
66 TCGGGTTTCAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCATGTTAGAAGGAATCTGAT
* * * * *
981529 ACCCGCATGCATCTGTCATATCTTTCGGGTTTCGAGAAATTTATTCAG
131 ACCCACATGCATCTATCACATCTTTCGAGTTTCAAGAAATTTATTCAG
* *
981577 CATTAGTCAAATATTTTCTGTGGTGTCAGAAAGAATCTGATACCCACATGTATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATGGTGTCAGAAAGAATCTGATACCCACATGCATCTGTCACATCTT
* * *
981642 TTGGGTTTCAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCATGTTAGAAGGAGTTTGAT
66 TCGGGTTTCAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCATGTTAGAAGGAATCTGAT
* * * *
981707 ACCCACATGCATCTGTCACATCTTTCGAGTTCCAAGCAATTTATTCAA
131 ACCCACATGCATCTATCACATCTTTCGAGTTTCAAGAAATTTATTCAG
* * * * *
981755 CATTAGTTAAATATTTTCTATGCTGTTAGAAAGAATCTGATACCCACATGCATTTGTTACATCTT
1 CATTAGTCAAATATTTTCTATGGTGTCAGAAAGAATCTGATACCCACATGCATCTGTCACATCTT
* * * * *
981820 TCGGGTTTCAAGAAATTTATTAGACACTAGTCAAATATTTTTT-ATCATGTCAGAAGGAATCTGA
66 TCGGGTTTCAAGAAATTTATTAGGCATTAGTTAAAT-TTTTTTCGTCATGTTAGAAGGAATCTGA
* * * * * *
981884 TACCTATATGCATCTATCACATCTTTTG-GATTCTAAAAAATTTA-TAAGG
130 TACCCACATGCATCTATCACATCTTTCGAGTTTC-AAGAAATTTATTCA-G
* * * * * * * *
981933 CATTAGTCAAATATTTTTTGTTGTGTCAAAAAGAATTTGATATCTACATGCATTTGTCACATCTT
1 CATTAGTCAAATATTTTCTATGGTGTCAGAAAGAATCTGATACCCACATGCATCTGTCACATCTT
* * * *
981998 TCGGGTTTTAATAAATTTATTAGGCATTAGTTAAATATTTTTCGTCAT-TTCAAAAGGAATCTGA
66 TCGGGTTTCAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCATGTT-AGAAGGAATCTGA
*
982062 TACCCACATGCCTCTATCACATCTTTCGAGTTTC
130 TACCCACATGCATCTATCACATCTTTCGAGTTTC
982096 GGGTTCTAGG
Statistics
Matches: 443, Mismatches: 70, Indels: 11
0.85 0.13 0.02
Matches are distributed among these distances:
177 11 0.02
178 422 0.95
179 10 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (178 bp):
CATTAGTCAAATATTTTCTATGGTGTCAGAAAGAATCTGATACCCACATGCATCTGTCACATCTT
TCGGGTTTCAAGAAATTTATTAGGCATTAGTTAAATTTTTTTCGTCATGTTAGAAGGAATCTGAT
ACCCACATGCATCTATCACATCTTTCGAGTTTCAAGAAATTTATTCAG
Found at i:981874 original size:267 final size:268
Alignment explanation
Indices: 981399--982095 Score: 840
Period size: 267 Copynumber: 2.6 Consensus size: 268
981389 TTTGTCATAT
* * * * *
981399 CATTAGTCAAATATTTTCTATCATGTCAGAAGGAATCTGATACCCACATACATCTGACACATCTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATTTGATACCCACATGCATCTGTCACATCTT
* *
981464 CCGGGTTTTAAGAAATTTATTAGGCATTAGTTAAAT-TTTTTTCGTCGTGTTAGAAAGAGTCTGA
66 TCGGGTTTTAAGAAATTTATTAGGCATTAGTTAAATATTTTTTCGTCGTGTTAGAAAGAATCTGA
* * * *
981528 TACCCGCATGCATCTGTCATATCTTTCGGGTTTCGAGAAATTTATTCAGCATTAGTCAAATATTT
131 TACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTCAGCACTAGTCAAATATTT
* ** * * * *
981593 TCTGTGGTGTCAGAAAGAATCTGATACCCACATGTATCTGTCACATCTTTTGGGTT-TCAAGAAA
196 TCTATCATGTCAGAAAGAATCTGATACCCACATGCATCTATCACATCTTTTGGATTCT-AAAAAA
*
981657 TTTATTAGG
260 TTTATAAGG
* * *
981666 CATTAGTTAAAT-TTTTTTCGTCATGTTAGAAGGAGTTTGATACCCACATGCATCTGTCACATCT
1 CATTAGTCAAATATTTTTT-GTCATGTCAGAAGGAATTTGATACCCACATGCATCTGTCACATCT
* ** * *
981730 TTCGAGTTCCAAGCAATTTATTCA-ACATTAGTTAAATATTTTCTAT-G-C-TGTTAGAAAGAAT
65 TTCGGGTTTTAAGAAATTTATT-AGGCATTAGTTAAATATTTT-T-TCGTCGTGTTAGAAAGAAT
* *
981791 CTGATACCCACATGCATTTGTTACATCTTTCGGGTTTCAAGAAATTTATT-AGACACTAGTCAAA
127 CTGATACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTCAG-CACTAGTCAAA
* * * *
981855 TATTTTTTATCATGTCAGAAGGAATCTGATACCTATATGCATCTATCACATCTTTTGGATTCTAA
191 TATTTTCTATCATGTCAGAAAGAATCTGATACCCACATGCATCTATCACATCTTTTGGATTCTAA
981920 AAAATTTATAAGG
256 AAAATTTATAAGG
** * * * * *
981933 CATTAGTCAAATATTTTTTGTTGTGTCAAAAAGAATTTGATATCTACATGCATTTGTCACATCTT
1 CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATTTGATACCCACATGCATCTGTCACATCTT
* *
981998 TCGGGTTTTAATAAATTTATTAGGCATTAGTTAAATA-TTTTTCGTCAT-TTCA-AAAGGAATCT
66 TCGGGTTTTAAGAAATTTATTAGGCATTAGTTAAATATTTTTTCGTCGTGTT-AGAAA-GAATCT
* * *
982060 GATACCCACATGCCTCTATCACATCTTTCGAGTTTC
129 GATACCCACATGCATCTGTCACATCTTTCGGGTTTC
982096 GGGTTCTAGG
Statistics
Matches: 362, Mismatches: 54, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
264 1 0.00
265 2 0.01
266 17 0.05
267 326 0.90
268 13 0.04
269 2 0.01
270 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (268 bp):
CATTAGTCAAATATTTTTTGTCATGTCAGAAGGAATTTGATACCCACATGCATCTGTCACATCTT
TCGGGTTTTAAGAAATTTATTAGGCATTAGTTAAATATTTTTTCGTCGTGTTAGAAAGAATCTGA
TACCCACATGCATCTGTCACATCTTTCGGGTTTCAAGAAATTTATTCAGCACTAGTCAAATATTT
TCTATCATGTCAGAAAGAATCTGATACCCACATGCATCTATCACATCTTTTGGATTCTAAAAAAT
TTATAAGG
Found at i:982544 original size:15 final size:15
Alignment explanation
Indices: 982490--982544 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
982480 TATCGCTGAT
* *
982490 GCTTCTTCCTGAATG
1 GCTTCTTCTTGAGTG
982505 GCTTCTTCTTGAGTG
1 GCTTCTTCTTGAGTG
* * *
982520 GTTTTTTCTTGGGTG
1 GCTTCTTCTTGAGTG
*
982535 GCTTCATCTT
1 GCTTCTTCTT
982545 CAACCTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.07, C:0.20, G:0.24, T:0.49
Consensus pattern (15 bp):
GCTTCTTCTTGAGTG
Found at i:985314 original size:13 final size:13
Alignment explanation
Indices: 985296--985321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
985286 ATAGTTCATC
985296 ATGTATCGATACA
1 ATGTATCGATACA
985309 ATGTATCGATACA
1 ATGTATCGATACA
985322 TTGTGCCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:985409 original size:13 final size:13
Alignment explanation
Indices: 985391--985417 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
985381 TACAATTAAC
985391 ATGTATCGATACA
1 ATGTATCGATACA
985404 ATGTATCGATACA
1 ATGTATCGATACA
985417 A
1 A
985418 AGCGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:986000 original size:34 final size:34
Alignment explanation
Indices: 985960--986040 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
985950 AAGTTTTCAT
985960 TTTTCTCCCCTTTAATCAAAGCAATTCTAAAAAA
1 TTTTCTCCCCTTTAATCAAAGCAATTCTAAAAAA
* * *
985994 TTTTCTCCCCCTTAATTAAAGCAATTCTCAAAAA
1 TTTTCTCCCCTTTAATCAAAGCAATTCTAAAAAA
986028 TTTTCTCCCCTTT
1 TTTTCTCCCCTTT
986041 TTGGTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (34 bp):
TTTTCTCCCCTTTAATCAAAGCAATTCTAAAAAA
Found at i:987965 original size:20 final size:20
Alignment explanation
Indices: 987936--987998 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
987926 TATGTATCGA
*
987936 TATCGTTACAAAGAATATTG
1 TATCGATACAAAGAATATTG
987956 TATCGATAC-----A-A-TG
1 TATCGATACAAAGAATATTG
987969 TATCGATACAAAGAATATTG
1 TATCGATACAAAGAATATTG
987989 TATCGATACA
1 TATCGATACA
987999 TCTAGGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 14
0.70 0.02 0.28
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 20 0.57
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACAAAGAATATTG
Found at i:987972 original size:13 final size:13
Alignment explanation
Indices: 987954--987979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
987944 CAAAGAATAT
987954 TGTATCGATACAA
1 TGTATCGATACAA
987967 TGTATCGATACAA
1 TGTATCGATACAA
987980 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:987979 original size:33 final size:33
Alignment explanation
Indices: 987936--987998 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
987926 TATGTATCGA
*
987936 TATCGTTACAAAGAATATTGTATCGATACAATG
1 TATCGATACAAAGAATATTGTATCGATACAATG
987969 TATCGATACAAAGAATATTGTATCGATACA
1 TATCGATACAAAGAATATTGTATCGATACA
987999 TCTAGGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (33 bp):
TATCGATACAAAGAATATTGTATCGATACAATG
Found at i:990900 original size:12 final size:12
Alignment explanation
Indices: 990883--990907 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
990873 GCTTGCCCTT
990883 AACACATGCATC
1 AACACATGCATC
990895 AACACATGCATC
1 AACACATGCATC
990907 A
1 A
990908 CAAACTTTAT
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:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
AACACATGCATC
Found at i:994157 original size:33 final size:32
Alignment explanation
Indices: 994117--994185 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 32
994107 CCGTTACAAG
*
994117 CAATGTATCGATACAATTCAT-CATGTATCGATA
1 CAATGTATCAATAC-ATT-ATCCATGTATCGATA
*
994150 CAATGTATCAATACATTGTGCCATGTATCGATA
1 CAATGTATCAATACATTAT-CCATGTATCGATA
994183 CAA
1 CAA
994186 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 1 0.03
32 3 0.09
33 28 0.88
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
CAATGTATCAATACATTATCCATGTATCGATA
Found at i:994243 original size:20 final size:20
Alignment explanation
Indices: 994214--994273 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
994204 CTGCCAATCT
994214 CATGTATCGATACAATTATC
1 CATGTATCGATACAATTATC
*
994234 CATGTTTCGATACAATTAAT-
1 CATGTATCGATACAATT-ATC
*
994254 -ATGTATTGATACAATGTATC
1 CATGTATCGATACAAT-TATC
994274 GATACAAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.44
20 17 0.50
21 2 0.06
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACAATTATC
Found at i:994783 original size:17 final size:17
Alignment explanation
Indices: 994746--994797 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
994736 TCATAAGAAT
994746 AAAAAAA-AACA--AAA
1 AAAAAAATAACACTAAA
994760 AACAAAAATAAC-CTATAA
1 AA-AAAAATAACACTA-AA
994778 AAAAAAATAACACTAAA
1 AAAAAAATAACACTAAA
994795 AAA
1 AAA
994798 GTACATTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.06
15 5 0.16
16 3 0.09
17 15 0.47
18 7 0.22
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAATAACACTAAA
Found at i:995926 original size:22 final size:22
Alignment explanation
Indices: 995901--995958 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
995891 ACATATTTTC
* *
995901 AAAATTTTTATATAACTCGAAT
1 AAAATTTTTATATAACACAAAT
* *
995923 AAAATTTTTTTATAAGACAAAT
1 AAAATTTTTATATAACACAAAT
995945 ATAAATTTTTATAT
1 A-AAATTTTTATAT
995959 TTTTTTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (22 bp):
AAAATTTTTATATAACACAAAT
Found at i:996455 original size:20 final size:21
Alignment explanation
Indices: 996410--996456 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
996400 TTTCCCACCT
*
996410 AAAAAAATTAAATAAATTGTA
1 AAAAAAATTAAATAAATTGAA
996431 AAAAAAATTAAA-AAA-TGAA
1 AAAAAAATTAAATAAATTGAA
996450 AAAAAAA
1 AAAAAAA
996457 CAATACATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 12 0.48
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAAAATTAAATAAATTGAA
Found at i:998269 original size:16 final size:18
Alignment explanation
Indices: 998237--998274 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
998227 TGCTTTTTAA
998237 TTTCATTGGTTTCAGTT-
1 TTTCATTGGTTTCAGTTG
*
998254 TTTCATT-GTTTTAGTTG
1 TTTCATTGGTTTCAGTTG
998271 TTTC
1 TTTC
998275 TTCTTACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.63
Consensus pattern (18 bp):
TTTCATTGGTTTCAGTTG
Found at i:1004250 original size:13 final size:13
Alignment explanation
Indices: 1004232--1004262 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1004222 CGATACATGG
1004232 TACATTGTATAGA
1 TACATTGTATAGA
*
1004245 TACATTGTATCGA
1 TACATTGTATAGA
1004258 TACAT
1 TACAT
1004263 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (13 bp):
TACATTGTATAGA
Found at i:1004258 original size:33 final size:33
Alignment explanation
Indices: 1004216--1004284 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1004206 CTACCACTAT
*
1004216 TTGTATCGATACATGGT-ACATTGTATAGATACA
1 TTGTATCGATACATGATGA-ATTGTATAGATACA
*
1004249 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATAGATACA
1004282 TTG
1 TTG
1004285 CTTCTAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATAGATACA
Found at i:1012881 original size:21 final size:20
Alignment explanation
Indices: 1012834--1012888 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
1012824 CTACCACTGT
*
1012834 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
*
1012854 TTATATCGAATACATGATGA-A
1 TTGTATCG-ATACATGAT-ACA
1012875 TTGTATCGATACAT
1 TTGTATCGATACAT
1012889 TGCTTCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
21 16 0.53
22 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:1014764 original size:20 final size:20
Alignment explanation
Indices: 1014739--1014797 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
1014729 ACTATCGAGG
1014739 AAATGTATCGATACATTATT
1 AAATGTATCGATACATTATT
**
1014759 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTATT
1014779 ACAATTGTATCGATACATT
1 A-AA-TGTATCGATACATT
1014798 TTGGGTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 19 0.56
21 2 0.06
22 13 0.38
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:1014847 original size:20 final size:20
Alignment explanation
Indices: 1014818--1014868 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1014808 GACCTAGATT
1014818 TATCGATACATTATTCAATG
1 TATCGATACATTATTCAATG
*
1014838 TATTGATACATTATTCAATG
1 TATCGATACATTATTCAATG
1014858 TATCGATACAT
1 TATCGATACAT
1014869 GCAGACAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACATTATTCAATG
Found at i:1018572 original size:29 final size:29
Alignment explanation
Indices: 1018506--1018565 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
1018496 AACACAATGG
*
1018506 TTCCTAT-ATGACCCTAAAATGATAGAAA
1 TTCCTATAATGACCCTAAAATGACAGAAA
1018534 TTCCTATAATGACCCTAAAATGCACAGAAA
1 TTCCTATAATGACCCTAAAATG-ACAGAAA
1018564 TT
1 TT
1018566 GCATAATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 8 0.28
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (29 bp):
TTCCTATAATGACCCTAAAATGACAGAAA
Found at i:1018739 original size:58 final size:58
Alignment explanation
Indices: 1018600--1019313 Score: 537
Period size: 58 Copynumber: 12.3 Consensus size: 58
1018590 AAAATGTTTT
* * * * * * * *
1018600 AAATGATCTTAAAATGCATGAAA-TAGTATAATTGACCCTAAATCATGGAAAATCATTA
1 AAATGGTCTTAAAATGCATGAAATTA-CATAATAGTCCTTAAATCATGAAAAATGACTA
*** * ** * * * *
1018658 AAATAACCCTAAAATATAT-AAATTTACATAATGGTCCATGAATCATGAAAAATGAAT-
1 AAATGGTCTTAAAATGCATGAAA-TTACATAATAGTCCTTAAATCATGAAAAATGACTA
* * *
1018715 AAATGGTCTTAAAATGCATAAAATTATATAATAGTCCTTAAATCATGAAAAATAACTA
1 AAATGGTCTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
* * * * * *
1018773 AAATTGTGC-TAAAATGCATGAAATTACATAATAATCTTTAAATCATGAAAGATTA-TT
1 AAATGGT-CTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
** * * * * *
1018830 AAAT-AACTGTGAAATGCAT-AAATTTGCATAAT-GTTCCCTAAATCTTGGAAAATGACTA
1 AAATGGTCT-TAAAATGCATGAAA-TTACATAATAG-TCCTTAAATCATGAAAAATGACTA
* * * * * *
1018888 AAATGGTTTTAAAATGCATGAAATTATATAATTGTCCCTAAATGATGAAAAAAAGACTA
1 AAATGGTCTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATG-AAAAATGACTA
* * * * *
1018947 AAATGATCCTAAAATGTATGAAACTACATAATAGTTCTTAAATCATGAAAAATGACTA
1 AAATGGTCTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
* * ** *
1019005 AAATGATGC--CAAATGCATGAAATTACATAATAACCCCTAAAAT-ATGAAAAATGACTA
1 AAATGGT-CTTAAAATGCATGAAATTACATAAT-AGTCCTTAAATCATGAAAAATGACTA
* * * * *
1019062 AAATAGT-TCTAAAATGCATGAATTTACATAATAATCCCTAAATCATGAAAAATGATTA
1 AAATGGTCT-TAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
*** * *
1019120 AAA-CAACTCTAAAATGCAT-AAATTTGCAAAATAGTCCTTAAATCATGAAAAATGACTA
1 AAATGGTCT-TAAAATGCATGAAA-TTACATAATAGTCCTTAAATCATGAAAAATGACTA
* *
1019178 AAATGGTTTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAAAAATGAC-A
1 AAATGGTCTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
* * * * * *
1019235 AAA-GTGTTTCTAAAATGCATGAAATTACATAATAAT-CTCCAAATCGTGAAAAATAAATA
1 AAATG-GTCT-TAAAATGCATGAAATTACATAATAGTCCT-TAAATCATGAAAAATGACTA
*
1019294 AAATGGT-TCTAAAATACATG
1 AAATGGTCT-TAAAATGCATG
1019314 GATTTGCATA
Statistics
Matches: 522, Mismatches: 105, Indels: 58
0.76 0.15 0.08
Matches are distributed among these distances:
55 1 0.00
56 4 0.01
57 138 0.26
58 313 0.60
59 65 0.12
60 1 0.00
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (58 bp):
AAATGGTCTTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATGACTA
Found at i:1018766 original size:29 final size:29
Alignment explanation
Indices: 1018734--1018828 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
1018724 TAAAATGCAT
1018734 AAAATTATATAATAGTCCTTAAATCATGA
1 AAAATTATATAATAGTCCTTAAATCATGA
* * * * *
1018763 AAAATAACTAAAATTGTGCTAAAATGCATG-
1 AAAATTA-TATAATAGTCCTTAAAT-CATGA
* * *
1018793 -AAATTACATAATAATCTTTAAATCATGA
1 AAAATTATATAATAGTCCTTAAATCATGA
*
1018821 AAGATTAT
1 AAAATTAT
1018829 TAAATAACTG
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
27 4 0.09
28 10 0.21
29 16 0.34
30 13 0.28
31 4 0.09
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAATTATATAATAGTCCTTAAATCATGA
Found at i:1018801 original size:115 final size:116
Alignment explanation
Indices: 1018600--1019298 Score: 573
Period size: 115 Copynumber: 6.0 Consensus size: 116
1018590 AAAATGTTTT
* * * * * * **
1018600 AAATGATCTTAAAATGCATGAAA-TAGTATAATTGACCCTAAATCATGGAAAATCATTAAAATAA
1 AAATGATCTTAAAATGCATGAAATTA-CATAATAGTCCCTAAATCATGAAAAATGACTAAAATTG
** ** * * * *
1018664 CCCTAAAATATAT-AAATTTACATAATGGTCCATGAATCATGAAAAATGAAT-
65 TGCTAAAATGCATGAAA-TTACATAATAGTCCCTAAATCATGAAAAATGACTA
* * * * *
1018715 AAATGGTCTTAAAATGCATAAAATTATATAATAGTCCTTAAATCATGAAAAATAACTAAAATTGT
1 AAATGATCTTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTAAAATTGT
* ** * * *
1018780 GCTAAAATGCATGAAATTACATAATAATCTTTAAATCATGAAAGATTA-TT
66 GCTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTA
* * * * *
1018830 AAAT-AACTGTGAAATGCAT-AAATTTGCATAAT-GTTCCCTAAATCTTGGAAAATGACTAAAAT
1 AAATGATCT-TAAAATGCATGAAA-TTACATAATAG-TCCCTAAATCATGAAAAATGACTAAAAT
* ** * * * *
1018892 GGTTTTAAAATGCATGAAATTATATAATTGTCCCTAAATGATGAAAAAAAGACTA
63 TGTGCTAAAATGCATGAAATTACATAATAGTCCCTAAATCATG-AAAAATGACTA
* * * * *
1018947 AAATGATCCTAAAATGTATGAAACTACATAATAGTTCTTAAATCATGAAAAATGACTAAAA-TGA
1 AAATGATCTTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTAAAATTG-
* **
1019011 TGC-CAAATGCATGAAATTACATAATAACCCCTAAAAT-ATGAAAAATGACTA
65 TGCTAAAATGCATGAAATTACATAATAGTCCCT-AAATCATGAAAAATGACTA
* * * * **
1019062 AAATAGTTC-TAAAATGCATGAATTTACATAATAATCCCTAAATCATGAAAAATGATTAAAACAA
1 AAAT-GATCTTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTAAAA-TT
* * * *
1019126 CT-CTAAAATGCAT-AAATTTGCAAAATAGTCCTTAAATCATGAAAAATGACTA
64 GTGCTAAAATGCATGAAA-TTACATAATAGTCCCTAAATCATGAAAAATGACTA
* * * * *
1019178 AAATGGTTTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAAAAATGAC-AAAAGTGT
1 AAATGATCTTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTAAAATTG-
* * * * *
1019242 TTCTAAAATGCATGAAATTACATAATAATCTCC-AAATCGTGAAAAATAAATA
65 TGCTAAAATGCATGAAATTACATAATAGTC-CCTAAATCATGAAAAATGACTA
1019294 AAATG
1 AAATG
1019299 GTTCTAAAAT
Statistics
Matches: 465, Mismatches: 95, Indels: 47
0.77 0.16 0.08
Matches are distributed among these distances:
114 7 0.02
115 237 0.51
116 163 0.35
117 52 0.11
118 6 0.01
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (116 bp):
AAATGATCTTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTAAAATTGT
GCTAAAATGCATGAAATTACATAATAGTCCCTAAATCATGAAAAATGACTA
Found at i:1018993 original size:232 final size:230
Alignment explanation
Indices: 1018635--1019272 Score: 685
Period size: 232 Copynumber: 2.8 Consensus size: 230
1018625 GTATAATTGA
* * * * * ** * * * *
1018635 CCCTAAATCATGGAAAATCATTAAAATAACCCTAAAATATATAAATTTACATAATGGTCCATGAA
1 CCCTAAATCATGAAAAATGACTAAAACAACTCTAAAATGCATAAATTT-CAAAATAGTCCCTAAA
* * *
1018700 TCATGAAAAATGAAT-AAATGGTCTTAAAATGCATAAAATTATATAATAGTCCTTAAATCATGAA
65 TCATGAAAAAAGACTAAAATGGTCTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAA
* * * *
1018764 AAATAACTAAAATTG-TGCTAAAATGCATGAAATTACATAATAATCTTTAAATCATGAAAGATTA
130 AAATGACTAAAA-TGATGCTAAAATGCATGAAATTACATAATAATCTTAAAAT-ATGAAAAATGA
* * * * **
1018828 -TTAAATAACTGTGAAATGCATAAATTTGCATAATGTT
193 CTAAAATAACTCTAAAATGCATAAATTTACATAATAAT
* * **** * * *
1018865 CCCTAAATCTTGGAAAATGACTAAAATGGTTTTAAAATGCATGAAATTAT-ATAATTGTCCCTAA
1 CCCTAAATCATGAAAAATGACTAAAACAACTCTAAAATGCAT-AAATT-TCAAAATAGTCCCTAA
* * * * * * *
1018929 ATGATGAAAAAAAGACTAAAATGATCCTAAAATGTATGAAACTACATAATAGTTCTTAAATCATG
64 ATCATG-AAAAAAGACTAAAATGGTCTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATG
* * *
1018994 AAAAATGACTAAAATGATGC-CAAATGCATGAAATTACATAATAACCCCTAAAATATGAAAAATG
128 AAAAATGACTAAAATGATGCTAAAATGCATGAAATTACATAATAA-TCTTAAAATATGAAAAATG
** *
1019058 ACTAAAATAGTTCTAAAATGCATGAATTTACATAATAAT
192 ACTAAAATAACTCTAAAATGCATAAATTTACATAATAAT
* *
1019097 CCCTAAATCATGAAAAATGATTAAAACAACTCTAAAATGCATAAATTTGCAAAATAGTCCTTAAA
1 CCCTAAATCATGAAAAATGACTAAAACAACTCTAAAATGCATAAATTT-CAAAATAGTCCCTAAA
* *
1019162 TCATGAAAAATGACTAAAATGGTTTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAA
65 TCATGAAAAAAGACTAAAATGGTCTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAA
* *
1019227 AAATGAC-AAAAGTGTTTCTAAAATGCATGAAATTACATAATAATCT
130 AAATGACTAAAA-TGATGCTAAAATGCATGAAATTACATAATAATCT
1019273 CCAAATCGTG
Statistics
Matches: 333, Mismatches: 64, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
230 53 0.16
231 116 0.35
232 164 0.49
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (230 bp):
CCCTAAATCATGAAAAATGACTAAAACAACTCTAAAATGCATAAATTTCAAAATAGTCCCTAAAT
CATGAAAAAAGACTAAAATGGTCTTAAAATGCATGAAATTATATAATAGTCCTTAAATCATGAAA
AATGACTAAAATGATGCTAAAATGCATGAAATTACATAATAATCTTAAAATATGAAAAATGACTA
AAATAACTCTAAAATGCATAAATTTACATAATAAT
Found at i:1019189 original size:29 final size:30
Alignment explanation
Indices: 1018976--1019237 Score: 103
Period size: 29 Copynumber: 9.1 Consensus size: 30
1018966 GAAACTACAT
*
1018976 AATAGTTCTTAAATCATGAAAAATGACTAA
1 AATAGTCCTTAAATCATGAAAAATGACTAA
* *
1019006 AAT-GATGCC--AAATGCATG--AAATTAC-AT
1 AATAG-T-CCTTAAAT-CATGAAAAATGACTAA
** *
1019033 AATAACCCCTAAAAT-ATGAAAAATGACTAA
1 AAT-AGTCCTTAAATCATGAAAAATGACTAA
* * * * *
1019063 AATAGTTCTAAAATGCATG--AATTTAC-AT
1 AATAGTCCTTAAAT-CATGAAAAATGACTAA
* * *
1019091 AATAATCCCTAAATCATGAAAAATGATTAA
1 AATAGTCCTTAAATCATGAAAAATGACTAA
* * * **
1019121 AACA-ACTCTAAAATGCAT-AAATTTG-C-AA
1 AATAGTC-CTTAAAT-CATGAAAAATGACTAA
1019149 AATAGTCCTTAAATCATGAAAAATGACTAA
1 AATAGTCCTTAAATCATGAAAAATGACTAA
* * * *
1019179 AATGGT-TTTAAAATGCATG--AAATTA-TAT
1 AATAGTCCTT-AAAT-CATGAAAAATGACTAA
1019207 AATAGTCCTTAAATCATGAAAAATGAC-AA
1 AATAGTCCTTAAATCATGAAAAATGACTAA
1019236 AA
1 AA
1019238 GTGTTTCTAA
Statistics
Matches: 164, Mismatches: 41, Indels: 55
0.63 0.16 0.21
Matches are distributed among these distances:
27 20 0.12
28 44 0.27
29 52 0.32
30 37 0.23
31 11 0.07
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.28
Consensus pattern (30 bp):
AATAGTCCTTAAATCATGAAAAATGACTAA
Found at i:1019321 original size:174 final size:173
Alignment explanation
Indices: 1018698--1019313 Score: 592
Period size: 174 Copynumber: 3.6 Consensus size: 173
1018688 ATGGTCCATG
* * * * * *
1018698 AATCATGAAAAATGAAT-AAAT-GGTCTTAAAATGCATAAAATTATATAATAGTCCTTAAATCAT
1 AATCATGAAAAATGACTAAAATAGTTC-TAAAATGCATGAAATTACATAATAATCCCTAAATCAT
* * * * *
1018761 GAAAAATAACTAAAATTG-TGCTAAAATGCATGAAATTACATAATAATCTTTAAATCATGAAAGA
65 GAAAAATAAATAAAA-TGATTCTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAA
* * * * *
1018825 TTA-TTAAATAACTGTGAAATGCAT-AAATT-TGCATAAT-GTTCCCTA
129 TGACTAAAATGA-TGTAAAATGCATGAAATTAT--ATAATAG-TCCTTA
* * * * * ** *
1018870 AATCTTGGAAAATGACTAAAATGGTTTTAAAATGCATGAAATTATATAATTGTCCCTAAATGATG
1 AATCATGAAAAATGACTAAAATAGTTCTAAAATGCATGAAATTACATAATAATCCCTAAATCATG
* * * *
1018935 AAAAA-AAGACTAAAATGATCCTAAAATGTATGAAACTACATAATAGTTCTTAAATCATGAAAAA
66 AAAAATAA-A-TAAAATGATTCTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAA
** * ** *
1018999 TGACTAAAATGATGCCAAATGCATGAAATTACATAATAACCCCTAA
129 TGACTAAAATGATGTAAAATGCATGAAATTATATAAT-AGTCCTTA
*
1019045 AAT-ATGAAAAATGACTAAAATAGTTCTAAAATGCATGAATTTACATAATAATCCCTAAATCATG
1 AATCATGAAAAATGACTAAAATAGTTCTAAAATGCATGAAATTACATAATAATCCCTAAATCATG
* * ** * * *
1019109 AAAAATGATTAAAACAACTCTAAAATGCAT-AAATTTGCAAAATAGTCCTTAAATCATGAAAAAT
66 AAAAATAAATAAAATGATTCTAAAATGCATGAAA-TTACATAATAGTCCTTAAATCATGAAAAAT
* *
1019173 GACTAAAATGGTTTTAAAATGCATGAAATTATATAATAGTCCTTA
130 GACTAAAAT-GATGTAAAATGCATGAAATTATATAATAGTCCTTA
1019218 AATCATGAAAAATGAC-AAAAGT-GTTTCTAAAATGCATGAAATTACATAATAATCTCC-AAATC
1 AATCATGAAAAATGACTAAAA-TAG-TTCTAAAATGCATGAAATTACATAATAATC-CCTAAATC
* * *
1019280 GTGAAAAATAAATAAAATGGTTCTAAAATACATG
63 ATGAAAAATAAATAAAATGATTCTAAAATGCATG
1019314 GATTTGCATA
Statistics
Matches: 362, Mismatches: 64, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
172 19 0.05
173 109 0.30
174 214 0.59
175 20 0.06
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.30
Consensus pattern (173 bp):
AATCATGAAAAATGACTAAAATAGTTCTAAAATGCATGAAATTACATAATAATCCCTAAATCATG
AAAAATAAATAAAATGATTCTAAAATGCATGAAATTACATAATAGTCCTTAAATCATGAAAAATG
ACTAAAATGATGTAAAATGCATGAAATTATATAATAGTCCTTA
Found at i:1022624 original size:10 final size:9
Alignment explanation
Indices: 1022605--1022641 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
1022595 GCTAGCTTGG
1022605 TTTTTTCTA
1 TTTTTTCTA
1022614 TTTTTTCCTA
1 TTTTTT-CTA
1022624 TTTTCTTCTA
1 TTTT-TTCTA
1022634 TTTTTTCT
1 TTTTTTCT
1022642 CTTGTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 10 0.38
10 14 0.54
11 2 0.08
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:1022668 original size:9 final size:8
Alignment explanation
Indices: 1022635--1022673 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
1022625 TTTCTTCTAT
1022635 TTTTTCTC
1 TTTTTCTC
*
1022643 TTGTTTTTC
1 TT-TTTCTC
1022652 TTTTTCTC
1 TTTTTCTC
1022660 TTTTATCTC
1 TTTT-TCTC
1022669 TTTTT
1 TTTTT
1022674 TCCAGCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (8 bp):
TTTTTCTC
Found at i:1022670 original size:17 final size:17
Alignment explanation
Indices: 1022635--1022673 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1022625 TTTCTTCTAT
*
1022635 TTTTTCTCTTGTTTTTC
1 TTTTTCTCTTGTTTCTC
1022652 TTTTTCTCTT-TTATCTC
1 TTTTTCTCTTGTT-TCTC
1022669 TTTTT
1 TTTTT
1022674 TCCAGCTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTTCTCTTGTTTCTC
Found at i:1023469 original size:167 final size:167
Alignment explanation
Indices: 1023296--1023618 Score: 406
Period size: 167 Copynumber: 1.9 Consensus size: 167
1023286 CGATTTTTCG
** ** **
1023296 AAAAAAAAGGGA-TTTCAAAGAAAAAAATCCAAAATTTATGAAAATGAACT-AATTTTTTGAAAC
1 AAAAAAAAGGGAGTTTC-AAGAAAAAAATAAAAAATGAATGAAAATGAA-TGAA-TTTTCAAAAC
* * * *
1023359 -AGAATTAATAT-GAATCAAATAATGATGTTTGATGAATTTTAAAAATTAAAAACTGAGAAAAAT
63 TA-AATTAATATAAAAT-AAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAT
*
1023422 -CTCTCCGAAAAAATTTACGGAGCAA-AAAACACCGTATTTCAA
126 CCTC-CCAAAAAAATTTACGGAG-AAGAAAACACCGTATTTCAA
*
1023464 AAAAAAAAGGGAGTTTCAAGGAAAAAATAAAAAATGAATGAAAATGAATGAATTTTCAAAACTAA
1 AAAAAAAAGGGAGTTTCAAGAAAAAAATAAAAAATGAATGAAAATGAATGAATTTTCAAAACTAA
* * *
1023529 ATTAATATAAAATAAATGATAATATTTGATGAATTTTAAAAATTAAAAATTAATAAAAATCCTCC
66 ATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCC
1023594 CAAAAAAATTTACGGAGAAGAAAAC
131 CAAAAAAATTTACGGAGAAGAAAAC
1023619 CCTATAATTC
Statistics
Matches: 134, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
166 2 0.01
167 81 0.60
168 47 0.35
169 4 0.03
ACGTcount: A:0.54, C:0.08, G:0.11, T:0.26
Consensus pattern (167 bp):
AAAAAAAAGGGAGTTTCAAGAAAAAAATAAAAAATGAATGAAAATGAATGAATTTTCAAAACTAA
ATTAATATAAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCC
CAAAAAAATTTACGGAGAAGAAAACACCGTATTTCAA
Found at i:1024381 original size:58 final size:58
Alignment explanation
Indices: 1024309--1024694 Score: 382
Period size: 58 Copynumber: 6.7 Consensus size: 58
1024299 GTCTATACAT
* * ** *
1024309 ATAAATCATGAAAAATAATTAAAATAACTCTAAAATGCATAAATTTACATAATAACCC
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
* * * * * **
1024367 CTAAATCATGAAAAATGACAAAAATAATTTTAAAATACATGGATTTACATAATAATCC
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
* * * * * *
1024425 GTAAATCTTGAAAAATAACTGAAATGGTTCTAAAATGCATGAATTTACATAATAATCC
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
* * *
1024483 ATAAATCATGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAA-CC
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
* * * * * * ** *
1024540 TTTAAATAATGGAAAATGACTAAAGTGGTTCCAAAATGCATGGATTTACATAATAATCT
1 -ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
* * * * *
1024599 ATAAATCATGAAAAAGGACTAAAA-GGTGCTAAAATGCATCAAA-TTAGATAATAAGCC
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCAT-AAATTTACATAATAATCC
* * * *
1024656 CTAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCA
1 ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCA
1024695 AGAAATTGCA
Statistics
Matches: 270, Mismatches: 54, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
57 46 0.17
58 223 0.83
59 1 0.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (58 bp):
ATAAATCATGAAAAATGACTAAAATAGTTCTAAAATGCATAAATTTACATAATAATCC
Found at i:1024517 original size:116 final size:115
Alignment explanation
Indices: 1024310--1024694 Score: 459
Period size: 116 Copynumber: 3.3 Consensus size: 115
1024300 TCTATACATA
* * *** * * *
1024310 TAAATCATGAAAAATAATTAAAATAACTCTAAAATGCATAAATTTACATAATAACCCCTAAATCA
1 TAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCATGAATTTACATAATAATCCATAAATCA
* ** ** * ** * *
1024375 TGAAAAATGACAAAAATAATTTTAAAATACATGGATTTACATAATAATCCG
66 TGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAA-CCC
*
1024426 TAAATCTTGAAAAATAACTGAAA-TGGTTCTAAAATGCATGAATTTACATAATAATCCATAAATC
1 TAAATCATGAAAAATAACT-AAAGTGGTTCTAAAATGCATGAATTTACATAATAATCCATAAATC
*
1024490 ATGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAACCTT
65 ATGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAACC-C
* * * * * *
1024542 TAAATAATGGAAAATGACTAAAGTGGTTCCAAAATGCATGGATTTACATAATAATCTATAAATCA
1 TAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCATGAATTTACATAATAATCCATAAATCA
* * *
1024607 TGAAAAAGGACTAAAA-GGTGCTAAAATGCATCAAATTAGATAATAAGCCC
66 TGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAA-CCC
1024657 TAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCA
1 TAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCA
1024695 AGAAATTGCA
Statistics
Matches: 232, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
115 67 0.29
116 162 0.70
117 3 0.01
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (115 bp):
TAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCATGAATTTACATAATAATCCATAAATCA
TGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAACCC
Found at i:1024613 original size:174 final size:172
Alignment explanation
Indices: 1024309--1024707 Score: 476
Period size: 174 Copynumber: 2.3 Consensus size: 172
1024299 GTCTATACAT
* ** * *
1024309 ATAAATCATGAAAAATAATTAAAATAACTCTAAAATGCATAAATTTACATAATAACCCCTAAATC
1 ATAAATCATGAAAAATAACTAAAAT-GGTCTAAAATGCATAAAATTACATAATAACCCCTAAATA
** * *
1024374 ATGAAAAATGACAAAAATAATTTTAAAATACATGGATTTACATAATAATCCGTAAATCTTGAAAA
65 ATGAAAAATGACAAAAATAATTCCAAAATACATGGATTTACATAATAATCCATAAATCATGAAAA
* * * * * *
1024439 ATAACTGAAATGGTTCTAAAATGCATGAATTTACATAATAATCC
130 AGAACT-AAAAGGTGCTAAAATGCATCAAATTACATAATAAGCC
* **
1024483 ATAAATCATGAAAAATGACTAAAATGGTGCTAAAATGCATAAAATTACATAATAACCTTTAAATA
1 ATAAATCATGAAAAATAACTAAAATGGT-CTAAAATGCATAAAATTACATAATAACCCCTAAATA
* * * ** * *
1024548 ATGGAAAATGACTAAAGTGGTTCCAAAATGCATGGATTTACATAATAATCTATAAATCATGAAAA
65 ATGAAAAATGACAAAAATAATTCCAAAATACATGGATTTACATAATAATCCATAAATCATGAAAA
* *
1024613 AGGACTAAAAGGTGCTAAAATGCATCAAATTAGATAATAAGCC
130 AGAACTAAAAGGTGCTAAAATGCATCAAATTACATAATAAGCC
* * *
1024656 CTAAATCATGAAAAATAACTAAAGTGGTTCTAAAATGCA-AGAAATTGCATAA
1 ATAAATCATGAAAAATAACTAAAATGG-TCTAAAATGCATA-AAATTACATAA
1024708 AATGATCTTA
Statistics
Matches: 191, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
172 1 0.01
173 76 0.40
174 114 0.60
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.27
Consensus pattern (172 bp):
ATAAATCATGAAAAATAACTAAAATGGTCTAAAATGCATAAAATTACATAATAACCCCTAAATAA
TGAAAAATGACAAAAATAATTCCAAAATACATGGATTTACATAATAATCCATAAATCATGAAAAA
GAACTAAAAGGTGCTAAAATGCATCAAATTACATAATAAGCC
Found at i:1028928 original size:18 final size:18
Alignment explanation
Indices: 1028871--1028928 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
1028861 AGATGAAAGC
*
1028871 TTTCTTTCTTCCTTTCTTTT
1 TTTCTTT-TT-CTTTCATTT
* *
1028891 TTTCTTTTTCTTTTAGTT
1 TTTCTTTTTCTTTCATTT
1028909 TTTCTTTTT-TTCTCATTT
1 TTTCTTTTTCTT-TCATTT
1028927 TT
1 TT
1028929 CTTGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 21 0.66
19 2 0.06
20 7 0.22
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTTTCTTTCATTT
Found at i:1029808 original size:22 final size:22
Alignment explanation
Indices: 1029738--1029822 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 22
1029728 TTATTTGTAA
*
1029738 TTTAATTAAAAATTTTAAAAAG
1 TTTAATTAAAAATCTTAAAAAG
*
1029760 TTTGAA-TGAAAATCCTATAAGTAAAAG
1 TTT-AATTAAAAAT-CT-T-A--AAAAG
*
1029787 TTTAATTGAAAATCTTAAAAAG
1 TTTAATTAAAAATCTTAAAAAG
1029809 TTTAATTAAAAATC
1 TTTAATTAAAAATC
1029823 CTATGAGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
22 27 0.51
23 3 0.06
24 2 0.04
25 2 0.04
26 4 0.08
27 15 0.28
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (22 bp):
TTTAATTAAAAATCTTAAAAAG
Found at i:1034099 original size:20 final size:20
Alignment explanation
Indices: 1034057--1034105 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1034047 AACATGATTT
**
1034057 TGTATCGATACATTTGGAAA
1 TGTATCGATACATTTACAAA
**
1034077 TGTATCGATACATTTACTTA
1 TGTATCGATACATTTACAAA
1034097 TGTATCGAT
1 TGTATCGAT
1034106 CCAATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTACAAA
Found at i:1034115 original size:80 final size:80
Alignment explanation
Indices: 1033978--1034171 Score: 343
Period size: 80 Copynumber: 2.4 Consensus size: 80
1033968 TGACTTGCAG
*
1033978 GTATCGATACATTTGGAAATGTATCGATACATTTACTTATGTATTGATCCAACTTTTGGACCAGA
1 GTATCGATACATTTGGAAATGTATCGATACATTTACTTATGTATCGATCCAACTTTTGGACCAGA
1034043 ATACAACATGATTTT
66 ATACAACATGATTTT
*
1034058 GTATCGATACATTTGGAAATGTATCGATACATTTACTTATGTATCGATCCAATTTTTGGACCAGA
1 GTATCGATACATTTGGAAATGTATCGATACATTTACTTATGTATCGATCCAACTTTTGGACCAGA
*
1034123 ATACAACATGGTTTT
66 ATACAACATGATTTT
*
1034138 GTATCGATACATTTGAGACATGTATCGATACATT
1 GTATCGATACATTTG-GAAATGTATCGATACATT
1034172 CACTAATTGA
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
80 92 0.84
81 17 0.16
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (80 bp):
GTATCGATACATTTGGAAATGTATCGATACATTTACTTATGTATCGATCCAACTTTTGGACCAGA
ATACAACATGATTTT
Found at i:1034141 original size:40 final size:39
Alignment explanation
Indices: 1034017--1034145 Score: 104
Period size: 40 Copynumber: 3.2 Consensus size: 39
1034007 CATTTACTTA
*
1034017 TGTATTGATCCAACTTTTGGACCAGAATACAACATGATTT
1 TGTATCGATCCAA-TTTTGGACCAGAATACAACATGATTT
* * * * *
1034057 TGTATCGATAC-A-TTTGGA-AATGTAT-CGATACATTTACTTA
1 TGTATCGATCCAATTTTGGACCA-GAATAC-A-ACA-TGA-TTT
*
1034097 TGTATCGATCCAATTTTTGGACCAGAATACAACATGGTTT
1 TGTATCGATCCAA-TTTTGGACCAGAATACAACATGATTT
1034137 TGTATCGAT
1 TGTATCGAT
1034146 ACATTTGAGA
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
36 2 0.03
37 10 0.15
38 3 0.04
39 3 0.04
40 32 0.48
41 2 0.03
42 3 0.04
43 10 0.15
44 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (39 bp):
TGTATCGATCCAATTTTGGACCAGAATACAACATGATTT
Found at i:1041375 original size:30 final size:30
Alignment explanation
Indices: 1041322--1041459 Score: 111
Period size: 30 Copynumber: 4.5 Consensus size: 30
1041312 AAAGTTCATG
* *
1041322 ACTCAGTGGCA-CCCTTCTTAAAGTCCACA
1 ACTCAGTGGCATCTCTTCTCAAAGTCCACA
**
1041351 ACTCAGTGGCATCTCTTCTCAAAGTCCATG
1 ACTCAGTGGCATCTCTTCTCAAAGTCCACA
* * *
1041381 ACTTC-GTGGCACCCTTTTTCTTTTTAAAGTCCACGA
1 AC-TCAGTGGCA-----TCTCTTCTCAAAGTCCAC-A
* *
1041417 A-TTAGTGGCATCTATTCTCAAAGTCCACA
1 ACTCAGTGGCATCTCTTCTCAAAGTCCACA
1041446 ACTCAGTGGCATCT
1 ACTCAGTGGCATCT
1041460 TTTTCTTTCC
Statistics
Matches: 84, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
29 13 0.15
30 47 0.56
31 2 0.02
34 1 0.01
35 20 0.24
36 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
ACTCAGTGGCATCTCTTCTCAAAGTCCACA
Found at i:1041455 original size:65 final size:64
Alignment explanation
Indices: 1041339--1041555 Score: 174
Period size: 65 Copynumber: 3.2 Consensus size: 64
1041329 GGCACCCTTC
* **
1041339 TTAAAGTCCACAACTCAGTGGCATCTCTTCTCAAAGTCCATGACTTCGTGGCACCCTTTTTCTTT
1 TTAAAGTCCACAACTCAGTGGCATCTATTCTCAAAGTCCACAACTTCGTGGCA-CCTTTTTCTTT
* *
1041404 TTAAAGTCCACGAA-TTAGTGGCATCTATTCTCAAAGTCCACAAC-TCAGTGGCATCTTTTTCTT
1 TTAAAGTCCAC-AACTCAGTGGCATCTATTCTCAAAGTCCACAACTTC-GTGGCACCTTTTTC--
1041467 TCCCTT
62 T---TT
* * * * * *
1041473 TTTAAGTCCACAACTCCA-TGGCACCTTTTTCTTTTAAAGTCCACAAC-TCTTTGGTACCCTTTT
1 TTAAAGTCCACAACT-CAGTGGCATC-TATTC--TCAAAGTCCACAACTTC-GTGGCA-CCTTTT
1041536 TCTTT
60 TCTTT
1041541 TTAAA-TCCACAACTC
1 TTAAAGTCCACAACTC
1041556 CATGGTACCC
Statistics
Matches: 124, Mismatches: 15, Indels: 25
0.76 0.09 0.15
Matches are distributed among these distances:
64 9 0.07
65 43 0.35
66 4 0.03
67 9 0.07
68 8 0.06
69 19 0.15
70 5 0.04
71 1 0.01
72 19 0.15
73 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (64 bp):
TTAAAGTCCACAACTCAGTGGCATCTATTCTCAAAGTCCACAACTTCGTGGCACCTTTTTCTTT
Found at i:1041513 original size:33 final size:33
Alignment explanation
Indices: 1041470--1042143 Score: 417
Period size: 33 Copynumber: 20.8 Consensus size: 33
1041460 TTTTCTTTCC
*
1041470 CTTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* ** *
1041503 CTTTTAAAGTCCACAACTCTTTGGTACCCTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* * *
1041537 CTTTTTAAATCCACAACTCCATGGTACC-----
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
** *
1041565 C-TTTTAAGAT-CACAACTTTGTGGCACCTTTCT
1 CTTTTTAAG-TCCACAACTCCGTGGCACCTTTTT
* ** ** *
1041597 CTTTTAAAGTCCATGACTTTGTGGCACATTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* * *
1041631 CTTTTTAAGTCCACAACTCCATAGCACATTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
* *
1041665 CTTTTTATGTCCACAACT-CTTGGCACCCTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* * * ** *
1041698 CTTTTAAAGTCCATAATTCTATGGCACATTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1041731 CTTTTCAAGCCCACAACTCCGTGGTGC-CCTTTTT
1 CTTTTTAAGTCCACAACTCCGT-G-GCACCTTTTT
* * *
1041765 CTTTTTAAGTCCATAACTTCGTGGCACCTTTTC
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
1041798 CTTTTTAAGTCCACAACTTCG-AGCACATTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * * *
1041830 CTTTTAAAGCCCATAACTTCGTGGCACCCTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
* *
1041864 CTTTTTAAGTCTACAACTCTGTGGCATCC-----
1 CTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
**** *
1041893 C--TTTAAGTCCACAACTCCACAAC-CCCTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* ** *
1041923 CTTTTTAAAGTCTATGACTCCATGGCACCTTTTT
1 CTTTTT-AAGTCCACAACTCCGTGGCACCTTTTT
*
1041957 CTTTTTAAGTCCACAACTCTGTGGCACC-----
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * **
1041985 C-TTTTAACTCCACAACTCCGTGGCATCTTTCC
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* * *
1042017 CTTTTAAAGTCCACGACTCTGTGGTGC-CCTTTTT
1 CTTTTTAAGTCCACAACTCCGT-G-GCACCTTTTT
* * * * **
1042051 CTTTTTAGGTCCATAACTTCGTGACACCTTTCC
1 CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* ** * *
1042084 CTTTTAAAGTCCACAACTTTGTGACACATTTTTT
1 CTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
*
1042118 CTTTTTAAGTCCATAACTCCGTGGCA
1 CTTTTTAAGTCCACAACTCCGTGGCA
1042144 TCCCTTTAAG
Statistics
Matches: 492, Mismatches: 113, Indels: 71
0.73 0.17 0.11
Matches are distributed among these distances:
25 2 0.00
27 58 0.12
28 3 0.01
29 1 0.00
30 1 0.00
32 35 0.07
33 195 0.40
34 193 0.39
35 4 0.01
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (33 bp):
CTTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1041551 original size:67 final size:67
Alignment explanation
Indices: 1041386--1042143 Score: 463
Period size: 67 Copynumber: 11.6 Consensus size: 67
1041376 CCATGACTTC
** * * *
1041386 GTGGCACCCTTTTTCTTTTTAAAGTCCACGAA-TTAGTGGCATC-TATTC--TCAAAGTCCACAA
1 GTGGCACCCTTTTTCTTTTT-AAGTCCAC-AACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAA
*
1041447 CTCA
64 CTCT
** *
1041451 GTGGCATCTTTTTCTTTCCCTTTTTAAGTCCACAACTCCATGGCACCTTTTTCTTTTAAAGTCCA
1 GTGGCA-C-CCTT-TTT--CTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCA
1041516 CAACTCT
61 CAACTCT
* * * * *
1041523 TTGGTACCCTTTTTCTTTTTAAATCCACAACTCCATGGTACC-----CTTTT-AAGAT-CACAAC
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-TCCACAAC
*
1041581 TTT
65 TCT
* * ** ** * *
1041584 GTGGCA-CCTTTCTCTTTTAAAGTCCATGACTTTGTGGCACATTTTTTCTTTTTAAGTCCACAAC
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTAAAGTCCACAAC
*
1041648 TCC
65 TCT
* * ** * * * *
1041651 ATAGCACATTTTTTCTTTTTATGTCCACAACT-CTTGGCACCCTTTTTCTTTTAAAGTCCATAAT
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTAAAGTCCACAAC
1041715 TCT
65 TCT
* * * * * *
1041718 ATGGCA-CATTTTTCTTTTCAAGCCCACAACTCCGTGGTGC-CCTTTTTCTTTTTAAGTCCATAA
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGT-G-GCACCTTTTTCTTTTAAAGTCCACAA
1041781 CT-T
64 CTCT
* * * * * *
1041784 CGTGGCA-CCTTTTCCTTTTTAAGTCCACAACTTCG-AGCACATTTTTCTTTTAAAGCCCATAAC
1 -GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAAC
1041847 T-T
65 TCT
* *
1041849 CGTGGCACCCTTTTTCTTTTTAAGTCTACAACTCTGTGGCATCC-----C-TTT-AAGTCCACAA
1 -GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCA-CCTTTTTCTTTTAAAGTCCACAA
1041907 CTC-
64 CTCT
** * * ** * *
1041910 --CACAACCCCTTTTCTTTTTAAAGTCTATGACTCCATGGCACCTTTTTCTTTTTAAGTCCACAA
1 GTGGC-ACCCTTTTTCTTTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAA
1041973 CTCT
64 CTCT
* * ** *
1041977 GTGGCA-CC-----C-TTTTAACTCCACAACTCCGTGGCATCTTTCCCTTTTAAAGTCCACGACT
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACT
1042035 CT
66 CT
** * * * * **
1042037 GTGGTGCCCTTTTTCTTTTTAGGTCCATAACTTCGTGACACCTTTCCCTTTTAAAGTCCACAACT
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACT
*
1042102 TT
66 CT
* ** *
1042104 GTGACACATTTTTTCTTTTTAAGTCCATAACTCCGTGGCA
1 GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCA
1042144 TCCCTTTAAG
Statistics
Matches: 535, Mismatches: 110, Indels: 94
0.72 0.15 0.13
Matches are distributed among these distances:
58 1 0.00
59 16 0.03
60 82 0.15
61 31 0.06
62 10 0.02
63 1 0.00
64 3 0.01
65 39 0.07
66 66 0.12
67 206 0.39
68 27 0.05
69 21 0.04
70 12 0.02
71 1 0.00
72 19 0.04
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (67 bp):
GTGGCACCCTTTTTCTTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACT
CT
Found at i:1042022 original size:93 final size:93
Alignment explanation
Indices: 1041851--1042068 Score: 242
Period size: 93 Copynumber: 2.3 Consensus size: 93
1041841 CATAACTTCG
* *
1041851 TGGCACCCTTTTTCTTTTTAAGTCTACAACTCTGTGGCATCCCTTTAAGTCCACAACTCCACAAC
1 TGGCA-CCTTTTTCTTTTTAAGTCCACAACTCTGTGGCATCCCTTTAACTCCACAACTCCACAAC
* * * * *
1041916 CCCTTTTCTTTTTAAAGTCTATGACTCCA
65 ACCTTTCCCTTTTAAAGTCCACGACTCCA
****
1041945 TGGCACCTTTTTCTTTTTAAGTCCACAACTCTGTGGCA-CCCTTTTAACTCCACAACTCCGTGGC
1 TGGCACCTTTTTCTTTTTAAGTCCACAACTCTGTGGCATCCC-TTTAACTCCACAACTCCACAAC
* **
1042009 ATCTTTCCCTTTTAAAGTCCACGACTCTG
65 ACCTTTCCCTTTTAAAGTCCACGACTCCA
* *
1042038 TGGTGC-CCTTTTTCTTTTTAGGTCCATAACT
1 T-G-GCACCTTTTTCTTTTTAAGTCCACAACT
1042069 TCGTGACACC
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
92 3 0.03
93 71 0.68
94 29 0.28
95 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (93 bp):
TGGCACCTTTTTCTTTTTAAGTCCACAACTCTGTGGCATCCCTTTAACTCCACAACTCCACAACA
CCTTTCCCTTTTAAAGTCCACGACTCCA
Found at i:1043378 original size:13 final size:13
Alignment explanation
Indices: 1043360--1043417 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1043350 ACATTTAGTC
1043360 ATGTATCGATACA
1 ATGTATCGATACA
1043373 ATGTATCGATACA
1 ATGTATCGATACA
*
1043386 TCTTCTATCTATCGATACA
1 ------ATGTATCGATACA
1043405 ATGTATCGATACA
1 ATGTATCGATACA
1043418 TCTTCTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 25 0.68
19 12 0.32
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1043400 original size:19 final size:19
Alignment explanation
Indices: 1043373--1043436 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1043363 TATCGATACA
1043373 ATGTATCGATACATCTTCT
1 ATGTATCGATACATCTTCT
*
1043392 ATCTATCGATACA------
1 ATGTATCGATACATCTTCT
1043405 ATGTATCGATACATCTTCT
1 ATGTATCGATACATCTTCT
1043424 ATGTATCGATACA
1 ATGTATCGATACA
1043437 AATAGTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 12 0.32
19 25 0.68
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATCTTCT
Found at i:1043404 original size:32 final size:32
Alignment explanation
Indices: 1043363--1043437 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
1043353 TTTAGTCATG
1043363 TATCGATACAATGTATCGATACATCTTCTATC
1 TATCGATACAATGTATCGATACATCTTCTATC
*
1043395 TATCGATACAATGTATCGATACATCTTCTATG
1 TATCGATACAATGTATCGATACATCTTCTATC
1043427 TATCGATACAA
1 TATCGATACAA
1043438 ATAGTTAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (32 bp):
TATCGATACAATGTATCGATACATCTTCTATC
Found at i:1043467 original size:23 final size:23
Alignment explanation
Indices: 1043437--1043485 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1043427 TATCGATACA
1043437 AATAGTTAAGGGTAGCTACTGCC
1 AATAGTTAAGGGTAGCTACTGCC
1043460 AATAGTTAAGGGTAGCTACTGCC
1 AATAGTTAAGGGTAGCTACTGCC
1043483 AAT
1 AAT
1043486 CACCTGTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (23 bp):
AATAGTTAAGGGTAGCTACTGCC
Found at i:1043547 original size:13 final size:13
Alignment explanation
Indices: 1043529--1043553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1043519 TACAGTGGTC
1043529 ATGTATCGATACA
1 ATGTATCGATACA
1043542 ATGTATCGATAC
1 ATGTATCGATAC
1043554 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1043571 original size:33 final size:32
Alignment explanation
Indices: 1043512--1043574 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1043502 ATCTTTGCAA
*
1043512 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
1043544 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
1043575 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:1044121 original size:16 final size:17
Alignment explanation
Indices: 1044100--1044153 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 17
1044090 GTTTTTGTTT
1044100 TTCTCCCCTTTAAA-AA
1 TTCTCCCCTTTAAACAA
1044116 TTCTCCCCTTTAAACAA
1 TTCTCCCCTTTAAACAA
1044133 TTATCTCCTCC-TTAAACAA
1 -T-TCTCC-CCTTTAAACAA
1044152 TT
1 TT
1044154 ATCTTCTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.41
17 3 0.09
18 2 0.06
19 13 0.38
20 2 0.06
ACGTcount: A:0.30, C:0.31, G:0.00, T:0.39
Consensus pattern (17 bp):
TTCTCCCCTTTAAACAA
Found at i:1044147 original size:19 final size:19
Alignment explanation
Indices: 1044125--1044162 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1044115 ATTCTCCCCT
1044125 TTAAACAATTATCTCCTCC
1 TTAAACAATTATCTCCTCC
*
1044144 TTAAACAATTATCTTCTCC
1 TTAAACAATTATCTCCTCC
1044163 CCCTTTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAACAATTATCTCCTCC
Found at i:1044167 original size:22 final size:20
Alignment explanation
Indices: 1044115--1044167 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
1044105 CCCTTTAAAA
*
1044115 ATTCTCCCCTTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
*
1044135 A-TCTCCTCCTTAAACAATT
1 ATTCTCCCCCTTAAACAATT
1044154 ATCTTCTCCCCCTT
1 A--TTCTCCCCCTT
1044168 TATGTAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 17 0.63
20 1 0.04
22 9 0.33
ACGTcount: A:0.25, C:0.36, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTCTCCCCCTTAAACAATT
Found at i:1052210 original size:13 final size:13
Alignment explanation
Indices: 1052192--1052216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1052182 TACAGTGGTC
1052192 ATGTATCGATACA
1 ATGTATCGATACA
1052205 ATGTATCGATAC
1 ATGTATCGATAC
1052217 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1052234 original size:33 final size:32
Alignment explanation
Indices: 1052175--1052237 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1052165 ATCTTTGCAA
*
1052175 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
1052207 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
1052238 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:1053090 original size:13 final size:13
Alignment explanation
Indices: 1053072--1053096 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1053062 ATATTGCTTA
1053072 GTATCGATACATT
1 GTATCGATACATT
1053085 GTATCGATACAT
1 GTATCGATACAT
1053097 GTTCATAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1053217 original size:20 final size:21
Alignment explanation
Indices: 1053177--1053229 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
1053167 TCGATACAAA
*
1053177 GTATCGATACATACTTAAATT
1 GTATCGATACATACGTAAATT
*
1053198 GTATCGATACAT-GGTAAATT
1 GTATCGATACATACGTAAATT
1053218 GTATCGATACAT
1 GTATCGATACAT
1053230 TGAGCCCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATCGATACATACGTAAATT
Found at i:1058028 original size:20 final size:20
Alignment explanation
Indices: 1058005--1058170 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 20
1057995 TAAAAGACAG
*
1058005 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1058025 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1058045 CATGTATCGATACATTAAAA
1 AATGTATCGATACATTCAAA
* *
1058065 AATATATCGATACATCTGGGTAAAAAGACAA
1 AATGTATCGATACA--T---T-----CA-AA
***
1058096 AATGTATCGATACATTCTTT
1 AATGTATCGATACATTCAAA
**
1058116 AATGTATCGATACATTCATG
1 AATGTATCGATACATTCAAA
* *
1058136 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1058156 AATGTATCGATACAT
1 AATGTATCGATACAT
1058171 CTCGGTAAAA
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
20 95 0.83
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 1 0.01
31 15 0.13
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1058181 original size:91 final size:91
Alignment explanation
Indices: 1057956--1058181 Score: 355
Period size: 91 Copynumber: 2.5 Consensus size: 91
1057946 TTTCATTAGT
*
1057956 TGTATCGATACATTGAAAAATATATCGATACATCTCGG-ATAAAAGACAGAATGTATCGATACAT
1 TGTATCGATACATTGAAAAATATATCGATACATCTCGGTA-AAAAGACAAAATGTATCGATACAT
*
1058020 TGAAAAATGTATCGATACATTCATACA
65 TCAAAAATGTATCGATACATTCATACA
* *
1058047 TGTATCGATACATTAAAAAATATATCGATACATCTGGGTAAAAAGACAAAATGTATCGATACATT
1 TGTATCGATACATTGAAAAATATATCGATACATCTCGGTAAAAAGACAAAATGTATCGATACATT
*** *
1058112 CTTTAATGTATCGATACATTCATGCA
66 CAAAAATGTATCGATACATTCATACA
*
1058138 TGTATCGATACATTGAAAAATGTATCGATACATCTCGGTAAAAA
1 TGTATCGATACATTGAAAAATATATCGATACATCTCGGTAAAAA
1058182 TGTGACTTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
91 122 0.99
92 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (91 bp):
TGTATCGATACATTGAAAAATATATCGATACATCTCGGTAAAAAGACAAAATGTATCGATACATT
CAAAAATGTATCGATACATTCATACA
Found at i:1058727 original size:3 final size:3
Alignment explanation
Indices: 1058719--1058750 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1058709 TCAACTATCA
*
1058719 ATG ATG ATG AAG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1058751 AAAGTTGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (3 bp):
ATG
Found at i:1063239 original size:26 final size:26
Alignment explanation
Indices: 1063210--1063260 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1063200 AAAGTTTTTA
* * *
1063210 GTATCGATATAGCACATTGATACATT
1 GTATCAATACAGCACATCGATACATT
*
1063236 GTATCAATACAGCATATCGATACAT
1 GTATCAATACAGCACATCGATACAT
1063261 GGGTACTACC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (26 bp):
GTATCAATACAGCACATCGATACATT
Found at i:1065176 original size:20 final size:20
Alignment explanation
Indices: 1065151--1065204 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
1065141 GTTTGAAGCA
1065151 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
1065171 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
1065191 ATGTATCGATACAA
1 ATGTATCGATACAA
1065205 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:1076012 original size:17 final size:17
Alignment explanation
Indices: 1075968--1076019 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
1075958 TACGTGTCAT
*
1075968 TGCATGCTTTT-ACTTCA
1 TGCATG-TTTTCATTTCA
**
1075985 TGCATACTTTCATTTCA
1 TGCATGTTTTCATTTCA
1076002 TGCATGTTTTC-TTTCA
1 TGCATGTTTTCATTTCA
1076018 TG
1 TG
1076020 TTTCACTCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.17, C:0.21, G:0.12, T:0.50
Consensus pattern (17 bp):
TGCATGTTTTCATTTCA
Found at i:1076082 original size:14 final size:14
Alignment explanation
Indices: 1076063--1076102 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
1076053 ACGTAATGTT
*
1076063 CATTTCATGCATTC
1 CATTTCATGCATTA
1076077 CATTTCATGCATTA
1 CATTTCATGCATTA
1076091 CATTTCATGCAT
1 CATTTCATGCAT
1076103 GTTTTCTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (14 bp):
CATTTCATGCATTA
Found at i:1076112 original size:96 final size:98
Alignment explanation
Indices: 1075995--1076187 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
1075985 TGCATACTTT
* *
1075995 CATTTCATGCATGTTTTCTTTCATGTTTCAC-TCATGAGTTCATTTCATG-ATGCATTTCACGTA
1 CATTTCATGCATGTTTTCTTTCATGTTTCACGCCATGAGTTCATTTCATGCATGCATTTCACATA
*
1076058 ATGTTCATTTCA-TGCATTCCATTTCATGCATTA
66 ATGTTCATTTCATTACATTCC-TTTCATGCATTA
1076091 CATTTCATGCATGTTTTCTTTCATGTTTCACGCCATGAGTTCATTTCATGCATGCATTTCACATA
1 CATTTCATGCATGTTTTCTTTCATGTTTCACGCCATGAGTTCATTTCATGCATGCATTTCACATA
*
1076156 ATGTTCATTTCATTACATTGCTTTCATGCATT
66 ATGTTCATTTCATTACATTCCTTTCATGCATT
1076188 TATAATGAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
96 31 0.34
97 17 0.19
98 36 0.40
99 6 0.07
ACGTcount: A:0.22, C:0.21, G:0.11, T:0.46
Consensus pattern (98 bp):
CATTTCATGCATGTTTTCTTTCATGTTTCACGCCATGAGTTCATTTCATGCATGCATTTCACATA
ATGTTCATTTCATTACATTCCTTTCATGCATTA
Found at i:1084073 original size:90 final size:91
Alignment explanation
Indices: 1083960--1084159 Score: 269
Period size: 90 Copynumber: 2.2 Consensus size: 91
1083950 AACTGGATGT
* * *
1083960 ATTGAAAAATGTATCGATTCATTTCTGTAAAAACCCAAAATGCATCGATACAATGAGAAATGTAA
1 ATTGAAAAATATATCGATACATTTCTGTAAAAACCCAAAATGCATCAATACAATGAGAAATGT-A
* *
1084025 T-GATATAATTTCTTATGTAACGATAC
65 TCGATACAATTTCTTATGTAACAATAC
* * * *
1084051 ATTG-AAAATATATCGATACATTTCTGTCAAAACCTAGAATGTATCAATACAATGAGAAATGTAT
1 ATTGAAAAATATATCGATACATTTCTGTAAAAACCCAAAATGCATCAATACAATGAGAAATGTAT
* *
1084115 CGATACAATTTCTTATGTATCAATAT
66 CGATACAATTTCTTATGTAACAATAC
*
1084141 ATTGAAAAATATATAGATA
1 ATTGAAAAATATATCGATA
1084160 TAATTTCTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
89 2 0.02
90 76 0.80
91 17 0.18
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (91 bp):
ATTGAAAAATATATCGATACATTTCTGTAAAAACCCAAAATGCATCAATACAATGAGAAATGTAT
CGATACAATTTCTTATGTAACAATAC
Found at i:1084165 original size:40 final size:40
Alignment explanation
Indices: 1084089--1084168 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
1084079 AAAACCTAGA
* * *
1084089 ATGTATCAATACAATGAGAAATGTATCGATACAATTTCTT
1 ATGTATCAATACAATGAAAAATATATAGATACAATTTCTT
* * *
1084129 ATGTATCAATATATTGAAAAATATATAGATATAATTTCTT
1 ATGTATCAATACAATGAAAAATATATAGATACAATTTCTT
1084169 TCCAGAATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (40 bp):
ATGTATCAATACAATGAAAAATATATAGATACAATTTCTT
Found at i:1084931 original size:53 final size:52
Alignment explanation
Indices: 1084812--1085040 Score: 203
Period size: 53 Copynumber: 4.4 Consensus size: 52
1084802 TAAAGACACC
** * * *
1084812 AATGTGCAAATTCAAGGCCAATGACATTGGACTTAAAGATGGTAAGAACGGCA
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGATAAGAA-TGCA
* * * *
1084865 AATAG-GCTAATTCATGGTCAGC-ATCATTGGACTTAAAGATGATAAGAATGCTA
1 AAT-GTGCTGATTCAAGGCCAACGA-CATTGGACTTAAAGATGATAAGAATGC-A
* * * *
1084918 AATGTGCTGATTCAAGGCCAACGACATTTGACTTAAAGATGACAAAAATGCC
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGATAAGAATGCA
* * * * * * *
1084970 AATATGCTGATTCAAGGCCTACGATAGT-GTCTTAAAGATGATAAAAATGCT
1 AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGATAAGAATGCA
* *
1085021 AATATGCTGATTTAAGGCCA
1 AATGTGCTGATTCAAGGCCA
1085041 TCAAAACTGG
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
51 38 0.26
52 28 0.19
53 79 0.54
54 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (52 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGATAAGAATGCA
Found at i:1085291 original size:31 final size:31
Alignment explanation
Indices: 1085230--1085720 Score: 433
Period size: 31 Copynumber: 15.5 Consensus size: 31
1085220 TACAAGGAGA
* * *
1085230 TGCCACCAACTTGTGTAGGCTTTTGAAAGGGT
1 TGCCACCGACTTGTGTGGGC-TTTAAAAGGGT
* ** *
1085262 GGCCATTGACTTATGTGGGCTTTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
** * * *
1085293 TGCCATTGACTGGTGTAGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
* * * *
1085324 TGCCACTGACTGGTGTGGGCTTTAGAAGTGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
* * *
1085355 TGCTAGCGACTTGTGTGGGTTTTAGAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-A-AAGGGT
* *
1085388 TGCCACCAACTTGTGTGGGCTTTAAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
*
1085419 TGCCACCGACTTATGTGGGCTTTAAAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT-AA-AAGGGT
* * *
1085452 AGCCACCAACTTGTGTAGGCTTTAAAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTT--AAAAGGGT
* *
1085485 TGTCACCAACTTGTGTGGGCTTTACAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAA-GGGT
** * *
1085518 TGCCACTAACTTGTGTAGGCTTTGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
*
1085549 TACCACCGACTTGTGTGGGCTTTAGAAAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTA-AAA-GGGT
** *
1085582 TGCCACTAACTTGTGTGGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
* * * *
1085613 TGCCACCAACTTGTGTGAGCTTTAGAGGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
** * *
1085644 TGCCATTGACTTGTGTAGGCTGTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
* ** * *
1085675 TACCATTGACTTGTGTGGACTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
* *
1085706 TGCCACGGAGTTGTG
1 TGCCACCGACTTGTG
1085721 GACTTTAAAA
Statistics
Matches: 380, Mismatches: 70, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
31 225 0.59
32 28 0.07
33 124 0.33
34 3 0.01
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.31
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTAAAAGGGT
Found at i:1085407 original size:64 final size:64
Alignment explanation
Indices: 1085230--1085711 Score: 464
Period size: 64 Copynumber: 7.6 Consensus size: 64
1085220 TACAAGGAGA
* * * * * * * *
1085230 TGCCACCAACTTGTGTAGGCTTTTGA-AAGGGTGGCCATTGACTTATGTGGGCTTTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
** * * * * *
1085293 TGCCATTGACTGGTGTAGGCTTT--AGAAGGGTTGCCACTGACTGGTGTGGGCTTTAGAAGTGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
* * * *
1085355 TGCTAGCGACTTGTGTGGGTTTTAGAGAAGGGTTGCCACCAACTTGTGTGGGCTTTA-AGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGA-AGGGT
* * * * * *
1085419 TGCCACCGACTTATGTGGGCTTTAAAGAAGGGTAGCCACCAACTTGTGTAGGCTTTAAAAAAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTT--AGAAGGG
1085484 T
64 T
* * * *
1085485 TGTCACCAACTTGTGTGGGCTTTACA-AAGGGGTTGCCACTAACTTGTGTAGGCTTT-GAAAGGG
1 TGCCACCGACTTGTGTGGGCTTTAGAGAA-GGGTTGCCACTAACTTGTGTGGGCTTTAG-AAGGG
1085548 T
64 T
*
1085549 TACCACCGACTTGTGTGGGCTTTAGA-AAGGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAA-GGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
* * * * * * *
1085613 TGCCACCAACTTGTGTGAGCTTTAGAG--GGGTTGCCATTGACTTGTGTAGGCTGTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
* ** *
1085675 TACCATTGACTTGTGTGGACTTT--AGAAGGGTTGCCAC
1 TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCAC
1085712 GGAGTTGTGG
Statistics
Matches: 352, Mismatches: 54, Indels: 27
0.81 0.12 0.06
Matches are distributed among these distances:
60 2 0.01
61 1 0.00
62 104 0.30
63 20 0.06
64 168 0.48
65 3 0.01
66 53 0.15
67 1 0.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (64 bp):
TGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAGGGT
Found at i:1085738 original size:29 final size:30
Alignment explanation
Indices: 1085688--1085759 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
1085678 CATTGACTTG
*
1085688 TGTGGACTTT-AGAAGGGTTGCCACGGAGT
1 TGTGGACTTTAAAAAGGGTTGCCACGGAGT
*
1085717 TGTGGACTTTAAAAAGGG-TGCCATGGAGT
1 TGTGGACTTTAAAAAGGGTTGCCACGGAGT
1085746 TGTGGACTTTAAAA
1 TGTGGACTTTAAAA
1085760 GAAAAAGGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.26, C:0.11, G:0.33, T:0.29
Consensus pattern (30 bp):
TGTGGACTTTAAAAAGGGTTGCCACGGAGT
Found at i:1085799 original size:34 final size:33
Alignment explanation
Indices: 1085706--1086761 Score: 660
Period size: 33 Copynumber: 32.6 Consensus size: 33
1085696 TTAGAAGGGT
1085706 TGCCACGGAGTTGTGGACTTTAAAAAG-----GG
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGG
* *
1085735 TGCCATGGAGTTGTGGACTTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* * *
1085768 TGCCACGAAGTTATGGACATAAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
* * * * *
1085802 TGCCATGGAGTTATAGACTTTAAAAGAGAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1085835 -GCCATGGAGTTGTGGACTT--AAAG----GGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* ** *
1085861 TGCCATGGAGTTGTCAACTTAAAAAGAAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
* * *
1085895 TGCCATGGAGTTGTGGACTTTAAAAGAAGAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1085928 TGCCATGGAGTTATGGACTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAG-G
* *
1085962 TGCCATGGAGTTGTGGACTTAAAACA-AAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAA-AGAAAAAGG
* ** ** *
1085995 TGCGATAGAGTTGTCAACTTTAAAAGGAAAAA-G
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGG
*
1086028 TGCCACGGAGTTATGGACTTAAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1086061 TGCTATGGAGTTGTGGACTTAAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
* * ** * * *
1086095 TGCCATGGAATCATGGACTTTAAAATG-GAAAGT
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGG
* * *
1086128 TGCCACGCAGTTAT-GACTT--AAAG----GGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1086154 TGCCATGGAGTTAT-GACTTAAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
* *
1086187 TGACATGGAGTTGTGGACTTAAAAAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAA-GG
* * *
1086221 TGTCACGGAGTTGTGGACTTTAAAAAG-GAAAGA
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGG
* *
1086254 TGTCACGGAGTTGTGGACTT--AAAG----GGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
** * *
1086281 TGCCATAGAGTTGTGGATTTAAAAAGAAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* ** *
1086314 TGCGACAAAGTTGTAGACTTAAAAAGAAAAATGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAA-GG
* * * * * ***
1086348 TACCACAGAGGTGTAGA-TTGTAAAAGGGGAAGG
1 TGCCACGGAGTTGTGGACTT-AAAAAGAAAAAGG
** * * * * *
1086381 TGCCAAAGAGTTATGGATTTTAAAATAAAAATG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1086414 TGCCACGGAGTTATGGACTTAAAATGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
* * * * *
1086448 TGCCATGAAGTTATGGACTTTAAAAGGGAAAA-G
1 TGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGG
* * ** * **
1086481 TGCTACGAAGTTACGGA-TT--TAAG---GGGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* *
1086508 TGCCACAGAGTTGTGGATTTAAAAAGAAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAG-AAAAAGG
*
1086542 TGCCACGGAGTTGTGGACTTTAAAAGAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
** * *
1086575 TGCCACAAAGTTGTGGACTCAAAAAGAAGAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAA-AAAGG
** * *
1086609 TGCCACATAGTTATGGACTTTAAAAGAAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAA-GG
* * * * **
1086643 TGCCACGAAGTTATAGACTTTAAAAGGGAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
* * ** *
1086676 TGCTATGGAGTTTGTGGACTTAAAAAGAACGAGT
1 TGCCACGGAG-TTGTGGACTTAAAAAGAAAAAGG
*
1086710 TGCCACAGAGTTGTGGACTTAAAAAG-AAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
*
1086742 TGCCATGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTT
1086762 CGTAGACACC
Statistics
Matches: 810, Mismatches: 164, Indels: 103
0.75 0.15 0.10
Matches are distributed among these distances:
26 20 0.02
27 47 0.06
28 13 0.02
29 30 0.04
30 11 0.01
31 4 0.00
32 55 0.07
33 311 0.38
34 296 0.37
35 23 0.03
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.23
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTAAAAAGAAAAAGG
Found at i:1085806 original size:67 final size:66
Alignment explanation
Indices: 1085727--1086761 Score: 628
Period size: 67 Copynumber: 15.9 Consensus size: 66
1085717 TGTGGACTTT
* *
1085727 AAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGAAGTTATGGACATAAAA
1 AAAAA-GGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAA
1085792 AG
65 AG
* * * * *
1085794 AAAAAAGGTGCCATGGAGTTATAGACTTTAAAAGAGAAAGG-GCCATGGAGTTGTGGACTT--AA
1 -AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAA
1085856 AG
65 AG
* ** * * * * *
1085858 ----GGGTGCCATGGAGTTGTCAACTTAAAAAGAAAAAAGATGCCATGGAGTTGTGGACTTTAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAG-AAAAAGGTGCCACGGAGTTATGGACTTAAAA
1085919 AG
65 AG
* * * * *
1085921 AAGAAGGTGCCATGGAGTTATGGACTTAAAAAGAAAAAGAGTGCCATGGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAG-GTGCCACGGAGTTATGGACTTAAAA
1085986 CA-
65 -AG
* * * **
1085988 AAAAGGGTGCGATAGAGTTGTCAACTTTAAAAGGAAAAA-GTGCCACGGAGTTATGGACTTAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAA-GAAAAAGGTGCCACGGAGTTATGGACTTAAAA
1086052 AG
65 AG
* * * * *
1086054 AAAAAGGTGCTATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGCCATGGAATCATGGACTTTAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAG-AAAAAGGTGCCACGGAGTTATGGAC-TTAAA
*
1086119 ATG
64 AAG
* * * * * * *
1086122 -GAAAGTTGCCACGCAGTTAT-GAC-TT-AAAG----GGGTGCCATGGAGTTAT-GACTTAAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAAA
1086178 G
66 G
* * * *
1086179 AAAAAAGGTGACATGGAGTTGTGGACTTAAAAAGAAAAAGGGTGTCACGGAGTTGTGGACTTTAA
1 -AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAA-GGTGCCACGGAGTTATGGAC-TTAA
1086244 AAAG
63 AAAG
* * * * * ** * *
1086248 -GAAAGATGTCACGGAGTTGTGGAC-TT-AAAG----GGGTGCCATAGAGTTGTGGATTTAAAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAAA
1086306 G
66 G
* * *** * * * * * * * *
1086307 AAAAAAGTGCGACAAAGTTGTAGACTTAAAAAGAAAAATGGTACCACAGAGGTGTAGA-TTGTAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAA-GGTGCCACGGAGTTATGGACTT-AAA
1086371 AAG
64 AAG
*** ** * * * * *
1086374 GGGAAGGTGCCAAAGAGTTATGGATTTTAAAATAAAAATGTGCCACGGAGTTATGGACTTAAAAT
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAAA
1086439 G
66 G
* * * * * * *
1086440 AAAAAAGGTGCCATGAAGTTATGGACTTTAAAAGGGAAAA-GTGCTACGAAGTTACGGA-TT--T
1 -AAAAAGGTGCCATGGAGTTGTGGACTTTAAAA-GAAAAAGGTGCCACGGAGTTATGGACTTAAA
1086501 AAG
64 AAG
** ** * *
1086504 ---GGGGTGCCACAGAGTTGTGGA-TTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTTAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTT-AAAAG-AAAAAGGTGCCACGGAGTTATGGACTTAAA
1086565 AAG
64 AAG
*** ** * ** *
1086568 AAAAAGGTGCCACAAAGTTGTGGACTCAAAAAGAAGAAGGGTGCCACATAGTTATGGACTTTAAA
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAA-AAAGGTGCCACGGAGTTATGGACTTAAAA
1086633 AG
65 AG
* * * * ** * * *
1086635 AAAAAGGGTGCCACGAAGTTATAGACTTTAAAAGGGAAAGGTGCTATGGAGTTTGTGGACTTAAA
1 AAAAA-GGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAG-TTATGGACTTAAA
1086700 AAG
64 AAG
** * ** * * *
1086703 AACGAGTTGCCACAGAGTTGTGGACTTAAAAAG-AAAAGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTT
1086762 CGTAGACACC
Statistics
Matches: 749, Mismatches: 166, Indels: 107
0.73 0.16 0.10
Matches are distributed among these distances:
57 7 0.01
58 3 0.00
59 64 0.09
60 63 0.08
61 35 0.05
62 10 0.01
63 4 0.01
64 13 0.02
65 17 0.02
66 116 0.15
67 342 0.46
68 67 0.09
69 8 0.01
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.22
Consensus pattern (66 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGAAAAAGGTGCCACGGAGTTATGGACTTAAAAA
G
Found at i:1086372 original size:127 final size:125
Alignment explanation
Indices: 1086035--1086372 Score: 317
Period size: 126 Copynumber: 2.7 Consensus size: 125
1086025 AAGTGCCACG
* * * * *
1086035 GAGTTATGGACTTAAAAAG-AAAAAGGTG-CTATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGC
1 GAGTTAT-GACTTAAAAAGAAAAAAGGCGAC-A-GAAGTTGTAGACTTAAAAAGAAAAAGGGTAC
** * * * * * *
1086098 CATGGA-ATCATGGACTTTAAAATGGAAAGTTGCCACGCAGTTATGACTTAAAGGGGTGCCATG
63 CACAGAGGT-GTAGACTTTAAAAAGGAAAGATGCCACGCAGTTATGACTTAAAGGGGTGCCATA
* * * **
1086161 GAGTTATGACTTAAAAAGAAAAAAGGTGACATGGAGTTGTGGACTTAAAAAGAAAAAGGGTGTCA
1 GAGTTATGACTTAAAAAGAAAAAAGGCGACA-GAAGTTGTAGACTTAAAAAGAAAAAGGGTACCA
* * * * * *
1086226 CGGAGTTGTGGACTTTAAAAAGGAAAGATGTCACGGAGTTGTGGACTTAAAGGGGTGCCATA
65 CAGAGGTGTAGACTTTAAAAAGGAAAGATGCCACGCAGTTAT-GACTTAAAGGGGTGCCATA
* * *
1086288 GAGTTGTGGATTTAAAAAGAAAAAAGTGCGACA-AAGTTGTAGACTTAAAAAGAAAAATGGTACC
1 GAGTTAT-GACTTAAAAAGAAAAAAG-GCGACAGAAGTTGTAGACTTAAAAAGAAAAAGGGTACC
1086352 ACAGAGGTGTAGA-TTGTAAAA
64 ACAGAGGTGTAGACTT-TAAAA
1086373 GGGGAAGGTG
Statistics
Matches: 183, Mismatches: 22, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
125 11 0.06
126 83 0.45
127 67 0.37
128 17 0.09
129 5 0.03
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (125 bp):
GAGTTATGACTTAAAAAGAAAAAAGGCGACAGAAGTTGTAGACTTAAAAAGAAAAAGGGTACCAC
AGAGGTGTAGACTTTAAAAAGGAAAGATGCCACGCAGTTATGACTTAAAGGGGTGCCATA
Found at i:1086392 original size:127 final size:126
Alignment explanation
Indices: 1086035--1086397 Score: 308
Period size: 127 Copynumber: 2.9 Consensus size: 126
1086025 AAGTGCCACG
* * * * *
1086035 GAGTTATGGACTTAAAAAG-AAAAAGGTG-CTATGGAGTTGTGGACTTAAAAAGAAAAAAGGTGC
1 GAGTTAT-GACTTAAAAAGAAAAAAGGCGAC-A-GAAGTTGTAGACTTAAAAAGAAAAAGGGTAC
** * * * * * *
1086098 CATGGA-ATCATGGACTTTAAAATGGAAAGTTGCC-ACGCAGTTAT-GACTTAAAGGGGTGCCAT
63 CACAGAGGT-GTAGACTTTAAAAAGGAAAGATGCCAAAG-AGTTATGGACTTAAAGGGGTGCCAT
*
1086160 G
126 A
* * * **
1086161 GAGTTATGACTTAAAAAGAAAAAAGGTGACATGGAGTTGTGGACTTAAAAAGAAAAAGGGTGTCA
1 GAGTTATGACTTAAAAAGAAAAAAGGCGACA-GAAGTTGTAGACTTAAAAAGAAAAAGGGTACCA
* * * * ** *
1086226 CGGAGTTGTGGACTTTAAAAAGGAAAGATGTCACGGAGTTGTGGACTTAAAGGGGTGCCATA
65 CAGAGGTGTAGACTTTAAAAAGGAAAGATGCCAAAGAGTTATGGACTTAAAGGGGTGCCATA
* * *
1086288 GAGTTGTGGATTTAAAAAGAAAAAAGTGCGACA-AAGTTGTAGACTTAAAAAGAAAAATGGTACC
1 GAGTTAT-GACTTAAAAAGAAAAAAG-GCGACAGAAGTTGTAGACTTAAAAAGAAAAAGGGTACC
* * *
1086352 ACAGAGGTGTAGA-TTGTAAAAGGGGAAGGTGCCAAAGAGTTATGGA
64 ACAGAGGTGTAGACTT-TAAAAAGGAAAGATGCCAAAGAGTTATGGA
1086398 TTTTAAAATA
Statistics
Matches: 199, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
125 11 0.06
126 80 0.40
127 86 0.43
128 17 0.09
129 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.23
Consensus pattern (126 bp):
GAGTTATGACTTAAAAAGAAAAAAGGCGACAGAAGTTGTAGACTTAAAAAGAAAAAGGGTACCAC
AGAGGTGTAGACTTTAAAAAGGAAAGATGCCAAAGAGTTATGGACTTAAAGGGGTGCCATA
Done.