Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 46 of 141
Found at i:14546743 original size:108 final size:107
Alignment explanation
Indices: 14546483--14546775 Score: 338
Period size: 108 Copynumber: 2.7 Consensus size: 107
14546473 CATATCTCTC
* * * * * * * *
14546483 AAGATACACCTCGCCTTCTGAAGTGTTGAGCTTTTGAAAGCTGTTAGCTTTTTCAAGTCATATAC
1 AAGATACACCTCGCCTTCTCAAGTGTTGAGCTTTCGAAAGCTTTTGGCATTTTCAGGTCACATAT
** *
14546548 CTTTTAAGGTATTGTGTCTCTTAAGATACACCTCATATCTTTT
66 C-TTTAAGGTATTGCATCTCTTAAGATACACCTCATATCATTT
* *
14546591 AAGATACACCTCGCCTTCTCAAGGGTTGAGTTTTCGAAAGCTTTTGGTC-TTTTCAGGTCACATA
1 AAGATACACCTCGCCTTCTCAAGTGTTGAGCTTTCGAAAGCTTTTGG-CATTTTCAGGTCACATA
**
14546655 TCGTTTAAGGTATTGCATCTCTTAAGATACACCTTGTATCATTT
65 TC-TTTAAGGTATTGCATCTCTTAAGATACACCTCATATCATTT
* * ** * *
14546699 AAGATACACCTTGCATTCTCAAGTGTCAAGCTTTCCAAAGCTTTTGACCATTTT-AGGTCACATA
1 AAGATACACCTCGCCTTCTCAAGTGTTGAGCTTTCGAAAGCTTTTG-GCATTTTCAGGTCACATA
14546763 TCTCTTAAGGTAT
65 TCT-TTAAGGTAT
14546776 CTTTGAACTT
Statistics
Matches: 158, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
107 1 0.01
108 152 0.96
109 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (107 bp):
AAGATACACCTCGCCTTCTCAAGTGTTGAGCTTTCGAAAGCTTTTGGCATTTTCAGGTCACATAT
CTTTAAGGTATTGCATCTCTTAAGATACACCTCATATCATTT
Found at i:14546994 original size:86 final size:86
Alignment explanation
Indices: 14546840--14546999 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 86
14546830 TTTTCAAGTT
* * * * *
14546840 ACATATCTTTTAATGTATCATATCTCTTAAGATACATCTCACCTCATCAAGTGTGAAACTTTTTA
1 ACATATCTCTTAAGGTATCATATCTCTTAAGATACACCTCACCTCATCAAGTGTGAAACCTTTCA
14546905 AAGCTTTTGGCTTATCAAGAC
66 AAGCTTTTGGCTTATCAAGAC
* * * * *
14546926 ACATATCTCTTAAGGTATCGTATCTCTTAAGATACACCTCGCCTTATCTAGTGCT-AAGCCTTTC
1 ACATATCTCTTAAGGTATCATATCTCTTAAGATACACCTCACCTCATCAAGTG-TGAAACCTTTC
14546990 AAAGCTTTTG
65 AAAGCTTTTG
14547000 ACCTTTCTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 62 0.98
87 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (86 bp):
ACATATCTCTTAAGGTATCATATCTCTTAAGATACACCTCACCTCATCAAGTGTGAAACCTTTCA
AAGCTTTTGGCTTATCAAGAC
Found at i:14548451 original size:66 final size:68
Alignment explanation
Indices: 14548344--14548560 Score: 219
Period size: 66 Copynumber: 3.2 Consensus size: 68
14548334 CATTCTCAAA
* * ** * * *
14548344 CACTTAGCTTTTCAAATCGTGTAACCTTTCCAGATCACATACTTCTTAAAGTACCTTGCCTTCTT
1 CACTTAACTTTTCAAAGCACGTAACCTTCCCAAATCACATACTTCTTAAAGTACCTTACCTTCTT
14548409 AAG
66 AAG
* * ** * * *
14548412 CA-TTGAGTTTTCAAAGCACGT-GTCTTCCCAAGTCACATACTTCTTAGAGTACCTCACCTTCTT
1 CACTTAACTTTTCAAAGCACGTAACCTTCCCAAATCACATACTTCTTAAAGTACCTTACCTTCTT
14548475 AAG
66 AAG
** * *
14548478 CACTTAACTTTTCAAAGTTCGTAACCTTCCCAAATCACGTACTTCTTAAAGTGCCTTACCTT-TT
1 CACTTAACTTTTCAAAGCACGTAACCTTCCCAAATCACATACTTCTTAAAGTACCTTACCTTCTT
*
14548542 CAAA
66 -AAG
14548546 CAC--AACTTTTCAAAG
1 CACTTAACTTTTCAAAG
14548561 TTCATGACCT
Statistics
Matches: 120, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
66 51 0.43
67 30 0.25
68 39 0.32
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (68 bp):
CACTTAACTTTTCAAAGCACGTAACCTTCCCAAATCACATACTTCTTAAAGTACCTTACCTTCTT
AAG
Found at i:14554944 original size:18 final size:20
Alignment explanation
Indices: 14554923--14554962 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
14554913 TAAAAATGAA
14554923 AATTTTC-AATAT-TTTAAT
1 AATTTTCAAATATATTTAAT
14554941 AA--TTCAAATATATTTAAT
1 AATTTTCAAATATATTTAAT
14554959 AATT
1 AATT
14554963 ATTTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 6
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.17
17 5 0.28
18 10 0.56
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTTCAAATATATTTAAT
Found at i:14555589 original size:16 final size:16
Alignment explanation
Indices: 14555544--14555592 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14555534 TTGAAATGGT
* *
14555544 TTTTATTAATTTTTAA
1 TTTTATAAATTTTAAA
*
14555560 TTTTTTGAACATTTTAAA
1 TTTTAT-AA-ATTTTAAA
14555578 TTTTATAAATTTTAA
1 TTTTATAAATTTTAA
14555593 TAATGTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 12 0.44
17 3 0.11
18 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTATAAATTTTAAA
Found at i:14556324 original size:14 final size:16
Alignment explanation
Indices: 14556285--14556325 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 16
14556275 AATATATTAT
14556285 AAATTCAACACTTACAA
1 AAATTCAACACTTA-AA
14556302 AAATT-AACAC-T-AA
1 AAATTCAACACTTAAA
14556315 AAATTCAACAC
1 AAATTCAACAC
14556326 CTAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 7 0.30
14 5 0.22
15 1 0.04
16 5 0.22
17 5 0.22
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (16 bp):
AAATTCAACACTTAAA
Found at i:14574966 original size:21 final size:21
Alignment explanation
Indices: 14574940--14574995 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
14574930 AATAGCGGTG
*
14574940 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
14574961 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
14574982 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
14574996 AACAGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:14577248 original size:12 final size:12
Alignment explanation
Indices: 14577231--14577255 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14577221 GCAACCCAAG
14577231 GGGAAGGGGAAA
1 GGGAAGGGGAAA
14577243 GGGAAGGGGAAA
1 GGGAAGGGGAAA
14577255 G
1 G
14577256 AGGAGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:14580882 original size:88 final size:88
Alignment explanation
Indices: 14580733--14580900 Score: 300
Period size: 88 Copynumber: 1.9 Consensus size: 88
14580723 CAAACACTTC
14580733 CAAGAAACATATACCAAACAACTAAAGACATACATATATGGACATATACAAGCCAAATCCAAAGA
1 CAAGAAACATATACCAAACAACTAAAGACATACATATATGGACATATACAAGCCAAATCCAAAGA
* *
14580798 TATATATATATATATATATATAT
66 TATATACACATATATATATATAT
* *
14580821 CAAGAAGCATATACCAAACAACTAAAGACATACATATATGGACTTATACAAGCCAAATCCAAAGA
1 CAAGAAACATATACCAAACAACTAAAGACATACATATATGGACATATACAAGCCAAATCCAAAGA
14580886 TATATACACATATAT
66 TATATACACATATAT
14580901 GCTTAAACTA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (88 bp):
CAAGAAACATATACCAAACAACTAAAGACATACATATATGGACATATACAAGCCAAATCCAAAGA
TATATACACATATATATATATAT
Found at i:14589345 original size:26 final size:26
Alignment explanation
Indices: 14589316--14589366 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
14589306 AGAAAACTAG
14589316 GAAAA-AAGTGAAAAAAAAAAAGAAAT
1 GAAAAGAA-TGAAAAAAAAAAAGAAAT
* *
14589342 GAAAAGAATGAAAATAAATAAGAAA
1 GAAAAGAATGAAAAAAAAAAAGAAA
14589367 ATAAATGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.10
Consensus pattern (26 bp):
GAAAAGAATGAAAAAAAAAAAGAAAT
Found at i:14590864 original size:83 final size:84
Alignment explanation
Indices: 14590769--14590930 Score: 263
Period size: 83 Copynumber: 1.9 Consensus size: 84
14590759 TAAAATCAAG
*
14590769 GGATATGGTTAATCTCGTCTGTCGATGTAAATGTATCTTGACCATAGATTTT-GGGGAGCTCAAC
1 GGATATGGTTAATCTCGTCCGTCGATGTAAATGTATCTTGACCATAGATTTTGGGGGAGCTCAAC
14590833 TATAAATAGAGAGCATCCA
66 TATAAATAGAGAGCATCCA
* * * * *
14590852 GGATATGTTTAATCTCGTCCGTCGATGTAAATGTATTTTGACCGTCGATTTTGGGGGAGCTTAAC
1 GGATATGGTTAATCTCGTCCGTCGATGTAAATGTATCTTGACCATAGATTTTGGGGGAGCTCAAC
14590917 TATAAATAGAGAGC
66 TATAAATAGAGAGC
14590931 CTCCCCTTCA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
83 47 0.65
84 25 0.35
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (84 bp):
GGATATGGTTAATCTCGTCCGTCGATGTAAATGTATCTTGACCATAGATTTTGGGGGAGCTCAAC
TATAAATAGAGAGCATCCA
Found at i:14608204 original size:74 final size:74
Alignment explanation
Indices: 14608083--14608269 Score: 275
Period size: 74 Copynumber: 2.5 Consensus size: 74
14608073 AATAAATAAT
* * * * * *
14608083 TATTTATTCGTCGGTTTATCCGACTAACACTGGGCACAAATATCGTTGGTGTATCGAACTAGAGC
1 TATTTATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAAATATCGTTGGTATATCCAACTAGAGC
14608148 TGGGCTCAC
66 TGGGCTCAC
* *
14608157 TATTTATTCGTCGGCTTATCCGACTAGCGTTAGGCGCAAATATCGTTGGTATATCCAACTAGAGC
1 TATTTATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAAATATCGTTGGTATATCCAACTAGAGC
14608222 TGGGCTCAC
66 TGGGCTCAC
* * *
14608231 TATTTATTTGTCGGTTTATCTGACTAGTGCTAGGCGCAA
1 TATTTATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAA
14608270 CTTCCGTCAG
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 100 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (74 bp):
TATTTATTCGTCGGTTTATCCGACTAGCGCTAGGCGCAAATATCGTTGGTATATCCAACTAGAGC
TGGGCTCAC
Found at i:14608320 original size:48 final size:48
Alignment explanation
Indices: 14608264--14608356 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
14608254 CTAGTGCTAG
**
14608264 GCGCAACTTCCGTCAGTTTATCTGACTAGTGCTGGGTGCACATTTGTC
1 GCGCAACTTCCGTCAGTTTATCTGACTAGTGCTGGGCACACATTTGTC
* *
14608312 GCGCAACTTCCGTTAGTTTATCTGACTAGTGTTGGGCACACATTT
1 GCGCAACTTCCGTCAGTTTATCTGACTAGTGCTGGGCACACATTT
14608357 TGTTTGAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (48 bp):
GCGCAACTTCCGTCAGTTTATCTGACTAGTGCTGGGCACACATTTGTC
Found at i:14610658 original size:33 final size:33
Alignment explanation
Indices: 14610616--14610683 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
14610606 GCCAAATTAC
14610616 CAAAGTCATTTTGGGTCGAAACAGCATCTACTG
1 CAAAGTCATTTTGGGTCGAAACAGCATCTACTG
14610649 CAAAGTCATTTTGGGTCGAAACAGCATCTACTG
1 CAAAGTCATTTTGGGTCGAAACAGCATCTACTG
14610682 CA
1 CA
14610684 TGTTTTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (33 bp):
CAAAGTCATTTTGGGTCGAAACAGCATCTACTG
Found at i:14613725 original size:51 final size:51
Alignment explanation
Indices: 14613649--14613911 Score: 387
Period size: 51 Copynumber: 5.3 Consensus size: 51
14613639 ACTTCTGATC
*
14613649 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
14613700 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACCTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
14613751 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACATTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
14613802 AGTG---A-TG---AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** * *
14613846 AGTGACAAGTGATGTGTGGTAGCTTTAGCTACACTTATCTAATCAGAGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
14613897 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
14613912 ATGTGATTCG
Statistics
Matches: 190, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
44 40 0.21
47 3 0.02
48 3 0.02
51 144 0.76
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:14613818 original size:95 final size:95
Alignment explanation
Indices: 14613649--14613910 Score: 371
Period size: 95 Copynumber: 2.7 Consensus size: 95
14613639 ACTTCTGATC
*
14613649 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACAAGTGATA
1 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTG---A-T--C-AGTGACAAGTGATA
14613714 AGTGATAGCTTTAGCTACACCTATCTAATCAGTGACA
59 AGTGATAGCTTTAGCTACACCTATCTAATCAGTGACA
* * *
14613751 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACATTTATCTGATCAGTGACAAGTGATGAGTGGTA
1 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
* *
14613816 GCTTTAGCTACACTTATCTGATCAGTGACA
66 GCTTTAGCTACACCTATCTAATCAGTGACA
* * * *
14613846 AGTGACAAGTGATGTGTGGTAGCTTTAGCTACACTTATCTAATCAGAGACAAGTGACAAGTGATA
1 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
14613911 AATGTGATTC
Statistics
Matches: 147, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
95 105 0.71
96 1 0.01
98 1 0.01
99 1 0.01
102 39 0.27
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (95 bp):
AGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
GCTTTAGCTACACCTATCTAATCAGTGACA
Found at i:14613906 original size:146 final size:146
Alignment explanation
Indices: 14613642--14613909 Score: 473
Period size: 146 Copynumber: 1.8 Consensus size: 146
14613632 TTTGAGTACT
*
14613642 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
*
14613707 AGTGATAAGTGATAGCTTTAGCTACACCTATCTAATCAGTGACAAGTGACAAGTGATGAGTGGTA
66 AGTGATAAGTGATAGCTTTAGCTACACCTATCTAATCAGAGACAAGTGACAAGTGATGAGTGGTA
14613772 GCTTTAGCTACATTTA
131 GCTTTAGCTACATTTA
*
14613788 TCTGATCAGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
** * *
14613853 AGTGATGTGTGGTAGCTTTAGCTACACTTATCTAATCAGAGACAAGTGACAAGTGAT
66 AGTGATAAGTGATAGCTTTAGCTACACCTATCTAATCAGAGACAAGTGACAAGTGAT
14613910 AAATGTGATT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 115 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (146 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACA
AGTGATAAGTGATAGCTTTAGCTACACCTATCTAATCAGAGACAAGTGACAAGTGATGAGTGGTA
GCTTTAGCTACATTTA
Found at i:14618735 original size:9 final size:9
Alignment explanation
Indices: 14618718--14618754 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14618708 TGAGTTTTCG
14618718 AATTCGAAT
1 AATTCGAAT
*
14618727 AACTCGAAT
1 AATTCGAAT
14618736 AATTCGAAT
1 AATTCGAAT
14618745 AATTCGAAT
1 AATTCGAAT
14618754 A
1 A
14618755 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14620607 original size:25 final size:26
Alignment explanation
Indices: 14620557--14620608 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
14620547 TTTGCATCAA
14620557 TTAATTATTTAAATATATAATAATTT
1 TTAATTATTTAAATATATAATAATTT
14620583 TTAATT-TTTGAAATGATA-AAT-ATTT
1 TTAATTATTT-AAAT-ATATAATAATTT
14620608 T
1 T
14620609 ATAAGAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 8 0.33
26 13 0.54
27 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAATTATTTAAATATATAATAATTT
Found at i:14625335 original size:21 final size:22
Alignment explanation
Indices: 14625311--14625355 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
14625301 TGAAAATCTG
14625311 AAATTAAAAATTGAAAAT-TAA
1 AAATTAAAAATTGAAAATATAA
* *
14625332 AAATTTAAGATTGAAAATATAA
1 AAATTAAAAATTGAAAATATAA
14625354 AA
1 AA
14625356 TCAGAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATTAAAAATTGAAAATATAA
Found at i:14625348 original size:14 final size:14
Alignment explanation
Indices: 14625292--14625349 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
14625282 CTTAAAAATG
* *
14625292 ATTGAGGATTGAAA
1 ATTGAAGATTAAAA
14625306 ATCTGAA-ATTAAAA
1 AT-TGAAGATTAAAA
*
14625320 ATTGAAAATTAAAA
1 ATTGAAGATTAAAA
* *
14625334 ATTTAAGATTGAAA
1 ATTGAAGATTAAAA
14625348 AT
1 AT
14625350 ATAAAATCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 4 0.11
14 30 0.81
15 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (14 bp):
ATTGAAGATTAAAA
Found at i:14625348 original size:28 final size:28
Alignment explanation
Indices: 14625303--14625385 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
14625293 TTGAGGATTG
*
14625303 AAAATCTGAA-ATTAAAAATTGAAAATTA
1 AAAAT-TGAAGATTGAAAATTGAAAATTA
* *
14625331 AAAATTTAAGATTGAAAATAT-AAAATCA
1 AAAATTGAAGATTGAAAAT-TGAAAATTA
* ** *
14625359 GAAATTGGGGATTGAAGATTGAAAATT
1 AAAATTGAAGATTGAAAATTGAAAATT
14625386 TAGGAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 4 0.09
28 38 0.88
29 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAATTGAAGATTGAAAATTGAAAATTA
Found at i:14625356 original size:21 final size:20
Alignment explanation
Indices: 14625298--14625356 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
14625288 AATGATTGAG
*
14625298 GATTGAAAATCTGAAATTAAA
1 GATTGAAAAT-TAAAATTAAA
* *
14625319 AATTGAAAATTAAAAATTTAA
1 GATTGAAAATT-AAAATTAAA
14625340 GATTGAAAATATAAAAT
1 GATTGAAAAT-TAAAAT
14625357 CAGAAATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (20 bp):
GATTGAAAATTAAAATTAAA
Found at i:14625947 original size:9 final size:9
Alignment explanation
Indices: 14625933--14625966 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
14625923 TGAATTGAAT
14625933 TTTATAAAA
1 TTTATAAAA
14625942 TTTATAAAA
1 TTTATAAAA
14625951 TTTATTAATAA
1 TTTA-TAA-AA
14625962 TTTAT
1 TTTAT
14625967 TTGTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 4 0.17
11 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTATAAAA
Found at i:14629551 original size:5 final size:5
Alignment explanation
Indices: 14629541--14629566 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14629531 CTCGAACATT
14629541 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
14629567 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:14630484 original size:23 final size:24
Alignment explanation
Indices: 14630443--14630489 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
14630433 AGTTTCAAAA
14630443 AATAAATAATGAATTTTAAGATTT
1 AATAAATAATGAATTTTAAGATTT
14630467 AATAAATAAT-AATTTTAAGATTT
1 AATAAATAATGAATTTTAAGATTT
14630490 TTTTTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
AATAAATAATGAATTTTAAGATTT
Found at i:14630802 original size:25 final size:26
Alignment explanation
Indices: 14630752--14630803 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
14630742 TTTGCATCAA
14630752 TTAATTATTTAAATATATAATAATTT
1 TTAATTATTTAAATATATAATAATTT
14630778 TTAATT-TTTGAAATGATA-AAT-ATTT
1 TTAATTATTT-AAAT-ATATAATAATTT
14630803 T
1 T
14630804 ATAAGAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 8 0.33
26 13 0.54
27 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
TTAATTATTTAAATATATAATAATTT
Found at i:14635530 original size:21 final size:22
Alignment explanation
Indices: 14635506--14635550 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
14635496 TGAAAATCTG
14635506 AAATTAAAAATTGAAAAT-TAA
1 AAATTAAAAATTGAAAATATAA
* *
14635527 AAATTTAAGATTGAAAATATAA
1 AAATTAAAAATTGAAAATATAA
14635549 AA
1 AA
14635551 TCAGAAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (22 bp):
AAATTAAAAATTGAAAATATAA
Found at i:14635543 original size:14 final size:14
Alignment explanation
Indices: 14635487--14635544 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
14635477 CTTAAAAATG
* *
14635487 ATTGAGGATTGAAA
1 ATTGAAGATTAAAA
14635501 ATCTGAA-ATTAAAA
1 AT-TGAAGATTAAAA
*
14635515 ATTGAAAATTAAAA
1 ATTGAAGATTAAAA
* *
14635529 ATTTAAGATTGAAA
1 ATTGAAGATTAAAA
14635543 AT
1 AT
14635545 ATAAAATCAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 4 0.11
14 30 0.81
15 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.31
Consensus pattern (14 bp):
ATTGAAGATTAAAA
Found at i:14635543 original size:28 final size:28
Alignment explanation
Indices: 14635498--14635580 Score: 71
Period size: 28 Copynumber: 3.0 Consensus size: 28
14635488 TTGAGGATTG
*
14635498 AAAATCTGAA-ATTAAAAATTGAAAATTA
1 AAAAT-TGAAGATTGAAAATTGAAAATTA
* *
14635526 AAAATTTAAGATTGAAAATAT-AAAATCA
1 AAAATTGAAGATTGAAAAT-TGAAAATTA
* ** *
14635554 GAAATTGGGGATTGAAGATTGAAAATT
1 AAAATTGAAGATTGAAAATTGAAAATT
14635581 TAGGAAGGAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 4 0.09
28 38 0.88
29 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.29
Consensus pattern (28 bp):
AAAATTGAAGATTGAAAATTGAAAATTA
Found at i:14635551 original size:21 final size:20
Alignment explanation
Indices: 14635493--14635551 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
14635483 AATGATTGAG
*
14635493 GATTGAAAATCTGAAATTAAA
1 GATTGAAAAT-TAAAATTAAA
* *
14635514 AATTGAAAATTAAAAATTTAA
1 GATTGAAAATT-AAAATTAAA
14635535 GATTGAAAATATAAAAT
1 GATTGAAAAT-TAAAAT
14635552 CAGAAATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.31
Consensus pattern (20 bp):
GATTGAAAATTAAAATTAAA
Found at i:14636142 original size:9 final size:9
Alignment explanation
Indices: 14636128--14636161 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
14636118 TGAATTGAAT
14636128 TTTATAAAA
1 TTTATAAAA
14636137 TTTATAAAA
1 TTTATAAAA
14636146 TTTATTAATAA
1 TTTA-TAA-AA
14636157 TTTAT
1 TTTAT
14636162 TTGTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 4 0.17
11 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTATAAAA
Found at i:14637568 original size:16 final size:17
Alignment explanation
Indices: 14637542--14637578 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
14637532 TTGAATAGCC
14637542 AAAAGAAAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
14637559 AAAA-AAAAGAAAAAAG
1 AAAAGAAAAGAAAAAAG
14637575 AAAA
1 AAAA
14637579 TCGAAAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:14640358 original size:30 final size:30
Alignment explanation
Indices: 14640324--14640381 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14640314 GCGTCGGTGT
*
14640324 GTGTGTGTCTGCGTTTGTATGTATGTGTCC
1 GTGTGTATCTGCGTTTGTATGTATGTGTCC
* * *
14640354 GTGTGTATGTGCGTTTGTTTGTGTGTGT
1 GTGTGTATCTGCGTTTGTATGTATGTGT
14640382 GCAGTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.05, C:0.09, G:0.36, T:0.50
Consensus pattern (30 bp):
GTGTGTATCTGCGTTTGTATGTATGTGTCC
Found at i:14646426 original size:21 final size:21
Alignment explanation
Indices: 14646382--14646448 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
14646372 GTGGGTTTGT
*
14646382 CGAATAATACCTCCGCTA-GC
1 CGAATAATACCTCCACTAGGC
14646402 CGAATAATACCTCCACTAGGC
1 CGAATAATACCTCCACTAGGC
14646423 CGAATAATACCTCCACTAGGC
1 CGAATAATACCTCCACTAGGC
*
14646444 TGAAT
1 CGAAT
14646449 CTTCTTGTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.21
Consensus pattern (21 bp):
CGAATAATACCTCCACTAGGC
Found at i:14650108 original size:21 final size:20
Alignment explanation
Indices: 14650079--14650124 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
14650069 CTCTATTTGA
*
14650079 TTTTTAAAAGTA-TTTTCTAT
1 TTTTTAAAAATAGTTTT-TAT
14650099 TTTTTAAAAAATAGTTTTTAT
1 TTTTT-AAAAATAGTTTTTAT
14650120 TTTTT
1 TTTTT
14650125 TTAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTAAAAATAGTTTTTAT
Found at i:14650130 original size:21 final size:22
Alignment explanation
Indices: 14650070--14650130 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
14650060 AACTTTAGGC
14650070 TCTATTTGATTTTTAAAAGTATTT
1 TCTATTT--TTTTTAAAAGTATTT
* *
14650094 TCTA-TTTTTTAAAAAATAGTTT
1 TCTATTTTTTTTAAAAGTA-TTT
14650116 T-TATTTTTTTTAAAA
1 TCTATTTTTTTTAAAA
14650131 AAAATTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 12 0.38
22 14 0.44
23 2 0.06
24 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (22 bp):
TCTATTTTTTTTAAAAGTATTT
Found at i:14650963 original size:14 final size:14
Alignment explanation
Indices: 14650944--14650973 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
14650934 TCATTTAAAG
14650944 TTAAAAACTCTCAT
1 TTAAAAACTCTCAT
14650958 TTAAAAACTCTCAT
1 TTAAAAACTCTCAT
14650972 TT
1 TT
14650974 TTTCACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAACTCTCAT
Found at i:14652342 original size:17 final size:19
Alignment explanation
Indices: 14652322--14652362 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14652312 TTACTAAGAT
*
14652322 AAAAACCTT-GTG-GGAAA
1 AAAAACCTTAGTGAAGAAA
*
14652339 AAAAATCTTAGTGAAGAAA
1 AAAAACCTTAGTGAAGAAA
14652358 AAAAA
1 AAAAA
14652363 GTACACGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (19 bp):
AAAAACCTTAGTGAAGAAA
Found at i:14654319 original size:15 final size:15
Alignment explanation
Indices: 14654299--14654327 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14654289 GAACAAGCAA
14654299 TAAATGAGAATTCTT
1 TAAATGAGAATTCTT
14654314 TAAATGAGAATTCT
1 TAAATGAGAATTCT
14654328 CAATTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
TAAATGAGAATTCTT
Found at i:14658490 original size:95 final size:95
Alignment explanation
Indices: 14658324--14658515 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 95
14658314 ATTTATTGCA
14658324 GACAGTGATACAGACGATCTATGTCTCTAGTTCGTCATTTCATATTTTTCCATATTAGCGATTAA
1 GACAGTGATACAGACGATCTATGTCTCTAGTTCGTCATTTCATATTTTTCCATATTAGCGATTAA
*
14658389 TGCAAACCATCAAGGTTATACCAAGCTAGC
66 TACAAACCATCAAGGTTATACCAAGCTAGC
14658419 GACAGTGATACAGACGATCTATGTCTCTAGTTCGTCATTTCATATTTTTCCATATTAGCGATTAA
1 GACAGTGATACAGACGATCTATGTCTCTAGTTCGTCATTTCATATTTTTCCATATTAGCGATTAA
14658484 TACAAACCATCAAGGTTATACCAAGCTAGC
66 TACAAACCATCAAGGTTATACCAAGCTAGC
14658514 GA
1 GA
14658516 ATGACCAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (95 bp):
GACAGTGATACAGACGATCTATGTCTCTAGTTCGTCATTTCATATTTTTCCATATTAGCGATTAA
TACAAACCATCAAGGTTATACCAAGCTAGC
Found at i:14666797 original size:21 final size:23
Alignment explanation
Indices: 14666773--14666814 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14666763 ATAAAAAAAA
14666773 TCAA-AAAAA-ATAAAAAATTCG
1 TCAATAAAAATATAAAAAATTCG
*
14666794 TCAATAAAAATATTAAAAATT
1 TCAATAAAAATATAAAAAATT
14666815 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 5 0.28
23 9 0.50
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
TCAATAAAAATATAAAAAATTCG
Found at i:14668021 original size:16 final size:18
Alignment explanation
Indices: 14667990--14668022 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
14667980 GTTAATAGAA
14667990 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
14668008 TAAATTT-G-GTTAATT
1 TAAATTTAGTGTTAATT
14668023 TTACATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:14685351 original size:18 final size:17
Alignment explanation
Indices: 14685326--14685360 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14685316 TTCATTTCCA
14685326 CCCTCATCTTCGTCTTC
1 CCCTCATCTTCGTCTTC
*
14685343 CCCTCCATCTTCTTCTTC
1 CCCT-CATCTTCGTCTTC
14685361 TATATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.06, C:0.49, G:0.03, T:0.43
Consensus pattern (17 bp):
CCCTCATCTTCGTCTTC
Found at i:14687270 original size:40 final size:40
Alignment explanation
Indices: 14687226--14687316 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
14687216 CTAGATCAAT
14687226 CATTAGCGGCGCTTTACGGAAAACGCCGCTGAAGAATAAG
1 CATTAGCGGCGCTTTACGGAAAACGCCGCTGAAGAATAAG
* *
14687266 CATTAGCTGCGCTTTACGGAAAACGCTGCTGAAGAATAAG
1 CATTAGCGGCGCTTTACGGAAAACGCCGCTGAAGAATAAG
14687306 CATTAGCGGCG
1 CATTAGCGGCG
14687317 ATTTCTATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (40 bp):
CATTAGCGGCGCTTTACGGAAAACGCCGCTGAAGAATAAG
Found at i:14687445 original size:41 final size:40
Alignment explanation
Indices: 14687374--14687450 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
14687364 CGCGCATTCG
*
14687374 GGGATTTAGCGACGTTTTTTATGAAGCGCCGCTAAAGCTCA
1 GGGATTTAGCGACGTTTTTGATGAAGCGCCGC-AAAGCTCA
* *
14687415 GGGATTTAGCGGCGTTTTTGA-GAATTCGCCGCAAAG
1 GGGATTTAGCGACGTTTTTGATGAA-GCGCCGCAAAG
14687451 AAACCTAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
40 7 0.22
41 25 0.78
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (40 bp):
GGGATTTAGCGACGTTTTTGATGAAGCGCCGCAAAGCTCA
Found at i:14687506 original size:114 final size:110
Alignment explanation
Indices: 14687352--14687747 Score: 400
Period size: 114 Copynumber: 3.5 Consensus size: 110
14687342 TCGGTCGAAT
* * * *
14687352 GACGTCGTTTTCCGCGCATTCGGGGATTTAGCGACGTTTTTTATGAAGCGCCGCTAAAGCTCAGG
1 GACGTCGTTTTCTGAGCATTCGGGGATTTAGCGACGTTTTTGA-GAAGCGCCGCTAATGCTCAGG
*
14687417 GATTTAGCGGCGTTTTTGAGAATTCGCCGCAAAGAAACCTAAGACCAAC
65 GATTTAGCGGCGTTTTTG-GAA-GCGCCGCAAAGAAACCTAAG-CCAAC
* * * * *
14687466 GACGTCGTTTTCTGAGCATTCGGTGACTTAGCGACGTTTTTGAGGTAGCGCCGCCAATGTTCA-G
1 GACGTCGTTTTCTGAGCATTCGGGGATTTAGCGACGTTTTTGA-GAAGCGCCGCTAATGCTCAGG
* *
14687530 TACTTTAGCGGCGTTTCTGTGGAAGCGCCGCAAAGAAACATAAGCCGAAC
65 GA-TTTAGCGGCGTTT-T-TGGAAGCGCCGCAAAGAAACCTAAGCC-AAC
* * * * * * *
14687580 GACGCCGTTCTCTGAGTATTCGAGGATTTAGCGGCGTTTATGGAGAAGCGCTGCTAATGCTCAGG
1 GACGTCGTTTTCTGAGCATTCGGGGATTTAGCGACGTTT-TTGAGAAGCGCCGCTAATGCTCAGG
* *
14687645 GCTTTAGCGGCGTTTTTTGGAAAGCGCCGCCAA-AAACCTAAGCCCAAC
65 GATTTAGCGGCG-TTTTTGG-AAGCGCCGCAAAGAAACCTAAG-CCAAC
* * * * * *
14687693 GAGGTCGTTTTACTTAGCATTGGGGGATTTAGCGGCGTTTATTAACAAGCGCCGC
1 GACGTCGTTTT-CTGAGCATTCGGGGATTTAGCGACGTTT-TTGAGAAGCGCCGC
14687748 AAAATAAATA
Statistics
Matches: 232, Mismatches: 40, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
113 26 0.11
114 193 0.83
115 11 0.05
116 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (110 bp):
GACGTCGTTTTCTGAGCATTCGGGGATTTAGCGACGTTTTTGAGAAGCGCCGCTAATGCTCAGGG
ATTTAGCGGCGTTTTTGGAAGCGCCGCAAAGAAACCTAAGCCAAC
Found at i:14688235 original size:242 final size:243
Alignment explanation
Indices: 14687802--14688286 Score: 891
Period size: 242 Copynumber: 2.0 Consensus size: 243
14687792 TTAATTATAA
14687802 TTAGAAGTTTTCATTTAAGTTACCATTAAGCTGTTAAAATCGATACCGGCCATATCGCTTTCTCA
1 TTAGAAGTTTTCATTTAAGTTACCATTAAGCTGTTAAAATCGATACCGGCCATATCGCTTTCTCA
* * *
14687867 AAACCCTTAAACCTTAAAAACATAATCCTTAAAACCCTAAACGCCTAAAAATTTCATTTGGATAT
66 AAACCCTTAAACCCTAAAAACATAATCCTTAAAACCCTAAACCCCTAAAAATTTCATGTGGATAT
*
14687932 TGATGTACATGTATATACACATATAGATATATATTAATGTAAAAGGTCATATATGTTTATAAAGA
131 TGATGTACATGTATATACACATATAGATATATAATAATGTAAAAGGTCATATATGTTTATAAAGA
*
14687997 ATTGTCGAAGCAATACTTAATATTGATTAAAAAATTTTGGGGTTTAGG
196 ATTGTCGAAGCAATACTTAATATTGATTAAAAAATTTTAGGGTTTAGG
14688045 TTAGAAG-TTTCATTTAAGTTACCATTAAGCTGTTAAAATCGATACCGGCCATATCGCTTTCTCA
1 TTAGAAGTTTTCATTTAAGTTACCATTAAGCTGTTAAAATCGATACCGGCCATATCGCTTTCTCA
*
14688109 AAACCCTTAAACCCTAAAAATATAATCCTTAAAACCCTAAACCCCTAAAAATTTCATGTGGATAT
66 AAACCCTTAAACCCTAAAAACATAATCCTTAAAACCCTAAACCCCTAAAAATTTCATGTGGATAT
*
14688174 TGATGTACATGTCTATACACATATAGATATATAATAATGTAAAAGGTCATATATGTTTATAAAGA
131 TGATGTACATGTATATACACATATAGATATATAATAATGTAAAAGGTCATATATGTTTATAAAGA
*
14688239 ATTGTCGAAGCAGTACTTAATATTGATTAAAAAATTTTAGGGTTTAGG
196 ATTGTCGAAGCAATACTTAATATTGATTAAAAAATTTTAGGGTTTAGG
14688287 GTTTAAGAGG
Statistics
Matches: 234, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
242 227 0.97
243 7 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (243 bp):
TTAGAAGTTTTCATTTAAGTTACCATTAAGCTGTTAAAATCGATACCGGCCATATCGCTTTCTCA
AAACCCTTAAACCCTAAAAACATAATCCTTAAAACCCTAAACCCCTAAAAATTTCATGTGGATAT
TGATGTACATGTATATACACATATAGATATATAATAATGTAAAAGGTCATATATGTTTATAAAGA
ATTGTCGAAGCAATACTTAATATTGATTAAAAAATTTTAGGGTTTAGG
Found at i:14689193 original size:19 final size:19
Alignment explanation
Indices: 14689158--14689194 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14689148 GCAAAATTTG
* *
14689158 TATCCTGTAAGTGGGAAGT
1 TATCCTGTAACTAGGAAGT
14689177 TATCCTGTAACTAGGAAG
1 TATCCTGTAACTAGGAAG
14689195 GGGAGCGGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (19 bp):
TATCCTGTAACTAGGAAGT
Found at i:14689518 original size:147 final size:147
Alignment explanation
Indices: 14689367--14689633 Score: 338
Period size: 147 Copynumber: 1.8 Consensus size: 147
14689357 TTGTCTATGG
* * * * * * * *
14689367 TATTAGTGGCGTTTTTTTGGAAATGCCACAAGATTGAGTTAACTTTTGGGGAAACGACTTCG-TT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGATTGAGGTAACTGTTGAGGAAACGACTGCGTTT
* * * *
14689431 TGATCTTATATTTAGTGGTGCTTTACTTAAAACGCCACAAAATTGTTCTAACATTTTTAAAAACG
66 TGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCACAAAAATGTTCTAACATTTTTAAAAACG
14689496 CTGCCGTTTTTTAAATGT
130 CTGCCGTTTTTTAAATGT
** * * * *
14689514 TATTAGTGGCGATTTTTCGAAAACGCCACTGGTTTGAGGTAAGTGTTGATGAAGCGACTGCGTTT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGATTGAGGTAACTGTTGAGGAAACGACTGCGTTT
* *
14689579 TGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAACATTT
66 TGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCACAAAAATGTTCTAACATTT
14689634 ATCGATACGA
Statistics
Matches: 99, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
147 93 0.94
148 6 0.06
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (147 bp):
TATTAGTGGCGATTTTTCGAAAACGCCACAAGATTGAGGTAACTGTTGAGGAAACGACTGCGTTT
TGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCACAAAAATGTTCTAACATTTTTAAAAACGC
TGCCGTTTTTTAAATGT
Found at i:14689649 original size:147 final size:146
Alignment explanation
Indices: 14689417--14689764 Score: 353
Period size: 146 Copynumber: 2.4 Consensus size: 146
14689407 AACTTTTGGG
* * * * * *
14689417 GAAACGACTTCG-TTTGATCTTATATTTAGTGGTGCTTTACTTAAAACGCCACAAAATTGTTCTA
1 GAAACGACTACGTTTTGAT-TTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTA
* ** * * * *
14689481 ACATTTTTAAAAACGCTGCCGTTTT-TTAAATGTTATTAGTGGCGATTT-TTCGAAAACGCCACT
65 ACATTTATAAAAACGAGGCCGTTTTGCT--ATATTATTAGTGGCG-TTTATTCAAAAACGCCACA
* *
14689544 GGTTTGAGGTAAGTGTTGAT
127 GGTGTGAGCTAAGTGTTGAT
* * *
14689564 GAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTTTAA
1 GAAACGACTACGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAA
** * * *
14689629 CATTTATCGATACGAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTCAAAAATGCCACAGGTG
66 CATTTATAAAAACGAGGCCGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTG
* ***
14689694 TGCGCTTTTTGTTGAT
131 TGAGCTAAGTGTTGAT
* * *
14689710 GAAACGACTACGTTTCGACTTATAGTTAGTGGCGC-TTATTTATAAACGCCGCAAA
1 GAAACGACTACGTTTTGATTTATAGTTAGTGGCGCTTTAATTA-AAACGCCGCAAA
14689765 TGGTTAATTT
Statistics
Matches: 166, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
145 9 0.05
146 82 0.49
147 68 0.41
148 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (146 bp):
GAAACGACTACGTTTTGATTTATAGTTAGTGGCGCTTTAATTAAAACGCCGCAAAAATGTTCTAA
CATTTATAAAAACGAGGCCGTTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTG
TGAGCTAAGTGTTGAT
Found at i:14689868 original size:23 final size:23
Alignment explanation
Indices: 14689838--14689882 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
14689828 CGACATTTTT
14689838 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAGTTATCCCCCAAAAC
14689861 CTCCATCAGTTATCCCCCAAAA
1 CTCCATCAGTTATCCCCCAAAA
14689883 TTTATTCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.42, G:0.04, T:0.22
Consensus pattern (23 bp):
CTCCATCAGTTATCCCCCAAAAC
Found at i:14693624 original size:21 final size:21
Alignment explanation
Indices: 14693598--14693665 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
14693588 CTACAACTTA
*
14693598 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
14693619 AAGCAGCGGCTGCAGTGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
14693640 AAGCGGAGGCTGTAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
14693661 AAGCA
1 AAGCA
14693666 AAGCAGAGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.47, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:14694049 original size:41 final size:41
Alignment explanation
Indices: 14694003--14694080 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
14693993 GCTAACGAAC
14694003 ATGTTCTTTAGCGGCGCTTA-AATAAAACACTGATAAATATA
1 ATGTTCTTTAGCGGCGCTTAGAA-AAAACACTGATAAATATA
* * *
14694044 ATGTTCTTTAGTGGCGCTTAGAAAAAACGCTGCTAAA
1 ATGTTCTTTAGCGGCGCTTAGAAAAAACACTGATAAA
14694081 GACCTGTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (41 bp):
ATGTTCTTTAGCGGCGCTTAGAAAAAACACTGATAAATATA
Found at i:14700789 original size:17 final size:18
Alignment explanation
Indices: 14700767--14700801 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14700757 GGCCCTTTAC
14700767 AAAAAT-AATTAAAAAGT
1 AAAAATAAATTAAAAAGT
14700784 AAAAATAAATTAAAAAGT
1 AAAAATAAATTAAAAAGT
14700802 CCAAAAGTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAAATAAATTAAAAAGT
Found at i:14701338 original size:11 final size:11
Alignment explanation
Indices: 14701314--14701352 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14701304 TTCGAGTTTC
* *
14701314 TTTTCTCTCGT
1 TTTTCTATCAT
*
14701325 TTTTTTATCAT
1 TTTTCTATCAT
14701336 TTTTCTATCAT
1 TTTTCTATCAT
14701347 TTTTCT
1 TTTTCT
14701353 TTTCTTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.10, C:0.18, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTCTATCAT
Found at i:14701360 original size:22 final size:21
Alignment explanation
Indices: 14701310--14701361 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
14701300 TGATTTCGAG
* *
14701310 TTTC-TTTTCTCTCGTTTTTT
1 TTTCTTTTTCTATCATTTTTT
*
14701330 TATCATTTTTCTATCATTTTTCT
1 TTTC-TTTTTCTATCATTTTT-T
14701353 TTTCTTTTT
1 TTTCTTTTT
14701362 ATTTATTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
22 18 0.72
23 4 0.16
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTCTTTTTCTATCATTTTTT
Found at i:14717665 original size:17 final size:15
Alignment explanation
Indices: 14717628--14717663 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14717618 AGGTAGAGTA
*
14717628 AAATATTTAAAAACT
1 AAATATTTAAAAAAT
14717643 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
*
14717658 ATATAT
1 AAATAT
14717664 ATGTCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:14719424 original size:21 final size:18
Alignment explanation
Indices: 14719394--14719434 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 18
14719384 CATAAGTTTT
14719394 AAACAATTAATATAATATTA
1 AAACAATTAA-ATAA-ATTA
14719414 AAACTAATTAAATAAATTA
1 AAAC-AATTAAATAAATTA
14719433 AA
1 AA
14719435 CATCTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AAACAATTAAATAAATTA
Found at i:14720111 original size:22 final size:21
Alignment explanation
Indices: 14720076--14720209 Score: 68
Period size: 19 Copynumber: 6.7 Consensus size: 21
14720066 AAAGGGTATC
* *
14720076 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
14720097 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14720120 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
***
14720139 TATTTATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14720158 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
14720177 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14720196 TGCATATCATATCT
1 TACAAATCATATCT
14720210 AAGATTGCAT
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.02
19 58 0.63
21 7 0.08
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14720119 original size:23 final size:22
Alignment explanation
Indices: 14720076--14720133 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14720066 AAAGGGTATC
* *
14720076 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14720097 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14720120 TGCATATCATATCT
1 TACAAATCATATCT
14720134 AAGATTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14720136 original size:19 final size:19
Alignment explanation
Indices: 14720112--14720222 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
14720102 AATCATATCT
14720112 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
***
14720131 TCTAAGATTATTTATCATA
1 TCTAAGATTGCATATCATA
14720150 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
14720169 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
14720188 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14720207 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14720223 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14720159 original size:38 final size:38
Alignment explanation
Indices: 14720112--14720215 Score: 190
Period size: 38 Copynumber: 2.7 Consensus size: 38
14720102 AATCATATCT
*
14720112 TCTAAGATTGCATATCATATCTAAGATTATTTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
14720150 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
14720188 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
14720216 GCATATCCCT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 64 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:14722466 original size:20 final size:21
Alignment explanation
Indices: 14722420--14722466 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
14722410 TTAGTTTCTT
*
14722420 TATAAATTTTATTCTAACTTA
1 TATAATTTTTATTCTAACTTA
*
14722441 TTTAATTTTTATT-TAA-TTGA
1 TATAATTTTTATTCTAACTT-A
14722461 TATAAT
1 TATAAT
14722467 CTCTTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 11 0.50
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TATAATTTTTATTCTAACTTA
Found at i:14728772 original size:35 final size:37
Alignment explanation
Indices: 14728705--14728817 Score: 99
Period size: 38 Copynumber: 3.1 Consensus size: 37
14728695 AATGTGGAAC
* * * **
14728705 GTTATTGACTATCTCGCTAGA-TCGACATCGTGATGATG
1 GTTACTGACTA-CTCACTAGAGT-GACACCGTGATGACA
14728743 GTTTACTGACT-CT-A-TAGAGTGACACCGTGATGACA
1 G-TTACTGACTACTCACTAGAGTGACACCGTGATGACA
* *
14728778 GTTATTGACTAGCTCACTAGAGTGACACCGTGACGACA
1 GTTACTGACTA-CTCACTAGAGTGACACCGTGATGACA
14728816 GT
1 GT
14728818 CCCTCGACTC
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
34 8 0.13
35 17 0.27
36 3 0.05
37 3 0.05
38 23 0.37
39 8 0.13
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (37 bp):
GTTACTGACTACTCACTAGAGTGACACCGTGATGACA
Found at i:14731687 original size:17 final size:17
Alignment explanation
Indices: 14731665--14731700 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14731655 ACGACTTCTT
* *
14731665 TTGTATCGTAGGTTCAA
1 TTGTATCATAGATTCAA
14731682 TTGTATCATAGATTCAA
1 TTGTATCATAGATTCAA
14731699 TT
1 TT
14731701 ACTAAATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (17 bp):
TTGTATCATAGATTCAA
Found at i:14732510 original size:51 final size:51
Alignment explanation
Indices: 14732434--14732533 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
14732424 AACATCGCTT
14732434 TCAAATTAGATACAGCCCTACGGCCCAGTGCGTCCGCTACTATGTTAGCTC
1 TCAAATTAGATACAGCCCTACGGCCCAGTGCGTCCGCTACTATGTTAGCTC
14732485 TCAAATTAGATACAGCCCTACGGCCCAGTGCGTCCGCTACTATGTTAGC
1 TCAAATTAGATACAGCCCTACGGCCCAGTGCGTCCGCTACTATGTTAGC
14732534 CTTACCAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (51 bp):
TCAAATTAGATACAGCCCTACGGCCCAGTGCGTCCGCTACTATGTTAGCTC
Found at i:14738625 original size:18 final size:18
Alignment explanation
Indices: 14738602--14738640 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14738592 GAAAGTCTCC
*
14738602 CTACAGTTTCCAGTTTT-T
1 CTACAGTCT-CAGTTTTCT
14738620 CTACAGTCTCAGTTTTCT
1 CTACAGTCTCAGTTTTCT
14738638 CTA
1 CTA
14738641 ACTTAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.26, G:0.10, T:0.46
Consensus pattern (18 bp):
CTACAGTCTCAGTTTTCT
Found at i:14739443 original size:28 final size:28
Alignment explanation
Indices: 14739403--14739469 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
14739393 TATACGACAT
*
14739403 GCAGTAATAGTCTGGGCCTGAGCCTTAA
1 GCAGTAACAGTCTGGGCCTGAGCCTTAA
*
14739431 GCAGTAACAGTCTGGGCCTTAGCCTTAA
1 GCAGTAACAGTCTGGGCCTGAGCCTTAA
14739459 GCAGTAACAGT
1 GCAGTAACAGT
14739470 GTAATATGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (28 bp):
GCAGTAACAGTCTGGGCCTGAGCCTTAA
Found at i:14739891 original size:27 final size:27
Alignment explanation
Indices: 14739861--14740001 Score: 90
Period size: 27 Copynumber: 5.2 Consensus size: 27
14739851 GGTATAACAG
14739861 TCATTTTACCCAAT-GGGGGTATTTCGA
1 TCATTTTACCC-ATCGGGGGTATTTCGA
* *
14739888 TCATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTACCCATCGGGGGTATTTCGA
* * ** * *
14739915 TCATTTTATCCTTCAAGGATATTTCGG
1 TCATTTTACCCATCGGGGGTATTTCGA
* * * *
14739942 TTATTTTA-CCATTTGAGGGTATTT-TA
1 TCATTTTACCCA-TCGGGGGTATTTCGA
* * * *
14739968 GTTATTTTACCCTTCGAGGGTATTTCGG
1 -TCATTTTACCCATCGGGGGTATTTCGA
14739996 TCATTT
1 TCATTT
14740002 GCCCATGAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
26 3 0.03
27 86 0.95
28 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCATCGGGGGTATTTCGA
Found at i:14739938 original size:54 final size:54
Alignment explanation
Indices: 14739880--14740001 Score: 145
Period size: 54 Copynumber: 2.3 Consensus size: 54
14739870 CCAATGGGGG
* * * * *
14739880 TATTTCGATCATTTTACCCTTCGGGGGTATTTCGGTCATTTTATCCTTCAAGGA
1 TATTTCGGTCATTTTACCATTCGAGGGTATTTCAGTCATTTTACCCTTCAAGGA
* * * * * *
14739934 TATTTCGGTTATTTTACCATTTGAGGGTATTTTAGTTATTTTACCCTTCGAGGG
1 TATTTCGGTCATTTTACCATTCGAGGGTATTTCAGTCATTTTACCCTTCAAGGA
14739988 TATTTCGGTCATTT
1 TATTTCGGTCATTT
14740002 GCCCATGAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.18, C:0.16, G:0.19, T:0.47
Consensus pattern (54 bp):
TATTTCGGTCATTTTACCATTCGAGGGTATTTCAGTCATTTTACCCTTCAAGGA
Found at i:14744307 original size:40 final size:40
Alignment explanation
Indices: 14744233--14744372 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
14744223 AACACACCAG
* **
14744233 TTTGTCACCCAGTGCCTCATCGGGTAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGGTAAACCGAAGTAATAA
* * *
14744273 TTTGACACCTAGTGTCTCTTCGGGTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGGTAAACCGAAGTAATAA
* * *** **
14744311 -TTGGCACCTAGTGCCTCATCAAATTAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATC-GGGTAAACCGAAGTAATAA
* * *
14744351 ATTGACACTCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
14744373 ACTCAAAGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 2 0.03
40 31 0.40
41 16 0.21
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGGTAAACCGAAGTAATAA
Found at i:14745358 original size:3 final size:3
Alignment explanation
Indices: 14745345--14745381 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
14745335 TGTTTTGTTT
*
14745345 TAA TTA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14745382 TATATTTACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14745428 original size:19 final size:20
Alignment explanation
Indices: 14745404--14745442 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14745394 ATTAATAAGC
14745404 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
14745423 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
14745443 TTACACATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:14748146 original size:23 final size:24
Alignment explanation
Indices: 14748119--14748172 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 24
14748109 ATTTAATTAG
*
14748119 AAAATATA-TGTTT-TAAAGTTATA
1 AAAATATATTATTTATAAAGTTA-A
14748142 AAAATATATTATTTAATAAAGTTAA
1 AAAATATATTATTT-ATAAAGTTAA
14748167 AAAATA
1 AAAATA
14748173 AACACATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 8 0.30
24 4 0.15
25 7 0.26
26 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
AAAATATATTATTTATAAAGTTAA
Found at i:14751015 original size:25 final size:24
Alignment explanation
Indices: 14750987--14751034 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14750977 TTGTAGAGAG
* *
14750987 AAAATTTTCTGGAGAGATTATTTCA
1 AAAAATTTCTAGAGAGATT-TTTCA
*
14751012 AAAAATTTCTAGAGATATTTTTC
1 AAAAATTTCTAGAGAGATTTTTC
14751035 TAATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (24 bp):
AAAAATTTCTAGAGAGATTTTTCA
Found at i:14753161 original size:20 final size:20
Alignment explanation
Indices: 14753109--14753167 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
14753099 TATTTATGCT
*
14753109 TGCACATCTGTGCCCCTATT
1 TGCACATCTGTGCCCCTATC
* * *
14753129 TCCACTTCGGTGCCCCTGA-C
1 TGCACATCTGTGCCCCT-ATC
14753149 TGCACATCTGTGCCCCTAT
1 TGCACATCTGTGCCCCTAT
14753168 TTTGCATCTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.14, C:0.39, G:0.17, T:0.31
Consensus pattern (20 bp):
TGCACATCTGTGCCCCTATC
Found at i:14753794 original size:3 final size:3
Alignment explanation
Indices: 14753786--14753826 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14753776 CAAAATGTAG
14753786 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14753827 TGGTTAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14754256 original size:42 final size:42
Alignment explanation
Indices: 14754176--14754258 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
14754166 TGAAACACGA
* * *
14754176 CCGTGTGTCTCAAGTCAGTGGGTTACATGGGCTAGCACATGG
1 CCGTGTGTCTCAAGTCAATGAGTTACATCGGCTAGCACATGG
*
14754218 CCGTGTGTGC-CAAGTCAATGAGTTACA-CGGTTAGGCACATG
1 CCGTGTGT-CTCAAGTCAATGAGTTACATCGGCTA-GCACATG
14754259 AGTTGGGACA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 4 0.11
42 30 0.86
43 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (42 bp):
CCGTGTGTCTCAAGTCAATGAGTTACATCGGCTAGCACATGG
Found at i:14754940 original size:18 final size:18
Alignment explanation
Indices: 14754896--14754940 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
14754886 CATTCGTTTC
*
14754896 CAAAACATTATTCATTTA
1 CAAAACGTTATTCATTTA
*
14754914 CAAATCGTTATTCAATTT-
1 CAAAACGTTATTC-ATTTA
14754932 CAAAACGTT
1 CAAAACGTT
14754941 TTTCTTATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCATTTA
Found at i:14755907 original size:17 final size:18
Alignment explanation
Indices: 14755874--14755908 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14755864 CCATGATGTT
14755874 CGCCCGTGTAGGCCCACA
1 CGCCCGTGTAGGCCCACA
14755892 CGCCCGTGTA-GCCCACA
1 CGCCCGTGTAGGCCCACA
14755909 TGACCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.17, C:0.46, G:0.26, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTAGGCCCACA
Found at i:14761436 original size:41 final size:41
Alignment explanation
Indices: 14761378--14761486 Score: 173
Period size: 41 Copynumber: 2.6 Consensus size: 41
14761368 CTTAATTTAA
*
14761378 CAGATTCACCGGCACTTAGCCTGCTAGGCTGATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTGATAACCTGATT
* *
14761420 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTGATAACCTGATT
*
14761461 CAGATCACCAGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
14761487 ACTTAAAGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 59 0.94
42 4 0.06
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTGATAACCTGATT
Found at i:14776387 original size:17 final size:17
Alignment explanation
Indices: 14776365--14776399 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14776355 TATTTTTACT
14776365 TAAAATAAA-TAAGTTAA
1 TAAAATAAAGTAA-TTAA
14776382 TAAAATAAAGTAATTAA
1 TAAAATAAAGTAATTAA
14776399 T
1 T
14776400 GTGCTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (17 bp):
TAAAATAAAGTAATTAA
Found at i:14780384 original size:18 final size:16
Alignment explanation
Indices: 14780344--14780387 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
14780334 CTCCAATTAT
14780344 TTAATTTCATATTAAA
1 TTAATTTCATATTAAA
14780360 TAATAATTTACATATATAAA
1 T--TAATTT-CATAT-TAAA
14780380 TTAATTTC
1 TTAATTTC
14780388 TGAGTCATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 1 0.04
18 12 0.50
19 5 0.21
20 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATTTCATATTAAA
Found at i:14782382 original size:3 final size:3
Alignment explanation
Indices: 14782369--14782417 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
14782359 TTATAAATGT
14782369 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14782415 ATA
1 ATA
14782418 GGTAATGGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14783619 original size:19 final size:19
Alignment explanation
Indices: 14783592--14783640 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
14783582 AATTGATAAG
*
14783592 GATGAGAAATGGAAAATGA
1 GATGTGAAATGGAAAATGA
* *
14783611 GATGTGAAATGTAATATGA
1 GATGTGAAATGGAAAATGA
*
14783630 AATCGTGAAAT
1 GAT-GTGAAAT
14783641 TGGATGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (19 bp):
GATGTGAAATGGAAAATGA
Found at i:14785394 original size:27 final size:27
Alignment explanation
Indices: 14785356--14785421 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
14785346 TAATTAGTCG
* *
14785356 GGACAGTAAACATATGGTAGTTCGTCA
1 GGACAGTAAACATAGGGTAGTCCGTCA
14785383 GGACAGTAAACATAGGGTAGTCCGTCA
1 GGACAGTAAACATAGGGTAGTCCGTCA
14785410 GGACAGTAAACA
1 GGACAGTAAACA
14785422 CGAAGAATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (27 bp):
GGACAGTAAACATAGGGTAGTCCGTCA
Found at i:14796708 original size:18 final size:19
Alignment explanation
Indices: 14796680--14796716 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14796670 ATCTACCATT
14796680 TCATATTCCATTTCACATC
1 TCATATTCCATTTCACATC
*
14796699 TCAT-TTCCATTTCTCATC
1 TCATATTCCATTTCACATC
14796717 CTTTGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (19 bp):
TCATATTCCATTTCACATC
Found at i:14797495 original size:174 final size:174
Alignment explanation
Indices: 14797196--14797535 Score: 581
Period size: 174 Copynumber: 2.0 Consensus size: 174
14797186 CATTTCAACC
* * *
14797196 ATCATTAAACTCAATTTAATCCAAATGTACAAGAGTTCTCACTTCAAATACTTACCATACACAAT
1 ATCATTAAACTCAAGTCAATCCAAATGTACAAGAGTTCTCACCTCAAATACTTACCATACACAAT
***
14797261 CAATTCAATATGCAATAATTCATAATTTAGTTTGGATTATAGAAACACAAATTGTATATTTCGAG
66 CAATTCAATATGCAATAATTCATAATTTAGTTTGGATTATAGAAACACAAACCATATATTTCGAG
* *
14797326 CTACTAGATGTCAACCTTGTCTTTCCCCTTCTTACTCGAGGATT
131 CAACTAGACGTCAACCTTGTCTTTCCCCTTCTTACTCGAGGATT
* *
14797370 ATCATTAAATTCAAGTCAGTCCAAATGTACAAGAGTTCTCACCTCAAATACTTACCATACACAAT
1 ATCATTAAACTCAAGTCAATCCAAATGTACAAGAGTTCTCACCTCAAATACTTACCATACACAAT
14797435 CAATTCAATATGCAATAATTCATAATTTAGTTTGGATTATAGAAACACAAACCATATATTTCGAG
66 CAATTCAATATGCAATAATTCATAATTTAGTTTGGATTATAGAAACACAAACCATATATTTCGAG
*
14797500 CAACTCGACGTCAACCTTGTCTTTCCCCTTCTTACT
131 CAACTAGACGTCAACCTTGTCTTTCCCCTTCTTACT
14797536 TAAGGATTTC
Statistics
Matches: 155, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
174 155 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (174 bp):
ATCATTAAACTCAAGTCAATCCAAATGTACAAGAGTTCTCACCTCAAATACTTACCATACACAAT
CAATTCAATATGCAATAATTCATAATTTAGTTTGGATTATAGAAACACAAACCATATATTTCGAG
CAACTAGACGTCAACCTTGTCTTTCCCCTTCTTACTCGAGGATT
Found at i:14803858 original size:25 final size:26
Alignment explanation
Indices: 14803829--14803888 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
14803819 TTTCACCCCA
14803829 ATAAAATTTTGACAATTCTACCCT-G
1 ATAAAATTTTGACAATTCTACCCTCG
* * *
14803854 GTAAAATTTTGACGATTTTACCCTCG
1 ATAAAATTTTGACAATTCTACCCTCG
14803880 ATAAAATTT
1 ATAAAATTT
14803889 CGAGAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (26 bp):
ATAAAATTTTGACAATTCTACCCTCG
Found at i:14805695 original size:3 final size:3
Alignment explanation
Indices: 14805687--14805718 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14805677 CAGTGATTGG
14805687 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14805719 TTGGTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14806244 original size:18 final size:19
Alignment explanation
Indices: 14806214--14806254 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14806204 ATATTTTTTT
14806214 AAAA-TATTAATTACT-ATA
1 AAAATTATTAATTA-TGATA
14806232 AAAATTATT-ATTATGATA
1 AAAATTATTAATTATGATA
14806250 AAAAT
1 AAAAT
14806255 AATTGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.05
18 16 0.76
19 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATTATTAATTATGATA
Found at i:14806780 original size:13 final size:14
Alignment explanation
Indices: 14806762--14806803 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
14806752 TTAAATTATT
14806762 TAATATTTT-TTAA
1 TAATATTTTATTAA
*
14806775 TAATATTTTATTTA
1 TAATATTTTATTAA
14806789 -AATATTTTATTAA
1 TAATATTTTATTAA
14806802 TA
1 TA
14806804 TTTTAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATATTTTATTAA
Found at i:14806802 original size:24 final size:25
Alignment explanation
Indices: 14806757--14806818 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
14806747 TTAGGTTAAA
*
14806757 TTATTTAATATTTTTTAATAATATT
1 TTATTTAATATATTTTAATAATATT
*
14806782 TTATTTAA-ATATTTTATTAATATT
1 TTATTTAATATATTTTAATAATATT
*
14806806 TTAAGTTAATATA
1 TT-ATTTAATATA
14806819 AAAGGAAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.50
25 13 0.41
26 3 0.09
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTATTTAATATATTTTAATAATATT
Found at i:14806817 original size:13 final size:11
Alignment explanation
Indices: 14806769--14806808 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14806759 ATTTAATATT
*
14806769 TTTTAATAATA
1 TTTTATTAATA
14806780 TTTTATTTAAATA
1 TTTTA-TT-AATA
14806793 TTTTATTAATA
1 TTTTATTAATA
14806804 TTTTA
1 TTTTA
14806809 AGTTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 3 0.12
13 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATTAATA
Found at i:14807699 original size:18 final size:18
Alignment explanation
Indices: 14807672--14807706 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14807662 TTGAAATAAC
* *
14807672 ATATTTAAGTGTAGTGAT
1 ATATTGAAGTGAAGTGAT
14807690 ATATTGAAGTGAAGTGA
1 ATATTGAAGTGAAGTGA
14807707 ATTTCAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (18 bp):
ATATTGAAGTGAAGTGAT
Found at i:14809716 original size:25 final size:25
Alignment explanation
Indices: 14809688--14809771 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
14809678 ACATGTAAAT
14809688 GGGAAGCTCTTTCGAGCCATATAAC
1 GGGAAGCTCTTTCGAGCCATATAAC
* **
14809713 GGGAAGCTCATGT-GAGCTGTATAAC
1 GGGAAGCTC-TTTCGAGCCATATAAC
* * **
14809738 GGGAAGCTCTTGCGAGCCATTTATT
1 GGGAAGCTCTTTCGAGCCATATAAC
14809763 GGGAAGCTC
1 GGGAAGCTC
14809772 AAGAAAGTAA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.94
26 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (25 bp):
GGGAAGCTCTTTCGAGCCATATAAC
Found at i:14809722 original size:50 final size:50
Alignment explanation
Indices: 14809663--14809772 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 50
14809653 TTCATTTTCA
* *
14809663 GGAATGCTCATACAAACATGTA-AATGGGAAGCTCTTTCGAGCCATATAACG
1 GGAA-GCTCATACAAAC-TGTATAACGGGAAGCTCTTGCGAGCCATATAACG
*** * * **
14809714 GGAAGCTCATGTGAGCTGTATAACGGGAAGCTCTTGCGAGCCATTTATTG
1 GGAAGCTCATACAAACTGTATAACGGGAAGCTCTTGCGAGCCATATAACG
14809764 GGAAGCTCA
1 GGAAGCTCA
14809773 AGAAAGTAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
49 4 0.08
50 41 0.84
51 4 0.08
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (50 bp):
GGAAGCTCATACAAACTGTATAACGGGAAGCTCTTGCGAGCCATATAACG
Found at i:14812922 original size:31 final size:30
Alignment explanation
Indices: 14812865--14812922 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
14812855 ACATGAACTT
*
14812865 TAATTTGGTGCAATTATACACATGAAAGTC
1 TAATTTGGTGCAAGTATACACATGAAAGTC
* * *
14812895 TAATTGTGGTTCAAGTATATACTTGAAA
1 TAATT-TGGTGCAAGTATACACATGAAA
14812923 CCTTAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (30 bp):
TAATTTGGTGCAAGTATACACATGAAAGTC
Found at i:14813127 original size:29 final size:30
Alignment explanation
Indices: 14813074--14813153 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
14813064 GAATTGTATG
*
14813074 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
*
14813104 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
14813135 AAATCATAGTTCGTGTATA
1 AAATCAAAGTTCATGTATA
14813154 GTTTTTGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 22 0.50
30 5 0.11
31 17 0.39
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.33
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:14814382 original size:24 final size:22
Alignment explanation
Indices: 14814350--14814412 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 22
14814340 AATCTTCAAG
14814350 GATATGCAATCTTAGATATGATAT
1 GATATGCAATCTTAGA-A-GATAT
14814374 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
14814396 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
14814413 GATTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 7 0.19
23 13 0.36
24 16 0.44
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:14814621 original size:23 final size:23
Alignment explanation
Indices: 14814590--14814635 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
14814580 TGCGTTCTTA
* *
14814590 TTTTGTTGATTTGTGTATAATTT
1 TTTTATTGATTTGTATATAATTT
*
14814613 TTTTATTGATTTGTATATTATTT
1 TTTTATTGATTTGTATATAATTT
14814636 CTAATGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (23 bp):
TTTTATTGATTTGTATATAATTT
Found at i:14819449 original size:6 final size:6
Alignment explanation
Indices: 14819432--14819515 Score: 134
Period size: 6 Copynumber: 13.8 Consensus size: 6
14819422 AATGATGATG
*
14819432 GAAAAA GGAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
14819480 GAAAAA GAAAAA GAAAAA GAAAGAA -AAATAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAA-AA GAAA-AA GAAAA
14819516 GGAGAGGCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
6 68 0.93
7 5 0.07
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (6 bp):
GAAAAA
Found at i:14820812 original size:44 final size:44
Alignment explanation
Indices: 14820762--14820931 Score: 277
Period size: 44 Copynumber: 3.9 Consensus size: 44
14820752 CACAAAGCTT
* * * * *
14820762 TATCTCCCAGGTCAGCAGTGGAATATGTTGAAAATTATAAGTTC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
14820806 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
14820850 TATCTCCTTGGTTAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
14820894 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
1 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT
14820932 GAATCTTATC
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 117 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:14820942 original size:44 final size:44
Alignment explanation
Indices: 14820761--14820969 Score: 262
Period size: 44 Copynumber: 4.8 Consensus size: 44
14820751 TCACAAAGCT
* * * *
14820761 TTATCTCCCAGGTCAGCAGTGGAATATGTTGAAAATTATAAGT-
1 TTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
14820804 TCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 T-TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
* * *
14820849 CTATCTCCTTGGTTAGCAGTGGAATAGGTTGAAGATTGTAAGTC
1 TTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
*
14820893 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-TC
1 TTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-AAGTC
** * *
14820937 TTATCTCATTGAG-CAACAGTGGAGTAGGTTGAA
1 TTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
14820970 AATAGCAGAT
Statistics
Matches: 148, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
43 1 0.01
44 144 0.97
45 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
TTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAGTC
Found at i:14820942 original size:88 final size:88
Alignment explanation
Indices: 14820761--14820972 Score: 293
Period size: 88 Copynumber: 2.4 Consensus size: 88
14820751 TCACAAAGCT
** * *
14820761 TTATCTCCCAGGTCAGCAGTGGAATATGTTGAAAATTATAAGTTCTATCTCCCTGGTCAGCAGTG
1 TTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAAATTATAAGTCCTATCTCCCTGGTCAGCAGTG
14820826 GAATAGGTTGAAGATTGTAAGTC
66 GAATAGGTTGAAGATTGTAAGTC
* * * *
14820849 CTATCTCCTTGGTTAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTG
1 TTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAAATTATAAGTCCTATCTCCCTGGTCAGCAGTG
14820914 GAATAGGTTGAAGATTGTGAA-TC
66 GAATAGGTTGAAGATTGT-AAGTC
* * *
14820937 TTATCTCATTGAG-CAACAGTGGAGTAGGTTGAAAAT
1 TTATCTCCTTG-GTCAGCAGTGGAATAGGTTGAAAAT
14820973 AGCAGATCTT
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 105 0.97
89 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (88 bp):
TTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAAATTATAAGTCCTATCTCCCTGGTCAGCAGTG
GAATAGGTTGAAGATTGTAAGTC
Found at i:14821582 original size:45 final size:44
Alignment explanation
Indices: 14821461--14821840 Score: 136
Period size: 44 Copynumber: 8.7 Consensus size: 44
14821451 GATCGTATCT
*
14821461 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAGTAAGCA
* * * *
14821505 AGCCTTATC-CTCCTGAAGTTGTAGT-AAGGCAGACTGAAGATGGAG-A
1 AGTCTTATCTC-CCTGAAGTTATAGTGGA-GCAGACT-AAG-T-AAGCA
* * * *
14821551 A-TCTTATCTCCCTGAAGTTTTAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACT-AAG-TAAGCA
* ** *** * * *
14821595 A-TCCTATCTCCCTGAAGTTGCAGTGGAATGGATTAAAATCA-CA
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACT-AAGTAAGCA
* * ** * * * * * *
14821638 AATCTTATCTCTCTGAAGTTGCAG-AGAGCA-AAT-CG-CATCG
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAGTAAGCA
* ** * * *
14821678 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGA-CTAAGTAAGCA
* * * *
14821723 AGTCTTATCTTCCTGAAGTTGTAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACT-AAGTAAGCA
* * ** * * *
14821768 AGTCTTATC-CCCTAAAAATTGCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCT-GAAGTTATAGTGGAGCAGACTAAGTAAGCA
* * * *
14821812 AATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTATAGTGGAG
14821841 TGGATTAGAA
Statistics
Matches: 257, Mismatches: 61, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
39 2 0.01
40 22 0.09
41 5 0.02
42 3 0.01
43 7 0.03
44 110 0.43
45 101 0.39
46 5 0.02
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAGTAAGCA
Found at i:14821620 original size:44 final size:44
Alignment explanation
Indices: 14821333--14821661 Score: 174
Period size: 44 Copynumber: 7.5 Consensus size: 44
14821323 GAATAAGGCG
* * * *
14821333 AATCTTATCTCCTTGAAGTTGCAGTGGAGAAGATTGAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* * * * *
14821377 AATCCTATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-AT
* * ** * * ***
14821421 GATTTTATCTCTTTGAAGTTCCAGAGG-GCAGATCGTA-TC--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* * * *
14821461 AGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGT-AAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAA-T
* * * * * ** *
14821504 AAGCCTTATC-CTCCTGAAGTTGTAGT-AAGGCAGACTGAAGATGGAG
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAG-TCAAT
** *
14821550 AATCTTATCTCCCTGAAGTTTTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
* *** *
14821594 AATCCTATCTCCCTGAAGTTGCAGTGGAATGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-AT
*
14821638 AATCTTATCTCTCTGAAGTTGCAG
1 AATCTTATCTCCCTGAAGTTGCAG
14821662 AGAGCAAATC
Statistics
Matches: 212, Mismatches: 57, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
40 21 0.10
41 6 0.03
42 2 0.01
43 9 0.04
44 135 0.64
45 33 0.16
46 5 0.02
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAAT
Found at i:14821693 original size:217 final size:218
Alignment explanation
Indices: 14821318--14821747 Score: 610
Period size: 217 Copynumber: 2.0 Consensus size: 218
14821308 GCAATTTAAA
* * * *
14821318 AGACTGAATAAGGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGAAGATTGAAGCCAATAATCCT
1 AGACTGAAGAAGGAGAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCAATAATCCT
* * * * * *
14821383 ATCTCTCTGAAGTCGCAGTGGAGCGGATTAAAATCACAGATTTTATCTCTTTGAAGTTCCAGAGG
66 ATCTCCCTGAAGTCGCAGTGGAACGGATTAAAATCACAAATCTTATCTCTCTGAAGTTCCAGAGA
* * * * *
14821448 GCAGATCGTATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CTAAGTAAGCAAGCCTTA
131 GCAAATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
14821512 TCCTCCTGAAGTTGTAGTAAGGC
196 TCCTCCTGAAGTTGTAGTAAGGC
* ** *
14821535 AGACTGAAGATGGAGAATCTTATCTCCCTGAAGTTTTAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGAAGGAGAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCAATAATCCT
* * *
14821600 ATCTCCCTGAAGTTGCAGTGGAATGGATTAAAATCACAAATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTGAAGTCGCAGTGGAACGGATTAAAATCACAAATCTTATCTCTCTGAAGTTCCAGAGA
* * * *
14821665 GCAAATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAGCGAGTCTTA
131 GCAAATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
*
14821730 TCTTCCTGAAGTTGTAGT
196 TCCTCCTGAAGTTGTAGT
14821748 GGAGCAGACT
Statistics
Matches: 185, Mismatches: 27, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
217 154 0.83
218 31 0.17
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (218 bp):
AGACTGAAGAAGGAGAATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTAAAGCCAATAATCCT
ATCTCCCTGAAGTCGCAGTGGAACGGATTAAAATCACAAATCTTATCTCTCTGAAGTTCCAGAGA
GCAAATCGCATCGAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCCAAGAAAGCAAGCCTTA
TCCTCCTGAAGTTGTAGTAAGGC
Found at i:14822376 original size:19 final size:19
Alignment explanation
Indices: 14822352--14822405 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
14822342 AATCTTCAAG
14822352 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* * *
14822371 GATATGTATTCTTAAATAT
1 GATATGCAATCTTAGATAT
14822390 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
14822406 AGATATGATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14833653 original size:25 final size:25
Alignment explanation
Indices: 14833603--14833654 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
14833593 CTTGCTTGAA
*
14833603 CTTCCCGATATATGGCTATCCGGAG
1 CTTCCCGATATATGGCTATCCAGAG
* *
14833628 CTTCCCGAT-TGATGGCTCTTCAGAG
1 CTTCCCGATAT-ATGGCTATCCAGAG
14833653 CT
1 CT
14833655 ACCCATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.17, C:0.29, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATCCAGAG
Found at i:14844263 original size:25 final size:25
Alignment explanation
Indices: 14844229--14844278 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
14844219 CATGTTCTCT
14844229 TCTATATGTTATGTAATAATCATAA
1 TCTATATGTTATGTAATAATCATAA
14844254 TCTATATGTTATGTAATAATCATAA
1 TCTATATGTTATGTAATAATCATAA
14844279 CTAAGAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (25 bp):
TCTATATGTTATGTAATAATCATAA
Found at i:14846401 original size:51 final size:51
Alignment explanation
Indices: 14846249--14846401 Score: 177
Period size: 51 Copynumber: 3.0 Consensus size: 51
14846239 ATAAATTTAT
14846249 GGGTACTATGTGTACCGAAAAGCTTTGAGCACGTGTGTAGTACTGTGTGAA
1 GGGTACTATGTGTACCGAAAAGCTTTGAGCACGTGTGTAGTACTGTGTGAA
* * * * ** * **
14846300 GGCTACTACGTGTATCGATAAA--TAATG-GTTTCATGTGTAGTACTAAGTGAA
1 GGGTACTATGTGTACCGA-AAAGCT-TTGAG-CACGTGTGTAGTACTGTGTGAA
14846351 GGGTACTATGTGTACCGAAAAGCTTTGAGCACGTGTGTAGTACTGTGTGAA
1 GGGTACTATGTGTACCGAAAAGCTTTGAGCACGTGTGTAGTACTGTGTGAA
14846402 NNNNNNNNNN
Statistics
Matches: 78, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
50 5 0.06
51 68 0.87
52 5 0.06
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (51 bp):
GGGTACTATGTGTACCGAAAAGCTTTGAGCACGTGTGTAGTACTGTGTGAA
Found at i:14851435 original size:29 final size:29
Alignment explanation
Indices: 14851398--14851456 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
14851388 CATCTACATA
14851398 CAAAGAAACAATTAGCAAAGTCTCATATT
1 CAAAGAAACAATTAGCAAAGTCTCATATT
* *
14851427 CAAATAAACAATTAGCAAAGTCTTATATT
1 CAAAGAAACAATTAGCAAAGTCTCATATT
14851456 C
1 C
14851457 TAACTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.27
Consensus pattern (29 bp):
CAAAGAAACAATTAGCAAAGTCTCATATT
Found at i:14860508 original size:29 final size:29
Alignment explanation
Indices: 14860464--14860528 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
14860454 AATCTGGCTA
**
14860464 AATTAGGCCTAAAGGT-TGTTTTTTTAATT
1 AATTAGGCCTAAAGGTCTG-TTTTAAAATT
**
14860493 AATTAGGCCTTTAGGTCTGTTTTAAAATT
1 AATTAGGCCTAAAGGTCTGTTTTAAAATT
14860522 AATTAGG
1 AATTAGG
14860529 GAAATAAGCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (29 bp):
AATTAGGCCTAAAGGTCTGTTTTAAAATT
Found at i:14871661 original size:26 final size:26
Alignment explanation
Indices: 14871624--14871675 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14871614 TATATGACAT
*
14871624 ATTATTTGGGAAGCCTTAGTGGTGAG
1 ATTATTTGGGAAACCTTAGTGGTGAG
*
14871650 ATTATCTT-GGAAACCTTTGTGGTGAG
1 ATTAT-TTGGGAAACCTTAGTGGTGAG
14871676 TCATCTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.23, C:0.10, G:0.31, T:0.37
Consensus pattern (26 bp):
ATTATTTGGGAAACCTTAGTGGTGAG
Found at i:14873818 original size:37 final size:38
Alignment explanation
Indices: 14873771--14873865 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 38
14873761 TTACCGCCCT
* * *
14873771 ACTGAGTACATGTTATGCATG-ACATTACCAATGTTGA
1 ACTGAATACATGTTAAGCATGTACACTACCAATGTTGA
* * * * *
14873808 ATTGAATACATGTTAAGCATGTCCACTGCTAGTGTTGA
1 ACTGAATACATGTTAAGCATGTACACTACCAATGTTGA
*
14873846 ACTGAATACATGTTAGGCAT
1 ACTGAATACATGTTAAGCAT
14873866 ATCTACTGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 18 0.38
38 29 0.62
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (38 bp):
ACTGAATACATGTTAAGCATGTACACTACCAATGTTGA
Found at i:14881511 original size:20 final size:18
Alignment explanation
Indices: 14881486--14881564 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 18
14881476 GATATGTAAC
14881486 AGAGGCACAGAAGTGCAGAT
1 AGAGGCACA-AAGTGCA-AT
14881506 AGAGGCACAAATGTGCAAT
1 AGAGGCACAAA-GTGCAAT
* *
14881525 CAGAAGCAGCAAAGTGCAAAC
1 -AGAGGCA-CAAAGTGC-AAT
*
14881546 AGAGGCACCGAAGTGCAAT
1 AGAGGCA-CAAAGTGCAAT
14881565 CTCATACAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 6 0.12
20 37 0.76
21 6 0.12
ACGTcount: A:0.42, C:0.19, G:0.29, T:0.10
Consensus pattern (18 bp):
AGAGGCACAAAGTGCAAT
Found at i:14882941 original size:20 final size:19
Alignment explanation
Indices: 14882916--14882954 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
14882906 CTTTTCTAAA
*
14882916 ACTACTTGATTTTAAGCTAT
1 ACTACTTGAATTTAA-CTAT
14882936 ACTACTTGAATTTAACTAT
1 ACTACTTGAATTTAACTAT
14882955 TCATTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (19 bp):
ACTACTTGAATTTAACTAT
Found at i:14886864 original size:17 final size:16
Alignment explanation
Indices: 14886842--14886884 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
14886832 GTTTCTTCCG
* *
14886842 TTTTCTCTTTT-TCTT
1 TTTTTTCTTTTGTTTT
14886857 TTTTTTCTTTTGTTTT
1 TTTTTTCTTTTGTTTT
*
14886873 TTTTTTTTTTTG
1 TTTTTTCTTTTG
14886885 GGGGGGGGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.00, C:0.09, G:0.05, T:0.86
Consensus pattern (16 bp):
TTTTTTCTTTTGTTTT
Done.