Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 98 of 290
Found at i:30024654 original size:20 final size:20
Alignment explanation
Indices: 30024629--30024675 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
30024619 ATTTTGATAT
30024629 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
30024649 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
30024669 ACATGAT
1 ACATGAT
30024676 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:30024810 original size:25 final size:26
Alignment explanation
Indices: 30024725--30024797 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
30024715 GAGGAAGTGC
* * *
30024725 AAAAGGACTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
30024751 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATCG
*
30024777 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
30024798 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATCG
Found at i:30024975 original size:14 final size:14
Alignment explanation
Indices: 30024956--30024988 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
30024946 AAATGGGCTT
30024956 GCATTCTTTCATTG
1 GCATTCTTTCATTG
30024970 GCATTCTTTCATTG
1 GCATTCTTTCATTG
30024984 GCATT
1 GCATT
30024989 ACAGTAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (14 bp):
GCATTCTTTCATTG
Found at i:30025032 original size:31 final size:31
Alignment explanation
Indices: 30024994--30025057 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
30024984 GCATTACAGT
*
30024994 AAAGGCTTCGACCCAGTAATGTGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
* **
30025025 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
30025056 AA
1 AA
30025058 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:30035806 original size:6 final size:6
Alignment explanation
Indices: 30035788--30035831 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
30035778 TGCAAATATA
* * *
30035788 TCATTT CTCATTT TCATTT TCATTT CCATTT CCATTT CCATTT T
1 TCATTT -TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT T
30035832 AATAAACCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (6 bp):
TCATTT
Found at i:30035812 original size:12 final size:12
Alignment explanation
Indices: 30035789--30035831 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
30035779 GCAAATATAT
*
30035789 CATTTCTCATTTT
1 CATTT-TCATTTC
30035802 CATTTTCATTTC
1 CATTTTCATTTC
*
30035814 CATTTCCATTTC
1 CATTTTCATTTC
30035826 CATTTT
1 CATTTT
30035832 AATAAACCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (12 bp):
CATTTTCATTTC
Found at i:30035823 original size:18 final size:19
Alignment explanation
Indices: 30035788--30035830 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
30035778 TGCAAATATA
*
30035788 TCATTTCTCATTTTCATTT
1 TCATTTCTCATTTCCATTT
30035807 TCATTTC-CATTTCCATTT
1 TCATTTCTCATTTCCATTT
*
30035825 CCATTT
1 TCATTT
30035831 TAATAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58
Consensus pattern (19 bp):
TCATTTCTCATTTCCATTT
Found at i:30038340 original size:8 final size:8
Alignment explanation
Indices: 30038327--30038353 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
30038317 TAAACAAGGT
30038327 TAATTTAG
1 TAATTTAG
30038335 TAATTTAG
1 TAATTTAG
30038343 TAATTTAG
1 TAATTTAG
30038351 TAA
1 TAA
30038354 ACAATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (8 bp):
TAATTTAG
Found at i:30039779 original size:27 final size:27
Alignment explanation
Indices: 30039749--30039926 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
30039739 ATATTGAGCC
* * * *
30039749 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30039776 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30039803 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
30039831 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30039858 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30039885 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30039912 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30039927 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:30039888 original size:82 final size:81
Alignment explanation
Indices: 30039770--30039925 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
30039760 TGCTATATAA
* * * *
30039770 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
30039835 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30039852 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30039916 CACTTAGTGC
65 CACTTAGTGC
30039926 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:30047867 original size:27 final size:27
Alignment explanation
Indices: 30047837--30048013 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
30047827 ATATTGAGCC
* * *
30047837 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
30047864 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
30047891 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-ACT
** * *
30047919 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
30047946 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
30047973 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
30047999 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30048014 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 15 0.12
27 89 0.70
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:30047976 original size:82 final size:80
Alignment explanation
Indices: 30047858--30048012 Score: 213
Period size: 82 Copynumber: 1.9 Consensus size: 80
30047848 TGCTATATAA
* * *
30047858 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-A-TCGCA
30047923 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
30047940 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAATCGCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
30048004 ACTTAGTGC
65 ACTTAGTGC
30048013 TGTACAATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 15 0.23
81 2 0.03
82 48 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:30066103 original size:19 final size:19
Alignment explanation
Indices: 30066058--30066104 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
30066048 ATCAAATTAA
*
30066058 AATAAAAATAAAACTATAG
1 AATAAAAATAAAACTAAAG
* *
30066077 AATCAAAACTAAAA-TAAAT
1 AAT-AAAAATAAAACTAAAG
30066096 AATAAAAAT
1 AATAAAAAT
30066105 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAACTAAAG
Found at i:30071324 original size:9 final size:9
Alignment explanation
Indices: 30071279--30071325 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
30071269 TTAATTTTAA
*
30071279 ATTTTTTAT
1 ATTTTTTCT
*
30071288 ATTTTTAACAT
1 ATTTTT-TC-T
30071299 ATTTTTTCT
1 ATTTTTTCT
30071308 ATTTTTTCT
1 ATTTTTTCT
30071317 ATTTTTTCT
1 ATTTTTTCT
30071326 TTCAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 25 0.76
10 1 0.03
11 7 0.21
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTCT
Found at i:30072928 original size:25 final size:24
Alignment explanation
Indices: 30072874--30072929 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
30072864 TATAAATTAC
30072874 ATATTATTATATTGTATTATATAT
1 ATATTATTATATTGTATTATATAT
*
30072898 AATATTATTATATT-TGTTAT-TAT
1 -ATATTATTATATTGTATTATATAT
*
30072921 GTATTATTA
1 ATATTATTA
30072930 CTCATTGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 8 0.28
23 3 0.10
24 5 0.17
25 13 0.45
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (24 bp):
ATATTATTATATTGTATTATATAT
Found at i:30076016 original size:41 final size:41
Alignment explanation
Indices: 30075971--30076149 Score: 227
Period size: 41 Copynumber: 4.4 Consensus size: 41
30075961 GTTATATAAC
* *
30075971 TTTTAGCGGTGTTTTACCAAAAGCGCCACTAATGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
* *
30076012 TTTTAGTGGCGTTTTACCAAAAGCGCCTCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
*
30076053 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
* * ** * *
30076093 TTTTAGCGGCGTTTTAACAAAAAAACGCCGTTATTGCTC-AGT
1 TTTTAGCGGCGTTTT-AC-CAAAAGCGCCACTAATGCTCTGGT
30076135 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
30076150 TGTTAAAACG
Statistics
Matches: 125, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 17 0.14
41 75 0.60
42 33 0.26
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGT
Found at i:30081006 original size:22 final size:25
Alignment explanation
Indices: 30080980--30081026 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
30080970 GTTGAAATTT
30080980 TGAAAA-AT-AAA-AATAAAATATA
1 TGAAAAGATAAAACAATAAAATATA
30081002 TGAAAAGTATAAAACAATAAAATAT
1 TGAAAAG-ATAAAACAATAAAATAT
30081027 TGTTTTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
24 2 0.10
25 3 0.14
26 10 0.48
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.23
Consensus pattern (25 bp):
TGAAAAGATAAAACAATAAAATATA
Found at i:30083074 original size:26 final size:26
Alignment explanation
Indices: 30083045--30083104 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
30083035 TATTTATTTA
*
30083045 TTTATTTTCTTGATTTATATATATAT
1 TTTATTTTCTAGATTTATATATATAT
* * *
30083071 TTTATTTTCTAGATTTCTATTTCTAT
1 TTTATTTTCTAGATTTATATATATAT
30083097 TTTATTTT
1 TTTATTTT
30083105 ATTATGCATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTATTTTCTAGATTTATATATATAT
Found at i:30085161 original size:27 final size:26
Alignment explanation
Indices: 30085122--30085280 Score: 104
Period size: 27 Copynumber: 5.9 Consensus size: 26
30085112 GCGAGGTTGC
*
30085122 CAGATATTATGAC-GAAGTCACCAGATA
1 CAGATATTATGACAG-AGCCACCAGA-A
*
30085149 CAGATATTGTGACAGAGCCACCAGAA
1 CAGATATTATGACAGAGCCACCAGAA
* * * *
30085175 CAGATGTATGTGGCAGAGCCACCAGAT
1 CAGATAT-TATGACAGAGCCACCAGAA
** * * *
30085202 CAGATAATCGTGGCATAGCCACCAGGA
1 CAGAT-ATTATGACAGAGCCACCAGAA
* * *
30085229 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TATGACAGAGCCACCAGAA
* * *
30085256 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTATGACAGAGCCACCAG
30085281 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
CAGATATTATGACAGAGCCACCAGAA
Found at i:30085281 original size:54 final size:54
Alignment explanation
Indices: 30085140--30085283 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
30085130 ATGACGAAGT
* * * *
30085140 CACCAGATACAGAT-ATTGTGACAGAGCCACCAGAACAGATGTATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
30085194 CACCAGATCAGATAATCGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
30085248 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
30085284 GCTTCCTCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:30092988 original size:27 final size:26
Alignment explanation
Indices: 30092832--30092990 Score: 176
Period size: 27 Copynumber: 5.9 Consensus size: 26
30092822 GTGAGGCTGG
* * * *
30092832 CAGATATTGTGACAAAGTCACTAGAT
1 CAGATATTGTGGCAGAGCCACCAGAT
* *
30092858 ACAGATATTGTGACAGAGCCACCAGAA
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
30092885 CAGATATATGTGGCAGAGCCACTAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
30092912 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
30092939 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
30092966 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
30092991 GACACTTCCT
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
26 11 0.10
27 98 0.85
28 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:30092991 original size:54 final size:54
Alignment explanation
Indices: 30092832--30092994 Score: 240
Period size: 54 Copynumber: 3.0 Consensus size: 54
30092822 GTGAGGCTGG
* * * * * *
30092832 CAGATAT-TGTGACAAAGTCACTAGATACAGAT-ATTGTGACAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACTAGAT-CAGATAATTGTGGCATAGCCACCAGGA
30092885 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
*
30092939 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
30092993 CA
1 CA
30092995 CTTCCTCCAT
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 89 0.88
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:30097624 original size:11 final size:10
Alignment explanation
Indices: 30097597--30097653 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
30097587 CTCTGTTCTT
*
30097597 AAAAAAAACA
1 AAAAAAAAGA
*
30097607 CAAAAAAAGA
1 AAAAAAAAGA
30097617 AAAGAAAAAGA
1 AAA-AAAAAGA
*
30097628 AAAAAAAA-T
1 AAAAAAAAGA
* *
30097637 ATAAAAATGA
1 AAAAAAAAGA
30097647 AAAAAAA
1 AAAAAAA
30097654 TTGATTGAAC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 6 0.16
10 21 0.57
11 10 0.27
ACGTcount: A:0.84, C:0.04, G:0.07, T:0.05
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:30097630 original size:19 final size:19
Alignment explanation
Indices: 30097608--30097653 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
30097598 AAAAAAACAC
30097608 AAAAAAAGAAAAGAAAAA-G
1 AAAAAAA-AAAAGAAAAATG
* *
30097627 AAAAAAAAATATAAAAATG
1 AAAAAAAAAAAGAAAAATG
30097646 AAAAAAAA
1 AAAAAAAA
30097654 TTGATTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAAAGAAAAATG
Found at i:30111044 original size:35 final size:37
Alignment explanation
Indices: 30110998--30111076 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
30110988 ATAATCTTCA
30110998 ATGATATGCAATCTTAGATAT-TATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATATATACAATCTTAGAT
*
30111034 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATAT-ATATACAATCTTAGAT
30111070 A-GATATG
1 ATGATATG
30111077 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 18 0.46
36 8 0.21
37 13 0.33
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATATATACAATCTTAGAT
Found at i:30111076 original size:17 final size:19
Alignment explanation
Indices: 30110998--30111069 Score: 114
Period size: 18 Copynumber: 3.9 Consensus size: 19
30110988 ATAATCTTCA
30110998 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
30111017 AT--TATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30111034 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30111052 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
30111070 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 16 0.33
18 17 0.35
19 15 0.31
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:30111095 original size:22 final size:22
Alignment explanation
Indices: 30111048--30111092 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
30111038 TTGCAATCTT
*
30111048 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
30111070 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
30111093 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:30111380 original size:17 final size:17
Alignment explanation
Indices: 30111358--30111393 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
30111348 CATGTTTCCC
30111358 TAATTTTTT-ATATATTT
1 TAATTTTTTAATA-ATTT
30111375 TAATTTTTTAATAATTT
1 TAATTTTTTAATAATTT
30111392 TA
1 TA
30111394 GTATCATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTTTAATAATTT
Found at i:30119605 original size:78 final size:78
Alignment explanation
Indices: 30119501--30120075 Score: 803
Period size: 78 Copynumber: 7.4 Consensus size: 78
30119491 ACAGAGACCT
* * *
30119501 GATCGAAGAAATAGCAGATCTGACCTTTATTGAATCAGATCCAAGATGATTTGGCATCTCTGTAT
1 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
30119566 TAGACGGGGAGCA
66 TAGACGGGGAGCA
* * * * * *
30119579 GATCGAAGACACAGCATATCTAACCTTCATTAAAGCAGATCTAAGATGATTTGGCACCTCTGTAT
1 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
*
30119644 TAAACGGGGAGCA
66 TAGACGGGGAGCA
* * *
30119657 GAACGAAGACATAACAGATCTGACATTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
1 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
30119722 TAGACGGGGAGCA
66 TAGACGGGGAGCA
** * **
30119735 GATCGAAGACATAATAGAT-TGGACCTTTATTGAAGCAGATCCAAGATGATTTGGCATCTCCATA
1 GATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
* *
30119799 TTCGACGGAGAGCA
65 TTAGACGGGGAGCA
* *
30119813 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTTTGTAT
1 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
30119878 TAGACGGGGAGCA
66 TAGACGGGGAGCA
* *
30119891 GATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGATTCAAGATGATTTGGCATCTCTGTAT
1 GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
30119956 TAGACGGGGAGCA
66 TAGACGGGGAGCA
* * * * * * *
30119969 GATCAAAGACATAACAAAT-TGGACCTTCATTGAAGTAGATCCGAGATGATTTGGCATATCTATA
1 GATCGAAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTA
* * *
30120033 TCATACGGGGAGTA
65 TTAGACGGGGAGCA
*
30120047 GATCGAAGACATAGCAGATCTAACCTTCA
1 GATCGAAGACATAGCAGATCTGACCTTCA
30120076 GATGTCTTTA
Statistics
Matches: 436, Mismatches: 57, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
77 2 0.00
78 432 0.99
79 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (78 bp):
GATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTAT
TAGACGGGGAGCA
Found at i:30120196 original size:87 final size:88
Alignment explanation
Indices: 30120041--30120204 Score: 208
Period size: 89 Copynumber: 1.9 Consensus size: 88
30120031 TATCATACGG
* *
30120041 GGAGTAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTTACATCGAAGTAGATCCAAGAT
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATG-CTTTACATCGAAGCAGATCCAAGAT
30120106 GATTTGGAATCTTTGCGTTGACAA
65 GATTTGGAATCTTTGCGTTGACAA
* ** * *
30120130 GGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TG-TTTACA-CTGAAGCAGATCTAAGA
1 GGAGCAGATCGAAGACATAGCAGATCTAACCTTCA-GATGCTTTACATC-GAAGCAGATCCAAGA
*
30120192 TGATTTGGCATCT
64 TGATTTGGAATCT
30120205 CTGTACTGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
86 1 0.02
87 31 0.48
89 32 0.49
90 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (88 bp):
GGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGATGCTTTACATCGAAGCAGATCCAAGATG
ATTTGGAATCTTTGCGTTGACAA
Found at i:30120347 original size:78 final size:78
Alignment explanation
Indices: 30120236--30120530 Score: 403
Period size: 78 Copynumber: 3.8 Consensus size: 78
30120226 CGAAGAAACA
** * ** * * *
30120236 GATTTGGCATCTCCATATTCGACGAAGATCAGATCGAAGACATAGTAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
* *
30120301 CCAAATCCAAGAT
66 GCAGATCCAAGAT
* * * * *
30120314 GATTTGCCATCTCTGTATTAGATGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
30120379 GTAGATCCAAGAT
66 GCAGATCCAAGAT
*
30120392 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
30120456 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
30120470 GATTTGGCATCTCTGTATTAGACGGGGAGAAGATCGAAGAGATAGCAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
30120531 GTGTTTACAT
Statistics
Matches: 189, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 1 0.01
78 187 0.99
79 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:30120639 original size:454 final size:452
Alignment explanation
Indices: 30119782--30120646 Score: 1245
Period size: 454 Copynumber: 1.9 Consensus size: 452
30119772 GATCCAAGAT
*
30119782 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
** * * * *
30119847 GTAGATCCAAGATGATTTGGCATCTTTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCT
66 CCAAATCCAAGATGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCT
*
30119912 GACCTTCATTGAAGCAGATTCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAG
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAG
* * *
30119977 ACATAACAAATTGGACCTTCATTGAAGTAGATCCGAGATGATTTGGCATATCTATATCATACGGG
196 ACATAACAAATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTATATCAGACGGG
* *
30120042 GAGTAGATCGAAGACATAGCAGATCTAACCTTCAGATGTCTTTACATCGAAGTAGATCCAAGATG
261 GAGAAGATCGAAGACATAGCAGATCTAACCTTCA-ATGTCTTTACATCGAAGCAGATCCAAGATG
* * * * *
30120107 ATTTGGAATCTTTGCGTTGACAAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTT
325 ATTTGGAATCTCTGCATTGACAAGGAGCAAATCG-AGACATAACAGATTTGGCTATCACGTGTTT
* *
30120172 ACACTGAAGCAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACA
389 ACACGGAAGCAGATCGAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACA
* * *
30120236 GATTTGGCATCTCCATATTCGACGAAGATCAGATCGAAGACATAGTAGATTTGACCTTCATTGAA
1 GATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
30120301 CCAAATCCAAGATGATTTGCCATCTCTGTATTAGATGGGGAGCAGATCAAAGACACAGCAGATCT
66 CCAAATCCAAGATGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCT
* * *
30120366 GACCTTTATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG
131 GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAG
* * * *
30120431 ACATAACAGATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG
196 ACATAACAAATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTATATCAGACGGG
* * *
30120496 GAGAAGATCGAAGAGATAGCAGATCTGACCTTC-ATGTGTTTACATCGAAGCAGATCCAAGATGA
261 GAGAAGATCGAAGACATAGCAGATCTAACCTTCAATGTCTTTACATCGAAGCAGATCCAAGATG-
* * * * *
30120560 CAAATTTGGCATCTCTGTATTAGAC-GGGAGCAAATCG-GAGATAACAGATTTGGC-ATCTC-TG
325 ---ATTTGGAATCTCTGCATT-GACAAGGAGCAAATCGAGACATAACAGATTTGGCTATCACGTG
* *
30120621 TATTAGACAGGGAGCAGATCGAAGAT
386 T-TTACAC-GGAAGCAGATCGAAGAT
30120647 AACAGATTTG
Statistics
Matches: 363, Mismatches: 41, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
452 31 0.09
453 8 0.02
454 297 0.82
456 24 0.07
457 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (452 bp):
GATTTGGCATCTCCATATTCGACGAAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
CCAAATCCAAGATGATTTGCCATCTCTGTATTAGACGGGGAGCAGATCAAAGACACAGCAGATCT
GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAG
ACATAACAAATTGGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATATCTATATCAGACGGG
GAGAAGATCGAAGACATAGCAGATCTAACCTTCAATGTCTTTACATCGAAGCAGATCCAAGATGA
TTTGGAATCTCTGCATTGACAAGGAGCAAATCGAGACATAACAGATTTGGCTATCACGTGTTTAC
ACGGAAGCAGATCGAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACA
Found at i:30120649 original size:45 final size:45
Alignment explanation
Indices: 30120470--30120684 Score: 220
Period size: 45 Copynumber: 4.8 Consensus size: 45
30120460 GATCCAAGAT
* * *
30120470 GATTTGGCATCTCTGTATTAGACGGGGAGAAGATCGAAGAGATAGCA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCG-A-AGATAACA
* * * * * * * * *
30120517 GATCTGACCT-TCATGTGTT-TACATCGAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGTATTAGACA-GGGAGCAGATCGAAGATAACA
* * *
30120562 AATTTGGCATCTCTGTATTAGAC-GGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
30120606 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
* *
30120651 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGAT
1 GATTTGGCATCTCTGTATTAGACAGGGAGCAGAT
30120685 AAAAAATAGC
Statistics
Matches: 134, Mismatches: 29, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
44 37 0.28
45 68 0.51
46 9 0.07
47 20 0.15
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCGAAGATAACA
Found at i:30120656 original size:89 final size:92
Alignment explanation
Indices: 30120454--30120681 Score: 251
Period size: 89 Copynumber: 2.6 Consensus size: 92
30120444 GACCTTCATT
30120454 GAAGCAGATCCAAGAT----GATTTGGCATCTCTGTATTAGACGGGGAG-AAGATCGAAGAGATA
1 GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAGATCG-AGAGATA
* * * *
30120514 GCAGATCTGACCTTCATGTGTTTACATC
65 ACAGATCTGACATTCATGTATTGACATC
* *
30120542 GAAGCAGATCCAAGATGACAAATTTGGCATCTCTGTATTAGAC-GGGAGCAA-ATCG-GAGATAA
1 GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAGATCGAGAGATAA
* * *
30120604 CAGATTTGGCATCTC-TGTATTAGACA-G
66 CAGATCTGACAT-TCATGTATT-GACATC
* * *
30120631 GGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGCA
1 GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCA
30120682 GATAAAAAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
88 16 0.13
89 58 0.49
90 12 0.10
91 9 0.08
92 24 0.20
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.25
Consensus pattern (92 bp):
GAAGCAGATCCAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAGATCGAGAGATAA
CAGATCTGACATTCATGTATTGACATC
Found at i:30120726 original size:89 final size:87
Alignment explanation
Indices: 30120470--30120733 Score: 221
Period size: 89 Copynumber: 2.9 Consensus size: 87
30120460 GATCCAAGAT
* * *
30120470 GATTTGGCATCTCTGTATTAGACGGGGAGAAGATCGAAGAGATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT--AAGAGATAGCAGAT-TG-CCTTCCTGAG-
* * *
30120535 TTACA-TCGAAGCAGATCCAAGATGACA
61 TTGCAGT-GAAGCAGATCGAAGATAACA
* * ** * * *
30120562 AATTTGGCATCTCTGTATTAGAC-GGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTA-TT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATAAGAGATAGCAGA-TTGCCTTC-CTG-AGTT
*
30120625 AGACAG-GGAGCAGATCGAAGATAACA
63 -G-CAGTGAAGCAGATCGAAGATAACA
* * *
30120651 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATAAAAAATAGCAGATATCGCCTTCCTGAGTTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATAAGAGATAGCAGAT-T-GCCTTCCTGAGTTG
*
30120716 CAGTGAAGCAGATTGAAG
64 CAGTGAAGCAGATCGAAG
30120734 CCGTCAATAG
Statistics
Matches: 135, Mismatches: 26, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
88 8 0.06
89 67 0.50
90 26 0.19
91 12 0.09
92 22 0.16
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (87 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATAAGAGATAGCAGATTGCCTTCCTGAGTTGCA
GTGAAGCAGATCGAAGATAACA
Found at i:30121037 original size:35 final size:37
Alignment explanation
Indices: 30120966--30121063 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
30120956 ATAATCTTCA
30120966 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
30121004 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
30121039 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
30121064 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:30121063 original size:17 final size:19
Alignment explanation
Indices: 30120966--30121056 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
30120956 ATAATCTTCA
30120966 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30120985 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30121004 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30121021 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
30121039 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
30121057 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:30121082 original size:22 final size:22
Alignment explanation
Indices: 30120966--30121079 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
30120956 ATAATCTTCA
30120966 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30120985 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30121004 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30121021 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
30121039 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
30121061 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
30121080 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:30121370 original size:17 final size:17
Alignment explanation
Indices: 30121346--30121380 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30121336 TGTTTCCCTG
*
30121346 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
30121364 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
30121381 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:30138319 original size:10 final size:10
Alignment explanation
Indices: 30138286--30138319 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
30138276 TACCGGCCAC
30138286 CCCTAGCTCT
1 CCCTAGCTCT
*
30138296 CCCTAACTCT
1 CCCTAGCTCT
*
30138306 CCCTAGCTCA
1 CCCTAGCTCT
30138316 CCCT
1 CCCT
30138320 TCTACTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.15, C:0.53, G:0.06, T:0.26
Consensus pattern (10 bp):
CCCTAGCTCT
Found at i:30139623 original size:214 final size:214
Alignment explanation
Indices: 30139254--30139683 Score: 851
Period size: 214 Copynumber: 2.0 Consensus size: 214
30139244 TCTTAGCTAT
30139254 TTAGTTTACCAGTTGAGTGTACCTGAGTTCGAAGTCGCATTAGGACTATACACAGAGGAGTTCAT
1 TTAGTTTACCAGTTGAGTGTACCTGAGTTCGAAGTCGCATTAGGACTATACACAGAGGAGTTCAT
30139319 AGAAGACGACAACTTCGACAGCCTCTATCGCCACATCCACTACTCTCCTTCAAACTACGGGAAGG
66 AGAAGACGACAACTTCGACAGCCTCTATCGCCACATCCACTACTCTCCTTCAAACTACGGGAAGG
30139384 CCCTCGTTCCTGCTTCGACCACTTATGATCCTAGCCACTCTAAGGCATCAGCTCGCCCCATCATT
131 CCCTCGTTCCTGCTTCGACCACTTATGATCCTAGCCACTCTAAGGCATCAGCTCGCCCCATCATT
30139449 GAGATACTTACACACCATC
196 GAGATACTTACACACCATC
30139468 TTAGTTTACCAGTTGAGTGTACCTGAGTTCGAAGTCGCATTAGGACTATACACAGAGGAGTTCAT
1 TTAGTTTACCAGTTGAGTGTACCTGAGTTCGAAGTCGCATTAGGACTATACACAGAGGAGTTCAT
30139533 AGAAGACGACAACTTCGACAGCCTCTATCGCCACATCCACTACTCTCCTTCAAACTACGGGAAGG
66 AGAAGACGACAACTTCGACAGCCTCTATCGCCACATCCACTACTCTCCTTCAAACTACGGGAAGG
30139598 CCCTCGTTCCTGCTTCGACCACTTATGATCCTAGCCACTCTAAGGCATCAGCTCGCCCCATCATT
131 CCCTCGTTCCTGCTTCGACCACTTATGATCCTAGCCACTCTAAGGCATCAGCTCGCCCCATCATT
*
30139663 GAGATCCTTACACACCATC
196 GAGATACTTACACACCATC
30139682 TT
1 TT
30139684 GGCCCACACC
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
214 215 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (214 bp):
TTAGTTTACCAGTTGAGTGTACCTGAGTTCGAAGTCGCATTAGGACTATACACAGAGGAGTTCAT
AGAAGACGACAACTTCGACAGCCTCTATCGCCACATCCACTACTCTCCTTCAAACTACGGGAAGG
CCCTCGTTCCTGCTTCGACCACTTATGATCCTAGCCACTCTAAGGCATCAGCTCGCCCCATCATT
GAGATACTTACACACCATC
Found at i:30140894 original size:40 final size:39
Alignment explanation
Indices: 30140839--30140918 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
30140829 GATAAGTTGA
*
30140839 TTTTTGAGAATAAAAAATTTTTAGGTTGTTTCCCTAAGT
1 TTTTTGAGAATAAAAAATTTTTAGGTTGTTTCCCCAAGT
*
30140878 TTTTTTAGAATAAAAAATTTTTAGGTTGTTTCCCCAAGT
1 TTTTTGAGAATAAAAAATTTTTAGGTTGTTTCCCCAAGT
30140917 TT
1 TT
30140919 AGGTATTATC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (39 bp):
TTTTTGAGAATAAAAAATTTTTAGGTTGTTTCCCCAAGT
Found at i:30149883 original size:96 final size:95
Alignment explanation
Indices: 30149714--30150035 Score: 333
Period size: 96 Copynumber: 3.4 Consensus size: 95
30149704 GAGGGTGAAT
* * * * ** * *
30149714 TGCCGATGCCATGTTCCAAACATGGTCTTACACCAGCT-TACATGTTGAGGCCAATGCCATGTCC
1 TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCT-CATGTTGTGGCCGATGCCATGTCC
30149778 CAAACATGGTCTTACACTAGCGTACATATCAA
65 CAAACATGGTCTTACACTAGC-TACATATCAA
*
30149810 TGCCAATGCCATATCCCAGACATGGTCTTAAACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
1 TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
* *
30149875 AAATATGGTCTTACACTAGCACACATATCAA
66 AAACATGGTCTTACACTAGC-TACATATCAA
* * * ***** * * *
30149906 TGCCAATGCCATATCCTAGACATGGTCTTTCATTGGCTCTCACAACATCGCTGATGCCATGTTCC
1 TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
* * * *
30149971 AAACATGTTCTTACACTGGCTCTCATATC-G
66 AAACATGGTCTTACACTAGCT-ACATATCAA
* *
30150001 TGGCCGATGCCATGTCCCAGACATGGTCTTACACT
1 T-GCCAATGCCATATCCCAGACATGGTCTTACACT
30150036 AACACACATA
Statistics
Matches: 188, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
95 1 0.01
96 186 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATGTTGTGGCCGATGCCATGTCCC
AAACATGGTCTTACACTAGCTACATATCAA
Found at i:30150046 original size:48 final size:48
Alignment explanation
Indices: 30149715--30150048 Score: 271
Period size: 48 Copynumber: 7.0 Consensus size: 48
30149705 AGGGTGAATT
* * * * *
30149715 GCCGATGCCATGTTCCAAACATGGTCTTACACCAGCTTACATGTTGA-G
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCATG
*
30149763 GCCAATGCCATGTCCCAAACATGGTCTTACACTAGCGT-ACATATCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGC-TCACATATC-ATG
* * * * * * * **
30149811 GCCAATGCCATATCCCAGACATGGTCTTAAACTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* *
30149859 GCCGATGCCATGTCCCAAATATGGTCTTACACTAGCACACATATCAAT-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATC-ATG
* * * * * * * * * * *
30149907 GCCAATGCCATATCCTAGACATGGTCTTTCATTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* * * * * *
30149955 GCTGATGCCATGTTCCAAACATGTTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
* * *
30150003 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
30150049 CCCAAATGTC
Statistics
Matches: 221, Mismatches: 58, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
47 5 0.02
48 214 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATCATG
Found at i:30156347 original size:17 final size:17
Alignment explanation
Indices: 30156316--30156398 Score: 67
Period size: 17 Copynumber: 4.9 Consensus size: 17
30156306 CGACGTGGTG
* *
30156316 TGAATGAATTATTATAT
1 TGAATGAACTGTTATAT
*
30156333 TGAATGAACTGTTATAA
1 TGAATGAACTGTTATAT
* ** * *
30156350 TGTACAAACTATTATGT
1 TGAATGAACTGTTATAT
* *
30156367 GGAATGAACTGTTATTT
1 TGAATGAACTGTTATAT
*
30156384 TGCATGAACTGTTAT
1 TGAATGAACTGTTAT
30156399 TTGGATATTT
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 49 1.00
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.41
Consensus pattern (17 bp):
TGAATGAACTGTTATAT
Found at i:30156426 original size:17 final size:17
Alignment explanation
Indices: 30156404--30156467 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 17
30156394 GTTATTTGGA
30156404 TATTTTATATGAATTAT
1 TATTTTATATGAATTAT
** **
30156421 TATTTTGCATGAGCTAT
1 TATTTTATATGAATTAT
* * *
30156438 CATTTTGTATGAATTTT
1 TATTTTATATGAATTAT
*
30156455 TATTTCATATGAA
1 TATTTTATATGAA
30156468 CAAATGTTTA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
TATTTTATATGAATTAT
Found at i:30159858 original size:30 final size:30
Alignment explanation
Indices: 30159823--30159882 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
30159813 TCATTTTACT
30159823 ATTGAATGCTCATATTTAATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
30159853 ATTGAATGCTCATATTTAATTTTATTTTAA
1 ATTGAATGCTCATATTTAATTTTATTTTAA
30159883 GTTTTCTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (30 bp):
ATTGAATGCTCATATTTAATTTTATTTTAA
Found at i:30161780 original size:21 final size:21
Alignment explanation
Indices: 30161756--30161795 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
30161746 GAAAACGCTC
30161756 GTGTGGAAGGGCAACACGCAG
1 GTGTGGAAGGGCAACACGCAG
30161777 GTGTGGAAGGGCAACACGC
1 GTGTGGAAGGGCAACACGC
30161796 CCGTGTGTCT
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:0.28, C:0.20, G:0.42, T:0.10
Consensus pattern (21 bp):
GTGTGGAAGGGCAACACGCAG
Found at i:30161801 original size:21 final size:21
Alignment explanation
Indices: 30161742--30161802 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
30161732 TCAAGCAAAC
* *
30161742 AAGGG-AAAACGCTCGTGTGG
1 AAGGGCAACACGCACGTGTGG
*
30161762 AAGGGCAACACGCAGGTGTGG
1 AAGGGCAACACGCACGTGTGG
*
30161783 AAGGGCAACACGCCCGTGTG
1 AAGGGCAACACGCACGTGTG
30161803 TCTTCCTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.28, C:0.21, G:0.39, T:0.11
Consensus pattern (21 bp):
AAGGGCAACACGCACGTGTGG
Found at i:30163089 original size:48 final size:48
Alignment explanation
Indices: 30163018--30163248 Score: 248
Period size: 48 Copynumber: 4.8 Consensus size: 48
30163008 ACTGCTGATT
* * * * *
30163018 CCATGTCCCAGACATGTTCTTACACTGGCTCACATGTCGAGGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * * * * * *
30163066 CCATGTTCGAAACATGGTCTTACACTAACTCTCATCTAAATGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * ** *
30163114 CCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGACGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACAT-ATCAAGGCCGATG
* *
30163162 CCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGATG
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
* * *
30163210 CCATGTCCCAAACATGGCCTTACACTAGCGCACGTATCA
1 CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCA
30163249 CCCAAATGTC
Statistics
Matches: 151, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 2 0.01
48 148 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACTAGCTCACATATCAAGGCCGATG
Found at i:30163182 original size:96 final size:96
Alignment explanation
Indices: 30163004--30163235 Score: 295
Period size: 96 Copynumber: 2.4 Consensus size: 96
30162994 ATACAAGAGG
* * * * * *
30163004 ATAAACTGCTGATTCCATGTCCCAGACATGTTCTTACACTGGCTCACATGTCGAGGCCGATGCCA
1 ATAAA-TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCA
* * * *
30163069 TGTTCGAAACATGGTCTTACACTAACTCTCAT
65 TGTCCCAAACATGGTCTTACACTAACACACAT
* * *
30163101 CTAAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGACGATGCCA
1 ATAAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-ATCGAGGACGATGCCA
*
30163165 TGTCCCAAACATGGTCTTACACTAGCACACAT
65 TGTCCCAAACATGGTCTTACACTAACACACAT
* *
30163197 ATCAATGCCGATGCCATGTCCCAAACATGGCCTTACACT
1 ATAAATGCCGATGCCATGTCCCAAACATGGTCTTACACT
30163236 AGCGCACGTA
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
96 112 0.96
97 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (96 bp):
ATAAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATCGAGGACGATGCCAT
GTCCCAAACATGGTCTTACACTAACACACAT
Found at i:30164992 original size:19 final size:19
Alignment explanation
Indices: 30164965--30165002 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30164955 ATACTTAATT
*
30164965 AAATGACTTA-AACCATCAA
1 AAATAACTTACAA-CATCAA
30164984 AAATAACTTACAACATCAA
1 AAATAACTTACAACATCAA
30165003 GTACCTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (19 bp):
AAATAACTTACAACATCAA
Found at i:30166686 original size:98 final size:99
Alignment explanation
Indices: 30166520--30166837 Score: 300
Period size: 100 Copynumber: 3.2 Consensus size: 99
30166510 ATTCCAACAC
* * * * * * *
30166520 CAAATGTGGCTGCACTAGTAATTTCTTTTTACTTTTTTGGTGTTGCATCTTCATATGGAGGCACC
1 CAAATGTGGCGGCACCAGTAATTT-TTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGAGGCACC
30166585 AAAATCAATAAAAA-TATTTCCT-TGGTACCAACTA
65 AAAATCAATAAAAATTATTT-CTATGGTACCAACTA
* * * *
30166619 CAAATGTGGCGGCACCAGCAAATTTTTTTAATTTTTCGGTGTCGCCTCTTCATGTAGAGACACCA
1 CAAATGTGGCGGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGAGGCACCA
* *
30166684 AAATCAATAAAAAATTATTTCTCTGGTGCCAAC-A
66 AAATCAAT-AAAAATTATTTCTATGGTACCAACTA
* ** * * * * * *
30166718 CCAAATTTAACAGCACCAATAATTTTTTTTACTTTCTGGGTGCCGCCTCTTCATGTAGAGGCACT
1 -CAAATGTGGCGGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGAGGCACC
* * * *
30166783 AAATTTCGTAAAAAAAATTATTTTCTATGCTACCAACTC
65 AAA-ATC--AATAAAAATTA-TTTCTATGGTACCAACTA
*
30166822 CAAATGTGGTGGCACC
1 CAAATGTGGCGGCACC
30166838 TGATTTTTTT
Statistics
Matches: 174, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
98 42 0.24
99 28 0.16
100 68 0.39
101 2 0.01
102 8 0.05
103 26 0.15
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (99 bp):
CAAATGTGGCGGCACCAGTAATTTTTTTTACTTTTTCGGTGTCGCCTCTTCATGTAGAGGCACCA
AAATCAATAAAAATTATTTCTATGGTACCAACTA
Found at i:30170992 original size:50 final size:51
Alignment explanation
Indices: 30170827--30171057 Score: 208
Period size: 52 Copynumber: 4.6 Consensus size: 51
30170817 ATCTGATATG
* * * *
30170827 CATAGTAGCCTACACTTAGTA-TACACATGCGACC-AAA-AATCCGGTAAA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCTGGTACA
* * * * * *
30170875 CGTAGTAGCCTGCACTTAGTACTACACATGTGA-TTGAAGT-TGTAGGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCT--GGTACA
*
30170926 CATAGTAGTCTGCACTTAGTACTACACATGCGACCT-AACTATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCTGGTACA
* ***
30170976 CGTAGTAGCCTGCACTTAGTACTATACACAT--GACCTAAAACTATCTTAAACA
1 CATAGTAGCCTGCACTTAGTAC--TACACATGCGACCT-AAACTATCTGGTACA
* *
30171028 CATAGTAGTCTGCACATAGTACTACACATG
1 CATAGTAGCCTGCACTTAGTACTACACATG
30171058 TGTTCTCACA
Statistics
Matches: 148, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
48 19 0.13
49 13 0.09
50 38 0.26
51 38 0.26
52 40 0.27
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (51 bp):
CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAAACTATCTGGTACA
Found at i:30180824 original size:20 final size:22
Alignment explanation
Indices: 30180790--30180834 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
30180780 TTAGCATGTT
*
30180790 AAAATAATATTAAATAAAT-AC
1 AAAATAATATAAAATAAATAAC
30180811 AAAA-AATATAAAATAAATAAC
1 AAAATAATATAAAATAAATAAC
30180832 AAA
1 AAA
30180835 TCATGAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAATATAAAATAAATAAC
Found at i:30206466 original size:93 final size:93
Alignment explanation
Indices: 30206354--30206524 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30206344 GCCCATAAGT
* *
30206354 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
30206418 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
30206447 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
30206512 CGAGTTCGGATGC
66 CGAGTTCGGATGC
30206525 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:30206521 original size:46 final size:46
Alignment explanation
Indices: 30206346--30206521 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
30206336 TGTAACCCGC
* *
30206346 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* *
30206392 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
30206442 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
30206485 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30206522 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 61 0.56
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:30213232 original size:26 final size:26
Alignment explanation
Indices: 30213196--30213245 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
30213186 TTCAAAGCAT
*
30213196 ACACTATGGCGGCCAACTCTAAGTTA
1 ACACTATGGCGACCAACTCTAAGTTA
30213222 ACACTATGGCGACCAACTCTAAGT
1 ACACTATGGCGACCAACTCTAAGT
30213246 CATGTGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (26 bp):
ACACTATGGCGACCAACTCTAAGTTA
Found at i:30216566 original size:31 final size:29
Alignment explanation
Indices: 30216502--30216566 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
30216492 TTTTAAGAGC
*
30216502 CACACGCCCGTATGCGTAGGCCGTGTGGT
1 CACACACCCGTATGCGTAGGCCGTGTGGT
*
30216531 CACACACCCGTATGTGTAGGCCGTGTGGT
1 CACACACCCGTATGCGTAGGCCGTGTGGT
30216560 CACACAC
1 CACACAC
30216567 GACCGTGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.32, G:0.29, T:0.20
Consensus pattern (29 bp):
CACACACCCGTATGCGTAGGCCGTGTGGT
Found at i:30221999 original size:21 final size:20
Alignment explanation
Indices: 30221973--30222013 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30221963 TAGAAATTAA
*
30221973 ATTTTTTTTAATTTTTTTAGG
1 ATTTTTTTT-ATTTTTCTAGG
30221994 ATTTTTTTTATTTTTCTAGG
1 ATTTTTTTTATTTTTCTAGG
30222014 TTCGTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (20 bp):
ATTTTTTTTATTTTTCTAGG
Found at i:30224691 original size:86 final size:86
Alignment explanation
Indices: 30224537--30224703 Score: 273
Period size: 86 Copynumber: 1.9 Consensus size: 86
30224527 TCTATTAAAC
* *
30224537 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAATTTTATTAGG
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
*
30224602 GTTAATAAATGGTCAACGTAG
66 GTTAATAAATAGTCAACGTAG
* *
30224623 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTGATTATTTTTACTCAAATTGATT-GT
1 ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAG-
30224687 GGTTAATAAATAGTCAA
65 GGTTAATAAATAGTCAA
30224704 TTTAGCCACA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
85 1 0.01
86 74 0.99
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (86 bp):
ATAGAAATATGTGAGATATGTTTAGAAATTAAATAAGTTAAATATTTTTACTCAAATTGATTAGG
GTTAATAAATAGTCAACGTAG
Found at i:30226109 original size:2 final size:2
Alignment explanation
Indices: 30226104--30226133 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30226094 TTTTTTCTCT
30226104 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30226134 TAGAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:30226457 original size:30 final size:31
Alignment explanation
Indices: 30226417--30226475 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
30226407 TCTTCTCTTT
*
30226417 CTCTTCATTAACATAACAAATACATAACACC
1 CTCTTCATTAAAATAACAAATACATAACACC
* * *
30226448 CTCTT-ATTAAAATCATAATTACATAACA
1 CTCTTCATTAAAATAACAAATACATAACA
30226476 TATTCATGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.31
Consensus pattern (31 bp):
CTCTTCATTAAAATAACAAATACATAACACC
Found at i:30227375 original size:3 final size:3
Alignment explanation
Indices: 30227367--30227409 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
30227357 GTGCATCCAT
30227367 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
30227410 CTATCGTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:30227973 original size:21 final size:21
Alignment explanation
Indices: 30227930--30227975 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
30227920 GTACAATATC
* * *
30227930 CAAACAATAACAAAATGGTAG
1 CAAACAACAACAAAATAGCAG
*
30227951 CAAACAACAACAAACTAGCAG
1 CAAACAACAACAAAATAGCAG
30227972 CAAA
1 CAAA
30227976 TAGTAGCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.09
Consensus pattern (21 bp):
CAAACAACAACAAAATAGCAG
Found at i:30242696 original size:154 final size:150
Alignment explanation
Indices: 30242484--30242778 Score: 397
Period size: 154 Copynumber: 1.9 Consensus size: 150
30242474 AAAAGGAGAA
*
30242484 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAATTTTAAAA-TTTTAAA
1 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTTAAA
* * *
30242548 ATAAAGTTTT-ATTTTTTTTTTCAACTATTTC-AAATAAA-ATCTTTGATTTTTAAGAAAAGTAG
66 ACAAAGTTTTGA---TCTTTTTCAACTATTTCGAAATAAAGA--TTTGATTTTTAAGAAAAATAG
30242610 TGA-TTTTTTAAAAGAGAAAAAGAG
126 TGATTTTTTTAAAAGAGAAAAAGAG
*
30242634 AGTTTAGATTTTTAAAAATAAAAATCTAAT-TTTTTTAGTCATTTTAAAGGAAAAGTTT-AAATT
1 AGTTTAGA-TTTTAAAAAT-AAAA--T-ATGTCTTTTAGTCATTTTAAAGG-AAAGTTTAAAATT
30242697 TTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGATTTGATTTTTAAGAAAAATA
60 TTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGATTTGATTTTTAAGAAAAATA
30242762 GTGATTTTTTTAAAAGA
125 GTGATTTTTTTAAAAGA
30242779 AAACTTTAAT
Statistics
Matches: 129, Mismatches: 5, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
150 8 0.06
151 10 0.08
152 4 0.03
153 39 0.30
154 42 0.33
155 25 0.19
156 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (150 bp):
AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTTAAA
ACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGATTTGATTTTTAAGAAAAATAGTGATT
TTTTTAAAAGAGAAAAAGAG
Found at i:30242766 original size:153 final size:148
Alignment explanation
Indices: 30242484--30242778 Score: 400
Period size: 153 Copynumber: 1.9 Consensus size: 148
30242474 AAAAGGAGAA
*
30242484 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAATTTTAAAATTTTAAAA
1 AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAA
* * *
30242549 TAAAGTTTTATTTTTTTTTTCAACTATTTCAAATAAAATCTTTGATTTTTAAGAAAAGTAGTGA-
66 CAAAGTTTTA--TTCTTTTTCAACTATTTCAAATAAAA-CTTTGATTTTTAAGAAAAATAGTGAT
30242613 TTTTTTAAAAGAGAAAAAGAG
128 TTTTTTAAAAGAGAAAAAGAG
* *
30242634 AGTTTAGATTTTTAAAAATAAAAATCTAAT-TTTTTTAGTCATTTTAAAGGAAAAGTTTAAATTT
1 AGTTTAGA-TTTTAAAAAT-AAAA--T-ATGTCTTTTAGTCATTTTAAAGG-AAAGTTTAAAATT
30242698 TTAAAACAAAGTTTTGA-TCTTTTTCAACTATTTCGAAATAAAGA-TTTGATTTTTAAGAAAAAT
60 TTAAAACAAAGTTTT-ATTCTTTTTCAACTATTTC-AAATAAA-ACTTTGATTTTTAAGAAAAAT
30242761 AGTGATTTTTTTAAAAGA
122 AGTGATTTTTTTAAAAGA
30242779 AAACTTTAAT
Statistics
Matches: 129, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
150 8 0.06
151 10 0.08
152 4 0.03
153 39 0.30
154 39 0.30
155 28 0.22
156 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (148 bp):
AGTTTAGATTTTAAAAATAAAATATGTCTTTTAGTCATTTTAAAGGAAAGTTTAAAATTTTAAAA
CAAAGTTTTATTCTTTTTCAACTATTTCAAATAAAACTTTGATTTTTAAGAAAAATAGTGATTTT
TTTAAAAGAGAAAAAGAG
Found at i:30244456 original size:17 final size:16
Alignment explanation
Indices: 30244434--30244493 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 16
30244424 ATAACAGATT
30244434 TAAAATATAATATATAA
1 TAAAATATAATATAT-A
*
30244451 TAAAATAT-ATATTTA
1 TAAAATATAATATATA
30244466 TAAGAATAATAAT-TATA
1 TAA-AAT-ATAATATATA
30244483 TAAAAATATAA
1 T-AAAATATAA
30244494 AAATTGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.11
16 12 0.32
17 17 0.46
18 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
TAAAATATAATATATA
Found at i:30244824 original size:17 final size:18
Alignment explanation
Indices: 30244804--30244844 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
30244794 TATGAAAGTG
30244804 TATATATGTAAA-AATAA
1 TATATATGTAAATAATAA
*
30244821 TATATA-ATAAATAATAA
1 TATATATGTAAATAATAA
30244838 TA-ATATG
1 TATATATG
30244845 GAATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
TATATATGTAAATAATAA
Found at i:30256349 original size:39 final size:39
Alignment explanation
Indices: 30256302--30256432 Score: 190
Period size: 39 Copynumber: 3.4 Consensus size: 39
30256292 TATATGAGAT
* *
30256302 TGGAAATATATCCGGACATGAGGTCCGCCGGCTATATGT
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
30256341 TGGAAATATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * **
30256380 TAGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
30256419 TGGAAAAATATCCG
1 TGGAAATATATCCG
30256433 AGTTAAAGAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:30256447 original size:78 final size:77
Alignment explanation
Indices: 30256304--30256459 Score: 188
Period size: 78 Copynumber: 2.0 Consensus size: 77
30256294 TATGAGATTG
* * * * * *
30256304 GAAATATATCCGGACATGAGGTCCGCCGGCTATATGTTGGAAATATATCCGGACATGAGATCCGC
1 GAAATATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
*
30256369 AGGCTATATGCTA
66 AGGCT-TACGCTA
* * **
30256382 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCC-GAGTTAAAGACCCG
1 GAAATATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
30256446 CAGGCTTACGCTA
65 CAGGCTTACGCTA
30256459 G
1 G
30256460 TAATGTATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 10 0.15
78 56 0.85
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (77 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
AGGCTTACGCTA
Found at i:30259860 original size:35 final size:35
Alignment explanation
Indices: 30259793--30259860 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
30259783 TAGGATCACG
* *
30259793 TATCTTTGAAGATCTCCTTCCATATTTTCCAAGCA
1 TATCTTTGAAGATCACCTTCCATATTTGCCAAGCA
* * *
30259828 TATCTTTGAAGATCACTTTCTATGTTTGCCAAG
1 TATCTTTGAAGATCACCTTCCATATTTGCCAAG
30259861 TTCCGGAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (35 bp):
TATCTTTGAAGATCACCTTCCATATTTGCCAAGCA
Found at i:30261708 original size:187 final size:187
Alignment explanation
Indices: 30261393--30261770 Score: 738
Period size: 187 Copynumber: 2.0 Consensus size: 187
30261383 AAACTTAACA
* *
30261393 CATAAGATAAATATAAGTCAATTTATCCATGGAAACCATATCAAATTTCATACACATGTTTCATA
1 CATAAGATAAATATAAGTCAATTTATCCATAGAAACCATAGCAAATTTCATACACATGTTTCATA
30261458 ATTCACATCTAACTCACTTGTTCTTAATGCACTTGCATTTAACCACCATTCATTCTTATGAAATT
66 ATTCACATCTAACTCACTTGTTCTTAATGCACTTGCATTTAACCACCATTCATTCTTATGAAATT
30261523 CACATGTCATCATTTATACACATACTCACCTTTCATTCTTGAATAACATATACATTT
131 CACATGTCATCATTTATACACATACTCACCTTTCATTCTTGAATAACATATACATTT
30261580 CATAAGATAAATATAAGTCAATTTATCCATAGAAACCATAGCAAATTTCATACACATGTTTCATA
1 CATAAGATAAATATAAGTCAATTTATCCATAGAAACCATAGCAAATTTCATACACATGTTTCATA
30261645 ATTCACATCTAACTCACTTGTTCTTAATGCACTTGCATTTAACCACCATTCATTCTTATGAAATT
66 ATTCACATCTAACTCACTTGTTCTTAATGCACTTGCATTTAACCACCATTCATTCTTATGAAATT
30261710 CACATGTCATCATTTATACACATACTCACCTTTCATTCTTGAATAACATATACATTT
131 CACATGTCATCATTTATACACATACTCACCTTTCATTCTTGAATAACATATACATTT
30261767 CATA
1 CATA
30261771 CATACCTGAA
Statistics
Matches: 189, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
187 189 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.37
Consensus pattern (187 bp):
CATAAGATAAATATAAGTCAATTTATCCATAGAAACCATAGCAAATTTCATACACATGTTTCATA
ATTCACATCTAACTCACTTGTTCTTAATGCACTTGCATTTAACCACCATTCATTCTTATGAAATT
CACATGTCATCATTTATACACATACTCACCTTTCATTCTTGAATAACATATACATTT
Found at i:30261943 original size:43 final size:43
Alignment explanation
Indices: 30261877--30262035 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
30261867 AACTCGTACA
*
30261877 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTTATCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTTATCAAATATCG
* ** *
30261920 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTTATCAAATATCG
* * * *
30261962 ATGCCAATATCCCGGACATGGTCTTACACGTATATCTCAA-ATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGT-TATC-AAATATCG
* *
30262006 ATGCCAACGTCCCAGA-TGTGGTCTTACACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACG
30262036 AAATCACATA
Statistics
Matches: 93, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 28 0.30
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTTATCAAATATCG
Found at i:30262021 original size:86 final size:85
Alignment explanation
Indices: 30261877--30262046 Score: 220
Period size: 86 Copynumber: 2.0 Consensus size: 85
30261867 AACTCGTACA
* * *
30261877 ATGCCAATGTCCCAGACGTGGTCTTACATGTTATCAAATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAATATCCCAGACATGGTCTTACACGTTATCAAATATCGATGCCACTGTCCCAGA-AGTGG
*
30261941 TCTTACACGAAATCATATACG
65 TCTTACACGAAATCACATACG
* * *
30261962 ATGCCAATATCCCGGACATGGTCTTACACGTATATCTCAA-ATCGATGCCAAC-GTCCCAGATGT
1 ATGCCAATATCCCAGACATGGTCTTACACGT-TATC-AAATATCGATGCC-ACTGTCCCAGAAGT
30262025 GGTCTTACACGAAATCACATAC
63 GGTCTTACACGAAATCACATAC
30262047 CGGAATCCTA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
85 28 0.38
86 42 0.57
87 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTTATCAAATATCGATGCCACTGTCCCAGAAGTGGT
CTTACACGAAATCACATACG
Found at i:30264321 original size:43 final size:43
Alignment explanation
Indices: 30264258--30264373 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
30264248 TACCGTACCA
* **
30264258 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATAGCCCAGATATGGTCTTACATGTAAGTCTCAAATCG
* * *
30264300 ATGCCAATAGCCTAGCTATGGTCTTACACG-AAGTCTCAAATCG
1 ATGCC-ATAGCCCAGATATGGTCTTACATGTAAGTCTCAAATCG
* *
30264343 ATGCCATATCCCAGATATGGTGTTACATGTA
1 ATGCCATAGCCCAGATATGGTCTTACATGTA
30264374 TTATAATCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
ATGCCATAGCCCAGATATGGTCTTACATGTAAGTCTCAAATCG
Found at i:30264475 original size:40 final size:41
Alignment explanation
Indices: 30264392--30264488 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 41
30264382 TCGCGCACTA
* **
30264392 GCCATATATAGCCAAAGCTATCTCGGTCTCGCACACTAAGT
1 GCCATATATAGCCAAAGCTATCTCCGAATCGCACACTAAGT
*
30264433 GCCATATATAGCCGAAGCTAT-TCCGAATCGCACACTAAGT
1 GCCATATATAGCCAAAGCTATCTCCGAATCGCACACTAAGT
*
30264473 GCCATATATATCCAAA
1 GCCATATATAGCCAAA
30264489 TCATCGTCAA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
40 30 0.60
41 20 0.40
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (41 bp):
GCCATATATAGCCAAAGCTATCTCCGAATCGCACACTAAGT
Found at i:30267117 original size:24 final size:22
Alignment explanation
Indices: 30267090--30267137 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
30267080 ATGCTATAAA
*
30267090 AAATATTATATAATTATATATGTT
1 AAATA-TA-ATAATTATATATATT
30267114 -AA-ATAATAATTATATATATT
1 AAATATAATAATTATATATATT
30267134 AAAT
1 AAAT
30267138 CAATAACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
20 14 0.67
21 4 0.19
22 1 0.05
23 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATATAATAATTATATATATT
Found at i:30267122 original size:20 final size:21
Alignment explanation
Indices: 30267099--30267143 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
30267089 AAAATATTAT
*
30267099 ATAATTATATATGTTAAAT-A
1 ATAATTATATATATTAAATCA
30267119 ATAATTATATATATTAAATCA
1 ATAATTATATATATTAAATCA
30267140 ATAA
1 ATAA
30267144 CCTAATATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
ATAATTATATATATTAAATCA
Found at i:30270083 original size:27 final size:27
Alignment explanation
Indices: 30270045--30270098 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30270035 TTGCCATGAA
30270045 AATGAAAACTAAAACGAAACTACTCTT
1 AATGAAAACTAAAACGAAACTACTCTT
30270072 AATGAAAACTAAAACGAAACTACTCTT
1 AATGAAAACTAAAACGAAACTACTCTT
30270099 TCTTGCCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (27 bp):
AATGAAAACTAAAACGAAACTACTCTT
Found at i:30271272 original size:39 final size:39
Alignment explanation
Indices: 30271205--30271281 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
30271195 CTAACTACTC
* *** *
30271205 TAATCAAATACCAATATTTTTTACGGATACTAAAATTTT
1 TAATCAAATACAAATATTTCAAACGGATACCAAAATTTT
*
30271244 TAATCAAATACAAATATTTCAAATGGATACCAAAATTT
1 TAATCAAATACAAATATTTCAAACGGATACCAAAATTT
30271282 CTAACTAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (39 bp):
TAATCAAATACAAATATTTCAAACGGATACCAAAATTTT
Found at i:30271319 original size:19 final size:20
Alignment explanation
Indices: 30271270--30271317 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30271260 TTTCAAATGG
* *
30271270 ATACCAAAATTTCTAACTAA
1 ATACTAAAATTCCTAACTAA
30271290 ATACTAAAATTCCTAA-TAA
1 ATACTAAAATTCCTAACTAA
30271309 ATACATAAA
1 ATAC-TAAA
30271318 TTTTTAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.29
Consensus pattern (20 bp):
ATACTAAAATTCCTAACTAA
Found at i:30271325 original size:19 final size:18
Alignment explanation
Indices: 30271231--30271326 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 18
30271221 TTTTTTACGG
*
30271231 ATACTAAAATTTTTAATCAA
1 ATAC-AAAATTTCTAAT-AA
* **
30271251 ATACAAATATTTCAAATGG
1 ATACAAA-ATTTCTAATAA
30271270 ATACCAAAATTTCTAACTAA
1 ATA-CAAAATTTCTAA-TAA
*
30271290 ATACTAAAATTCCTAATAA
1 ATAC-AAAATTTCTAATAA
*
30271309 ATACATAAATTTTTAATA
1 ATACA-AAATTTCTAATA
30271327 CATGCCAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
18 1 0.02
19 31 0.51
20 29 0.48
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (18 bp):
ATACAAAATTTCTAATAA
Found at i:30271440 original size:28 final size:28
Alignment explanation
Indices: 30271408--30271469 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
30271398 TAAAAAATTG
* * *
30271408 TAAAAAGATGTTATAAA-TAAAAAAAAC
1 TAAAAAAATGTGAAAAATTAAAAAAAAC
*
30271435 TAAAAAAATGTGAAAAATTAAGAAAAAC
1 TAAAAAAATGTGAAAAATTAAAAAAAAC
*
30271463 TACAAAA
1 TAAAAAA
30271470 TTAATCATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.68, C:0.05, G:0.08, T:0.19
Consensus pattern (28 bp):
TAAAAAAATGTGAAAAATTAAAAAAAAC
Found at i:30271853 original size:21 final size:20
Alignment explanation
Indices: 30271828--30271892 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
30271818 ATTATCCCAA
*
30271828 AACCCTTAAACCTTGAACTCG
1 AACCC-TAAACCTTAAACTCG
* *
30271849 AACCCCTAAACTTTAAACTTG
1 AA-CCCTAAACCTTAAACTCG
*
30271870 AACCCTAAACC-TAAACTTG
1 AACCCTAAACCTTAAACTCG
30271889 AACC
1 AACC
30271893 TCGAACCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.31
20 8 0.21
21 16 0.41
22 3 0.08
ACGTcount: A:0.38, C:0.32, G:0.06, T:0.23
Consensus pattern (20 bp):
AACCCTAAACCTTAAACTCG
Found at i:30271898 original size:26 final size:26
Alignment explanation
Indices: 30271853--30271907 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
30271843 AACTCGAACC
* *
30271853 CCTAAACTTTAAACTTGAACCCTAAA
1 CCTAAACTTGAAACTCGAACCCTAAA
*
30271879 CCTAAACTTGAACCTCGAACCCTAAA
1 CCTAAACTTGAAACTCGAACCCTAAA
30271905 CCT
1 CCT
30271908 TCAATTCCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.33, G:0.05, T:0.24
Consensus pattern (26 bp):
CCTAAACTTGAAACTCGAACCCTAAA
Found at i:30271899 original size:19 final size:20
Alignment explanation
Indices: 30271828--30271905 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 20
30271818 ATTATCCCAA
* * *
30271828 AACCCTTAAACCTTGAACTCG
1 AACCC-TAAACCCTAAACTTG
**
30271849 AACCCCTAAACTTTAAACTTG
1 AA-CCCTAAACCCTAAACTTG
30271870 AACCCTAAA-CCTAAACTTG
1 AACCCTAAACCCTAAACTTG
*
30271889 AA-CCTCGAACCCTAAAC
1 AACCCT-AAACCCTAAAC
30271906 CTTCAATTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 3 0.06
19 12 0.25
20 14 0.29
21 16 0.33
22 3 0.06
ACGTcount: A:0.38, C:0.33, G:0.06, T:0.22
Consensus pattern (20 bp):
AACCCTAAACCCTAAACTTG
Found at i:30276581 original size:114 final size:109
Alignment explanation
Indices: 30276384--30276772 Score: 353
Period size: 114 Copynumber: 3.5 Consensus size: 109
30276374 TTTATTAAGT
* * * * * *
30276384 TTAAGTTTATTTTATTATTGTTTTTATGATATCTTATAATAGTTTTTTTGTATTT-AGAAGAAAT
1 TTAA-TTTATTTTATTAATGTTTTTTTG-TATCTTATATTAGATTTTTCGTATTTAAG-GGAAAT
* * *
30276448 AATTTTTTTTAGTTATGTTTTATAAGATTTAAGTTTGTATTAAATGTATGA
63 -A-TTTTATT-GTTGTGTTTTATTAG-TTTAAGTTTGTATTAAATGTATGA
* *
30276499 TTAGTTTATTTTATTAATGTTTTTGTTGTATCTTATATTAGCTTTTTCGTATTTAAGGGGAAGGA
1 TTAATTTATTTTATTAATGTTTTT-TTGTATCTTATATTAGATTTTTCGTATTTAA-GGGAA--A
* *
30276564 TATTTTGTTGTTGTGTTTTATTAGTTTTAGATTTGTATTAAATGTATGA
62 TATTTTATTGTTGTGTTTTATTAGTTTAAG-TTTGTATTAAATGTATGA
* * *
30276613 TTAATTTGTTTTATTAATATTTTTGTGGTATCTTATATTA-ATTTTTCGTATTTAA-GGAAA-A-
1 TTAATTTATTTTATTAATGTTTTT-TTGTATCTTATATTAGATTTTTCGTATTTAAGGGAAATAT
** * * *
30276674 -AAATTGTTGTGTTTTATTAGGTTTAAGTTTGTACT-AAGGTTTGA
65 TTTATTGTTGTGTTTTATTA-GTTTAAGTTTGTATTAAATGTATGA
* * * * *
30276718 TTAATTTGTTTTATTAATGTTTTTTAAGAATCTTATA-TCGGTTTTTCGTATTTAA
1 TTAATTTATTTTATTAATGTTTTTT-TGTATCTTATATTAGATTTTTCGTATTTAA
30276773 TGTATAAGCA
Statistics
Matches: 237, Mismatches: 28, Indels: 28
0.81 0.10 0.10
Matches are distributed among these distances:
104 2 0.01
105 53 0.22
106 23 0.10
107 6 0.03
108 1 0.00
109 1 0.00
111 4 0.02
113 19 0.08
114 109 0.46
115 15 0.06
116 2 0.01
117 2 0.01
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.56
Consensus pattern (109 bp):
TTAATTTATTTTATTAATGTTTTTTTGTATCTTATATTAGATTTTTCGTATTTAAGGGAAATATT
TTATTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAATGTATGA
Found at i:30279778 original size:25 final size:25
Alignment explanation
Indices: 30279731--30279780 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
30279721 TGTGAGCTTG
****
30279731 TAACAGGAAGCTTATTCGGGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
30279756 TAACAGGAAGCTTATAAAAGCTTAA
1 TAACAGGAAGCTTATAAAAGCTTAA
30279781 ATCAGAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (25 bp):
TAACAGGAAGCTTATAAAAGCTTAA
Found at i:30283960 original size:32 final size:29
Alignment explanation
Indices: 30283873--30283960 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 29
30283863 AAAAATACTA
30283873 TTATAAATTATATTTAATAATAA-TTATT
1 TTATAAATTATATTTAATAATAATTTATT
* * *
30283901 TTA-AAA-TATGATTAAATTAT-TTATTATT
1 TTATAAATTAT-ATTTAATAATAAT-TTATT
30283929 TATATTAAATTATATTTAATAATAATCTTATT
1 T-TA-TAAATTATATTTAATAATAAT-TTATT
30283961 AAAATTTAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
26 3 0.07
27 11 0.24
28 9 0.20
29 2 0.04
31 11 0.24
32 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATAAATTATATTTAATAATAATTTATT
Found at i:30297952 original size:177 final size:177
Alignment explanation
Indices: 30297656--30298002 Score: 550
Period size: 177 Copynumber: 2.0 Consensus size: 177
30297646 AAGCTTCTAG
* * * * *
30297656 AATGCAAAATTTTCATCTTATTTAGTTTGGTCCCTAAAGTTCAATTAAACATTTTATGCATATAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAAACAATTTATGCATATAA
* *
30297721 TTTCTTCACGAAACTTTCACATAAGCTTGCATTCATATCATAGACCTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* * * *
30297786 ATTATTTATATCTCAAATTTTTTGTCTCGAAACTACTGTTCCGACTA
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
* *
30297833 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTTAATTAGACAATTTATGCATATAA
1 AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAAACAATTTATGCATATAA
*
30297898 TTTCTTCTCGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
66 TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
* *
30297963 ATTATTTCTATCTCGAATTTATGGTCTCAAAACCACTGTT
131 ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTT
30298003 GATGTTACAA
Statistics
Matches: 154, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
177 154 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.39
Consensus pattern (177 bp):
AATGCAAAATTTGCATATTATTCAGTTTGATCCCTAAAGTTCAATTAAACAATTTATGCATATAA
TTTCTTCACGAAACTTTCACATAAGCATGCATTCATATCATAGAACTCATAAGAATCATATAATA
ATTATTTATATCTCAAATTTATGGTCTCAAAACCACTGTTCCGACTA
Found at i:30303330 original size:47 final size:46
Alignment explanation
Indices: 30303278--30303453 Score: 185
Period size: 47 Copynumber: 3.7 Consensus size: 46
30303268 GGTATAGTGT
* * *
30303278 CGATGCAATGTCCCAGACATGGTCTTATATTGGCTCATATCTCAAGT
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGC
* *
30303325 CGATGCTATGTCCCTGACATGGTCTTACACTGACT-ATCATCTCATAGC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCA-AGC
* * * * *
30303373 CGAGGCATGTCCCAGACAT-GTCTTACACTAGTTCTTGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAA-GC
*
30303419 CAATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCT
30303454 TTCATAAAGT
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 23 0.22
47 63 0.59
48 19 0.18
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGC
Found at i:30303476 original size:47 final size:46
Alignment explanation
Indices: 30303377--30303497 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 46
30303367 CATAGCCGAG
* *
30303377 GCATGTCCCAGACATGTCTTACACTAGTTCTTGTCTCAATGCCAAT
1 GCATGTCCCAGACATGTCTTACACTAGTGCTTGTCTAAATGCCAAT
*
30303423 GCCATGTCCCAGACATGGTCTTACACT-G-GCTT-TCATAAAGTGGTCAAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGTGCTTGTC-TAAA-T-GCCAAT
*
30303471 GCATGTCTCAGACATGTCTTACACTAG
1 GCATGTCCCAGACATGTCTTACACTAG
30303498 CTCACACACA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
45 2 0.03
46 17 0.26
47 30 0.46
48 16 0.25
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGTGCTTGTCTAAATGCCAAT
Found at i:30306144 original size:18 final size:19
Alignment explanation
Indices: 30306113--30306160 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 19
30306103 AACAAATGGG
30306113 AAAG-AAAGAAAGAAAGGAGAA
1 AAAGAAAAGAAA-AAA-GA-AA
30306134 AAAGAAAAGAAAAAAGAAA
1 AAAGAAAAGAAAAAAGAAA
30306153 AAAGAAAA
1 AAAGAAAA
30306161 ATTAGGGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 10 0.38
20 2 0.08
21 7 0.27
22 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAAAAGAAA
Found at i:30306148 original size:7 final size:7
Alignment explanation
Indices: 30306112--30306161 Score: 50
Period size: 7 Copynumber: 6.9 Consensus size: 7
30306102 TAACAAATGG
30306112 GAAAGAAA
1 GAAA-AAA
30306120 GAAAGAAA
1 GAAA-AAA
30306128 GGAGAAAAA
1 -GA-AAAAA
30306137 G--AAAA
1 GAAAAAA
30306142 GAAAAAA
1 GAAAAAA
30306149 GAAAAAA
1 GAAAAAA
30306156 GAAAAA
1 GAAAAA
30306162 TTAGGGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
5 5 0.13
7 17 0.45
8 9 0.24
9 5 0.13
10 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:30306149 original size:25 final size:26
Alignment explanation
Indices: 30306113--30306161 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
30306103 AACAAATGGG
**
30306113 AAAGAAAGAAAGAAAGGAGAAAAAGA
1 AAAGAAAGAAAGAAAAAAGAAAAAGA
30306139 AAAGAAA-AAAGAAAAAAGAAAAA
1 AAAGAAAGAAAGAAAAAAGAAAAA
30306162 TTAGGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (26 bp):
AAAGAAAGAAAGAAAAAAGAAAAAGA
Found at i:30306160 original size:12 final size:12
Alignment explanation
Indices: 30306113--30306153 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
30306103 AACAAATGGG
30306113 AAAGAAAGAAAGA
1 AAAGAAA-AAAGA
*
30306126 AAGGAGAAAAAGA
1 AAAGA-AAAAAGA
30306139 AAAGAAAAAAGA
1 AAAGAAAAAAGA
30306151 AAA
1 AAA
30306154 AAGAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 10 0.40
13 13 0.52
14 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:30306525 original size:22 final size:22
Alignment explanation
Indices: 30306487--30306534 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
30306477 AGAAATTAAG
30306487 TAGAAAAGAAGTATGAATTGAGT
1 TAGAAAAGAAG-ATGAATTGAGT
*
30306510 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTGAGT
30306532 TAG
1 TAG
30306535 GATTAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.00, G:0.25, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTGAGT
Found at i:30321477 original size:47 final size:47
Alignment explanation
Indices: 30321410--30321628 Score: 216
Period size: 47 Copynumber: 4.7 Consensus size: 47
30321400 GTTATTGTGG
* *
30321410 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGTAGA
* * * *
30321456 GCCAGTGTAAGATCATGTCTGGGACATGTATCAGCTTCGAGACGTA-A
1 GCTAGTGTAAGA-CATGTCTGGGACATGCATCAGCTACGAGATGTAGA
* *
30321503 GCTAGTGTAAGACATGTCTGGGATATGCATCAGCTACGAGATG-ATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTAGA
* * * * *
30321549 GTTAGTCTAAGACCATGTCTGGGACATGGCATCAAC-ATGAGATAT-GA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGTAGA
*
30321596 GCTAGTGTAAGATCGTGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
30321629 GGCACCTTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
45 1 0.01
46 49 0.34
47 85 0.59
48 9 0.06
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGTAGA
Found at i:30321599 original size:93 final size:93
Alignment explanation
Indices: 30321410--30321628 Score: 253
Period size: 93 Copynumber: 2.3 Consensus size: 93
30321400 GTTATTGTGG
* * *
30321410 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGATCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTCTAAGACCATGTC
* * * *
30321475 TGGGACATGTATCAGCTTCGAGACGTAA
66 TGGGACATGCATCAACATCGAGACATAA
* * * **
30321503 GCTAGTGTAAGACATGTCTGGGATATGCATCAGCTACGA-GATGATAGTTAGTCTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTCTAAGACCATGT
* *
30321567 CTGGGACATGGCATCAACAT-GAGATATGA
65 CTGGGACAT-GCATCAACATCGAGACATAA
*
30321596 GCTAGTGTAAGATCGTGTCTGGGACATGGCATC
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
30321629 GGCACCTTAC
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 81 0.76
94 20 0.19
95 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTCTAAGACCATGTC
TGGGACATGCATCAACATCGAGACATAA
Found at i:30333706 original size:18 final size:17
Alignment explanation
Indices: 30333669--30333710 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
30333659 TAAAAAAATA
30333669 TATTTTTAAATTTAATT
1 TATTTTTAAATTTAATT
30333686 TATCTTTTAAATTATAA-T
1 TAT-TTTTAAATT-TAATT
30333704 TATTTTT
1 TATTTTT
30333711 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.30
18 13 0.57
19 3 0.13
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTAAATTTAATT
Found at i:30333937 original size:10 final size:9
Alignment explanation
Indices: 30333918--30333942 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30333908 TATTATTTTT
30333918 AAAAATAAA
1 AAAAATAAA
30333927 AAAAATAAA
1 AAAAATAAA
30333936 AAAAATA
1 AAAAATA
30333943 GTTTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:30339756 original size:21 final size:21
Alignment explanation
Indices: 30339730--30339770 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30339720 TCAAAACAAC
**
30339730 ATAGTTTTTCCTTTTAACTTA
1 ATAGTTTTGACTTTTAACTTA
30339751 ATAGTTTTGACTTTTAACTT
1 ATAGTTTTGACTTTTAACTT
30339771 TAGAAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.56
Consensus pattern (21 bp):
ATAGTTTTGACTTTTAACTTA
Found at i:30340044 original size:20 final size:21
Alignment explanation
Indices: 30340008--30340048 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
30339998 TTTGGGGGTA
30340008 AAGGGTGAAAAGTAAAAGTTT
1 AAGGGTGAAAAGTAAAAGTTT
30340029 AAGGG-GAAAA-TAAAAAGTTT
1 AAGGGTGAAAAGT-AAAAGTTT
30340049 TGAGGGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 13 0.68
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.27, T:0.22
Consensus pattern (21 bp):
AAGGGTGAAAAGTAAAAGTTT
Found at i:30351908 original size:20 final size:20
Alignment explanation
Indices: 30351882--30352000 Score: 78
Period size: 20 Copynumber: 6.0 Consensus size: 20
30351872 CTGCCAAAAT
*
30351882 TGCAGACAAGCTACCAGTAT
1 TGCAGACAAGCTACCAGTAA
* * *
30351902 TGTAGACAAGCCACCAATAA
1 TGCAGACAAGCTACCAGTAA
* * * * *
30351922 TGCAAATAAACTGCTAGTAA
1 TGCAGACAAGCTACCAGTAA
* *
30351942 TGTAGACCAGCTACCAGTAA
1 TGCAGACAAGCTACCAGTAA
* * * *
30351962 TG-TGAACAGGCCACCAGTAT
1 TGCAG-ACAAGCTACCAGTAA
*
30351982 TGCAGACAAGCTGCCAGTA
1 TGCAGACAAGCTACCAGTA
30352001 CTTCATTATT
Statistics
Matches: 69, Mismatches: 28, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
19 1 0.01
20 67 0.97
21 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (20 bp):
TGCAGACAAGCTACCAGTAA
Found at i:30352144 original size:38 final size:38
Alignment explanation
Indices: 30352070--30352152 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
30352060 AGAACAATAC
*
30352070 AGTAGACATTATTAAAACATGCAATCAGTAGCAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTAGCAGAAAT
* * *
30352108 AGTAGGCATGATTTAAACATGCAATCAGT-GATAGAAAT
1 AGTAGACATGATTAAAACATGCAATCAGTAG-CAGAAAT
30352146 AGT-GACA
1 AGTAGACA
30352153 CGAATTATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
37 4 0.10
38 35 0.90
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (38 bp):
AGTAGACATGATTAAAACATGCAATCAGTAGCAGAAAT
Found at i:30358018 original size:40 final size:40
Alignment explanation
Indices: 30357973--30358052 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
30357963 AAATAAAATA
* *
30357973 GAAATTGTGAT-AATTATACATTTTAAATTATAATT-TAATT
1 GAAATTGTGATAAATTACACA-TTTAAA-AATAATTATAATT
30358013 GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
1 GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
30358053 TATTTTACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
39 6 0.17
40 22 0.61
41 8 0.22
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (40 bp):
GAAATTGTGATAAATTACACATTTAAAAATAATTATAATT
Found at i:30358230 original size:20 final size:20
Alignment explanation
Indices: 30358205--30358248 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
30358195 ATTTAATTAA
30358205 TTTTTAAAATTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
* *
30358225 TTTTTATATTTTAAAAATAT
1 TTTTTAAAATTTAAAAATAT
30358245 TTTT
1 TTTT
30358249 AATGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTTAAAATTTAAAAATAT
Found at i:30360054 original size:24 final size:25
Alignment explanation
Indices: 30359997--30360062 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
30359987 GAAGAAAACG
30359997 AATAAGCTAAAATAAAATGGAAATAATA
1 AATAAGCT-AAA-AAAATGGAAAT-ATA
*
30360025 AATAAGCTAAAAAAATTGAAAT-TA
1 AATAAGCTAAAAAAATGGAAATATA
*
30360049 ATTAAG--AAAAAAAT
1 AATAAGCTAAAAAAAT
30360063 AGTAGTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 8 0.22
24 7 0.19
26 10 0.28
27 3 0.08
28 8 0.22
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (25 bp):
AATAAGCTAAAAAAATGGAAATATA
Found at i:30360495 original size:3 final size:3
Alignment explanation
Indices: 30360487--30360774 Score: 130
Period size: 3 Copynumber: 97.3 Consensus size: 3
30360477 AACATAGATA
* * **
30360487 AAT AAT AAT AAT AGT -AT CAA- AAT AAG AA- AAT -AT AAT AAT GGT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
30360529 AAT AAT AGT AAT AGT GAT AAT GAT AAT AA- AA- AAGT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* ** * * * *
30360573 AGT -AT GTT AAAT AAT AAT AGT AAA AAA AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
30360618 TAC AAA AAT GAT AAT GAT AAT AA- AAT AAA AAT AAA AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
30360665 AGT AAT AAT AAT AAT ATT GAT GAT AGAT AAT AAT AAT AAA AAGG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AA-T AAT
* *
30360712 AAT AAT AAT AAT AGT AAT AAT AA- AA- AAC AAT AAT AAT AATT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T
**
30360757 AAT TTT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT A
30360775 GTAAAAACAA
Statistics
Matches: 211, Mismatches: 59, Indels: 30
0.70 0.20 0.10
Matches are distributed among these distances:
2 20 0.09
3 176 0.83
4 15 0.07
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:30360664 original size:59 final size:59
Alignment explanation
Indices: 30360600--30360749 Score: 171
Period size: 59 Copynumber: 2.5 Consensus size: 59
30360590 TAGTAAAAAA
* *
30360600 AATAATAGTAATAATAATTACAAAAATGATAAT-GATAATAA-AATAAAAA-TAAAAATAGT
1 AATAATAGTAATAATAA-T--AAAAATGATAATAGATAATAATAATAAAAAGGAAAAATAAT
* * * *
30360659 AATAATAGTAATAATAATAATATTGATGATAGATAATAATAATAAAAAGGAATAATAAT
1 AATAATAGTAATAATAATAAAAATGATAATAGATAATAATAATAAAAAGGAAAAATAAT
* *
30360718 AATAATAGTAATAATAAAAAACAATAATAATA
1 AATAATAGTAATAATAATAAA-AATGATAATA
30360750 ATTAATTAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
56 9 0.12
57 8 0.11
58 9 0.12
59 43 0.57
60 7 0.09
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.28
Consensus pattern (59 bp):
AATAATAGTAATAATAATAAAAATGATAATAGATAATAATAATAAAAAGGAAAAATAAT
Found at i:30362259 original size:27 final size:28
Alignment explanation
Indices: 30362220--30362272 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
30362210 GAGTATAATT
30362220 TAAAAAGTTAT-AACATTTAGATTATGTA
1 TAAAAAGTTATAAACATTTA-ATTATGTA
*
30362248 TAAAAA-TTATAAATATTTAATTATG
1 TAAAAAGTTATAAACATTTAATTATG
30362273 AACTTTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (28 bp):
TAAAAAGTTATAAACATTTAATTATGTA
Found at i:30374931 original size:10 final size:10
Alignment explanation
Indices: 30374912--30374976 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
30374902 GATTTAGAAT
*
30374912 ATTATAAAAA
1 ATTATTAAAA
30374922 ATTATTAAAA
1 ATTATTAAAA
**
30374932 A-TGGTAAAGA
1 ATTATTAAA-A
30374942 ATTATTAAAA
1 ATTATTAAAA
30374952 ATTATTTAAAA
1 ATTA-TTAAAA
30374963 ATTA-TAAAA
1 ATTATTAAAA
30374972 ATTAT
1 ATTAT
30374977 AAATTACAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.30
10 17 0.37
11 15 0.33
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
ATTATTAAAA
Found at i:30374946 original size:30 final size:30
Alignment explanation
Indices: 30374912--30374979 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
30374902 GATTTAGAAT
*
30374912 ATTATAAAAAATTA-TTAAAAATGGTAAAGA
1 ATTATAAAAAATTATTTAAAAATGATAAA-A
* *
30374942 ATTATTAAAAATTATTTAAAAATTATAAAA
1 ATTATAAAAAATTATTTAAAAATGATAAAA
30374972 ATTATAAA
1 ATTATAAA
30374980 TTACAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (30 bp):
ATTATAAAAAATTATTTAAAAATGATAAAA
Found at i:30383995 original size:47 final size:47
Alignment explanation
Indices: 30383926--30384081 Score: 201
Period size: 47 Copynumber: 3.3 Consensus size: 47
30383916 AGCTTAAGAT
30383926 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** *
30383973 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
30384020 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
30384065 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
30384082 AAAGTGTGCA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
45 22 0.23
46 6 0.06
47 66 0.70
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:30384206 original size:39 final size:40
Alignment explanation
Indices: 30384152--30384236 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
30384142 AAATGAATTG
* * * *
30384152 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
30384191 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
30384231 TGCTGG
1 TGCTGG
30384237 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:30387707 original size:36 final size:36
Alignment explanation
Indices: 30387667--30387751 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 36
30387657 ATTATGATTT
*
30387667 TTATT-AATTCATATTT-TAATAATTATATTTAAAATG
1 TTATTAAATT-ATATTTATAATAATTAT-GTTAAAATG
*
30387703 TTATTAAATTATATTTAATAATAATTATGTTAAAATA
1 TTATTAAATTATATTT-ATAATAATTATGTTAAAATG
*
30387740 TGATTAAATTAT
1 TTATTAAATTAT
30387752 TTATTATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 11 0.26
37 22 0.51
38 10 0.23
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TTATTAAATTATATTTATAATAATTATGTTAAAATG
Found at i:30391003 original size:19 final size:19
Alignment explanation
Indices: 30390979--30391018 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
30390969 TGATAAGTGA
*
30390979 AAATTTTATATTATAGATC
1 AAATTTGATATTATAGATC
30390998 AAATTTGATATTATAGATC
1 AAATTTGATATTATAGATC
30391017 AA
1 AA
30391019 GAAATTGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
AAATTTGATATTATAGATC
Found at i:30392492 original size:20 final size:20
Alignment explanation
Indices: 30392467--30392517 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
30392457 TATATATAAA
30392467 TTTTATTATATGTTA-TATAT
1 TTTTATTATATGTTACT-TAT
30392487 TTTTATTATA--TTACTTAT
1 TTTTATTATATGTTACTTAT
*
30392505 TTTTTTTATATGT
1 TTTTATTATATGT
30392518 AAAATATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 11 0.41
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATTATATGTTACTTAT
Found at i:30392525 original size:20 final size:19
Alignment explanation
Indices: 30392467--30392526 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
30392457 TATATATAAA
*
30392467 TTTTATTATATGTTATATAT
1 TTTTATTATATG-TAAATAT
**
30392487 TTTTATTATAT-TACTTAT
1 TTTTATTATATGTAAATAT
*
30392505 TTTTTTTATATGTAAAATAT
1 TTTTATTATATGT-AAATAT
30392525 TT
1 TT
30392527 GTTACATTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 15 0.45
19 1 0.03
20 17 0.52
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTATTATATGTAAATAT
Done.