Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 21 of 221
Found at i:6038096 original size:44 final size:44
Alignment explanation
Indices: 6038018--6038105 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
6038008 TTAGGGTTTT
* *
6038018 TCTGCTTAACTTTGTAGTGTTGGGCTAGGGACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
* *
6038062 TCTGTTTAATTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
6038106 ATTGGGCCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.41
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
Found at i:6038618 original size:44 final size:44
Alignment explanation
Indices: 6038569--6038673 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
6038559 AAGACTTATA
*
6038569 TCTTTGATCTACTCCACGCCAGTACACGAAGACAAGATCTACTT
1 TCTTTGATCTACTCCACGCCAGTACACAAAGACAAGATCTACTT
* ** * *
6038613 TCTTTGATCTACTTCACGTTAGTACATAAAGACAAGATCTGCTT
1 TCTTTGATCTACTCCACGCCAGTACACAAAGACAAGATCTACTT
*
6038657 TCTTCGATCTACTCCAC
1 TCTTTGATCTACTCCAC
6038674 CACCAGTATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (44 bp):
TCTTTGATCTACTCCACGCCAGTACACAAAGACAAGATCTACTT
Found at i:6038833 original size:45 final size:44
Alignment explanation
Indices: 6038779--6038920 Score: 142
Period size: 45 Copynumber: 3.2 Consensus size: 44
6038769 TTAGGGAAAT
* * *
6038779 AAGATCTGTTTTCCTCGATCTACTTCGCCACCAGTATGGGAAGGC
1 AAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
* * * *** *
6038824 AAGATCTGTTACATTTGATCTGCTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTC-TTTGATCTGCTTCGCCACCAGTATGGGAAGGC
* *
6038868 AAGATCTACTTTCTTTGATCGGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCT-GTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
6038913 AAGATCTG
1 AAGATCTG
6038921 ATATATTTGA
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
44 34 0.46
45 40 0.54
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
AAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
Found at i:6038930 original size:45 final size:45
Alignment explanation
Indices: 6038801--6038931 Score: 140
Period size: 44 Copynumber: 2.9 Consensus size: 45
6038791 CCTCGATCTA
* * *
6038801 CTTCGCCACCAGTATGGGAAGGCAAGATCTGTTACATTTGATCTG
1 CTTCGCCACCAGTATGGGAAGGCAAGATCTGATATATTTGATCGG
* * *** * * *
6038846 CTTC-ACGCCAGTACATGAAGACAAGATCT-ACTTTCTTTGATCGG
1 CTTCGCCACCAGTATGGGAAGGCAAGATCTGA-TATATTTGATCGG
6038890 CTTCGCCACCAGTATGGGAAGGCAAGATCTGATATATTTGAT
1 CTTCGCCACCAGTATGGGAAGGCAAGATCTGATATATTTGAT
6038932 ATGTTCAATT
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
44 32 0.50
45 31 0.48
46 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
CTTCGCCACCAGTATGGGAAGGCAAGATCTGATATATTTGATCGG
Found at i:6039005 original size:50 final size:50
Alignment explanation
Indices: 6038951--6039388 Score: 177
Period size: 50 Copynumber: 8.8 Consensus size: 50
6038941 TGCAATGTCG
* *
6038951 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACCGCACCGTCA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCA
** * * ** * ***
6039001 GGGAAGTAAGATCTGCCGTTGTGGCTTCAATCT-TTTTAGTTGCAATATCA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCA-CTGCACCGTCA
* * * *
6039051 GGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCGCTGCACCG-CTA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTC-A
* ** * * * ** * ***
6039101 AGGAAGTAAGATCCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATATCA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCA
* *
6039150 GGGAAACTAA-ATCTACCGTCGTAGCTTCAATCTGTTCCGCTGCACCG-CTA
1 GGGAAAC-AAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTC-A
* ** ** * * * * ** * *** *
6039200 AGGAAGTAAGATCCACCGTTGTGGCTTCAATATTTTTAATTGCAATATTA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCA
* * * * *
6039250 GGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTACGCTGCACTAC-TTA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCAC--CGTCA
* ** * * * ** * * ***
6039301 AGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTACAATATCA
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCA
* * *
6039351 GGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCC
1 GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCC
6039389 GCTGTATTGC
Statistics
Matches: 264, Mismatches: 112, Indels: 24
0.66 0.28 0.06
Matches are distributed among these distances:
49 37 0.14
50 191 0.72
51 36 0.14
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (50 bp):
GGGAAACAAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGTCA
Found at i:6039113 original size:100 final size:100
Alignment explanation
Indices: 6038938--6039438 Score: 727
Period size: 100 Copynumber: 5.0 Consensus size: 100
6038928 TGATATGTTC
* * * * * *
6038938 AATTGCAATGTCGGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCT-AA
*
6039002 GGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTT
65 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* *
6039038 AGTTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCGCTGCACCGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
6039103 GAAGTAAGATCCGCCGTTGTGGCTTCAATC-TTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * **
6039137 AATTGCAATATCAGGGAAACTAAATCTACCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
* *
6039202 GAAGTAAGATCCACCGTTGTGGCTTCAATATTTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * * **
6039237 AATTGCAATATTAGGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTACGCTGCACTACTTAA
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGC-TAA
*
6039302 GGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTT
65 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * * **
6039338 AATTACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAACCTGTTCCGCTGTATTGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
*
6039403 GAAGTAAGATCCGTCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
6039438 A
1 A
6039439 CTTTTCAACC
Statistics
Matches: 361, Mismatches: 37, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
99 91 0.25
100 180 0.50
101 90 0.25
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
Found at i:6039619 original size:11 final size:11
Alignment explanation
Indices: 6039603--6039643 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
6039593 TAGGCATGTA
6039603 TGAATGACATT
1 TGAATGACATT
*
6039614 TGAATGGCATGT
1 TGAATGACAT-T
6039626 ATGAATGACATT
1 -TGAATGACATT
6039638 TGAATG
1 TGAATG
6039644 CTATGTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 15 0.58
12 2 0.08
13 9 0.35
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (11 bp):
TGAATGACATT
Found at i:6039632 original size:13 final size:13
Alignment explanation
Indices: 6039595--6039632 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6039585 CTCCTAACTA
6039595 GGCATGTATGAAT
1 GGCATGTATGAAT
*
6039608 GACAT-T-TGAAT
1 GGCATGTATGAAT
6039619 GGCATGTATGAAT
1 GGCATGTATGAAT
6039632 G
1 G
6039633 ACATTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (13 bp):
GGCATGTATGAAT
Found at i:6039649 original size:24 final size:24
Alignment explanation
Indices: 6039595--6039643 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6039585 CTCCTAACTA
6039595 GGCATGTATGAATGACATTTGAAT
1 GGCATGTATGAATGACATTTGAAT
6039619 GGCATGTATGAATGACATTTGAAT
1 GGCATGTATGAATGACATTTGAAT
6039643 G
1 G
6039644 CTATGTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (24 bp):
GGCATGTATGAATGACATTTGAAT
Found at i:6047546 original size:20 final size:20
Alignment explanation
Indices: 6047521--6047560 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6047511 TAAAGGTCTT
6047521 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
6047541 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
6047561 ATGAGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:6052114 original size:10 final size:9
Alignment explanation
Indices: 6052076--6052120 Score: 54
Period size: 10 Copynumber: 4.6 Consensus size: 9
6052066 ACAAAAACGC
6052076 AAAAGAAAAT
1 AAAA-AAAAT
6052086 AAAAAAATAT
1 AAAAAAA-AT
6052096 ATAAAAAAAT
1 A-AAAAAAAT
6052106 AAAATAAAAT
1 AAAA-AAAAT
6052116 AAAAA
1 AAAAA
6052121 TGCAAGAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.22
10 19 0.59
11 6 0.19
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:6052538 original size:44 final size:44
Alignment explanation
Indices: 6052460--6052547 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
6052450 TTAGGGTTTT
* *
6052460 TCTGCTTAACTTTGTAGTGTTGGGCTAGGGACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
* *
6052504 TCTGTTTAATTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
6052548 ATTGGGCCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.41
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
Found at i:6053079 original size:44 final size:44
Alignment explanation
Indices: 6053011--6053111 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
6053001 AAGACTTATA
6053011 TCTTTGATCTACTTCACGCCAGTACACGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACACGAAGACAAGATCTGCTT
* *
6053055 TCTTTGATCTACTTCACGCTAGTACATGAAGACAAGATCTGCTT
1 TCTTTGATCTACTTCACGCCAGTACACGAAGACAAGATCTGCTT
*
6053099 TCTTCGATCTACT
1 TCTTTGATCTACT
6053112 CCACCACCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.34
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCCAGTACACGAAGACAAGATCTGCTT
Found at i:6053272 original size:45 final size:44
Alignment explanation
Indices: 6053221--6053376 Score: 143
Period size: 45 Copynumber: 3.5 Consensus size: 44
6053211 TTAGGGAGAT
* * *
6053221 AAGATCTGTTTTCCTCGATCTACTTCGCCACCAGTATGGGAAGGC
1 AAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
* * * *** *
6053266 AAGATCTGTTACATTTGATCTGCTTC-ACGCCAGTACATGAAGAC
1 AAGATCTGTTTC-TTTGATCTGCTTCGCCACCAGTATGGGAAGGC
* *
6053310 AAGATCTACTTTCTTTGATCGGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCT-GTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
* *
6053355 AAGATCTGATATATTTGATCTG
1 AAGATCTG-TTTCTTTGATCTG
6053377 TTCAATTGCA
Statistics
Matches: 84, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
44 34 0.40
45 50 0.60
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
AAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGC
Found at i:6053560 original size:50 final size:50
Alignment explanation
Indices: 6053506--6053875 Score: 212
Period size: 50 Copynumber: 7.4 Consensus size: 50
6053496 AAACCATATT
* *
6053506 CGCCGTCGTAGCTTCAACCTGTTCCGCTGCACCGCTAAGGAAGTAAGATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCTAAGGAAGTAAGATC
* * **** ** * *
6053556 CGCCGTTGTGGCTTCAATCT-TTTAATTGCA-ATATCAGGGAAACTAA-ATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCT-AAGG-AAGTAAGATC
*
6053605 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAGGAAGTAAGATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCTAAGGAAGTAAGATC
* * * **** * ** * *
6053655 CGCCGTTGTGGCTTCAATCTTTTTAATTTCA-ATATCAGGGAAACT-AGATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCT-AAGG-AAGTAAGATC
* *
6053705 CGCCGTCGTATCTTCAATCTGTTCCGCTGCACTGCTTAAGGAAGTAAGATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGC-TAAGGAAGTAAGATC
* * * **** ** * *** *
6053756 CGCCGTTGTGGCTTCAATCTTTTTAATTGCA-ATATCAGGGAAACCAGATT
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCT-AAGGAAGTAAGATC
* * * * *
6053806 CGCCATCATAGCTTCAACCTGTTCCGCTGTACTGCTAAGGAAGTAAGATC
1 CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCTAAGGAAGTAAGATC
* *
6053856 CGCCGTTGTGGCTTCAATCT
1 CGCCGTCGTAGCTTCAATCT
6053876 TTTTACTTTT
Statistics
Matches: 218, Mismatches: 90, Indels: 24
0.66 0.27 0.07
Matches are distributed among these distances:
48 1 0.00
49 37 0.17
50 143 0.66
51 36 0.17
52 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
CGCCGTCGTAGCTTCAATCTGTTCCGCTGCACAGCTAAGGAAGTAAGATC
Found at i:6053566 original size:100 final size:100
Alignment explanation
Indices: 6053380--6053880 Score: 745
Period size: 100 Copynumber: 5.0 Consensus size: 100
6053370 TGATCTGTTC
* * * * * *
6053380 AATTGCAATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCT-AA
* *
6053444 GGAAGTAAGATCCGTCGTTGTGGCTTCAATATTTTT
65 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * * * *
6053480 AGTTGAAATATCAGGGAAACCATATTCGCCGTCGTAGCTTCAACCTGTTCCGCTGCACCGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
6053545 GAAGTAAGATCCGCCGTTGTGGCTTCAATC-TTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* *
6053579 AATTGCAATATCAGGGAAACTAAATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
6053644 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * * *
6053679 AATTTCAATATCAGGGAAACTAGATCCGCCGTCGTATCTTCAATCTGTTCCGCTGCACTGCTTAA
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGC-TAA
6053744 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
65 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
* * * * * *
6053780 AATTGCAATATCAGGGAAACCAGATTCGCCATCATAGCTTCAACCTGTTCCGCTGTACTGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
6053845 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
6053880 A
1 A
6053881 CTTTTCAACC
Statistics
Matches: 367, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
99 93 0.25
100 181 0.49
101 93 0.25
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (100 bp):
AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTT
Found at i:6053729 original size:199 final size:201
Alignment explanation
Indices: 6053380--6053880 Score: 747
Period size: 199 Copynumber: 2.5 Consensus size: 201
6053370 TGATCTGTTC
* * * * * *
6053380 AATTGCAATGTCGGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACCGCACCG-TCAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCT-AA
* * * * *
6053444 GGAAGTAAGATCCGTCGTTGTGGCTTCAATATTTTTAGTTGAAATATCAGGGAAACCATATTCGC
65 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAAATATCAGGGAAACCAGATCCGC
6053509 CGTCGTAGCTTCAACCTGTTCCGCTGCACCGC-TAAGGAAGTAAGATCCGCCGTTGTGGCTTCAA
130 CGTCGTAGCTTCAACCTGTTCCGCTGCACCGCTTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAA
6053573 TC-TTTT
195 TCTTTTT
* *
6053579 AATTGCAATATCAGGGAAACTAAATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
** *
6053644 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTTCAATATCAGGGAAACTAGATCCGCC
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAAATATCAGGGAAACCAGATCCGCC
* * *
6053709 GTCGTATCTTCAATCTGTTCCGCTGCACTGCTTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAAT
131 GTCGTAGCTTCAACCTGTTCCGCTGCACCGCTTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAAT
6053774 CTTTTT
196 CTTTTT
* * * * * *
6053780 AATTGCAATATCAGGGAAACCAGATTCGCCATCATAGCTTCAACCTGTTCCGCTGTACTGCTAAG
1 AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
6053845 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
66 GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
6053881 CTTTTCAACC
Statistics
Matches: 272, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
199 140 0.51
200 35 0.13
201 97 0.36
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (201 bp):
AATTGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCGCTGCACCGCTAAG
GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGAAATATCAGGGAAACCAGATCCGCC
GTCGTAGCTTCAACCTGTTCCGCTGCACCGCTTAAGGAAGTAAGATCCGCCGTTGTGGCTTCAAT
CTTTTT
Found at i:6054061 original size:11 final size:11
Alignment explanation
Indices: 6054045--6054085 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
6054035 TAGGCATGTA
6054045 TGAATGACATT
1 TGAATGACATT
*
6054056 TGAATGGCATGT
1 TGAATGACAT-T
6054068 ATGAATGACATT
1 -TGAATGACATT
6054080 TGAATG
1 TGAATG
6054086 CTATGTCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 15 0.58
12 2 0.08
13 9 0.35
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (11 bp):
TGAATGACATT
Found at i:6054074 original size:13 final size:13
Alignment explanation
Indices: 6054037--6054074 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
6054027 CTCCTAACTA
6054037 GGCATGTATGAAT
1 GGCATGTATGAAT
*
6054050 GACAT-T-TGAAT
1 GGCATGTATGAAT
6054061 GGCATGTATGAAT
1 GGCATGTATGAAT
6054074 G
1 G
6054075 ACATTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.32
Consensus pattern (13 bp):
GGCATGTATGAAT
Found at i:6054091 original size:24 final size:24
Alignment explanation
Indices: 6054037--6054085 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6054027 CTCCTAACTA
6054037 GGCATGTATGAATGACATTTGAAT
1 GGCATGTATGAATGACATTTGAAT
6054061 GGCATGTATGAATGACATTTGAAT
1 GGCATGTATGAATGACATTTGAAT
6054085 G
1 G
6054086 CTATGTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (24 bp):
GGCATGTATGAATGACATTTGAAT
Found at i:6054460 original size:44 final size:44
Alignment explanation
Indices: 6054382--6054469 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
6054372 TTAGGGTTTT
* *
6054382 TCTGCTTAACTTTGTAGTGTTGGGCTAGGGACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
* *
6054426 TCTGTTTAATTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
6054470 ATTGGGCTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.41
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGGCTAGGAACTGTTTTGGGCCG
Found at i:6057132 original size:12 final size:13
Alignment explanation
Indices: 6057102--6057135 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6057092 ATTATCCAAT
6057102 CCAACCCAATTAC
1 CCAACCCAATTAC
6057115 CCAACCCAATTA-
1 CCAACCCAATTAC
6057127 CCAACCCAA
1 CCAACCCAA
6057136 CCCAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.41, C:0.47, G:0.00, T:0.12
Consensus pattern (13 bp):
CCAACCCAATTAC
Found at i:6057370 original size:37 final size:37
Alignment explanation
Indices: 6057329--6057402 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
6057319 GTTAATTTCG
*
6057329 AGACTTATGTAATGTTTTTAATTATGTAGTGATTCAA
1 AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
*
6057366 AGACTTATGTAATATTTTTAATTATGTGGTGATTCAA
1 AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
6057403 TTCGGGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (37 bp):
AGACTTATGTAATATTTTTAATTATGTAGTGATTCAA
Found at i:6057415 original size:9 final size:9
Alignment explanation
Indices: 6057401--6057449 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
6057391 GTGGTGATTC
*
6057401 AATTCGGGT
1 AATTCGGTT
*
6057410 AATTCGATT
1 AATTCGGTT
*
6057419 AATTCAGTT
1 AATTCGGTT
6057428 AATTCGGTT
1 AATTCGGTT
*
6057437 AATTCGATT
1 AATTCGGTT
6057446 AATT
1 AATT
6057450 TTTAACCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:6062896 original size:27 final size:27
Alignment explanation
Indices: 6062868--6063018 Score: 191
Period size: 27 Copynumber: 5.6 Consensus size: 27
6062858 TTGAGATTCA
* *
6062868 AAGGGTAAAATGACTAAAATACCCTCA
1 AAGGGTAAAATGACTGAAATACCCTCG
*
6062895 AAGGGTAAAATGACTGAAATACCCTTG
1 AAGGGTAAAATGACTGAAATACCCTCG
* * *
6062922 AATGGTAAAATAACTAAAATACCCTCG
1 AAGGGTAAAATGACTGAAATACCCTCG
6062949 AAGGGTAAAATGA-TCGAAATACCCTCG
1 AAGGGTAAAATGACT-GAAATACCCTCG
6062976 TAA-GGTAAAATGACTGAAATACCC-CTG
1 -AAGGGTAAAATGACTGAAATACCCTC-G
*
6063003 TAGGGTAAAATGACTG
1 AAGGGTAAAATGACTG
6063019 TTATACCCCT
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
26 3 0.03
27 102 0.94
28 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (27 bp):
AAGGGTAAAATGACTGAAATACCCTCG
Found at i:6063194 original size:26 final size:26
Alignment explanation
Indices: 6063165--6063234 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
6063155 TACTGTTTCC
*
6063165 GGCAGCTTTGCTACGATACTGA-TACT
1 GGCAGCTTTGCTGCGATACT-ATTACT
* *
6063191 GGCAGCTCTGCTGCGATGCTATTACT
1 GGCAGCTTTGCTGCGATACTATTACT
* *
6063217 GGTAGCTTTACTGCGATA
1 GGCAGCTTTGCTGCGATA
6063235 TTGGTGTGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (26 bp):
GGCAGCTTTGCTGCGATACTATTACT
Found at i:6065620 original size:58 final size:57
Alignment explanation
Indices: 6065490--6065622 Score: 160
Period size: 58 Copynumber: 2.3 Consensus size: 57
6065480 TTCATATAAT
* ** *
6065490 AATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATTTAAA
1 AATAATTATATTAA-AATATGGTAAAATTATATATTATTTTATTAAATTATATTTAAA
* * * *
6065548 AATAATTATGTTAAAATATGGTAAAATTATTTATTATTTTTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATGGTAAAATTATATATTA-TTTTATTAAATTATATTTAAA
6065606 AATAATCT-TATTAAAAT
1 AATAAT-TATATTAAAAT
6065623 TTAATATAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
57 17 0.27
58 46 0.72
59 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (57 bp):
AATAATTATATTAAAATATGGTAAAATTATATATTATTTTATTAAATTATATTTAAA
Found at i:6065833 original size:16 final size:16
Alignment explanation
Indices: 6065779--6065833 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
6065769 TGAATTACTG
* *
6065779 ATTACATCTTTATTCC
1 ATTACAGCTCTATTCC
* *
6065795 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCC
6065811 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
6065827 ATTACAG
1 ATTACAG
6065834 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6066500 original size:16 final size:16
Alignment explanation
Indices: 6066479--6066530 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
6066469 TTTGGTTCGC
*
6066479 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
6066495 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
* *
6066511 TGTATTAGAATAGAGA
1 TGTATTGGAATAGAGG
6066527 TGTA
1 TGTA
6066531 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:6066768 original size:16 final size:16
Alignment explanation
Indices: 6066731--6066772 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6066721 TTAATCATAT
*
6066731 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
6066747 TT-AAATATATTATAA
1 TTAAAATATATTATAA
6066762 TTAAAATATAT
1 TTAAAATATAT
6066773 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:6066779 original size:14 final size:15
Alignment explanation
Indices: 6066740--6066781 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6066730 TTTAAACATA
*
6066740 ATTATTATTAAATAT
1 ATTATAATTAAATAT
6066755 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
6066769 A-TATAATTTAATA
1 ATTATAATTAAATA
6066782 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:6066829 original size:54 final size:54
Alignment explanation
Indices: 6066771--6067003 Score: 236
Period size: 54 Copynumber: 4.1 Consensus size: 54
6066761 ATTAAAATAT
6066771 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* * * * * * *
6066825 ATAATATATGATACTATAAAATATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAAA
1 ATAAT-T-T-A-A-TA-AAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-T-ACTCAAA
*
6066888 TAT
53 T-C
6066891 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* *
6066945 ATAATTTAATAAAATTCTTAATAATTAATATTTTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
6066999 ATAAT
1 ATAAT
6067004 ATATGATACT
Statistics
Matches: 145, Mismatches: 18, Indels: 32
0.74 0.09 0.16
Matches are distributed among these distances:
54 62 0.43
55 7 0.05
56 2 0.01
57 13 0.09
58 4 0.03
59 5 0.03
60 16 0.11
61 5 0.03
62 4 0.03
63 13 0.09
64 2 0.01
65 7 0.05
66 5 0.03
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
Found at i:6066899 original size:14 final size:15
Alignment explanation
Indices: 6066850--6066901 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
6066840 ATAAAATATA
6066850 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
6066865 TATTAAATATATTAT
1 AATTAAATATATTAT
6066880 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
6066893 AATTTAATA
1 AATTAAATA
6066902 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:6066947 original size:120 final size:120
Alignment explanation
Indices: 6066734--6066949 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
6066724 ATCATATTTA
6066734 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
6066799 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
6066854 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
6066919 TATTCTTATATGAATTTACTCAAATCATAAT
66 TATTCTTATATGAATTTACTCAAATCATAAT
6066950 TTAATAAAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:6070301 original size:9 final size:10
Alignment explanation
Indices: 6070247--6070301 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
6070237 TAAAAAATTA
* *
6070247 TTTTTAAAAC
1 TTTTTACAAT
6070257 TTTTTACAAAT
1 TTTTTAC-AAT
*
6070268 ATTTTTAGAA-
1 -TTTTTACAAT
6070278 TTTTTACAAT
1 TTTTTACAAT
6070288 TTTTTAC-AT
1 TTTTTACAAT
6070297 TTTTT
1 TTTTT
6070302 GTAATAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 15 0.39
10 13 0.34
11 4 0.11
12 6 0.16
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTTTACAAT
Found at i:6070433 original size:21 final size:20
Alignment explanation
Indices: 6070390--6070444 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
6070380 TTTTCTAGAT
*
6070390 TTTTTATATATATATTTGAA
1 TTTTTATATATTTATTTGAA
**
6070410 TTTTCTATATATTTATTTTCA
1 TTTT-TATATATTTATTTGAA
*
6070431 TTTTTATATTTTTA
1 TTTTTATATATTTA
6070445 ATATGTATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTTATATATTTATTTGAA
Found at i:6071480 original size:38 final size:39
Alignment explanation
Indices: 6071436--6071517 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
6071426 AAAAAAAACT
* *
6071436 AATAAAAAATGCAT-GTATATGTATTTGAAAATCGTGAA
1 AATAAAAAATGCATAGTATATGTATTGGAAAATCATGAA
* * *
6071474 AATAAAAAATGTATAAGTGTATGTATTGGTAAATCATGAA
1 AATAAAAAATGCAT-AGTATATGTATTGGAAAATCATGAA
6071514 AATA
1 AATA
6071518 CGTATATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.35
40 24 0.65
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.32
Consensus pattern (39 bp):
AATAAAAAATGCATAGTATATGTATTGGAAAATCATGAA
Found at i:6071876 original size:22 final size:21
Alignment explanation
Indices: 6071826--6071876 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
6071816 CATATCTATA
*
6071826 TTATAAAAAATATGTTTGTAT
1 TTATAAAAAATATGTATGTAT
* *
6071847 GTACAAAAATATATGTATGTAT
1 TTATAAAAA-ATATGTATGTAT
6071869 TTATAAAA
1 TTATAAAA
6071877 GTTTTTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATAAAAAATATGTATGTAT
Found at i:6071940 original size:25 final size:24
Alignment explanation
Indices: 6071912--6071961 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
6071902 ATATATGCGT
6071912 ATAAAT-ATAGAAATAATAAGTGATA
1 ATAAATAATA-AAATAATAA-TGATA
*
6071937 ATAAATAATATAATAATAATGATA
1 ATAAATAATAAAATAATAATGATA
6071961 A
1 A
6071962 AAGTAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 14 0.61
26 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (24 bp):
ATAAATAATAAAATAATAATGATA
Found at i:6071951 original size:12 final size:12
Alignment explanation
Indices: 6071923--6071961 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
6071913 TAAATATAGA
6071923 AATAATAAGTGAT
1 AATAATAA-TGAT
6071936 AATAAATAAT-AT
1 AAT-AATAATGAT
6071948 AATAATAATGAT
1 AATAATAATGAT
6071960 AA
1 AA
6071962 AAGTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 9 0.38
13 4 0.17
14 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAATAATGAT
Found at i:6073699 original size:133 final size:132
Alignment explanation
Indices: 6073386--6073824 Score: 670
Period size: 133 Copynumber: 3.3 Consensus size: 132
6073376 CAAGATCCAT
6073386 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGT
* * * * * *
6073451 CAATACATAAAGACAAGATCCACTATC-TCTGATTTACTTCATGTCAACACAT--GAAGACAAGA
66 CAATACATGAAGACAAGATCCATTATCTTC-GATCTACTTCA--CCACCATATGGGAAGACAAGA
**
6073513 TCCAC
128 TCTGC
*
6073518 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTCTGATCTACTTCATG
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATG
* * *
6073582 TCAATAGATGAAGACAAGATCTATTATCTTCGATCTACTTCACCACCAGTATGGGAAAACAAGAT
65 TCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCA-TATGGGAAGACAAGAT
*
6073647 ATGC
129 CTGC
*
6073651 TATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCCACTATCTCTGATCTACTTCATGT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGT
6073716 CAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATC
66 CAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACC-ATATGGGAAGACAAGATC
6073781 TGC
130 TGC
6073784 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATC
6073825 TGTTGCTTTT
Statistics
Matches: 280, Mismatches: 20, Indels: 13
0.89 0.06 0.04
Matches are distributed among these distances:
130 4 0.01
131 4 0.01
132 94 0.34
133 175 0.62
134 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (132 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGT
CAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCATATGGGAAGACAAGATCT
GC
Found at i:6073826 original size:44 final size:44
Alignment explanation
Indices: 6073320--6073824 Score: 606
Period size: 44 Copynumber: 11.4 Consensus size: 44
6073310 TTTCACTGCT
* ** *
6073320 AATACAGGAAGACAAGATCTGCTATCTCTGATATACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
* *
6073364 AATACATGAAAACAAGATCCATTATCT-TCGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCT-GATCTACTTCATGTC
6073408 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
* *
6073452 AATACATAAAGACAAGATCCACTATCTCTGATTTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
*
6073496 AACACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
*
6073540 AATACATGAAGACAAGATCCATTATCTCTGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
* * * ***
6073584 AATAGATGAAGACAAGATCTATTATCT-TCGATCTACTTCACCACC
1 AATACATGAAGACAAGATCCACTATCTCT-GATCTACTTCA-TGTC
* *** * ***
6073629 AGTATGGGAAAACAAGATATGCTATCT-TCGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCT-GATCTACTTCATGTC
*
6073673 AATACATAAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
* ***
6073717 AATACATGAAGACAAGATCCATTATCT-TCGATCTACTTCACCACC
1 AATACATGAAGACAAGATCCACTATCTCT-GATCTACTTCA-TGTC
*** **
6073762 AATATGGGAAGACAAGATCTGCTATCT-TCGATCTACTTCATGTC
1 AATACATGAAGACAAGATCCACTATCTCT-GATCTACTTCATGTC
6073806 AATACATGAAGACAAGATC
1 AATACATGAAGACAAGATC
6073825 TGTTGCTTTT
Statistics
Matches: 397, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.01
44 324 0.82
45 70 0.18
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (44 bp):
AATACATGAAGACAAGATCCACTATCTCTGATCTACTTCATGTC
Found at i:6075133 original size:21 final size:21
Alignment explanation
Indices: 6075109--6075157 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
6075099 TTAGCCTCTC
*
6075109 CATTTTTACTTTTTCAT-TTTT
1 CATTTTT-CATTTTCATCTTTT
6075130 CATTTTTCATTTTCATCTTTT
1 CATTTTTCATTTTCATCTTTT
6075151 CATTTTT
1 CATTTTT
6075158 TCACATCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (21 bp):
CATTTTTCATTTTCATCTTTT
Found at i:6075160 original size:8 final size:7
Alignment explanation
Indices: 6075109--6075157 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
6075099 TTAGCCTCTC
6075109 CATTTTT
1 CATTTTT
6075116 -ACTTTTT
1 CA-TTTTT
6075123 CATTTTT
1 CATTTTT
6075130 CATTTTT
1 CATTTTT
6075137 CA-TTTT
1 CATTTTT
6075143 CATCTTTT
1 CAT-TTTT
6075151 CATTTTT
1 CATTTTT
6075158 TCACATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 23 0.61
8 8 0.21
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:6077829 original size:14 final size:14
Alignment explanation
Indices: 6077812--6077838 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6077802 AATGTAATGC
6077812 AAATAATAAATTAA
1 AAATAATAAATTAA
6077826 AAATAATAAATTA
1 AAATAATAAATTA
6077839 TTAGAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAATAAATTAA
Found at i:6078473 original size:16 final size:16
Alignment explanation
Indices: 6078441--6078491 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
6078431 GGTTCAATAG
*
6078441 AATGAAATAG-GACTGT
1 AATGAAATAGAG-TTGT
6078457 AATGAAATAGAGTTGT
1 AATGAAATAGAGTTGT
* *
6078473 AATGGAATAGAGTTAT
1 AATGAAATAGAGTTGT
6078489 AAT
1 AAT
6078492 AAGTAATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (16 bp):
AATGAAATAGAGTTGT
Found at i:6083035 original size:267 final size:265
Alignment explanation
Indices: 6082614--6083465 Score: 953
Period size: 267 Copynumber: 3.2 Consensus size: 265
6082604 ATTGTATCCA
* ** * * *
6082614 TAACTCAGAAAGCAATCAATGGTATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAGATTTGG
1 TAACTCAGAGAGTGATCATTGGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTGG
* * * *
6082679 GGAAGAGAG------ATTTAAGTCAAATGGATAAAATGGACTCTATGCTATTTGTGTGATTGTAT
66 GGAAGAGAGACACACATATAAGTCAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGTAT
*
6082738 CCATAATTCAGAAAGTAATGAATGGATCCTAAATCTAAAAGATAAACCACTCGAGACAAAGATTT
131 CCATAATTCAGAAAGTAATGAATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTT
*
6082803 AGGGAAGAGAGACACCATATAAGCCAAATGGAAAAAAGCGGACTCC-TCGCGATTCATATGATCA
196 AGGGAAGAGAGACACCATATAAGCCAAATGGAAAAAAGCGGACTCCAT-GAGATTCATATGATCA
6082867 TATCTG
260 TATCTG
* *
6082873 TAACTCAGAGAGTGACCATTGGGATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAAGATTTG
1 TAACTCAGAGAGTGATCATTGGGATCCTAAATCTAAAAGGTAAACCACTCATGAC-AAAGATTTG
* **
6082938 GGGAAGAGAGACACAACATATAAGTCAAATGGATAAAATGGACTCCATGCCATTCATATGATTGT
65 GGGAAGAGAGACAC-ACATATAAGTCAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGT
*
6083003 ATCCATAATTCAGAAAGCAATGAATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGAT
129 ATCCATAATTCAGAAAGTAATGAATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGAT
* * * *
6083068 TTAGGGAAAAGAGACACCATATAAGCCAAATGGAAAAAAGCAGACTCCATGAG-TTCGTCTG-TC
194 TTAGGGAAGAGAGACACCATATAAGCCAAATGGAAAAAAGCGGACTCCATGAGATTCATATGATC
6083131 ATATCTG
259 ATATCTG
* * *
6083138 TAACTCAAAGAGTGATCATTGGGTGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATT
1 TAACTCAGAGAGTGATCATT--G-GGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATT
* ** * * ***
6083203 TAGGGAAGAGAGACACCACA-ATAAACCAAAAGGAAAAAAACAAACTCCATGCAATTTGTATGAT
63 TGGGGAAGAGAGACA-CACATATAAGTCAAATGG-ATAAAATGGACTCCATGCAATTTGTATGAT
** ** * * * * * * **
6083267 CATATCTGTAACTCAG--AGTGATCATTGGGATCCTAAATCTAAAAGGTAAACTACTCCTGACAA
126 TGTATCCATAATTCAGAAAGTAATGAAT-GGATCCTAAATCTAAAAGATAAACCACTCAAGAC-A
* * * * *
6083330 AAGATTTGGGGAAGAGAGACGCAACATATAAGTCAAATGGATAAAA--GGACTCCATGTGATTCA
189 AAGATTTAGGGAAGAGAGA--CACCATATAAGCCAAATGGAAAAAAGCGGACTCCATGAGATTCA
*
6083393 TATGATCATATCCG
252 TATGATCATATCTG
* * * * * * *
6083407 AAATTCAGAAAGTAATGAATGGGATCCT-AATCTCAAAA-GTGAACCACTCATGACAAAGA
1 TAACTCAGAGAGTGATCATTGGGATCCTAAATCT-AAAAGGTAAACCACTCATGACAAAGA
6083466 AAGGATATCT
Statistics
Matches: 504, Mismatches: 68, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
259 49 0.10
260 19 0.04
265 56 0.11
266 57 0.11
267 241 0.48
268 39 0.08
269 43 0.09
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (265 bp):
TAACTCAGAGAGTGATCATTGGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTGG
GGAAGAGAGACACACATATAAGTCAAATGGATAAAATGGACTCCATGCAATTTGTATGATTGTAT
CCATAATTCAGAAAGTAATGAATGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTT
AGGGAAGAGAGACACCATATAAGCCAAATGGAAAAAAGCGGACTCCATGAGATTCATATGATCAT
ATCTG
Found at i:6083040 original size:134 final size:131
Alignment explanation
Indices: 6082567--6083465 Score: 795
Period size: 134 Copynumber: 6.8 Consensus size: 131
6082557 CCAAAGGATA
** * * ** * *
6082567 TCAAATGGATAAAAACAAACTCCATGCGATTTGTAAGATTGTATCCATAACTCAGAAAGCAATCA
1 TCAAATGGAT-AAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGA
* * *
6082632 ATGGTATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAGATTTGGGGAAGAGAG-----ATTT
65 ATGG-ATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATAT
6082692 AAG
129 AAG
* * * * * ** *
6082695 TCAAATGGATAAAATGGACTCTATGCTATTTGTGTGATTGTATCCATAATTCAGAAAGTAATGAA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
*
6082760 TGGATCCTAAATCTAAAAGATAAACCACTCGA-GACAAAGATTTAGGGAAGAGAGACACCATATA
66 TGGATCCTAAATCTAAAAGGTAAACCACTC-ATGACAAAGATTTAGGGAAGAGAGACACCATATA
6082824 AG
130 AG
* * * ** * * **
6082826 CCAAATGGAAAAAAGCGGACTCC-TCGCGATTCATATGATCATATCTGTAACTCAGAGAGTGACC
1 TCAAATGGATAAAA-CGGACTCCAT-GCGATTCGTATGATCATATCCATAACTCAGAAAGTAATG
* * *
6082890 ATTGGGATCCTAAATCTAAAAGGTAAACCACTCGTGACAAAAGATTTGGGGAAGAGAGACACAAC
64 AAT-GGATCCTAAATCTAAAAGGTAAACCACTCATGAC-AAAGATTTAGGGAAGAGAGACAC--C
6082955 ATATAAG
125 ATATAAG
* * * ** * *
6082962 TCAAATGGATAAAATGGACTCCATGCCATTCATATGATTGTATCCATAATTCAGAAAGCAATGAA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
* * *
6083027 TGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAAAGAGACACCATATAA
66 TGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATATAA
6083092 G
131 G
* * * * * **
6083093 CCAAATGGAAAAAAGCAGACTCCATGAG-TTCGTCTG-TCATATCTGTAACTCA-AAGAGTGATC
1 TCAAATGGATAAAA-CGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAA-AGT-A--
** * *
6083155 ATTGGGTGGATCCTAAATCTAAAAGATAAACCACTCAAGACAAAGATTTAGGGAAGAGAGACACC
61 A-TGAATGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACC
* *
6083220 ACAATAAA
125 A-TATAAG
* * * ** * * ** * *
6083228 CCAAAAGGAAAAAAACAAACTCCATGCAATTTGTATGATCATATCTGTAACTCAG--AGTGATCA
1 TCAAATGG-ATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGA
* * * * *
6083291 TTGGGATCCTAAATCTAAAAGGTAAACTACTCCTGACAAAAGATTTGGGGAAGAGAGACGCAACA
65 AT-GGATCCTAAATCTAAAAGGTAAACCACTCATGAC-AAAGATTTAGGGAAGAGAGA--CACCA
6083356 TATAAG
126 TATAAG
* * *
6083362 TCAAATGGATAAAA-GGACTCCATGTGATTCATATGATCATATCCGA-AATTCAGAAAGTAATGA
1 TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCC-ATAACTCAGAAAGTAATGA
*
6083425 ATGGGATCCT-AATCTCAAAA-GTGAACCACTCATGACAAAGA
65 AT-GGATCCTAAATCT-AAAAGGTAAACCACTCATGACAAAGA
6083466 AAGGATATCT
Statistics
Matches: 628, Mismatches: 110, Indels: 62
0.79 0.14 0.08
Matches are distributed among these distances:
126 47 0.07
127 48 0.08
128 10 0.02
129 2 0.00
130 13 0.02
131 48 0.08
132 108 0.17
133 95 0.15
134 143 0.23
135 65 0.10
136 33 0.05
137 16 0.03
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (131 bp):
TCAAATGGATAAAACGGACTCCATGCGATTCGTATGATCATATCCATAACTCAGAAAGTAATGAA
TGGATCCTAAATCTAAAAGGTAAACCACTCATGACAAAGATTTAGGGAAGAGAGACACCATATAA
G
Found at i:6086296 original size:109 final size:109
Alignment explanation
Indices: 6086102--6086407 Score: 456
Period size: 109 Copynumber: 2.8 Consensus size: 109
6086092 TAAATTCAAT
* * *
6086102 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGTACCTTAGGGCACG-TTCCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
* *
6086164 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * * * *
6086208 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCTATACCCAGTACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
6086273 GAATTTCCAAACACAAAATATTGCCTTATTTTGAAATTTTTAAA
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
* * *
6086317 ATGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
*
6086382 GAATTTCCAAACGCTAAATATTGCCT
66 GAATTTCCAAACGCAAAATATTGCCT
6086408 CAATCGAAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
106 24 0.13
108 25 0.14
109 129 0.72
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGAAACCCAGTACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTTAAA
Found at i:6086941 original size:17 final size:17
Alignment explanation
Indices: 6086919--6086953 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6086909 AAATGGGTAC
6086919 AAGTGTATA-AATTAAAA
1 AAGTGTATATAA-TAAAA
6086936 AAGTGTATATAATAAAA
1 AAGTGTATATAATAAAA
6086953 A
1 A
6086954 TAGTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.88
18 2 0.12
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (17 bp):
AAGTGTATATAATAAAA
Found at i:6088608 original size:31 final size:31
Alignment explanation
Indices: 6088534--6088633 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
6088524 TAAGGTTTTC
* * * *
6088534 AAATTTTTTCGAAATTGTCATT-AA-GCTTT
1 AAATTTTTTCAAAATTTTAATTAAATCCTTT
* *
6088563 CAATATTTTCAAAATTTT-ATCTAAATCCTTT
1 AAATTTTTTCAAAATTTTAAT-TAAATCCTTT
*
6088594 AAATTTTTTGAAAATTTTAATTAAATCCTTT
1 AAATTTTTTCAAAATTTTAATTAAATCCTTT
6088625 ATAATTTTT
1 A-AATTTTT
6088634 AAAAGTTGTC
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
28 2 0.03
29 15 0.26
30 2 0.03
31 30 0.52
32 9 0.16
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (31 bp):
AAATTTTTTCAAAATTTTAATTAAATCCTTT
Found at i:6089026 original size:22 final size:23
Alignment explanation
Indices: 6088973--6089028 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
6088963 CCCGTTTTTA
* * *
6088973 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
6088996 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
6089018 ATTAAAATTAA
1 ATTAAAATTAA
6089029 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:6089041 original size:16 final size:16
Alignment explanation
Indices: 6089004--6089043 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6088994 TTAATAAAAT
* *
6089004 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
6089020 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
6089036 TAAAATTA
1 TAAAATTA
6089044 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:6089113 original size:66 final size:59
Alignment explanation
Indices: 6089046--6089165 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 59
6089036 TAAAATTATC
* * * *
6089046 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTCTAACAAAATCTAACATTTGATTAGTA
* *
6089104 AATTTATCAAATTATTAATTGTATTAATTGTTCTAACAAAATCTAATATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTCTAACAAAATCTAACATTTGATTAGTA
6089163 AAA
1 AAA
6089166 CAAACTTGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
58 6 0.11
59 48 0.89
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTCTAACAAAATCTAACATTTGATTAGTA
Found at i:6089271 original size:22 final size:24
Alignment explanation
Indices: 6089231--6089274 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
6089221 AAATAAACTT
6089231 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
6089255 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
6089275 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:6089770 original size:27 final size:27
Alignment explanation
Indices: 6089708--6089772 Score: 105
Period size: 26 Copynumber: 2.4 Consensus size: 27
6089698 AAAAAATAAT
6089708 CAAAATATTATAACTTTTTTTTATTTAC
1 CAAAATATTATAAC-TTTTTTTATTTAC
6089736 CAAAATATTATAA-TTTTTTTATTTAC
1 CAAAATATTATAACTTTTTTTATTTAC
6089762 CAAATATATTA
1 CAAA-ATATTA
6089773 AAAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 17 0.47
27 6 0.17
28 13 0.36
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (27 bp):
CAAAATATTATAACTTTTTTTATTTAC
Found at i:6096418 original size:16 final size:17
Alignment explanation
Indices: 6096385--6096423 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6096375 GAAACATTTA
* *
6096385 TTTTAATGTTTTATTAT
1 TTTTTATGTATTATTAT
6096402 TTTTTATGTATTA-TAT
1 TTTTTATGTATTATTAT
6096418 TTTTTA
1 TTTTTA
6096424 AAAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTTATGTATTATTAT
Found at i:6102235 original size:26 final size:23
Alignment explanation
Indices: 6102199--6102308 Score: 66
Period size: 26 Copynumber: 4.6 Consensus size: 23
6102189 TTAGGCTTAA
6102199 ATTAATTCAAATTCGATCAATTC
1 ATTAATTCAAATTCGATCAATTC
*
6102222 AAGTTAATATCAAATTC-ATTAAATT-
1 -A-TTAAT-TCAAATTCGA-TCAATTC
** * *
6102247 ATTAATT--TTTTATGATCAAATC
1 ATTAATTCAAATT-CGATCAATTC
*
6102269 ATAAATTCAAATTCGATCAATTC
1 ATTAATTCAAATTCGATCAATTC
6102292 AAGTTAATATCAAATTC
1 -A-TTAAT-TCAAATTC
6102309 ATTAAATTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
20 2 0.03
21 4 0.06
22 8 0.13
23 13 0.21
24 5 0.08
25 10 0.16
26 21 0.33
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.40
Consensus pattern (23 bp):
ATTAATTCAAATTCGATCAATTC
Found at i:6102351 original size:70 final size:70
Alignment explanation
Indices: 6102199--6102351 Score: 281
Period size: 70 Copynumber: 2.2 Consensus size: 70
6102189 TTAGGCTTAA
6102199 ATTAATTCAAATTCGATCAATTCAAGTTAATATCAAATTCATTAAATTATTAATTTTTTATGATC
1 ATTAATTCAAATTCGATCAATTCAAGTTAATATCAAATTCATTAAATTATTAATTTTTTATGATC
6102264 AAATC
66 AAATC
*
6102269 ATAAATTCAAATTCGATCAATTCAAGTTAATATCAAATTCATTAAATTATTAATTTTTTATGATC
1 ATTAATTCAAATTCGATCAATTCAAGTTAATATCAAATTCATTAAATTATTAATTTTTTATGATC
6102334 AAATC
66 AAATC
6102339 ATTAAGTT-AAATT
1 ATTAA-TTCAAATT
6102352 TAAGTTTAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
70 78 0.98
71 2 0.03
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (70 bp):
ATTAATTCAAATTCGATCAATTCAAGTTAATATCAAATTCATTAAATTATTAATTTTTTATGATC
AAATC
Found at i:6103553 original size:31 final size:29
Alignment explanation
Indices: 6103503--6103613 Score: 82
Period size: 31 Copynumber: 3.7 Consensus size: 29
6103493 ATCTCAAAAT
*
6103503 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-A-GTGCAATTG
* *
6103534 TATATATGAATTTTAATTTAGTGCAA-T-
1 TATACATGAACTTTAATTTAGTGCAATTG
* * *
6103561 TATACATGTGAAACTCTAATTGTAGTTCAAATG
1 TATACA--TG-AACTTTAATT-TAGTGCAATTG
*
6103594 TATACTTGAAACTTTAATTT
1 TATACATG-AACTTTAATTT
6103614 TGATTTAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
27 5 0.08
28 1 0.02
29 8 0.12
30 10 0.15
31 35 0.54
32 1 0.02
33 5 0.08
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (29 bp):
TATACATGAACTTTAATTTAGTGCAATTG
Found at i:6103572 original size:29 final size:30
Alignment explanation
Indices: 6103500--6103581 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 30
6103490 TAAATCTCAA
*
6103500 AATTATACA-TGAACTTTGATTTAATGTGC
1 AATTATACATTGAACTTTAATTTAATGTGC
* * *
6103529 AATTGTATATATGAATTTTAATTT-A-GTGC
1 AATTATACAT-TGAACTTTAATTTAATGTGC
*
6103558 AATTATACATGTGAAACTCTAATT
1 AATTATACAT-TG-AACTTTAATT
6103582 GTAGTTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
29 21 0.51
30 9 0.22
31 11 0.27
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.43
Consensus pattern (30 bp):
AATTATACATTGAACTTTAATTTAATGTGC
Found at i:6109193 original size:14 final size:14
Alignment explanation
Indices: 6109153--6109193 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6109143 CTATATTTTG
*
6109153 TTTAATTTTGA-AA
1 TTTAATTTTGATAT
6109166 TTTAATTTAT-ATAT
1 TTTAATTT-TGATAT
6109180 TTTAATTTTGATAT
1 TTTAATTTTGATAT
6109194 AATTTGGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
TTTAATTTTGATAT
Found at i:6110534 original size:15 final size:15
Alignment explanation
Indices: 6110509--6110543 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
6110499 GACTCTATTT
*
6110509 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
6110523 TAATTAATATTAAGA
1 TAATTAATATTAAGA
6110538 TAATTA
1 TAATTA
6110544 TTAAGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:6116014 original size:10 final size:10
Alignment explanation
Indices: 6115996--6116043 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
6115986 ATTTTAGGAT
6115996 TTTAT-TTTA
1 TTTATCTTTA
6116005 TTTATCTTTA
1 TTTATCTTTA
6116015 TTTATCTTTA
1 TTTATCTTTA
* ** *
6116025 ATTAAATGTA
1 TTTATCTTTA
6116035 TTTATCTTT
1 TTTATCTTT
6116044 CGGGAATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:6123430 original size:16 final size:17
Alignment explanation
Indices: 6123384--6123431 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
6123374 AAATTATTTT
6123384 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
6123401 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
6123418 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
6123432 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:6124485 original size:50 final size:50
Alignment explanation
Indices: 6124378--6124624 Score: 239
Period size: 50 Copynumber: 4.8 Consensus size: 50
6124368 ATTTGGGTAA
* * * * *
6124378 AGAGATCCCATGTAAGACCATGTATGAGACATGACATTGGCATCATTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-CATG
* *
6124434 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
* *
6124484 AGAGGTCCTC-TGTAAGACCATGTCTGGGACATGGCATAGGCACCGATATG
1 AGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** * * *
6124534 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATG
* ** *
6124583 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
6124625 TGTTATTATC
Statistics
Matches: 165, Mismatches: 23, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 40 0.24
50 83 0.50
51 3 0.02
55 1 0.01
56 37 0.22
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:6127448 original size:23 final size:23
Alignment explanation
Indices: 6127420--6127464 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
6127410 TTCTTAAATT
6127420 TTTAAATT-TGAAAAATAAAAAAA
1 TTTAAATTCT-AAAAATAAAAAAA
6127443 TTTAAATTCCTAAAAATAAAAA
1 TTTAAATT-CTAAAAATAAAAA
6127465 TATAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 11 0.55
25 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (23 bp):
TTTAAATTCTAAAAATAAAAAAA
Found at i:6134126 original size:18 final size:18
Alignment explanation
Indices: 6134103--6134189 Score: 147
Period size: 18 Copynumber: 4.8 Consensus size: 18
6134093 CGTTTACAGT
6134103 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
6134121 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
6134139 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
6134157 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
6134175 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
6134190 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:6134148 original size:36 final size:36
Alignment explanation
Indices: 6134101--6134189 Score: 169
Period size: 36 Copynumber: 2.5 Consensus size: 36
6134091 ACCGTTTACA
6134101 GTACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
6134137 GTACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
*
6134173 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
6134190 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACGTATACG
Found at i:6140843 original size:47 final size:47
Alignment explanation
Indices: 6140789--6141330 Score: 760
Period size: 47 Copynumber: 11.3 Consensus size: 47
6140779 CAGCCAAGAG
* *
6140789 AGTGTATGTATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
6140836 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
6140885 AGTGTATGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
6140936 AGTGTATGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
6140987 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
6141034 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
6141081 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
6141128 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
6141175 AGTGTATATATGTGATACGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
6141222 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
6141269 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
6141316 AGTGCATAAATGTGA
1 AGTGTATATATGTGA
6141331 GAAGTCCCGA
Statistics
Matches: 463, Mismatches: 26, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
47 327 0.71
49 41 0.09
51 91 0.20
53 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:6141496 original size:37 final size:37
Alignment explanation
Indices: 6141453--6141531 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
6141443 CCGAGCTCTA
* * *
6141453 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
6141490 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
6141527 AAGAC
1 AAGAC
6141532 TTCATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:6145465 original size:54 final size:54
Alignment explanation
Indices: 6145375--6145484 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
6145365 CATTAGAGGA
* *
6145375 TTAGTGGTGGGGTTAATTGTTGGAGCTTCTGGTTTGATTCTTGGCCTAGGTTTG
1 TTAGTGGTGGGGTTAATTGTTGGAGCTTCTGCTTTGATTCTTGGCCTAGGTGTG
* *
6145429 TTAGTGGTGGGGTTAATTGTTGGAGCTTGTGCTTTGATTTTTGGCCTAGGTGTG
1 TTAGTGGTGGGGTTAATTGTTGGAGCTTCTGCTTTGATTCTTGGCCTAGGTGTG
6145483 TT
1 TT
6145485 CTTGGGGTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.11, C:0.08, G:0.35, T:0.45
Consensus pattern (54 bp):
TTAGTGGTGGGGTTAATTGTTGGAGCTTCTGCTTTGATTCTTGGCCTAGGTGTG
Found at i:6150411 original size:127 final size:128
Alignment explanation
Indices: 6150248--6150477 Score: 306
Period size: 127 Copynumber: 1.8 Consensus size: 128
6150238 TATTTGGAAG
* * *
6150248 TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAATCGAGACCCCGT-AAGTTAGGGTAC
1 TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAACCAAAACCCCGTAAAG-TAGGGTAC
* * * * *
6150312 GATTTCTCGAATCACC-AAAGTGCATAAATATTGCCTTATCAGGACTTCATTTATCTTTTGAAAT
65 AATATCTCGAATCACCGAAA-CGCAAAAATATTACCTTATCAGGACTTCATTTATCTTTTGAAAT
* * *
6150376 TTTAAA-AGGATATTTTGCTATTTG-GTTTTAGCGAGAAAACCAAAACCTCGTAAAGTAGGGTAC
1 TTTAAAGAGGATATTTTGCCATTTGAG-TTTAACGAGAAAACCAAAACCCCGTAAAGTAGGGTAC
6150439 AATATCTCGAATCACCGAAACGCAAAAATATTACCTTAT
65 AATATCTCGAATCACCGAAACGCAAAAATATTACCTTAT
6150478 GTTAAAATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
126 1 0.01
127 75 0.85
128 12 0.14
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (128 bp):
TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAACCAAAACCCCGTAAAGTAGGGTACA
ATATCTCGAATCACCGAAACGCAAAAATATTACCTTATCAGGACTTCATTTATCTTTTGAAAT
Found at i:6150921 original size:26 final size:26
Alignment explanation
Indices: 6150892--6150941 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6150882 AAATAACATA
* *
6150892 GAAAGCAATTTAAA-TAGGTAATATAT
1 GAAA-CAACTTAAAGTAGCTAATATAT
6150918 GAAACAACTTAAAGTAGCTAATAT
1 GAAACAACTTAAAGTAGCTAATAT
6150942 CAAACATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (26 bp):
GAAACAACTTAAAGTAGCTAATATAT
Found at i:6152876 original size:45 final size:44
Alignment explanation
Indices: 6152731--6152899 Score: 153
Period size: 44 Copynumber: 3.8 Consensus size: 44
6152721 GTTTTAATTC
* * * * * *
6152731 GCTCTACTGAAACTTTAGGGAGATAAGATTAG-TAGCTTCAATAC-
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTA-CTTCAA-CCT
* *
6152775 GCTCCACTGTAACTTCAGGGAGATAATGTTTGTTACTTCAACCT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTACTTCAACCT
* * **
6152819 ACTCCACTGCAACTTCAAGGAGATAAGGTTTGTTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTA-CTTCAACCT
* * **
6152864 GCTCCACAGCAACTTTAGGGAGATAAGACTTGTTAC
1 GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTAC
6152900 GGTAGGTTTA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 64 0.62
45 38 0.37
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTACTTCAACCT
Found at i:6152969 original size:44 final size:44
Alignment explanation
Indices: 6152919--6153031 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
6152909 AATCCGACCT
* * * *
6152919 ACTGCAACTTCAGAGG-TATAGGATTCATCGTTTTAATCCT-CTCC
1 ACTGCAACTTCAG-GGAGATAGGATTAATCGCTTCAAT-CTGCTCC
* *
6152963 ACTGCAACTTTAGGGAGATAGGATTAATTGCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGATTAATCGCTTCAATCTGCTCC
* *
6153007 ACTGCAACTTTAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAGGATT
6153032 GGTATCCTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 4 0.07
44 56 0.93
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAGGATTAATCGCTTCAATCTGCTCC
Found at i:6153346 original size:88 final size:88
Alignment explanation
Indices: 6153245--6153708 Score: 578
Period size: 88 Copynumber: 5.3 Consensus size: 88
6153235 AACTTCAGAG
* * * * *
6153245 AGATAAGGTTTGTGTTTTCGATTTGCTTCACTGTCAGTACAGGAAGACAATATCTGTAATTTTCA
1 AGATAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATTTTCA
* * *
6153310 ACTTACTCCGCTGCTGCTCAGAA
66 ACCTACTCCACTGCTGCTCAGGA
* * * * *
6153333 AGATAAGGCTTGTGTTTTCGATCTGTTTCACTACCAGTGCAGGAAGATAAGACCTGCAATCTTT-
1 AGATAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAAT-TTTC
* *
6153397 AACCTACTTCACTGCTGCTCAGGG
65 AACCTACTCCACTGCTGCTCAGGA
* * *
6153421 AGATAAGGCTTGT-TATTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATTTGCAATCTTC
1 AGATAAGGCTTGTGT-TTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATTTTC
* * * *
6153485 AACCTACTCCATTACTTCTCTGGA
65 AACCTACTCCACTGCTGCTCAGGA
* *
6153509 AGATAAGG-TTGGTGTTTTCGATCTGCTTCACTGCCAGTATAGGAAGACAAAATCTGCAATTTTC
1 AGATAAGGCTT-GTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATTTTC
6153573 AACCTACTCCACTGCTGCTCAGGA
65 AACCTACTCCACTGCTGCTCAGGA
*
6153597 AGATAAGG-TTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAAACAAGATCTGCAATCTTT
1 AGATAAGGCTT-GTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAAT-TTT
* * *
6153661 -AACCTACTCCACTACTGCCCAGGG
64 CAACCTACTCCACTGCTGCTCAGGA
* *
6153685 AGATAAGGCTGGTGTCTTCGATCT
1 AGATAAGGCTTGTGTTTTCGATCT
6153709 ATTTTGCTGC
Statistics
Matches: 323, Mismatches: 46, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
87 5 0.02
88 310 0.96
89 8 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (88 bp):
AGATAAGGCTTGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATCTGCAATTTTCA
ACCTACTCCACTGCTGCTCAGGA
Found at i:6153640 original size:44 final size:44
Alignment explanation
Indices: 6153506--6153641 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
6153496 TTACTTCTCT
*
6153506 GGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTATA
1 GGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACA
* ** *** * * * * *
6153550 GGAAGACAAAATCTGCAATTTTCAACCTACTCCACTG-CTGCT-CA
1 GGAAGATAAGGT-TGGTGTTTTCGATCTGCTTCACTGCCAG-TACA
6153594 GGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACA
1 GGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACA
6153638 GGAA
1 GGAA
6153642 AACAAGATCT
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 18 0.28
44 29 0.45
45 18 0.28
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (44 bp):
GGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACA
Found at i:6153721 original size:264 final size:264
Alignment explanation
Indices: 6153245--6153758 Score: 717
Period size: 264 Copynumber: 1.9 Consensus size: 264
6153235 AACTTCAGAG
* * * * *
6153245 AGATAAGGTTTGTGTTTTCGATTTGCTTCACTGTCAGTACAGGAAGACAATATCTGTAATTTTCA
1 AGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAAATCTGCAATTTTCA
* * * *
6153310 ACTTACTCCGCTGCTGCTCAGAAAGATAAGGCTTGTGTTTTCGATCTGTTTCACTACCAGTGCAG
66 ACCTACTCCACTGCTGCTCAGAAAGATAAGGCTTGTGTTTTCGATCTGCTTCACTACCAGTACAG
* * * * * * *
6153375 GAAGATAAGACCTGCAATCTTTAACCTACTTCACTGCTGCTCAGGGAGATAAGGCTTGTTATTTC
131 GAAAACAAGACCTGCAATCTTTAACCTACTCCACTACTGCCCAGGGAGATAAGGCTGGTTACTTC
* * * *
6153440 GATCTGCTTCACTGCCAATACAGGAAGACAAGATTTGCAATCTTCAACCTACTCCATTACTTCTC
196 GATCTACTTCACTGCCAATACAGGAAGAAAAAATCTGCAATCTTCAACCTACTCCATTACTTCTC
6153505 TGGA
261 TGGA
*
6153509 AGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTATAGGAAGACAAAATCTGCAATTTTCA
1 AGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAAATCTGCAATTTTCA
* *
6153574 ACCTACTCCACTGCTGCTCAGGAAGATAAGG-TTGGTGTTTTCGATCTGCTTCACTGCCAGTACA
66 ACCTACTCCACTGCTGCTCAGAAAGATAAGGCTT-GTGTTTTCGATCTGCTTCACTACCAGTACA
*
6153638 GGAAAACAAGATCTGCAATCTTTAACCTACTCCACTACTGCCCAGGGAGATAAGGCTGGTGT-CT
130 GGAAAACAAGACCTGCAATCTTTAACCTACTCCACTACTGCCCAGGGAGATAAGGCTGGT-TACT
* ** * ** *
6153702 TCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTATCTTCAACCTGCTCC
194 TCGATCTACTTCACTGCCAATACAGGAAGAAAAAATCTGCAATCTTCAACCTACTCC
6153759 GCTGTAAACT
Statistics
Matches: 217, Mismatches: 31, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
263 2 0.01
264 214 0.99
265 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (264 bp):
AGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAAATCTGCAATTTTCA
ACCTACTCCACTGCTGCTCAGAAAGATAAGGCTTGTGTTTTCGATCTGCTTCACTACCAGTACAG
GAAAACAAGACCTGCAATCTTTAACCTACTCCACTACTGCCCAGGGAGATAAGGCTGGTTACTTC
GATCTACTTCACTGCCAATACAGGAAGAAAAAATCTGCAATCTTCAACCTACTCCATTACTTCTC
TGGA
Found at i:6153729 original size:88 final size:88
Alignment explanation
Indices: 6153239--6153829 Score: 542
Period size: 88 Copynumber: 6.7 Consensus size: 88
6153229 TTCTGCAACT
* * * * * * * *
6153239 TCAGAGAGATAAGGTTTGTGTTTTCGATTTGCTTCACTGTCAGTACAGGAAGACAATATCTGTAA
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
* * *
6153304 T-TTTCAACTTACTCCGCTGCTGC
66 TCTTT-AACCTACTCCACTACTGC
** * * * * * * *
6153327 TCAGAAAGATAAGGCTTGTGTTTTCGATCTGTTTCACTACCAGTGCAGGAAGATAAGACCTGCAA
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
* *
6153392 TCTTTAACCTACTTCACTGCTGC
66 TCTTTAACCTACTCCACTACTGC
* *
6153415 TCAGGGAGATAAGGCTTGT-TATTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATTTGCA
1 TCAGGGAGATAAGGCTGGTGT-TTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCA
* * *
6153479 ATCTTCAACCTACTCCATTACTTC
65 ATCTTTAACCTACTCCACTACTGC
* * * * * *
6153503 TCTGGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTATAGGAAGACAAAATCTGCAA
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
*
6153568 T-TTTCAACCTACTCCACTGCTGC
66 TCTTT-AACCTACTCCACTACTGC
* * * *
6153591 TCAGGAAGATAAGGTTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAAAACAAGATCTGCAA
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
6153656 TCTTTAACCTACTCCACTACTGC
66 TCTTTAACCTACTCCACTACTGC
* * ** ** * * * **
6153679 CCAGGGAGATAAGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTA
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
* * * **
6153744 TCTTCAACCTGCTCCGCTGTA-AAC
66 TCTTTAACCTACTCCAC--TACTGC
*** * * ** * *
6153768 TCAGGGAGGCGAGGCTGGTGTCTTCGATCTACTTTGCTGCCAATGCAAGAAGACAAGATCTG
1 TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTG
6153830 TTATCTTCAA
Statistics
Matches: 421, Mismatches: 75, Indels: 13
0.83 0.15 0.03
Matches are distributed among these distances:
87 3 0.01
88 356 0.85
89 60 0.14
90 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (88 bp):
TCAGGGAGATAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAATACAGGAAGACAAGATCTGCAA
TCTTTAACCTACTCCACTACTGC
Found at i:6153797 original size:89 final size:89
Alignment explanation
Indices: 6153690--6153907 Score: 310
Period size: 89 Copynumber: 2.4 Consensus size: 89
6153680 CAGGGAGATA
6153690 AGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTATCTTCAACCTG
1 AGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTATCTTCAACCTG
* **
6153755 CTCCGCTGTAAACTCAGGGAGGCG
66 CTCCGCTGCAAACTCAGAAAGGCG
* ** * * * *
6153779 AGGCTGGTGTCTTCGATCTACTTTGCTGCCAATGCAAGAAGACAAGATCTGTTATCTTCAACTTG
1 AGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTATCTTCAACCTG
*
6153844 CTCTGCTGCAAACTCAGAAAGGCG
66 CTCCGCTGCAAACTCAGAAAGGCG
* * *
6153868 AGGTTGGTGTCTTTGATCTATTTCGCTGCCAATATAGGAA
1 AGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAA
6153908 TATAAGATCT
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 111 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.30
Consensus pattern (89 bp):
AGGCTGGTGTCTTCGATCTATTTTGCTGCCAATATAGGAAGAAAAAATCTGTTATCTTCAACCTG
CTCCGCTGCAAACTCAGAAAGGCG
Found at i:6154008 original size:21 final size:21
Alignment explanation
Indices: 6153982--6154048 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
6153972 TTTCGCTGAT
* *
6153982 CTGTTCCCTGAGGAACATGAC
1 CTGTTCTCTGGGGAACATGAC
6154003 CTGTTCTCTGGGGAACATGAC
1 CTGTTCTCTGGGGAACATGAC
6154024 CTGTTCTCTGGGGAACATGAC
1 CTGTTCTCTGGGGAACATGAC
6154045 CTGT
1 CTGT
6154049 AGAATCCATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (21 bp):
CTGTTCTCTGGGGAACATGAC
Found at i:6154594 original size:45 final size:45
Alignment explanation
Indices: 6154522--6154608 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
6154512 AGTTCAAAAT
* *
6154522 GAATGAATTAATCAAGATAGCGAATTTT-TCTAGAATACAAAATGA
1 GAATAAATTAATCAAGATAGCGAATTTTGTC-AAAATACAAAATGA
* * *
6154567 GAATAAATTAATCAAGATGGTGTATTTTGTCAAAATACAAAA
1 GAATAAATTAATCAAGATAGCGAATTTTGTCAAAATACAAAA
6154609 AAATGAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 34 0.94
46 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (45 bp):
GAATAAATTAATCAAGATAGCGAATTTTGTCAAAATACAAAATGA
Found at i:6154899 original size:6 final size:6
Alignment explanation
Indices: 6154888--6154933 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
6154878 TTGGTCTTTC
*
6154888 CTTTTT CTTTTT ATTTTT CTTCTTT -TTTTT CTTTTT C-TTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT CTTTT
6154934 CATGAAACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 8 0.23
6 24 0.69
7 3 0.09
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:6154912 original size:15 final size:15
Alignment explanation
Indices: 6154892--6154934 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
6154882 TCTTTCCTTT
6154892 TTCTTTTTATTT-TTC
1 TTCTTTTT-TTTCTTC
*
6154907 TTCTTTTTTTTCTTT
1 TTCTTTTTTTTCTTC
6154922 TTCTTTTCTTTTC
1 TTCTTTT-TTTTC
6154935 ATGAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 3 0.12
15 17 0.68
16 5 0.20
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTCTTTTTTTTCTTC
Found at i:6155431 original size:19 final size:19
Alignment explanation
Indices: 6155379--6155424 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6155369 TTTTTATTTT
* *
6155379 TTATTTTCTTGTTTTGTTA
1 TTATTTTTTTGTTTTGTTC
6155398 TTATTTTTTTGTTTTGTTC
1 TTATTTTTTTGTTTTGTTC
*
6155417 TTGTTTTT
1 TTATTTTT
6155425 GTTTTTTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.07, C:0.04, G:0.11, T:0.78
Consensus pattern (19 bp):
TTATTTTTTTGTTTTGTTC
Found at i:6157663 original size:23 final size:23
Alignment explanation
Indices: 6157636--6157682 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6157626 CAAAAAGTGA
*
6157636 TTGTTTTTAATAAACGATTTGAT
1 TTGTTTGTAATAAACGATTTGAT
6157659 TTGTTTGTAATAAACGATTTGAT
1 TTGTTTGTAATAAACGATTTGAT
6157682 T
1 T
6157683 ATATTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (23 bp):
TTGTTTGTAATAAACGATTTGAT
Found at i:6158251 original size:127 final size:128
Alignment explanation
Indices: 6158022--6158251 Score: 315
Period size: 127 Copynumber: 1.8 Consensus size: 128
6158012 TATTTGGAAG
* *
6158022 TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAATTGAGACCCCATAAGTTAGGGTACG
1 TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAATCGAAACCCCATAAGTTAGGGTACG
* * **
6158087 ATTTCTCGAATCACCAAAGCGCATAAATATTGCCTTATCAGGACTTCATTTATCTTTTGAAAT
66 ATATCTCGAATCACCAAAGCGCAAAAATATTAACTTATCAGGACTTCATTTATCTTTTGAAAT
* *
6158150 TTTAAA-AGGATATTTTGCTATTTG-GTTTTAGA-GAGAAAATCGAAACCCCGTAAGTTAGGGTA
1 TTTAAAGAGGATATTTTGCCATTTGAG-TTTA-ACGAGAAAATCGAAACCCCATAAGTTAGGGTA
* *
6158212 CGATATCTCGAGTCACCGAAA-CGTAAAAATATTAACTTAT
64 CGATATCTCGAATCACC-AAAGCGCAAAAATATTAACTTAT
6158252 GTTAAAATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
126 1 0.01
127 78 0.88
128 10 0.11
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (128 bp):
TTTAAAGAGGATATTTTGCCATTTGAGTTTAACGAGAAAATCGAAACCCCATAAGTTAGGGTACG
ATATCTCGAATCACCAAAGCGCAAAAATATTAACTTATCAGGACTTCATTTATCTTTTGAAAT
Found at i:6159526 original size:12 final size:11
Alignment explanation
Indices: 6159504--6159529 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6159494 CCAGGTGAGG
6159504 TTTTCTTTTTT
1 TTTTCTTTTTT
6159515 TTTTCTTTTTT
1 TTTTCTTTTTT
6159526 TTTT
1 TTTT
6159530 GTAGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:6160385 original size:10 final size:10
Alignment explanation
Indices: 6160370--6160394 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6160360 AATTGATCAT
6160370 AAGTAGGTAA
1 AAGTAGGTAA
6160380 AAGTAGGTAA
1 AAGTAGGTAA
6160390 AAGTA
1 AAGTA
6160395 TATAAAGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (10 bp):
AAGTAGGTAA
Found at i:6168456 original size:18 final size:18
Alignment explanation
Indices: 6168410--6168456 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
6168400 ATTATTCTAA
*
6168410 TATTTGATTTA-TTATTT
1 TATTTTATTTATTTATTT
*
6168427 TATTTTAGTTATTTATTT
1 TATTTTATTTATTTATTT
6168445 TAATTTT-TTTAT
1 T-ATTTTATTTAT
6168457 CTGACTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 11 0.44
19 5 0.20
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTTATTTATTTATTT
Found at i:6171133 original size:45 final size:45
Alignment explanation
Indices: 6171064--6171199 Score: 177
Period size: 45 Copynumber: 3.1 Consensus size: 45
6171054 TACTACGTAT
* *
6171064 ACCGGGTACCATTAATTATAAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
*
6171109 ACCGAGTACCATTGATTATAAAGGTGGTTGCTCTGTGCTGATTCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * * * * *
6171154 ACCAAGTATCATTGACTATAAGGGTGG-TGCTGTGTGCAGA-TCC
1 ACCGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
6171197 ACC
1 ACC
6171200 ATGTATCTGT
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 6 0.07
44 11 0.13
45 65 0.79
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (45 bp):
ACCGAGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:6173949 original size:19 final size:20
Alignment explanation
Indices: 6173907--6173949 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
6173897 TCATACTTTC
* *
6173907 TATTCACATTTTCATATTCA
1 TATTCACATATTCAAATTCA
6173927 -ATTCACATATTCAAATT-A
1 TATTCACATATTCAAATTCA
6173945 TATTC
1 TATTC
6173950 CACAATCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTCACATATTCAAATTCA
Found at i:6174246 original size:83 final size:83
Alignment explanation
Indices: 6174107--6174279 Score: 292
Period size: 83 Copynumber: 2.1 Consensus size: 83
6174097 ATACTCAGTA
* * * *
6174107 CCTGATCAATATATCAGAAGCAGTATACGACACATAAAGTGCCTAAAATGACACACGTTGTGTCT
1 CCTGATCAATATATCAGAAGCAGTATACGACACATAAAGTACCTAAAACGACACACGTGGTGCCT
6174172 AATACGACACATATAGTG
66 AATACGACACATATAGTG
* *
6174190 CCTGATCAATATATTAGAAGCAGTATACGACACATAAAGTACCTGAAACGACACACGTGGTGCCT
1 CCTGATCAATATATCAGAAGCAGTATACGACACATAAAGTACCTAAAACGACACACGTGGTGCCT
6174255 AATACGACACATATAGTG
66 AATACGACACATATAGTG
6174273 CCTGATC
1 CCTGATC
6174280 GGCAAAGCCG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (83 bp):
CCTGATCAATATATCAGAAGCAGTATACGACACATAAAGTACCTAAAACGACACACGTGGTGCCT
AATACGACACATATAGTG
Found at i:6174273 original size:21 final size:21
Alignment explanation
Indices: 6174131--6174275 Score: 75
Period size: 21 Copynumber: 7.0 Consensus size: 21
6174121 CAGAAGCAGT
*
6174131 ATACGACACATAAAGTGCCTA
1 ATACGACACATATAGTGCCTA
* * ** * *
6174152 AAATGACACACGTTGTGTCTA
1 ATACGACACATATAGTGCCTA
*
6174173 ATACGACACATATAGTGCCTG
1 ATACGACACATATAGTGCCTA
* * *
6174194 AT-C-A-ATATATTAGAAGCAGT-
1 ATACGACACATA-TAG-TGC-CTA
* *
6174214 ATACGACACATAAAGTACCTGA
1 ATACGACACATATAGTGCCT-A
** *
6174236 A-ACGACACACGTGGTGCCTA
1 ATACGACACATATAGTGCCTA
6174256 ATACGACACATATAGTGCCT
1 ATACGACACATATAGTGCCT
6174276 GATCGGCAAA
Statistics
Matches: 85, Mismatches: 30, Indels: 18
0.64 0.23 0.14
Matches are distributed among these distances:
18 4 0.05
19 4 0.05
20 8 0.09
21 61 0.72
22 4 0.05
23 4 0.05
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (21 bp):
ATACGACACATATAGTGCCTA
Found at i:6176621 original size:24 final size:25
Alignment explanation
Indices: 6176577--6176625 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6176567 CTTTTGAGTT
*
6176577 AATAAATTCTCTTGAGTTTTTTTTC
1 AATAAATTCCCTTGAGTTTTTTTTC
*
6176602 AATAATTTCCCTTGAGTTTTTTTT
1 AATAAATTCCCTTGAGTTTTTTTT
6176626 AGAAGAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (25 bp):
AATAAATTCCCTTGAGTTTTTTTTC
Found at i:6180894 original size:36 final size:36
Alignment explanation
Indices: 6180853--6181043 Score: 247
Period size: 36 Copynumber: 5.0 Consensus size: 36
6180843 CTAAGGCTAA
*
6180853 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6180889 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6180925 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
6180967 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
6181007 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6181043 C
1 C
6181044 TAAAGCTACC
Statistics
Matches: 139, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.01
46 28 0.20
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:6180975 original size:82 final size:82
Alignment explanation
Indices: 6180889--6181079 Score: 346
Period size: 82 Copynumber: 2.3 Consensus size: 82
6180879 ATAAGTATAG
* *
6180889 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
6180954 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* *
6180971 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
6181036 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
6181053 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
6181080 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:6180979 original size:118 final size:118
Alignment explanation
Indices: 6180807--6181043 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
6180797 GCTAGGCTAC
*
6180807 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
6180872 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
6180925 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
* *
6180990 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6181043 C
1 C
6181044 TAAAGCTACC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:6184641 original size:49 final size:49
Alignment explanation
Indices: 6184586--6184780 Score: 291
Period size: 49 Copynumber: 4.0 Consensus size: 49
6184576 TTCATTTTCT
* * *
6184586 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
6184635 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* * *
6184684 CGATGCCATAGCCCAGCTATGGTGTTACACGGAATCACATATCACTTAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
* *
6184733 CAATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACA-AATCACAT
6184781 GTTCACATGT
Statistics
Matches: 134, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
49 128 0.96
50 6 0.04
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAAATCACATAC
Found at i:6186172 original size:36 final size:36
Alignment explanation
Indices: 6186131--6186321 Score: 247
Period size: 36 Copynumber: 5.0 Consensus size: 36
6186121 CTAAGGCTAA
*
6186131 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6186167 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6186203 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG
* * *
6186245 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
6186285 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6186321 C
1 C
6186322 TAAAGCTACC
Statistics
Matches: 139, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
36 100 0.72
38 3 0.02
40 3 0.02
42 3 0.02
44 2 0.01
46 28 0.20
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:6186253 original size:82 final size:82
Alignment explanation
Indices: 6186167--6186357 Score: 346
Period size: 82 Copynumber: 2.3 Consensus size: 82
6186157 ATAAGTATAG
* *
6186167 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
6186232 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* *
6186249 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
6186314 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
6186331 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
6186358 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:6186257 original size:118 final size:118
Alignment explanation
Indices: 6186085--6186321 Score: 420
Period size: 118 Copynumber: 2.0 Consensus size: 118
6186075 GCTAGGCTAC
*
6186085 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
6186150 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
* * *
6186203 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
* *
6186268 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
6186321 C
1 C
6186322 TAAAGCTACC
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 113 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:6190425 original size:26 final size:27
Alignment explanation
Indices: 6190370--6190422 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
6190360 AAAATAACCA
6190370 AAATATTATAACTTTTTTTATTTACCC
1 AAATATTATAACTTTTTTTATTTACCC
*
6190397 AAATATTATAATTTTTTTTATTTACC
1 AAATATTATAACTTTTTTTATTTACC
6190423 AAAAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (27 bp):
AAATATTATAACTTTTTTTATTTACCC
Found at i:6190504 original size:27 final size:26
Alignment explanation
Indices: 6190474--6190576 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 26
6190464 CACCCTAGTC
6190474 GTGCCAAGATGATTGGCGGCACCAAAG
1 GTGCCAA-ATGATTGGCGGCACCAAAG
* * * *
6190501 GTGCCAAAGTTATTGGCAGCACCGACG
1 GTGCCAAA-TGATTGGCGGCACCAAAG
* * *
6190528 GTG-TAAAGGAGATTGGCGGCACCAATG
1 GTGCCAAA--TGATTGGCGGCACCAAAG
*
6190555 GTGCCATACTGATTGGCGGCAC
1 GTGCCA-AATGATTGGCGGCAC
6190577 TACTCGTGTT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
26 4 0.07
27 53 0.90
28 1 0.02
29 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.18
Consensus pattern (26 bp):
GTGCCAAATGATTGGCGGCACCAAAG
Found at i:6193943 original size:11 final size:11
Alignment explanation
Indices: 6193927--6193953 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6193917 GCTTATGCTT
6193927 AAATTGTATCC
1 AAATTGTATCC
6193938 AAATTGTATCC
1 AAATTGTATCC
6193949 AAATT
1 AAATT
6193954 AAGTTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (11 bp):
AAATTGTATCC
Found at i:6197362 original size:31 final size:30
Alignment explanation
Indices: 6197316--6197384 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
6197306 CTTTTTTTTC
6197316 TTTTTTTTCCTTCCTTCCCTCTTC-TT-CT
1 TTTTTTTTCCTTCCTTCCCTCTTCTTTCCT
* *
6197344 TTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCT
1 TTTTTTTTC-C-T-TCCTTCCCTCTTCTTTCCT
6197377 TTTTTTTT
1 TTTTTTTT
6197385 TTTCTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 9 0.26
29 1 0.03
30 1 0.03
31 11 0.32
32 2 0.06
33 10 0.29
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTTTTTTCCTTCCTTCCCTCTTCTTTCCT
Found at i:6197405 original size:41 final size:40
Alignment explanation
Indices: 6197343--6197490 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
6197333 CCTCTTCTTC
6197343 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTT
1 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTT
* * *
6197383 TTTTTCTTTTTTCTTCTCCTTTCCTCTTC-TT-C--TTTCT
1 TTTTT-TTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTT
* * *
6197420 TTCTTTTTTCTCTTCTCCTTTCCTTTCCTTTCCTTCTTTT
1 TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTT
* * *
6197460 TCTTTCTTTCT-TTCTTTCTTT-C-TTTCTTTCC
1 TTTTTTTTTCTCTTC-TCCTTTCCTTTTCTTTCC
6197491 CTCTCCTTCT
Statistics
Matches: 88, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
36 20 0.23
37 10 0.11
38 9 0.10
39 5 0.06
40 23 0.26
41 21 0.24
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (40 bp):
TTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTT
Found at i:6197421 original size:4 final size:4
Alignment explanation
Indices: 6197367--6197489 Score: 93
Period size: 4 Copynumber: 31.0 Consensus size: 4
6197357 CTCCTTTCCT
6197367 TTTC TTTCC TTT- TTT- TTT- TTTC TTT- TTTC TTCTCC TTTCC TCTTC
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C T-TTC
* *
6197412 -TTC TTTC TTTC TTT- TTTC TCTTC -TCC TTTCC TTTCC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C TTT-C TTTC TTTC TTTC
6197458 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
6197490 CCTCTCCTTC
Statistics
Matches: 103, Mismatches: 3, Indels: 26
0.78 0.02 0.20
Matches are distributed among these distances:
3 24 0.23
4 52 0.50
5 22 0.21
6 5 0.05
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:6197431 original size:72 final size:75
Alignment explanation
Indices: 6197305--6197471 Score: 213
Period size: 72 Copynumber: 2.3 Consensus size: 75
6197295 ACAAAAATTA
6197305 CCTTTTTTTTCTTTTTT-TTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTT-TCCTT
1 CCTTTTTTTTCTTTTTTCTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCT-CTTCTCCTT
*
6197368 TTCTTTCCTTT
65 TCCTTTCCTTT
* *
6197379 -TTTTTTTTTCTTTTTTCTT-C-TCCTTTCCTCTTCTTCTTTCTTTCTTT-T-TTCTCTTCTCCT
1 CCTTTTTTTTCTTTTTTCTTCCTTCCTTCCCTCTTCTTCTTT-TTT-TTTCTCTTCTCTTCTCCT
6197439 TTCCTTTCCTTT
64 TTCCTTTCCTTT
*
6197451 CCTTCTTTTTCTTTCTTTCTT
1 CCTTTTTTTTCTTT-TTTCTT
6197472 TCTTTCTTTC
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
71 3 0.04
72 37 0.45
73 31 0.38
74 11 0.13
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (75 bp):
CCTTTTTTTTCTTTTTTCTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCTTCTCCTTT
CCTTTCCTTT
Found at i:6197453 original size:77 final size:74
Alignment explanation
Indices: 6197307--6197475 Score: 236
Period size: 77 Copynumber: 2.2 Consensus size: 74
6197297 AAAAATTACC
*
6197307 TTTTTTTTCTTTTTT-TTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTC
1 TTTTTTTTCTTTTTTCTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCC
*
6197371 TTTCCTTTT
66 TTTCCTTCT
6197380 TTTTTTTTCTTTTTTCTT-C-TCCTTTCCTCTTCTTCTTTCTTTCTTTTTTCTCTTCTCCTTTCC
1 TTTTTTTTCTTTTTTCTTCCTTCC-TTCC-C-TCTTC-TTCTTT-TTTTTTCTCTTCTCCTTTCC
6197443 TTTCCTTTCCTTCT
61 TTTCCTTTCCTTCT
*
6197457 TTTTCTTTCTTTCTTTCTT
1 TTTTTTTTCTTT-TTTCTT
6197476 TCTTTCTTTC
Statistics
Matches: 86, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
72 3 0.03
73 20 0.23
74 3 0.03
75 5 0.06
76 6 0.07
77 43 0.50
78 6 0.07
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (74 bp):
TTTTTTTTCTTTTTTCTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTCC
TTTCCTTCT
Found at i:6197477 original size:36 final size:36
Alignment explanation
Indices: 6197306--6197485 Score: 140
Period size: 36 Copynumber: 4.9 Consensus size: 36
6197296 CAAAAATTAC
* * *
6197306 CTTTTT-TTTCTTTTTTTTCCTTCCTTCCCTCTT-CTT
1 CTTTTTCTTTC-TTTCTTTCTTTCCTTTCCT-TTCCTT
* * *
6197342 CTTTTTTTTTCTCTTC-TCCTTTCCTTTTCTTTCCTT
1 CTTTTTCTTTCT-TTCTTTCTTTCCTTTCCTTTCCTT
* *
6197378 TTTTTTTTTTCTTT-TTTCTTCTCCTTTCCTCTT-CTT
1 CTTTTTCTTTCTTTCTTTCTT-TCCTTTCCT-TTCCTT
*
6197414 CTTTCTTTCTTTTTTCTCTTCTCCTTTCCTTTCCTTTCCTT
1 C-TT-TTTCTTTCTT-TCTT-T-CTTTCCTTTCCTTTCCTT
6197455 CTTTTTCTTTCTTTCTTTCTTT-CTTT-CTTTC
1 CTTTTTCTTTCTTTCTTTCTTTCCTTTCCTTTC
6197486 TTTCCCTCTC
Statistics
Matches: 119, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
34 5 0.04
35 12 0.10
36 46 0.39
37 11 0.09
38 12 0.10
39 10 0.08
40 6 0.05
41 14 0.12
42 3 0.03
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (36 bp):
CTTTTTCTTTCTTTCTTTCTTTCCTTTCCTTTCCTT
Found at i:6197670 original size:26 final size:26
Alignment explanation
Indices: 6197634--6197689 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
6197624 TTGTTTTTGT
6197634 TTTTGGTAAATAAAAAAATTATAATA
1 TTTTGGTAAATAAAAAAATTATAATA
*
6197660 TTTTGGTAAATAAAAAAGTTATAATA
1 TTTTGGTAAATAAAAAAATTATAATA
6197686 TTTT
1 TTTT
6197690 AGTTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (26 bp):
TTTTGGTAAATAAAAAAATTATAATA
Found at i:6197870 original size:24 final size:24
Alignment explanation
Indices: 6197841--6197888 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6197831 AATAAAAAAT
6197841 AATATTATTCTAAAGATCTTATAA
1 AATATTATTCTAAAGATCTTATAA
6197865 AATATTATTCTAAAGATCTTATAA
1 AATATTATTCTAAAGATCTTATAA
6197889 TAGTTATTTA
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:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (24 bp):
AATATTATTCTAAAGATCTTATAA
Found at i:6199960 original size:28 final size:28
Alignment explanation
Indices: 6199922--6199991 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
6199912 AAAAATAAAA
* **
6199922 ATTTATCAAAATATTATCCCTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
6199950 ATTTACCAAAATATTATAACTTTTTTTT
1 ATTTACCAAAATATTATAACTTTTTTTT
6199978 ATTTACCAAAATAT
1 ATTTACCAAAATAT
6199992 ACCAAAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTACCAAAATATTATAACTTTTTTTT
Found at i:6200073 original size:27 final size:27
Alignment explanation
Indices: 6200043--6200102 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
6200033 GCCTGATCAG
*
6200043 GCCAATCACATTGGCGGCACCAATGGT
1 GCCAAACACATTGGCGGCACCAATGGT
* *
6200070 GCCAAAGAGATTGGCGGCACCAATGGT
1 GCCAAACACATTGGCGGCACCAATGGT
6200097 GCCAAA
1 GCCAAA
6200103 GGACTAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.27, G:0.28, T:0.15
Consensus pattern (27 bp):
GCCAAACACATTGGCGGCACCAATGGT
Found at i:6200103 original size:27 final size:27
Alignment explanation
Indices: 6200052--6200103 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
6200042 GGCCAATCAC
6200052 ATTGGCGGCACCAATGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
6200079 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAATGGTGCCAAAG
6200104 GACTAGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:6200689 original size:19 final size:19
Alignment explanation
Indices: 6200665--6200760 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
6200655 TCTAATTAAG
6200665 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
6200684 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
6200702 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
6200721 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
6200739 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
6200758 TAA
1 TAA
6200761 AAAATTAAGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
18 30 0.48
19 33 0.52
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:6200706 original size:37 final size:37
Alignment explanation
Indices: 6200665--6200760 Score: 192
Period size: 37 Copynumber: 2.6 Consensus size: 37
6200655 TCTAATTAAG
6200665 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
6200702 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
6200739 TAATAACTCTATTTTAATTTAA
1 TAATAACTCTATTTTAATTTAA
6200761 AAAATTAAGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:6201296 original size:28 final size:28
Alignment explanation
Indices: 6201242--6201328 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
6201232 TTTTTTTTGT
6201242 ATATTTTGATAAAT-AAAAAAA-TTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
6201268 ATATTTTGATAAATAAAAAAAAGTTATA
1 ATATTTTGATAAATAAAAAAAAGTTATA
6201296 ATATTTT-AGTAAATAAAAAAAAG--ATA
1 ATATTTTGA-TAAATAAAAAAAAGTTATA
6201322 ATATTTT
1 ATATTTT
6201329 AGTAAATTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
26 24 0.41
27 8 0.14
28 26 0.45
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAGTTATA
Done.