Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 356 of 427
Found at i:103549358 original size:50 final size:51
Alignment explanation
Indices: 103549253--103549380 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
103549243 ACTGATCAGG
* * * * * *
103549253 TAGCTGAAGCTACCACTTTTCAGTTGTCATTTGCCATTGATCAGATAAGTG
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGTA
103549304 TAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTGATCAGATAAGTA
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAGATAAGTA
103549354 TAGCCGAAGCTATCACTTATCACTTGT
1 TAGCCGAAGCTATCACTTATCACTTGT
103549381 TTCCATGGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
TAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGTA
Found at i:103551731 original size:8 final size:8
Alignment explanation
Indices: 103551714--103551746 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
103551704 GAATCAAGAA
103551714 TTTT-TTT
1 TTTTATTT
103551721 TTTTATTT
1 TTTTATTT
103551729 TTTTATTTT
1 TTTTA-TTT
103551738 TTTTATTT
1 TTTTATTT
103551746 T
1 T
103551747 CCGGACTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.17
8 12 0.50
9 8 0.33
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTATTT
Found at i:103551731 original size:9 final size:9
Alignment explanation
Indices: 103551717--103551746 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
103551707 TCAAGAATTT
103551717 TTTTTTTTA
1 TTTTTTTTA
103551726 -TTTTTTTA
1 TTTTTTTTA
103551734 TTTTTTTTA
1 TTTTTTTTA
103551743 TTTT
1 TTTT
103551747 CCGGACTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:103553796 original size:7 final size:7
Alignment explanation
Indices: 103553784--103553812 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
103553774 TATACAGAAA
103553784 TCACTTG
1 TCACTTG
103553791 TCACTTG
1 TCACTTG
103553798 TCACTTG
1 TCACTTG
103553805 TCACTTG
1 TCACTTG
103553812 T
1 T
103553813 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:103553846 original size:31 final size:31
Alignment explanation
Indices: 103553811--103554018 Score: 260
Period size: 31 Copynumber: 6.7 Consensus size: 31
103553801 CTTGTCACTT
*
103553811 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**** *
103553842 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
103553873 GTAGCC-GGGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
103553903 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
103553934 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCA-AAGCTACCACTTTTCACTGATCAG
*
103553965 GTAGCTGAAA-CTACCACTTTTCACTGATCAG
1 GTAGC-CAAAGCTACCACTTTTCACTGATCAG
**
103553996 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
103554019 GTTGTCATTT
Statistics
Matches: 155, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
30 31 0.20
31 121 0.78
32 2 0.01
33 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:103553968 original size:62 final size:62
Alignment explanation
Indices: 103553818--103554018 Score: 305
Period size: 62 Copynumber: 3.3 Consensus size: 62
103553808 CTTGTAGCCA
* ** * *
103553818 AAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAGCAG
* * *
103553880 -GGCTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCACTGATTAGGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAGCAG
* *
103553941 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTAGCTG
1 AAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAGCAG
103554003 AAGCTACCACTTTTCA
1 AAGCTACCACTTTTCA
103554019 GTTGTCATTT
Statistics
Matches: 125, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
61 53 0.42
62 72 0.58
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAGGTAGCAG
Found at i:103554102 original size:50 final size:51
Alignment explanation
Indices: 103553997--103554124 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
103553987 ACTGATCAGG
* * * * * *
103553997 TAGCTGAAGCTACCACTTTTCAGTTGTCATTTGCCATTGATCAGATAAGTG
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGTA
103554048 TAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTGATCAGATAAGTA
1 TAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAGATAAGTA
103554098 TAGCCGAAGCTATCACTTATCACTTGT
1 TAGCCGAAGCTATCACTTATCACTTGT
103554125 TTCCATGGTC
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
TAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGTA
Found at i:103559103 original size:5 final size:6
Alignment explanation
Indices: 103559091--103559116 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
103559081 AGACTTAGTA
103559091 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
103559117 GGTTCGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:103562752 original size:25 final size:24
Alignment explanation
Indices: 103562719--103562766 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
103562709 ATTAAAATAT
* *
103562719 AAAGATTAAAATTTAAATTTAAAC
1 AAAGATTAAAATTGAAATATAAAC
103562743 AAAGAATTAAAATTGAAATATAAA
1 AAAG-ATTAAAATTGAAATATAAA
103562767 TCGGGTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (24 bp):
AAAGATTAAAATTGAAATATAAAC
Found at i:103567060 original size:31 final size:31
Alignment explanation
Indices: 103567020--103567087 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
103567010 TAATAATCTG
* *
103567020 ATAACTTAAATAAAAACTTTCGAATGGTTCA
1 ATAACTTAAATAAAAACTTTCAAATAGTTCA
* * * *
103567051 ATAATTTAAATGAAAATTTTTAAATAGTTCA
1 ATAACTTAAATAAAAACTTTCAAATAGTTCA
103567082 ATAACT
1 ATAACT
103567088 ATTAAAGTTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (31 bp):
ATAACTTAAATAAAAACTTTCAAATAGTTCA
Found at i:103567623 original size:24 final size:24
Alignment explanation
Indices: 103567587--103567635 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
103567577 AAATTAGAAG
103567587 AATATGTTAATTTTAAAAGTAATTA
1 AATATGTTAATTTTAAAA-TAATTA
*
103567612 AATAT-TTTATTTTAAAATAATTA
1 AATATGTTAATTTTAAAATAATTA
103567635 A
1 A
103567636 TTGAAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.30
24 11 0.48
25 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
AATATGTTAATTTTAAAATAATTA
Found at i:103567704 original size:22 final size:23
Alignment explanation
Indices: 103567679--103567723 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
103567669 ATTATATACA
*
103567679 TATTGTAGATAAAAAAT-ATAAT
1 TATTGTACATAAAAAATAATAAT
* *
103567701 TATTTTACATATAAAATAATAAT
1 TATTGTACATAAAAAATAATAAT
103567724 ATTTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (23 bp):
TATTGTACATAAAAAATAATAAT
Found at i:103567732 original size:20 final size:22
Alignment explanation
Indices: 103567691--103567734 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
103567681 TTGTAGATAA
103567691 AAAATATAATTATTTTACATAT
1 AAAATATAATTATTTTACATAT
103567713 AAAATAATAA-TA-TTTA-ATAT
1 AAAAT-ATAATTATTTTACATAT
103567733 AA
1 AA
103567735 TTATTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 4 0.19
22 7 0.33
23 4 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATAATTATTTTACATAT
Found at i:103568005 original size:31 final size:32
Alignment explanation
Indices: 103567945--103568005 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
103567935 AATAAAAGTG
* *
103567945 TTATTAATTAAAAAAATTTGAAAATAATATAT
1 TTATTAATTAAAAAAACTTGAAAACAATATAT
103567977 TTATTAATTAAAAAAACTTG-AAACAATAT
1 TTATTAATTAAAAAAACTTGAAAACAATAT
103568006 GAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (32 bp):
TTATTAATTAAAAAAACTTGAAAACAATATAT
Found at i:103569083 original size:19 final size:21
Alignment explanation
Indices: 103569029--103569073 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
103569019 TTATGGTACT
103569029 TTTATCACACTTAGTATCATA
1 TTTATCACACTTAGTATCATA
103569050 TTTATCACACTTAGTATCATA
1 TTTATCACACTTAGTATCATA
103569071 TTT
1 TTT
103569074 TTAACTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTATCACACTTAGTATCATA
Found at i:103569674 original size:23 final size:22
Alignment explanation
Indices: 103569648--103569691 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
103569638 GATAAATAAA
103569648 ATATAAATTTATAAAAAATTATG
1 ATATAAATTTA-AAAAAATTATG
* *
103569671 ATATATATTTAAAAAACTTAT
1 ATATAAATTTAAAAAAATTAT
103569692 AATCTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATAAATTTAAAAAAATTATG
Found at i:103569704 original size:21 final size:21
Alignment explanation
Indices: 103569657--103569704 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
103569647 AATATAAATT
*
103569657 TATAAAAAATTATGATATATA
1 TATAAAAAATTATAATATATA
* *
103569678 TTTAAAAAACTTATAATCT-TA
1 TATAAAAAA-TTATAATATATA
103569699 TATAAA
1 TATAAA
103569705 TATATAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAAAAAATTATAATATATA
Found at i:103576721 original size:42 final size:42
Alignment explanation
Indices: 103576655--103576738 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
103576645 GCTATGCATC
* *
103576655 GTAACGAGTGGGTGGGAAACGCTGACCGCTGGGTTGCCGGAT
1 GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT
* * * *
103576697 GTAATGAGTTGGTGGAAAATGCTGATCGCTGGCTTGCCGGAT
1 GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT
103576739 TTCTTGAGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.20, C:0.17, G:0.39, T:0.24
Consensus pattern (42 bp):
GTAACGAGTGGGTGGAAAACGCTGACCGCTGGCTTGCCGGAT
Found at i:103577080 original size:12 final size:12
Alignment explanation
Indices: 103577042--103577087 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
103577032 TATGACCAGA
103577042 AAGACAGAAAAA-
1 AAGA-AGAAAAAG
*
103577054 ATGAA-AAAAAGG
1 AAGAAGAAAAA-G
103577066 AAGAAGAAAAAG
1 AAGAAGAAAAAG
103577078 AAGAAGAAAA
1 AAGAAGAAAA
103577088 CAAACAAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 5 0.17
11 1 0.03
12 18 0.62
13 5 0.17
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:103579017 original size:18 final size:18
Alignment explanation
Indices: 103578996--103579044 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
103578986 TCTTTTAGCC
103578996 TTAATTTTTTTAAAATTT
1 TTAATTTTTTTAAAATTT
* *
103579014 TTAACTTTTATAAAATTT
1 TTAATTTTTTTAAAATTT
103579032 TATAATTTTTTTA
1 T-TAATTTTTTTA
103579045 TTATCCTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATTTTTTTAAAATTT
Found at i:103583380 original size:174 final size:173
Alignment explanation
Indices: 103583075--103583424 Score: 565
Period size: 174 Copynumber: 2.0 Consensus size: 173
103583065 TTTCAGTTCT
*
103583075 TTTATAGTGTTCATCGGTAATATAAAGCATGTGAAATGTGAAATTTACAAGTTAAGAAATAGGAG
1 TTTACAGTGTTCATCGGTAATATAAAGCATGTGAAATGTGAAATTTACAAGTTAAGAAATAGGAG
* * * ** *
103583140 AATATGAAAGAATTAATTTCAATAATGAGAGTCTGCATCAACAACAGGGTTGAGATTGGATTAGA
66 AAAATCAAAGAATTAATTTCAATAATGAGAATCCACATCAACAACAGGGTTGAGATTAGATTAGA
* * * *
103583205 TATGAAGAAGGGCATTGTATTAAGTTGCTTACTTAGGATATCA
131 TATGAAGAAAGGCATTGTATTAAATTGCTTACTCAAGATATCA
*
103583248 TTTACAGTGTTCATCGGGTAATATAAAGCATGTGAAATGTGAAATTTACAATTTAAGAAATAGGA
1 TTTACAGTGTTCATC-GGTAATATAAAGCATGTGAAATGTGAAATTTACAAGTTAAGAAATAGGA
* *
103583313 GAAAATCAAAGAATTAATTTCTATAATGAGAATCCACATCAACAATAGGGTTGAGATTAGATTAG
65 GAAAATCAAAGAATTAATTTCAATAATGAGAATCCACATCAACAACAGGGTTGAGATTAGATTAG
103583378 ATATGAAGAAAGGCATTGTATTAAATTGCTTACTCAAGATATCA
130 ATATGAAGAAAGGCATTGTATTAAATTGCTTACTCAAGATATCA
103583422 TTT
1 TTT
103583425 GTAATGAAAT
Statistics
Matches: 162, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
173 14 0.09
174 148 0.91
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (173 bp):
TTTACAGTGTTCATCGGTAATATAAAGCATGTGAAATGTGAAATTTACAAGTTAAGAAATAGGAG
AAAATCAAAGAATTAATTTCAATAATGAGAATCCACATCAACAACAGGGTTGAGATTAGATTAGA
TATGAAGAAAGGCATTGTATTAAATTGCTTACTCAAGATATCA
Found at i:103585718 original size:46 final size:46
Alignment explanation
Indices: 103585648--103585745 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
103585638 TTTTGCCCAT
* * *
103585648 TGTTGTCTCAATTGTTGTTACTCTTGAGAATGCATAAGGGCTAATG
1 TGTTGTCTCAATTATTGTTACTCTTGAGAATGCATAAGGGCCAATC
* * *
103585694 TGTTGTCTCTATTATTGTTGCTCTTGAGAATTCATAAGGGCCAATC
1 TGTTGTCTCAATTATTGTTACTCTTGAGAATGCATAAGGGCCAATC
103585740 TGTTGT
1 TGTTGT
103585746 TAGTTGGAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.42
Consensus pattern (46 bp):
TGTTGTCTCAATTATTGTTACTCTTGAGAATGCATAAGGGCCAATC
Found at i:103589052 original size:20 final size:19
Alignment explanation
Indices: 103588990--103589076 Score: 52
Period size: 20 Copynumber: 4.4 Consensus size: 19
103588980 CACTAAAAGA
*
103588990 TATAAAAAA-TAGAAATAAA
1 TATAAAAAATTAGAAA-AAT
* *
103589009 TATATAAAAATT-TATAAAT
1 TATA-AAAAATTAGAAAAAT
103589028 ATATAAAAAATCTAGAAAAAT
1 -TATAAAAAAT-TAGAAAAAT
** * *
103589049 TATATGAATTGTAAAAAAAT
1 TATAAAAAAT-TAGAAAAAT
103589069 TATAAAAA
1 TATAAAAA
103589077 TCAAATTTAC
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
19 12 0.24
20 33 0.65
21 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (19 bp):
TATAAAAAATTAGAAAAAT
Found at i:103589075 original size:29 final size:29
Alignment explanation
Indices: 103589006--103589077 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
103588996 AAATAGAAAT
103589006 AAATATATAAAAATTTATAAATATATAAA
1 AAATATATAAAAATTTATAAATATATAAA
* * * *
103589035 AAATCTAGAAAAATTATATGAAT-TGTAAA
1 AAATATATAAAAATT-TATAAATATATAAA
103589064 AAA-ATTATAAAAAT
1 AAATA-TATAAAAAT
103589078 CAAATTTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 29 0.83
30 6 0.17
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (29 bp):
AAATATATAAAAATTTATAAATATATAAA
Found at i:103589553 original size:28 final size:27
Alignment explanation
Indices: 103589496--103589550 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
103589486 TTTAATATTA
**
103589496 TAATATTTTTATTTTAAAATTTTAAAAT
1 TAATATTTTTATTTTAAAAACTT-AAAT
103589524 TAATATTTTTATTTTAAATAAACTTAA
1 TAATATTTTTATTTT-AA-AAACTTAA
103589551 TTACCACCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 15 0.65
29 4 0.17
30 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
TAATATTTTTATTTTAAAAACTTAAAT
Found at i:103589798 original size:21 final size:22
Alignment explanation
Indices: 103589769--103589810 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
103589759 ATTTCAAGAA
*
103589769 TTTTAAAAATACAATG-ATTAT
1 TTTTAAAAATAAAATGTATTAT
*
103589790 TTTTTAAAATAAAATGTATTA
1 TTTTAAAAATAAAATGTATTA
103589811 ACATTATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTTAAAAATAAAATGTATTAT
Found at i:103591031 original size:15 final size:15
Alignment explanation
Indices: 103591007--103591036 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103590997 TAGTTGGTCA
*
103591007 AAATATATTTATTTT
1 AAATAAATTTATTTT
103591022 AAATAAATTTATTTT
1 AAATAAATTTATTTT
103591037 TCGTGTGACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AAATAAATTTATTTT
Found at i:103591385 original size:28 final size:25
Alignment explanation
Indices: 103591327--103591387 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
103591317 ATATGGTTTT
*
103591327 AAATAGTATTTTATAAACTAAAATA
1 AAATAATATTTTATAAACTAAAATA
* *
103591352 ATATAATATTATTAATAAACTAACATTA
1 AAATAATATT-TT-ATAAACTAA-AATA
103591380 AAATAATA
1 AAATAATA
103591388 AAATTATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 8 0.28
26 2 0.07
27 9 0.31
28 10 0.34
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (25 bp):
AAATAATATTTTATAAACTAAAATA
Found at i:103594596 original size:141 final size:139
Alignment explanation
Indices: 103594244--103595058 Score: 858
Period size: 140 Copynumber: 6.0 Consensus size: 139
103594234 TACAACAAAA
* * * * *
103594244 CAGTCCTAAGACAACATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAC-TGATCAACAGA
1 CAGTCCTAAGACGACA-CTTTGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTG-CCAACATA
*
103594308 CGCTTTGGCCAACTCTTGGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAG
64 CGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAG
103594373 TTGGCTTTATC
129 TTGGCTTTATC
* * *
103594384 TAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATAC
1 CAGTCCTAAGACGACAC-TTTGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * *
103594449 GCTTTGGTCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGTAATGCTTAAATAAGAGT
65 GCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
* *
103594514 TGGCTTTTGTG
130 TGGC-TTTATC
* * * * *
103594525 TAGTCCTAAGACGACACTTCTGGGGCTACACGTTCCTAAGTGTTAGGATAAACTTGTCAACATAC
1 CAGTCCTAAGACGACACTT-TGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * *
103594590 GTTTTGGCCAACTATTTGTATAAGGGCTGGGGTATGCATGCCTAAGGCAACGCTTAAATAAGAGT
65 GCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
103594655 TGGCTTTTTC
130 TGGCTTTATC
* *
103594665 CAGCCCTAAGACGACA---------T----TTTCCTAAGTGTTGGGATAGACTTGCCGACATACG
1 CAGTCCTAAGACGACACTTTGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACG
* * * * * *
103594717 CTTTGGTCAACTTTTTGTATAAGGGTTGGAATATGAATGCTTAAGGCAACGCTTAAATAAGAGTC
66 CTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTT
*
103594782 GACTTTATC
131 GGCTTTATC
* * * * * * *
103594791 CA-ACACTATGCCTACACTTTTGGGCTGACATTTTCCTAAGTGTTGGGATAGACTTGCTAACATA
1 CAGTC-CTAAGACGACACTTTGGGGCT-ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATA
* *
103594855 CACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTCAATAAGAG
64 CGCTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAG
* *
103594920 TCGG-ATT-T-
129 TTGGCTTTATC
* * * * * * *
103594928 --GTCC----A--ACAGTAT--GCCAACACTTTTCTAAGTGTTGGGATAGACTTGTCAACATATG
1 CAGTCCTAAGACGACACTTTGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACG
* * **
103594983 CTTTGGCCAACTCTTTGTATAAAGGTTGGTATATGCATGCCTAAGGCAATACTTAAATAAGAGTT
66 CTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTT
*
103595048 GGCTTTGTC
131 GGCTTTATC
103595057 CA
1 CA
103595059 ATAGTATGTC
Statistics
Matches: 571, Mismatches: 79, Indels: 59
0.81 0.11 0.08
Matches are distributed among these distances:
125 1 0.00
126 197 0.35
127 4 0.01
128 1 0.00
129 5 0.01
130 1 0.00
135 2 0.00
136 1 0.00
138 1 0.00
139 2 0.00
140 231 0.40
141 125 0.22
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (139 bp):
CAGTCCTAAGACGACACTTTGGGGCTACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACG
CTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTT
GGCTTTATC
Found at i:103594958 original size:266 final size:267
Alignment explanation
Indices: 103594248--103595046 Score: 818
Period size: 266 Copynumber: 2.9 Consensus size: 267
103594238 ACAAAACAGT
* * * * * * * * *
103594248 CCTAAGACAACATTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGAC-TGATCAACAGACGCT
1 CCTAAGACGACACTTCTGGGGCTACACGTTCCTAAGTGTTAGGATAAACTTG-TCAACATACACT
* * * *
103594312 TTGGCCAACTCTTGGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGG
65 TTGGCCAACTATTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGG
* ** * * * *
103594377 CTTTATCTAGTCCTAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCC
130 ----AT-TTGTCC----A--ACAC---TAAGACAACACTTTTCTAAGTGTTGGGATAGACTTGCC
* * *
103594442 AACATACGCTTTGGTCAACTCTTTGTATAAGGGTTGGGATATGTATGCCTAAGGTAATGCTTAAA
181 AACATACGCTTTGGTCAACTCTTTGTATAAGGGTTGGAATATGAATGCCTAAGGCAATGCTTAAA
* * * ** *
103594507 TAAGAGTTGGCTTTTGTGTAGT
246 TAAGAGTCGACTTTTATCCAGA
**
103594529 CCTAAGACGACACTTCTGGGGCTACACGTTCCTAAGTGTTAGGATAAACTTGTCAACATACGTTT
1 CCTAAGACGACACTTCTGGGGCTACACGTTCCTAAGTGTTAGGATAAACTTGTCAACATACACTT
* * *
103594594 TGGCCAACTATTTGTATAAGGGCTGGGGTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
66 TGGCCAACTATTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGA
* * * * *
103594659 TTTTTCCAGCCCTAAGACGACA-TTTTCCTAAGTGTTGGGATAGACTTGCCGACATACGCTTTGG
131 TTTGTCCAACACTAAGACAACACTTTT-CTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGG
* * *
103594723 TCAACTTTTTGTATAAGGGTTGGAATATGAATGCTTAAGGCAACGCTTAAATAAGAGTCGAC-TT
195 TCAACTCTTTGTATAAGGGTTGGAATATGAATGCCTAAGGCAATGCTTAAATAAGAGTCGACTTT
103594787 TATCCA-A
260 TATCCAGA
* * * * ** * *
103594794 CACTATGCCTACACTT-TTGGGCTGACATTTTCCTAAGTGTTGGGATAGACTTG-CTAACATACA
1 C-CTAAGACGACACTTCTGGGGCT-ACACGTTCCTAAGTGTTAGGATAAACTTGTC-AACATACA
* * *
103594857 CTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTCAATAAGAGTC
63 CTTTGGCCAACTATTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTC
* * * * *
103594922 GGATTTGTCCAACAGTATGCCAACACTTTTCTAAGTGTTGGGATAGACTTGTCAACATATGCTTT
128 GGATTTGTCCAACACTAAGACAACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTT
* * * * *
103594987 GGCCAACTCTTTGTATAAAGGTTGGTATATGCATGCCTAAGGCAATACTTAAATAAGAGT
193 GGTCAACTCTTTGTATAAGGGTTGGAATATGAATGCCTAAGGCAATGCTTAAATAAGAGT
103595047 TGGCTTTGTC
Statistics
Matches: 442, Mismatches: 70, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
265 8 0.02
266 211 0.48
267 100 0.23
270 2 0.00
272 1 0.00
276 4 0.01
277 1 0.00
281 113 0.26
282 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (267 bp):
CCTAAGACGACACTTCTGGGGCTACACGTTCCTAAGTGTTAGGATAAACTTGTCAACATACACTT
TGGCCAACTATTTGTATAAGGGCTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGA
TTTGTCCAACACTAAGACAACACTTTTCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGT
CAACTCTTTGTATAAGGGTTGGAATATGAATGCCTAAGGCAATGCTTAAATAAGAGTCGACTTTT
ATCCAGA
Found at i:103595055 original size:126 final size:127
Alignment explanation
Indices: 103594821--103595066 Score: 379
Period size: 126 Copynumber: 1.9 Consensus size: 127
103594811 TGGGCTGACA
*
103594821 TTTTCCTAAGTGTTGGGATAGACTTGCTAACATACACTTTGGCCAACTCTTTGTATAAGGGTTGG
1 TTTTCCTAAGTGTTGGGATAGACTTGCTAACATACACTTTGGCCAACTCTTTGTATAAAGGTTGG
* *
103594886 GATATGCATGCCTAAGGCAACGCTTCAATAAGAGTCGGATTTGTCCAACAGTATGCCAACAC
66 GATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCCAACAGTATGCCAACAC
**
103594948 TTTT-CTAAGTGTTGGGATAGACTTG-TCAACATATGCTTTGGCCAACTCTTTGTATAAAGGTTG
1 TTTTCCTAAGTGTTGGGATAGACTTGCT-AACATACACTTTGGCCAACTCTTTGTATAAAGGTTG
* * * * *
103595011 GTATATGCATGCCTAAGGCAATACTTAAATAAGAGTTGGCTTTGTCCAATAGTATG
65 GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCCAACAGTATG
103595067 TCTAAGGCAA
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
125 1 0.01
126 103 0.95
127 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (127 bp):
TTTTCCTAAGTGTTGGGATAGACTTGCTAACATACACTTTGGCCAACTCTTTGTATAAAGGTTGG
GATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGATTTGTCCAACAGTATGCCAACAC
Found at i:103601357 original size:18 final size:18
Alignment explanation
Indices: 103601323--103601526 Score: 115
Period size: 18 Copynumber: 10.9 Consensus size: 18
103601313 TTATTAACAA
* *
103601323 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
103601340 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
103601358 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
103601376 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
103601394 TCAGTATCGATCAATTGATTGGTTAT
1 TCAGTA---A-CAA-TCA---GTTAT
* * *
103601420 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
**
103601438 TCAGTAA-AATCAAATAT
1 TCAGTAACAATCAGTTAT
*
103601455 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
** *
103601474 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
103601492 TCAGTAATATTCAGCTAT
1 TCAGTAACAATCAGTTAT
*
103601510 TCAGTAATAATCAGTTA
1 TCAGTAACAATCAGTTA
103601527 CTCGGACCTA
Statistics
Matches: 141, Mismatches: 35, Indels: 21
0.72 0.18 0.11
Matches are distributed among these distances:
17 19 0.13
18 90 0.64
19 13 0.09
21 3 0.02
22 4 0.03
23 2 0.01
26 10 0.07
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:103601376 original size:36 final size:36
Alignment explanation
Indices: 103601323--103601522 Score: 134
Period size: 36 Copynumber: 5.4 Consensus size: 36
103601313 TTATTAACAA
* *
103601323 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
103601358 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
103601394 TCAGTATCGATCAATTGATTGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* * *
103601438 TCAGTAA-AATCAAATATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAAC-AGTCAGTTAT
** * * *
103601474 TCAGTAATGATCAATTATTCAGTAATATTCAGCTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
*
103601510 TCAGTAATAATCA
1 TCAGTAACAATCA
103601523 GTTACTCGGA
Statistics
Matches: 127, Mismatches: 27, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
35 10 0.08
36 73 0.57
37 17 0.13
42 2 0.02
43 7 0.06
44 18 0.14
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:103601438 original size:80 final size:80
Alignment explanation
Indices: 103601336--103601489 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 80
103601326 GAACAATTAT
* * * * * *
103601336 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTATTCAATAATAA-CCAGTTATTCAGT-
1 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAAATATTCAATAACAATCAAGTTATTCAGTA
103601399 ATCGATCAATTGATTGG
65 AT-GATCAATTGATTGG
* *
103601416 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACAATTAAGTTATTCAGTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAATAACAATCAAGTTATTCAGTAA
103601481 TGATCAATT
66 TGATCAATT
103601490 ATTCAGTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 17 0.27
80 45 0.70
81 2 0.03
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (80 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAATAACAATCAAGTTATTCAGTAA
TGATCAATTGATTGG
Found at i:103601660 original size:53 final size:53
Alignment explanation
Indices: 103601601--103601721 Score: 152
Period size: 53 Copynumber: 2.3 Consensus size: 53
103601591 CCGAAGCCGG
* * * *
103601601 AACAGTAACAATAGCAGTACGGTATACAGAGTACCTCATCAGAACAAATCTGA
1 AACAGTAACAATAACAGTACCGTACACAGAGTACCTCATCAGAACAAATCCGA
* * * * *
103601654 AACAGTAACAGTAACATTACCGTACCCAGAGTATCTCATCGGAACAAATCCGA
1 AACAGTAACAATAACAGTACCGTACACAGAGTACCTCATCAGAACAAATCCGA
*
103601707 AACAGTAACAGTAAC
1 AACAGTAACAATAAC
103601722 GGTAACAGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 59 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (53 bp):
AACAGTAACAATAACAGTACCGTACACAGAGTACCTCATCAGAACAAATCCGA
Found at i:103601777 original size:6 final size:6
Alignment explanation
Indices: 103601762--103601795 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
103601752 TGCCGAATCG
*
103601762 GTAACA GTAACG GTAACA GTAACTA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAAC-A GTAACA GTA
103601796 TTCGGCACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:103602474 original size:9 final size:9
Alignment explanation
Indices: 103602456--103602490 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
103602446 TTTCTTTTTC
*
103602456 ATTTCTTTT
1 ATTTCATTT
103602465 ATTTCATTT
1 ATTTCATTT
103602474 ATTTC-TTT
1 ATTTCATTT
103602482 ATTTCATTT
1 ATTTCATTT
103602491 CTTTATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:103602482 original size:17 final size:18
Alignment explanation
Indices: 103602456--103602502 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
103602446 TTTCTTTTTC
103602456 ATTTCTTTTATTTCATTT
1 ATTTCTTTTATTTCATTT
103602474 ATTTC-TTTATTTCATTT
1 ATTTCTTTTATTTCATTT
* *
103602491 CTTTATTTTATT
1 ATTTCTTTTATT
103602503 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTCTTTTATTTCATTT
Found at i:103602492 original size:13 final size:13
Alignment explanation
Indices: 103602456--103602498 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
103602446 TTTCTTTTTC
* *
103602456 ATTTCTTTTATTT
1 ATTTCATTTCTTT
103602469 CATTT-ATTTCTTT
1 -ATTTCATTTCTTT
103602482 ATTTCATTTCTTT
1 ATTTCATTTCTTT
103602495 ATTT
1 ATTT
103602499 TATTATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCATTTCTTT
Found at i:103605373 original size:21 final size:21
Alignment explanation
Indices: 103605314--103605374 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
103605304 GATTATATGA
* * *
103605314 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
103605335 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
103605356 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
103605375 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:103605619 original size:26 final size:23
Alignment explanation
Indices: 103605562--103605608 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 23
103605552 TTCGACAATA
103605562 AATAAATAAAAAAATATGAATTG
1 AATAAATAAAAAAATATGAATTG
103605585 AATAAAATAAAATAAATTATGAAT
1 AAT-AAATAAAA-AAA-TATGAAT
103605609 ATGTGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 3 0.14
24 8 0.38
25 3 0.14
26 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (23 bp):
AATAAATAAAAAAATATGAATTG
Found at i:103606235 original size:45 final size:45
Alignment explanation
Indices: 103606182--103606317 Score: 193
Period size: 45 Copynumber: 3.0 Consensus size: 45
103606172 TACTGTTATA
* *
103606182 GATTCGGCACTTTGTTTGTCGAATATTGTTACT-TCTACTATTACC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGT-TACCATTACC
* * *
103606227 GATTCGGCACTGTGTGTGTCGAATATTGTTTCTGTTACCGTTACC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCATTACC
* *
103606272 GATTCGGCACTTTGTGTCTCGAATATTGTTACTGTTACCGTTACC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCATTACC
103606317 G
1 G
103606318 TTGCCGATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 81 0.99
46 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (45 bp):
GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCATTACC
Found at i:103606325 original size:51 final size:47
Alignment explanation
Indices: 103606182--103606360 Score: 190
Period size: 45 Copynumber: 3.8 Consensus size: 47
103606172 TACTGTTATA
*
103606182 GATTCGGCACTTTGTTTGTCGAATATTGTTACT-TCTA-C--TATTACC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGT-TACCGTTATT-CC
* *
103606227 GATTCGGCACTGTGTGTGTCGAATATTGTTTCTGTTACCGTTA--CC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTATTCC
*
103606272 GATTCGGCACTTTGTGTCTCGAATATTGTTACTGTTACCGTTACCGTTGCC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTA---TT-CC
** * *
103606323 GATTCAACACTTTGTGTGTTGAATACTGTTACTGTTAC
1 GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTAC
103606361 TATTCCGAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
45 74 0.65
46 2 0.02
48 2 0.02
51 35 0.31
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (47 bp):
GATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACCGTTATTCC
Found at i:103606553 original size:18 final size:18
Alignment explanation
Indices: 103606530--103606809 Score: 167
Period size: 18 Copynumber: 15.2 Consensus size: 18
103606520 AGGTATAAAT
*
103606530 TAATTGATTATTACTGAA
1 TAATTGATTGTTACTGAA
* *
103606548 TAATTG-TCTGTTACCGGA
1 TAATTGAT-TGTTACTGAA
* *
103606566 TAATTGACTGTTACTGGA
1 TAATTGATTGTTACTGAA
*
103606584 T-ATTAGACTGTTACTGAA
1 TAATT-GATTGTTACTGAA
* *
103606602 TAATTGAATATTACTGAA
1 TAATTGATTGTTACTGAA
**
103606620 TAATTGATCATTACTGAA
1 TAATTGATTGTTACTGAA
* *
103606638 TAACTGATTGTCA-TGAA
1 TAATTGATTGTTACTGAA
* *
103606655 TGAA-TGACTGCTACTGAA
1 T-AATTGATTGTTACTGAA
* *
103606673 TAACTTAATAGTTACTGAA
1 TAA-TTGATTGTTACTGAA
103606692 T-ATCTGATT-TTACTGAA
1 TAAT-TGATTGTTACTGAA
*
103606709 TAATTGACTGTTACTGGATAACCGA
1 TAATTGATTGTTACT-G---A---A
* * *
103606734 TCAATTGATCGATACTAAA
1 T-AATTGATTGTTACTGAA
* * *
103606753 TAACTGATTATTATTGAA
1 TAATTGATTGTTACTGAA
*
103606771 CAATTGATTGTTACTGAA
1 TAATTGATTGTTACTGAA
* *
103606789 TAACTGACTGTTACTGAA
1 TAATTGATTGTTACTGAA
103606807 TAA
1 TAA
103606810 ATAATTATTT
Statistics
Matches: 202, Mismatches: 41, Indels: 38
0.72 0.15 0.14
Matches are distributed among these distances:
17 31 0.15
18 139 0.69
19 17 0.08
22 2 0.01
25 2 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TAATTGATTGTTACTGAA
Found at i:103608053 original size:13 final size:13
Alignment explanation
Indices: 103608035--103608069 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
103608025 AGCATCAGAG
103608035 GGGCACACGGCCT
1 GGGCACACGGCCT
103608048 GGGCACACGGCCT
1 GGGCACACGGCCT
103608061 GGGCACACG
1 GGGCACACG
103608070 CCCATGTGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.37, G:0.40, T:0.06
Consensus pattern (13 bp):
GGGCACACGGCCT
Found at i:103608981 original size:6 final size:6
Alignment explanation
Indices: 103608970--103608997 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
103608960 AGAATACACC
103608970 GTAACA GTAACA GTAACA GTAACA GTAA
1 GTAACA GTAACA GTAACA GTAACA GTAA
103608998 TGGTACACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:103614692 original size:42 final size:43
Alignment explanation
Indices: 103614570--103614768 Score: 244
Period size: 42 Copynumber: 4.7 Consensus size: 43
103614560 AATGTCATAG
* * * *
103614570 CCCAGATATGGTCTTACATGTTATCACACAT-CGATGCCACTGT
1 CCCAGACATGGTCTTACATGTAATCACA-ATACAATGCCAATGT
* * * * *
103614613 CCCAGACAGGGTCTTACACGTAATC-GATTAACTATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACAAT-ACAATGCCAATGT
*
103614656 CCTAGACATGGTCTTACA-GTAATCACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACAATACAATGCCAATGT
*
103614698 CCTAGACATGGTCTTACA-GTAATCACAATACAATGCCAATGT
1 CCCAGACATGGTCTTACATGTAATCACAATACAATGCCAATGT
103614740 CCCAGACATGGTCTTACATGATAATCACA
1 CCCAGACATGGTCTTACATG-TAATCACA
103614769 TCTCGGTAAC
Statistics
Matches: 137, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 78 0.57
43 50 0.36
44 8 0.06
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
CCCAGACATGGTCTTACATGTAATCACAATACAATGCCAATGT
Found at i:103616361 original size:37 final size:37
Alignment explanation
Indices: 103616315--103616397 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
103616305 TTTATATAAC
* * *
103616315 AAATATATATATTTCTAA-ATTTATAATATATTTTTATA
1 AAAT-TATATA-TTATAATATTTATAATATATATCTATA
* *
103616353 AACTTATATATTATAATTTTTATAATATATATCTATA
1 AAATTATATATTATAATATTTATAATATATATCTATA
103616390 AAATTATA
1 AAATTATA
103616398 CGCTTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
36 5 0.13
37 30 0.79
38 3 0.08
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (37 bp):
AAATTATATATTATAATATTTATAATATATATCTATA
Found at i:103616384 original size:23 final size:22
Alignment explanation
Indices: 103616319--103616377 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 22
103616309 TATAACAAAT
* * *
103616319 ATATATATTTCTAAA-TTTATA
1 ATATATTTTTATAAACTATATA
103616340 ATATATTTTTATAAACTTATATA
1 ATATATTTTTATAAAC-TATATA
*
103616363 TTATAATTTTTATAA
1 ATAT-ATTTTTATAA
103616378 TATATATCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 13 0.42
23 8 0.26
24 10 0.32
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATTTTTATAAACTATATA
Found at i:103616413 original size:8 final size:8
Alignment explanation
Indices: 103616402--103616464 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
103616392 ATTATACGCT
103616402 TTTATATA
1 TTTATATA
103616410 TTTATATA
1 TTTATATA
*
103616418 TTTTTACATA
1 --TTTATATA
*
103616428 TGTTATAGGA
1 T-TTATA-TA
103616438 TTTTATATA
1 -TTTATATA
103616447 TTTATAT-
1 TTTATATA
103616454 TTTATATA
1 TTTATATA
103616462 TTT
1 TTT
103616465 TTAAAATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 19 0.42
9 5 0.11
10 13 0.29
11 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (8 bp):
TTTATATA
Found at i:103618362 original size:22 final size:21
Alignment explanation
Indices: 103618331--103618371 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
103618321 TCCGGGTTGT
103618331 ATAACGAGAAGCTCATGAGTC
1 ATAACGAGAAGCTCATGAGTC
103618352 ATAATCGAGAAGCTCATGAG
1 ATAA-CGAGAAGCTCATGAG
103618372 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (21 bp):
ATAACGAGAAGCTCATGAGTC
Found at i:103618397 original size:24 final size:24
Alignment explanation
Indices: 103618370--103618447 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
103618360 GAAGCTCATG
103618370 AGAGCTAATAATGGGTAGCTCCGA
1 AGAGCTAATAATGGGTAGCTCCGA
* * * * *
103618394 AGAGCCATTAATTAGGAAGCTCATG-
1 AGAGCTAATAA-TGGGTAGCTC-CGA
* * *
103618419 CGAGCTAAAAACGGGTAGCTCCGA
1 AGAGCTAATAATGGGTAGCTCCGA
103618443 AGAGC
1 AGAGC
103618448 CATTAATCAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
23 1 0.03
24 20 0.54
25 15 0.41
26 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (24 bp):
AGAGCTAATAATGGGTAGCTCCGA
Found at i:103618417 original size:49 final size:49
Alignment explanation
Indices: 103618360--103618461 Score: 168
Period size: 49 Copynumber: 2.1 Consensus size: 49
103618350 TCATAATCGA
* * *
103618360 GAAGCTCATGAGAGCTAATAATGGGTAGCTCCGAAGAGCCATTAATTAG
1 GAAGCTCATGAGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
*
103618409 GAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
1 GAAGCTCATGAGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
103618458 GAAG
1 GAAG
103618462 TTCTGGATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (49 bp):
GAAGCTCATGAGAGCTAAAAACGGGTAGCTCCGAAGAGCCATTAATCAG
Found at i:103618482 original size:74 final size:74
Alignment explanation
Indices: 103618396--103618538 Score: 191
Period size: 74 Copynumber: 1.9 Consensus size: 74
103618386 AGCTCCGAAG
* * *
103618396 AGCCATTAATTAGGAAGCTCATGCGAGCTAAAAACGGGTAGCTCCGAA-GAGCCATTAATCAGGA
1 AGCCATTAATTAGGAAGCTCAAGCGAGCTAAAAACAGGAAGCT-CGAAGGAGCCATTAATCAGGA
103618460 AGTTCTGGAT
65 AGTTCTGGAT
* * * *
103618470 AGCCA-TATATTAGGAAGTTCAAGCGAGCTAATATCAGGAAGCTCTAAGGAGCCATTAATCAGGA
1 AGCCATTA-ATTAGGAAGCTCAAGCGAGCTAAAAACAGGAAGCTCGAAGGAGCCATTAATCAGGA
103618534 AGTTC
65 AGTTC
103618539 AAAAAGAGCC
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
73 5 0.08
74 55 0.92
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (74 bp):
AGCCATTAATTAGGAAGCTCAAGCGAGCTAAAAACAGGAAGCTCGAAGGAGCCATTAATCAGGAA
GTTCTGGAT
Found at i:103618534 original size:25 final size:25
Alignment explanation
Indices: 103618444--103618538 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 25
103618434 TAGCTCCGAA
103618444 GAGCCATTAATCAGGAAGTTCT--G
1 GAGCCATTAATCAGGAAGTTCTAAG
*
103618467 GATAGCCA-TATATTAGGAAGTTC-AAG
1 G--AGCCATTA-ATCAGGAAGTTCTAAG
* * *
103618493 CGAGCTAAT-ATCAGGAAGCTCTAAG
1 -GAGCCATTAATCAGGAAGTTCTAAG
103618518 GAGCCATTAATCAGGAAGTTC
1 GAGCCATTAATCAGGAAGTTC
103618539 AAAAAGAGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
23 1 0.02
24 18 0.32
25 34 0.61
26 2 0.04
27 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (25 bp):
GAGCCATTAATCAGGAAGTTCTAAG
Found at i:103618676 original size:24 final size:23
Alignment explanation
Indices: 103618637--103618714 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
103618627 CACAACCAAT
*
103618637 CGGGATGCTCCGAAGAGCTATTAA
1 CGGGAAGCT-CGAAGAGCTATTAA
* *
103618661 CGGGAAGCTCGTAAGAACCATATAA
1 CGGGAAGCTCG-AAGAGCTAT-TAA
* * *
103618686 TGGGAAGCTCGAGAGGGCTAATAA
1 CGGGAAGCTCGA-AGAGCTATTAA
103618710 CGGGA
1 CGGGA
103618715 CGATCTTTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
23 2 0.05
24 23 0.55
25 17 0.40
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (23 bp):
CGGGAAGCTCGAAGAGCTATTAA
Found at i:103619074 original size:5 final size:5
Alignment explanation
Indices: 103619039--103619083 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
103619029 TAAATTTACC
* *
103619039 TCAAT TTAAT GCAAT TCATAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCA-AT TCAAT TCAAT TCAAT TCA
103619084 CATCCTAGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 24 0.69
6 11 0.31
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (5 bp):
TCAAT
Found at i:103623904 original size:12 final size:12
Alignment explanation
Indices: 103623887--103623911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103623877 CACAACATGC
103623887 ATGGTATTAAAA
1 ATGGTATTAAAA
103623899 ATGGTATTAAAA
1 ATGGTATTAAAA
103623911 A
1 A
103623912 AACATAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGTATTAAAA
Found at i:103624071 original size:3 final size:3
Alignment explanation
Indices: 103624065--103624106 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
103624055 ACACTACTAT
103624065 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
103624107 TAGAAATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:103628844 original size:35 final size:36
Alignment explanation
Indices: 103628801--103628888 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
103628791 GGTTTACCGT
* *
103628801 AACCTTTTTAAGGTTGCCTT-AGACAAGT-TCATCCC
1 AACCTTTTTAAGGTTGCCTTGAAAAAAGTCT-ATCCC
* * * *
103628836 AACTTTTTTTATGTTGCCTTGAAAAAAGTCTATTCC
1 AACCTTTTTAAGGTTGCCTTGAAAAAAGTCTATCCC
103628872 AACCTTTTTAAGGTTGC
1 AACCTTTTTAAGGTTGC
103628889 TTTAAATGGG
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
35 17 0.40
36 24 0.57
37 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
AACCTTTTTAAGGTTGCCTTGAAAAAAGTCTATCCC
Found at i:103628888 original size:36 final size:35
Alignment explanation
Indices: 103628801--103628927 Score: 112
Period size: 35 Copynumber: 3.6 Consensus size: 35
103628791 GGTTTACCGT
* * *
103628801 AACCTTTTTAAGGTTGCCTTAGACAAGT-TCATCCC
1 AACCTTTTTAAGGTTGCCTTAAAAAAGTCT-ATTCC
* * *
103628836 AACTTTTTTTATGTTGCCTTGAAAAAAGTCTATTCC
1 AACCTTTTTAAGGTTGCCTT-AAAAAAGTCTATTCC
* *** *
103628872 AACCTTTTTAAGGTTGCTTTAAATGGGCCTATTCC
1 AACCTTTTTAAGGTTGCCTTAAAAAAGTCTATTCC
* *
103628907 AACATTTTTAAGGTTGTCTTA
1 AACCTTTTTAAGGTTGCCTTA
103628928 GACAAGTCAA
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
35 46 0.63
36 26 0.36
37 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (35 bp):
AACCTTTTTAAGGTTGCCTTAAAAAAGTCTATTCC
Found at i:103629205 original size:36 final size:35
Alignment explanation
Indices: 103629118--103629244 Score: 96
Period size: 35 Copynumber: 3.6 Consensus size: 35
103629108 GGTTTACCGT
* * *
103629118 AACCTTTTTAAGGTTGCCTT-AGACAAGCTCATCCC
1 AACCTTTTTAAGGTTGCCTTAAAAAAAGCT-ATTCC
* ***
103629153 AACTTTTTTTTTGTTGCCTTAAAAAAAGTCTATTCC
1 AACCTTTTTAAGGTTGCCTTAAAAAAAG-CTATTCC
* ***
103629189 AACCTTTTTAAGGTTG-CTTTAAATGGGCCTATTCC
1 AACCTTTTTAAGGTTGCCTTAAAAAAAG-CTATTCC
* *
103629224 AACATTTTTAAGGTTGTCTTA
1 AACCTTTTTAAGGTTGCCTTA
103629245 GACAAGTCAA
Statistics
Matches: 71, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
35 45 0.63
36 24 0.34
37 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (35 bp):
AACCTTTTTAAGGTTGCCTTAAAAAAAGCTATTCC
Found at i:103629254 original size:317 final size:317
Alignment explanation
Indices: 103628679--103629312 Score: 1187
Period size: 317 Copynumber: 2.0 Consensus size: 317
103628669 ATACATACAA
* *
103628679 ATTTGCTCATATTTCACCAAAATAGGCTTTCAAAAATTGGCGAAAACATCGTAAAAAAAAATTGG
1 ATTTGCTCATATTTCACCAAAATAGGCTTTCAAAAATCGGAGAAAACATCGTAAAAAAAAATTGG
103628744 ACATGAGACAAAGATCTATCCCAACCTTTTTAAGTTTCCCTTAGATGGGTTTACCGTAACCTTTT
66 ACATGAGACAAAGATCTATCCCAACCTTTTTAAGTTTCCCTTAGATGGGTTTACCGTAACCTTTT
* *
103628809 TAAGGTTGCCTTAGACAAGTTCATCCCAACTTTTTTTATGTTGCCTTGAAAAAAGTCTATTCCAA
131 TAAGGTTGCCTTAGACAAGCTCATCCCAACTTTTTTTATGTTGCCTTAAAAAAAGTCTATTCCAA
103628874 CCTTTTTAAGGTTGCTTTAAATGGGCCTATTCCAACATTTTTAAGGTTGTCTTAGACAAGTCAAT
196 CCTTTTTAAGGTTGCTTTAAATGGGCCTATTCCAACATTTTTAAGGTTGTCTTAGACAAGTCAAT
* *
103628939 CCTAACATTTTATAAAAGTTTCCTTAGACAACTTTTTTAAGGTTACCCTAGACGATT
261 CCTAACATTTTATAAAAGTTGCCTTAAACAACTTTTTTAAGGTTACCCTAGACGATT
103628996 ATTTGCTCATATTTCACCAAAATAGGCTTTCAAAAATCGGAGAAAACATCGTAAAAAAAAATTGG
1 ATTTGCTCATATTTCACCAAAATAGGCTTTCAAAAATCGGAGAAAACATCGTAAAAAAAAATTGG
103629061 ACATGAGACAAAGATCTATCCCAACCTTTTTAAGTTTCCCTTAGATGGGTTTACCGTAACCTTTT
66 ACATGAGACAAAGATCTATCCCAACCTTTTTAAGTTTCCCTTAGATGGGTTTACCGTAACCTTTT
*
103629126 TAAGGTTGCCTTAGACAAGCTCATCCCAACTTTTTTTTTGTTGCCTTAAAAAAAGTCTATTCCAA
131 TAAGGTTGCCTTAGACAAGCTCATCCCAACTTTTTTTATGTTGCCTTAAAAAAAGTCTATTCCAA
103629191 CCTTTTTAAGGTTGCTTTAAATGGGCCTATTCCAACATTTTTAAGGTTGTCTTAGACAAGTCAAT
196 CCTTTTTAAGGTTGCTTTAAATGGGCCTATTCCAACATTTTTAAGGTTGTCTTAGACAAGTCAAT
* *
103629256 CCTAACATTTTCTAAAAGTTGCCTTAAAGAACTTTTTTAAGGTTACCCTAGACGATT
261 CCTAACATTTTATAAAAGTTGCCTTAAACAACTTTTTTAAGGTTACCCTAGACGATT
103629313 CTATCCTAAC
Statistics
Matches: 308, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
317 308 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (317 bp):
ATTTGCTCATATTTCACCAAAATAGGCTTTCAAAAATCGGAGAAAACATCGTAAAAAAAAATTGG
ACATGAGACAAAGATCTATCCCAACCTTTTTAAGTTTCCCTTAGATGGGTTTACCGTAACCTTTT
TAAGGTTGCCTTAGACAAGCTCATCCCAACTTTTTTTATGTTGCCTTAAAAAAAGTCTATTCCAA
CCTTTTTAAGGTTGCTTTAAATGGGCCTATTCCAACATTTTTAAGGTTGTCTTAGACAAGTCAAT
CCTAACATTTTATAAAAGTTGCCTTAAACAACTTTTTTAAGGTTACCCTAGACGATT
Found at i:103629410 original size:75 final size:74
Alignment explanation
Indices: 103629287--103629844 Score: 501
Period size: 75 Copynumber: 7.5 Consensus size: 74
103629277 CCTTAAAGAA
* * * * ** *
103629287 CTTTTTT-AAGGTTACCCTAGAC-GATTCTATCCTAACCTTTTTTGAAGGTTGCCTTAAACAAGT
1 CTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAGT
103629350 CTATCCCAAC
65 CTATCCCAAC
* ** * * * * **
103629360 CTTTTTTTAAGGTTGTTTTAGACAAGGTCTATTCTAACATTTTTAAAAGGTTGCCTTAAACTGGT
1 CTTTTTTAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAGT
103629425 CTATCCCAAC
65 CTATCCCAAC
* * *
103629435 ATTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAA-GTTGCTTTAGACAAGG
1 CTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTAAAAGGTTGCCTTAGACAA-G
103629499 TCTATCCCAAC
64 TCTATCCCAAC
* *
103629510 CTTTTTAAAAGGTTGCCTTAGACTGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAATGT
1 CTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAA-GT
*
103629575 CTATACCAAC
65 CTATCCCAAC
* * * * * *
103629585 C-TATTT-AAGGTTCCCTTAGA-TGATTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAATG
1 CTTTTTTAAAGGTTGCCTTAGACAG-GTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAA-G
* *
103629647 TTTGTCCCAA-
64 TCTATCCCAAC
* ** ** **
103629657 CTTTTTTAAATGTTATCTTAAGTA-AGGTCTATCCCAACCTTTTTAAAAGGTTATCTTAGAACTG
1 CTTTTTTAAAGGTTGCCTT-AG-ACAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAG-ACAA
*
103629721 GTCTAGCCCAAC
63 GTCTATCCCAAC
* * *
103629733 C-TTTTT-AAGGTTGCCTTAGACAGGTCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 CTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAAAGGTT-GCCTTAGAC-AAG
*
103629795 TTTATCCCAAC
64 TCTATCCCAAC
* * *
103629806 CCTTTTTAAAGGTTGGCCTT-GACTAGGCCTTTCCCAACC
1 CTTTTTTAAAGGTT-GCCTTAGAC-AGGTCTATCCCAACC
103629845 CTTCAGTAAG
Statistics
Matches: 399, Mismatches: 66, Indels: 37
0.79 0.13 0.07
Matches are distributed among these distances:
72 6 0.02
73 108 0.27
74 69 0.17
75 193 0.48
76 23 0.06
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (74 bp):
CTTTTTTAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAAGTC
TATCCCAAC
Found at i:103629492 original size:112 final size:111
Alignment explanation
Indices: 103629312--103629820 Score: 489
Period size: 112 Copynumber: 4.6 Consensus size: 111
103629302 CCTAGACGAT
* ** * * * *
103629312 TCTATCCTAACCTTTTTTGAAGGTTGCCTTAAACAAGTCTATCCCAACCTTTTTTTAAGGTTGTT
1 TCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTAAAGGTTGCT
* * *
103629377 TTAGACAAGGTCTATTCTAACATTTTTAAAAGGTTGCCTTAAACTGG
65 TTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGG
* *
103629424 TCTATCCCAACATTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTTAAAAGTTGCT
1 TCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACC-TTTTTAAAGGTTGCT
*
103629489 TTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTGG
65 TTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGG
* * * * * *
103629536 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAATGTCTATACCAACCTATTT-AAGGTTCCC
1 TCTATCCCAACCTTTTTCAAAGGTTGCCTTAGAC-AGGTCTATCCCAACCTTTTTAAAGGTTGCT
** * * * *
103629600 TTAGATGA-TTCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAAT-G
65 TTAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTA-A-ACTGG
* * * * **
103629647 TTTGTCCCAA-CTTTTTTAAATGTTATCTTAAGTA-AGGTCTATCCCAACCTTTTTAAAAGGTT-
1 TCTATCCCAACCTTTTTCAAAGGTTGCCTT-AG-ACAGGTCTATCCCAACCTTTTT-AAAGGTTG
* * * * *
103629709 ATCTTAGA-ACTGGTCTAGCCCAACCTTTTT--AAGGTTGCCTTAGACAGG
63 CT-TTAGACA-AGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGG
* *
103629757 TCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGGTTTATCCCAACCCTTTTTAAAGGTTG
1 TCTATCCCAACCTTTTTCAAAGGTT-GCCTTAGAC-AGGTCTATCCCAA-CCTTTTTAAAGGTTG
103629821 GCCTTGACTA
Statistics
Matches: 325, Mismatches: 55, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
109 2 0.01
110 70 0.22
111 66 0.20
112 159 0.49
113 28 0.09
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (111 bp):
TCTATCCCAACCTTTTTCAAAGGTTGCCTTAGACAGGTCTATCCCAACCTTTTTAAAGGTTGCTT
TAGACAAGGTCTATCCCAACCTTTTTAAAAGGTTGCCTTAAACTGG
Found at i:103629821 original size:38 final size:38
Alignment explanation
Indices: 103629312--103629844 Score: 490
Period size: 37 Copynumber: 14.3 Consensus size: 38
103629302 CCTAGACGAT
* ** * *
103629312 TCTATCCTAACCTTTTTTGAAGGTTGCCTTAAAC-AAG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
** ** *
103629349 TCTATCCCAACCTTTTTTTAAGGTTGTTTTAGACAAGG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* * * *
103629387 TCTATTCTAACATTTTTAAAAGGTTGCCTTAAACT-GG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* *
103629424 TCTATCCCAACATTTTTCAAAGGTTGCCTTAGAC-AGG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* *
103629461 TCTATCCCAACCTTTTTTAAAA-GTTGCTTTAGACAAGG
1 TCTATCCCAACC-TTTTTAAAAGGTTGCCTTAGACTAGG
103629499 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACT-GG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* *
103629536 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACAATG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* * * *
103629574 TCTATACCAACCTATTT--AAGGTTCCCTTAGA-T-GAT
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAG-G
* * * *
103629609 TCTATCCCAATCTTTTTTAAAGGTTGCCTTAGACAATG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* * * * ** *
103629647 TTTGTCCCAA-CTTTTTTAAATGTTATCTTA-AGTAAGG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACT-AGG
**
103629684 TCTATCCCAACCTTTTTAAAAGGTTATCTTAGAACT-GG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAG-ACTAGG
*
103629722 TCTAGCCCAACCTTTTT--AAGGTTGCCTTAGAC-AGG
1 TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
* *
103629757 TCTATCACAACCTTTTTCAAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAACCTTTTTAAAAGGTT-GCCTTAGACTAGG
*
103629795 TTTATCCCAACCCTTTTT-AAAGGTTGGCCTT-GACTAGG
1 TCTATCCCAA-CCTTTTTAAAAGGTT-GCCTTAGACTAGG
* *
103629833 CCTTTCCCAACC
1 TCTATCCCAACC
103629845 CTTCAGTAAG
Statistics
Matches: 413, Mismatches: 62, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
35 33 0.08
36 25 0.06
37 181 0.44
38 165 0.40
39 7 0.02
40 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (38 bp):
TCTATCCCAACCTTTTTAAAAGGTTGCCTTAGACTAGG
Found at i:103629847 original size:38 final size:36
Alignment explanation
Indices: 103629428--103629844 Score: 155
Period size: 38 Copynumber: 11.2 Consensus size: 36
103629418 AACTGGTCTA
* *
103629428 TCCCAACATTTTTCAAAGGTT-GCCTTAGAC-AGGTCTA
1 TCCCAACCTTTTT-AAAGGTTGGCCTT-GACTAGG-CTT
* * * *
103629465 TCCCAACCTTTTTTAAAAGTT-GCTTTAGACAAGGTCTA
1 TCCCAACC-TTTTTAAAGGTTGGCCTT-GACTAGG-CTT
*
103629503 TCCCAACCTTTTTAAAAGGTT-GCCTTAGACT-GGTCTA
1 TCCCAACCTTTTT-AAAGGTTGGCCTT-GACTAGG-CTT
* * *
103629540 TCCCAACCTTTTTAAAAGGTT-GCCTTAGACAATGTCTA
1 TCCCAACCTTTTT-AAAGGTTGGCCTT-GACTA-GGCTT
* * * ** *
103629578 TACCAACCTATTT-AAGGTT-CCCTTAGA-TGATTCTA
1 TCCCAACCTTTTTAAAGGTTGGCCTT-GACT-AGGCTT
* * * *
103629613 TCCCAATCTTTTTTAAAGGTT-GCCTTAGACAATGTTT
1 TCCCAA-CCTTTTTAAAGGTTGGCCTT-GACTAGGCTT
* * ** * * *
103629650 GTCCCAACTTTTTTAAATGTT-ATCTTAAGTAAGGTCTA
1 -TCCCAACCTTTTTAAAGGTTGGCCTTGACT-AGG-CTT
** *
103629688 TCCCAACCTTTTTAAAAGGTT-ATCTTAGAACT-GGTCTA
1 TCCCAACCTTTTT-AAAGGTTGGCCTT-G-ACTAGG-CTT
* *
103629726 GCCCAACCTTTTT-AAGGTT-GCCTTAGAC-AGGTCTA
1 TCCCAACCTTTTTAAAGGTTGGCCTT-GACTAGG-CTT
* *
103629761 TCACAACCTTTTTCAAAGGTTGGCCTTGACTAGGTTT
1 TCCCAACCTTTTT-AAAGGTTGGCCTTGACTAGGCTT
103629798 ATCCCAACCCTTTTTAAAGGTTGGCCTTGACTAGGCCTT
1 -TCCCAA-CCTTTTTAAAGGTTGGCCTTGACTAGG-CTT
103629837 TCCCAACC
1 TCCCAACC
103629845 CTTCAGTAAG
Statistics
Matches: 314, Mismatches: 43, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
35 28 0.09
36 31 0.10
37 120 0.38
38 123 0.39
39 10 0.03
40 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (36 bp):
TCCCAACCTTTTTAAAGGTTGGCCTTGACTAGGCTT
Found at i:103632314 original size:39 final size:39
Alignment explanation
Indices: 103632266--103632344 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
103632256 AAAATGTTTA
*
103632266 CGATTCGATTTAGCGAAGTTTTTAACAAAACTTATAAAC
1 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
103632305 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
1 CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
103632344 C
1 C
103632345 AAAGAGTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (39 bp):
CGATTCGATTTAGCAAAGTTTTTAACAAAACTTATAAAC
Found at i:103638271 original size:24 final size:24
Alignment explanation
Indices: 103638234--103638283 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
103638224 GTAAAACGCC
* *
103638234 CTAAAAAACGGAGCATTAGCGGCG
1 CTAAAAAACAGAGCATTAGCAGCG
*
103638258 CTAAAAATCAGAGCATTAGCAGCG
1 CTAAAAAACAGAGCATTAGCAGCG
103638282 CT
1 CT
103638284 TTACCAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (24 bp):
CTAAAAAACAGAGCATTAGCAGCG
Found at i:103638510 original size:21 final size:21
Alignment explanation
Indices: 103638485--103638527 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
103638475 TAAACTATGG
103638485 AAACAATACTTAATATTGATT
1 AAACAATACTTAATATTGATT
103638506 AAACAATACTTAATATTGATT
1 AAACAATACTTAATATTGATT
103638527 A
1 A
103638528 CATTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (21 bp):
AAACAATACTTAATATTGATT
Found at i:103639162 original size:17 final size:17
Alignment explanation
Indices: 103639136--103639179 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
103639126 AATCTATATA
* *
103639136 TTAAATAATTTCAAATT
1 TTAAAAAATTTAAAATT
*
103639153 TTAAAGAA-TTAAAATT
1 TTAAAAAATTTAAAATT
103639169 TTAAAAAATTT
1 TTAAAAAATTT
103639180 TCAAGTTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTAAAAAATTTAAAATT
Found at i:103639250 original size:27 final size:26
Alignment explanation
Indices: 103639220--103639284 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 26
103639210 AAATATTAGT
*
103639220 TAAATTTTAAAAAATTATTTATTTAAA
1 TAAATTTTAAAAAACTA-TTATTTAAA
** *
103639247 TAAAAAATTAAAATACTATTATTTAAA
1 T-AAATTTTAAAAAACTATTATTTAAA
103639274 -ATAATTTTAAA
1 TA-AATTTTAAA
103639285 TTTTTCTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 10 0.33
28 12 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TAAATTTTAAAAAACTATTATTTAAA
Found at i:103639700 original size:114 final size:114
Alignment explanation
Indices: 103639482--103639780 Score: 435
Period size: 114 Copynumber: 2.6 Consensus size: 114
103639472 ATTGGATTTG
* * *
103639482 TTAGTGGCGTTTTGCGC-AAAGCGCCGCAATAGGTGCGTTTTTAGTGGCACC-AGTCTATAAACG
1 TTAGTGGCGTTTTGGGCTAAA-CGCCGCAATAGGTGCGTTTTTAGCGGC-CCTAGGCTATAAACG
* *
103639545 CCGCTAAAGGTGATTTCGGTTAAAACAAAAATGGCGTCGTTTTGTTATATTA
64 CCGCT-AAGGTGATTTCGGTTAAAACAAAAACGGCGTCGTTTTATTATATTA
*
103639597 TTAGTGGCGTTTTGGGGCTAAACGCCGCAATAGGTGCG-TTTTAGCGGCCCTAGGGTATAAACGC
1 TTAGTGGCGTTTT-GGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGGCCCTAGGCTATAAACGC
103639661 CGCTAAGGTGATTTCGGTTAAAACAAAAACGGCGTCGTTTTATTATATTA
65 CGCTAAGGTGATTTCGGTTAAAACAAAAACGGCGTCGTTTTATTATATTA
* * * *
103639711 TTAGTGGCGTTTTAAGGCTAAACGCCACAATAGGTG-GTTTTTAGCGGCACTAGGTTATAAACGC
1 TTAGTGGCGTTTT-GGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGGCCCTAGGCTATAAACGC
103639775 CGCTAA
65 CGCTAA
103639781 TGTTAAATTA
Statistics
Matches: 169, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
113 1 0.01
114 109 0.64
115 37 0.22
116 19 0.11
117 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (114 bp):
TTAGTGGCGTTTTGGGCTAAACGCCGCAATAGGTGCGTTTTTAGCGGCCCTAGGCTATAAACGCC
GCTAAGGTGATTTCGGTTAAAACAAAAACGGCGTCGTTTTATTATATTA
Found at i:103645532 original size:5 final size:5
Alignment explanation
Indices: 103645522--103645553 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
103645512 TTGTGTGTTC
103645522 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
103645554 TTCTCAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:103645536 original size:9 final size:9
Alignment explanation
Indices: 103645522--103645552 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
103645512 TTGTGTGTTC
103645522 TTTATTTTA
1 TTTATTTTA
103645531 TTTATTTTA
1 TTTATTTTA
103645540 TTTTATTTTA
1 -TTTATTTTA
103645550 TTT
1 TTT
103645553 TTTCTCAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:103646926 original size:20 final size:20
Alignment explanation
Indices: 103646896--103646942 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
103646886 TGGTTGTGTT
103646896 AATAA-TAATTTAAATATAA
1 AATAAGTAATTTAAATATAA
* *
103646915 AATAAGTAATTTTAATATTA
1 AATAAGTAATTTAAATATAA
*
103646935 AATGAGTA
1 AATAAGTA
103646943 TTGAATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (20 bp):
AATAAGTAATTTAAATATAA
Found at i:103647631 original size:43 final size:43
Alignment explanation
Indices: 103647570--103647799 Score: 282
Period size: 43 Copynumber: 5.0 Consensus size: 43
103647560 ATCTTAATGT
*
103647570 TAAATATATATCATATAATAATTTACAAAACTAACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
*
103647613 TAAATATATATCATATAATAACTTACAAAA-TTACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
103647655 TAAATATATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACA
1 T-AA-ATATATATC--AT-ATAA--TA-AT---TTACAAAACTTACATAATACA
*
103647709 TAAATATATATCATATAATAATTTACAAGACTTACATAATACA
1 TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
* *
103647752 TAAATAATATATATCATACAATAACTTACAAAACTTACATAATACA
1 T--A-AATATATATCATATAATAATTTACAAAACTTACATAATACA
103647798 TA
1 TA
103647800 CCTTATATAA
Statistics
Matches: 165, Mismatches: 7, Indels: 29
0.82 0.03 0.14
Matches are distributed among these distances:
42 12 0.07
43 52 0.32
44 10 0.06
45 1 0.01
46 43 0.26
47 6 0.04
49 6 0.04
50 3 0.02
52 9 0.05
53 10 0.06
54 13 0.08
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (43 bp):
TAAATATATATCATATAATAATTTACAAAACTTACATAATACA
Found at i:103647673 original size:96 final size:98
Alignment explanation
Indices: 103647587--103647830 Score: 343
Period size: 98 Copynumber: 2.5 Consensus size: 98
103647577 ATATCATATA
*
103647587 ATAATTTACAAAACTAACATAATACATAAATATATATCATATAATAACTTACAA-AATTACATAA
1 ATAACTTACAAAACTAACATAATACATAAATATATATCATATAATAACTTACAAGAATTACATAA
103647651 TACATAAAT-ATATATATCATATAATAACTTAC
66 TACATAAATAATATATATCATATAATAACTTAC
* * *
103647683 ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAATTTACAAGACTTACATAA
1 ATAACTTACAAAACTAACATAATACATAAATATATATCATATAATAACTTACAAGAATTACATAA
*
103647748 TACATAAATAATATATATCATACAATAACTTAC
66 TACATAAATAATATATATCATATAATAACTTAC
* * * * * *
103647781 AAAACTTACATAA-T-ACATACCTTATATAAATTTATATCATATCATAACTT
1 ATAACTTACAAAACTAACATA--ATACATAAATATATATCATATAATAACTT
103647831 GCATAACATA
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
96 56 0.42
97 19 0.14
98 57 0.43
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (98 bp):
ATAACTTACAAAACTAACATAATACATAAATATATATCATATAATAACTTACAAGAATTACATAA
TACATAAATAATATATATCATATAATAACTTAC
Found at i:103647686 original size:9 final size:9
Alignment explanation
Indices: 103647674--103647859 Score: 59
Period size: 9 Copynumber: 21.0 Consensus size: 9
103647664 ATATCATATA
103647674 ATAACTTAC
1 ATAACTTAC
103647683 ATAACTTAC
1 ATAACTTAC
*
103647692 AAAACTTAC
1 ATAACTTAC
103647701 ATAA--TAC
1 ATAACTTAC
* *
103647708 ATAA-ATAT
1 ATAACTTAC
*
103647716 ATATCATATA-
1 ATAAC-T-TAC
*
103647726 ATAATTTAC
1 ATAACTTAC
103647735 A-AGACTTAC
1 ATA-ACTTAC
103647744 ATAA--TAC
1 ATAACTTAC
* *
103647751 ATAAATAATAT
1 ATAACT--TAC
* *
103647762 ATATCATAC
1 ATAACTTAC
103647771 AATAACTTAC
1 -ATAACTTAC
*
103647781 AAAACTTAC
1 ATAACTTAC
103647790 ATAA--TAC
1 ATAACTTAC
* *
103647797 ATACCTTAT
1 ATAACTTAC
* *
103647806 ATAAATT-T
1 ATAACTTAC
* *
103647814 ATATCATATC
1 ATAACTTA-C
*
103647824 ATAACTTGC
1 ATAACTTAC
*
103647833 ATAACATAC
1 ATAACTTAC
*
103647842 AAAACTTAC
1 ATAACTTAC
*
103647851 TTAACTTAC
1 ATAACTTAC
103647860 GTAATACATA
Statistics
Matches: 127, Mismatches: 34, Indels: 32
0.66 0.18 0.17
Matches are distributed among these distances:
7 20 0.16
8 13 0.10
9 71 0.56
10 16 0.13
11 7 0.06
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:103647735 original size:52 final size:51
Alignment explanation
Indices: 103647630--103647850 Score: 231
Period size: 52 Copynumber: 4.3 Consensus size: 51
103647620 ATATCATATA
103647630 ATAACTTACAAAATTACATAATACATAAATATATATATCATATAATAACTTAC
1 ATAACTTACAAAATTACATAATACAT-AA-ATATATATCATATAATAACTTAC
*
103647683 ATAACTTACAAAACTTACATAATACATAAATATATATCATATAATAATTTAC
1 ATAACTTACAAAA-TTACATAATACATAAATATATATCATATAATAACTTAC
* *
103647735 A-AGACTTACATAA-TACAT-A-A-AT-AATATATATCATACAATAACTTAC
1 ATA-ACTTACAAAATTACATAATACATAAATATATATCATATAATAACTTAC
* * * * * * *
103647781 AAAACTTACATAA-TACATACCTTATATAAATTTATATCATATCATAACTTGC
1 ATAACTTACAAAATTACATA--ATACATAAATATATATCATATAATAACTTAC
*
103647833 ATAACATACAAAACTTAC
1 ATAACTTACAAAA-TTAC
103647851 TTAACTTACG
Statistics
Matches: 145, Mismatches: 12, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
46 38 0.26
47 3 0.02
48 1 0.01
49 1 0.01
50 6 0.04
51 3 0.02
52 62 0.43
53 15 0.10
54 16 0.11
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (51 bp):
ATAACTTACAAAATTACATAATACATAAATATATATCATATAATAACTTAC
Found at i:103647808 original size:46 final size:44
Alignment explanation
Indices: 103647683--103647799 Score: 182
Period size: 46 Copynumber: 2.6 Consensus size: 44
103647673 AATAACTTAC
*
103647683 ATAACTTACAAAACTTACATAATACATA-AATATATATCATATA
1 ATAACTTACAAAACTTACATAATACATATAATATATATCATACA
* *
103647726 ATAATTTACAAGACTTACATAATACATAAATAATATATATCATACA
1 ATAACTTACAAAACTTACATAATACAT--ATAATATATATCATACA
103647772 ATAACTTACAAAACTTACATAATACATA
1 ATAACTTACAAAACTTACATAATACATA
103647800 CCTTATATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
43 25 0.38
44 1 0.02
45 1 0.02
46 39 0.59
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.32
Consensus pattern (44 bp):
ATAACTTACAAAACTTACATAATACATATAATATATATCATACA
Found at i:103653734 original size:31 final size:31
Alignment explanation
Indices: 103653666--103653744 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
103653656 AATTAATGTT
* * *
103653666 TTTGGTTGTATTTTTTATGCTAAATTTGCTGTT
1 TTTGGTTGTA--TTTTATACTAAATTTACTGTA
* *
103653699 TTTGGTTGTATTTTATACTATATTTATTGTA
1 TTTGGTTGTATTTTATACTAAATTTACTGTA
103653730 TTTGGTTAG-ATTTTA
1 TTTGGTT-GTATTTTA
103653745 ATGCAGGAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 29 0.73
32 1 0.03
33 10 0.25
ACGTcount: A:0.19, C:0.04, G:0.16, T:0.61
Consensus pattern (31 bp):
TTTGGTTGTATTTTATACTAAATTTACTGTA
Found at i:103659699 original size:16 final size:16
Alignment explanation
Indices: 103659678--103659732 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
103659668 TGTATATATG
*
103659678 AATTTTGATTTTATAC
1 AATTTTGATTTCATAC
*
103659694 AATTTT--TTTCATAA
1 AATTTTGATTTCATAC
* *
103659708 AATTTTGATTTGATTC
1 AATTTTGATTTCATAC
*
103659724 AATTCTGAT
1 AATTTTGAT
103659733 AAATTATTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 12 0.39
16 19 0.61
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (16 bp):
AATTTTGATTTCATAC
Found at i:103661954 original size:28 final size:28
Alignment explanation
Indices: 103661880--103661976 Score: 81
Period size: 28 Copynumber: 3.5 Consensus size: 28
103661870 CAAAAATATA
* *
103661880 AAACCCTAAAC-C-TAAACGTCGAACTC
1 AAACCCTAAACTCTTAAACCTTGAACTC
* * * *
103661906 ATAATCCAAAACCCTTGAACCTTGAACTC
1 A-AACCCTAAACTCTTAAACCTTGAACTC
* * *
103661935 AAACCCTAAACTCTTAAACCATAAACTT
1 AAACCCTAAACTCTTAAACCTTGAACTC
*
103661963 GAACCCTAAACTCT
1 AAACCCTAAACTCT
103661977 AAATTCATGA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.02
27 8 0.15
28 34 0.62
29 12 0.22
ACGTcount: A:0.41, C:0.32, G:0.05, T:0.22
Consensus pattern (28 bp):
AAACCCTAAACTCTTAAACCTTGAACTC
Found at i:103662044 original size:28 final size:28
Alignment explanation
Indices: 103661991--103662044 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
103661981 TCATGAACCC
*
103661991 TAAATTCTAAATCTTAAACCTTAATCCT
1 TAAATTCTAAATCTTAAACCTAAATCCT
103662019 TAAA-TCTCAAATC-TAAACCCTAAATC
1 TAAATTCT-AAATCTTAAA-CCTAAATC
103662045 TCAGGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAATTCTAAATCTTAAACCTAAATCCT
Found at i:103662084 original size:47 final size:47
Alignment explanation
Indices: 103662024--103662117 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
103662014 ATCCTTAAAT
* *
103662024 CTCAAATCTAAACCCTAAATCTCAGGATTTAATGTTTGAGGTTCAAG
1 CTCAAATCCAAACCCTAAATCTCAGGATTTAATGTTTAAGGTTCAAG
*
103662071 CTCAAATCCAAACCCTAAATCTCGGGATTTAATGTTTAAGGTTCAAG
1 CTCAAATCCAAACCCTAAATCTCAGGATTTAATGTTTAAGGTTCAAG
103662118 GTAAAACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (47 bp):
CTCAAATCCAAACCCTAAATCTCAGGATTTAATGTTTAAGGTTCAAG
Found at i:103662265 original size:17 final size:18
Alignment explanation
Indices: 103662243--103662276 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
103662233 TTGTTTATAA
103662243 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
103662260 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
103662277 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:103664758 original size:15 final size:15
Alignment explanation
Indices: 103664705--103664760 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
103664695 AAATTAACTC
103664705 AATATAAAATATTTT
1 AATATAAAATATTTT
*
103664720 -ATTTCAAAATATAATTT
1 AATAT-AAAATAT--TTT
*
103664737 AAAATAAAATATTTT
1 AATATAAAATATTTT
103664752 AATATAAAA
1 AATATAAAA
103664761 ATAATTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 3 0.09
15 18 0.55
17 10 0.30
18 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAAAATATTTT
Found at i:103684107 original size:4 final size:4
Alignment explanation
Indices: 103684098--103684130 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
103684088 AACCATTCAC
103684098 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
103684131 TATGCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:103684748 original size:18 final size:20
Alignment explanation
Indices: 103684725--103684776 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 20
103684715 TCCTTTTTAT
103684725 ATTTAAATATCTA-TATA-A
1 ATTTAAATATCTATTATATA
103684743 ATTTAAA-A-CTATTATATA
1 ATTTAAATATCTATTATATA
*
103684761 A-TTAAATATTTATTAT
1 ATTTAAATATCTATTAT
103684777 TTCACTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 10 0.34
19 6 0.21
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (20 bp):
ATTTAAATATCTATTATATA
Found at i:103688836 original size:11 final size:10
Alignment explanation
Indices: 103688822--103688880 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
103688812 TAAATTATAG
103688822 TTAAAATATT
1 TTAAAATATT
*
103688832 ATTAAAATTTTT
1 -TTAAAA-TATT
*
103688844 TTAAAAAATT
1 TTAAAATATT
103688854 TTAATAATAATT
1 TTAA-AAT-ATT
*
103688866 TTAAAAAATT
1 TTAAAATATT
103688876 TTAAA
1 TTAAA
103688881 TGTACCCATT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
10 14 0.35
11 16 0.40
12 10 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAAAATATT
Found at i:103688847 original size:22 final size:21
Alignment explanation
Indices: 103688822--103688880 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
103688812 TAAATTATAG
* **
103688822 TTAAAATATTATTAAAATTTTT
1 TTAAAAAATT-TTAAAATAATT
103688844 TTAAAAAATTTTAATAATAATT
1 TTAAAAAATTTTAA-AATAATT
103688866 TTAAAAAATTTTAAA
1 TTAAAAAATTTTAAA
103688881 TGTACCCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.15
22 28 0.85
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAAAATTTTAAAATAATT
Found at i:103688857 original size:10 final size:10
Alignment explanation
Indices: 103688842--103688880 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
103688832 ATTAAAATTT
103688842 TTTTAAAAAA
1 TTTTAAAAAA
103688852 TTTTAATAATAA
1 TTTTAA-AA-AA
103688864 TTTTAAAAAA
1 TTTTAAAAAA
103688874 TTTTAAA
1 TTTTAAA
103688881 TGTACCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.56
11 4 0.15
12 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:103689690 original size:29 final size:30
Alignment explanation
Indices: 103689652--103689708 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
103689642 ATTTTGTACA
*
103689652 TATATATTTTGAATTTTTTAAA-ATTTTATT
1 TATATATTTT-AATTTTTAAAATATTTTATT
*
103689682 TATA-ATTTTTATTTTTAAAATATTTTA
1 TATATATTTTAATTTTTAAAATATTTTA
103689709 ACCTAATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.38
29 11 0.46
30 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TATATATTTTAATTTTTAAAATATTTTATT
Found at i:103691929 original size:22 final size:23
Alignment explanation
Indices: 103691891--103691937 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
103691881 TTTGTATGAT
103691891 ATAAAATATATATAAAATAAAAA
1 ATAAAATATATATAAAATAAAAA
* *
103691914 ATAACATAT-TATAAAATTAAAA
1 ATAAAATATATATAAAATAAAAA
103691936 AT
1 AT
103691938 GGGTTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
ATAAAATATATATAAAATAAAAA
Found at i:103693763 original size:50 final size:50
Alignment explanation
Indices: 103693704--103693801 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
103693694 ATTAGCACTG
** * *
103693704 AGAACGTAGCACTTTAATGTTGGGTGTAAATCATCAGATAGTTTCCCTTA
1 AGAACGTAGCACTTTAACATTGGGTATAAATCATCAAATAGTTTCCCTTA
* * *
103693754 AGAACGTAGCACTTTAGCATTGGGTATAAATTATTAAATAGTTTCCCT
1 AGAACGTAGCACTTTAACATTGGGTATAAATCATCAAATAGTTTCCCT
103693802 AGAGCATTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (50 bp):
AGAACGTAGCACTTTAACATTGGGTATAAATCATCAAATAGTTTCCCTTA
Found at i:103695160 original size:27 final size:29
Alignment explanation
Indices: 103695123--103695186 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 29
103695113 CTTCAACAAC
* * *
103695123 ATTTTCAAGATTTTTTT-TTTTAGAACTT
1 ATTTTCTAGATTTTTTTATTTTAAAAATT
103695151 -TTTTCTAGATTTTTTTATTTTAAAAATT
1 ATTTTCTAGATTTTTTTATTTTAAAAATT
103695179 ATTTTCTA
1 ATTTTCTA
103695187 TTTTTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 15 0.48
28 9 0.29
29 7 0.23
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (29 bp):
ATTTTCTAGATTTTTTTATTTTAAAAATT
Found at i:103703459 original size:48 final size:48
Alignment explanation
Indices: 103703388--103703674 Score: 326
Period size: 48 Copynumber: 5.9 Consensus size: 48
103703378 TTCACCACCA
* * * * * * *
103703388 CCAAAGCGTCCCGTCTACCCCAGTCCTCCTATTGTAAAGCCGCCAGCG
1 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
* * * *
103703436 CCAAAGCCTCCCGTCTACCCCAGTCCTCCCATTGTGAAGCCGCC-ACTT
1 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAAC-G
* ***
103703484 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGCGAAGCCGCCAGTT
1 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
*
103703532 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACA
1 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
**
103703580 CCAACCCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
1 CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
103703628 CCAACGCCAACGCCTCCTGTATACCCAAGTCCT-CCAGTTGTGAAGCC
1 CC-A----AA-GCCTCCTGTATACCCAAGTCCTCCCA-TTGTGAAGCC
103703675 ACCTCCAGTG
Statistics
Matches: 210, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 1 0.00
48 173 0.82
49 1 0.00
53 4 0.02
54 31 0.15
ACGTcount: A:0.23, C:0.42, G:0.16, T:0.20
Consensus pattern (48 bp):
CCAAAGCCTCCTGTATACCCAAGTCCTCCCATTGTGAAGCCGCCAACG
Found at i:103709244 original size:31 final size:32
Alignment explanation
Indices: 103709188--103709247 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
103709178 TTTCACTCTT
* *
103709188 TTTTTAAAAAAATTGATAATCAAATTTAAATC
1 TTTTTAAAAAAATTGAGAATAAAATTTAAATC
*
103709220 TTTTT-AAAAAATTGAGAGTAAAATTTAA
1 TTTTTAAAAAAATTGAGAATAAAATTTAA
103709248 CTAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (32 bp):
TTTTTAAAAAAATTGAGAATAAAATTTAAATC
Found at i:103721910 original size:20 final size:20
Alignment explanation
Indices: 103721886--103721924 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
103721876 AAAATTACAA
103721886 AAAAAATT-AAAATAATTTT
1 AAAAAATTCAAAATAATTTT
103721905 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
103721925 TAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:103726118 original size:30 final size:30
Alignment explanation
Indices: 103726082--103726139 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
103726072 GTCACATGCC
103726082 TTTTTTTGTATCT-ACAAAAGAAGGCCAATGT
1 TTTTTTTGTAT-TGA-AAAAGAAGGCCAATGT
*
103726113 TTTTTTTTTATTGAAAAAGAAGGCCAA
1 TTTTTTTGTATTGAAAAAGAAGGCCAA
103726140 CGTTAGCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (30 bp):
TTTTTTTGTATTGAAAAAGAAGGCCAATGT
Found at i:103733297 original size:20 final size:21
Alignment explanation
Indices: 103733268--103733316 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
103733258 ATATTTTTTG
103733268 ATTA-TTTAATTAGATA-TAT
1 ATTATTTTAATTAGATATTAT
*
103733287 ATTATTTTAATTAGATATTTT
1 ATTATTTTAATTAGATATTAT
103733308 ATTATTTTA
1 ATTATTTTA
103733317 TTATTATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 4 0.15
20 12 0.44
21 11 0.41
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTATTTTAATTAGATATTAT
Found at i:103733319 original size:20 final size:20
Alignment explanation
Indices: 103733263--103733332 Score: 72
Period size: 19 Copynumber: 3.5 Consensus size: 20
103733253 TGATGATATT
*
103733263 TTTTGATTATTTAATTAGATA
1 TTTT-ATTATTTTATTAGATA
*
103733284 -TATATTATTTTAATTAGATA
1 TTTTATTATTTT-ATTAGATA
*
103733304 TTTTATTATTTTATTA-TTA
1 TTTTATTATTTTATTAGATA
*
103733323 TTTCATTATT
1 TTTTATTATT
103733333 ATTTTATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
19 18 0.43
20 14 0.33
21 10 0.24
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTATTATTTTATTAGATA
Found at i:103733320 original size:3 final size:3
Alignment explanation
Indices: 103733302--103733350 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
103733292 TTTAATTAGA
*
103733302 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
103733347 TAT T
1 TAT T
103733351 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:103733322 original size:11 final size:11
Alignment explanation
Indices: 103733306--103733344 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
103733296 ATTAGATATT
103733306 TTATTATTTTA
1 TTATTATTTTA
*
103733317 TTATTATTTCA
1 TTATTATTTTA
103733328 TTATTATTTTA
1 TTATTATTTTA
103733339 TTATTA
1 TTATTA
103733345 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:103735531 original size:23 final size:23
Alignment explanation
Indices: 103735497--103735613 Score: 112
Period size: 23 Copynumber: 5.0 Consensus size: 23
103735487 CCCAATATAT
103735497 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
103735520 GGCTCTTTGTGAGCCTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * *
103735543 GTGCTC-GCTTGAACTTCCCGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* **
103735568 TGGCT-ATCCAGAGCTTCCCGATA
1 -GGCTCTTCGTGAGCTTCCCGATA
103735591 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
103735614 TGGTTCTTTG
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
22 4 0.05
23 49 0.66
24 4 0.05
25 16 0.22
26 1 0.01
ACGTcount: A:0.16, C:0.30, G:0.24, T:0.30
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:103735608 original size:48 final size:48
Alignment explanation
Indices: 103735497--103735614 Score: 118
Period size: 48 Copynumber: 2.5 Consensus size: 48
103735487 CCCAATATAT
* ***
103735497 GGCTCTTCGTGAGCTTCCCG--ATAGGCTCTTTGTGAGCCTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATATAGGCTCATCCAGAGCCTCCCGATA
* * * *
103735543 GTGCTC-GCTTGAACTTCCCGATATATGGCT-ATCCAGAGCTTCCCGATA
1 G-GCTCTTCGTGAGCTTCCCGATATA-GGCTCATCCAGAGCCTCCCGATA
103735591 GGCTCTTCGTGAGCTTCCCGATAT
1 GGCTCTTCGTGAGCTTCCCGATAT
103735615 GGTTCTTTGT
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
46 12 0.21
47 8 0.14
48 32 0.57
49 4 0.07
ACGTcount: A:0.16, C:0.30, G:0.24, T:0.31
Consensus pattern (48 bp):
GGCTCTTCGTGAGCTTCCCGATATAGGCTCATCCAGAGCCTCCCGATA
Found at i:103737580 original size:21 final size:21
Alignment explanation
Indices: 103737551--103737593 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
103737541 TTGGAAACCC
* *
103737551 TTTTGTCCCTTTTTATTTTCT
1 TTTTATCCCTTTCTATTTTCT
103737572 TTTTATCCCTTTCTATTTTCT
1 TTTTATCCCTTTCTATTTTCT
103737593 T
1 T
103737594 AGGTTGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.21, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATCCCTTTCTATTTTCT
Found at i:103738057 original size:30 final size:31
Alignment explanation
Indices: 103737991--103738059 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
103737981 TCGAATTAAT
*
103737991 TTGGTTAA-TAGACCGAATTCGGTTAATCCA
1 TTGGTTAACTAGACCAAATTCGGTTAATCCA
* * **
103738021 TCGGTTAACT-GACCAAATTTGGTTAATTGA
1 TTGGTTAACTAGACCAAATTCGGTTAATCCA
103738051 TTGGTTAAC
1 TTGGTTAAC
103738060 CAAATTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (31 bp):
TTGGTTAACTAGACCAAATTCGGTTAATCCA
Found at i:103739396 original size:21 final size:20
Alignment explanation
Indices: 103739371--103739413 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
103739361 TAGACTGGAT
*
103739371 TTCATAAATTCTATCTCAACA
1 TTCATAAAATCTATCTC-ACA
103739392 TTCATAAAATCTATCTCACA
1 TTCATAAAATCTATCTCACA
103739412 TT
1 TT
103739414 GAATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
TTCATAAAATCTATCTCACA
Found at i:103739421 original size:22 final size:21
Alignment explanation
Indices: 103739374--103739422 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
103739364 ACTGGATTTC
* *
103739374 ATAAATTCTATCTCAACATTC
1 ATAAAATCTATCTCAACATTA
103739395 ATAAAATCTATCTC-ACATTGA
1 ATAAAATCTATCTCAACATT-A
*
103739416 ATTAAAT
1 ATAAAAT
103739423 TTCATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAAAATCTATCTCAACATTA
Found at i:103747055 original size:32 final size:36
Alignment explanation
Indices: 103747000--103747069 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 36
103746990 AATTTTAACT
103747000 TTAATTTATTTATATATATTTAAAGAAATA-AATATA
1 TTAATTTATTTATATATATTTAAAGAAATATAAT-TA
*
103747036 TTAATTTA-TT-T-TATA-TTAAATAAATATAATTA
1 TTAATTTATTTATATATATTTAAAGAAATATAATTA
103747068 TT
1 TT
103747070 TTTATATACA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 14 0.44
33 7 0.22
34 1 0.03
35 2 0.06
36 8 0.25
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
TTAATTTATTTATATATATTTAAAGAAATATAATTA
Found at i:103747068 original size:24 final size:25
Alignment explanation
Indices: 103747028--103747076 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
103747018 TTTAAAGAAA
*
103747028 TAAATATATTAATTTA-TTTTATAT
1 TAAATAAATTAATTTATTTTTATAT
103747052 TAAATAAATATAA-TTATTTTTATAT
1 TAAATAAAT-TAATTTATTTTTATAT
103747077 ACAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
TAAATAAATTAATTTATTTTTATAT
Found at i:103752360 original size:19 final size:20
Alignment explanation
Indices: 103752323--103752363 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
103752313 TACTACATAA
*
103752323 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
103752343 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
103752362 TT
1 TT
103752364 ACTTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:103752821 original size:20 final size:20
Alignment explanation
Indices: 103752785--103752830 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
103752775 ATTTCTTTCC
103752785 CTTTTTCTTTTTCTTTCTTT
1 CTTTTTCTTTTTCTTTCTTT
*
103752805 CTGTTTTGTTTTT-TTTCTTT
1 CT-TTTTCTTTTTCTTTCTTT
103752825 CTTTTT
1 CTTTTT
103752831 TTTATTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 11 0.46
21 9 0.38
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.80
Consensus pattern (20 bp):
CTTTTTCTTTTTCTTTCTTT
Found at i:103753400 original size:18 final size:15
Alignment explanation
Indices: 103753357--103753399 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
103753347 TGAACCCACT
103753357 ACATAATAATAATTA
1 ACATAATAATAATTA
*
103753372 ACATATTAATAATTA
1 ACATAATAATAATTA
103753387 ACATGAA-AATAAT
1 ACAT-AATAATAAT
103753400 ATAATTTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 24 0.96
16 1 0.04
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
ACATAATAATAATTA
Found at i:103756596 original size:11 final size:11
Alignment explanation
Indices: 103756577--103756615 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
103756567 TTTGTTTTAT
*
103756577 ATTAGTCTCGA
1 ATTATTCTCGA
103756588 ATTATTCTCGA
1 ATTATTCTCGA
*
103756599 ATTGTTCTCGA
1 ATTATTCTCGA
*
103756610 ACTATT
1 ATTATT
103756616 TCTAGGGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (11 bp):
ATTATTCTCGA
Found at i:103759430 original size:29 final size:29
Alignment explanation
Indices: 103759348--103759431 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
103759338 TATTAGTAGT
* *
103759348 TGAACTTAAATTTTGAAATCTGAAAAGTAAA
1 TGAA-TTAAATTTTAAAATCT-TAAAGTAAA
* * *
103759379 TGAATTCAATTAATAAAA-ATTAAAGTATAA
1 TGAATTAAATT-TTAAAATCTTAAAGTA-AA
103759409 TG-ATTAAATTTTAAAATCTTAAA
1 TGAATTAAATTTTAAAATCTTAAA
103759432 AAATACAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
28 5 0.12
29 18 0.43
30 11 0.26
31 8 0.19
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (29 bp):
TGAATTAAATTTTAAAATCTTAAAGTAAA
Found at i:103767052 original size:28 final size:29
Alignment explanation
Indices: 103766954--103767052 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
103766944 TCATAAATTG
* *
103766954 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* * *
103766983 GCACTAAGTGTGCAAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
103767011 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
103767039 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
103767053 GGCTTATTAC
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 40 0.67
29 20 0.33
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:103774290 original size:45 final size:45
Alignment explanation
Indices: 103774240--103774469 Score: 194
Period size: 47 Copynumber: 5.0 Consensus size: 45
103774230 AATTGACTGT
*
103774240 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA
* * * * * *
103774285 CAAGGATCCCGTGTAAGACCATGTCAAGACATGTCATCGGCATTGA
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTA-AGA
* * **
103774331 TTAAGGACT-CCATGTAAGACCATATCAAGATGTGGCATTGGCACTAAGA
1 -CAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGA
***
103774380 CAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGA
1 CAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGA
* * * * * *
103774427 TAAGGATATCATGTAAGA-TATGCCAAGGCATGGCATTGATAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
103774470 TTCTATAAGG
Statistics
Matches: 144, Mismatches: 32, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
44 7 0.05
45 44 0.31
46 5 0.03
47 53 0.37
48 22 0.15
49 8 0.06
50 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (45 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGA
Done.