Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 22 of 328
Found at i:6539126 original size:51 final size:51
Alignment explanation
Indices: 6539066--6539163 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
6539056 ATAATTAAGG
*
6539066 TTTTCTCCAAAATAAAAATGCAAAAATG-AAATCACTTG-GAAATGAATATGA
1 TTTTCTCCAAAATAAAAATG--AAAATGAAAATCACTTGAAAAATGAATATGA
* *
6539117 TTTTCTCCAAAATGAAAATGAAAATGAAAATGACTTGAAAAATGAAT
1 TTTTCTCCAAAATAAAAATGAAAATGAAAATCACTTGAAAAATGAAT
6539164 TTATGTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 6 0.14
50 9 0.21
51 27 0.64
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (51 bp):
TTTTCTCCAAAATAAAAATGAAAATGAAAATCACTTGAAAAATGAATATGA
Found at i:6539134 original size:6 final size:6
Alignment explanation
Indices: 6539125--6539149 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6539115 GATTTTCTCC
6539125 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
6539150 CTTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:6540621 original size:61 final size:61
Alignment explanation
Indices: 6540526--6540647 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
6540516 ATAAATGTAT
*
6540526 TAATTAGGATTGAGAACACATTAGACTAGACCTAAGATGAATTAATCTTAAATTCATTTAA
1 TAATTAAGATTGAGAACACATTAGACTAGACCTAAGATGAATTAATCTTAAATTCATTTAA
6540587 TAATTAAGATTGAGAACACATTAGACTAGACCTAAGATGAATTAATCTTAAATTCATTTAA
1 TAATTAAGATTGAGAACACATTAGACTAGACCTAAGATGAATTAATCTTAAATTCATTTAA
6540648 AGATCAATTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (61 bp):
TAATTAAGATTGAGAACACATTAGACTAGACCTAAGATGAATTAATCTTAAATTCATTTAA
Found at i:6541152 original size:21 final size:20
Alignment explanation
Indices: 6541121--6541161 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6541111 TTACCATCTG
*
6541121 AAAATTAAAAAATGTATATA
1 AAAATTAAAAAATATATATA
*
6541141 AAAATCTAAAAACTATATATA
1 AAAAT-TAAAAAATATATATA
6541162 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATTAAAAAATATATATA
Found at i:6541709 original size:12 final size:10
Alignment explanation
Indices: 6541673--6541713 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
6541663 TAAATTCATC
6541673 AAAAAATTTA
1 AAAAAATTTA
6541683 AAAAACATTTA
1 AAAAA-ATTTA
6541694 AAAAAAGTTTA
1 AAAAAA-TTTA
6541705 GAAAAAATT
1 -AAAAAATT
6541714 CCAATTGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 6 0.21
11 16 0.57
12 6 0.21
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:6542145 original size:10 final size:11
Alignment explanation
Indices: 6542116--6542149 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
6542106 TCAATCTTAA
*
6542116 TTCTCTTCTTT
1 TTCTCTTCTCT
6542127 TTCTCTTCTCT
1 TTCTCTTCTCT
6542138 TT-TCTTCTCT
1 TTCTCTTCTCT
6542148 TT
1 TT
6542150 GACTTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (11 bp):
TTCTCTTCTCT
Found at i:6544339 original size:30 final size:31
Alignment explanation
Indices: 6544305--6544366 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
6544295 AAAATCTAAG
6544305 ATTTAATCCT-TATATTTTACAAGTTAAAAA
1 ATTTAATCCTCTATATTTTACAAGTTAAAAA
* *
6544335 ATTTAATCCTCCTATTTTTTACAATTTAAAAA
1 ATTTAATCCT-CTATATTTTACAAGTTAAAAA
6544367 TCCTAATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 10 0.36
32 18 0.64
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (31 bp):
ATTTAATCCTCTATATTTTACAAGTTAAAAA
Found at i:6545994 original size:17 final size:16
Alignment explanation
Indices: 6545947--6546003 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
6545937 CAACTAAAAC
6545947 ATTATTTAATTAT-TAA
1 ATTATTT-ATTATATAA
*
6545963 ATTAATTT-TTTTATAA
1 ATT-ATTTATTATATAA
6545979 ATATATTTATTATATAA
1 AT-TATTTATTATATAA
6545996 ATTTATTT
1 A-TTATTT
6546004 TACTCACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
15 3 0.09
16 12 0.35
17 18 0.53
18 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTATTTATTATATAA
Found at i:6549016 original size:30 final size:30
Alignment explanation
Indices: 6548949--6549025 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 30
6548939 AAGTCATTAT
6548949 ACTTTTA-TT-TACCCAAAT-AAGCCTTAA
1 ACTTTTATTTATACCCAAATAAAGCCTTAA
* * * *
6548976 ACTTTAATTTATACCCAAATAAATCTTTTA
1 ACTTTTATTTATACCCAAATAAAGCCTTAA
6549006 ACTTTTATTTA-ACCCAAATA
1 ACTTTTATTTATACCCAAATA
6549026 GGGCTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 6 0.14
28 2 0.05
29 18 0.43
30 16 0.38
ACGTcount: A:0.39, C:0.19, G:0.01, T:0.40
Consensus pattern (30 bp):
ACTTTTATTTATACCCAAATAAAGCCTTAA
Found at i:6551698 original size:25 final size:25
Alignment explanation
Indices: 6551654--6551702 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6551644 ATAATAGCGT
*
6551654 ATATATTTCATGTACATATATGTAG
1 ATATATTTCATATACATATATGTAG
**
6551679 ATATATTTCATATATTTATATGTA
1 ATATATTTCATATACATATATGTA
6551703 TATTATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (25 bp):
ATATATTTCATATACATATATGTAG
Found at i:6551965 original size:22 final size:24
Alignment explanation
Indices: 6551913--6551973 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 24
6551903 GTATTGTATT
6551913 TATATTTTAATATTACGCTATATA
1 TATATTTTAATATTACGCTATATA
* * *
6551937 TGT-TTTT-GTATTATG-TATATA
1 TATATTTTAATATTACGCTATATA
6551958 TATATTTTAAATATTA
1 TATATTTT-AATATTA
6551974 TATATATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
21 8 0.28
22 10 0.34
23 4 0.14
24 7 0.24
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (24 bp):
TATATTTTAATATTACGCTATATA
Found at i:6558944 original size:7 final size:7
Alignment explanation
Indices: 6558932--6558970 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
6558922 TACCCTACTC
6558932 ATTCCAA
1 ATTCCAA
6558939 ATTCCAA
1 ATTCCAA
6558946 ATTCCAA
1 ATTCCAA
6558953 ATTCCAA
1 ATTCCAA
6558960 ATTCCAA
1 ATTCCAA
6558967 ATTC
1 ATTC
6558971 TTTCCGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTCCAA
Found at i:6564138 original size:25 final size:25
Alignment explanation
Indices: 6564103--6564159 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
6564093 CCAAATGTTT
*
6564103 AAAAG-CATTTAAGTGGGTGTCGCC
1 AAAAGCCATTTAAGTCGGTGTCGCC
6564127 AAAAGCCATTTAAGTCGGTGTCGCC
1 AAAAGCCATTTAAGTCGGTGTCGCC
6564152 AAAAGCCA
1 AAAAGCCA
6564160 CCGGGCCACC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
AAAAGCCATTTAAGTCGGTGTCGCC
Found at i:6565706 original size:19 final size:19
Alignment explanation
Indices: 6565692--6565739 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6565682 GATTTAATTA
6565692 TTTTT-AGTTTTTTTATAT
1 TTTTTAAGTTTTTTTATAT
* *
6565710 TTTTTAAGTTTCTGTTAAAT
1 TTTTTAAGTTT-TTTTATAT
*
6565730 TTATTAAGTT
1 TTTTTAAGTT
6565740 AAGTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.20
19 5 0.20
20 15 0.60
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTTTAAGTTTTTTTATAT
Found at i:6566910 original size:21 final size:21
Alignment explanation
Indices: 6566884--6566925 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6566874 TTTTTGTTAG
6566884 TAACTTAACTGTTAGTGACCA
1 TAACTTAACTGTTAGTGACCA
6566905 TAACTTAACTGTTAGTGACCA
1 TAACTTAACTGTTAGTGACCA
6566926 AAAAAGGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
TAACTTAACTGTTAGTGACCA
Found at i:6569645 original size:5 final size:6
Alignment explanation
Indices: 6569623--6569671 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
6569613 TTTAAATTCA
*** *
6569623 AAAAAT ACAAAAT AAAAAT AAAAAT AATTTT AAAAAT ATAAAT AAAAAT
1 AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
6569672 TTTAAAATTC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (6 bp):
AAAAAT
Found at i:6571425 original size:37 final size:37
Alignment explanation
Indices: 6571366--6571483 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 37
6571356 ATAATCACAT
* ** * *
6571366 ATTTACATGTCACTTTTTAATATATTAAATAAATATC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
* **
6571403 ATTTCCATGTCAAGTTTCAATATGTCATGTAAATATC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
* * * *
6571440 ATTTCCAAGACATGTTTCAATATATCAATTAAATATC
1 ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
6571477 ATTTCCA
1 ATTTCCA
6571484 AGTATTTCAA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTTCCATGTCAAGTTTCAATATATCAAATAAATATC
Found at i:6571484 original size:37 final size:37
Alignment explanation
Indices: 6571384--6571485 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
6571374 GTCACTTTTT
* * * *
6571384 AATATATTAAATAAATATCATTTCCATGTCAAGTTTC
1 AATATATCAATTAAATATCATTTCCAAGACAAGTTTC
* *
6571421 AATATGTC-ATGTAAATATCATTTCCAAGACATGTTTC
1 AATATATCAAT-TAAATATCATTTCCAAGACAAGTTTC
6571458 AATATATCAATTAAATATCATTTCCAAG
1 AATATATCAATTAAATATCATTTCCAAG
6571486 TATTTCAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 53 0.95
38 2 0.04
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (37 bp):
AATATATCAATTAAATATCATTTCCAAGACAAGTTTC
Found at i:6573254 original size:46 final size:44
Alignment explanation
Indices: 6573150--6573257 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6573140 TGTCTTTGAC
** * * *
6573150 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6573194 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6573240 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6573258 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6580817 original size:46 final size:44
Alignment explanation
Indices: 6580713--6580820 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
6580703 TGTCTTTGAC
** * * *
6580713 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
6580757 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
6580803 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
6580821 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:6584579 original size:26 final size:26
Alignment explanation
Indices: 6584548--6584612 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
6584538 TTTTAGAATT
* *
6584548 TATTTTATATTTTAAAATTTG-TTTTA
1 TATTTTATATTTT-AAAGTGGCTTTTA
*
6584574 T-TTTTTTAATTTTAAAGTGGCTTTTA
1 TATTTTAT-ATTTTAAAGTGGCTTTTA
6584600 TATTTTATATTTT
1 TATTTTATATTTT
6584613 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 10 0.31
26 17 0.53
27 5 0.16
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (26 bp):
TATTTTATATTTTAAAGTGGCTTTTA
Found at i:6584585 original size:18 final size:19
Alignment explanation
Indices: 6584537--6584578 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6584527 ATAATATTAA
*
6584537 ATTTTAGAATTTATTTTAT
1 ATTTTAAAATTTATTTTAT
*
6584556 ATTTTAAAATTTGTTTTAT
1 ATTTTAAAATTTATTTTAT
6584575 -TTTT
1 ATTTT
6584579 TTAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTAAAATTTATTTTAT
Found at i:6589635 original size:30 final size:30
Alignment explanation
Indices: 6589600--6589661 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
6589590 ACTTATTTTA
6589600 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
*
6589630 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGATAT
6589660 TT
1 TT
6589662 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGATAT
Found at i:6589780 original size:17 final size:17
Alignment explanation
Indices: 6589743--6589782 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
6589733 GGGAAATATT
*
6589743 TATTTTGATGTTTTTAG
1 TATTTTGATGTTTATAG
6589760 TATTTTGATGTATTATA-
1 TATTTTGATGT-TTATAG
6589777 TATTTT
1 TATTTT
6589783 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (17 bp):
TATTTTGATGTTTATAG
Found at i:6603027 original size:2 final size:2
Alignment explanation
Indices: 6603020--6603044 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6603010 AACAAGCGTG
6603020 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6603045 TTAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6603079 original size:20 final size:21
Alignment explanation
Indices: 6603037--6603098 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
6603027 ATATATATAT
6603037 ATATATATTTAAAATTTAATTC
1 ATATATATTTAAAATTT-ATTC
6603059 ATATAT-TTTAAACATTT-TTC
1 ATATATATTTAAA-ATTTATTC
*
6603079 ATATTAAATTT-AAATTTATT
1 ATA-TATATTTAAAATTTATT
6603099 TTTAACTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 10 0.29
21 12 0.34
22 13 0.37
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATATATTTAAAATTTATTC
Found at i:6607097 original size:18 final size:20
Alignment explanation
Indices: 6607058--6607098 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6607048 CTCATATCAC
6607058 AAATCGAAAATAAATATGAT
1 AAATCGAAAATAAATATGAT
*
6607078 AAATTGAAAA-AAAT-TGAT
1 AAATCGAAAATAAATATGAT
6607096 AAA
1 AAA
6607099 AAAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 4 0.20
20 9 0.45
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (20 bp):
AAATCGAAAATAAATATGAT
Found at i:6610139 original size:13 final size:13
Alignment explanation
Indices: 6610121--6610148 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6610111 AGGTATTTCA
6610121 TATAAAAGTTTAT
1 TATAAAAGTTTAT
6610134 TATAAAAGTTTAT
1 TATAAAAGTTTAT
6610147 TA
1 TA
6610149 AGAGTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
TATAAAAGTTTAT
Found at i:6621055 original size:22 final size:22
Alignment explanation
Indices: 6621030--6621101 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
6621020 TAATTAATTA
6621030 ATTTAATAACTGTAATAGGGAT
1 ATTTAATAACTGTAATAGGGAT
* * ***
6621052 ATTTAATTA-TATAATTAATTA-
1 ATTTAATAACTGTAA-TAGGGAT
6621073 ATTTAATAACTGTAATAGGGAT
1 ATTTAATAACTGTAATAGGGAT
6621095 ATTTAAT
1 ATTTAAT
6621102 TATTAAAGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 15 0.41
22 22 0.59
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (22 bp):
ATTTAATAACTGTAATAGGGAT
Found at i:6621077 original size:43 final size:43
Alignment explanation
Indices: 6621016--6621104 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
6621006 TTGACAATGA
6621016 TATATAATTAATTAATTTAATAACTGTAATAGGGATATTTAAT
1 TATATAATTAATTAATTTAATAACTGTAATAGGGATATTTAAT
6621059 TATATAATTAATTAATTTAATAACTGTAATAGGGATATTTAAT
1 TATATAATTAATTAATTTAATAACTGTAATAGGGATATTTAAT
6621102 TAT
1 TAT
6621105 TAAAGATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (43 bp):
TATATAATTAATTAATTTAATAACTGTAATAGGGATATTTAAT
Found at i:6623840 original size:60 final size:58
Alignment explanation
Indices: 6623766--6623896 Score: 151
Period size: 58 Copynumber: 2.2 Consensus size: 58
6623756 TATACTAGTA
* * * *
6623766 GTCACTCAACTATTAATAAATTTCTTTTTT-AGTTACT-CAACTATGAAAATTTATAAAATG
1 GTCACTCAACTATTAATAAA--CCTTTTTTGA-TCA-TACAACTATGAAAAGTTACAAAATG
*
6623826 GTCACTTAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG
1 GTCACTCAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG
6623884 GTCAC-CAAACTAT
1 GTCACTC-AACTAT
6623897 ACAATTTTGT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 41 0.66
59 1 0.02
60 19 0.31
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (58 bp):
GTCACTCAACTATTAATAAACCTTTTTTGATCATACAACTATGAAAAGTTACAAAATG
Found at i:6624458 original size:56 final size:60
Alignment explanation
Indices: 6624397--6624513 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 60
6624387 GTTAGATATC
* * * *
6624397 ATTTTGTAACTTTTCATAGTTGGGTGA-C-TAAAA-C-ATTTACTAGTAGTTGGGTGACT
1 ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
*
6624453 ATTTTGTAACTTTTTATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
1 ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
6624513 A
1 A
6624514 CTAGTGTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
56 25 0.48
57 1 0.02
58 4 0.08
59 1 0.02
60 21 0.40
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (60 bp):
ATTTTGTAACTTTTCATAGTTAGGTGATCAAAAAAGCAATTTACTAATAGTTGAGTGACT
Found at i:6627355 original size:33 final size:34
Alignment explanation
Indices: 6627305--6627369 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
6627295 ACCTTGAATC
* *
6627305 AGTTTAGGATTCAAGGTTCAGGCTTCGAAATTCA
1 AGTTTAGGAGTCAAGGTTCAGGATTCGAAATTCA
* *
6627339 AGTTTAGG-GTCAAGGTTTAGGATTCTAAATT
1 AGTTTAGGAGTCAAGGTTCAGGATTCGAAATT
6627370 TGGGGTTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 19 0.70
34 8 0.30
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (34 bp):
AGTTTAGGAGTCAAGGTTCAGGATTCGAAATTCA
Found at i:6628234 original size:13 final size:14
Alignment explanation
Indices: 6628216--6628245 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6628206 CTTCTCTCTA
6628216 TAAAATATA-ATTT
1 TAAAATATATATTT
6628229 TAAAATATATATTT
1 TAAAATATATATTT
6628243 TAA
1 TAA
6628246 GTTTGAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATATATATTT
Found at i:6631458 original size:28 final size:27
Alignment explanation
Indices: 6631394--6631462 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
6631384 ACACAAATTG
* ***
6631394 AAAATATAATAAAAAGTGGTTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
*
6631421 AAATTGAAAATAAAAAGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
6631450 AAAATAAAA-AAAA
1 AAAATAAAATAAAA
6631463 TATATATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:6638627 original size:20 final size:18
Alignment explanation
Indices: 6638589--6638632 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
6638579 AAACCCTAAT
6638589 TTTCCC-TTTTCTTTTTC
1 TTTCCCTTTTTCTTTTTC
6638606 TTTCCCTTTTTCCTTCTTTC
1 TTTCCCTTTTT-CTT-TTTC
6638626 TTTCCCT
1 TTTCCCT
6638633 CAATTTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCCTTTTTCTTTTTC
Found at i:6638719 original size:28 final size:27
Alignment explanation
Indices: 6638681--6638756 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 27
6638671 TTTCTTTATT
* *
6638681 CTTTTTATTATTTCTTTTATTTATTTTA
1 CTTTATATTATTTCTTATATTT-TTTTA
*
6638709 CTTTATATTATTATATTATATTTTTTTA
1 CTTTATATTATT-TCTTATATTTTTTTA
*
6638737 ATTATAATTATTATTTCTTA
1 CTT-T-A-TATTATTTCTTA
6638757 AATAATAAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 18 0.46
29 9 0.23
30 5 0.13
31 7 0.18
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (27 bp):
CTTTATATTATTTCTTATATTTTTTTA
Found at i:6642873 original size:24 final size:24
Alignment explanation
Indices: 6642814--6642869 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
6642804 TGATTTAAAC
* *
6642814 AAATATTCATA-TTTATATTATTA
1 AAATATTTATATTTTATACTATTA
*
6642837 AAATGTTTATATTTTATACTA-TA
1 AAATATTTATATTTTATACTATTA
6642860 AAATATTTAT
1 AAATATTTAT
6642870 TATTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATATTTATATTTTATACTATTA
Found at i:6643140 original size:25 final size:24
Alignment explanation
Indices: 6643104--6643157 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
6643094 TTTTAATATT
6643104 TTAAAATATATT-TTAAAATTAAAA
1 TTAAAATATATTATTAAAA-TAAAA
* * *
6643128 TTAAAATTTTATTATTATAATAATA
1 TTAAAA-TATATTATTAAAATAAAA
6643153 TTAAA
1 TTAAA
6643158 CTTGATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 14 0.56
26 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAAATATATTATTAAAATAAAA
Found at i:6644589 original size:38 final size:38
Alignment explanation
Indices: 6644543--6644639 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
6644533 TTTTAAGCTC
6644543 TAGATTACTTATTATT-TATATTAATATTATCATTATCT
1 TAGATTACTTATTATTAT-TATTAATATTATCATTATCT
* *
6644581 TAGATTACTTATTATTATTATTATTATTATTATTA--T
1 TAGATTACTTATTATTATTATTAATATTATCATTATCT
*
6644617 TATTATTA-TTATTATTATTATTA
1 TA-GATTACTTATTATTATTATTA
6644640 GGCTATTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
36 18 0.33
37 4 0.07
38 31 0.57
39 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (38 bp):
TAGATTACTTATTATTATTATTAATATTATCATTATCT
Found at i:6644597 original size:3 final size:3
Alignment explanation
Indices: 6644546--6644639 Score: 104
Period size: 3 Copynumber: 31.3 Consensus size: 3
6644536 TAAGCTCTAG
* * * *
6644546 ATT ACTT ATT ATT -TAT ATT AAT ATT ATC ATT A-T CTT A-G ATT ACTT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
6644591 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6644639 A
1 A
6644640 GGCTATTTTA
Statistics
Matches: 77, Mismatches: 8, Indels: 12
0.79 0.08 0.12
Matches are distributed among these distances:
2 3 0.04
3 67 0.87
4 7 0.09
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:6649039 original size:11 final size:11
Alignment explanation
Indices: 6649023--6649067 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
6649013 ACTCTAGTCG
6649023 AAAAATAAAAT
1 AAAAATAAAAT
*
6649034 AAAAATAAATT
1 AAAAATAAAAT
**
6649045 AAAAAGGAAAT
1 AAAAATAAAAT
6649056 AAAAAATAAAAT
1 -AAAAATAAAAT
6649068 CAACAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:6658832 original size:43 final size:42
Alignment explanation
Indices: 6658771--6658853 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
6658761 TGTAAATGTT
* *
6658771 AAAATTAGAAATTAATATACGGTAAAATTATATTTTGAACCAA
1 AAAATTAGAAATTAATATACGATAAAATTACATTTT-AACCAA
* * *
6658814 AAAATTATAAATTCATATATGATAAAATTACATTTTAACC
1 AAAATTAGAAATTAATATACGATAAAATTACATTTTAACC
6658854 TCTCAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 4 0.11
43 31 0.89
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (42 bp):
AAAATTAGAAATTAATATACGATAAAATTACATTTTAACCAA
Found at i:6661964 original size:2 final size:2
Alignment explanation
Indices: 6661957--6661982 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6661947 GCTTATTCAC
6661957 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6661983 CTGACATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6664616 original size:28 final size:30
Alignment explanation
Indices: 6664585--6664647 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
6664575 TAATAAAAGG
*
6664585 TAAAATTATATTTTAAT-TCTT-AAAATAA
1 TAAAATTATAATTTAATCTCTTAAAAATAA
* * *
6664613 TAAAATTTTAATTTAATCTTTTAAAAATTA
1 TAAAATTATAATTTAATCTCTTAAAAATAA
6664643 TAAAA
1 TAAAA
6664648 AATATAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 15 0.52
29 3 0.10
30 11 0.38
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
TAAAATTATAATTTAATCTCTTAAAAATAA
Found at i:6672923 original size:4 final size:4
Alignment explanation
Indices: 6672914--6672940 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6672904 AAACTTGTGT
6672914 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6672941 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6680997 original size:16 final size:16
Alignment explanation
Indices: 6680975--6681017 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
6680965 ACTTTGATCG
6680975 GGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
*
6680991 TGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
*
6681007 GGCTTAGTGCC
1 GGCTTTGTGCC
6681018 AGTGAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.26, G:0.30, T:0.33
Consensus pattern (16 bp):
GGCTTTGTGCCTAGCA
Found at i:6684038 original size:2 final size:2
Alignment explanation
Indices: 6684031--6684075 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
6684021 AAGCCACTTT
6684031 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6684073 TA T
1 TA T
6684076 TAATTTAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6684549 original size:13 final size:13
Alignment explanation
Indices: 6684527--6684568 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
6684517 AATAATTTTA
6684527 ATTT-ATTAAAAT
1 ATTTGATTAAAAT
*
6684539 ATTTGATTAAAAA
1 ATTTGATTAAAAT
* *
6684552 ATTAGATAAAAAT
1 ATTTGATTAAAAT
6684565 ATTT
1 ATTT
6684569 TTCATACATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
ATTTGATTAAAAT
Found at i:6687977 original size:29 final size:29
Alignment explanation
Indices: 6687939--6687995 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
6687929 TTTTCGAAAA
6687939 TTTAGAATTTAAT-TCATTTA-TTTTTATT
1 TTTAGAATTTAATCTC-TTTACTTTTTATT
6687967 TTTAGGAATTTAATCTCTTTACTTTTTAT
1 TTTA-GAATTTAATCTCTTTACTTTTTAT
6687996 ATTTCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
29 13 0.50
30 9 0.35
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.61
Consensus pattern (29 bp):
TTTAGAATTTAATCTCTTTACTTTTTATT
Found at i:6690176 original size:29 final size:30
Alignment explanation
Indices: 6690074--6690176 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
6690064 ATATTTATCC
* *
6690074 TGATAGTATTTTATTCATTTAATATTAATG
1 TGATAATATTTTATTAATTTAATATTAATG
* ** * * *
6690104 TGA-GATATTAAATTAAATTAAATATTTATCT
1 TGATAATATTTTATT-AATTTAATATTAAT-G
6690135 TGATAATATTTTATTAATTTAATATTAATG
1 TGATAATATTTTATTAATTTAATATTAATG
*
6690165 TGATTA-ATTTTA
1 TGATAATATTTTA
6690177 ATCATAGTTG
Statistics
Matches: 55, Mismatches: 15, Indels: 7
0.71 0.19 0.09
Matches are distributed among these distances:
29 13 0.24
30 19 0.35
31 15 0.27
32 8 0.15
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (30 bp):
TGATAATATTTTATTAATTTAATATTAATG
Found at i:6692410 original size:26 final size:26
Alignment explanation
Indices: 6692381--6692432 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6692371 AAATAATTAG
* **
6692381 TTAATAAAATCAGTTGGTCAAATCAA
1 TTAATAAAATCAATTACTCAAATCAA
*
6692407 TTAATACAATCAATTACTCAAATCAA
1 TTAATAAAATCAATTACTCAAATCAA
6692433 CCATTGCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.31
Consensus pattern (26 bp):
TTAATAAAATCAATTACTCAAATCAA
Found at i:6696072 original size:2 final size:2
Alignment explanation
Indices: 6696065--6696089 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6696055 TAAAAAGAAA
6696065 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6696090 GCTAGATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6696855 original size:30 final size:29
Alignment explanation
Indices: 6696819--6696877 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
6696809 ACTTAACAAG
6696819 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAAC-AAATTAA
*
6696849 CAAATGTCTTTAAAATAATAACAAATTAA
1 CAAATGTCTCTAAAATAATAACAAATTAA
6696878 TAATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (29 bp):
CAAATGTCTCTAAAATAATAACAAATTAA
Found at i:6698692 original size:2 final size:2
Alignment explanation
Indices: 6698685--6698709 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6698675 AATATAGCCA
6698685 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6698710 AATAACTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6702500 original size:198 final size:198
Alignment explanation
Indices: 6702161--6702957 Score: 936
Period size: 198 Copynumber: 4.1 Consensus size: 198
6702151 TACTTTTACC
* *
6702161 TTTT-AACCTAAACATCATAATCACGGATGCGTGATCATAAAAACTAAGAAATAAAGATTAAAAT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * *
6702225 CTA-C-CA--TCTCCTTTAGCATGCTATTTTCCAATTCCAT-GACGGCTGAATGAGATGTTATCG
66 CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGA-GGATGAATGAGATGTTATCG
* *
6702285 AGCTACTATTCGATATTTTCCTCAATAGGAAAGAAGCTTATAGAGAAAAGAGATCGTACA-TTGT
130 AGCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTA-AGTGGT
6702349 TTCAA
194 TTCAA
** * *** *
6702354 TTTTGGACCTAAACATCACAATCATTTATGCATGATCATAAAAACTAAGAAGTAAAGATTAAATT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * *
6702419 CTATTACATTTCTTCATT-AGCATGCTATTTTCTGAA-TCCATGGAGGATTAATGAGATGTTATC
66 CTATCACATTTCTTC-TTCAGCATGCTATTTTC-CAATTCCATGGAGGATGAATGAGATGTTATC
* * * * *
6702482 GAGCAACTATTCGATATTTTCATCAATAGAAAAGAAGCTTATAGAGAAAAGAAACCTTAAGTGGT
129 GAGCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTAAGTGGT
6702547 TTCAA
194 TTCAA
** *
6702552 TTTTCAACCTAAACATCATAATCACGGATGCATGATTGTAAAAACTAAGAAATAAAGATCAAATT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
* * * * * * *
6702617 CTATCATATTTCTTCTTCAACATGCTAGTTTCCAAATCCATGGTGAATGAATGAGATGTTATCTA
66 CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGA
** * * * *
6702682 GCTTTTATTCGATATTTTCTTCACTAGAAAAGAAGCTTATCA-AGAAATGAGATCGTAAGAGGTT
131 GCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTAT-AGAGAAAAGAGATCGTAAGTGGTT
6702746 TCAA
195 TCAA
* * * * *
6702750 TTTTCAACCTAAACAGCATAATCACGGATGCATGATCTTAGAAGCTAAGAAACT-AATATTAAAT
1 TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAA-TAAAGATTAAAT
* * *
6702814 TCTATCATATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGTGGATGAATGAGATATTATCG
65 TCTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCG
* * * ** * *
6702879 AGCTGCTATTTGAGATTACCCTCGAGA-AAATAGAAGCTTATAGAGAAAAGAGATCGTAAAG-GG
130 AGCTACTATTCGATATTTTCCTCAATAGAAA-AGAAGCTTATAGAGAAAAGAGATCGT-AAGTGG
*
6702942 TTTCGA
193 TTTCAA
*
6702948 TTTTGAACCT
1 TTTTCAACCT
6702958 GTTGGAGAAT
Statistics
Matches: 513, Mismatches: 75, Indels: 27
0.83 0.12 0.04
Matches are distributed among these distances:
193 4 0.01
194 55 0.11
196 2 0.00
197 9 0.02
198 432 0.84
199 11 0.02
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (198 bp):
TTTTCAACCTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATT
CTATCACATTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGA
GCTACTATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTAAGTGGTTT
CAA
Found at i:6704740 original size:15 final size:14
Alignment explanation
Indices: 6704720--6704769 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
6704710 TTTTAAAGTT
6704720 TATAATATTATATTA
1 TATAATATT-TATTA
*
6704735 TATAAT-TTTTTTA
1 TATAATATTTATTA
*
6704748 TATATTATGTTATT-
1 TATAATAT-TTATTA
6704762 TATAATAT
1 TATAATAT
6704770 ATAAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 9 0.31
14 10 0.34
15 10 0.34
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATAATATTTATTA
Found at i:6706151 original size:15 final size:15
Alignment explanation
Indices: 6706129--6706167 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6706119 GTTGGGCTAG
*
6706129 TTTTTATATAT-TAA
1 TTTTTATAAATGTAA
6706143 TTATTTATAAATGTAA
1 TT-TTTATAAATGTAA
6706159 TTTTTATAA
1 TTTTTATAA
6706168 TATAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTTTATAAATGTAA
Found at i:6706175 original size:14 final size:14
Alignment explanation
Indices: 6706129--6706175 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
6706119 GTTGGGCTAG
6706129 TTTTTAT-ATATTAA
1 TTTTTATAATA-TAA
*
6706143 TTATTTATAAATGTAA
1 TT-TTTAT-AATATAA
6706159 TTTTTATAATATAA
1 TTTTTATAATATAA
6706173 TTT
1 TTT
6706176 ATATGTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 11 0.39
15 10 0.36
16 5 0.18
17 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTTATAATATAA
Found at i:6712825 original size:14 final size:14
Alignment explanation
Indices: 6712806--6712835 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6712796 TTATATCGAG
6712806 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
6712820 ACCAATCCAATTCA
1 ACCAATCCAAATCA
6712834 AC
1 AC
6712836 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:6714975 original size:16 final size:16
Alignment explanation
Indices: 6714956--6714997 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
6714946 ATAATTACTT
6714956 TTTATTATTTTTTTAA
1 TTTATTATTTTTTTAA
*
6714972 TTTATTATTATTTTAA
1 TTTATTATTTTTTTAA
*
6714988 -TAATTATTTT
1 TTTATTATTTT
6714998 AGTCCCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTATTTTTTTAA
Found at i:6715065 original size:25 final size:23
Alignment explanation
Indices: 6715028--6715073 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
6715018 TTTGTTTTAA
*
6715028 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
6715051 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
6715074 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:6719659 original size:16 final size:16
Alignment explanation
Indices: 6719638--6719670 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6719628 CATTTACTAA
6719638 TATACTTTGTAAAAGC
1 TATACTTTGTAAAAGC
6719654 TATACTTTGTAAAAGC
1 TATACTTTGTAAAAGC
6719670 T
1 T
6719671 TCATATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (16 bp):
TATACTTTGTAAAAGC
Found at i:6723942 original size:39 final size:40
Alignment explanation
Indices: 6723886--6723991 Score: 101
Period size: 44 Copynumber: 2.5 Consensus size: 40
6723876 TTTTCTTATG
*
6723886 CTATTACAACATC-ATTCCATTCAACCAAACA-TAAGAATT-
1 CTATTACAGC-TCTATTCCATTCAACCAAACAGT-AGAATTA
*
6723925 CTATTACAGCTCTATTCCATTCCATTCAACCAAACAGTTGAATTA
1 CTATTACAGCTC---T--ATTCCATTCAACCAAACAGTAGAATTA
6723970 CTGATTACAGCTCTATTCCATT
1 CT-ATTACAGCTCTATTCCATT
6723992 ACAGCTCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
38 2 0.04
39 9 0.16
41 8 0.14
43 1 0.02
44 23 0.41
45 3 0.05
46 10 0.18
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (40 bp):
CTATTACAGCTCTATTCCATTCAACCAAACAGTAGAATTA
Found at i:6723968 original size:44 final size:46
Alignment explanation
Indices: 6723898--6723991 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
6723888 ATTACAACAT
6723898 CATTCCATTCAACCAAACATAAGAATT-CT-ATTACAGCTCTATTC
1 CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
*
6723942 CATTCCATTCAACCAAACAGT-TGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACA-TAAGAATTACTGATTACAGCTCTATTC
6723988 CATT
1 CATT
6723992 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACATAAGAATTACTGATTACAGCTCTATTC
Found at i:6723994 original size:16 final size:16
Alignment explanation
Indices: 6723973--6724027 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
6723963 TGAATTACTG
6723973 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
6723989 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
6724005 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
6724021 ATTACAG
1 ATTACAG
6724028 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:6724647 original size:48 final size:46
Alignment explanation
Indices: 6724518--6724675 Score: 185
Period size: 46 Copynumber: 3.4 Consensus size: 46
6724508 TCAACTTGTA
* * *
6724518 GCCGATGCATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAG
* * *
6724564 GCTGATGCATGTCCCAGACATGTCTTATACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
* * *
6724610 GCCGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCGTAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGT-CTCAAG
6724658 GCCGATGCATGTCCCAGA
1 GCCGATGCATGTCCCAGA
6724676 TGTAATACCC
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
46 44 0.46
47 24 0.25
48 26 0.27
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAG
Found at i:6729858 original size:2 final size:2
Alignment explanation
Indices: 6729851--6729880 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6729841 TAATAAATTA
6729851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6729881 CTTAAATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6733300 original size:20 final size:20
Alignment explanation
Indices: 6733275--6733312 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6733265 ACTTTTGTGT
* *
6733275 CTTTATTTTTATTTTATTTA
1 CTTTATGTTTATTATATTTA
6733295 CTTTATGTTTATTATATT
1 CTTTATGTTTATTATATT
6733313 AATTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (20 bp):
CTTTATGTTTATTATATTTA
Found at i:6733336 original size:16 final size:16
Alignment explanation
Indices: 6733304--6733337 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6733294 ACTTTATGTT
**
6733304 TATTATATTAATTTAA
1 TATTATATTAACATAA
6733320 TATTATATTAACATAA
1 TATTATATTAACATAA
6733336 TA
1 TA
6733338 ATTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTATATTAACATAA
Found at i:6733346 original size:23 final size:21
Alignment explanation
Indices: 6733316--6733359 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
6733306 TTATATTAAT
6733316 TTAATATTATATTAACATAATAA
1 TTAATATT-TATTAA-ATAATAA
*
6733339 TTAATATTTCTTAAATAATAA
1 TTAATATTTATTAAATAATAA
6733360 ATAAATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAATATTTATTAAATAATAA
Found at i:6733385 original size:23 final size:23
Alignment explanation
Indices: 6733358--6733404 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6733348 CTTAAATAAT
6733358 AAATAAATACATATATGTATTAC
1 AAATAAATACATATATGTATTAC
* ** *
6733381 AAATATATTTATATATTTATTAC
1 AAATAAATACATATATGTATTAC
6733404 A
1 A
6733405 TATTTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAAATACATATATGTATTAC
Found at i:6733412 original size:23 final size:23
Alignment explanation
Indices: 6733368--6733421 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
6733358 AAATAAATAC
*
6733368 ATATATGTATTACAAATATATTT
1 ATATATTTATTACAAATATATTT
* *
6733391 ATATATTTATTACATATTTATTT
1 ATATATTTATTACAAATATATTT
*
6733414 -TATTTTTA
1 ATATATTTA
6733422 CCGTTGACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATATTTATTACAAATATATTT
Found at i:6733983 original size:7 final size:8
Alignment explanation
Indices: 6733963--6733995 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
6733953 TTAGTGTCCA
6733963 GAAAAATT
1 GAAAAATT
6733971 GAAAAATT
1 GAAAAATT
6733979 GAAAAATT
1 GAAAAATT
6733987 GAAAAATT
1 GAAAAATT
6733995 G
1 G
6733996 TTTGACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (8 bp):
GAAAAATT
Found at i:6736714 original size:159 final size:162
Alignment explanation
Indices: 6736489--6736802 Score: 442
Period size: 159 Copynumber: 2.0 Consensus size: 162
6736479 AAAAATTAGA
* * *
6736489 GAGTGTTATTTTTTACGGATTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAGTTCTTTGATT
1 GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTGATT
* *
6736554 TGCTTTTTAGTTATTTCA-T-ATGGCTTCCTGATTTTAAGTGTCA-TTTGACTTCAATTTGGATT
66 TGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGT-AGTTTGACTT-AATTTGGATT
6736616 TGCATCTGCTTTTCTGAA-TCTTTTTTTAAATTG
129 TGCATCTGCTTTTCTGAATTCTTTTTTTAAATTG
* * **
6736649 GAGTGTTA-TTTTTACGGAGTTGCTTGTTGTTTTGAAGGTGTCACTTTTTGTAAATT-ATTGAAT
1 GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTG-AT
* * *
6736712 TTGCTTTTTATTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGAGTTAGTTTGGATTT
65 TTGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGACTTAATTTGGATTT
*
6736777 GCATTTGCTTTTCTGAATTCTTTTTT
130 GCATCTGCTTTTCTGAATTCTTTTTT
6736803 CTTTTTGAAA
Statistics
Matches: 136, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
158 3 0.02
159 62 0.46
160 36 0.26
161 35 0.26
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (162 bp):
GAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTCATTGATT
TGCTTTTTAGTTATTTCATTCATGGCTTCCTAATTTTAAGGGTAGTTTGACTTAATTTGGATTTG
CATCTGCTTTTCTGAATTCTTTTTTTAAATTG
Found at i:6743712 original size:146 final size:146
Alignment explanation
Indices: 6743341--6743731 Score: 426
Period size: 146 Copynumber: 2.6 Consensus size: 146
6743331 TTTTGGATAT
* * * * *
6743341 TAGGCTGCATGACGGGGGGAAGGATGTTCCTGGAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
1 TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
* * **** * *
6743406 AATAAAATTACCACATT-AGAGGCTGTTTTCTAGGTCATTGTTAACTTAATGGGTGTAATGTTTT
66 AATAAAGTTA-C-CATTCACA---TGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTTT
* *
6743470 GATATTTCAGGGTAGTTTTGG
126 GATATTTCAGGATAGCTTTGG
* ** * *
6743491 TAGGTTGCGTGACAGGGGGAAGGAAGTTCAGATTTCAGAAGGCTACTTAAATTTTTACTAAGCAT
1 TAGGTTGCATGACAGGGGGAAGGAAGTTC------CAGAAGGCTACAAAAATTTTGACTAAGCTT
* * * * *
6743556 TTTCCAAATAAAGTTACCATTCATATGCCAACCATGTTATTGTTAATTTAAGGGGTGTGATGTTT
60 TTTCCAAATAAAGTTACCATTCACATGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTT
*
6743621 TGCTATTTTCAGGATAGCTTTGG
125 TGATA-TTTCAGGATAGCTTTGG
6743644 TAGGTTGCATGACAGGGGGAAGGAAGTTCC-GAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
1 TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
6743708 AATAAAGTTACCATTCACATGCCA
66 AATAAAGTTACCATTCACATGCCA
6743732 CAGGTCCGTA
Statistics
Matches: 202, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
146 53 0.26
147 1 0.00
150 25 0.12
152 34 0.17
153 43 0.21
154 4 0.02
155 3 0.01
156 39 0.19
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (146 bp):
TAGGTTGCATGACAGGGGGAAGGAAGTTCCAGAAGGCTACAAAAATTTTGACTAAGCTTTTTCCA
AATAAAGTTACCATTCACATGCCAACCAGGTCATTGTTAACTTAAGGGGTGTAATGTTTTGATAT
TTCAGGATAGCTTTGG
Found at i:6746521 original size:16 final size:16
Alignment explanation
Indices: 6746502--6746535 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6746492 CAGAAAACTA
*
6746502 TTTTTCTTT-TTTCCT
1 TTTTTCTTTACTTCCT
6746517 TTTTTCTTTACTTCCT
1 TTTTTCTTTACTTCCT
6746533 TTT
1 TTT
6746536 GATGCAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTACTTCCT
Found at i:6748535 original size:43 final size:43
Alignment explanation
Indices: 6748476--6748564 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
6748466 AGTCTTTGAA
6748476 TTTGTATTTTTTTTTGTCAAATCATATCCAAATAGATGGAAAAT
1 TTTGTATTTTTTTTTGTCAAATCATATCCAAATAGAT-GAAAAT
6748520 TTTGTA-TTTTTTTTGTCAAATCATATCCAAATAGATGAAAAT
1 TTTGTATTTTTTTTTGTCAAATCATATCCAAATAGATGAAAAT
6748562 TTT
1 TTT
6748565 AACATTTGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 9 0.20
43 30 0.67
44 6 0.13
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (43 bp):
TTTGTATTTTTTTTTGTCAAATCATATCCAAATAGATGAAAAT
Found at i:6748636 original size:9 final size:10
Alignment explanation
Indices: 6748621--6748667 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 10
6748611 ATTAATTGTT
6748621 TATTTTAAAA
1 TATTTTAAAA
6748631 -ATTTTAAAA
1 TATTTTAAAA
* *
6748640 TATTTTTATA
1 TATTTTAAAA
*
6748650 TATTTT-AAT
1 TATTTTAAAA
6748659 TATTTTAAA
1 TATTTTAAA
6748668 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:6748652 original size:10 final size:10
Alignment explanation
Indices: 6748621--6748666 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
6748611 ATTAATTGTT
6748621 TATTTTAA-A
1 TATTTTAATA
* *
6748630 AATTTTAAAA
1 TATTTTAATA
*
6748640 TATTTTTATA
1 TATTTTAATA
6748650 TATTTTAAT-
1 TATTTTAATA
6748659 TATTTTAA
1 TATTTTAA
6748667 ATTTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTTAATA
Found at i:6748676 original size:36 final size:37
Alignment explanation
Indices: 6748620--6748692 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 37
6748610 AATTAATTGT
*
6748620 TTATTTTAAAAATTTTAAAATA-TTTTTATATATTTTAA
1 TTATTTT-AAAATTTAAAAATAGTTTTTATA-ATTTTAA
6748658 TTATTTT-AAATTTAAAAATAGTTTTTATAATTTTA
1 TTATTTTAAAATTTAAAAATAGTTTTTATAATTTTA
6748693 CTTCTGAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
36 18 0.55
37 8 0.24
38 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
TTATTTTAAAATTTAAAAATAGTTTTTATAATTTTAA
Found at i:6748881 original size:15 final size:15
Alignment explanation
Indices: 6748861--6748889 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6748851 TTTTTCTACT
6748861 ATAATTGATAGGTAG
1 ATAATTGATAGGTAG
6748876 ATAATTGATAGGTA
1 ATAATTGATAGGTA
6748890 TAGTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (15 bp):
ATAATTGATAGGTAG
Found at i:6748993 original size:24 final size:25
Alignment explanation
Indices: 6748942--6749000 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
6748932 AAAAATTAAT
* *
6748942 ATTTATAAATATCAATATTTAATTA
1 ATTTATAAATATAAATATTTAATAA
6748967 ATTT-TAAATATAAAATATTT-ATAA
1 ATTTATAAATAT-AAATATTTAATAA
6748991 ATTCTATAAA
1 ATT-TATAAA
6749001 ATATTTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 13 0.45
25 12 0.41
26 4 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTATAAATATAAATATTTAATAA
Found at i:6765993 original size:13 final size:13
Alignment explanation
Indices: 6765975--6766049 Score: 71
Period size: 13 Copynumber: 5.8 Consensus size: 13
6765965 TTTGGCAATA
6765975 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
*
6765988 CTTTTGAAGAGTG
1 CTTTTGAAAAGTG
* * * *
6766001 CTGTGGAAATGTA
1 CTTTTGAAAAGTG
*
6766014 CTTTTGAAAAGTA
1 CTTTTGAAAAGTG
6766027 CTTTTGAGAAA-TG
1 CTTTTGA-AAAGTG
*
6766040 CTTTGGAAAA
1 CTTTTGAAAA
6766050 ATTTAAGTGT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
12 3 0.06
13 44 0.88
14 3 0.06
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:6766047 original size:39 final size:39
Alignment explanation
Indices: 6765973--6766048 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
6765963 AATTTGGCAA
* *
6765973 TACTTTTGAAAAGTGCTTTTGAAGAGTGCTGTGGAAATG
1 TACTTTTGAAAAGTACTTTTGAAGAATGCTGTGGAAATG
*
6766012 TACTTTTGAAAAGTACTTTTG-AGAAATGCTTTGGAAA
1 TACTTTTGAAAAGTACTTTTGAAG-AATGCTGTGGAAA
6766049 AATTTAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (39 bp):
TACTTTTGAAAAGTACTTTTGAAGAATGCTGTGGAAATG
Found at i:6771711 original size:2 final size:2
Alignment explanation
Indices: 6771704--6771732 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6771694 CTTTTACCAA
6771704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6771733 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6776191 original size:127 final size:127
Alignment explanation
Indices: 6775958--6776266 Score: 413
Period size: 127 Copynumber: 2.4 Consensus size: 127
6775948 CGAAAACCGG
* * * *
6775958 AACCCAGCACGGTAGGGCACAATTCCTCGAATTTCCAAACATTAAACATTGCCTTGCTTTAGAAT
1 AACCCAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATTAAACATAGCCTTGCTTTAAAAT
* * *
6776023 TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTTGGTTATTTTGAACAAATAGGAAATCAA
66 TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
* * * * * *
6776085 AACCCAGTACGATAGGGCACGATTCCCCGAATTTTCAAACATTGAATATAGCCTTGTTTTAAAAT
1 AACCCAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATTAAACATAGCCTTGCTTTAAAAT
* * * *
6776150 TTGGGAAACGC-GAGTGAAATTCTAAAGGAATATTCGATTATTTTGAGCAAACAGGAAATCAA
66 TTAGAAAAC-CAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
* * * *
6776212 AACCCAGCACGATAAGGCACAATTTCCCGAATTTCCAAACATCAAACATTGCCTT
1 AACCCAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATTAAACATAGCCTT
6776267 CGTTTTAAGG
Statistics
Matches: 155, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
127 154 0.99
128 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (127 bp):
AACCCAGCACGATAGGGCACAATTCCCCGAATTTCCAAACATTAAACATAGCCTTGCTTTAAAAT
TTAGAAAACCAGAGTGAAATTCAAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCAA
Found at i:6780130 original size:46 final size:46
Alignment explanation
Indices: 6780080--6780255 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
6780070 TATTTGGGCA
6780080 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
6780126 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
6780173 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
6780219 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6780256 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:6780235 original size:93 final size:93
Alignment explanation
Indices: 6780076--6780247 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6780066 TGGATATTTG
* *
6780076 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6780141 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
6780169 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6780234 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
6780248 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6783226 original size:15 final size:15
Alignment explanation
Indices: 6783206--6783274 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
6783196 GTATCTTGGG
6783206 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
6783221 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
6783236 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
6783251 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
6783266 TTTCTTTAT
1 TTTCTTTAT
6783275 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:6783275 original size:30 final size:30
Alignment explanation
Indices: 6783197--6783284 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
6783187 CATAGTATCG
* * * *
6783197 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
6783227 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
6783257 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
6783285 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:6785719 original size:46 final size:46
Alignment explanation
Indices: 6785669--6785844 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
6785659 TATTTGGGCA
6785669 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
6785715 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
6785762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
6785808 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6785845 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:6785824 original size:93 final size:93
Alignment explanation
Indices: 6785665--6785836 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
6785655 TGGATATTTG
* *
6785665 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6785730 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
6785758 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
6785823 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
6785837 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:6800766 original size:178 final size:178
Alignment explanation
Indices: 6800301--6801281 Score: 1382
Period size: 178 Copynumber: 5.5 Consensus size: 178
6800291 TTCACAGATT
** * *
6800301 TTATCTCCATGTATCAACTATGGAGCAGATCGAAAAAGGCGAATCTTATCTCCATGTATTGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
* * * *
6800366 TGGAGCAGATTTCAGCCGCTAGCCTTATTTCTCTGAGATAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
6800431 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AGAAATTACAGGTC
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA-AAATTACAGGTC
* * *
6800479 TTATCTCCATGTACCGAC-ATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
*
6800543 TGGAGCAGATTTCAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
* * *
6800608 GTCTTATATTCCTAAGGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * **
6800656 TTGTCTCCATGTATCGGCTATGGAGGAGATCGAAAATGGCGAATCTTATCTTTATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
*
6800721 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
*
6800786 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTT
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* *
6800834 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTTTCTTCATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
6800899 TGGAGCAGATTTCAGCCACCAGCCACCAGCCTTATCTCTCTGAGGTAGC-A-AGAG-A-G-T--A
66 TGGAGCAGATTT-------CAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
*
6800957 GGT-----TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
124 GATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * *
6801007 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGAATCTGT-TCTTCATGTATCGGCT
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCT-TATCTCCATGTATCGGCT
* * *
6801071 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACA
65 ATGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * *
6801136 AGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATC
130 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
* * * * * * *
6801185 TTATATCCATGTATCGGTTATGGAGCAGATTGAAGATGGTGAGTCTTATCTCCATGTATTGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
* *
6801250 TGGAGCAGATCTT-AGCCACCGGCATTATCTCT
66 TGGAGCAGAT-TTCAGCCACCAGCCTTATCTCT
6801282 TTGAAATTGC
Statistics
Matches: 728, Mismatches: 51, Indels: 48
0.88 0.06 0.06
Matches are distributed among these distances:
166 28 0.04
167 1 0.00
168 4 0.01
169 1 0.00
170 1 0.00
171 1 0.00
173 122 0.17
174 1 0.00
177 162 0.22
178 368 0.51
179 2 0.00
180 1 0.00
181 1 0.00
182 1 0.00
183 4 0.01
184 1 0.00
185 29 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (178 bp):
TTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTA
TGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
Found at i:6801096 original size:351 final size:356
Alignment explanation
Indices: 6800301--6801269 Score: 1403
Period size: 351 Copynumber: 2.7 Consensus size: 356
6800291 TTCACAGATT
** * *
6800301 TTATCTCCATGTATCAACTATGGAGCAGATCGAAAAA-GGCGAATCTTATCTCCATGTATTGGCT
1 TTATCTCCATGTATCGGCTATGGAGCAGATC-AAAAATGGCGAATCTTATCTTCATGTATCGGCT
* * * * *
6800365 ATGGAGCAGATTTCAGCCGCTAGCCTTATTTCTCTGAGATAGCAAGAGAGCAGGTTGAAGATACA
65 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
*
6800430 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAGAAATTACAGGTCTTATCTCCATGTACCG
130 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA-AAATTACAGGTCTTATCTCCATGTATCG
*
6800495 AC-ATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTT----
194 GCTATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCC
*
6800555 --CAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATATT
259 ACCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTT-AAGAT---A-TCTTATATT
6800618 CCTAAGGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
319 CCTAAGGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
* * * *
6800656 TTGTCTCCATGTATCGGCTATGGAGGAGATCGAAAATGGCGAATCTTATCTTTATGTATCGGCTA
1 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
6800721 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
66 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
*
6800786 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATTACAGGTTTTATCTCCATGTATCGG
131 GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAATTACAGGTCTTATCTCCATGTATCGG
* * *
6800851 CTATGGAGCAGATCGAAAATGGCGAATCTTTTCTTCATGTATCGGCTATGGAGCAGATTTCAGCC
195 CTATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTT-AGCC
* * *
6800916 ACCAGCCACCAGCCTTATCTCTCTGAGGTAGC-A-AGAG-A-G-T-AGGT-TCTTATCTTCCTGA
259 ACCAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAGATATCTTATATTCCTAA
*
6800974 GGTAGCAAGGAAGCAGACTGAAAATTACAGGTC
324 GGTAGCAAAGAAGCAGACTGAAAATTACAGGTC
*
6801007 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGAATCTGT-TCTTCATGTATCGGCT
1 TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCT-TATCTTCATGTATCGGCT
* *
6801071 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACA
65 ATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACA
* * *
6801136 AGCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATATCCATGTATCG
130 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAATTACAGGTCTTATCTCCATGTATCG
* * * * *
6801201 GTTATGGAGCAGATTGAAGATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATCTTAGC
194 GCTATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTAGC
6801266 CACC
258 CACC
6801270 GGCATTATCT
Statistics
Matches: 558, Mismatches: 44, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
351 282 0.51
352 3 0.01
354 4 0.01
355 173 0.31
356 59 0.11
358 1 0.00
359 1 0.00
360 1 0.00
361 4 0.01
362 1 0.00
363 29 0.05
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (356 bp):
TTATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGCGAATCTTATCTTCATGTATCGGCTA
TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAA
GTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAATTACAGGTCTTATCTCCATGTATCGGC
TATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGATTTAGCCAC
CAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAGATATCTTATATTCCTAAGG
TAGCAAAGAAGCAGACTGAAAATTACAGGTC
Found at i:6801304 original size:529 final size:529
Alignment explanation
Indices: 6800288--6801288 Score: 1419
Period size: 529 Copynumber: 1.9 Consensus size: 529
6800278 GTAACAAGCT
6800288 AAATTCACAGATTTTATCTCCATGTATCAACTATGGAGCAGATCGAAAAAGGCGAATCTTATCTC
1 AAATTCACAGATTTTATCTCCATGTATCAACTATGGAGCAGATCGAAAAAGGCGAATCTTATCTC
* * *
6800353 CATGTATTGGCTATGGAGCAGATTTCAGCCGCTAGCCTTATTTCTCTGAGATAGCAAGAGAGCAG
66 CATGTATCGGCTATGGAGCAGATTTCAGCCGCCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAG
6800418 GTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAGAAATTACAGGTCTTAT
131 GTT-AAGAT---A-TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAGAAATTACAGGTCTTAT
*
6800483 CTCCATGTACCGACATGGAGCAGATCGAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAG
191 CTCCATGTACCGACATGGAGCAGATCAAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAG
* * * *
6800548 CAGATTTCAGCTACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
256 CAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACAAGCCTT
* * * *
6800613 ATATTCCTAAGGTAGCAAAGAAGCAGACTGAAAATTACAGGTCTTGTCTCCATGTATCGGCTATG
321 ATATTCCTAAGGTAGCAAAGAAGCAGACTAAAAATTACAGATCTTATATCCATGTATCGGCTATG
* ** *
6800678 GAGGAGATCGAAAATGGCGAATCTTATCTTTATGTATCGGCTATGGAGCAGATTTTAGCCACCAG
386 GAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATCTTAGCCACCAG
* **
6800743 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
451 CATTATCTCTCTGAAATAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCA
6800808 AGGAAGCAGACTGA
516 AGGAAGCAGACTGA
* ** * * *
6800822 AAATT-ACAGGTTTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAATCTTTTCTT
1 AAATTCACAGATTTTATCTCCATGTATCAACTATGGAGCAGATCGAAAAAGGCGAATCTTATCTC
*
6800886 CATGTATCGGCTATGGAGCAGATTTCAGCCACCAGCCACCAGCCTTATCTCTCTGAGGTAGC-A-
66 CATGTATCGGCTATGGAGCAGATTTCAG---CC-G---CCAGCCTTATCTCTCTGAGATAGCAAG
*
6800949 AGAG-A-G-T-AGGT-TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-GAAAATTACAGGTCT
124 AGAGCAGGTTAAGATATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAG-AAATTACAGGTCT
* * *
6801008 TATCTCCATGTATCGGCTATGGAGCAGATCAAAAATGGTGAATCTGT-TCTTCATGTATCGGCTA
188 TATCTCCATGTACCGAC-ATGGAGCAGATCAAAAATGGTGAATCT-TATCTCCATGTATCGGCTA
*
6801072 TGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACAA
251 TGGAGCAGATTTCAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACAA
* * *
6801137 GCCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTACAGATCTTATATCCATGTATCGG
316 GCCTTATATTCCTAAGGTAGCAAAGAAGCAGACTAAAAATTACAGATCTTATATCCATGTATCGG
* * * * * *
6801202 TTATGGAGCAGATTGAAGATGGTGAGTCTTATCTCCATGTATTGGCTATGGAGCAGATCTTAGCC
381 CTATGGAGCAGATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATCTTAGCC
* *
6801267 ACCGGCATTATCTCTTTGAAAT
446 ACCAGCATTATCTCTCTGAAAT
6801289 TGCAGTGGAG
Statistics
Matches: 415, Mismatches: 42, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
527 1 0.00
528 61 0.15
529 232 0.56
530 1 0.00
533 83 0.20
534 5 0.01
535 1 0.00
536 3 0.01
537 2 0.00
538 4 0.01
539 1 0.00
540 21 0.05
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (529 bp):
AAATTCACAGATTTTATCTCCATGTATCAACTATGGAGCAGATCGAAAAAGGCGAATCTTATCTC
CATGTATCGGCTATGGAGCAGATTTCAGCCGCCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAG
GTTAAGATATCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAGAAATTACAGGTCTTATCTCCA
TGTACCGACATGGAGCAGATCAAAAATGGTGAATCTTATCTCCATGTATCGGCTATGGAGCAGAT
TTCAGCCACCAGCCTTATCTCTCTGAGGTAACAAGAGAGCAAGTTGAAGATACAAGCCTTATATT
CCTAAGGTAGCAAAGAAGCAGACTAAAAATTACAGATCTTATATCCATGTATCGGCTATGGAGCA
GATCGAAAATGGCGAATCTTATCTCCATGTATCGGCTATGGAGCAGATCTTAGCCACCAGCATTA
TCTCTCTGAAATAGCAAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAA
GCAGACTGA
Found at i:6808234 original size:23 final size:24
Alignment explanation
Indices: 6808184--6808240 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
6808174 AAATATAAAC
6808184 TTTAAATATTTGTAAGACATTAAT
1 TTTAAATATTTGTAAGACATTAAT
*
6808208 TTTAACTATTTGTAA-A-ATCTAAT
1 TTTAAATATTTGTAAGACAT-TAAT
6808231 TTTAATATAT
1 TTTAA-ATAT
6808241 AACTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.07
23 10 0.34
24 17 0.59
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (24 bp):
TTTAAATATTTGTAAGACATTAAT
Found at i:6808974 original size:16 final size:17
Alignment explanation
Indices: 6808953--6808986 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6808943 TGAAAAGTAA
*
6808953 TTAAAAT-TTAAGAAAG
1 TTAAAATATTAAAAAAG
6808969 TTAAAATATTAAAAAAG
1 TTAAAATATTAAAAAAG
6808986 T
1 T
6808987 CAATATGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (17 bp):
TTAAAATATTAAAAAAG
Found at i:6812919 original size:255 final size:255
Alignment explanation
Indices: 6812468--6812983 Score: 1005
Period size: 255 Copynumber: 2.0 Consensus size: 255
6812458 CAAGCTCAAC
*
6812468 ACTAATAAAGCTCTTTTGAGGCCTACATAGCTTGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
1 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
6812533 TACCACGGAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
66 TACCACGGAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
6812598 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
131 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
* *
6812663 TATTGTTAAAAATTGGTCCCTGTATGTCTACATAAGAGTACATGTGGCACGTCAAGTGTA
196 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
6812723 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
1 ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
6812788 TACCACGGAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
66 TACCACGGAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
6812853 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
131 AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
6812918 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
196 TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
6812978 ACTAAT
1 ACTAAT
6812984 TGGTTATTTC
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
255 258 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (255 bp):
ACTAATAAAGCTCTTTTGAGGCCTACATAGCATGCTACCTTAGTATTGCAATTTTTCGGTAAAAG
TACCACGGAGGCCTTTGTATTAGGAGTCGGATTGCATTTTGCTCCCTCAACTCAAAAAATGAGTA
AATTAGACCCTATACGTTAGACTAAAGAGCAAAGTAGTCCTTCTGTTATAAATTCTATCCATTTA
TATTGTTAAAAACTGGTCCCTGTATGTCTACATAAGAGTACATGAGGCACGTCAAGTGTA
Found at i:6815277 original size:24 final size:24
Alignment explanation
Indices: 6815246--6815303 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
6815236 TTTTAACCTG
6815246 TTTTGTTTTGGCTGGGGTTGTGCT
1 TTTTGTTTTGGCTGGGGTTGTGCT
6815270 TTTTGTTTTGGCTGGGGTTGTGCT
1 TTTTGTTTTGGCTGGGGTTGTGCT
6815294 TTTTGTTTTG
1 TTTTGTTTTG
6815304 AAAGTGGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.00, C:0.07, G:0.34, T:0.59
Consensus pattern (24 bp):
TTTTGTTTTGGCTGGGGTTGTGCT
Found at i:6816119 original size:29 final size:29
Alignment explanation
Indices: 6816082--6816147 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
6816072 ATTTCACGTG
6816082 TATAA-TTACAC-CAAATTAAAATTCATA
1 TATAATTTACACACAAATTAAAATTCATA
* * *
6816109 TATACATTTACACATTAAATTAAAGTTGATA
1 TATA-ATTTACACA-CAAATTAAAATTCATA
6816140 TATAATTT
1 TATAATTT
6816148 TGAGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.12
28 1 0.03
29 6 0.19
30 4 0.12
31 17 0.53
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (29 bp):
TATAATTTACACACAAATTAAAATTCATA
Found at i:6816940 original size:14 final size:14
Alignment explanation
Indices: 6816921--6816947 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6816911 GATATGGGGT
6816921 CTTGACTCTTGACC
1 CTTGACTCTTGACC
6816935 CTTGACTCTTGAC
1 CTTGACTCTTGAC
6816948 TGTTGCATAC
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:0.15, C:0.33, G:0.15, T:0.37
Consensus pattern (14 bp):
CTTGACTCTTGACC
Found at i:6821819 original size:18 final size:18
Alignment explanation
Indices: 6821783--6821824 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6821773 AATTCAAAAT
*
6821783 AATTTAATTTTTTTGTTA
1 AATTTAATTTTCTTGTTA
6821801 AATTTAATTTTACTT-TTA
1 AATTTAATTTT-CTTGTTA
*
6821819 ATTTTA
1 AATTTA
6821825 GAAATTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
AATTTAATTTTCTTGTTA
Found at i:6822900 original size:20 final size:20
Alignment explanation
Indices: 6822872--6822934 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 20
6822862 TCATGGAAAC
*
6822872 CTTTCGGGAATGCAATGTTT
1 CTTTGGGGAATGCAATGTTT
6822892 CTTTGGGGAGTGCAATGCAATGTTT
1 CTTT--GG-G-G-AATGCAATGTTT
*
6822917 CTTTGGGGAGTGCAATGT
1 CTTTGGGGAATGCAATGT
6822935 GTCACTCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 2 0.06
23 3 0.08
24 1 0.03
25 16 0.44
ACGTcount: A:0.19, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
CTTTGGGGAATGCAATGTTT
Found at i:6822914 original size:25 final size:25
Alignment explanation
Indices: 6822880--6822933 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
6822870 ACCTTTCGGG
6822880 AATGCAATGTTTCTTTGGGGAGTGC
1 AATGCAATGTTTCTTTGGGGAGTGC
6822905 AATGCAATGTTTCTTTGGGGAGTGC
1 AATGCAATGTTTCTTTGGGGAGTGC
6822930 AATG
1 AATG
6822934 TGTCACTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.31, T:0.35
Consensus pattern (25 bp):
AATGCAATGTTTCTTTGGGGAGTGC
Found at i:6824146 original size:49 final size:49
Alignment explanation
Indices: 6824087--6824184 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
6824077 TTATACATTA
* *
6824087 GCATAAGGTACACCTAACATGTCATATGCCACTGTCTGGTTATTCCGTC
1 GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
6824136 GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
1 GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
6824185 ACTCAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
GCATAAGGTACACCTAACATGTCATATGCCAATATCTGGTTATTCCGTC
Found at i:6830258 original size:13 final size:11
Alignment explanation
Indices: 6830222--6830252 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6830212 CCGCCCGTAT
6830222 TAATTTTTATA
1 TAATTTTTATA
*
6830233 TTATTTTTATA
1 TAATTTTTATA
6830244 TAATTTTTA
1 TAATTTTTA
6830253 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:6830408 original size:30 final size:30
Alignment explanation
Indices: 6830374--6830433 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
6830364 ACTTAACAAG
6830374 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
6830404 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
6830434 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:6831833 original size:13 final size:15
Alignment explanation
Indices: 6831808--6831846 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
6831798 CCAATATTTT
*
6831808 AATATTTTTAATAT-
1 AATATTTTAAATATG
6831822 AA-ATTTTAAATATG
1 AATATTTTAAATATG
6831836 AATATTTTAAA
1 AATATTTTAAA
6831847 AAATATGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 10 0.45
14 4 0.18
15 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
AATATTTTAAATATG
Found at i:6832390 original size:38 final size:38
Alignment explanation
Indices: 6832301--6832389 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
6832291 AAAAATTATA
* * * *
6832301 TTTAATACAATAAACCATTTATTATATTTATTTATGTT
1 TTTAATATAATAAAACATTTATTATATTTATATATATT
6832339 TTTAATATAATAAAACATTTATTATATTTATGATAGTATTT
1 TTTAATATAATAAAACATTTATTATATTTAT-ATA-TA-TT
6832380 TTTAATATAA
1 TTTAATATAA
6832390 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.66
39 2 0.05
40 1 0.02
41 12 0.27
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.52
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATATTTATATATATT
Found at i:6833203 original size:22 final size:24
Alignment explanation
Indices: 6833178--6833228 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
6833168 AGGCAAGACT
6833178 TAAATTTC-AAAA-ATATATGGAC
1 TAAATTTCTAAAATATATATGGAC
* *
6833200 TAAAATTCTAAAATGTATATGGAC
1 TAAATTTCTAAAATATATATGGAC
6833224 TAAAT
1 TAAAT
6833229 CCATAACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 4 0.17
24 13 0.54
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (24 bp):
TAAATTTCTAAAATATATATGGAC
Found at i:6838412 original size:114 final size:114
Alignment explanation
Indices: 6838212--6838442 Score: 444
Period size: 114 Copynumber: 2.0 Consensus size: 114
6838202 TATAATTCTT
6838212 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
1 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
*
6838277 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATGAAGTTATTAG
66 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATAAAGTTATTAG
*
6838326 AATTTGCATGTTTTGTTTGTACAATTTCATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
1 AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
6838391 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATAAAGTTATTAG
66 TTATGATAAAAAATTATATTATTTATAAGGAGGACTATAAAGTTATTAG
6838440 AAT
1 AAT
6838443 AATTATAAAA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (114 bp):
AATTTGCATGTTTTGTTTGTACAATTTAATATATCTAGATTTATGGGTTTGTACAATTTCTAAAG
TTATGATAAAAAATTATATTATTTATAAGGAGGACTATAAAGTTATTAG
Found at i:6839194 original size:16 final size:16
Alignment explanation
Indices: 6839173--6839215 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
6839163 TTTTAGAAAA
6839173 TTTTTAAATTTATAAT
1 TTTTTAAATTTATAAT
**
6839189 TTTTTAAAAATATAAT
1 TTTTTAAATTTATAAT
* *
6839205 TGTTGAAATTT
1 TTTTTAAATTT
6839216 TTATAAATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
TTTTTAAATTTATAAT
Found at i:6844886 original size:61 final size:61
Alignment explanation
Indices: 6844811--6844943 Score: 212
Period size: 61 Copynumber: 2.2 Consensus size: 61
6844801 ATCAATCGAG
* *
6844811 ACTATTAGTAATAGAGATGTATCTATTTATCATTAGAGTAAGCTACACCCAAAGTCACTAA
1 ACTATTAGTAATAGAAATGCATCTATTTATCATTAGAGTAAGCTACACCCAAAGTCACTAA
* * * *
6844872 ACTATTAGTAATAGAAATGCATCTATTTATTATTAGAGTAAGCTACACTCAAGGTCATTAA
1 ACTATTAGTAATAGAAATGCATCTATTTATCATTAGAGTAAGCTACACCCAAAGTCACTAA
6844933 ACTATTAGTAA
1 ACTATTAGTAA
6844944 GTTTACATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (61 bp):
ACTATTAGTAATAGAAATGCATCTATTTATCATTAGAGTAAGCTACACCCAAAGTCACTAA
Found at i:6851657 original size:16 final size:16
Alignment explanation
Indices: 6851624--6851679 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 16
6851614 GCAATATATG
*
6851624 TATAAACAATTTA-AAA
1 TATAAA-AATTTATTAA
6851640 TATAAAAATTTATTAATA
1 TATAAAAATTTATT-A-A
6851658 TATATATAAATTTATTAA
1 TATA-A-AAATTTATTAA
6851676 TATA
1 TATA
6851680 TGTAAAAACA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 6 0.18
16 6 0.18
17 1 0.03
18 10 0.29
19 2 0.06
20 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAAAATTTATTAA
Found at i:6851668 original size:20 final size:20
Alignment explanation
Indices: 6851639--6851687 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
6851629 ACAATTTAAA
6851639 ATATAAAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
6851659 ATATATAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
6851679 ATGTAAAAA
1 ATATAAAAA
6851688 CAACTTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATATAAAAATTTATTAATAT
Found at i:6851803 original size:20 final size:20
Alignment explanation
Indices: 6851778--6851815 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6851768 ATATTTTCAA
*
6851778 TAAATCATTTTCTAGAAAAG
1 TAAATCATTTTCCAGAAAAG
6851798 TAAATCATTTTCCAGAAA
1 TAAATCATTTTCCAGAAA
6851816 TCATTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (20 bp):
TAAATCATTTTCCAGAAAAG
Found at i:6851835 original size:14 final size:14
Alignment explanation
Indices: 6851799--6851836 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6851789 CTAGAAAAGT
*
6851799 AAATCATTTTCCAG
1 AAATCATTTTCCAA
6851813 AAATCATTTTCCGAA
1 AAATCATTTTCC-AA
6851828 AAAT-ATTTT
1 AAATCATTTT
6851837 ACTGACAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:6852993 original size:23 final size:22
Alignment explanation
Indices: 6852967--6853012 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
6852957 AATAGATACC
6852967 TAATA-ATATTAAAATATACATAA
1 TAATATATA-TAAAATATA-ATAA
6852990 TAATATATATAAAATATAATAA
1 TAATATATATAAAATATAATAA
6853012 T
1 T
6853013 TAAAACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 14 0.64
24 3 0.14
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATATATATAAAATATAATAA
Found at i:6853469 original size:24 final size:25
Alignment explanation
Indices: 6853442--6853504 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
6853432 ATAATAATGA
*
6853442 TAATAATAACAATATTAATGATA-T
1 TAATAATAACAATAATAATGATATT
* *
6853466 TAATAATTCAAAAATAATGATGATATT
1 TAATAA-T-AACAATAATAATGATATT
*
6853493 TAATAAAAACAA
1 TAATAATAACAA
6853505 CAAAAGAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.19
25 5 0.16
26 13 0.42
27 7 0.23
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (25 bp):
TAATAATAACAATAATAATGATATT
Done.