Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 36 of 316
Found at i:10310486 original size:29 final size:29
Alignment explanation
Indices: 10310449--10310511 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
10310439 ATTCTGTATG
*
10310449 TTTGCTTGTGCAGCGTGATTTGCTAAGAT
1 TTTGTTTGTGCAGCGTGATTTGCTAAGAT
*
10310478 TTTGTTTGTGTAGCGTGATTTGCTAAGAT
1 TTTGTTTGTGCAGCGTGATTTGCTAAGAT
10310507 TTTGT
1 TTTGT
10310512 GGCAAGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.10, G:0.27, T:0.48
Consensus pattern (29 bp):
TTTGTTTGTGCAGCGTGATTTGCTAAGAT
Found at i:10314009 original size:35 final size:36
Alignment explanation
Indices: 10313926--10313998 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
10313916 CACACGAACC
10313926 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
1 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
10313962 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
1 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
10313998 T
1 T
10313999 TACAACAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.18
Consensus pattern (36 bp):
TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
Found at i:10316956 original size:6 final size:6
Alignment explanation
Indices: 10316945--10317007 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
10316935 TAAGTCTAAG
* * *
10316945 AAAATA ATAATA AACATA AACATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
10316993 GATATA AAAATA AAA
1 AAAATA AAAATA AAA
10317008 CAAATAAACT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.76, C:0.03, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:10318675 original size:5 final size:5
Alignment explanation
Indices: 10318665--10318780 Score: 55
Period size: 5 Copynumber: 23.2 Consensus size: 5
10318655 GAAGCAGAAT
* **
10318665 AATAA AATAA AATAA AAT-A AAGAA AATAA TAATTTT AATAA GAAT-A
1 AATAA AATAA AATAA AATAA AATAA AATAA -AA-TAA AATAA -AATAA
* * * * *
10318711 AATAG AA-AA TATAA AATAA CAA-AC AA-AA GATAA TAATAA GA-AA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA -AATAA AATAA AATAA
*
10318759 AGTAA AATAA AATAAA AATAA A
1 AATAA AATAA AAT-AA AATAA A
10318781 GAATTAAAAT
Statistics
Matches: 82, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
4 15 0.18
5 48 0.59
6 18 0.22
7 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:10322626 original size:12 final size:12
Alignment explanation
Indices: 10322587--10322628 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
10322577 AAATAAAAGA
10322587 AAAATTAGAAAAT
1 AAAATTA-AAAAT
*
10322600 AAAAATT-AAACT
1 -AAAATTAAAAAT
10322612 AAAATTAAAAAT
1 AAAATTAAAAAT
10322624 AAAAT
1 AAAAT
10322629 GCAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.24
12 13 0.52
14 6 0.24
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
AAAATTAAAAAT
Found at i:10329808 original size:33 final size:33
Alignment explanation
Indices: 10329762--10329844 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
10329752 GGTGTGGCCA
*
10329762 TGTGGG-CCACACAGGCTACGAAAAATTGGGCG
1 TGTGGGCCCACACAGGCAACGAAAAATTGGGCG
* * ** *
10329794 TGTGGGCCCACACAGACAAGGCCAATTTGGGCG
1 TGTGGGCCCACACAGGCAACGAAAAATTGGGCG
10329827 TGTGGGCCCACACAGGCA
1 TGTGGGCCCACACAGGCA
10329845 TGTAGGCCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 6 0.14
33 37 0.86
ACGTcount: A:0.25, C:0.27, G:0.34, T:0.14
Consensus pattern (33 bp):
TGTGGGCCCACACAGGCAACGAAAAATTGGGCG
Found at i:10340100 original size:20 final size:21
Alignment explanation
Indices: 10340055--10340119 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
10340045 AATGATGATG
* *
10340055 TTAATGATATTTTATGATTA-T
1 TTAATGAGATATTAT-ATTATT
*
10340076 TTAATTAGATA-TATATTATT
1 TTAATGAGATATTATATTATT
*
10340096 TTAATGAGATATTTTATTATT
1 TTAATGAGATATTATATTATT
10340117 TTA
1 TTA
10340120 TTATTATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 14 0.38
21 19 0.51
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (21 bp):
TTAATGAGATATTATATTATT
Found at i:10340112 original size:18 final size:20
Alignment explanation
Indices: 10340071--10340119 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
10340061 ATATTTTATG
*
10340071 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
10340090 ATTATTTTAATGAGATATTTT
1 ATTATTTTAATGAGATA-TAT
10340111 ATTATTTTA
1 ATTATTTTA
10340120 TTATTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:10340123 original size:3 final size:3
Alignment explanation
Indices: 10340105--10340153 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
10340095 TTTAATGAGA
*
10340105 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
10340150 TAT T
1 TAT T
10340154 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:10340125 original size:11 final size:11
Alignment explanation
Indices: 10340109--10340147 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
10340099 ATGAGATATT
10340109 TTATTATTTTA
1 TTATTATTTTA
*
10340120 TTATTATTTCA
1 TTATTATTTTA
10340131 TTATTATTTTA
1 TTATTATTTTA
10340142 TTATTA
1 TTATTA
10340148 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:10340133 original size:19 final size:19
Alignment explanation
Indices: 10340105--10340146 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
10340095 TTTAATGAGA
*
10340105 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
10340124 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
10340143 TATT
1 TATT
10340147 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Found at i:10342410 original size:23 final size:22
Alignment explanation
Indices: 10342299--10342411 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 22
10342289 CCCTATATAT
10342299 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTC-TGAGCTTCCCGATA
* *
10342322 GGCTTTTTATGAGCTTCCCGATA
1 GGC-TCTTCTGAGCTTCCCGATA
*
10342345 GTGCTCCTT-TGAACTTCCCGATATA
1 G-GCT-CTTCTGAGCTTCCCG--ATA
* *
10342370 TGACT-ATCTGGAGCTTCCCGATA
1 -GGCTCTTCT-GAGCTTCCCGATA
10342393 GGCTCTTCGTGAGCTTCCC
1 GGCTCTTC-TGAGCTTCCC
10342412 AATATGGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
22 3 0.04
23 44 0.62
24 9 0.13
25 14 0.20
26 1 0.01
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (22 bp):
GGCTCTTCTGAGCTTCCCGATA
Found at i:10342410 original size:48 final size:48
Alignment explanation
Indices: 10342299--10342416 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
10342289 CCCTATATAT
* * * *
10342299 GGCTCTTCGTGAGCTTCCCG--ATAGGCTTTTTATGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATATAGACTATCTAGGAGCTTCCCGATA
*
10342345 GTGCTCCTT--TGAACTTCCCGATATATGACTATCT-GGAGCTTCCCGATA
1 G-GCT-CTTCGTGAGCTTCCCGATATA-GACTATCTAGGAGCTTCCCGATA
*
10342393 GGCTCTTCGTGAGCTTCCCAATAT
1 GGCTCTTCGTGAGCTTCCCGATAT
10342417 GGTTCTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
46 14 0.24
47 6 0.10
48 33 0.57
49 5 0.09
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (48 bp):
GGCTCTTCGTGAGCTTCCCGATATAGACTATCTAGGAGCTTCCCGATA
Found at i:10356794 original size:17 final size:17
Alignment explanation
Indices: 10356772--10356804 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10356762 CCAATTTTAT
10356772 TTATATT-TATATATATA
1 TTATATTCTAT-TATATA
10356789 TTATATTCTATTATAT
1 TTATATTCTATTATAT
10356805 TTTTTATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTCTATTATATA
Found at i:10363198 original size:21 final size:21
Alignment explanation
Indices: 10363163--10363203 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10363153 ATATAAGCCC
**
10363163 TATATTTTATTTATTAATTTT
1 TATATTTTAGGTATTAATTTT
*
10363184 TATATTTTAGGTATTTATTT
1 TATATTTTAGGTATTAATTT
10363204 CGAATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TATATTTTAGGTATTAATTTT
Found at i:10364820 original size:21 final size:19
Alignment explanation
Indices: 10364769--10364820 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
10364759 ATTATTTCAA
10364769 AAATAA-AGAAATAAATAT
1 AAATAATAGAAATAAATAT
* *
10364787 AATAAAATGGAAATAAAATATT
1 AA-ATAATAGAAAT-AAATA-T
10364809 AAATAATAGAAA
1 AAATAATAGAAA
10364821 ATCGAGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 5 0.19
21 13 0.50
22 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (19 bp):
AAATAATAGAAATAAATAT
Found at i:10365888 original size:27 final size:27
Alignment explanation
Indices: 10365850--10365905 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
10365840 ATTTAAGACT
10365850 TGATGGTTGTGGGGGCATACCCAAAGC
1 TGATGGTTGTGGGGGCATACCCAAAGC
10365877 TGATGGTTGTGGGGGCATACCCAAAGC
1 TGATGGTTGTGGGGGCATACCCAAAGC
10365904 TG
1 TG
10365906 TTCTATGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (27 bp):
TGATGGTTGTGGGGGCATACCCAAAGC
Found at i:10371991 original size:27 final size:28
Alignment explanation
Indices: 10371925--10372016 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 28
10371915 CGTACATACT
*
10371925 ATATATATACATATAATATAGTTATTAAGA
1 ATATATATACA-AT-ATATAGATATTAAGA
* *
10371955 AAATACATACAATATATA-ATATTAAGA
1 ATATATATACAATATATAGATATTAAGA
* *
10371982 ATATATATACAATACATATGGTATTAAGA
1 ATATATATACAATATATA-GATATTAAGA
10372011 A-ATATA
1 ATATATA
10372017 GTATTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.43
28 10 0.19
29 11 0.21
30 9 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATATATACAATATATAGATATTAAGA
Found at i:10372164 original size:12 final size:12
Alignment explanation
Indices: 10372132--10372158 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10372122 AATAAAAGCG
10372132 TATAAACAACAA
1 TATAAACAACAA
10372144 TATAAACAACAA
1 TATAAACAACAA
10372156 TAT
1 TAT
10372159 GTACAAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
TATAAACAACAA
Found at i:10372553 original size:3 final size:3
Alignment explanation
Indices: 10372545--10372577 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10372535 ATACTAGTAC
*
10372545 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10372578 ATATATGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10372557 original size:15 final size:15
Alignment explanation
Indices: 10372534--10372577 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
10372524 AATGAAAATC
* *
10372534 AATACTAGTACTAAT
1 AATAATAGTAATAAT
10372549 AATAATAGTAATAAT
1 AATAATAGTAATAAT
*
10372564 AATAATAATAATAA
1 AATAATAGTAATAA
10372578 ATATATGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATAGTAATAAT
Found at i:10372652 original size:13 final size:13
Alignment explanation
Indices: 10372636--10372674 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 13
10372626 GATATAATAT
10372636 AATAATATATAAA
1 AATAATATATAAA
10372649 AATAATAGTGATAAA
1 AATAATA-T-ATAAA
10372664 AATAATATATA
1 AATAATATATA
10372675 TATCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (13 bp):
AATAATATATAAA
Found at i:10374515 original size:15 final size:15
Alignment explanation
Indices: 10374491--10374523 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10374481 TTGATCTTTG
*
10374491 AAAAATATAAATTGA
1 AAAAACATAAATTGA
10374506 AAAAACATAAATTGA
1 AAAAACATAAATTGA
10374521 AAA
1 AAA
10374524 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:10374744 original size:89 final size:86
Alignment explanation
Indices: 10374592--10374845 Score: 330
Period size: 89 Copynumber: 2.9 Consensus size: 86
10374582 TTGAAAAGCG
* * * *
10374592 GAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTAATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
* *
10374657 GAAAAACATAAATTGGAGAACACA
66 GAAAAACAGAAATT--A-AAAACA
*
10374681 GAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
*
10374746 GAAAAACAGAAATTAAAAATA
66 GAAAAACAGAAATTAAAAACA
* * *
10374767 GAAATTGAAAAAACCTCGGCATGTGAGCTGAGGCTCAACTCACCTCTCGC-GATATGAGTTGATT
1 GAAATTGAAAATACCTCAGCATGT--CCTGAGGCTCAACTCACCTCTCGCAG-TATGAGTTGA-T
*
10374831 TTTTGACAAACAGAA
62 TTTTGAAAAACAGAA
10374846 GTTGAAATTA
Statistics
Matches: 148, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
86 25 0.17
87 2 0.01
88 33 0.22
89 88 0.59
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (86 bp):
GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
GAAAAACAGAAATTAAAAACA
Found at i:10374769 original size:13 final size:14
Alignment explanation
Indices: 10374744--10374778 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
10374734 GAGTTGATTT
10374744 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
10374758 TT-AAAAATAGAAA
1 TTGAAAAACAGAAA
10374771 TTGAAAAA
1 TTGAAAAA
10374779 ACCTCGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:10375025 original size:75 final size:72
Alignment explanation
Indices: 10374761--10375218 Score: 501
Period size: 75 Copynumber: 6.2 Consensus size: 72
10374751 ACAGAAATTA
* * * ** *
10374761 AAAATAGAAATTGAAAAAACCTCGGCATGTGAGCTGAGGCTCAACTCACCTCTCGCGATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
10374826 TGATTTTTTG
64 TGA-TTTTTG
* *
10374836 ACAAACAGAAGTTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
10374901 GATTTTCG
65 GATTTTTG
* *
10374909 AAAAC-GAAAATCAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10374973 GATTATTTTG
65 GA-T-TTTTG
* * * * *
10374983 AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
10375048 GAATTTTG
65 GATTTTTG
* * ** *
10375056 -AAACAGAAA-TAAAAATTATCTCAGCGTGTCCCAAAGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10375119 GATTTTTTTG
65 GA--TTTTTG
* * * * * * *
10375129 ACAAACA-ATAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAATTAACCTATAGCAATATGAAT
1 A-AAACAGA-AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
10375193 TGATTTTTG
64 TGATTTTTG
*
10375202 AAAACATAAATTGAAAA
1 AAAACAGAAATTGAAAA
10375219 ACAGAAATCG
Statistics
Matches: 326, Mismatches: 43, Indels: 31
0.81 0.11 0.08
Matches are distributed among these distances:
70 5 0.02
71 54 0.17
72 69 0.21
73 25 0.08
74 45 0.14
75 94 0.29
76 34 0.10
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTG
Found at i:10375095 original size:146 final size:146
Alignment explanation
Indices: 10374799--10375206 Score: 538
Period size: 146 Copynumber: 2.8 Consensus size: 146
10374789 GTGAGCTGAG
* * *
10374799 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTTTGACAAACAGAAGTTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCG
*
10374864 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACGAAAATCAAAATTAC
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACGAAAATAAAAATTAC
** *
10374929 CTCAGCGTGTCCTGAG
131 CTCAGCGTGTCCCAAA
*
10374945 GCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGA-AAGACAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGACAA-ACAGAAATTGAAAATACCTCAG
* * * *
10375009 CGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTT-G-AAAC-AGAAATAAAAA
64 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTCGAAAACGA-AAATAAAAA
*
10375071 TTATCTCAGCGTGTCCCAAA
127 TTACCTCAGCGTGTCCCAAA
10375091 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-ATAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAGA-AATTGAAAATACCTCAG
* * * * * * * *
10375155 CGTGCCCCGAGGCTCAATTAACCTATAGCAATATGAATTGATTTTTGAAAAC
64 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAAC
10375207 ATAAATTGAA
Statistics
Matches: 229, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
145 7 0.03
146 147 0.64
147 70 0.31
148 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (146 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCGAAAACGAAAATAAAAATTAC
CTCAGCGTGTCCCAAA
Found at i:10387767 original size:27 final size:28
Alignment explanation
Indices: 10387701--10387792 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 28
10387691 CGTACATACT
*
10387701 ATATATATACATATAATATAGTTATTAAGA
1 ATATATATACA-AT-ATATAGATATTAAGA
* *
10387731 AAATACATACAATATATA-ATATTAAGA
1 ATATATATACAATATATAGATATTAAGA
* *
10387758 ATATATATACAATACATATGGTATTAAGA
1 ATATATATACAATATATA-GATATTAAGA
10387787 A-ATATA
1 ATATATA
10387793 GTATTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.43
28 10 0.19
29 11 0.21
30 9 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATATATACAATATATAGATATTAAGA
Found at i:10388212 original size:20 final size:21
Alignment explanation
Indices: 10388164--10388209 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10388154 AGTATTAGAA
*
10388164 AAAAATATACTTGATATATAT
1 AAAAATATACTTAATATATAT
10388185 AAAAATATACTTAATA-ATAAT
1 AAAAATATACTTAATATAT-AT
10388206 AAAA
1 AAAA
10388210 TATTATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATATACTTAATATATAT
Found at i:10393153 original size:17 final size:17
Alignment explanation
Indices: 10393131--10393163 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10393121 CATCTCGCAT
*
10393131 TTTATTTCTTTTATTAC
1 TTTATTTATTTTATTAC
10393148 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
10393164 TTAATATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTAC
Found at i:10404613 original size:6 final size:6
Alignment explanation
Indices: 10404602--10404632 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10404592 CAAATATTGT
*
10404602 GGCAGG GGCAGG GGCAGG GACAGG GGCAGG G
1 GGCAGG GGCAGG GGCAGG GGCAGG GGCAGG G
10404633 TCGGTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.65, T:0.00
Consensus pattern (6 bp):
GGCAGG
Found at i:10410624 original size:1 final size:1
Alignment explanation
Indices: 10410618--10410648 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
10410608 AAAGTATACG
*
10410618 AAAAAAATAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10410649 GAGGAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:10410632 original size:11 final size:11
Alignment explanation
Indices: 10410590--10410645 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
10410580 TGATATCATG
*
10410590 AATAAATAAAA
1 AATAAAAAAAA
* *
10410601 AATAATAAAAG
1 AATAAAAAAAA
* **
10410612 TATACGAAAAA
1 AATAAAAAAAA
10410623 AATAAAAAAAA
1 AATAAAAAAAA
10410634 AA-AAAAAAAA
1 AATAAAAAAAA
10410644 AA
1 AA
10410646 AAAGAGGAGA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 10 0.29
11 25 0.71
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:10410686 original size:4 final size:4
Alignment explanation
Indices: 10410660--10411237 Score: 263
Period size: 4 Copynumber: 143.0 Consensus size: 4
10410650 AGGAGAGAGA
* *
10410660 GGAG GGAG AGAGAG GGAG AGAG GGAG GG-G GG-G GG-G GGGG GGAG GGAG
1 GGAG GGAG -G-GAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG
* * * * * * *
10410707 GG-G AGAG GGGG GGGG GGGG GGAG AGA- GGAG AGGA- GGAG AGAG AGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG -GGAG GGAG GGAG GGAG
* * * * * * * * *
10410753 GGAG GG-G GGGG GGGG GGGG GGGG GGGG GGGG GGGG GGGG GGGG GGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG
* * * * * *
10410800 AGAGG GGGG GGAG GGAG AGAGAG AGAG GG-G GGGG GGGG GAGAG GGGG
1 GGA-G GGAG GGAG GGAG -G-GAG GGAG GGAG GGAG GGAG G-GAG GGAG
* * * *
10410847 GGAG GGAG AGAG GGAG GAGAG GGA- GGAG AGAG AGAG AGAG GGAG GGAG
1 GGAG GGAG GGAG GGAG G-GAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG
* *
10410895 AGGAG AG-G GGAG GGAG GGAG AGGAGG GGAG GGGG GGA- GGAG GG-G GG-G
1 -GGAG GGAG GGAG GGAG GGAG -GGA-G GGAG GGAG GGAG GGAG GGAG GGAG
* *
10410942 GGA- GGAG GGAG GGAG AGAGAG GG-G AGAG GGAGG GGAG GGGG GAGAG
1 GGAG GGAG GGAG GGAG -G-GAG GGAG GGAG GGA-G GGAG GGAG G-GAG
*
10410988 GGAG GGAG AG-G GGAGG GGAG GGAG GGAGG GGAG GGA- -GAG GGAGG GGAG
1 GGAG GGAG GGAG GGA-G GGAG GGAG GGA-G GGAG GGAG GGAG GGA-G GGAG
* * *
10411036 AGAG GG-G GAGAG GGAG GGAG AGAGAG AGAG GGAG GGTG GGAG AGAGAG
1 GGAG GGAG G-GAG GGAG GGAG -G-GAG GGAG GGAG GGAG GGAG -G-GAG
* * * * *
10411084 GGAG GGTG GGAG AGAG AGAG GG-G GGGG GGAG AGA- GGAG GGAG AGG-G
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG -GGAG
* *
10411130 AGAG GGAG GGA- -GAG GGAG GGAG GG-G GGAG GGAGG GGAGG GTGAG AGAG
1 GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGAG GGA-G GGA-G G-GAG GGAG
* * *
10411178 AGAG GGAG AGAG GGAG AGAGAG GGGG GGAG AGAGAG GGAG AGG-G GGAG
1 GGAG GGAG GGAG GGAG -G-GAG GGAG GGAG -G-GAG GGAG -GGAG GGAG
*
10411226 AGAG GGAG GGAG
1 GGAG GGAG GGAG
10411238 AGAGAGTGAT
Statistics
Matches: 462, Mismatches: 58, Indels: 108
0.74 0.09 0.17
Matches are distributed among these distances:
2 4 0.01
3 56 0.12
4 311 0.67
5 67 0.15
6 24 0.05
ACGTcount: A:0.26, C:0.00, G:0.73, T:0.01
Consensus pattern (4 bp):
GGAG
Found at i:10410691 original size:1 final size:1
Alignment explanation
Indices: 10410685--10410727 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
10410675 GAGAGAGGGA
* * * *
10410685 GGGGGGGGGGGGGGGGAGGGAGGGGAGAGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10410728 AGAGAGGAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.09, C:0.00, G:0.91, T:0.00
Consensus pattern (1 bp):
G
Found at i:10410810 original size:1 final size:1
Alignment explanation
Indices: 10410756--10410797 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
10410746 GAGAGAGGGA
10410756 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10410798 AGAGAGGGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:10411065 original size:68 final size:67
Alignment explanation
Indices: 10410651--10411241 Score: 359
Period size: 66 Copynumber: 9.0 Consensus size: 67
10410641 AAAAAAAAGA
* * * *
10410651 GGAGAGAGA-GGAGGGAGAGAGAGGGAGAGAGGGAGGG-GGG-GGGGGGGGGGAGGGAGGGGAGA
1 GGAGAGGGAGGGAGAGAGAGAGAGGG-GAG-GGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGA
10410713 GGGG
64 GGGG
* * * * * * * *
10410717 GG-GGGGGGGGGAGAGAG-GAGAGGAGGA-GAGAGAGAGGGAGGGG-GGG-GGGGGGGGGGGGGG
1 GGAGAGGGAGGGAGAGAGAGAGAGG-GGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGAG
10410777 GGG
65 GGG
* * * * * * * * * *
10410780 GGGGGGGGGGGGGGGGGGAGAGAGGGG-GGGGAGGGAGAGAGAGAGAGGG-GGGGGGGGGGAGAG
1 GGAGAGGGAGGGAGAGAGAGAGAGGGGAGGGGAGGGAGGGAG-GGGAGGGAGAGGGAGGGGAGAG
10410843 GGG
65 GGG
* * * * *
10410846 GG-GAGGGAGAGAGGGAG-GAGA-GGGAGGAGAGAGAGAGAGAGGGAGGGAGAGGAGAGGGGAG-
1 GGAGAGGGAGGGAGAGAGAGAGAGGGGAGGGGAGGGAGGGAG-GGGAGGGAGAGG-GAGGGGAGA
*
10410907 GGAG
64 GGGG
* * * *
10410911 GGAGA-GGAGGG-GAGGGGGGGAGGAGG-GGGG-GGGA-GGA-GGGAGGGAGAGAGAGGGGAGAG
1 GGAGAGGGAGGGAGAGAGAGAGAGG-GGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGAG
10410970 GGAG
65 GG-G
*
10410974 GG-GAGGG-GGGAGAGGGAGGGAGAGGGGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGA
1 GGAGAGGGAGGGAGA--GAGAGAGAGGGGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGA
10411037 GAGGG
64 G-GGG
* * *
10411042 GGAGAGGGAGGGAGAGAGAGAGAGGGAGGGTGGGAGAGAGAGGGA-GGGTGGGAGAGAGAGAGGG
1 GGAGAGGGAGGGAGAGAGAGAGAGGG-GAG-GGGAG-G-GAGGGAGGGGAGGGAGAGGGAG-GGG
10411106 -G-GGGG
61 AGAGGGG
10411111 GGAGAGAGGAGGGAGAG-G-GAGA-GGGAGGGAGAGGGAGGGAGGGGGGAGGGAG-GGGAGGGTG
1 GGAGAG-GGAGGGAGAGAGAGAGAGGGGAGGG-GAGGGAGGGA--GGGGAGGGAGAGGGAGGG-G
10411172 AGA---G
61 AGAGGGG
* * * *
10411176 AGAGAGGGAGAGAGGGAGAGAGAGGGG-GGGAGAGAGAGGGAGAGGG-GGAGAGAGGGAGGGAGA
1 GGAGAGGGAGGGAGAGAGAGAGAGGGGAGGG-GAGGGAGGGAG-GGGAGG-GAGAGGGAGGG-GA
10411239 GAG
62 GAG
10411242 AGTGATCTAG
Statistics
Matches: 422, Mismatches: 54, Indels: 97
0.74 0.09 0.17
Matches are distributed among these distances:
61 8 0.02
62 18 0.04
63 30 0.07
64 77 0.18
65 82 0.19
66 85 0.20
67 19 0.05
68 38 0.09
69 19 0.05
70 22 0.05
71 15 0.04
72 9 0.02
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.01
Consensus pattern (67 bp):
GGAGAGGGAGGGAGAGAGAGAGAGGGGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGAGG
GG
Found at i:10411067 original size:92 final size:92
Alignment explanation
Indices: 10410801--10411243 Score: 375
Period size: 90 Copynumber: 4.9 Consensus size: 92
10410791 GGGGGGGAGA
* *
10410801 GAGGG-GGGGGAGGGAGAGAGA-GAGAGGGG-GGG-GGGGGGAGAGGG-G-GGGA-GGGAGAGAG
1 GAGGGTGGGAGAGGGAGGGAGAGGAGAGGGGAGGGAGGGGGG-GAGGGAGAGGGAGGGGAGAGAG
10410859 GGAGGAGAGGGA-GGAGAGAGAGAGAGAGG
65 GG-GGAGAGGGAGGGAGAGAGAGAGAG-GG
* * *
10410888 GAGGGAGAGGAGAGGGGAGGGAG-GGAGAGGAG-GGGAGGGGGGGA-GGAG-GGGGGGGGAG-GA
1 GAGGGTG-GGAGA-GGGAGGGAGAGGAGAGGGGAGGGAGGGGGGGAGGGAGAGGGAGGGGAGAGA
*
10410948 GGGAGGGAGAGAGAGGG-GAGAG-G-GAGGG
64 -GG-GGGAGAGGGAGGGAGAGAGAGAGAGGG
*
10410976 GAGGG-GGGAGAGGGAGGGAGAGGGGAGGGGAGGGAGGGAGGGGAGGGAGAGGGAGGGGAGAGAG
1 GAGGGTGGGAGAGGGAGGGAGAGGAGAGGGGAGGGAGGG-GGGGAGGGAGAGGGAGGGGAGAGAG
10411040 GGGGAGAGGGAGGGAGAGAGAGAGA-GG
65 GGGGAGAGGGAGGGAGAGAGAGAGAGGG
* * * *
10411067 GAGGGTGGGAGAGAGAGGGAGGGTGGGAGAGAGAGAGGG-GGGGGGGAGAGAGGAGGGAGAGGGA
1 GAGGGTGGGAGAGGGAGGGA--G-AGGAGAG-GGGAGGGAGGGGGGGAGGGA-GAGGGAG-GGGA
* * *
10411131 GAG-GGAGGGAGAGGGAGGGAGGGGGGAGGGAGGG
60 GAGAGG-GGGAGAGGGAGGGA-GAGAGAGAGAGGG
* * * *
10411165 GAGGGTGAGAGAGAGAGGGAGA-GAG-GGAGAGAGAGGGGGGGA--GAGA--GA-GGGAGAG-GG
1 GAGGGTGGGAGAGGGAGGGAGAGGAGAGGGGAGGGAGGGGGGGAGGGAGAGGGAGGGGAGAGAGG
10411222 GGAGAGAGGGAGGGAGAGAGAG
66 GG-GAGAGGGAGGGAGAGAGAG
10411244 TGATCTAGAT
Statistics
Matches: 303, Mismatches: 22, Indels: 64
0.78 0.06 0.16
Matches are distributed among these distances:
85 16 0.05
86 33 0.11
87 13 0.04
88 15 0.05
89 25 0.08
90 45 0.15
91 38 0.13
92 24 0.08
93 9 0.03
94 12 0.04
95 17 0.06
96 28 0.09
97 7 0.02
98 21 0.07
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.01
Consensus pattern (92 bp):
GAGGGTGGGAGAGGGAGGGAGAGGAGAGGGGAGGGAGGGGGGGAGGGAGAGGGAGGGGAGAGAGG
GGGAGAGGGAGGGAGAGAGAGAGAGGG
Found at i:10411178 original size:2 final size:2
Alignment explanation
Indices: 10411171--10411243 Score: 56
Period size: 2 Copynumber: 36.5 Consensus size: 2
10411161 AGGGGAGGGT
* * * * *
10411171 GA GA GA GA GA GG GA GA GA GG GA GA GA GA GG GG GG GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
10411213 GG GA GA GG GG GA GA GA GG GA GG GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
10411244 TGATCTAGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10412582 original size:5 final size:6
Alignment explanation
Indices: 10412566--10412590 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10412556 AATAAAAATG
10412566 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
10412591 CTTATATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:10414993 original size:22 final size:23
Alignment explanation
Indices: 10414968--10415019 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
10414958 AATTTCATCC
10414968 TCAATATAC-AAGCCAAAA-CATA
1 TCAA-ATACTAAGCCAAAATCATA
*
10414990 TCAAATCCTAAGCCAAAATCATA
1 TCAAATACTAAGCCAAAATCATA
*
10415013 CCAAATA
1 TCAAATA
10415020 TGAGTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.52, C:0.25, G:0.04, T:0.19
Consensus pattern (23 bp):
TCAAATACTAAGCCAAAATCATA
Found at i:10424079 original size:24 final size:24
Alignment explanation
Indices: 10424043--10424096 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
10424033 TCTTTTTAAA
* * *
10424043 ATATATAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
10424067 ATATTTAGAATTTATTAGCATAAT
1 ATATTTAGAATTTATTAGCATAAT
10424091 ATATTT
1 ATATTT
10424097 GACATTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:10431430 original size:40 final size:40
Alignment explanation
Indices: 10431385--10431478 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
10431375 CGGTTTTTGT
*
10431385 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTGTATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
* * *
10431425 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
*
10431465 TGGCACTTAATGTG
1 TGGCACTTAGTGTG
10431479 GAATTTGAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
Found at i:10431492 original size:40 final size:40
Alignment explanation
Indices: 10431421--10431543 Score: 158
Period size: 40 Copynumber: 3.0 Consensus size: 40
10431411 GCTCCAGCTG
* * *
10431421 TATATGGCACTTAGTGTGCG-ATTCGACATAGCTTCGGCTA
1 TATATGGCACTTAATGTG-GAATTTGAGATAGCTTCGGCTA
10431461 TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
1 TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
* * *
10431501 TGTACGACACACTTAATGTGGAATTTGAGATAGCTTCGGCTA
1 TATATG--GCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
10431543 T
1 T
10431544 GTACGACACT
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 39 0.53
42 34 0.46
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (40 bp):
TATATGGCACTTAATGTGGAATTTGAGATAGCTTCGGCTA
Found at i:10431523 original size:42 final size:42
Alignment explanation
Indices: 10431468--10431552 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
10431458 CTATATATGG
10431468 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
10431510 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
10431552 C
1 C
10431553 TTAGTGTGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
Found at i:10435533 original size:23 final size:25
Alignment explanation
Indices: 10435502--10435573 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
10435492 TGAGTTGCCA
* **
10435502 TATATCAGGAAGTTCA-AGCGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
10435526 -ATATCAGGAAGCTCACAAAGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
* *
10435550 TATATCAGGATGCTCATAAAGAGC
1 TATATCAGGAAGCTCACAAAGAGC
10435574 TGCGGTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 21 0.51
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
TATATCAGGAAGCTCACAAAGAGCC
Found at i:10435636 original size:64 final size:64
Alignment explanation
Indices: 10435550--10435677 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
10435540 ACAAAGAGCC
* * * * * * * * * *
10435550 TATATCAGGATGCTCATAAAGAGCTGCGGTATGTTCGCAATACATGCAGGATCAATACTGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
10435614 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
10435678 AGGTGCTCAC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
Found at i:10437178 original size:5 final size:6
Alignment explanation
Indices: 10437163--10437203 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
10437153 ATTATATGTT
*
10437163 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
10437204 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:10437191 original size:20 final size:21
Alignment explanation
Indices: 10437168--10437217 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
10437158 ATGTTTTTTT
* *
10437168 ATTTTTATTTTTATTT-TTAG
1 ATTTTTATTGTTATTTATTAA
10437188 ATTTTTATTGTTATTTATTAA
1 ATTTTTATTGTTATTTATTAA
10437209 ATTATTTAT
1 ATT-TTTAT
10437218 AATTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.58
21 6 0.23
22 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTATTGTTATTTATTAA
Found at i:10439688 original size:46 final size:46
Alignment explanation
Indices: 10439638--10439737 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
10439628 AGCCGGATCG
*
10439638 GTAAGCTCCAATGGGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
** * *
10439684 GTAAGCTATAATGAGCTAAAATAGTAAGCTCTTACGAGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
10439730 GTAAGCTC
1 GTAAGCTC
10439738 ATACGAGCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (46 bp):
GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
Found at i:10439689 original size:23 final size:23
Alignment explanation
Indices: 10439663--10439747 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
10439653 CTAAAATAGA
*
10439663 AAGCTCTTACAAGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
* * * *
10439686 AAGCTATAATGAGCTAAAAT-AGT
1 AAGCTCTTACGAGCT-GAATCAGT
10439709 AAGCTCTTACGAGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
*
10439732 AAGCTCATACGAGCTG
1 AAGCTCTTACGAGCTG
10439748 TGGTGAGTCC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 3 0.06
23 44 0.88
24 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
AAGCTCTTACGAGCTGAATCAGT
Found at i:10452037 original size:25 final size:25
Alignment explanation
Indices: 10452009--10452057 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
10451999 AGGGATCACA
10452009 CGATAGGTACACTTGCCTACCCTCG
1 CGATAGGTACACTTGCCTACCCTCG
10452034 CGATAGGTACACTTGCCTACCCTC
1 CGATAGGTACACTTGCCTACCCTC
10452058 ATGATAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.37, G:0.18, T:0.24
Consensus pattern (25 bp):
CGATAGGTACACTTGCCTACCCTCG
Found at i:10452063 original size:25 final size:25
Alignment explanation
Indices: 10452007--10452063 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
10451997 TTAGGGATCA
10452007 CACGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
10452032 CGCGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
10452057 CATGATA
1 CACGATA
10452064 ATAGTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (25 bp):
CACGATAGGTACACTTGCCTACCCT
Found at i:10480232 original size:54 final size:54
Alignment explanation
Indices: 10480150--10480304 Score: 224
Period size: 53 Copynumber: 2.9 Consensus size: 54
10480140 AGGGAAGGAA
*
10480150 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTGTAAAAAAAAAT-AAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACT-CAAAAAAAAATGAAAAGG
* * *
10480204 GCCAAAGTGTAAACCCGCAAAGGGCACTTTGAGAC-CAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAAAAAAAAATGAAAAGG
*
10480257 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTCAATAATAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAA-AA-AAAAA
10480305 AGGGAAAAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
52 9 0.10
53 38 0.42
54 37 0.41
55 1 0.01
56 5 0.06
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (54 bp):
GCCAAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAAAAAAAAATGAAAAGG
Found at i:10481869 original size:44 final size:43
Alignment explanation
Indices: 10481828--10481928 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
10481818 ATCAGCAATG
**
10481828 GAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAGA
1 GAGCAGATTGAAG-AACAAGCCTTATCTTTCTGAGGTAGCAAGA
* ** * *
10481872 GAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGA
1 GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
*
10481915 AAGCAGATTGAAGA
1 GAGCAGATTGAAGA
10481929 TTGAAGATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
43 36 0.75
44 12 0.25
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (43 bp):
GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
Found at i:10481913 original size:43 final size:45
Alignment explanation
Indices: 10481849--10481952 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 45
10481839 AGCCCCAAGC
* *
10481849 CTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AG-T
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
* *
10481892 CTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGATTGAAGAT
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
**
10481937 CTTATCTCCCTGAGGT
1 CTTATCTTTCTGAGGT
10481953 TACAACGGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 36 0.68
44 2 0.04
45 15 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (45 bp):
CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
Found at i:10482147 original size:176 final size:174
Alignment explanation
Indices: 10481405--10482190 Score: 792
Period size: 176 Copynumber: 4.5 Consensus size: 174
10481395 TGGTGAAAAC
* * *
10481405 TGAAGATCTCATCTCCCTGAAGTTGCAGCAGAGCAGATC-AAAGATGGTGAATCTTATCTCCATG
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAG-TGATCGAAA-ATGGCGAATCTTATCTCCATG
* * * *
10481469 TAAT-GGCAATGGAGCAGATTTTACCACCAGCCTTATCTCTTTGAGGTAACAATAGAGCAGGTTG
64 T-ATCAGCAATGGAGCAGATTTTACCA-CAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTG
* * * *
10481533 AAGAATTGAGTCTTATCTCCCTAAGGTTGCAATG-AAGCAGACTGAA-AA
127 AAGAA-TGAGTCTTATCTTCCTGAGGTAGCAA-GAAAGCAGACTGAAGAT
* * ** * *
10481581 TCACAGAT-TTA-CCCCCT-AAGTAACAGTAGAGTAGATCGAATATGGCGAATCTTATCTCCATG
1 TGA-AGATCTTATCTCCCTGAAGTTGCAGCAGAGT-GATCGAAAATGGCGAATCTTATCTCCATG
* * *
10481643 TATCGGTAATGGAGCA-AATTTA--A-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
64 TATCAGCAATGGAGCAGATTTTACCACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* * * * *
10481704 GAGTAAGTCTTATCTTCTTGAGGTAGTAAGAAAACAGACT-AAGAAT
129 GAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAG-AT
* * * * * *
10481750 TGAAGATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATTATTGAAGATGGC-AAGTCTTATCTCT
1 TGAAGATCTTATCTCCCTGAAGTTGCAGC--AG-AG-TGATCGAAAATGGCGAA-TCTTATCTCC
** * *
10481814 ATGTATCAGCAATGGAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAGAGAGCAGG
61 ATGTATCAGCAATGGAGCAGATTTTA-CCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGG
* * *
10481879 TTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGAT
124 TTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
* * * * *
10481930 TGAAGATCTTATCTCCCTGAGGTTACAACGGAGTGGATCGAAAATGGTGAATCTTATCTCCATGT
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAGT-GATCGAAAATGGCGAATCTTATCTCCATGT
** *
10481995 ATCAGCAATATAGTAGATTTTACCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
65 ATCAGCAATGGAGCAGATTTTACCAC-AGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAA
* * *
10482060 GAATGAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGTT
129 GAATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
* * * *
10482106 TGAAAATCTTATTTCCCTGAAGTTGCAGCAGAGCTGATCGAAGAA-GGCAAATCTTATATCCATG
1 TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAG-TGATCGAA-AATGGCGAATCTTATCTCCATG
*
10482170 TA-CAGGTAATGGAGCAGATTT
64 TATCA-GCAATGGAGCAGATTT
10482191 AAGCCAGTCC
Statistics
Matches: 498, Mismatches: 85, Indels: 54
0.78 0.13 0.08
Matches are distributed among these distances:
167 3 0.01
168 32 0.06
169 43 0.09
170 5 0.01
171 8 0.02
173 11 0.02
174 85 0.17
175 13 0.03
176 149 0.30
177 48 0.10
178 3 0.01
180 95 0.19
181 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (174 bp):
TGAAGATCTTATCTCCCTGAAGTTGCAGCAGAGTGATCGAAAATGGCGAATCTTATCTCCATGTA
TCAGCAATGGAGCAGATTTTACCACAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGA
ATGAGTCTTATCTTCCTGAGGTAGCAAGAAAGCAGACTGAAGAT
Found at i:10487818 original size:27 final size:27
Alignment explanation
Indices: 10487781--10487849 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
10487771 GTCATACATA
* * *
10487781 TCATAGAGGTATATCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
10487808 TCATAGGGGTATAACAGTCACTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
10487835 TCATAGGGGTATAAC
1 TCATAGGGGTATAAC
10487850 GATCATTCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCACTTTACC
Found at i:10488440 original size:20 final size:20
Alignment explanation
Indices: 10488415--10488455 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10488405 TTAACACTTA
10488415 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
10488435 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
10488455 A
1 A
10488456 CCTGCCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTCCCAACTAATAATTATT
Found at i:10495461 original size:27 final size:27
Alignment explanation
Indices: 10495410--10495482 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
10495400 GTCATACATA
* * *
10495410 TCATAGGGGTATATCAATCATTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
*
10495437 TCATAGGGGTATAACAGTTACTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
* *
10495464 T-TTAGGAGTATAACAGTCA
1 TCATAGGGGTATAACAGTCA
10495483 TTTCATCAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 15 0.38
27 24 0.62
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCACTTTACC
Found at i:10499249 original size:23 final size:23
Alignment explanation
Indices: 10499215--10499363 Score: 120
Period size: 23 Copynumber: 6.5 Consensus size: 23
10499205 GAGCTGATGG
*
10499215 ACAGTAAACTCTAATGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* * *
10499238 ACGGTAAGCTCTATTGAGTTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
*** * *
10499261 TTGGTAAGCTCCAATAAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* * *
10499284 ATAGTAAGCTCTTACGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
* *
10499307 TCCA-TAAGCTCCAATGAGCTGAA
1 -ACAGTAAGCTCTAATGAGCTGAA
* * *
10499330 ACAATAAGCTCTTACGAGCTGAA
1 ACAGTAAGCTCTAATGAGCTGAA
*
10499353 TCAGTAAGCTC
1 ACAGTAAGCTC
10499364 ATAGAGCTGT
Statistics
Matches: 97, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
22 2 0.02
23 94 0.97
24 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (23 bp):
ACAGTAAGCTCTAATGAGCTGAA
Found at i:10499283 original size:46 final size:46
Alignment explanation
Indices: 10499265--10499363 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 46
10499255 GTTGAATTGG
*
10499265 TAAGCTCCAATAAGCTGAAATAGTAAGCTCTTACGAGCTGAATCCA
1 TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
* *
10499311 TAAGCTCCAATGAGCTGAAACAATAAGCTCTTACGAGCTGAAT-CA
1 TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
10499356 GTAAGCTC
1 -TAAGCTC
10499364 ATAGAGCTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
45 2 0.04
46 47 0.96
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGCTCCAATAAGCTGAAACAGTAAGCTCTTACGAGCTGAATCCA
Found at i:10504988 original size:32 final size:30
Alignment explanation
Indices: 10504930--10505027 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
10504920 TAAGATTATT
10504930 TTTATATTAATT--TTAATATTTA-AAATACAA
1 TTTATATTAATTACTTAA-ATTTATAAAT--AA
*
10504960 TTTATA-TATTTTACTTAAATTTATAAATAA
1 TTTATATTA-ATTACTTAAATTTATAAATAA
* *
10504990 TTTATATTAATTACTTAAAATTATTTAA-AA
1 TTTATATTAATTACTTAAATTTA-TAAATAA
10505020 TTTATATT
1 TTTATATT
10505028 TCATATACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
29 2 0.03
30 38 0.66
31 10 0.17
32 8 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATATTAATTACTTAAATTTATAAATAA
Found at i:10507750 original size:2 final size:2
Alignment explanation
Indices: 10507734--10507767 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
10507724 TTTATATTAG
*
10507734 TA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10507768 TTCTAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10509056 original size:131 final size:131
Alignment explanation
Indices: 10508815--10509063 Score: 383
Period size: 131 Copynumber: 1.9 Consensus size: 131
10508805 TAATCATTCA
* * * * * *
10508815 AAAATTCTTCGAAACGAAGATGAGATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
*
10508880 TGGGTTGCAATATCGTGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATATCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
10508945 T
131 T
*
10508946 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCTTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
10509011 TGGGTTGCAATTTCGCGTTTGCTC-AAAGTAATCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATATCGCGTTTGCTCGAAA-TAATCGAATATCACTTCAAAATTTC
10509064 CTTTCATATC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
130 3 0.03
131 103 0.97
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATATCGCGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:10520059 original size:180 final size:174
Alignment explanation
Indices: 10519683--10520346 Score: 695
Period size: 180 Copynumber: 3.7 Consensus size: 174
10519673 ATTCACCATT
* * * *
10519683 TTCAATCTACAGTCTGCTTCTTTGCTACCTCAAGAAGATAAGACTCCCTTTTTAACCTGCTCTCT
1 TTCAATCT-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATTTTCAACCTGCTCTCT
* * *
10519748 TG-TCACCTCAAAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACAT-GAAGATAGG
65 TGCT-ACCTCAGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAA-ATAAG
10519811 ATTCACCATTCTC-GATCTGCTCCGCTGCAACTTCAGGGAGATAAAATC
128 ATTCACCA-TCTCAGATCTGCTCCGCTGCAAC-TCAGGGAGATAAAATC
* * * * *
10519859 TTCAATTCCCATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACT-TATTCTTCAACCTGCTCTC
1 TTCAA-TCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATT-TTCAACCTGCTCTC
* * * * *
10519923 TTACTACGTCAGAGAAATAAGGTTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAG
64 TTGCTACCTCAGAGAAATAAGG-CTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAATAAG
*
10519988 ATTCACCATCTGCAAAGATCTACTCCGCTGCAATCTCAGGGAGATAAAATC
128 ATTCACCATCT-C--AGATCTGCTCCGCTGCAA-CTCAGGGAGATAAAATC
* * *
10520039 TTCAATTCTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACT-CATCTTTCAACTTGCTCTC
1 TTCAA-TCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCAT-TTTCAACCTGCTCTC
* * * * * *
10520103 TTGCTACCTCAGAGAGATAAGGCCAATAGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAG
64 TTGCTACCTCAGAGAAATAAGGCTAGT-GGTAAAATCTGCTCCATTGCCGATACATGGAAATAAG
* * *
10520168 ATTCGCCATCCTCA-ATCTGCTCCG-T--AACTACCTAGGGAAATAAGATC
128 ATTCACCAT-CTCAGATCTGCTCCGCTGCAACT--C-AGGGAGATAAAATC
* * * *
10520215 TGT-AATCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTCT
1 T-TCAATC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CCATTTTCAACCTGCTCT
* *
10520279 CTTGCTACCTCAGAGAGATAAGGTCAATAGT--TAAAATCTGCTCCATTGCCGATACATGGAGAT
63 CTTGCTACCTCAGAGAAATAAGG-C--TAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAAT
10520342 AAGAT
125 AAGAT
10520347 CTGTAAATTC
Statistics
Matches: 414, Mismatches: 51, Indels: 45
0.81 0.10 0.09
Matches are distributed among these distances:
173 2 0.00
174 2 0.00
175 5 0.01
176 117 0.28
177 127 0.31
178 7 0.02
179 1 0.00
180 149 0.36
181 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (174 bp):
TTCAATCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCCATTTTCAACCTGCTCTCTT
GCTACCTCAGAGAAATAAGGCTAGTGGTAAAATCTGCTCCATTGCCGATACATGGAAATAAGATT
CACCATCTCAGATCTGCTCCGCTGCAACTCAGGGAGATAAAATC
Found at i:10520297 original size:177 final size:174
Alignment explanation
Indices: 10519683--10520346 Score: 696
Period size: 177 Copynumber: 3.7 Consensus size: 174
10519673 ATTCACCATT
* * * *
10519683 TTCAA-TCTACAGTCTGCTTCTTTGCTACCTCAAGAAGATAAGACTCCCTTTTTAACCTGCTCTC
1 TTCAATTCT-CAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CATTTTCAACCTGCTCTC
* * * * * *
10519747 TTG-TCACCTCAAAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGG
64 TTGCT-ACCTCAGAGAAATAAGGCCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAG
*
10519811 ATTCACCATTCTCGATCTGCTCCGCTGCAACT-TC-AGGGAGATAAAATC
128 ATTCACCA-TCTCAATCTGCTCCGCT--AACTATCTAGGGAGATAAAATC
* * * * *
10519859 TTCAATTCCCATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTTATTCTTCAACCTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATT-TTCAACCTGCTCTCT
* * **** * *
10519924 TACTACGTCAGAGAAATAAGGTTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAGA
65 TGCTACCTCAGAGAAATAAGG-CCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* * *
10519989 TTCACCATCTGCAAAGATCTACTCCGCT-GCAATCTCAGGGAGATAAAATC
129 TTCACCATCT-C--A-ATCTGCTCCGCTAACTATCT-AGGGAGATAAAATC
* * *
10520039 TTCAATTCTCAGTTTGCTTCCTTACTACCTCAGGAAGATAAGACTCATCTTTCAACTTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAT-TTTCAACCTGCTCTCT
* * *
10520104 TGCTACCTCAGAGAGATAAGGCCAATAGCTAAAATTTGCTCCATTGCCGATACATGGAGATAAGA
65 TGCTACCTCAGAGAAATAAGGCCAAT-GGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* * * *
10520169 TTCGCCATCCTCAATCTGCTCCG-TAACTACCTAGGGAAATAAGATC
129 TTCACCAT-CTCAATCTGCTCCGCTAACTATCTAGGGAGATAAAATC
* * *
10520215 TGT-AA-TCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTC
1 T-TCAATTC-TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-C-ATTTTCAACCTGCTC
* * *
10520278 TCTTGCTACCTCAGAGAGATAAGGTCAATAGTTAAAATCTGCTCCATTGCCGATACATGGAGATA
62 TCTTGCTACCTCAGAGAAATAAGGCCAAT-GGTAAAATCTGCTCCATTGCCGATACATGGAGATA
10520343 AGAT
126 AGAT
10520347 CTGTAAATTC
Statistics
Matches: 411, Mismatches: 58, Indels: 37
0.81 0.11 0.07
Matches are distributed among these distances:
175 4 0.01
176 117 0.28
177 141 0.34
178 5 0.01
179 1 0.00
180 140 0.34
181 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (174 bp):
TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCATTTTCAACCTGCTCTCTT
GCTACCTCAGAGAAATAAGGCCAATGGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
CACCATCTCAATCTGCTCCGCTAACTATCTAGGGAGATAAAATC
Found at i:10520429 original size:44 final size:45
Alignment explanation
Indices: 10520313--10520435 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 45
10520303 CAATAGTTAA
* * *
10520313 AATCTGCTCCATTGCCGATACATGGAGATAAGATCTGTAAATTCC
1 AATCTGCTCCATTGCTGATACATGGAGATAAGATCTCTAAAGTCC
* * **
10520358 AGTCTGCTTCC-TTGCT-ACCT-CAGGGAGATAAGA-CTACTATCGT-C
1 AATCTGC-TCCATTGCTGA--TACATGGAGATAAGATCT-CTAAAGTCC
10520402 AATCTGCTCCATTGCTGATACATGGAGATAAGAT
1 AATCTGCTCCATTGCTGATACATGGAGATAAGAT
10520436 TTGTCTTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
43 4 0.07
44 27 0.44
45 26 0.43
46 4 0.07
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
AATCTGCTCCATTGCTGATACATGGAGATAAGATCTCTAAAGTCC
Found at i:10520665 original size:234 final size:235
Alignment explanation
Indices: 10520212--10520673 Score: 515
Period size: 234 Copynumber: 2.0 Consensus size: 235
10520202 GGGAAATAAG
* * * * * *
10520212 ATCTGTAATCTTCGGTCTGCTTTCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCT
1 ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATTTTCAACCTGCC
*
10520277 CTCTTGCTACCTCAGAGAGATAAGGTCAATAGTTAAAATCTGCTCCATTGCCGATACATGGAGAT
66 CTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGAT
*** *
10520342 AAGATCTGTAAATTCCAGTCTGCTTCCTTGCTACCTCAGGGAGATAAGACTACTATCGTCAATCT
131 AAGATCACCAAATTCCAGTCTGCTTCC-TGCTACCTCAGGGAGATAAGACTACAATCGTCAATCT
* * * *
10520407 GCTCCATTGCTGATACATGGAGATAAGATTTGTCTTTTCCA
195 GCTCCACTGCTAATACAGGGAGATAAGACTTGTCTTTTCCA
* *
10520448 ATCTTTAATCTTCAGTCCGCTTTCTTACTGCCTCAGAAAGATAAGACT-C-ATTCTTCAACCTGC
1 ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATT-TTCAACCTGC
*** *
10520511 CCTCTTGCTACCTCAGAGAGATAAGGTTGGT-GGTAAAATCTGCTCTATTGCCGATACATGGAGA
65 CCTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGA
** ** * * * * *
10520575 TAAGATTCACCATCTTTGA-TCTGC-TCC-GCTACTGCTTAGGGTGATAAGATCTTCAATCTTTA
130 TAAGA-TCACCAAATTCCAGTCTGCTTCCTGCTAC--CTCAGGGAGATAAGA-CTACAATCGTCA
* **
10520637 GTCTGCTCCACTGC-AACTTTAGGGAGATAAGACTTGT
191 ATCTGCTCCACTGCTAA-TACAGGGAGATAAGACTTGT
10520674 ATATTGAGAC
Statistics
Matches: 187, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
231 5 0.03
233 17 0.09
234 80 0.43
235 44 0.24
236 41 0.22
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (235 bp):
ATCTGTAATCTTCAGTCCGCTTTCTTACTACCTCAGAAAGATAAGACTACAATTTTCAACCTGCC
CTCTTGCTACCTCAGAGAGATAAGGTCAATAGGTAAAATCTGCTCCATTGCCGATACATGGAGAT
AAGATCACCAAATTCCAGTCTGCTTCCTGCTACCTCAGGGAGATAAGACTACAATCGTCAATCTG
CTCCACTGCTAATACAGGGAGATAAGACTTGTCTTTTCCA
Found at i:10520958 original size:64 final size:64
Alignment explanation
Indices: 10520855--10521109 Score: 411
Period size: 64 Copynumber: 4.0 Consensus size: 64
10520845 TGTATCATGT
* * * *
10520855 TTATGCCAAATAATTAGGATGTTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* *
10520919 TTATGTCAACTAATTAGAATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* *
10520983 TTATGTCAAATTATTGGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* * *
10521047 TTATGTCAAATAATTAGGATGCTGTGATTAAAATGAATCAAATGCACCTAATTAGATGTGATG
1 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATG
10521110 AATGATATAT
Statistics
Matches: 176, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 176 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
Found at i:10522962 original size:9 final size:9
Alignment explanation
Indices: 10522941--10522981 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
10522931 ATTAGCAACC
10522941 TTTTTCTTT-
1 TTTTT-TTTG
10522950 TTTTTTTTG
1 TTTTTTTTG
10522959 TTTTTTTTG
1 TTTTTTTTG
10522968 TTTTTTTTG
1 TTTTTTTTG
10522977 TTTTT
1 TTTTT
10522982 GGAATTTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 3 0.10
9 28 0.90
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:10533810 original size:44 final size:44
Alignment explanation
Indices: 10533747--10534281 Score: 700
Period size: 44 Copynumber: 12.2 Consensus size: 44
10533737 GGCGAATCCT
* *
10533747 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* ** *
10533791 GCAGATTTGGCATCTCTGTATCGATAGGGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* **
10533835 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10533879 GC-GTATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAG-ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
10533923 GCAGATTTGTCGTCTCTAT-TTCGGCAGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAA-GATA
* *
10533967 ACAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10534011 GCAGATTTGGCGTCTCTATATTGGCGGAGAGCAGATCGAGGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
10534055 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10534099 GCAGATTTGGCATCTCTGTGTTGACATAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10534143 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
10534187 GCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
10534230 GACGGATTTGGCATCTCTGTATGGGCAGAGAGCAGATCAAAAATA
1 G-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
10534275 ACAGATT
1 GCAGATT
10534282 GGTGTTCCCG
Statistics
Matches: 429, Mismatches: 54, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
43 6 0.01
44 418 0.97
45 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:10537345 original size:131 final size:131
Alignment explanation
Indices: 10537167--10537415 Score: 419
Period size: 131 Copynumber: 1.9 Consensus size: 131
10537157 TAATCATTCA
* * *
10537167 AAAATTCTTCAAAACGAAGATGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* *
10537232 TGGGTTGCAATTTCGTGTTTGCTCGAAA-TAATCGAATATCACTTCAAAATTTCACTCATGTCTT
66 TGGGTTGCAATTTCATGTTTGCTC-AAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTT
10537296 TT
130 TT
10537298 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* *
10537363 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTC
10537416 CTTTCATATC
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
130 3 0.03
131 107 0.97
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:10537808 original size:130 final size:130
Alignment explanation
Indices: 10537573--10537811 Score: 302
Period size: 130 Copynumber: 1.8 Consensus size: 130
10537563 AAAATACTTA
* * *
10537573 AAAACGAATGCGATGTTCAATATTTCGCGATTTGAGAATTGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * * *
10537638 TTTTCATTGGTTCGAAACAATTGAACATCCCTTTGGAATTTCACTCACATTTCCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
* * * * *
10537703 AAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * *
10537768 TTCTT-ATTTGTCCAAAATAATCGAATATCTCC-TCGAAATTTCAC
66 TT-TTCATTGGTCCAAAACAATCGAACATC-CCTTCGAAATTTCAC
10537812 ACGTATTTTA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
130 87 0.96
131 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (130 bp):
AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
Found at i:10538670 original size:31 final size:30
Alignment explanation
Indices: 10538635--10538727 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 30
10538625 AGTATAAATG
10538635 TGAAAATATGAATGATTAAAGGGTATGGAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
** * *
10538666 TGAAAACTTGACCGATTATAGGGTAT-GATA
1 TGAAAA-TTGAATGATTAAAGGGTATGGAAA
* * *
10538696 TGCAAATGTGAATGA-TACAGGGTATGAAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
10538726 TG
1 TG
10538728 TAATAGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 10 0.20
30 17 0.35
31 21 0.43
32 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (30 bp):
TGAAAATTGAATGATTAAAGGGTATGGAAA
Found at i:10545736 original size:18 final size:18
Alignment explanation
Indices: 10545710--10545764 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
10545700 CTTGGCCTAT
10545710 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
* *
10545728 TGCAATAACAGCAAACAG
1 TGCAGTAACAGTAAACAG
* *
10545746 TGCTGTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
10545764 T
1 T
10545765 ATGCAAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:10549169 original size:21 final size:21
Alignment explanation
Indices: 10549139--10549178 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10549129 ATTGCTTTTA
*
10549139 ATGTCACGACACAGCCTTATG
1 ATGTCACGACACACCCTTATG
*
10549160 ATGTCGCGACACACCCTTA
1 ATGTCACGACACACCCTTA
10549179 AAGACACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
ATGTCACGACACACCCTTATG
Found at i:10549682 original size:131 final size:131
Alignment explanation
Indices: 10549521--10549785 Score: 512
Period size: 131 Copynumber: 2.0 Consensus size: 131
10549511 TGTGATCAAA
*
10549521 CTCTGTGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
10549586 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
10549651 C
131 C
*
10549652 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
10549717 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
10549782 C
131 C
10549783 CTC
1 CTC
10549786 CTGTAGGGGA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (131 bp):
CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAAATTCTTCTAAACTTTATACTCTTGA
ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
C
Found at i:10552495 original size:50 final size:50
Alignment explanation
Indices: 10552408--10552509 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 50
10552398 CATGGTTTGA
* *
10552408 ATTTTGTCATTGTTTAAGTAATGAAAGCGTATGAA-TTTATACCTTAGAT
1 ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
* *
10552457 ATTTTATCATTGTTTGAAGTAATGAAAGTGTA-GAAATTTTATAGATTAGAT
1 ATTTTATCATTGTTT-AAGTAATGAAAGCGTATG-AATTTTATACATTAGAT
10552508 AT
1 AT
10552510 AAAGTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
49 15 0.33
50 17 0.37
51 14 0.30
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (50 bp):
ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
Found at i:10553285 original size:30 final size:30
Alignment explanation
Indices: 10553239--10553362 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
10553229 TTTTATTATG
*
10553239 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
10553270 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10553300 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
10553330 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10553360 CCA
1 CCA
10553363 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10553294 original size:15 final size:15
Alignment explanation
Indices: 10553249--10553356 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
10553239 CCAATATCTC
10553249 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10553264 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10553279 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
10553294 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
10553309 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
10553324 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
10553339 GATACCCATATCTTT
1 GATACCCATATCTTT
10553354 GAT
1 GAT
10553357 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:10557980 original size:30 final size:30
Alignment explanation
Indices: 10557930--10558053 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
10557920 TTTTATTATG
*
10557930 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
10557961 CCAATATTTGATACTCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10557991 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
10558021 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
10558051 CCA
1 CCA
10558054 TAAATATGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
30 79 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:10559504 original size:18 final size:18
Alignment explanation
Indices: 10559475--10559527 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10559465 GTTCAAAAAA
10559475 TTATACATTTTTTAATTAAT
1 TTATA-ATTTTTTAATT-AT
* *
10559495 TTAT-ATTTTTAAAATAT
1 TTATAATTTTTTAATTAT
*
10559512 TTTTAATTTTTTAATT
1 TTATAATTTTTTAATT
10559528 TATGTCCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.19
18 18 0.67
20 4 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATAATTTTTTAATTAT
Found at i:10560305 original size:14 final size:15
Alignment explanation
Indices: 10560281--10560314 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10560271 TTTATATATT
10560281 TTTATAAATTTTGAA
1 TTTATAAATTTTGAA
10560296 TTTA-AAATTTTGAA
1 TTTATAAATTTTGAA
*
10560310 GTTAT
1 TTTAT
10560315 TTGTTGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TTTATAAATTTTGAA
Found at i:10560785 original size:12 final size:12
Alignment explanation
Indices: 10560770--10560795 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10560760 AAAATAATTA
10560770 TTTTATTATAAT
1 TTTTATTATAAT
10560782 TTTTATTATAAT
1 TTTTATTATAAT
10560794 TT
1 TT
10560796 AATTTCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATTATAAT
Found at i:10562472 original size:25 final size:26
Alignment explanation
Indices: 10562424--10562476 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
10562414 GTTCAAAGTG
10562424 GCGGGCAAAAAATATAAAAGAATTGA
1 GCGGGCAAAAAATATAAAAGAATTGA
10562450 GCGGGCAAAAAATATAAAA-AATTGA
1 GCGGGCAAAAAATATAAAAGAATTGA
10562475 GC
1 GC
10562477 ATCCATCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.53, C:0.09, G:0.23, T:0.15
Consensus pattern (26 bp):
GCGGGCAAAAAATATAAAAGAATTGA
Found at i:10567306 original size:2 final size:2
Alignment explanation
Indices: 10567301--10567385 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
10567291 TACATATATA
10567301 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10567343 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10567385 T
1 T
10567386 CTCAATTCAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10572148 original size:15 final size:15
Alignment explanation
Indices: 10572124--10572154 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10572114 TTTCATAATT
*
10572124 TTTTTTAAATTTTTA
1 TTTTTAAAATTTTTA
10572139 TTTTTAAAATTTTTA
1 TTTTTAAAATTTTTA
10572154 T
1 T
10572155 AAATTACGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAAAATTTTTA
Found at i:10572756 original size:30 final size:31
Alignment explanation
Indices: 10572709--10572784 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
10572699 TACTGGGGAA
*
10572709 ACTTAAA-AAAAATTTTTAACA-A-CCCAATG
1 ACTTAAATAAAAACTTTTAA-ATAGCCCAATG
**
10572738 ACTTAAATAAAAACTTTTAAATAGTTCAATG
1 ACTTAAATAAAAACTTTTAAATAGCCCAATG
*
10572769 ACTTAAATGAAAACTT
1 ACTTAAATAAAAACTT
10572785 ATCAATAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.20
30 12 0.30
31 20 0.50
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTTAAATAGCCCAATG
Found at i:10572768 original size:31 final size:31
Alignment explanation
Indices: 10572733--10572816 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
10572723 TTTAACAACC
10572733 CAATGACTTAAATAAAAACTTTTAAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
* * *
10572764 CAATGACTTAAATGAAAACTTATCAATAGTT
1 CAATGACTTAAATAAAAACTTTTAAATAGTT
* * *
10572795 CAGTGA-TTAAATTATAACTTTT
1 CAATGACTTAAATAAAAACTTTT
10572817 TTTAGTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 13 0.28
31 33 0.72
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTAAATAGTT
Found at i:10576557 original size:2 final size:2
Alignment explanation
Indices: 10576550--10576585 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10576540 AAACACCCTC
10576550 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
10576586 TTCTTGGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10581821 original size:21 final size:21
Alignment explanation
Indices: 10581795--10581834 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
10581785 CAATCTATTA
10581795 TGTTTGTAGGTTTATAAAAAT
1 TGTTTGTAGGTTTATAAAAAT
10581816 TGTTTGTAGGTTTATAAAA
1 TGTTTGTAGGTTTATAAAA
10581835 TATGTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTTGTAGGTTTATAAAAAT
Found at i:10585504 original size:744 final size:744
Alignment explanation
Indices: 10584074--10587054 Score: 5647
Period size: 744 Copynumber: 4.0 Consensus size: 744
10584064 AGTTTCGTTA
10584074 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10584139 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10584204 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
*
10584269 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
* *
10584334 CTAAAAGGTAAAGATATAGATGCGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
10584399 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
10584464 CTGAGTGGATAATGGACAATGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGCTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
10584529 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* * *
10584594 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGTATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
*
10584659 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAGTTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
*
10584724 AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
10584789 AGAACAAATTTATCCTAAAAAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
* *
10584818 ATACCTTTGTATGTTGTCCTCAACGATTTTGTATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
*
10584883 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTTGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10584948 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
* *
10585013 AGACTAATATGTCGTCATCATATCTAATGAGAGATACCTTGTTTTAGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10585078 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
*
10585143 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTATGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
*
10585208 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTTA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
*
10585273 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* * *
10585338 ACAATAGTGGAATTCATAACCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
* *
10585403 TTGATAAGTAAAACATGGCTATCAGTCATTTGTCTTTGTGGTAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
10585468 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
*
10585533 AGAACAAATTTATCCTAAAGAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
10585562 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10585627 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
10585692 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
10585757 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10585822 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
*
10585887 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTTATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
10585952 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
10586017 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
10586082 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
*
10586147 TTGATAAGTAAAACATGGCCATTAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
*
10586212 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTATCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
*
10586277 AGAACAAATTTATCCTAAAGAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
10586306 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
10586371 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
*
10586436 GGATTATATTAGTAGATAATCTAAACATTTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
10586501 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
10586566 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
* *
10586631 ATAGATTTTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACATTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
10586696 CTGAGTGGATAATGGACAACGTATGCAGAACTATCTACGTTAGTGTAAATGAAAGCCTGAGTTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
10586761 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
10586826 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
*
10586891 TTGATAAGTAAAACATGGCCATTAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
*
10586956 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTTGG
651 AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
10587021 AGAACAAATTTATCCTAAAAAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
10587050 ATATC
1 ATATC
10587055 CTATGAGGGT
Statistics
Matches: 2193, Mismatches: 44, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
744 2193 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (744 bp):
ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
AGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
AGAACAAATTTATCCTAAAAAGATTAAGG
Found at i:10591473 original size:9 final size:9
Alignment explanation
Indices: 10591459--10591486 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
10591449 TGATTTGGCA
10591459 TGTAGAAGT
1 TGTAGAAGT
10591468 TGTAGAAGT
1 TGTAGAAGT
10591477 TGTAGAAGT
1 TGTAGAAGT
10591486 T
1 T
10591487 AACTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (9 bp):
TGTAGAAGT
Found at i:10592638 original size:47 final size:49
Alignment explanation
Indices: 10592527--10592639 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 49
10592517 AGGTGGAAGA
* *
10592527 ATGTGGCAATTTATTTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
* * *
10592576 ATGTGGCAGTATATCTGCAAAAGTGGTTGC-TTGTCCAT-AAT-TTGATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATT-ATT
*
10592623 ATGTGACAGTTTATCTG
1 ATGTGGCAGTTTATCTG
10592640 TATTACCATG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 2 0.04
47 21 0.38
48 8 0.14
49 25 0.45
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (49 bp):
ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
Found at i:10594503 original size:15 final size:15
Alignment explanation
Indices: 10594467--10594504 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
10594457 CATAAAGTCA
*
10594467 TTTCAACCCTTCACT
1 TTTCAAGCCTTCACT
10594482 TTTCAAGCCTTC-CAT
1 TTTCAAGCCTTCAC-T
10594497 TTTCAAGC
1 TTTCAAGC
10594505 ACCTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.21, C:0.34, G:0.05, T:0.39
Consensus pattern (15 bp):
TTTCAAGCCTTCACT
Found at i:10596151 original size:11 final size:11
Alignment explanation
Indices: 10596135--10596159 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10596125 ATCTTTATTA
10596135 TTTAGAACTTG
1 TTTAGAACTTG
10596146 TTTAGAACTTG
1 TTTAGAACTTG
10596157 TTT
1 TTT
10596160 TCAAAGTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAACTTG
Found at i:10598750 original size:12 final size:12
Alignment explanation
Indices: 10598733--10598773 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
10598723 CTTCACACAC
10598733 CCGTGTGCTAGG
1 CCGTGTGCTAGG
10598745 CCGTGTGCTAGG
1 CCGTGTGCTAGG
* *
10598757 TCGTGTGCTAGT
1 CCGTGTGCTAGG
10598769 CCGTG
1 CCGTG
10598774 CCAAAACTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.24, G:0.39, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:10608110 original size:45 final size:45
Alignment explanation
Indices: 10608046--10608135 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
10608036 TTTACCATTG
10608046 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
1 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
* * *
10608091 CAAGATAATCCATTGTTTGATGAGATTAACAATAATAACCCAGAT
1 CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
10608136 GGCTTACCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (45 bp):
CAAGACAATACATTGTTTGACGAGATTAACAATAATAACCCAGAT
Found at i:10610211 original size:36 final size:36
Alignment explanation
Indices: 10610171--10610241 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
10610161 TTGTGAACCA
* * *
10610171 TGTTAACTTGGTGAATTATATTATTATTGCGAACTG
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
* * *
10610207 TGTTAATTTAGTGATTTGTATTAATATGGCGAACT
1 TGTTAACTTAGTGAATTATATTAATATGGCGAACT
10610242 ATATTAATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.45
Consensus pattern (36 bp):
TGTTAACTTAGTGAATTATATTAATATGGCGAACTG
Found at i:10610970 original size:34 final size:35
Alignment explanation
Indices: 10610898--10610995 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 35
10610888 TGTGGTGTGA
* * *
10610898 ATGAATTATTATATTGAATGAACTGTTA-TATTGT
1 ATGAACTATTATATTGAATGAATTGTTATTATTGC
10610932 ATGAACTATTATATTGAATGAATTGTTATTA-TGC
1 ATGAACTATTATATTGAATGAATTGTTATTATTGC
* *
10610966 ATGAACTGTTAT-TTTATATGAATTGTTATT
1 ATGAACTATTATATTGA-ATGAATTGTTATT
10610996 TTATGCGAAC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
33 3 0.05
34 52 0.91
35 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.48
Consensus pattern (35 bp):
ATGAACTATTATATTGAATGAATTGTTATTATTGC
Found at i:10610978 original size:17 final size:17
Alignment explanation
Indices: 10610895--10610977 Score: 96
Period size: 17 Copynumber: 4.9 Consensus size: 17
10610885 CGATGTGGTG
* *
10610895 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
10610912 TGAATGAACTGTTATAT
1 TGAATGAACTGTTATAT
* *
10610929 TGTATGAACTATTATAT
1 TGAATGAACTGTTATAT
*
10610946 TGAATGAATTGTTAT-T
1 TGAATGAACTGTTATAT
*
10610962 ATGCATGAACTGTTAT
1 -TGAATGAACTGTTAT
10610978 TTTATATGAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
16 1 0.02
17 55 0.98
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.45
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:10610986 original size:17 final size:17
Alignment explanation
Indices: 10610915--10610999 Score: 73
Period size: 17 Copynumber: 5.0 Consensus size: 17
10610905 ATTATATTGA
* *
10610915 ATGAACTGTTATATTGT
1 ATGAACTGTTATTTTAT
* *
10610932 ATGAACTATTATATTGA-
1 ATGAACTGTTAT-TTTAT
* * **
10610949 ATGAATTGTTATTATGC
1 ATGAACTGTTATTTTAT
10610966 ATGAACTGTTATTTTAT
1 ATGAACTGTTATTTTAT
*
10610983 ATGAATTGTTATTTTAT
1 ATGAACTGTTATTTTAT
10611000 GCGAACTACC
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
16 1 0.02
17 50 0.96
18 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (17 bp):
ATGAACTGTTATTTTAT
Found at i:10614593 original size:20 final size:18
Alignment explanation
Indices: 10614551--10614594 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
10614541 TTTTAGGTTT
*
10614551 TTTGGGCTGGGCTATTGG
1 TTTGGGCTGGGCTATTAG
*
10614569 TTTGGGCTTGGGTTGATTAG
1 TTTGGGC-TGGGCT-ATTAG
10614589 TTTGGG
1 TTTGGG
10614595 TTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.07, C:0.07, G:0.43, T:0.43
Consensus pattern (18 bp):
TTTGGGCTGGGCTATTAG
Found at i:10616429 original size:15 final size:15
Alignment explanation
Indices: 10616405--10616434 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10616395 AAAAATTAGA
10616405 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
10616420 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
10616435 ATTTAAGAAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:10616734 original size:126 final size:126
Alignment explanation
Indices: 10616509--10616929 Score: 630
Period size: 126 Copynumber: 3.3 Consensus size: 126
10616499 TAATCTAAAA
* *
10616509 AAGCTTCTACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAAATTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* *
10616574 CTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTATTGAAAG
66 CTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAG
** * *
10616635 AAGCTTCCATATGAACGCTCTTTTGCTACAGTAATCTCTGAAAAAATAATTTTGAGAAGACGTGT
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
* * * *
10616700 CTGCGCAAATAATGGT-AAAAACACTTCAAGCAGGATGCATTTTCAGCAAAATTAATGGAAG
66 CTGCGCAAATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAG
* *
10616761 AAGC-TCTCACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTG
1 AAGCTTC-CACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTG
** *
10616825 TCTGCATAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAG
65 TCTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAG
* * *
10616887 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAA
10616930 TAACTTGGGC
Statistics
Matches: 263, Mismatches: 28, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
125 4 0.02
126 256 0.97
127 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (126 bp):
AAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGT
CTGCGCAAATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTAATGAAAG
Found at i:10620120 original size:116 final size:116
Alignment explanation
Indices: 10619944--10620673 Score: 1264
Period size: 116 Copynumber: 6.3 Consensus size: 116
10619934 TTTATATTTT
* * **
10619944 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
10620009 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
10620060 ATCACATGAAATAATATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
10620125 AAAATATAAAAGTAAATTACAATTATTTTATTTAAAACAACATTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10620176 ATTACATGAAATAATATAAAAAAATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10620241 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10620292 ATTACATGAAATAATAT-AAAATATTCAAAATGTTGCCTTATTTAAAATACTTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
10620356 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
10620407 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTTTTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
10620472 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAAAAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* *
10620523 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTGCCATTTTTTTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
10620588 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
10620639 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
10620674 TGTACAAATA
Statistics
Matches: 586, Mismatches: 27, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
115 112 0.19
116 474 0.81
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:10620597 original size:347 final size:348
Alignment explanation
Indices: 10619944--10620673 Score: 1273
Period size: 347 Copynumber: 2.1 Consensus size: 348
10619934 TTTATATTTT
* * **
10619944 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTTATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
10620009 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACATGAAATAA
66 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
*
10620074 TATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTA
131 TATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTATTAAAAATATAAAAGTA
* *
10620139 AATTACAATTATTTTATTTAAAACAACATTTTATCTAATTACATGAAATAATATAAAAAAATTCA
196 AATTACAATTACTTTATTTAAAAAAACATTTTATCTAATTACATGAAATAATATAAAAAAATTCA
*
10620204 AAATGTTGCCTTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTT
261 AAATGTTGCCTTATTTAAAATAATTGCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTT
10620269 TATTTAAAACAACCTTTTATCTA
326 TATTTAAAACAACCTTTTATCTA
*
10620292 ATTACATGAAATAATAT-AAAATATTCAAAATGTTGCCTTATTTAAAATACTTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
10620356 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
66 AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
* *
10620421 TATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTTTTAAAAATATAAAAGTA
131 TATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTATTAAAAATATAAAAGTA
* * *
10620486 AATTATAATTACTTTATTTAAAAAAACCTTTTATCTAATTACATGAAATAATATAAAAATATTCA
196 AATTACAATTACTTTATTTAAAAAAACATTTTATCTAATTACATGAAATAATATAAAAAAATTCA
*
10620551 AAATGTTGCCTTATTTAAAATAATTGCCATTTTTTTAAAAATATAAAAGTAAATTACAATTACTT
261 AAATGTTGCCTTATTTAAAATAATTGCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTT
10620616 TATTTAAAACAACCTTTTATCTA
326 TATTTAAAACAACCTTTTATCTA
*
10620639 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
10620674 TGTACAAATA
Statistics
Matches: 361, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
347 328 0.91
348 33 0.09
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (348 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTAGAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
TATAAAAACATTCAAAATGTTGCCTTATTTAAAATAATTCCCATTTTATTAAAAATATAAAAGTA
AATTACAATTACTTTATTTAAAAAAACATTTTATCTAATTACATGAAATAATATAAAAAAATTCA
AAATGTTGCCTTATTTAAAATAATTGCCATTTTATTAAAAATATAAAAGTAAATTACAATTACTT
TATTTAAAACAACCTTTTATCTA
Found at i:10621083 original size:18 final size:18
Alignment explanation
Indices: 10621057--10621096 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10621047 GACTAGACAA
*
10621057 AGGAAACATATAAGGGCT
1 AGGAAACATAAAAGGGCT
*
10621075 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
10621093 AGGA
1 AGGA
10621097 GGCATCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.15
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:10621191 original size:30 final size:30
Alignment explanation
Indices: 10621146--10621202 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10621136 TGAACTGTTG
10621146 GGCCCGGTGACTGTGTAGGTC-CTGTTGCTA
1 GGCCCGGTGACTGTGTAGG-CACTGTTGCTA
* *
10621176 GGCCGGGTGATTGTGTAGGCACTGTTG
1 GGCCCGGTGACTGTGTAGGCACTGTTG
10621203 ATGGGCCTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.11, C:0.19, G:0.40, T:0.30
Consensus pattern (30 bp):
GGCCCGGTGACTGTGTAGGCACTGTTGCTA
Found at i:10621717 original size:7 final size:7
Alignment explanation
Indices: 10621707--10621733 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
10621697 GTTAAATAAA
10621707 AAATACT
1 AAATACT
10621714 AAATACT
1 AAATACT
10621721 AAATACT
1 AAATACT
10621728 AAATAC
1 AAATAC
10621734 GAACCACTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:10621718 original size:14 final size:14
Alignment explanation
Indices: 10621699--10621732 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10621689 AAATATTAGT
10621699 TAAATAAAAAATAC
1 TAAATAAAAAATAC
**
10621713 TAAATACTAAATAC
1 TAAATAAAAAATAC
10621727 TAAATA
1 TAAATA
10621733 CGAACCACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAAAATAC
Found at i:10622855 original size:15 final size:15
Alignment explanation
Indices: 10622835--10622865 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10622825 TTTTTATTTT
10622835 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
10622850 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
10622865 A
1 A
10622866 GCTTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:10622911 original size:22 final size:22
Alignment explanation
Indices: 10622881--10622924 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10622871 TTTGAAAAAA
**
10622881 TTAACGAGAGTTTTGAGAAGAAT
1 TTAACGAGAAATTTGAG-AGAAT
10622904 TTAA-GAGAAATTTGAGAGAAT
1 TTAACGAGAAATTTGAGAGAAT
10622925 ATTGAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.25, T:0.30
Consensus pattern (22 bp):
TTAACGAGAAATTTGAGAGAAT
Found at i:10627943 original size:28 final size:27
Alignment explanation
Indices: 10627891--10627943 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
10627881 TTTTGAATAG
* *
10627891 TTTTGAATAAAATTAGAATATTTTAAA
1 TTTTGAATAAAATAAGAATAATTTAAA
10627918 TTTT-AATAAAATGAAGAAATAATTTA
1 TTTTGAATAAAAT-AAG-AATAATTTA
10627944 TTTCAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 6 0.27
28 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (27 bp):
TTTTGAATAAAATAAGAATAATTTAAA
Found at i:10628094 original size:6 final size:6
Alignment explanation
Indices: 10628083--10628113 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10628073 CCATAATGAT
10628083 TAATTA TAATTA TAATTA TAATTA TAATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA T
10628114 TTAGATGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATTA
Found at i:10630049 original size:14 final size:14
Alignment explanation
Indices: 10630030--10630059 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10630020 GTTTTATCCT
10630030 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
10630044 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
10630058 TT
1 TT
10630060 GTGAAGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:10643201 original size:22 final size:20
Alignment explanation
Indices: 10643176--10643235 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
10643166 TTGTTTGTAG
10643176 GAAAAAACTTAAATTTTTACAT
1 GAAAAAACTT--ATTTTTACAT
*
10643198 GAAAAAACTTGTTTTTACAT
1 GAAAAAACTTATTTTTACAT
*
10643218 GGAAAATAATTTATTTTT
1 -GAAAA-AACTTATTTTT
10643236 TAATTTCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 9 0.27
21 5 0.15
22 19 0.58
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (20 bp):
GAAAAAACTTATTTTTACAT
Found at i:10643496 original size:22 final size:22
Alignment explanation
Indices: 10643416--10643497 Score: 59
Period size: 22 Copynumber: 4.0 Consensus size: 22
10643406 AAAAGAAAAA
* *
10643416 ACTTGAGGTTTTACAAGGAATT
1 ACTTGAGTTTTTACAATGAATT
*
10643438 ACATGAGTTTTTAC-ATGAA--
1 ACTTGAGTTTTTACAATGAATT
* * **
10643457 AATT-A--TTTTCCAGCGAATT
1 ACTTGAGTTTTTACAATGAATT
10643476 ACTTGAGTTTTTACAATGAATT
1 ACTTGAGTTTTTACAATGAATT
10643498 GAGTTGAAAG
Statistics
Matches: 42, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 1 0.02
19 5 0.12
20 1 0.02
21 4 0.10
22 23 0.55
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (22 bp):
ACTTGAGTTTTTACAATGAATT
Found at i:10648958 original size:17 final size:17
Alignment explanation
Indices: 10648918--10648965 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
10648908 CATTGATATG
*
10648918 CATATAATATATATACA
1 CATATAATATATACACA
*
10648935 CACATAATATATACACA
1 CATATAATATATACACA
10648952 -ATTATAATAATATA
1 CA-TATAAT-ATATA
10648966 AAATTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (17 bp):
CATATAATATATACACA
Done.