Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 270 of 325
Found at i:83756869 original size:33 final size:33
Alignment explanation
Indices: 83756832--83756982 Score: 178
Period size: 33 Copynumber: 4.5 Consensus size: 33
83756822 TACTCTCTTT
* *
83756832 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* *
83756865 TTGGTGTGATGGTTGGTTTAGCACTAATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* *
83756898 TTGGTGTGATGGTTTGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* * *
83756931 TTGGTATGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAA-TGAGCA
*
83756964 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
83756983 CTAATGATGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 85 0.86
34 6 0.06
35 7 0.07
ACGTcount: A:0.18, C:0.09, G:0.34, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
Found at i:83756962 original size:66 final size:66
Alignment explanation
Indices: 83756832--83756982 Score: 196
Period size: 66 Copynumber: 2.3 Consensus size: 66
83756822 TACTCTCTTT
* * * *
83756832 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCATTGGTGTGATGGTTGGTTTAGCACTAATGAGC
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCACTAATGAGC
83756897 A
66 A
* * *
83756898 TTGGTGTGATGGTTTGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTGGCTC-AAGTGAG
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCACTAA-TGAG
83756962 CA
65 CA
*
83756964 TCTGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
83756983 CTAATGATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.03
66 57 0.78
67 7 0.10
68 7 0.10
ACGTcount: A:0.18, C:0.09, G:0.34, T:0.39
Consensus pattern (66 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCATTGGTATGATGGATGGATTAGCACTAATGAGC
A
Found at i:83760250 original size:19 final size:19
Alignment explanation
Indices: 83760191--83760254 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
83760181 AAAAGAATTT
* *
83760191 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
83760210 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
83760226 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
83760246 AT-AAATAAT
1 ATAAAATAAT
83760255 TAATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 17 0.49
19 4 0.11
20 7 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:83766550 original size:12 final size:12
Alignment explanation
Indices: 83766530--83766565 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
83766520 TGGGATATGC
*
83766530 AATGTATGAATG
1 AATGCATGAATG
83766542 AATGCATGAATG
1 AATGCATGAATG
83766554 AATGCATGAATG
1 AATGCATGAATG
83766566 TCAAAATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:83771330 original size:17 final size:17
Alignment explanation
Indices: 83771310--83771348 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
83771300 AAAAAAATAA
*
83771310 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
83771327 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
83771344 AAAAT
1 AAAAT
83771349 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:83771596 original size:30 final size:30
Alignment explanation
Indices: 83771538--83771594 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
83771528 GTTAGGTGGC
83771538 TAGGTTTTTTTTTATTTTTTATTTTTTTGT
1 TAGGTTTTTTTTTATTTTTTATTTTTTTGT
* *
83771568 TAGGTTTTTTTTT-TTTCTTCTTTTTTT
1 TAGGTTTTTTTTTATTTTTTATTTTTTT
83771595 TGGGGGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.07, C:0.04, G:0.09, T:0.81
Consensus pattern (30 bp):
TAGGTTTTTTTTTATTTTTTATTTTTTTGT
Found at i:83773593 original size:17 final size:17
Alignment explanation
Indices: 83773571--83773604 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
83773561 GACTGTGGCG
*
83773571 AAAAATTATAAAAAAAT
1 AAAAATGATAAAAAAAT
*
83773588 AAAAATGATAGAAAAAT
1 AAAAATGATAAAAAAAT
83773605 TATAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAAATGATAAAAAAAT
Found at i:83773741 original size:19 final size:19
Alignment explanation
Indices: 83773693--83773775 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
83773683 TTCTTACGAC
*
83773693 TTTATAAAATTTT--ATTT
1 TTTATAAAATTTTACAATT
* * * *
83773710 TTTCTATATTTTTACTATT
1 TTTATAAAATTTTACAATT
83773729 TTTATAAAATTTTACAAATTT
1 TTTATAAAATTTTAC-AA-TT
** *
83773750 TTTATAATTTTTTACAACT
1 TTTATAAAATTTTACAATT
83773769 TTTATAA
1 TTTATAA
83773776 TTTTTTTCTA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
17 10 0.20
19 22 0.44
20 3 0.06
21 15 0.30
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:83773751 original size:21 final size:21
Alignment explanation
Indices: 83773727--83773771 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
83773717 ATTTTTACTA
83773727 TTTTTATAAAATTTTACAAAT
1 TTTTTATAAAATTTTACAAAT
** *
83773748 TTTTTATAATTTTTTACAACT
1 TTTTTATAAAATTTTACAAAT
83773769 TTT
1 TTT
83773772 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAAAT
Found at i:83773760 original size:9 final size:9
Alignment explanation
Indices: 83773717--83773830 Score: 56
Period size: 9 Copynumber: 12.1 Consensus size: 9
83773707 TTTTTTCTAT
83773717 ATTTTTACT-
1 ATTTTTA-TA
83773726 ATTTTTATAA
1 ATTTTTAT-A
* *
83773736 AATTTTACAA
1 ATTTTTA-TA
83773746 ATTTTTTATA
1 A-TTTTTATA
*
83773756 ATTTTTTACA
1 A-TTTTTATA
*
83773766 ACTTTTATA
1 ATTTTTATA
*
83773775 ATTTTTTTCTA
1 A--TTTTTATA
83773786 ATTTTTA-A
1 ATTTTTATA
*
83773794 TATATTTAT-
1 -ATTTTTATA
83773803 A-TTTTACTA
1 ATTTTTA-TA
83773812 ATTTTTATA
1 ATTTTTATA
*
83773821 AATTTTATA
1 ATTTTTATA
83773830 A
1 A
83773831 CTTTAATTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.05
8 4 0.05
9 37 0.46
10 24 0.30
11 12 0.15
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:83773781 original size:10 final size:10
Alignment explanation
Indices: 83773745--83773791 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
83773735 AAATTTTACA
83773745 AATTTTTTAT
1 AATTTTTTAT
*
83773755 AATTTTTTAC
1 AATTTTTTAT
*
83773765 AA-CTTTTAT
1 AATTTTTTAT
*
83773774 AATTTTTTTCT
1 AA-TTTTTTAT
83773785 AATTTTT
1 AATTTTT
83773792 AATATATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:83773790 original size:19 final size:19
Alignment explanation
Indices: 83773749--83773830 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
83773739 TTTACAAATT
*
83773749 TTTTATAATTTTTTAC-AA
1 TTTTATAATTTTTTTCTAA
83773767 CTTTTATAATTTTTTTCTAA
1 -TTTTATAATTTTTTTCTAA
* * *
83773787 TTTT-TAATATATTTAT-A
1 TTTTATAATTTTTTTCTAA
* *
83773804 TTTTACTAATTTTTAT-AAA
1 TTTTA-TAATTTTTTTCTAA
83773823 TTTTATAA
1 TTTTATAA
83773831 CTTTAATTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.10
18 12 0.24
19 32 0.63
20 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTTCTAA
Found at i:83773827 original size:26 final size:26
Alignment explanation
Indices: 83773778--83773829 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
83773768 TTTTATAATT
* *
83773778 TTTTTCTAATTTTTAATATATTTATA
1 TTTTACTAATTTTTAAAATATTTATA
83773804 TTTTACTAATTTTTATAAAT-TTTATA
1 TTTTACTAATTTTTA-AAATATTTATA
83773830 ACTTTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTACTAATTTTTAAAATATTTATA
Found at i:83777021 original size:31 final size:29
Alignment explanation
Indices: 83776981--83777043 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
83776971 TTAACGTTAG
83776981 TTTTGGAATTCAATAAATTTTTTAGTTTGAT
1 TTTTGGAATTCAAT--ATTTTTTAGTTTGAT
* * *
83777012 TTTTTGAATTTAATATTTTTTAGTTTTAT
1 TTTTGGAATTCAATATTTTTTAGTTTGAT
83777041 TTT
1 TTT
83777044 ATCATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.59
31 12 0.41
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTTGGAATTCAATATTTTTTAGTTTGAT
Found at i:83780939 original size:18 final size:18
Alignment explanation
Indices: 83780916--83781004 Score: 124
Period size: 18 Copynumber: 4.9 Consensus size: 18
83780906 CGTTTACGGT
83780916 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
83780934 ACTATTCACGTATACAGC
1 ACTATTCACGTATACAGC
*
83780952 ACTATTCACGTATACGGC
1 ACTATTCACGTATACAGC
* * * *
83780970 ACTATTTACGAATACGGT
1 ACTATTCACGTATACAGC
*
83780988 ACTGTTCACGTATACAG
1 ACTATTCACGTATACAG
83781005 TAGTTGGGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (18 bp):
ACTATTCACGTATACAGC
Found at i:83785737 original size:43 final size:43
Alignment explanation
Indices: 83785676--83785761 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
83785666 ATAATCTAAG
*
83785676 CCAATATGCTAGTGAAACCTTGAATTTTCCCTCCTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
*
83785719 CCAATATGCTAGTGAAACCATGAATTTTCCCTCGTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
83785762 AGTGATCAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (43 bp):
CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
Found at i:83789778 original size:36 final size:36
Alignment explanation
Indices: 83789737--83789809 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
83789727 CGTGCAAACT
*
83789737 TAGATTGAAAACTAAATAATTGAGTTGTTTTCACAC
1 TAGATTGAAAACTAAATAATTGAGTTGTTCTCACAC
83789773 TAGATTGAAAACTAAATAATTGAGTTGTTCTCACAC
1 TAGATTGAAAACTAAATAATTGAGTTGTTCTCACAC
83789809 T
1 T
83789810 CAATGCACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (36 bp):
TAGATTGAAAACTAAATAATTGAGTTGTTCTCACAC
Found at i:83793344 original size:2 final size:2
Alignment explanation
Indices: 83793337--83793368 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
83793327 ACGCAAGTTA
83793337 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
83793369 GCAATTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83799459 original size:15 final size:16
Alignment explanation
Indices: 83799429--83799461 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
83799419 ATCCTCTTCC
*
83799429 TCTTCCCCTTTCCCTT
1 TCTTCCCCTCTCCCTT
83799445 TCTTCCCC-CTCCCTT
1 TCTTCCCCTCTCCCTT
83799460 TC
1 TC
83799462 CCCCCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTTCCCCTCTCCCTT
Found at i:83802724 original size:16 final size:18
Alignment explanation
Indices: 83802697--83802730 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
83802687 TTAGATTTGG
83802697 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
83802714 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
83802731 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:83802743 original size:18 final size:17
Alignment explanation
Indices: 83802720--83802756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
83802710 TTTAATTGAA
*
83802720 AAATTAATTTATCTAATT
1 AAATTAATTGAT-TAATT
83802738 AAATTAATTGATTAATT
1 AAATTAATTGATTAATT
83802755 AA
1 AA
83802757 TATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATTAATTGATTAATT
Found at i:83804290 original size:27 final size:28
Alignment explanation
Indices: 83804260--83804335 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
83804250 TAAGAGAATC
* *
83804260 TATTAGAATACACCACAAAGGCTT-TCT
1 TATTAGAATACGCCACAAAGGCTTCCCT
*
83804287 TATT-GAATACGCCATAAAAGGCTTCCCT
1 TATTAGAATACGCCA-CAAAGGCTTCCCT
*
83804315 TA-TAGAATACGCTACAAAGGC
1 TATTAGAATACGCCACAAAGGC
83804336 AGTCCTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 9 0.22
27 19 0.46
28 13 0.32
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
TATTAGAATACGCCACAAAGGCTTCCCT
Found at i:83804472 original size:27 final size:27
Alignment explanation
Indices: 83804389--83804478 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
83804379 CCATAAAGGT
**
83804389 TTCCTTTTTCATAGATCGCCACAAAAAA
1 TTCC-TTTTCATAGATCGCCACAAAAGC
* *
83804417 TT-CTTTATCATAGGTCGCCACAAAGGC
1 TTCCTTT-TCATAGATCGCCACAAAAGC
*
83804444 TTCCTTTTCATAGATCGCCACAAATGC
1 TTCCTTTTCATAGATCGCCACAAAAGC
*
83804471 TTTCTTTT
1 TTCCTTTT
83804479 TCTAGCGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.06
27 44 0.83
28 6 0.11
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (27 bp):
TTCCTTTTCATAGATCGCCACAAAAGC
Found at i:83809972 original size:26 final size:26
Alignment explanation
Indices: 83809943--83810000 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
83809933 CCTAACAATT
* *
83809943 TTTTGACGATTTTACACCTGGTAAAA
1 TTTTGACCATTTTACACCTAGTAAAA
* * *
83809969 TTTTGACCTTTTTGCCCCTAGTAAAA
1 TTTTGACCATTTTACACCTAGTAAAA
83809995 TTTTGA
1 TTTTGA
83810001 GAAAATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (26 bp):
TTTTGACCATTTTACACCTAGTAAAA
Found at i:83811642 original size:24 final size:24
Alignment explanation
Indices: 83811610--83811659 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
83811600 TCCCGAATAG
83811610 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
83811634 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
83811658 TT
1 TT
83811660 ACTTATCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTGACAATGATGGTTTTCACAAT
Found at i:83813100 original size:4 final size:4
Alignment explanation
Indices: 83813093--83813185 Score: 123
Period size: 4 Copynumber: 22.8 Consensus size: 4
83813083 AGTAAGTTAA
* * * **
83813093 AAAG AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AATTAT AGAG AGCG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA--AG AAAG AAAG
83813143 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
83813186 TAGAAAAGGG
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
4 77 0.97
6 2 0.03
ACGTcount: A:0.70, C:0.01, G:0.25, T:0.04
Consensus pattern (4 bp):
AAAG
Found at i:83819869 original size:133 final size:132
Alignment explanation
Indices: 83819617--83820240 Score: 818
Period size: 133 Copynumber: 4.7 Consensus size: 132
83819607 GATCTGCTGT
* * * *
83819617 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTGTATGTTTAGCCTACTTCACTCCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTA--TATAGCCTGCTTCACTCCT
* * ** * * * * * * *
83819682 GCTCAATGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATATATAGAGATAAGACTCG
64 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATAGAGATAAGATTCA
83819747 CCAA
129 CCAA
* * *
83819751 AATTTGATCTGCTTCACTCCTACTCAGTGAAGATAAGATCTAGTATATAGCCTGCTCCATTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* * *
83819816 CTCAGTGAAGATAAGGCTGGTGATTGGAATCTGCTCCATCGCCGGTACGTAGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATAGAGATAAGATTCAC
83819881 CAA
130 CAA
* * * * *
83819884 AATTCGATCTGCTTCATTTCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* * * *
83819949 CTCAGTGAAGACAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACGTGGAGATAAGATTCAT
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATAGAGATAAGATTCAC
83820014 CAA
130 CAA
* *
83820017 AATTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTTTATAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCT-GTATATAGCCTGCTTCACTCCTG
* *
83820082 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGTCGGTACATGGAGATAAGATTCAC
65 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATAGAGATAAGATTCAC
83820147 CAA
130 CAA
* * * *
83820150 AATTTGATCTG-TTCTGCTCCCGCTCAGCGAAGATAAGATCTGCTATATTTAACCTGCTTCACTC
1 AATTTGATCTGCTTC-ACTCCTGCTCAGTGAAGATAAGATCTG-TATA--TAGCCTGCTTCACTC
83820214 CTGCTCAGTGAAGATAAGGCTGATGAT
62 CTGCTCAGTGAAGATAAGGCTGATGAT
83820241 ATCTGTAATC
Statistics
Matches: 441, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
132 4 0.01
133 355 0.80
134 38 0.09
135 44 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (132 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGTATATAGCCTGCTTCACTCCTGC
TCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATCGCCGGTACATAGAGATAAGATTCACC
AA
Found at i:83819950 original size:43 final size:43
Alignment explanation
Indices: 83819758--83820096 Score: 154
Period size: 43 Copynumber: 7.7 Consensus size: 43
83819748 CAAAATTTGA
* * * *
83819758 TCTGCTTCACTCCTACTCAGTGAAGATAAGATCTAGTATATAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
* * * * *
83819801 CCTGCTCCATTCCTGCTCAGTGAAGATAAG-GCTGGTGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAG
* * *** * *
83819845 TCTGCTCCA-TCGCCGGT-ACGT-AGAGATAAGATTCATCAAAATTCG
1 TCTGCTCCACTC-CTGCTCA-GTGA-AGATAAGA-TC-TGGTATTTAG
* * *
83819890 ATCTGCTTCATTTCTGCTCAGTGAAGATAAGATCTGGTATTTAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
* * * * * *
83819934 CCTGCTCCACTCCTGCTCAGTGAAGACAAG-GCTGATGATTGGAA
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGT-ATT-TAG
* * * *** * *
83819978 TCTGCTCCA-TCGCCGGT-ACGTGGAGATAAGATTCATCAAAATTCG
1 TCTGCTCCACTC-CTGCTCA-GTGAAGATAAGA-TC-TGGTATTTAG
*
83820023 ATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGT-TTATAG
1 -TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATT-TAG
* *
83820067 CCTGCTTCACTCCTGCTCAGTGAAGATAAG
1 TCTGCTCCACTCCTGCTCAGTGAAGATAAG
83820097 GCTGATGATT
Statistics
Matches: 213, Mismatches: 60, Indels: 46
0.67 0.19 0.14
Matches are distributed among these distances:
42 8 0.04
43 93 0.44
44 50 0.23
45 4 0.02
46 49 0.23
47 9 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTGCTCCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAG
Found at i:83832242 original size:19 final size:20
Alignment explanation
Indices: 83832218--83832256 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
83832208 AAATAACCTA
83832218 AAATAG-TTAAATAA-AATAG
1 AAATAGATT-AATAATAATAG
83832237 AAATAGATTAATAATAATAG
1 AAATAGATTAATAATAATAG
83832257 TACCAAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (20 bp):
AAATAGATTAATAATAATAG
Found at i:83834459 original size:59 final size:59
Alignment explanation
Indices: 83834389--83834571 Score: 307
Period size: 59 Copynumber: 3.1 Consensus size: 59
83834379 ATTTAAAGCA
83834389 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATG
1 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATG
*
83834448 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATT-AAAAAAA-GTAATAATTAAATG
1 ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATG
* *
83834505 ATAAAAATTGATTTTATTAAAAAAATTTGATTTTAATTAAAAAAAACATAATAATTAAATA
1 AT--AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATG
83834566 ATAAAT
1 ATAAAT
83834572 CAATTTAAAG
Statistics
Matches: 116, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
57 15 0.13
58 7 0.06
59 73 0.63
60 7 0.06
61 14 0.12
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.40
Consensus pattern (59 bp):
ATAAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATG
Found at i:83834799 original size:42 final size:41
Alignment explanation
Indices: 83834727--83834813 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 41
83834717 GATTTTTAAG
*
83834727 AAAAGGGATTTAAAGTAATGAATAGGATTTAAA-AATAATAA
1 AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAA-AATAA
*
83834768 AAAATGGGATTTAAAGTAATGGATAGAATTTAAATAAAATAA
1 AAAA-GGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
83834810 AAAA
1 AAAA
83834814 AGATGGCTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 4 0.10
42 36 0.86
43 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.26
Consensus pattern (41 bp):
AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
Found at i:83843268 original size:42 final size:43
Alignment explanation
Indices: 83843165--83843321 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
83843155 TGTGTTTTCG
* ** * * *
83843165 TGTAAGACCACGTCTGGGATGTTGGCATTGACT-TATGATTTATA
1 TGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGA-TTACA
* * *
83843209 TATAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACA
* *
83843251 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACA
* * *
83843294 TGTAAGACCACGTATGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
83843322 TGTACAAGAT
Statistics
Matches: 92, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
42 30 0.33
43 37 0.40
44 25 0.27
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTACA
Found at i:83843277 original size:86 final size:85
Alignment explanation
Indices: 83843160--83843321 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
83843150 CGATATGTGT
* * * * *
83843160 TTTCGTGTAAGACCACGTCTGGGATGTTGGCATTGACT-TATGATTTATATATAAGACCATGTCT
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGGCATCGA-TATATGA-TTACATATAAGACCACGTAT
83843224 GGGACATTGGCATCGTATTTGA
64 GGGACATTGGCATCGTATTTGA
** * *
83843246 TTTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGATATTTGATTACATGTAAGACCACGTATG
1 TTTCGTGTAAGACCACGTCTGGGA-AGTTGGCATCGATATATGATTACATATAAGACCACGTATG
*
83843310 GGACGTTGGCAT
65 GGACATTGGCAT
83843322 TGTACAAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
85 29 0.45
86 34 0.53
87 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (85 bp):
TTTCGTGTAAGACCACGTCTGGGAAGTTGGCATCGATATATGATTACATATAAGACCACGTATGG
GACATTGGCATCGTATTTGA
Found at i:83847758 original size:46 final size:46
Alignment explanation
Indices: 83847708--83847928 Score: 300
Period size: 46 Copynumber: 4.8 Consensus size: 46
83847698 CTATGATAGA
* *
83847708 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
*
83847754 AAATGTGTAAGACCATGGTTGAATGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
**
83847800 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC-ATG
** * *
83847847 AAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
* * * *
83847892 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
83847929 TCATGTCGAA
Statistics
Matches: 157, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 116 0.74
47 40 0.25
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
Found at i:83847890 original size:93 final size:92
Alignment explanation
Indices: 83847700--83847928 Score: 325
Period size: 93 Copynumber: 2.5 Consensus size: 92
83847690 AGTGTGCTCT
* * * **
83847700 ATGATAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
83847765 ACCATGGTTGAATGATACCATGGCAAC
66 ACCATGGTTGAATGATACCATGGCAAC
* * *
83847792 GTGACATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATA
1 ATGACA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAATGAATA
83847856 AGACCATGGTTGAATGATACCATGGCAAC
64 AGACCATGGTTGAATGATACCATGGCAAC
* * * *
83847885 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
83847929 TCATGTCGAA
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
92 46 0.38
93 75 0.62
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (92 bp):
ATGACAGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAG
ACCATGGTTGAATGATACCATGGCAAC
Found at i:83848143 original size:19 final size:18
Alignment explanation
Indices: 83848108--83848146 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
83848098 GAAATAATTT
83848108 ATAAGATAGATAAATGAA
1 ATAAGATAGATAAATGAA
* *
83848126 ATAAGTATAGGTACATGAA
1 ATAAG-ATAGATAAATGAA
83848145 AT
1 AT
83848147 TTAAATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.26
Consensus pattern (18 bp):
ATAAGATAGATAAATGAA
Found at i:83848951 original size:14 final size:14
Alignment explanation
Indices: 83848928--83848961 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
83848918 TTCGAACTCC
* *
83848928 AATTATTTAATTAT
1 AATTAATTAATAAT
83848942 AATTAATTAATAAT
1 AATTAATTAATAAT
83848956 AATTAA
1 AATTAA
83848962 AAGAACCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTAATTAATAAT
Found at i:83849997 original size:46 final size:46
Alignment explanation
Indices: 83849910--83850223 Score: 414
Period size: 46 Copynumber: 6.8 Consensus size: 46
83849900 TTGACATGAC
* * * * *
83849910 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTT
* *
83849956 ACCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* *
83850002 GTCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGCT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * ** *
83850048 GCCATGGTATCTTTCAACCATGGTCCTCTTCATTTCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * *
83850094 GCCATGGTATCTCTCAACTATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * *
83850140 GCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
**
83850186 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
83850224 TTCAGAGAGC
Statistics
Matches: 234, Mismatches: 33, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.02
46 230 0.98
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
Found at i:83850158 original size:138 final size:138
Alignment explanation
Indices: 83849910--83850221 Score: 464
Period size: 138 Copynumber: 2.3 Consensus size: 138
83849900 TTGACATGAC
* * * * * * *
83849910 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCATGGTATCTTTCAACC
1 GCCATGGTATCTTTCAACCATGGTCCTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
* *
83849975 ATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
66 ATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
*
83850040 GTCACGCT
131 ATCACGCT
*
83850048 GCCATGGTATCTTTCAACCATGGTCCT-CTTCATTTCCCGTCATGTTGCCATGGTATCTCTCAAC
1 GCCATGGTATCTTTCAACCATGGTCCTAC-TCATTTCCCGTCATGTTACCATGGTATCTCTCAAC
*
83850112 TATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCA
65 CATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCA
* *
83850177 TATCATGTT
130 TATCACGCT
* *
83850186 GCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 GCCATGGTATCTTTCAACCATGGTCCTACTCATTTC
83850222 ATTTCAGAGA
Statistics
Matches: 156, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 154 0.99
139 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (138 bp):
GCCATGGTATCTTTCAACCATGGTCCTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
ATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCAT
ATCACGCT
Found at i:83852066 original size:11 final size:11
Alignment explanation
Indices: 83852013--83852070 Score: 55
Period size: 11 Copynumber: 5.2 Consensus size: 11
83852003 CTTTATATAG
83852013 TAATAAAATAA
1 TAATAAAATAA
*
83852024 TGATAAAA-AA
1 TAATAAAATAA
*
83852034 TAATAAAATATCT
1 TAATAAAATA--A
* *
83852047 TATTAAAATAT
1 TAATAAAATAA
83852058 TAATAAAATAA
1 TAATAAAATAA
83852069 TA
1 TA
83852071 TTTATCTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 9 0.24
11 20 0.53
13 9 0.24
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:83854643 original size:49 final size:48
Alignment explanation
Indices: 83854590--83854690 Score: 114
Period size: 49 Copynumber: 2.1 Consensus size: 48
83854580 TGGGCTCCAG
* *
83854590 AGTTATA-TTCCAACCCGTGACCGCATAACCATCGTCAATTAGGAGCTTT
1 AGTTATACTT-CAACCCGTGACCGCATAA-CAGCGTCAATTAGGAGCTTA
* ** * *
83854639 AGTTATACTTTAACTTGTGACCGCATAACAGCGTGAATTGGGAGCTTA
1 AGTTATACTTCAACCCGTGACCGCATAACAGCGTCAATTAGGAGCTTA
83854687 AGTT
1 AGTT
83854691 GCAATACGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
48 20 0.45
49 22 0.50
50 2 0.05
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (48 bp):
AGTTATACTTCAACCCGTGACCGCATAACAGCGTCAATTAGGAGCTTA
Found at i:83866835 original size:24 final size:24
Alignment explanation
Indices: 83866808--83866857 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
83866798 TTTAAGTTTA
83866808 AACACATCTAAATAACAAGTAGTT
1 AACACATCTAAATAACAAGTAGTT
83866832 AACACATCTAAATAACAAGTAGTT
1 AACACATCTAAATAACAAGTAGTT
83866856 AA
1 AA
83866858 TCTTCAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
AACACATCTAAATAACAAGTAGTT
Found at i:83870867 original size:28 final size:28
Alignment explanation
Indices: 83870814--83870871 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
83870804 CATGCCATAC
* * *
83870814 TATTTTTCAATTTAATCTCTCCTTCTTT
1 TATTCTTCAATTTAATCCCTCATTCTTT
*
83870842 TATTCTTCAATTTAATCCCTTATTCTTT
1 TATTCTTCAATTTAATCCCTCATTCTTT
83870870 TA
1 TA
83870872 AGTATTACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (28 bp):
TATTCTTCAATTTAATCCCTCATTCTTT
Found at i:83871753 original size:15 final size:15
Alignment explanation
Indices: 83871733--83871761 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
83871723 TCTCGATTTG
83871733 TGCGTGTCATCCTTA
1 TGCGTGTCATCCTTA
83871748 TGCGTGTCATCCTT
1 TGCGTGTCATCCTT
83871762 GCGCAGGGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.28, G:0.21, T:0.41
Consensus pattern (15 bp):
TGCGTGTCATCCTTA
Found at i:83883536 original size:50 final size:49
Alignment explanation
Indices: 83883494--83883591 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 49
83883484 TAAATGCTAA
* *
83883494 AATTATTTAAACAACTAAAAAAATTTCAAAACAACTTAATT-AATTAAAC
1 AATTATTTAAACAACTAAAAAAAATT-AAAACAACTGAATTAAATTAAAC
*
83883543 TAATTATTTAAGCAACTAAAAAAAATTAAAACAACTGAATT-AATTAAAC
1 -AATTATTTAAACAACTAAAAAAAATTAAAACAACTGAATTAAATTAAAC
83883592 TAAACATATC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 21 0.47
50 24 0.53
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (49 bp):
AATTATTTAAACAACTAAAAAAAATTAAAACAACTGAATTAAATTAAAC
Found at i:83883584 original size:49 final size:50
Alignment explanation
Indices: 83883494--83883594 Score: 168
Period size: 49 Copynumber: 2.0 Consensus size: 50
83883484 TAAATGCTAA
* *
83883494 AATTATTTAAACAACTAAAAAAATTTCAAAACAACTTAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
*
83883544 AATTATTTAAGCAACTAAAAAAAATT-AAAACAACTGAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
83883593 AA
1 AA
83883595 ACATATCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 24 0.50
50 24 0.50
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (50 bp):
AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
Found at i:83885557 original size:46 final size:46
Alignment explanation
Indices: 83885505--83885769 Score: 222
Period size: 46 Copynumber: 5.7 Consensus size: 46
83885495 TGTGTGTGCT
* *
83885505 AGTGTAAGACATGTCTGGGACATGCATTGGCCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCC
* * * *
83885551 AATGTAAGATCATATCTGGGACATGGCATCGG-CAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATAT--GATGAGAGCC
*
83885599 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATGATG-AGAGCC
* * *
83885645 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGA-GAGCC
* * * *
83885689 AGTGTATGACATGTCTAGGACATGCATTGGCACAGATATG-TGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-C--ATATGATGAGAGCC
* *
83885737 AGTGTAAAACCATGTCTGGGAAATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
83885770 ATTATACCCT
Statistics
Matches: 175, Mismatches: 25, Indels: 34
0.75 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 2 0.01
44 32 0.18
45 1 0.01
46 53 0.30
47 32 0.18
48 30 0.17
49 17 0.10
50 7 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCC
Found at i:83892612 original size:46 final size:44
Alignment explanation
Indices: 83892553--83892667 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
83892543 ACAGGACAGA
* *
83892553 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
83892599 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
83892643 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
83892668 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:83892648 original size:44 final size:45
Alignment explanation
Indices: 83892553--83892686 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
83892543 ACAGGACAGA
* *
83892553 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
83892599 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
83892643 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
83892687 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:83900032 original size:44 final size:45
Alignment explanation
Indices: 83899942--83900070 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
83899932 GACAGAACGA
*
83899942 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
83899988 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
83900032 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
83900071 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:83903007 original size:44 final size:45
Alignment explanation
Indices: 83902917--83903045 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
83902907 GACAGAACGA
*
83902917 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
83902963 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
83903007 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
83903046 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:83910361 original size:46 final size:44
Alignment explanation
Indices: 83910302--83910416 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
83910292 ACAGGACAGA
* *
83910302 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
83910348 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
83910392 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
83910417 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:83910397 original size:44 final size:45
Alignment explanation
Indices: 83910302--83910435 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
83910292 ACAGGACAGA
* *
83910302 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
83910348 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
83910392 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
83910436 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:83922127 original size:2 final size:2
Alignment explanation
Indices: 83922120--83922156 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
83922110 CATATTCAGT
*
83922120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
83922157 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83922270 original size:2 final size:2
Alignment explanation
Indices: 83922263--83922306 Score: 79
Period size: 2 Copynumber: 21.5 Consensus size: 2
83922253 GAGTGATGTT
83922263 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
83922306 T
1 T
83922307 TTGAGATGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:83933504 original size:22 final size:21
Alignment explanation
Indices: 83933464--83933525 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
83933454 TTAGTCATAT
* *
83933464 AATAAATTATTAATATAATTA
1 AATAAATTATTATTTTAATTA
83933485 ATATAAATTATTATTTTAA-TA
1 A-ATAAATTATTATTTTAATTA
* * *
83933506 AATTATTTAATATTTTAATT
1 AATAAATTATTATTTTAATT
83933526 TTATTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.41
21 5 0.15
22 15 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAAATTATTATTTTAATTA
Found at i:83936059 original size:27 final size:27
Alignment explanation
Indices: 83936029--83936080 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
83936019 ATCACACACT
*
83936029 ATTTTATACCATATTCAAT-TCATTCTA
1 ATTTTAT-CAATATTCAATATCATTCTA
*
83936056 ATTTTCTCAATATTCAATATCATTC
1 ATTTTATCAATATTCAATATCATTC
83936081 AATATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTTATCAATATTCAATATCATTCTA
Found at i:83948490 original size:46 final size:46
Alignment explanation
Indices: 83948432--83948524 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
83948422 TTAAATAGTA
83948432 AATTAAAAAAGTGTTGTTTTGGCCTAAGCTCATAAGCCTTAAAACG
1 AATTAAAAAAGTGTTGTTTTGGCCTAAGCTCATAAGCCTTAAAACG
83948478 AATTAAAAAAGTGTTGTTTTGGCCTAAGCTCATAAGCCTTAAAACG
1 AATTAAAAAAGTGTTGTTTTGGCCTAAGCTCATAAGCCTTAAAACG
83948524 A
1 A
83948525 CGTCGTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (46 bp):
AATTAAAAAAGTGTTGTTTTGGCCTAAGCTCATAAGCCTTAAAACG
Found at i:83948882 original size:3 final size:3
Alignment explanation
Indices: 83948868--83948951 Score: 132
Period size: 3 Copynumber: 27.7 Consensus size: 3
83948858 TATTAAATTA
*
83948868 ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
83948916 ATT CATT ATT ATT ATT ATT ATT ACT ATT ATT TTT AT
1 ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
83948952 GATCATTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
3 71 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:83949084 original size:31 final size:32
Alignment explanation
Indices: 83949049--83949131 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 32
83949039 CACTAGATTT
*
83949049 TTTTA-TTATTTCATTTATTATT-CCTCTATTA
1 TTTTATTTATTTCATTTATTATTATCT-TATTA
83949080 TTTTATTTATTTCA-TTATTATTATCTTATTA
1 TTTTATTTATTTCATTTATTATTATCTTATTA
83949111 -TTTATTTATTTCATTT-TTATT
1 TTTTATTTATTTCATTTATTATT
83949132 TTGTTTTTGT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
30 18 0.38
31 20 0.42
32 10 0.21
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (32 bp):
TTTTATTTATTTCATTTATTATTATCTTATTA
Found at i:83949090 original size:4 final size:4
Alignment explanation
Indices: 83949081--83949192 Score: 50
Period size: 4 Copynumber: 29.2 Consensus size: 4
83949071 CCTCTATTAT
83949081 TTTA TTTA TTTCA -TTA -TTA -TTA TCTTA -TTA TTTA TTTA TTTCA -TT-
1 TTTA TTTA TTT-A TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTT-A TTTA
* *
83949126 TTTA TTT- TGTT- TTTG TTCTCA -TTA -TTA -TTA TCTTA -TTA TATA
1 TTTA TTTA T-TTA TTTA TT-T-A TTTA TTTA TTTA T-TTA TTTA TTTA
*
83949168 TTTA TTTA TTTA TTTA TTCA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
83949193 GTCTTTATAT
Statistics
Matches: 89, Mismatches: 5, Indels: 28
0.73 0.04 0.23
Matches are distributed among these distances:
3 25 0.28
4 54 0.61
5 10 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:83949118 original size:53 final size:52
Alignment explanation
Indices: 83949051--83949178 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 52
83949041 CTAGATTTTT
83949051 TTATTATTTCATTTATT-ATTCCTCTATTATT-TTATTTATT-TCATTATTATTATC
1 TTATTATTT-ATTTATTCATT--TCTATT-TTGTT-TTTATTCTCATTATTATTATC
* *
83949105 TTATTATTTATTTATTTCATTTTTATTTTGTTTTTGTTCTCATTATTATTATC
1 TTATTATTTATTTA-TTCATTTCTATTTTGTTTTTATTCTCATTATTATTATC
* *
83949158 TTATTATATATTTATTTATTT
1 TTATTATTTATTTATTCATTT
83949179 ATTTATTCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
52 13 0.20
53 39 0.59
54 11 0.17
55 3 0.05
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (52 bp):
TTATTATTTATTTATTCATTTCTATTTTGTTTTTATTCTCATTATTATTATC
Found at i:83951465 original size:16 final size:15
Alignment explanation
Indices: 83951444--83951514 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 15
83951434 GTTTGGTTCA
83951444 CTGTAATAGAATAGAG
1 CTGTAATA-AATAGAG
83951460 CTGTAATTAAATAGAG
1 CTGTAA-TAAATAGAG
* * *
83951476 TTGTAATTAAATACAA
1 CTGTAA-TAAATAGAG
*
83951492 CTGTAATGGAATAGAG
1 CTGTAAT-AAATAGAG
83951508 CTGTAAT
1 CTGTAAT
83951515 TAGTAATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.02
16 43 0.93
17 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (15 bp):
CTGTAATAAATAGAG
Found at i:83956415 original size:22 final size:22
Alignment explanation
Indices: 83956373--83956415 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
83956363 GTTTAGTGAC
**
83956373 TATTTTTATAGTTTACTATTTT
1 TATTTTTATAGTTTAAAATTTT
83956395 TATTTTTATAG-TTAGAAATTT
1 TATTTTTATAGTTTA-AAATTT
83956416 AAATAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (22 bp):
TATTTTTATAGTTTAAAATTTT
Found at i:83957183 original size:12 final size:12
Alignment explanation
Indices: 83957166--83957192 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
83957156 CTTCTTCTTC
83957166 TTTTTTTTGTTT
1 TTTTTTTTGTTT
83957178 TTTTTTTTGTTT
1 TTTTTTTTGTTT
83957190 TTT
1 TTT
83957193 GCAGTTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:83957361 original size:43 final size:43
Alignment explanation
Indices: 83957293--83957408 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 43
83957283 TAATATATAT
* * * * * *
83957293 CGATGCCACTGTCCCGGATAGGGTCTTACACGAAATC-GATTAA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAAT-A
* *
83957336 CGATGCCAATGTCCCAGACATGGTCTTATACGTAATCTCAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
* *
83957379 CAATGCCAATGTCCCAAACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
83957409 TGTAATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 59 0.97
44 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTCAATA
Found at i:83963047 original size:35 final size:34
Alignment explanation
Indices: 83962966--83963053 Score: 88
Period size: 35 Copynumber: 2.6 Consensus size: 34
83962956 AGCTTGTCTG
* * *
83962966 ACTAGTGTTGGGCACACAACCGTCGGTTTATCCG
1 ACTAGAGTTGGGCACACAACCGTCGGTTCATCCA
* * *
83963000 ACTAGCGCTGGGCACA-ATCACCGTTGGTTCATCCA
1 ACTAGAGTTGGGCACACA--ACCGTCGGTTCATCCA
*
83963035 ACTAGAGTTGGGCTCACAA
1 ACTAGAGTTGGGCACACAA
83963054 TTATTATTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
33 1 0.02
34 15 0.35
35 26 0.60
36 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (34 bp):
ACTAGAGTTGGGCACACAACCGTCGGTTCATCCA
Found at i:83966195 original size:10 final size:10
Alignment explanation
Indices: 83966180--83966240 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
83966170 ATATTGTTAT
83966180 ACATGATATG
1 ACATGATATG
83966190 ACATGATATG
1 ACATGATATG
83966200 CACATGATATG
1 -ACATGATATG
** *
83966211 TTATGAGATG
1 ACATGATATG
83966221 CACATGATATG
1 -ACATGATATG
83966232 -CTATGATAT
1 AC-ATGATAT
83966241 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:83966205 original size:21 final size:20
Alignment explanation
Indices: 83966180--83966256 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
83966170 ATATTGTTAT
83966180 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
83966201 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
83966222 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
83966243 TCATTATATGCATG
1 ACATGATATGCATG
83966257 GGTTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:83974352 original size:21 final size:20
Alignment explanation
Indices: 83974327--83974387 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 20
83974317 ATATTGTTAT
83974327 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* **
83974348 ACATGATATGTTATGAGGTGC
1 ACATGATATG-CATGATATGC
83974369 ACATGATATGCTATGATAT
1 ACATGATATGC-ATGATAT
83974388 ACTCATTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:83974353 original size:11 final size:11
Alignment explanation
Indices: 83974327--83974379 Score: 56
Period size: 11 Copynumber: 5.0 Consensus size: 11
83974317 ATATTGTTAT
83974327 ACATGATATG-
1 ACATGATATGC
83974337 ACATGATATGC
1 ACATGATATGC
83974348 ACATGATATG-
1 ACATGATATGC
** **
83974358 TTATGAGGTGC
1 ACATGATATGC
83974369 ACATGATATGC
1 ACATGATATGC
83974380 TATGATATAC
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
10 16 0.48
11 17 0.52
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (11 bp):
ACATGATATGC
Found at i:83976708 original size:31 final size:31
Alignment explanation
Indices: 83976657--83976725 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
83976647 ATTAATTTAT
83976657 TTAAA-AATTAAGTTAAAAGATATTTATTA-A
1 TTAAATAATTAAGTTAAAAGAT-TTTATTACA
* *
83976687 TTAAATAATTATA-TTATAAGATTTTTTTACA
1 TTAAATAATTA-AGTTAAAAGATTTTATTACA
*
83976718 ATAAATAA
1 TTAAATAA
83976726 ATAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 11 0.33
31 21 0.64
32 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.04, T:0.43
Consensus pattern (31 bp):
TTAAATAATTAAGTTAAAAGATTTTATTACA
Found at i:83976912 original size:22 final size:22
Alignment explanation
Indices: 83976870--83976928 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 22
83976860 TAAATGAAAT
* *
83976870 AAAAGAAACAAAAGTATAAAAC
1 AAAAGAAACAAAAGCAAAAAAC
*
83976892 AAAAGAAAC-AAAGC-CAAAA-
1 AAAAGAAACAAAAGCAAAAAAC
83976911 AAAAGAAA-AAAAG-AAAAA
1 AAAAGAAACAAAAGCAAAAA
83976929 TAAAACATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 15 0.47
20 4 0.12
21 4 0.12
22 9 0.28
ACGTcount: A:0.78, C:0.08, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAGAAACAAAAGCAAAAAAC
Found at i:83978266 original size:24 final size:24
Alignment explanation
Indices: 83978239--83978286 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
83978229 GATATAAAAG
83978239 GAATTAGTATAATATCTATATTTT
1 GAATTAGTATAATATCTATATTTT
83978263 GAATTAGTATAATATCTATATTTT
1 GAATTAGTATAATATCTATATTTT
83978287 ATTATGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
GAATTAGTATAATATCTATATTTT
Found at i:83992506 original size:31 final size:30
Alignment explanation
Indices: 83992454--83992512 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
83992444 GAAAAGTTTA
* **
83992454 AATTTTTTAAAATAACTTTTTGATTTTTTC
1 AATTTTTCAAAATAAAGTTTTGATTTTTTC
*
83992484 AATTATTTCAAAATAAAGTTTTGGTTTTT
1 AATT-TTTCAAAATAAAGTTTTGATTTTT
83992513 AAGAAAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (30 bp):
AATTTTTCAAAATAAAGTTTTGATTTTTTC
Found at i:83992518 original size:148 final size:148
Alignment explanation
Indices: 83992264--83992533 Score: 375
Period size: 148 Copynumber: 1.8 Consensus size: 148
83992254 CTTTTTTTAA
* ***
83992264 AAAATAAAAATATGTTTTTTTTGTCATTTTAAAGGAAAGTTTAAATTTTTAAATTTTTTTTTGAT
1 AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATAACTTTTTGAT
* *
83992329 TTTTTTAACTATTTCGAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAAAA
66 TTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAAAA
83992394 GATAAAGTTTAGATTTTT
131 GATAAAGTTTAGATTTTT
* *
83992412 AAAAT-AAAATATG-TTTTTTAGTCATTTTTATGGAAAAGTTTAAATTTTTTAAAATAACTTTTT
1 AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG-AAAGTTTAAA-TTTTT-AAATAACTTTTT
* * ** *
83992475 GATTTTTTCAATTATTTCAAAATAAAGT-TTTGGTTTTTAAGAAAAGTAGTGATTTTTTT
63 GATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTT
83992534 AAAGAAATCT
Statistics
Matches: 106, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
146 17 0.16
147 18 0.17
148 38 0.36
149 33 0.31
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (148 bp):
AAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATAACTTTTTGAT
TTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTAAAAAAA
GATAAAGTTTAGATTTTT
Found at i:83992569 original size:147 final size:146
Alignment explanation
Indices: 83992258--83992566 Score: 337
Period size: 149 Copynumber: 2.1 Consensus size: 146
83992248 AGGTTTCTTT
* ***
83992258 TTTTAAAAAATAAAAATATGTTTTTTTTGTCATTTTAAAGGAAAGTTTAAATTTTTAAATTTTTT
1 TTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATAACTT
* *
83992323 TTTGATTTTTTTAACTATTTCGAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTA
66 TTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTT-
*
83992388 AAAAAAGATAAAGTTTAGA
130 --AAAAGATAAACTTTAGA
* * *
83992407 TTTT-TAAAAT-AAAATATG-TTTTTTAGTCATTTTTATGGAAAAGTTTAAATTTTTTAAAATAA
1 TTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGG-AAAGTTTAAA-TTTTT-AAATAA
* * ** *
83992469 CTTTTTGATTTTTTCAATTATTTCAAAATAAAGT-TTTGGTTTTTAAGAAAAGTAGTGA-TTTTT
63 CTTTTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTT
*
83992532 TT-AAAGA-AATCTTT-GA
128 TTAAAAGATAAACTTTAGA
83992548 TTTTGCAAAAAAATAAAAA
1 TTTT---AAAAAATAAAAA
83992567 ATAAAATTTC
Statistics
Matches: 135, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
141 6 0.04
142 5 0.04
143 5 0.04
145 5 0.04
146 21 0.16
147 25 0.19
148 31 0.23
149 37 0.27
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (146 bp):
TTTTAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAAGGAAAGTTTAAATTTTTAAATAACTT
TTTGATTTTTTCAACTATTTCAAAATAAAATCTTTAATTTTTAAGAAAAATAGTGATTTTTTTTA
AAAGATAAACTTTAGA
Found at i:83993166 original size:16 final size:16
Alignment explanation
Indices: 83993134--83993168 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
83993124 TTATTTCGTC
83993134 TTTATTTATTTTCATG
1 TTTATTTATTTTCATG
83993150 TTTATTTATATTT-ATG
1 TTTATTTAT-TTTCATG
83993166 TTT
1 TTT
83993169 TTTTGCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTATTTATTTTCATG
Found at i:83999929 original size:150 final size:149
Alignment explanation
Indices: 83999742--84000030 Score: 443
Period size: 150 Copynumber: 1.9 Consensus size: 149
83999732 TCTTGAACCG
*
83999742 GATCTTGAACAGCTCTCCCCACTTAGAGCAAGATATGAAAAAATTAATTAATATCCAAAACACCT
1 GATCTTGAACAGCTCTCACCACTTAGAGCAAGATATGAAAAAATTAATTAATATCCAAAACACCT
* *
83999807 TATTTGCTAATAAACATTCAAAGTATTTGAATAAACTTGCGCTTACCCGTAATCATCTTCGCTCT
66 TATTTGCTAATAAACACTCAAAGTATTTGAATAAACTTGCGCTTACCCGTAA-CATATTCGCTCT
83999872 CTTCTAGAGAACTACTTCAA
130 CTTCTAGAGAACTACTTCAA
** * * * * *
83999892 GATCTTGAATGGCTCTCACTACTTGGAGCAAGATATGACAAAATTAATTGATATCCAAAACATCT
1 GATCTTGAACAGCTCTCACCACTTAGAGCAAGATATGAAAAAATTAATTAATATCCAAAACACCT
* * *
83999957 TATTTGCTAATGACCACTCAAAGTATTTGAATAAACTTGCGCTTACTCGTAACATATTCGCTCTC
66 TATTTGCTAATAAACACTCAAAGTATTTGAATAAACTTGCGCTTACCCGTAACATATTCGCTCTC
*
84000022 TTCTGGAGA
131 TTCTAGAGA
84000031 TGTAACGCCC
Statistics
Matches: 125, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
149 20 0.16
150 105 0.84
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (149 bp):
GATCTTGAACAGCTCTCACCACTTAGAGCAAGATATGAAAAAATTAATTAATATCCAAAACACCT
TATTTGCTAATAAACACTCAAAGTATTTGAATAAACTTGCGCTTACCCGTAACATATTCGCTCTC
TTCTAGAGAACTACTTCAA
Found at i:84001487 original size:46 final size:46
Alignment explanation
Indices: 84001323--84001496 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
84001313 TGTAACCCGC
* * *
84001323 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * * *
84001369 CCATGAGTGAACTC--ACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
*
84001417 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
84001460 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
84001497 TGCCCAAACA
Statistics
Matches: 105, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 21 0.20
45 6 0.06
46 41 0.39
47 21 0.20
48 6 0.06
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:84001508 original size:91 final size:90
Alignment explanation
Indices: 84001330--84001508 Score: 252
Period size: 91 Copynumber: 2.0 Consensus size: 90
84001320 CGCCCATAAG
* * *
84001330 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCACTCAACTCAAC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCACTCAACTCAAC
* *
84001395 GAGCTCGGATGCCTAGTTACATCTCT
66 GAGCTCGGATGCCCAG-AACATCTCT
* *
84001421 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTC--ACTCAACTCA
*
84001486 ACGAGTTCGGATGCCCA-AACATC
64 ACGAGCTCGGATGCCCAGAACATC
84001509 CTAGTGACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 53 0.68
93 25 0.32
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (90 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCACTCAACTCAAC
GAGCTCGGATGCCCAGAACATCTCT
Found at i:84003910 original size:15 final size:15
Alignment explanation
Indices: 84003881--84003930 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
84003871 CAAAGATAAC
*
84003881 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
84003895 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
84003910 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
84003925 AAGAAA
1 AAGAAA
84003931 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:84003939 original size:15 final size:15
Alignment explanation
Indices: 84003892--84003939 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
84003882 AGAAAACCGA
84003892 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
84003906 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
84003922 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
84003937 ATA
1 ATA
84003940 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:84007019 original size:93 final size:93
Alignment explanation
Indices: 84006859--84007029 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
84006849 CCCATAAGCG
* *
84006859 AACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
84006924 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
84006952 AACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTCGA
1 AACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
84007016 CGAGTTCGGATGCC
65 CGAGCTCGGATGCC
84007030 CAAACATCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:84007020 original size:46 final size:47
Alignment explanation
Indices: 84006850--84007025 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 47
84006840 TGTAACCCGC
* * *
84006850 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* * *
84006896 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-ATTTGCAT
* *
84006946 CTC-TCA---AACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* *
84006989 CCATAAGTGAACTCGGACTCAACTCGACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
84007026 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 9 0.08
44 1 0.01
46 59 0.54
47 29 0.27
48 1 0.01
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
Found at i:84009138 original size:20 final size:20
Alignment explanation
Indices: 84009104--84009145 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
84009094 AACTATTTAA
** *
84009104 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
84009124 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
84009144 AT
1 AT
84009146 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:84014774 original size:45 final size:45
Alignment explanation
Indices: 84014724--84014814 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
84014714 AATAAATTTA
84014724 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAACAATGTATTG
1 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAACAATGTATTG
84014769 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAACAATGTATTG
1 AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAACAATGTATTG
84014814 A
1 A
84014815 TTACTTTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (45 bp):
AAGCAAGGTTGGTAGCCAAAGGTTTTACACAAAAACAATGTATTG
Found at i:84021245 original size:3 final size:3
Alignment explanation
Indices: 84021237--84021271 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
84021227 ATAAGCTGCA
84021237 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
84021272 ACATCATGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:84031729 original size:12 final size:12
Alignment explanation
Indices: 84031712--84031737 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84031702 CAAAGATTTC
84031712 TTCTTCTTCTTT
1 TTCTTCTTCTTT
84031724 TTCTTCTTCTTT
1 TTCTTCTTCTTT
84031736 TT
1 TT
84031738 ATTTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTCTTCTTT
Found at i:84034138 original size:24 final size:25
Alignment explanation
Indices: 84034086--84034138 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
84034076 AATCTAATGT
* * *
84034086 ATTTATATGTTTAAATTTTGTTTTT
1 ATTTATATGTTTAAATGTTATTTTA
84034111 ATTTATATGTTTAAA-GTTATTTTA
1 ATTTATATGTTTAAATGTTATTTTA
84034135 ATTT
1 ATTT
84034139 GACATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 10 0.40
25 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (25 bp):
ATTTATATGTTTAAATGTTATTTTA
Found at i:84060856 original size:2 final size:2
Alignment explanation
Indices: 84060849--84060879 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
84060839 CAAACACATA
84060849 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84060880 CATTCGAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84063693 original size:2 final size:2
Alignment explanation
Indices: 84063686--84063712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
84063676 GTTGCAACAA
84063686 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
84063713 CACATATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84064587 original size:17 final size:18
Alignment explanation
Indices: 84064565--84064599 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
84064555 ATTGGTCCTA
84064565 AAAAT-AGTATCGATACT
1 AAAATAAGTATCGATACT
*
84064582 AAAATAAGTATTGATACT
1 AAAATAAGTATCGATACT
84064600 TTGTAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (18 bp):
AAAATAAGTATCGATACT
Found at i:84065163 original size:29 final size:30
Alignment explanation
Indices: 84065120--84065189 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
84065110 GGTGTTATAT
* *
84065120 TTCATGTGTATAATTG-CACCAAATTAAAG
1 TTCATGTATAGAATTGACACCAAATTAAAG
**
84065149 TTCATGTATAGAATTGTACATTAAATTAAAG
1 TTCATGTATAGAATTG-ACACCAAATTAAAG
*
84065180 TTCATATATA
1 TTCATGTATA
84065190 ATTTTAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 14 0.41
31 20 0.59
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (30 bp):
TTCATGTATAGAATTGACACCAAATTAAAG
Found at i:84066304 original size:2 final size:2
Alignment explanation
Indices: 84066297--84066338 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
84066287 TTGGTGCTTT
84066297 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84066339 AATAAAGAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:84074890 original size:21 final size:21
Alignment explanation
Indices: 84074864--84074905 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
84074854 AAGGCTAAAT
84074864 TTTTTTTTCTAAAAGTCCAAA
1 TTTTTTTTCTAAAAGTCCAAA
84074885 TTTTTTTTCTAAAAGTCCAAA
1 TTTTTTTTCTAAAAGTCCAAA
84074906 AATAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (21 bp):
TTTTTTTTCTAAAAGTCCAAA
Found at i:84077909 original size:5 final size:5
Alignment explanation
Indices: 84077899--84077923 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
84077889 GTCCTTTCGT
84077899 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
84077924 TTCAAGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:84078204 original size:27 final size:27
Alignment explanation
Indices: 84078157--84078231 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
84078147 TTTATATAAA
*
84078157 TTTAATAAATGAAAAAT-ATATAAA-ATT
1 TTTAA-AAATAAAAAATAATATAAATA-T
* * *
84078184 TTTAAATATTAAATATAATATAAATAT
1 TTTAAAAATAAAAAATAATATAAATAT
84078211 TTTAAAAATAAAAAATAATAT
1 TTTAAAAATAAAAAATAATAT
84078232 GGGAAGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.20
27 31 0.77
28 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (27 bp):
TTTAAAAATAAAAAATAATATAAATAT
Found at i:84080736 original size:22 final size:22
Alignment explanation
Indices: 84080709--84080756 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
84080699 ATAATAAATT
84080709 TTTATATATTTTTAT-ATTAATA
1 TTTATATATTTTTATAATTAA-A
*
84080731 TTTATATGTTTTTATAATTAAA
1 TTTATATATTTTTATAATTAAA
84080753 TTTA
1 TTTA
84080757 AATTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTATATATTTTTATAATTAAA
Found at i:84081889 original size:20 final size:20
Alignment explanation
Indices: 84081864--84081901 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
84081854 CCTTACATCG
84081864 TTACATAATTGAAACTTTCA
1 TTACATAATTGAAACTTTCA
84081884 TTACATAATTGAAACTTT
1 TTACATAATTGAAACTTT
84081902 TCAGAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.05, T:0.42
Consensus pattern (20 bp):
TTACATAATTGAAACTTTCA
Found at i:84081970 original size:23 final size:23
Alignment explanation
Indices: 84081940--84082029 Score: 128
Period size: 23 Copynumber: 3.9 Consensus size: 23
84081930 ATACAAACCA
* *
84081940 CAGAGAATATTCACTATTCATGC
1 CAGAGAATATTTACTATTCACGC
84081963 CAGAGAATATTTACTATTCACGC
1 CAGAGAATATTTACTATTCACGC
84081986 CAGAGAATATTTA-TGATTCACGC
1 CAGAGAATATTTACT-ATTCACGC
* *
84082009 CAGAGAATATTTCCTGTTCAC
1 CAGAGAATATTTACTATTCAC
84082030 TCGTTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.02
23 59 0.97
24 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (23 bp):
CAGAGAATATTTACTATTCACGC
Found at i:84087563 original size:108 final size:108
Alignment explanation
Indices: 84087426--84087638 Score: 408
Period size: 108 Copynumber: 2.0 Consensus size: 108
84087416 TGTAATAAAC
*
84087426 TAAGAATATTATATTCAAACATTCTGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAAACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
84087491 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
*
84087534 TAAGAATATTATATTCAGACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
1 TAAGAATATTATATTCAAACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
84087599 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
66 TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTG
84087639 TAGTGATTTT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 103 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (108 bp):
TAAGAATATTATATTCAAACATTCCGTCTATATTACATTCATAAATTGTATTAGCATTGTATTTA
TTCTGGAAAATGGGTTTTTCTTCTATATTAAGATCAGGTGCAG
Found at i:84090115 original size:20 final size:20
Alignment explanation
Indices: 84090090--84090130 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
84090080 ATCCCTTACA
84090090 TCATTACATAATTAAAACTT
1 TCATTACATAATTAAAACTT
*
84090110 TCATTACATAATTGAAACTT
1 TCATTACATAATTAAAACTT
84090130 T
1 T
84090131 TCAGAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (20 bp):
TCATTACATAATTAAAACTT
Found at i:84090200 original size:23 final size:23
Alignment explanation
Indices: 84090172--84090259 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 23
84090162 CAAACTACAG
84090172 AAAATATTCACTGTTCATGCCAA
1 AAAATATTCACTGTTCATGCCAA
* * *
84090195 AAAATATTTATTGTTCATGCCAG
1 AAAATATTCACTGTTCATGCCAA
* *
84090218 AGAATCTT-ACTGTTTC-TGCC-A
1 AAAATATTCACTG-TTCATGCCAA
*
84090239 AAGAT-TTCTACTGTTCATGCC
1 AAAATATTC-ACTGTTCATGCC
84090260 GAAGAGAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
20 2 0.04
21 6 0.12
22 15 0.29
23 29 0.56
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (23 bp):
AAAATATTCACTGTTCATGCCAA
Found at i:84090259 original size:22 final size:22
Alignment explanation
Indices: 84090181--84090264 Score: 66
Period size: 22 Copynumber: 3.8 Consensus size: 22
84090171 GAAAATATTC
*
84090181 ACTGTTCATGCCAAAAAATATT-T
1 ACTGTTCATGCC-AAAGAT-TTCT
* * *
84090204 ATTGTTCATGCCAGAGA-ATCTT
1 ACTGTTCATGCCAAAGATTTC-T
84090226 ACTGTTTC-TGCCAAAGATTTCT
1 ACTG-TTCATGCCAAAGATTTCT
*
84090248 ACTGTTCATGCCGAAGA
1 ACTGTTCATGCCAAAGA
84090265 GAATAAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 28 0.58
23 16 0.33
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTGTTCATGCCAAAGATTTCT
Found at i:84093107 original size:14 final size:14
Alignment explanation
Indices: 84093088--84093119 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
84093078 ATTTACAGTG
84093088 CTAACAGTCACATA
1 CTAACAGTCACATA
84093102 CTAACAGTCACATA
1 CTAACAGTCACATA
84093116 CTAA
1 CTAA
84093120 TGATGTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (14 bp):
CTAACAGTCACATA
Found at i:84095028 original size:14 final size:14
Alignment explanation
Indices: 84094996--84095106 Score: 64
Period size: 14 Copynumber: 7.8 Consensus size: 14
84094986 ATTATCGCTA
* *
84094996 TTATTTTTATGTTT
1 TTATTTATATATTT
* *
84095010 CTATTTATATTTTT
1 TTATTTATATATTT
*
84095024 TTATTCTAATACTATTA
1 TTATT-T-ATA-TATTT
* *
84095041 TTATTTATCTAATT
1 TTATTTATATATTT
*
84095055 TTATTTATCTATTT
1 TTATTTATATATTT
* * *
84095069 ATATTTCTATTTATT
1 TTATTTATATAT-TT
84095084 TTATTT-T-TATTT
1 TTATTTATATATTT
*
84095096 CTATTTATATA
1 TTATTTATATA
84095107 CTAATATTAT
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
12 7 0.09
13 3 0.04
14 42 0.57
15 10 0.14
16 4 0.05
17 8 0.11
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (14 bp):
TTATTTATATATTT
Found at i:84095077 original size:12 final size:12
Alignment explanation
Indices: 84095062--84095105 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
84095052 ATTTTATTTA
84095062 TCTATTTATATT
1 TCTATTTATATT
84095074 TCTA-TT-TATT
1 TCTATTTATATT
*
84095084 T-TATTTTTATT
1 TCTATTTATATT
84095095 TCTATTTATAT
1 TCTATTTATAT
84095106 ACTAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.07
10 7 0.25
11 7 0.25
12 12 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TCTATTTATATT
Found at i:84095094 original size:11 final size:12
Alignment explanation
Indices: 84095048--84095101 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
84095038 TTATTATTTA
*
84095048 TCTAATTTTATTT
1 TCTATTTTTA-TT
*
84095061 ATCTATTTATATT
1 -TCTATTTTTATT
84095074 TCTA--TTTATT
1 TCTATTTTTATT
84095084 T-TATTTTTATT
1 TCTATTTTTATT
84095095 TCTATTT
1 TCTATTT
84095102 ATATACTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
9 2 0.06
10 6 0.18
11 7 0.21
12 9 0.26
13 2 0.06
14 8 0.24
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (12 bp):
TCTATTTTTATT
Found at i:84095129 original size:35 final size:33
Alignment explanation
Indices: 84095036--84095130 Score: 86
Period size: 34 Copynumber: 2.8 Consensus size: 33
84095026 ATTCTAATAC
* * *
84095036 TATTATTATTTATCTAATT-TTATTTATCTATTTA
1 TATTACTATTTATTTTATTATTA-TT-TCTATTTA
* *
84095070 TATTTCTATTTATTTTATTTTTATTTCTATTTA
1 TATTACTATTTATTTTATTATTATTTCTATTTA
84095103 TA-TACTAATATTATTTTCATTATTATTT
1 TATTACT-AT-TTATTTT-ATTATTATTT
84095131 TTCTTATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
32 3 0.06
33 12 0.24
34 24 0.47
35 12 0.24
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (33 bp):
TATTACTATTTATTTTATTATTATTTCTATTTA
Found at i:84096473 original size:26 final size:26
Alignment explanation
Indices: 84096444--84096551 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84096434 TGGTACAAAT
84096444 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
84096470 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84096496 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
84096522 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
84096548 TGAT
1 TGAT
84096552 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:84101165 original size:9 final size:9
Alignment explanation
Indices: 84101151--84101180 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
84101141 GCCAAAAAAT
84101151 AATTTTATA
1 AATTTTATA
84101160 AATTTTATA
1 AATTTTATA
84101169 AATTTTATA
1 AATTTTATA
84101178 AAT
1 AAT
84101181 AATTATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTTATA
Found at i:84103375 original size:11 final size:10
Alignment explanation
Indices: 84103346--84103386 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
84103336 AAAACCTAAC
84103346 TTTGTAAAAA
1 TTTGTAAAAA
84103356 TTCT-TAAAAA
1 TT-TGTAAAAA
84103366 TTTGTGAAAAA
1 TTTGT-AAAAA
84103377 -TTGTAAAAA
1 TTTGTAAAAA
84103386 T
1 T
84103387 ATATATATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.22
10 15 0.56
11 6 0.22
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (10 bp):
TTTGTAAAAA
Found at i:84103383 original size:20 final size:20
Alignment explanation
Indices: 84103346--84103386 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
84103336 AAAACCTAAC
*
84103346 TTTGTAAAAATTCTTAAAAA
1 TTTGTAAAAATTCGTAAAAA
84103366 TTTGTGAAAAATT-GTAAAAA
1 TTTGT-AAAAATTCGTAAAAA
84103386 T
1 T
84103387 ATATATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (20 bp):
TTTGTAAAAATTCGTAAAAA
Found at i:84103635 original size:20 final size:20
Alignment explanation
Indices: 84103600--84103638 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84103590 TTCTTATAGA
**
84103600 ATATTGTTATTTAGAGAGAG
1 ATATTGTTATCGAGAGAGAG
84103620 ATATTGTTATCGAGAGAGA
1 ATATTGTTATCGAGAGAGA
84103639 TGTTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.36
Consensus pattern (20 bp):
ATATTGTTATCGAGAGAGAG
Found at i:84104066 original size:21 final size:22
Alignment explanation
Indices: 84104041--84104099 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
84104031 TAACGCCAAA
*
84104041 AAATAATTTTTTA-AATTTTTT
1 AAATAATTATTTATAATTTTTT
*
84104062 AAATAATTATTTATGATTTTTT
1 AAATAATTATTTATAATTTTTT
84104084 AACAT-ATATATTTATA
1 AA-ATAAT-TATTTATA
84104100 TAACAACATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 12 0.38
22 11 0.34
23 9 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAATAATTATTTATAATTTTTT
Found at i:84104371 original size:18 final size:18
Alignment explanation
Indices: 84104348--84104385 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
84104338 GAGTTAAACG
84104348 AATCGAGTTATTCAAATT
1 AATCGAGTTATTCAAATT
*
84104366 AATCGAGTTATTCAAGTT
1 AATCGAGTTATTCAAATT
84104384 AA
1 AA
84104386 CTCAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCAAATT
Found at i:84104583 original size:29 final size:29
Alignment explanation
Indices: 84104524--84104584 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
84104514 CTTTATTTTT
*
84104524 CCCCAAAACTTTTACTTCCTCCCACTTCC
1 CCCCAAAACTTTTACTTCCTCCCACTCCC
84104553 CCCCAAAACTTTTA-TTCCCCTCCCA-TCCC
1 CCCCAAAACTTTTACTT--CCTCCCACTCCC
84104582 CCC
1 CCC
84104585 GTTCTACCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 7 0.24
ACGTcount: A:0.20, C:0.52, G:0.00, T:0.28
Consensus pattern (29 bp):
CCCCAAAACTTTTACTTCCTCCCACTCCC
Found at i:84107533 original size:16 final size:16
Alignment explanation
Indices: 84107512--84107547 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
84107502 AATCCCTAAC
* *
84107512 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
84107528 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
84107544 AATC
1 AATC
84107548 AATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:84107631 original size:32 final size:32
Alignment explanation
Indices: 84107569--84107642 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
84107559 GAAATCTTTT
* *
84107569 TGAAATCCCTAAAATTTTTACGAATCAAATCG
1 TGAAATCCCTAAAACTATTACGAATCAAATCG
*
84107601 TTG-AATCCCTAAAACTATTAGGAA-CGAAATCG
1 -TGAAATCCCTAAAACTATTACGAATC-AAATCG
84107633 TGAAATCCCT
1 TGAAATCCCT
84107643 TAGAACCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 3 0.08
32 31 0.86
33 2 0.06
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (32 bp):
TGAAATCCCTAAAACTATTACGAATCAAATCG
Done.