Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 42 of 290
Found at i:14080729 original size:54 final size:54
Alignment explanation
Indices: 14080584--14080748 Score: 278
Period size: 54 Copynumber: 3.0 Consensus size: 54
14080574 AATTTCTTAT
14080584 TAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
1 TAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
* *
14080638 TGACATGTT-TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA
1 T-A-GT-TTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
14080694 TAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
1 TAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
14080748 T
1 T
14080749 GACATGTTTT
Statistics
Matches: 103, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
53 2 0.02
54 49 0.48
55 2 0.02
56 48 0.47
57 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.47
Consensus pattern (54 bp):
TAGTTTATTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCA
Found at i:14082414 original size:71 final size:71
Alignment explanation
Indices: 14082298--14082440 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
14082288 CGTTAATCCT
*
14082298 TGGTAGCGGGTACTTATTATTGATTGTCAGCTTGTTCAACTATCGGTAATCTATGTACATTCTCA
1 TGGTAGCGGGTACATATTATTGATTGTCAGCTTGTTCAACTATCGGTAATCTATGTACATTCTCA
14082363 TCAATC
66 TCAATC
14082369 TGGTAGCGGGTACATATTATTGATTGTCAGCTTGTTCAACTATCGGTAATCTATGTACATTCTCA
1 TGGTAGCGGGTACATATTATTGATTGTCAGCTTGTTCAACTATCGGTAATCTATGTACATTCTCA
14082434 TCAATC
66 TCAATC
14082440 T
1 T
14082441 ATCTTTCTTC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (71 bp):
TGGTAGCGGGTACATATTATTGATTGTCAGCTTGTTCAACTATCGGTAATCTATGTACATTCTCA
TCAATC
Found at i:14094099 original size:17 final size:17
Alignment explanation
Indices: 14094067--14094098 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14094057 GTTTTCGAAA
14094067 AAATAGAAAATAAAAAG
1 AAATAGAAAATAAAAAG
14094084 AAATA-AAAATAAAAA
1 AAATAGAAAATAAAAA
14094099 AATGGAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
AAATAGAAAATAAAAAG
Found at i:14095442 original size:78 final size:78
Alignment explanation
Indices: 14095332--14095625 Score: 412
Period size: 78 Copynumber: 3.8 Consensus size: 78
14095322 CAAAGAAACA
** * * * *
14095332 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
** *
14095397 ATAGATCTAAGAT
66 GCAGATCCAAGAT
* *
14095410 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
14095475 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
14095488 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGA-CTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
14095551 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * *
14095565 GATTTGGCATTTTTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
14095626 GTGTTTACAT
Statistics
Matches: 191, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 70 0.37
78 121 0.63
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:14095589 original size:77 final size:78
Alignment explanation
Indices: 14095332--14095704 Score: 394
Period size: 78 Copynumber: 4.6 Consensus size: 78
14095322 CAAAGAAACA
** * * * * *
14095332 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
** *
14095397 ATAGATCTAAGAT
66 GCAGATCCAAGAT
* * *
14095410 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
14095475 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
14095488 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGA-CTTTATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCT-GACCTTCATTGA
14095551 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * **
14095565 GATTTGGCATTTTTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCA-----
14095630 TTACATCGAAGCAGATCCAAGAT
61 -T---T-GAAGCAGATCCAAGAT
* *
14095653 GACAGATTTGGCATCTCTGTATTAGACGGGGAGAAGATTGAAG--ATAACAGAT
1 ----GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT
14095705 TTGGTGTCTC
Statistics
Matches: 250, Mismatches: 28, Indels: 22
0.83 0.09 0.07
Matches are distributed among these distances:
77 70 0.28
78 120 0.48
84 1 0.00
87 1 0.00
88 16 0.06
90 7 0.03
92 35 0.14
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:14095615 original size:155 final size:156
Alignment explanation
Indices: 14095332--14095625 Score: 412
Period size: 155 Copynumber: 1.9 Consensus size: 156
14095322 CAAAGAAACA
* * *
14095332 GATTTGGCATCTCCATATTTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCAGTGAA
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCTAACCTTCAGTGAA
* *
14095397 ATAGATCTAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCT
66 ACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCT
14095462 GACCTTCATTGAAGCAGATCCAAGAT
131 GACCTTCATTGAAGCAGATCCAAGAT
** * * * *
14095488 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGA-CTTTATTGA
1 GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCT-AACCTTCAGTGA
* * * * * *
14095551 AGCAGATCCAAGATGATTTGGCATTTTTGTATTAGACGGGGAGCAGATCGAAGACATAGTAGATC
65 AACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATC
14095616 TGACCTTCAT
130 TGACCTTCAT
14095626 GTGTTTACAT
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
155 75 0.62
156 45 0.38
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.26
Consensus pattern (156 bp):
GATTTGGCATCTCCATATTAGACGGAGAGCAGATCAAAGACATAACAGATCTAACCTTCAGTGAA
ACAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACACAGCAGATCT
GACCTTCATTGAAGCAGATCCAAGAT
Found at i:14095742 original size:45 final size:45
Alignment explanation
Indices: 14095639--14095743 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
14095629 TTTACATCGA
* *
14095639 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* ** ** *
14095684 AGAAGATTGAAGATAACAGATTTGGTGTCTCTGTATTAGATGGGG
1 AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
14095729 AGCAGATCAAAGATA
1 AGCAGATCAAAGATA
14095744 GTAGATATCG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (45 bp):
AGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:14096129 original size:17 final size:17
Alignment explanation
Indices: 14096109--14096172 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 17
14096099 CAATGATATG
*
14096109 CAATCTTAGATACGATA
1 CAATCTTAGATATGATA
*
14096126 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
14096144 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
14096161 TGCAATCTTAGA
1 --CAATCTTAGA
14096173 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 15 0.37
18 16 0.39
19 10 0.24
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:14096147 original size:35 final size:37
Alignment explanation
Indices: 14096101--14096179 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
14096091 ATAATCTTCA
14096101 ATGATATGCAATCTTAGATACGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATACGATAGCAATCTTAGAT
*
14096137 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATACGATA-GCAATCTTAGAT
14096173 A-GATATG
1 ATGATATG
14096180 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATACGATAGCAATCTTAGAT
Found at i:14096179 original size:17 final size:19
Alignment explanation
Indices: 14096101--14096172 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
14096091 ATAATCTTCA
14096101 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
14096120 ACGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14096137 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
14096155 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
14096173 AGATATGATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 17 0.35
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:14096198 original size:22 final size:22
Alignment explanation
Indices: 14096133--14096195 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
14096123 ATACAATCTT
14096133 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
14096151 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
14096173 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
14096196 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:14096485 original size:18 final size:18
Alignment explanation
Indices: 14096462--14096497 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14096452 TGTTTCCCTG
14096462 ATTTTTTT-ATATATTTTA
1 ATTTTTTTAATA-ATTTTA
14096480 ATTTTTTTAATAATTTTA
1 ATTTTTTTAATAATTTTA
14096498 GTATCATATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTTTAATAATTTTA
Found at i:14100451 original size:24 final size:24
Alignment explanation
Indices: 14100436--14100487 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14100426 AATCAAAGTC
14100436 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
14100460 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
14100484 AAAT
1 AAAT
14100488 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:14103312 original size:10 final size:10
Alignment explanation
Indices: 14103299--14103328 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
14103289 TAGTTTTAGG
14103299 TTTAGTTTTC
1 TTTAGTTTTC
14103309 TTTAGGTTTTC
1 TTTA-GTTTTC
14103320 TTTAGTTTT
1 TTTAGTTTT
14103329 TCTCTACACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:14103919 original size:20 final size:20
Alignment explanation
Indices: 14103851--14103913 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
14103841 AGGGGCACAC
*
14103851 GCCCGTGTGGCCTGGAACAT
1 GCCCATGTGGCCTGGAACAT
*
14103871 GCCCATGTGGCCTGGGACAT
1 GCCCATGTGGCCTGGAACAT
*
14103891 GCCCATGTGGCCTGAAACAT
1 GCCCATGTGGCCTGGAACAT
14103911 GCC
1 GCC
14103914 TGTGTGACAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.17, C:0.32, G:0.32, T:0.19
Consensus pattern (20 bp):
GCCCATGTGGCCTGGAACAT
Found at i:14104092 original size:53 final size:52
Alignment explanation
Indices: 14103950--14104101 Score: 164
Period size: 52 Copynumber: 2.9 Consensus size: 52
14103940 AGACGGAAAA
* * *
14103950 GATGTGATATATGCTTCCGTATAAGACCATAGCCGGGCTATGGCATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
* * * * **
14104002 AATATGAT-TCGT-ATTCCCGTATAATACCATAGCTGGGCTATGGCATTGGTGT
1 GATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
**
14104054 GATGTGATAATGTGATTCCGTATAAGACCATATATGGGCTATGGCATC
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATC
14104102 AGTATGAAGT
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
51 3 0.04
52 44 0.55
53 29 0.36
54 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAC
Found at i:14112126 original size:17 final size:17
Alignment explanation
Indices: 14112106--14112138 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14112096 TTTAACTATC
14112106 AAATTAAGTTAATTCAA
1 AAATTAAGTTAATTCAA
*
14112123 AAATTAATTTAATTCA
1 AAATTAAGTTAATTCA
14112139 TGTGGCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
AAATTAAGTTAATTCAA
Found at i:14121355 original size:44 final size:44
Alignment explanation
Indices: 14121282--14121418 Score: 166
Period size: 49 Copynumber: 3.0 Consensus size: 44
14121272 TCGAGAATAA
*
14121282 GTAATTGAGTTTGAAATTAGGTAGGAGACTCAAAACTTACTTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
** * *
14121326 GTAATTGAGTTTGAAATTAAATACAAGACTCAGAACTTACAAAACTTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTT-----ACTTTT
* *
14121375 GTAATTGAATTTGAAATTAGGTACGAGACTCAAAACTTAATTTT
1 GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
14121419 CACGAGGTGA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
44 38 0.49
49 39 0.51
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (44 bp):
GTAATTGAGTTTGAAATTAGGTACGAGACTCAAAACTTACTTTT
Found at i:14122126 original size:3 final size:3
Alignment explanation
Indices: 14122118--14122158 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
14122108 ATCACAGGAA
* * *
14122118 AAT AAT AAT AAG AAG AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14122159 AGGAGGTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:14124355 original size:27 final size:27
Alignment explanation
Indices: 14124307--14124411 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
14124297 GCGAGACTGC
* *
14124307 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
14124334 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
14124360 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
14124387 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
14124412 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.84
28 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:14129098 original size:48 final size:48
Alignment explanation
Indices: 14129027--14129119 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
14129017 ATAGAAGGCG
* * *
14129027 GTAACAGACATTTCCCATTCGGAAGTACTTTAGTATGAAGATCACGCC
1 GTAACAGACATTTCCCATTCGGAAGCACTTCAGTATAAAGATCACGCC
*
14129075 GTAACAGACATTTCCCATTCGGAAGCACTTCAGTATAAAGTTCAC
1 GTAACAGACATTTCCCATTCGGAAGCACTTCAGTATAAAGATCAC
14129120 ACCGAATTCT
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:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (48 bp):
GTAACAGACATTTCCCATTCGGAAGCACTTCAGTATAAAGATCACGCC
Found at i:14131094 original size:9 final size:9
Alignment explanation
Indices: 14131076--14131426 Score: 94
Period size: 9 Copynumber: 39.7 Consensus size: 9
14131066 TAAGTATAAT
14131076 TAAGTTATG
1 TAAGTTATG
*
14131085 TAAGTCATG
1 TAAGTTATG
14131094 T-A-TTATG
1 TAAGTTATG
14131101 TAAGTTATG
1 TAAGTTATG
14131110 T-A-TTATG
1 TAAGTTATG
14131117 TAAGTTATG
1 TAAGTTATG
*
14131126 TAAATTATG
1 TAAGTTATG
* *
14131135 TAAATCATG
1 TAAGTTATG
* *
14131144 -AATTTTGATCTT
1 TAA-GTT-A--TG
*
14131156 TAAATTATG
1 TAAGTTATG
14131165 TAAGTTATG
1 TAAGTTATG
14131174 T-A-TTATG
1 TAAGTTATG
*
14131181 CAAGTTATG
1 TAAGTTATG
14131190 T-A-TTATG
1 TAAGTTATG
14131197 TAAGTTATG
1 TAAGTTATG
*
14131206 -AAATT-TG
1 TAAGTTATG
* **
14131213 -AACTTTAAA
1 TAA-GTTATG
*
14131222 TTA-TTATG
1 TAAGTTATG
14131230 TAAGTTATG
1 TAAGTTATG
*
14131239 TAAATTATG
1 TAAGTTATG
*
14131248 TAACTTATG
1 TAAGTTATG
* * * *
14131257 AAATTTGGTCTT
1 TAA---GTTATG
*
14131269 TAAATTATG
1 TAAGTTATG
14131278 TAAGTTATG
1 TAAGTTATG
* *
14131287 T-A-TCATA
1 TAAGTTATG
14131294 TAAGTTATG
1 TAAGTTATG
* * *
14131303 AAATTTGATCTT
1 TAAGTT-A--TG
*
14131315 TAAATTATG
1 TAAGTTATG
*
14131324 TAAGTCATG
1 TAAGTTATG
*
14131333 T--CTTATG
1 TAAGTTATG
*
14131340 TAAGTTAAG
1 TAAGTTATG
*
14131349 TAAATTATG
1 TAAGTTATG
*
14131358 TATGTTATG
1 TAAGTTATG
* * *
14131367 AAATTTGAACTT
1 TAAGTT--A-TG
*
14131379 TAAATTATG
1 TAAGTTATG
14131388 TAAGTTATG
1 TAAGTTATG
14131397 T-A--TATG
1 TAAGTTATG
*
14131403 TAAATTATG
1 TAAGTTATG
*
14131412 TAAATTATG
1 TAAGTTATG
*
14131421 TGAGTT
1 TAAGTT
14131427 GCTGGTGAAC
Statistics
Matches: 246, Mismatches: 63, Indels: 66
0.66 0.17 0.18
Matches are distributed among these distances:
6 5 0.02
7 36 0.15
8 24 0.10
9 155 0.63
10 4 0.02
11 3 0.01
12 17 0.07
13 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14131101 original size:16 final size:16
Alignment explanation
Indices: 14131080--14131413 Score: 133
Period size: 16 Copynumber: 21.0 Consensus size: 16
14131070 TATAATTAAG
*
14131080 TTATGTAAGTCATGTA
1 TTATGTAAGTTATGTA
14131096 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
14131112 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* * *
14131130 TTATGTAAATCATGAA
1 TTATGTAAGTTATGTA
* ** **
14131146 TTTTG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
14131160 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
14131176 TTATGCAAGTTATGTA
1 TTATGTAAGTTATGTA
*
14131192 TTATGTAAGTTATGAAA
1 TTATGTAAGTTATG-TA
*
14131209 TT-TG-AACTTTAAAT-TA
1 TTATGTAA-GTT--ATGTA
14131225 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
* *
14131243 TTATGTAACTTATGAAA
1 TTATGTAAGTTATG-TA
* **
14131260 TT-TG---GTCTTTAAA
1 TTATGTAAGT-TATGTA
14131273 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
14131289 TCATATAAGTTATGAAA
1 TTATGTAAGTTATG-TA
** **
14131306 TT-TG-ATCTT-TAAA
1 TTATGTAAGTTATGTA
* *
14131319 TTATGTAAGTCATGTC
1 TTATGTAAGTTATGTA
*
14131335 TTATGTAAGTTAAGTAAA
1 TTATGTAAGTTATGT--A
* *
14131353 TTATGTATGTTATGAAA
1 TTATGTAAGTTATG-TA
* **
14131370 TT-TG-AACTT-TAAA
1 TTATGTAAGTTATGTA
14131383 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
14131399 -TATGTAAATTATGTA
1 TTATGTAAGTTATGTA
14131414 AATTATGTGA
Statistics
Matches: 234, Mismatches: 55, Indels: 59
0.67 0.16 0.17
Matches are distributed among these distances:
13 13 0.06
14 17 0.07
15 35 0.15
16 109 0.47
17 17 0.07
18 43 0.18
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:14131225 original size:46 final size:46
Alignment explanation
Indices: 14131175--14131346 Score: 227
Period size: 46 Copynumber: 3.6 Consensus size: 46
14131165 TAAGTTATGT
* *
14131175 ATTATGCAAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTAAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTT-AA
* *
14131222 TTATTATGTAAGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTTAA
1 --ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
* *
14131272 ATTATGTAAGTTATGTATCATATAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* *
14131318 ATTATGTAAGTCATGTCTTATGTAAGTTA
1 ATTATGTAAGTTATGTATTATGTAAGTTA
14131347 AGTAAATTAT
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
46 51 0.47
48 16 0.15
49 15 0.14
50 2 0.02
51 25 0.23
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:14131239 original size:113 final size:109
Alignment explanation
Indices: 14131095--14131413 Score: 367
Period size: 113 Copynumber: 2.9 Consensus size: 109
14131085 TAAGTCATGT
* * *
14131095 ATTATGTAAGTTATGTATTATGTAAGTTATGTAAATTATGTAAATCATGAATTTTGATCTTTAAA
1 ATTATGTAAGTAATGTATTATGTAAGTTATGTAAATTATGTAAATTATGAAATTTGATCTTTAAA
* *
14131160 TTATGTAAGTTATGTATTATGCAAGTTATGTATTATGTAAGTTATGAA
66 TTATGTAAGTTATGTATTATGTAAGTTATGTATT-TG-AACTT-T-AA
* * *
14131208 ATT-TG-AACTTTAAAT-TATTATGTAAGTTATGTAAATTATGTAACTTATGAAATTTGGTCTTT
1 ATTATGTAA--GT-AATGTATTATGTAAGTTATGTAAATTATGTAAATTATGAAATTTGATCTTT
* * * *
14131270 AAATTATGTAAGTTATGTATCATATAAGTTATGAAATTTGATCTTTAA
63 AAATTATGTAAGTTATGTATTATGTAAGTTATG-TATTTGAACTTTAA
* * * ** *
14131318 ATTATGTAAGTCATGTCTTATGTAAGTTAAGTAAATTATGTATGTTATGAAATTTGAACTTTAAA
1 ATTATGTAAGTAATGTATTATGTAAGTTATGTAAATTATGTAAATTATGAAATTTGATCTTTAAA
*
14131383 TTATGTAAGTTATGTA-TATGTAAATTATGTA
66 TTATGTAAGTTATGTATTATGTAAGTTATGTA
14131414 AATTATGTGA
Statistics
Matches: 175, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
108 1 0.01
109 12 0.07
110 66 0.38
111 5 0.03
112 7 0.04
113 79 0.45
114 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (109 bp):
ATTATGTAAGTAATGTATTATGTAAGTTATGTAAATTATGTAAATTATGAAATTTGATCTTTAAA
TTATGTAAGTTATGTATTATGTAAGTTATGTATTTGAACTTTAA
Found at i:14131328 original size:30 final size:30
Alignment explanation
Indices: 14131294--14131396 Score: 100
Period size: 30 Copynumber: 3.3 Consensus size: 30
14131284 ATGTATCATA
*
14131294 TAAGTTATGAAATTTGATCTTTAAATTATG
1 TAAGTTATGAAATTTGAACTTTAAATTATG
* ** *
14131324 TAAGTCATG-TCTTATGTAAGTTAAGTAAATTATG
1 TAAGTTATGAAATT-TG-AACTT---TAAATTATG
*
14131358 TATGTTATGAAATTTGAACTTTAAATTATG
1 TAAGTTATGAAATTTGAACTTTAAATTATG
14131388 TAAGTTATG
1 TAAGTTATG
14131397 TATATGTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
29 2 0.04
30 27 0.48
31 3 0.05
33 4 0.07
34 18 0.32
35 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (30 bp):
TAAGTTATGAAATTTGAACTTTAAATTATG
Found at i:14131365 original size:64 final size:63
Alignment explanation
Indices: 14131297--14131421 Score: 196
Period size: 64 Copynumber: 2.0 Consensus size: 63
14131287 TATCATATAA
* * *
14131297 GTTATGAAATTTGATCTTTAAATTATGTAAGTCATGTCTTATGTAAGTTAAGTAAATTATGTAT
1 GTTATGAAATTTGAACTTTAAATTATGTAAGTCATGT-ATATGTAAATTAAGTAAATTATGTAT
* *
14131361 GTTATGAAATTTGAACTTTAAATTATGTAAGTTATGTATATGTAAATTATGTAAATTATGT
1 GTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTATATGTAAATTAAGTAAATTATGT
14131422 GAGTTGCTGG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 21 0.38
64 35 0.62
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (63 bp):
GTTATGAAATTTGAACTTTAAATTATGTAAGTCATGTATATGTAAATTAAGTAAATTATGTAT
Found at i:14131371 original size:97 final size:100
Alignment explanation
Indices: 14131156--14131371 Score: 243
Period size: 97 Copynumber: 2.2 Consensus size: 100
14131146 TTTTGATCTT
* * * *
14131156 TAAATTATGTAAGTTATG-TATTATGCAAGTTATGTATTATGTAAGTTATGAAATTTGAACTTTA
1 TAAATTATGTATGTTATGAAATTATGCAAGTTATGTATCATATAAGTTATGAAATTTGAACTTTA
* *
14131220 AATTATTATGTAAGTTATGTAAATTATGTAACTTATG
66 AA-TATTATGTAAGTCATGT-AATTATGTAACTTAAG
* * * *
14131257 -AAATT-TG-GTCTT-T-AAATTATGTAAGTTATGTATCATATAAGTTATGAAATTTGATCTTT-
1 TAAATTATGTATGTTATGAAATTATGCAAGTTATGTATCATATAAGTTATGAAATTTGAACTTTA
* *
14131316 AA-ATTATGTAAGTCATGT-CTTATGTAAGTTAAG
66 AATATTATGTAAGTCATGTAATTATGTAACTTAAG
14131349 TAAATTATGTATGTTATGAAATT
1 TAAATTATGTATGTTATGAAATT
14131372 TGAACTTTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
92 12 0.13
93 5 0.05
94 17 0.18
95 3 0.03
96 3 0.03
97 46 0.48
98 2 0.02
99 2 0.02
100 5 0.05
ACGTcount: A:0.36, C:0.04, G:0.15, T:0.45
Consensus pattern (100 bp):
TAAATTATGTATGTTATGAAATTATGCAAGTTATGTATCATATAAGTTATGAAATTTGAACTTTA
AATATTATGTAAGTCATGTAATTATGTAACTTAAG
Found at i:14131404 original size:15 final size:15
Alignment explanation
Indices: 14131384--14131413 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14131374 AACTTTAAAT
*
14131384 TATGTAAGTTATGTA
1 TATGTAAATTATGTA
14131399 TATGTAAATTATGTA
1 TATGTAAATTATGTA
14131414 AATTATGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
TATGTAAATTATGTA
Found at i:14134340 original size:22 final size:21
Alignment explanation
Indices: 14134305--14134380 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
14134295 AAAAGATATC
* *
14134305 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
14134326 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14134349 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
14134368 TGC-AATCATATCT
1 TACAAATCATATCT
14134381 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14134397 original size:35 final size:37
Alignment explanation
Indices: 14134334--14134412 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
14134324 ATTACAAAAT
14134334 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
14134370 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
14134405 CATATCAT
1 CATATCAT
14134413 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:14134410 original size:14 final size:15
Alignment explanation
Indices: 14134355--14134410 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
14134345 AGATTGCATA
14134355 TCATATCTAAGATTG
1 TCATATCTAAGATTG
14134370 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
14134388 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
14134405 -CATATC
1 TCATATC
14134411 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:14134420 original size:17 final size:19
Alignment explanation
Indices: 14134341--14134412 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
14134331 AATCATATCT
14134341 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14134360 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
14134378 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
14134395 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
14134413 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14135095 original size:14 final size:13
Alignment explanation
Indices: 14135076--14135105 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
14135066 CAATATAATT
14135076 TTACTTCATATATA
1 TTACTTCATATA-A
14135090 TTACTTCATATAA
1 TTACTTCATATAA
14135103 TTA
1 TTA
14135106 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:14138063 original size:21 final size:21
Alignment explanation
Indices: 14138039--14138091 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
14138029 CTTATAACCT
*
14138039 TAAACCCTAAAGTATATCCCC
1 TAAACCCTAAACTATATCCCC
14138060 TAAACCCTAAACTATATCCCC
1 TAAACCCTAAACTATATCCCC
*
14138081 T-AACCATAAAC
1 TAAACCCTAAAC
14138092 CATAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.42, C:0.34, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTATATCCCC
Found at i:14138065 original size:28 final size:29
Alignment explanation
Indices: 14138004--14138071 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
14137994 TCAAAACTCT
* *
14138004 TAACCTTAAACCATTAAACTATATCCTTA
1 TAACCTTAAACCACTAAACTATATCCCTA
*
14138033 TAACCTTAAACC-CTAAAGTATATCCCCTA
1 TAACCTTAAACCACTAAACTATAT-CCCTA
*
14138062 -AACCCTAAAC
1 TAACCTTAAAC
14138072 TATATCCCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 18 0.53
29 16 0.47
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.28
Consensus pattern (29 bp):
TAACCTTAAACCACTAAACTATATCCCTA
Found at i:14138256 original size:100 final size:100
Alignment explanation
Indices: 14138144--14138489 Score: 304
Period size: 100 Copynumber: 3.4 Consensus size: 100
14138134 ATTAATCATA
* *
14138144 ACCCTAAACTATATCCCTTGATCCTTAAACCATAAAATAATAACACTAATTAATCAATACTCTAA
1 ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
14138209 ACCTTAAACCATTAAACTATATCACCTACTAAAGT
66 ACCTTAAACCATTAAACTATATCACCTACTAAAGT
* * * *
14138244 ACCCTAAACTATATCCCTTAAACCCTGAACTATATCTC-CTAACCATAA-ACCAC-AA--AA-CA
1 ACCCTAAACTATATCCCTT-AATCCT----TA-AAC-CAC-AA-AATAATAACACTAATTAATCA
* * * * ** * *
14138303 ATAACCCCTAAACCTTAACCCCA--AAA-TGTATGAATTAAT-CA-T
57 AT-A-CTCTAAACCTTAA-ACCATTAAACTATATCACCTACTAAAGT
* *
14138345 AACCCTAAACTATAT-CTTCTGATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCT
1 -ACCCTAAACTATATCCCT-TAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCT
*
14138409 AAACCTTAAACCATTAAACTATATCCCCTACTAAAGT
64 AAACCTTAAACCATTAAACTATATCACCTACTAAAGT
*
14138446 ACCCTAAACTATATCCCCTAAAT-CTTAAACCACAAAATAATAAC
1 ACCCTAAACTATAT-CCCTTAATCCTTAAACCACAAAATAATAAC
14138490 CCCTAAGCAT
Statistics
Matches: 187, Mismatches: 32, Indels: 54
0.68 0.12 0.20
Matches are distributed among these distances:
94 4 0.02
95 7 0.04
96 8 0.04
97 14 0.07
98 6 0.03
99 11 0.06
100 55 0.29
101 14 0.07
102 18 0.10
103 12 0.06
104 6 0.03
105 14 0.07
106 7 0.04
107 7 0.04
108 4 0.02
ACGTcount: A:0.44, C:0.27, G:0.02, T:0.27
Consensus pattern (100 bp):
ACCCTAAACTATATCCCTTAATCCTTAAACCACAAAATAATAACACTAATTAATCAATACTCTAA
ACCTTAAACCATTAAACTATATCACCTACTAAAGT
Found at i:14138330 original size:202 final size:201
Alignment explanation
Indices: 14137981--14138467 Score: 780
Period size: 202 Copynumber: 2.4 Consensus size: 201
14137971 TTAATATTAT
* * * **
14137981 TAACACTAATTAATCAAAACTCTTAACCTTAAACCATTAAACTATATCCTTA-TAACCTTAAACC
1 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCTACTAA-AGT--ACC
* *
14138045 CTAAAGTATATCCCCTAAACCCTAAACTATATCCCCTAACCATAAACCATAAAACAATAACCCCT
63 CTAAACTATATCCCCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCT
*
14138110 AAGCCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCC-CTTGATCCTTAAAC
128 AAACCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCTC-TGATCCTTAAAC
*
14138174 CATAAAATAA
192 CACAAAATAA
14138184 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCACCTACTAAAGTACCCT
1 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATC-CCTACTAAAGTACCCT
* * *
14138249 AAACTATATCCCTTAAACCCTGAACTATATCTCCTAACCATAAACCACAAAACAATAACCCCTAA
65 AAACTATATCCCCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAA
* *
14138314 ACCTTAACCCCAAAATGTATGAATTAATCATAACCCTAAACTATATCTTCTGATCCTTAAACCAC
130 ACCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCTCTGATCCTTAAACCAC
14138379 AAAATAA
195 AAAATAA
14138386 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCCTACTAAAGTACCCT
1 TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATAT-CCCTACTAAAGTACCCT
14138451 AAACTATATCCCCTAAA
65 AAACTATATCCCCTAAA
14138468 TCTTAAACCA
Statistics
Matches: 265, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
202 210 0.79
203 48 0.18
204 4 0.02
205 3 0.01
ACGTcount: A:0.44, C:0.28, G:0.02, T:0.27
Consensus pattern (201 bp):
TAACACTAATTAATCAATACTCTAAACCTTAAACCATTAAACTATATCCCTACTAAAGTACCCTA
AACTATATCCCCTAAACCCTAAACTATATCCCCTAACCATAAACCACAAAACAATAACCCCTAAA
CCTTAACCACAAAATGTATGAATTAATCATAACCCTAAACTATATCCTCTGATCCTTAAACCACA
AAATAA
Found at i:14138503 original size:14 final size:15
Alignment explanation
Indices: 14138486--14138563 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 15
14138476 CACAAAATAA
*
14138486 TAACCCCT-AAGCAT
1 TAACCCCTAAACCAT
14138500 TAACCCCTAAACCAT
1 TAACCCCTAAACCAT
* *
14138515 TAACCCATAACCCA-
1 TAACCCCTAAACCAT
* **
14138529 TAACCCATAAACCCC
1 TAACCCCTAAACCAT
*
14138544 TAACCCCT-AACCAC
1 TAACCCCTAAACCAT
14138558 TAACCC
1 TAACCC
14138564 ATAACCTTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 31 0.56
15 24 0.44
ACGTcount: A:0.38, C:0.44, G:0.01, T:0.17
Consensus pattern (15 bp):
TAACCCCTAAACCAT
Found at i:14138525 original size:7 final size:7
Alignment explanation
Indices: 14138500--14138569 Score: 70
Period size: 7 Copynumber: 9.7 Consensus size: 7
14138490 CCCTAAGCAT
*
14138500 TAACCCC
1 TAACCCA
*
14138507 TAAACCA
1 TAACCCA
14138514 TTAACCCA
1 -TAACCCA
14138522 TAACCCA
1 TAACCCA
14138529 TAACCCA
1 TAACCCA
*
14138536 TAAACCCC
1 T-AACCCA
*
14138544 TAACCCC
1 TAACCCA
14138551 TAA-CCA
1 TAACCCA
14138557 CTAACCCA
1 -TAACCCA
14138565 TAACC
1 TAACC
14138570 TTTAAACCCC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
6 2 0.04
7 37 0.69
8 15 0.28
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (7 bp):
TAACCCA
Found at i:14138577 original size:29 final size:29
Alignment explanation
Indices: 14138486--14138600 Score: 94
Period size: 29 Copynumber: 4.0 Consensus size: 29
14138476 CACAAAATAA
* * *
14138486 TAACCCCTAAGCATTAACCCCTAAACCAT
1 TAACCCCTAACCACTAACCCATAAACCAT
* **
14138515 TAACCCATAACC-CATAACCCATAAACCCC
1 TAACCCCTAACCAC-TAACCCATAAACCAT
*
14138544 TAACCCCTAACCACTAACCCAT-AACCTT
1 TAACCCCTAACCACTAACCCATAAACCAT
* *
14138572 TAAACCCC-AACC-CTTAAACCATAAGCCAT
1 T-AACCCCTAACCAC-TAACCCATAAACCAT
14138601 AAACATAATC
Statistics
Matches: 69, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.01
28 16 0.23
29 51 0.74
30 1 0.01
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.18
Consensus pattern (29 bp):
TAACCCCTAACCACTAACCCATAAACCAT
Found at i:14139598 original size:12 final size:12
Alignment explanation
Indices: 14139581--14139609 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
14139571 GTTTTCTATT
14139581 AAAACGCCGCTA
1 AAAACGCCGCTA
14139593 AAAACGCCGCTA
1 AAAACGCCGCTA
14139605 AAAAC
1 AAAAC
14139610 CTATTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.31, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:14141148 original size:5 final size:5
Alignment explanation
Indices: 14141134--14141163 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
14141124 TCTGTGTGCT
14141134 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
14141164 CACAAATTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:14145589 original size:5 final size:5
Alignment explanation
Indices: 14145579--14145606 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14145569 CTGTGTGCTT
14145579 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
14145607 TCACAGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:14148665 original size:61 final size:58
Alignment explanation
Indices: 14148598--14148723 Score: 189
Period size: 61 Copynumber: 2.1 Consensus size: 58
14148588 ATAATATTGT
* * *
14148598 TTTAATAGATTTAATATTTAATTTAATTTAATATTTATCTTGCAGATAAATATTCTATTAA
1 TTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTT--A-ATAAATATTATATTAA
*
14148659 TTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAGTATTATATTAA
1 TTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAA
14148717 TTTAATA
1 TTTAATA
14148724 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
58 21 0.34
59 1 0.02
61 39 0.64
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (58 bp):
TTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAA
Found at i:14148739 original size:58 final size:59
Alignment explanation
Indices: 14148598--14148743 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 59
14148588 ATAATATTGT
* * * *
14148598 TTTAATAGATTTAATATTTAATTTAATTTAATATTTATCTTGCAGATAAATATTCTATTAA
1 TTTAATA-ATTAAATATTAAATTTAATCTAATATTTATCTT-CAGATAAATATTATATTAA
* *
14148659 TTTAATAGATTTAATATTAAATTTAATCTAATATTTATCTT-A-ATAAGTATTATATTAA
1 TTTAATA-ATTAAATATTAAATTTAATCTAATATTTATCTTCAGATAAATATTATATTAA
14148717 TTTAAT-ATTAAAGTGATTAAATTTAAT
1 TTTAATAATTAAA-T-ATTAAATTTAAT
14148744 TATAGTTGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
56 5 0.06
57 1 0.01
58 32 0.41
59 1 0.01
61 39 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (59 bp):
TTTAATAATTAAATATTAAATTTAATCTAATATTTATCTTCAGATAAATATTATATTAA
Found at i:14151850 original size:6 final size:6
Alignment explanation
Indices: 14151839--14151930 Score: 166
Period size: 6 Copynumber: 15.3 Consensus size: 6
14151829 ATATAAAGAC
14151839 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
14151887 AAAATA AAAATA AAAATA AAAATA AAGATA AAAATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
14151931 TGGACTCAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:14153126 original size:31 final size:31
Alignment explanation
Indices: 14153077--14153162 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
14153067 TCAATCTCAG
14153077 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* * *
14153107 CATATCACTGGGACAAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
14153138 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
14153163 TGTAACAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:14153395 original size:25 final size:24
Alignment explanation
Indices: 14153367--14153425 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
14153357 CTGGAGGCCT
14153367 AGCCTCTTTTAAT-AACTAGGGCAAA
1 AGCC-CTTTTAATAAACTAGGGC-AA
* *
14153392 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTAGGGCAA
14153417 AGCCCTTTT
1 AGCCCTTTT
14153426 TCTGTAACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 17 0.57
26 8 0.27
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTAGGGCAA
Found at i:14153426 original size:25 final size:24
Alignment explanation
Indices: 14153379--14153450 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
14153369 CCTCTTTTAA
*
14153379 TAACTAGGGCAAAAGCCCTTTT-TG
1 TAACTGGGGC-AAAGCCCTTTTCTG
14153403 ATAAACTGGGGCAAAGCCCTTTTTCTG
1 -T-AACTGGGGCAAAGCCC-TTTTCTG
*
14153430 TAACTGGGGCATAGCCCTTTT
1 TAACTGGGGCAAAGCCCTTTT
14153451 GCACTTCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.10
25 23 0.55
26 13 0.31
27 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
TAACTGGGGCAAAGCCCTTTTCTG
Found at i:14153520 original size:20 final size:20
Alignment explanation
Indices: 14153497--14153543 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
14153487 TTATGAATAC
14153497 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14153517 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14153537 ATCATGT
1 ATCATGT
14153544 ATATCAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14159234 original size:31 final size:31
Alignment explanation
Indices: 14159191--14159987 Score: 1578
Period size: 31 Copynumber: 25.7 Consensus size: 31
14159181 TCAATCTCAG
*
14159191 CATAT-ACTGGGCCGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159221 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159252 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159283 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159314 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159345 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159376 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159407 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159438 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159469 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159500 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159531 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159562 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159593 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159624 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159655 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159686 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159717 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159748 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159779 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159810 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159841 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159872 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159903 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159934 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
14159965 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
14159988 ACTGTAACAA
Statistics
Matches: 765, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
30 5 0.01
31 760 0.99
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:14160222 original size:25 final size:24
Alignment explanation
Indices: 14160194--14160252 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
14160184 CTGGAGGCCT
14160194 AGCCTCTTTTAAT-AACTGGGCCAAA
1 AGCC-CTTTTAATAAACTGGGCC-AA
* *
14160219 AGCCCTTTTTGATAAACTGGGGCAA
1 AGCCC-TTTTAATAAACTGGGCCAA
14160244 AGCCCTTTT
1 AGCCCTTTT
14160253 CTGTAACTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 17 0.57
26 8 0.27
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGCCAA
Found at i:14160260 original size:24 final size:24
Alignment explanation
Indices: 14160200--14160276 Score: 93
Period size: 24 Copynumber: 3.1 Consensus size: 24
14160190 GCCTAGCCTC
* *
14160200 TTTTAATAACTGGGCCAAAAGCCCT
1 TTTTGATAACTGGGGC-AAAGCCCT
14160225 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTGAT-AACTGGGGCAAAGCCCT
*
14160250 TTTCTG-TAACTGGGGCATAGCCCT
1 TTT-TGATAACTGGGGCAAAGCCCT
14160274 TTT
1 TTT
14160277 GCACTTCCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
24 19 0.40
25 18 0.38
26 10 0.21
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (24 bp):
TTTTGATAACTGGGGCAAAGCCCT
Found at i:14160346 original size:20 final size:20
Alignment explanation
Indices: 14160323--14160387 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
14160313 TTATGAATAC
*
14160323 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
14160343 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
14160363 ATCATTTTCATATCATACAT
1 ATCATGTGCATATCATACAT
14160383 ATCAT
1 ATCAT
14160388 AGATATCAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14160366 original size:9 final size:9
Alignment explanation
Indices: 14160331--14160395 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
14160321 ACATCATGTG
*
14160331 CATATCGTA
1 CATATCATA
*
14160340 CATATCATGTG
1 CATATCA--TA
14160351 CATATCATA
1 CATATCATA
*
14160360 CATATCATTTT
1 CATATCA--TA
14160371 CATATCATA
1 CATATCATA
14160380 CATATCATA
1 CATATCATA
*
14160389 GATATCA
1 CATATCA
14160396 GAATCCCATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 30 0.65
11 16 0.35
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (9 bp):
CATATCATA
Found at i:14163831 original size:16 final size:17
Alignment explanation
Indices: 14163805--14163838 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14163795 CTAAATCCCC
*
14163805 TGAATACCTAAGAGGAA
1 TGAATACCTAAGACGAA
14163822 TGAA-ACCTAAGACGAA
1 TGAATACCTAAGACGAA
14163838 T
1 T
14163839 CTTGTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (17 bp):
TGAATACCTAAGACGAA
Found at i:14172705 original size:16 final size:17
Alignment explanation
Indices: 14172679--14172712 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14172669 CTAAATCCCC
*
14172679 TGAATACCTAAGAGGAA
1 TGAATACCTAAGACGAA
14172696 TGAA-ACCTAAGACGAA
1 TGAATACCTAAGACGAA
14172712 T
1 T
14172713 CTTGTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (17 bp):
TGAATACCTAAGACGAA
Found at i:14195163 original size:12 final size:11
Alignment explanation
Indices: 14195139--14195205 Score: 62
Period size: 12 Copynumber: 5.5 Consensus size: 11
14195129 AAATATGTCT
14195139 AAAAAAATAAA
1 AAAAAAATAAA
14195150 AAAAACAATTAAA
1 AAAAA-AA-TAAA
14195163 AACAAAAATAAA
1 AA-AAAAATAAA
*
14195175 AATAAAGATAAA
1 AA-AAAAATAAA
*
14195187 AAGAAAAAGAAA
1 AA-AAAAATAAA
14195199 AAGAAAA
1 AA-AAAA
14195206 GAAATAAACT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
11 5 0.10
12 32 0.67
13 8 0.17
14 3 0.06
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:14195257 original size:12 final size:11
Alignment explanation
Indices: 14195241--14195279 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
14195231 AATTAATGGT
14195241 AATAGTAAAAA
1 AATAGTAAAAA
14195252 TAATAGTAAAAA
1 -AATAGTAAAAA
14195264 AA-AGCTAAAAA
1 AATAG-TAAAAA
14195275 AATAG
1 AATAG
14195280 AAATATAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 2 0.08
11 10 0.40
12 13 0.52
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (11 bp):
AATAGTAAAAA
Found at i:14195383 original size:29 final size:29
Alignment explanation
Indices: 14195351--14195426 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
14195341 AAAACAAAAT
14195351 AAATAAATCATAAAATAGATAAAAAATAA-
1 AAATAAATCATAAAATA-ATAAAAAATAAG
* * *
14195380 AAATAAATAATATAATAA-ATAATAATACAG
1 AAATAAATCATAAAATAATA-AAAAATA-AG
14195410 AAATAAATCA-AAAATAA
1 AAATAAATCATAAAATAA
14195427 AATAAAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 1 0.03
28 7 0.18
29 22 0.56
30 9 0.23
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (29 bp):
AAATAAATCATAAAATAATAAAAAATAAG
Found at i:14195402 original size:7 final size:7
Alignment explanation
Indices: 14195335--14195404 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
14195325 TAAGAATAAG
14195335 AATAATA
1 AATAATA
14195342 AA-ACA-A
1 AATA-ATA
14195348 AATAAATA
1 AAT-AATA
*
14195356 AATCATAA
1 AATAAT-A
14195364 AATAGATA
1 AATA-ATA
*
14195372 AAAAATA
1 AATAATA
14195379 AA-AATA
1 AATAATA
14195385 AATAAT-
1 AATAATA
14195391 -ATAATA
1 AATAATA
14195397 AATAATA
1 AATAATA
14195404 A
1 A
14195405 TACAGAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
5 5 0.10
6 10 0.20
7 21 0.41
8 13 0.25
9 2 0.04
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (7 bp):
AATAATA
Found at i:14195423 original size:41 final size:40
Alignment explanation
Indices: 14195348--14195427 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 40
14195338 AATAAAACAA
* *
14195348 AATAAATAAATCATAAAATAGATAAAAAATAAAAATAAAT
1 AATAAATAAATAATAAAACAGATAAAAAATAAAAATAAAT
* *
14195388 AATATAATAAATAATAATACAGA-AATAAATCAAAAATAAA
1 AATA-AATAAATAATAAAACAGATAAAAAAT-AAAAATAAA
14195428 ATAAAGAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 10 0.29
41 24 0.71
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (40 bp):
AATAAATAAATAATAAAACAGATAAAAAATAAAAATAAAT
Found at i:14195427 original size:29 final size:28
Alignment explanation
Indices: 14195338--14195432 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 28
14195328 GAATAAGAAT
14195338 AATAAAACAA-AATAAATAAATCATAAAATA
1 AATAAAA-AATAA-AAATAAATCA-AAAATA
*
14195368 GATAAAAAATAAAAATAAAT-AATATAATA
1 AATAAAAAATAAAAATAAATCAA-A-AATA
*
14195397 AAT-AATAATACAGAAATAAATCAAAAATAA
1 AATAAAAAATA-A-AAATAAATCAAAAAT-A
14195427 AATAAA
1 AATAAA
14195433 GAAAAGGGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
27 1 0.02
28 8 0.15
29 20 0.37
30 21 0.39
31 4 0.07
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (28 bp):
AATAAAAAATAAAAATAAATCAAAAATA
Found at i:14196052 original size:30 final size:30
Alignment explanation
Indices: 14195986--14196052 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
14195976 ATGTGTCTAG
14195986 GCCGTGTGGGTCACATGGCCATATTGCCAA
1 GCCGTGTGGGTCACATGGCCATATTGCCAA
* * *
14196016 GTCGTGTGGGTCACATGGCCATGTTGCCAC
1 GCCGTGTGGGTCACATGGCCATATTGCCAA
14196046 GCCGTGT
1 GCCGTGT
14196053 AGCTCACTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.15, C:0.27, G:0.33, T:0.25
Consensus pattern (30 bp):
GCCGTGTGGGTCACATGGCCATATTGCCAA
Found at i:14196908 original size:17 final size:17
Alignment explanation
Indices: 14196886--14196922 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
14196876 CCACATGTTC
14196886 ATTAACATTAACAAAAG
1 ATTAACATTAACAAAAG
14196903 ATTAACATTAACAAAAG
1 ATTAACATTAACAAAAG
14196920 ATT
1 ATT
14196923 TAAAATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (17 bp):
ATTAACATTAACAAAAG
Found at i:14200545 original size:20 final size:21
Alignment explanation
Indices: 14200501--14200546 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
14200491 TTATAATTAT
*
14200501 ATAATATAATATAATTTACTT
1 ATAATATAATATAATTTACTA
14200522 ATAATATAA-ATAA-TTACCTA
1 ATAATATAATATAATTTA-CTA
14200542 ATAAT
1 ATAAT
14200547 CATACACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 11 0.48
21 9 0.39
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATAATATAATTTACTA
Found at i:14217083 original size:326 final size:326
Alignment explanation
Indices: 14216490--14217146 Score: 1251
Period size: 326 Copynumber: 2.0 Consensus size: 326
14216480 AGTACATTCG
14216490 TTCTGTGGTAAAGGATGATTTGCCGGATAAGACCATGGTTGGACCATGGCATGTTTATATGTAAG
1 TTCTGTGGTAAAGGATGATTTGCCGGATAAGACCATGGTTGGACCATGGCATGTTTATATGTAAG
*
14216555 ACCATAGCTAGGCTATGACATTAATGTAAAGAATGAATTAATGGATAAGACCATAATTGGGTTAT
66 ACCATAGCTAGGCTATGACATTAATGTAAAGAATGAATTAACGGATAAGACCATAATTGGGTTAT
*
14216620 GGCACTACGAACATAAGACCATGGTTGGACCAAGGCAGTGATAATAGGCTATTGCAATCTGATAA
131 GACACTACGAACATAAGACCATGGTTGGACCAAGGCAGTGATAATAGGCTATTGCAATCTGATAA
* * *
14216685 TAAGACCATAATTGGGTTATGGCACTGATAATGTAAGACCATGGCAGGGCCATAACAACATACAT
196 TAAAACCATAACTGGGTTATGGCACTGAGAATGTAAGACCATGGCAGGGCCATAACAACATACAT
*
14216750 GTAAGACCATAATTGGACTATGGGATAAATAAAACGATGTACTCATACTCGTAAGCCATTCTTTG
261 GTAAGACCATAATTGGACTATGGCATAAATAAAACGATGTACTCATACTCGTAAGCCATTCTTTG
14216815 A
326 A
14216816 TTCTGTGGTAAAGGATGATTTGCCGGATAAGACCATGGTTGGACCATGGCATGTTTATATGTAAG
1 TTCTGTGGTAAAGGATGATTTGCCGGATAAGACCATGGTTGGACCATGGCATGTTTATATGTAAG
14216881 ACCATAGCTAGGCTATGACATTAATGTAAAGAATGAATTAACGGATAAGACCATAATTGGGTTAT
66 ACCATAGCTAGGCTATGACATTAATGTAAAGAATGAATTAACGGATAAGACCATAATTGGGTTAT
14216946 GACACTACGAACATAAGACCATGGTTGGACCAAGGCAGTGATAATAGGCTATTGCAATCTGATAA
131 GACACTACGAACATAAGACCATGGTTGGACCAAGGCAGTGATAATAGGCTATTGCAATCTGATAA
*
14217011 TAAAACCATAACTGGGTTATGGCACTGCGAATGTAAGACCATGGCAGGGCCATAACAACATACAT
196 TAAAACCATAACTGGGTTATGGCACTGAGAATGTAAGACCATGGCAGGGCCATAACAACATACAT
14217076 GTAAGACCATAATTGGACTATGGCATAAATAAAACGATGTACTCATACTCGTAAGCCATTCTTTG
261 GTAAGACCATAATTGGACTATGGCATAAATAAAACGATGTACTCATACTCGTAAGCCATTCTTTG
14217141 A
326 A
14217142 TTCTG
1 TTCTG
14217147 CAAGAATTGG
Statistics
Matches: 324, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
326 324 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (326 bp):
TTCTGTGGTAAAGGATGATTTGCCGGATAAGACCATGGTTGGACCATGGCATGTTTATATGTAAG
ACCATAGCTAGGCTATGACATTAATGTAAAGAATGAATTAACGGATAAGACCATAATTGGGTTAT
GACACTACGAACATAAGACCATGGTTGGACCAAGGCAGTGATAATAGGCTATTGCAATCTGATAA
TAAAACCATAACTGGGTTATGGCACTGAGAATGTAAGACCATGGCAGGGCCATAACAACATACAT
GTAAGACCATAATTGGACTATGGCATAAATAAAACGATGTACTCATACTCGTAAGCCATTCTTTG
A
Found at i:14222670 original size:20 final size:20
Alignment explanation
Indices: 14222645--14222685 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
14222635 TATGCTAAAC
14222645 GAAGAAAAATCATCATCTTT
1 GAAGAAAAATCATCATCTTT
14222665 GAAGAAAAATCATCATCTTT
1 GAAGAAAAATCATCATCTTT
14222685 G
1 G
14222686 CATGAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
GAAGAAAAATCATCATCTTT
Found at i:14225050 original size:19 final size:18
Alignment explanation
Indices: 14225017--14225052 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14225007 TATTTTTAAT
*
14225017 TTAATTTAATTTAAAATA
1 TTAATTTAATATAAAATA
14225035 TTAATATTAATATAAAAT
1 TTAAT-TTAATATAAAAT
14225053 TTGTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTTAATATAAAATA
Found at i:14228541 original size:61 final size:61
Alignment explanation
Indices: 14228445--14228568 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
14228435 CTCCACCTTA
* * ** * *
14228445 AAATTTTCTTTTACCAAATTTGGTTGGCTACCTTTAATACAATA-TGAAGTGTTCCGGTCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAA-AGTGAAGTGGTCCGATCGC
* *
14228506 AAATTTTCTTTTACCAAAATTGGGTACCTAGCTTTAATATAAAGTGAAGTGGTCCGATCGC
1 AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
14228567 AA
1 AA
14228569 GGTTCTTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (61 bp):
AAATTTTCTTTTACCAAAATTGGGTACCTACCTTTAATACAAAGTGAAGTGGTCCGATCGC
Found at i:14234324 original size:17 final size:18
Alignment explanation
Indices: 14234300--14234352 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
14234290 TCATATCATA
14234300 TCATATCATATCTAAGAC
1 TCATATCATATCTAAGAC
*
14234318 T-ATATCATATCTAAGAT
1 TCATATCATATCTAAGAC
14234335 TGCATATCATATCTAAGA
1 T-CATATCATATCTAAGA
14234353 TTGCATATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.50
18 1 0.03
19 15 0.47
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.36
Consensus pattern (18 bp):
TCATATCATATCTAAGAC
Found at i:14234328 original size:5 final size:5
Alignment explanation
Indices: 14234286--14234311 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14234276 TTTAAGATTG
14234286 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
14234312 TAAGACTATA
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:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:14234343 original size:19 final size:19
Alignment explanation
Indices: 14234268--14234361 Score: 110
Period size: 19 Copynumber: 5.2 Consensus size: 19
14234258 AGATTACAAA
14234268 ATCATATCTTTAAGATTGCAT
1 ATCATATC--TAAGATTGCAT
*
14234289 ATCATATC--ATA-T-CAT
1 ATCATATCTAAGATTGCAT
*
14234304 ATCATATCTAAGACT--AT
1 ATCATATCTAAGATTGCAT
14234321 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14234340 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
14234359 ATC
1 ATC
14234362 CTTAAAGATT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.17
16 1 0.02
17 20 0.31
18 1 0.02
19 24 0.37
21 8 0.12
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:14234903 original size:87 final size:86
Alignment explanation
Indices: 14234755--14234919 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 86
14234745 ACAATACAGA
*
14234755 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTACTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCA-CGTAAACACGTGAAAGCCAAATCTACTATGTCTTCA
*
14234820 ATTTGCTCCTTGTGAACACAAG
65 ATCTGCTCCTTGTGAACACAAG
* * * * *
14234842 GATGCCAAATCATCTTGGATCTGCTTCA-GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTGCTTCACGT-AAA-CA-CGTGAAAGCCAAATCTACTATGTCTT
* *
14234905 TAATCTGCTTCTTGT
63 CAATCTGCTCCTTGT
14234920 AAACTTATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
85 2 0.03
86 3 0.05
87 60 0.91
88 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTGCTTCACGTAAACACGTGAAAGCCAAATCTACTATGTCTTCAA
TCTGCTCCTTGTGAACACAAG
Found at i:14235443 original size:205 final size:205
Alignment explanation
Indices: 14234989--14235734 Score: 1279
Period size: 205 Copynumber: 3.7 Consensus size: 205
14234979 AAATCTGTTT
* *
14234989 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
14235054 ACGAAAACCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGGCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
14235119 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCTGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
14235179 AGATGCCAGA
196 AGATGCCAGA
14235189 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
14235254 GTGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCTAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
14235319 GGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTACTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
14235384 AGATGCCAGA
196 AGATGCCAGA
14235394 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
14235459 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
14235524 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCCCCGTCGAAAT-G
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
14235588 AGATGCCAGA
196 AGATGCCAGA
14235598 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
14235663 ATGAAAGCCAAAGTCATCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 ATGAAAGCCAAA-TCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
14235728 TGGATCT
130 TGGATCT
14235735 TGTTTCAGCC
Statistics
Matches: 517, Mismatches: 23, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
200 133 0.26
202 1 0.00
204 86 0.17
205 297 0.57
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
AGATGCCAGA
Found at i:14239347 original size:26 final size:26
Alignment explanation
Indices: 14239316--14239422 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14239306 TGAAATGCCC
*
14239316 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
14239342 ATCATGGAACATTT-CCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
14239367 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
14239393 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
14239419 ATCA
1 ATCA
14239423 ATTTGTATCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:14239386 original size:51 final size:52
Alignment explanation
Indices: 14239316--14239422 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
14239306 TGAAATGCCC
14239316 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTT-CCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
14239367 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
14239419 ATCA
1 ATCA
14239423 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 38 0.72
52 15 0.28
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:14245635 original size:14 final size:14
Alignment explanation
Indices: 14245616--14245644 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14245606 ACAGATGGAT
14245616 TCGTATAATTCTTA
1 TCGTATAATTCTTA
14245630 TCGTATAATTCTTA
1 TCGTATAATTCTTA
14245644 T
1 T
14245645 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:14249873 original size:20 final size:21
Alignment explanation
Indices: 14249807--14249875 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
14249797 TCACTTCGTT
14249807 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
14249828 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
14249849 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
14249870 -CTTTTT
1 TCTTTTT
14249876 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:14252268 original size:18 final size:18
Alignment explanation
Indices: 14252235--14252328 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
14252225 AAGGTTTTCT
14252235 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
14252250 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
14252268 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
14252286 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
14252304 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
14252322 TATTGAT
1 TATTGAT
14252329 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:14257181 original size:30 final size:30
Alignment explanation
Indices: 14257147--14257211 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
14257137 ACTTATGTTA
*
14257147 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
14257177 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
14257207 TTGTT
1 TTGTT
14257212 TGTTAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:14257356 original size:11 final size:12
Alignment explanation
Indices: 14257326--14257363 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
14257316 TGTGTTATAT
*
14257326 ATATATAAATT-
1 ATATAAAAATTA
14257337 ATATAAAAATTA
1 ATATAAAAATTA
14257349 ATATAAAAATTA
1 ATATAAAAATTA
14257361 ATA
1 ATA
14257364 CAAGCGGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:14262109 original size:29 final size:29
Alignment explanation
Indices: 14262067--14262154 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
14262057 TTTTGCCCGG
14262067 CCCAACAATCAAAACCCAACCTACCCTAA
1 CCCAACAATCAAAACCCAACCTACCCTAA
**
14262096 CCCAACAATCAAAACTAAACCTACCC-AA
1 CCCAACAATCAAAACCCAACCTACCCTAA
*
14262124 --CAA-AA-CAAAAACCCAACCTATCCTAA
1 CCCAACAATC-AAAACCCAACCTACCCTAA
14262150 CCCAA
1 CCCAA
14262155 TTACATCAGC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 1 0.02
25 15 0.30
26 5 0.10
28 5 0.10
29 24 0.48
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (29 bp):
CCCAACAATCAAAACCCAACCTACCCTAA
Found at i:14265617 original size:43 final size:43
Alignment explanation
Indices: 14265310--14265605 Score: 450
Period size: 43 Copynumber: 6.9 Consensus size: 43
14265300 GCATGAAACT
* *
14265310 CGGTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTGCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
14265353 CGGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTG-
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
14265395 CGGCTGATGTGTATTCGAGCCTTCATGCCTTGCAGGCTTCGTGC
1 CGG-TGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
14265439 CGATGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
14265482 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
14265525 CGGTGATGTGTATTCAGGCTTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
14265568 CGGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
14265606 AATGCTGGTG
Statistics
Matches: 226, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
42 3 0.01
43 221 0.98
44 2 0.01
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:14265874 original size:29 final size:28
Alignment explanation
Indices: 14265774--14265932 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
14265764 ATGATTAGAG
* *
14265774 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
14265803 GCACTATGTGTGCGAGA-TCAGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
14265831 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
14265861 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
14265889 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
14265918 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
14265933 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:14265949 original size:28 final size:28
Alignment explanation
Indices: 14265803--14265957 Score: 89
Period size: 29 Copynumber: 5.4 Consensus size: 28
14265793 CTTTAACCGA
* * *
14265803 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* ** * * *
14265832 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-CGGTCACTGG
* *
14265861 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
14265890 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
14265918 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
14265946 GCACTAAGTGTG
1 GCACTATGTGTG
14265958 TGAAATGAGA
Statistics
Matches: 94, Mismatches: 26, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
28 37 0.39
29 51 0.54
30 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:14265959 original size:58 final size:58
Alignment explanation
Indices: 14265771--14265939 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
14265761 CGAATGATTA
* *
14265771 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
14265829 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
14265887 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
14265940 CAGTGGGCAC
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 31 0.29
58 76 0.71
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:14274723 original size:16 final size:17
Alignment explanation
Indices: 14274692--14274724 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14274682 TAAGTAGTAA
*
14274692 AATAACTTTGTTTTCGT
1 AATAACATTGTTTTCGT
14274709 AATAACATT-TTTTCGT
1 AATAACATTGTTTTCGT
14274725 GTACGATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (17 bp):
AATAACATTGTTTTCGT
Found at i:14277520 original size:4 final size:4
Alignment explanation
Indices: 14277511--14277551 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
14277501 GTCTTCTTTA
* *
14277511 TATT TATT TATT TATT CATT TATT TATT TA-T TATT TCTT TA
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TA
14277552 CCTTTCTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:14277531 original size:16 final size:15
Alignment explanation
Indices: 14277507--14277551 Score: 65
Period size: 16 Copynumber: 3.0 Consensus size: 15
14277497 AATTGTCTTC
14277507 TTTA-TATTTATTTA
1 TTTATTATTTATTTA
14277521 TTTATTCATTTATTTA
1 TTTATT-ATTTATTTA
*
14277537 TTTATTATTTCTTTA
1 TTTATTATTTATTTA
14277552 CCTTTCTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 4 0.14
15 9 0.32
16 15 0.54
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTATTTATTTA
Found at i:14288802 original size:28 final size:29
Alignment explanation
Indices: 14288734--14288808 Score: 98
Period size: 28 Copynumber: 2.6 Consensus size: 29
14288724 CATGAGATAG
* * *
14288734 GCACTAAGTGTACGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAATTATACA
* *
14288763 GCACTAAGTGTGCGAGTTT-TATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACA
14288791 GCACTAAGTGTGCGAGTT
1 GCACTAAGTGTGCGAGTT
14288809 GATTTGTAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.59
29 17 0.41
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.33
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAATTATACA
Found at i:14290241 original size:39 final size:40
Alignment explanation
Indices: 14290196--14290367 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
14290186 GCTCCTCGTT
* * *
14290196 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
14290236 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
14290275 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
14290315 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
14290355 CAAATGCCTTCGG
1 CAAATGCCTTCGG
14290368 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:14290296 original size:40 final size:39
Alignment explanation
Indices: 14290198--14290420 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
14290188 TCCTCGTTCA
* * * *
14290198 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
14290237 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
14290276 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
14290316 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
14290356 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
14290397 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14290421 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:14290380 original size:80 final size:79
Alignment explanation
Indices: 14290196--14290420 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
14290186 GCTCCTCGTT
* * * * *
14290196 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
14290260 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
14290275 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
14290340 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
14290355 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
14290419 GA
63 GA
14290421 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:14290429 original size:41 final size:41
Alignment explanation
Indices: 14290352--14290429 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
14290342 TTTGTATCTC
* * *
14290352 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
14290393 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
14290430 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:14293586 original size:15 final size:15
Alignment explanation
Indices: 14293563--14293593 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14293553 CTGAACTAAG
*
14293563 TTTTTAATTATTGCA
1 TTTTGAATTATTGCA
14293578 TTTTGAATTATTGCA
1 TTTTGAATTATTGCA
14293593 T
1 T
14293594 ATGGTAAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (15 bp):
TTTTGAATTATTGCA
Found at i:14302723 original size:25 final size:25
Alignment explanation
Indices: 14302688--14302745 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
14302678 CTCTCTTTCA
** **
14302688 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACAAGAAGCTCATAAG
*
14302713 AGCCATGTAACAAGAAGCTCATAAG
1 AGCCATATAACAAGAAGCTCATAAG
14302738 AGCCATAT
1 AGCCATAT
14302746 TCGAGAAGTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAAGAAGCTCATAAG
Found at i:14303755 original size:30 final size:30
Alignment explanation
Indices: 14303721--14303783 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
14303711 TTATTTAATT
*
14303721 AATTT-ATCATCTTTATTTT-ATCATATTTCC
1 AATTTAATCAT-TTTATTTTCAT-AAATTTCC
*
14303751 AATTTAATCATTTTCTTTTCATAAATTTCC
1 AATTTAATCATTTTATTTTCATAAATTTCC
14303781 AAT
1 AAT
14303784 GATGACTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (30 bp):
AATTTAATCATTTTATTTTCATAAATTTCC
Found at i:14310582 original size:13 final size:13
Alignment explanation
Indices: 14310564--14310588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14310554 CGAAGTCATA
14310564 GAAGTTTTGTTAC
1 GAAGTTTTGTTAC
14310577 GAAGTTTTGTTA
1 GAAGTTTTGTTA
14310589 TAGCATCTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (13 bp):
GAAGTTTTGTTAC
Found at i:14322507 original size:15 final size:15
Alignment explanation
Indices: 14322487--14322517 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14322477 GTCATGTAAG
14322487 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
14322502 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
14322517 T
1 T
14322518 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:14322708 original size:17 final size:17
Alignment explanation
Indices: 14322675--14322713 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
14322665 TAAGCTTTTG
14322675 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
14322692 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
14322709 ATTTT
1 ATTTT
14322714 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:14323479 original size:15 final size:15
Alignment explanation
Indices: 14323455--14323484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14323445 TGGAGATCGA
*
14323455 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
14323470 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
14323485 CAAGAAGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:14326866 original size:15 final size:15
Alignment explanation
Indices: 14326846--14326876 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14326836 GTCATATAAG
14326846 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
14326861 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
14326876 T
1 T
14326877 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:14327067 original size:17 final size:17
Alignment explanation
Indices: 14327034--14327072 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
14327024 TAAGCTTTTG
14327034 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
14327051 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
14327068 ATTTT
1 ATTTT
14327073 CCACAGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:14329917 original size:20 final size:20
Alignment explanation
Indices: 14329894--14329945 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
14329884 ACTCAAGTGC
14329894 AAATGATTTTAACCAAGTCA
1 AAATGATTTTAACCAAGTCA
** * *
14329914 AAATGATTCCAATCAAGTTA
1 AAATGATTTTAACCAAGTCA
*
14329934 AAATCATTTTAA
1 AAATGATTTTAA
14329946 AATGATTTTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATGATTTTAACCAAGTCA
Found at i:14330131 original size:20 final size:22
Alignment explanation
Indices: 14330108--14330149 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14330098 ATGTTTCTAA
*
14330108 TATCGATA-TT-TTTTAAAAAT
1 TATCGATACTTGTCTTAAAAAT
14330128 TATCGATACTTGTCTTAAAAAT
1 TATCGATACTTGTCTTAAAAAT
14330150 GATATCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 2 0.11
22 9 0.47
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (22 bp):
TATCGATACTTGTCTTAAAAAT
Found at i:14333542 original size:19 final size:21
Alignment explanation
Indices: 14333503--14333544 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14333493 ACCCCTCAAC
*
14333503 AAAATAGAGTTGTTGAGAGGA
1 AAAATAGAATTGTTGAGAGGA
14333524 AAAATAGAATT-TT-AGAGGA
1 AAAATAGAATTGTTGAGAGGA
14333543 AA
1 AA
14333545 TGGCTAGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (21 bp):
AAAATAGAATTGTTGAGAGGA
Found at i:14336064 original size:20 final size:21
Alignment explanation
Indices: 14336041--14336095 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
14336031 GATACCAACT
* *
14336041 TAAAAATATCGATACT-TTTA
1 TAAAAATATCGATACTCGTGA
*
14336061 TAAAAATATCGATCCTCGTGA
1 TAAAAATATCGATACTCGTGA
14336082 -AAAAATATCGATAC
1 TAAAAATATCGATAC
14336096 CTCTGGGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (21 bp):
TAAAAATATCGATACTCGTGA
Found at i:14343626 original size:16 final size:16
Alignment explanation
Indices: 14343599--14343632 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
14343589 GTTTTTCCTC
14343599 TCTTTTTTTCAC-TTT
1 TCTTTTTTTCACATTT
14343614 TCTTTTCTTTCACATTT
1 TCTTTT-TTTCACATTT
14343631 TC
1 TC
14343633 GTTCTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 6 0.35
17 5 0.29
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.68
Consensus pattern (16 bp):
TCTTTTTTTCACATTT
Found at i:14348052 original size:7 final size:7
Alignment explanation
Indices: 14348011--14348054 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
14348001 TGCACACTAT
14348011 GGTTTAG
1 GGTTTAG
*
14348018 GATTTAG
1 GGTTTAG
14348025 GGTTTTAG
1 GG-TTTAG
* *
14348033 GGTCTAA
1 GGTTTAG
14348040 GGTTTAG
1 GGTTTAG
14348047 GGTTTAG
1 GGTTTAG
14348054 G
1 G
14348055 TTTCATACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:14349953 original size:47 final size:46
Alignment explanation
Indices: 14349785--14350144 Score: 263
Period size: 47 Copynumber: 7.7 Consensus size: 46
14349775 GGGATATATT
* * * *
14349785 GCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATACG-CG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCT--GTAG
* * * *
14349834 TGCTGATGCATGTCCCAAACATGTCTTACACTAGC-A-CATCTCTTA-
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCT-GTAG
* * *
14349879 GCCAATGCGTGTCCCAGACACGTCTTACACTGGCTATC-TCTGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGT--AG
* * *
14349926 GCCGATGCATGTCGCAGATATGTCTTACACTGGC-AGTCATCTCT-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCTGTAG
* * * * *
14349971 TGCCGATGCCATGGCCTAGACTTGGTCTTACACTAGCTATCAT-AGTATG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTGTA-G
* * * * *
14350020 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCT-TCGTCTGGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTATCATCTGTAG
* *
14350066 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCAT-CTGTAG
14350114 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
14350145 AGCGTACAAA
Statistics
Matches: 244, Mismatches: 46, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
44 29 0.12
45 6 0.02
46 42 0.17
47 87 0.36
48 57 0.23
49 17 0.07
50 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTGTAG
Found at i:14350044 original size:94 final size:93
Alignment explanation
Indices: 14349784--14350147 Score: 377
Period size: 94 Copynumber: 3.9 Consensus size: 93
14349774 TGGGATATAT
* * * *
14349784 TGCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATA-TACGCGTGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTC
*
14349848 CCAAACATGTCTTACACTAGCA-CATCTCT-
63 CCAGACATGTCTTACACTAGCATCATCTCTG
* * * *
14349877 TAGCCAATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGT
* * *
14349938 CGCAGATATGTCTTACACTGGCAGTCATCTCTG
62 CCCAGACATGTCTTACACTAGCA-TCATCTCTG
* * * * *
14349971 TGCCGATGCCATGGCCTAGACTTGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
*
14350036 GACATGTCTTACACTAGC--CTTCGTCTGG
66 GACATGTCTTACACTAGCATCATC-TCT-G
* * *
14350064 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGTCCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCC
14350129 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
14350148 GTACAAATCA
Statistics
Matches: 224, Mismatches: 32, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
91 34 0.15
92 19 0.08
93 29 0.13
94 122 0.54
95 19 0.08
96 1 0.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCATCATCTCTG
Found at i:14350046 original size:141 final size:140
Alignment explanation
Indices: 14349785--14350147 Score: 357
Period size: 141 Copynumber: 2.6 Consensus size: 140
14349775 GGGATATATT
* * * * * *
14349785 GCCGATGCCATGTCCCAGACATGGTCTTACACTTGCTCTCATATACGCGTGCTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-ATGTG-GCCGATGCATGGCCC
* * * * ** *
14349850 AAACATGTCTTACACTAGC-A-CAT-CTCTTAGCCAATGCGTGTCCCAGACACGTCTTACACT-G
64 AGACATGTCTTACACTAGCTATCATAGT-ATGGCTGATGCATGTCCCAGACACGTCTTACACTAG
*
14349911 GCTATC-TCTGTCGAG
128 CCT-TCGTCTG--GAG
* * * *
14349926 GCCGATG-CATGTCGCAGATAT-GTCTTACACTGGC-AGTCAT-CTCTGTGCCGATGCCATGGCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCATAATGTG-GCCGATG-CATGGCC
* * *
14349987 TAGACTTGGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTA
63 CAGACAT-GTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACACGTCTTACACTA
*
14350052 GCCTTCGTCTGGAT
127 GCCTTCGTCTGGAG
* *
14350066 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGGCCCAG
14350131 ACATGTCTTACACTAGC
66 ACATGTCTTACACTAGC
14350148 GTACAAATCA
Statistics
Matches: 180, Mismatches: 30, Indels: 25
0.77 0.13 0.11
Matches are distributed among these distances:
137 8 0.04
138 10 0.06
139 29 0.16
140 34 0.19
141 63 0.35
142 32 0.18
143 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (140 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGGCCCAG
ACATGTCTTACACTAGCTATCATAGTATGGCTGATGCATGTCCCAGACACGTCTTACACTAGCCT
TCGTCTGGAG
Found at i:14350531 original size:30 final size:30
Alignment explanation
Indices: 14350488--14350545 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14350478 AAATTTACAT
* *
14350488 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
14350518 CTTTGGCATAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
14350546 TGCTCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:14358494 original size:43 final size:43
Alignment explanation
Indices: 14358433--14358518 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
14358423 GTTACGTGAA
* * *
14358433 TCACATCCATTATGAACTTGAACCTCTCAATGAGCTCGGATGC
1 TCACATCCATAATGAACTTGAACCTCTCAACGAGCTCAGATGC
*
14358476 TCACATCCATAATGAACTTGGACCTCTCAACGAGCTCAGATGC
1 TCACATCCATAATGAACTTGAACCTCTCAACGAGCTCAGATGC
14358519 CATATAGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
TCACATCCATAATGAACTTGAACCTCTCAACGAGCTCAGATGC
Found at i:14369323 original size:48 final size:48
Alignment explanation
Indices: 14369252--14369347 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
14369242 AATTTAGTCC
14369252 TTGCCTCTTTCCCAAATTTCCATGGACGAGTCACCAAAATATCCGCAT
1 TTGCCTCTTTCCCAAATTTCCATGGACGAGTCACCAAAATATCCGCAT
14369300 TTGCCTCTTTCCCAAATTTCCATGGACGAGTCACCAAAATATCCGCAT
1 TTGCCTCTTTCCCAAATTTCCATGGACGAGTCACCAAAATATCCGCAT
14369348 ACTTTATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.29
Consensus pattern (48 bp):
TTGCCTCTTTCCCAAATTTCCATGGACGAGTCACCAAAATATCCGCAT
Found at i:14374137 original size:46 final size:46
Alignment explanation
Indices: 14374018--14374257 Score: 229
Period size: 46 Copynumber: 5.1 Consensus size: 46
14374008 GAAATCTTAC
* * *
14374018 ACATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACTGGCTCT
1 ACATCTCGATGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T
14374067 CACA-CATCCG-TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
1 -ACATC-T-CGATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
* * *
14374114 ACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACATTGGCACT
1 ACATCTCGATGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TT
* *
14374161 -CATCTCAATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTT
1 ACATCTCGATGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTT
* * * * *
14374208 TCATAAT--ATGGCCGATGCATGTCCCAAACATGCCTTACACTGGCTC
1 ACAT-CTCGAT-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
14374254 ACAT
1 ACAT
14374258 AACAGCAGTG
Statistics
Matches: 163, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
45 2 0.01
46 66 0.40
47 33 0.20
48 35 0.21
49 13 0.08
50 12 0.07
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
ACATCTCGATGCCGATGCATGTCCCAGACATGTCTTACACTGGCTT
Found at i:14374199 original size:94 final size:92
Alignment explanation
Indices: 14374080--14374251 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 92
14374070 ACATCCGTGC
* *
14374080 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACAT-CTCGA-GGCCGATGCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAAT--ATGGCCGATGCATGTCCCAAAC
* *
14374143 ATGTCTTACATTGGCACTCATCTCAATGT
64 ATGCCTTACACTGGCACTCATCTCAATGT
*
14374172 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATATGGCCGATGCATGTCCCAAAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATAATATGGCCGATGCATGTCCCAAAC
14374237 ATGCCTTACACTGGC
64 ATGCCTTACACTGGC
14374252 TCACATAACA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 5 0.07
93 15 0.21
94 50 0.70
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATAATATGGCCGATGCATGTCCCAAACAT
GCCTTACACTGGCACTCATCTCAATGT
Found at i:14375626 original size:10 final size:10
Alignment explanation
Indices: 14375611--14375664 Score: 69
Period size: 10 Copynumber: 5.7 Consensus size: 10
14375601 AACCACTATA
*
14375611 AAATAATGTT
1 AAATAATATT
14375621 AAATAATATT
1 AAATAATATT
14375631 AAATAATATT
1 AAATAATATT
14375641 ---TAATATT
1 AAATAATATT
*
14375648 AAAAAATATT
1 AAATAATATT
14375658 AAATAAT
1 AAATAAT
14375665 GTTACAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
7 7 0.18
10 31 0.82
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (10 bp):
AAATAATATT
Done.