Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 51 of 185
Found at i:14477837 original size:20 final size:20
Alignment explanation
Indices: 14477792--14477838 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
14477782 AAATTATATG
* *
14477792 TATTACACATGATTTTAAAT
1 TATTAAACATGATTTAAAAT
*
14477812 TGTTAAACAT-ATTTAAAAT
1 TATTAAACATGATTTAAAAT
14477831 ATATTAAA
1 -TATTAAA
14477839 AATTTCATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
TATTAAACATGATTTAAAAT
Found at i:14478780 original size:70 final size:67
Alignment explanation
Indices: 14478670--14478798 Score: 170
Period size: 70 Copynumber: 1.9 Consensus size: 67
14478660 AAATATAAAG
* * *
14478670 AGTTTTGCCTTTTAACTTAATAAGTAAACATTTATCAAAACGACTTAATTTTGTCTTTTAATTTA
1 AGTTTTGACTTTTAACTTAATAAGTAAACATTTATCAAAACGACATAATTTTGCCTTTTAATTTA
14478735 AT
66 AT
* *
14478737 AGTTTTGACTTTTAACTTTTGAA-AAGGTAAACATTTATTAAAACGACATAGTTTTGCCTTTT
1 AGTTTTGACTTTTAAC--TT-AATAA-GTAAACATTTATCAAAACGACATAATTTTGCCTTTT
14478799 TTTTATTCGG
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
67 15 0.28
69 4 0.08
70 34 0.64
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (67 bp):
AGTTTTGACTTTTAACTTAATAAGTAAACATTTATCAAAACGACATAATTTTGCCTTTTAATTTA
AT
Found at i:14484566 original size:31 final size:28
Alignment explanation
Indices: 14484531--14484587 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
14484521 CTGTAGTTCA
*
14484531 TTGGGAGGAAAAACAGCCCAATAATGCATTT
1 TTGGG-GG-AAAA-AGCCCAAGAATGCATTT
*
14484562 TTGGGGGTAAAAGCCCAAGAATGCAT
1 TTGGGGGAAAAAGCCCAAGAATGCAT
14484588 ATGAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.58
29 3 0.12
30 2 0.08
31 5 0.21
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGGGGGAAAAAGCCCAAGAATGCATTT
Found at i:14487153 original size:13 final size:13
Alignment explanation
Indices: 14487114--14487159 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
14487104 AGTTTTTCAT
14487114 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* * *
14487127 TGCTGTAGAAAAG
1 TGCTTTTGAGAAG
*
14487140 TACTTTTGAGAAG
1 TGCTTTTGAGAAG
14487153 TGCTTTT
1 TGCTTTT
14487160 TAAAAGTTTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:14494723 original size:11 final size:11
Alignment explanation
Indices: 14494707--14494740 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
14494697 GCTCAATCAA
14494707 TTTTTTTATTT
1 TTTTTTTATTT
14494718 TTTTTTTATTT
1 TTTTTTTATTT
14494729 TGTTTTTT-TTT
1 T-TTTTTTATTT
14494740 T
1 T
14494741 CGATTTCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:14494734 original size:16 final size:16
Alignment explanation
Indices: 14494710--14494740 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14494700 CAATCAATTT
14494710 TTTTATTTTTTTTTTA
1 TTTTATTTTTTTTTTA
*
14494726 TTTTGTTTTTTTTTT
1 TTTTATTTTTTTTTT
14494741 CGATTTCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.90
Consensus pattern (16 bp):
TTTTATTTTTTTTTTA
Found at i:14498720 original size:22 final size:21
Alignment explanation
Indices: 14498681--14498722 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14498671 CAAACTTTAA
* *
14498681 TAAAATTTAATATTAATATTG
1 TAAAATTAAATATCAATATTG
14498702 TAAATATTAAATATCAATATT
1 TAAA-ATTAAATATCAATATT
14498723 TATGGACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
TAAAATTAAATATCAATATTG
Found at i:14501823 original size:32 final size:32
Alignment explanation
Indices: 14501764--14501825 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
14501754 TCCTTGGTAG
* * * *
14501764 TTATAAAAAAACATGCATATAATTGTAATCAC
1 TTATAAAAAAACAAGAACATAAATGTAATCAC
14501796 TTATAAAAAAACAAGAACATAAATGTAATC
1 TTATAAAAAAACAAGAACATAAATGTAATC
14501826 CTTGGGACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.27
Consensus pattern (32 bp):
TTATAAAAAAACAAGAACATAAATGTAATCAC
Found at i:14519459 original size:31 final size:31
Alignment explanation
Indices: 14519374--14519583 Score: 98
Period size: 31 Copynumber: 6.8 Consensus size: 31
14519364 TAAGGTGTCC
14519374 AACACCGGTACATAGTACTTGATAAAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
* * * * *
14519405 AACACCAGCACATGGTGCCTGATACAAA-ATA
1 AACACCGGTACATAGTACTTGATA-AAATATA
* * *
14519436 AACATCGGTATATAGTACTTGATATAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
** * ** * * *
14519467 GTCACCGATATGTAGTACCTGATATAATAGA
1 AACACCGGTACATAGTACTTGATAAAATATA
*** * * * * *
14519498 GTTATCGATACGTAGTACCTGATATAATATA
1 AACACCGGTACATAGTACTTGATAAAATATA
** ** * * *
14519529 GTCACTAGTACATAGTACCTGATATAATATG
1 AACACCGGTACATAGTACTTGATAAAATATA
* * *
14519560 ATCATCGGTACATAGTACCTGATA
1 AACACCGGTACATAGTACTTGATA
14519584 CTTTTAAATT
Statistics
Matches: 142, Mismatches: 35, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
30 2 0.01
31 137 0.96
32 3 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.29
Consensus pattern (31 bp):
AACACCGGTACATAGTACTTGATAAAATATA
Found at i:14519514 original size:62 final size:62
Alignment explanation
Indices: 14519382--14519583 Score: 183
Period size: 62 Copynumber: 3.3 Consensus size: 62
14519372 CCAACACCGG
* * ** * * * * * * * * *
14519382 TACATAGTACTTGATAAAATATAAACACCAGCACATGGTGCCTGATACAAAATAAACATCGG
1 TACATAGTACCTGATATAATATAGTCACGAGTACATAGTACCTGATATAATATGATCATCGA
* * ** *
14519444 TATATAGTACTTGATATAATATAGTCACCGA-TATGTAGTACCTGATATAATA-GAGTTATCGA
1 TACATAGTACCTGATATAATATAGTCA-CGAGTACATAGTACCTGATATAATATGA-TCATCGA
* * *
14519506 TACGTAGTACCTGATATAATATAGTCACTAGTACATAGTACCTGATATAATATGATCATCGG
1 TACATAGTACCTGATATAATATAGTCACGAGTACATAGTACCTGATATAATATGATCATCGA
14519568 TACATAGTACCTGATA
1 TACATAGTACCTGATA
14519584 CTTTTAAATT
Statistics
Matches: 111, Mismatches: 25, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
61 3 0.03
62 104 0.94
63 4 0.04
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (62 bp):
TACATAGTACCTGATATAATATAGTCACGAGTACATAGTACCTGATATAATATGATCATCGA
Found at i:14524346 original size:17 final size:18
Alignment explanation
Indices: 14524316--14524349 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
14524306 ATTTAAATTG
14524316 CGGTCGCAGTCGCGTTTT
1 CGGTCGCAGTCGCGTTTT
14524334 CGGTCGC-GTCGCGTTT
1 CGGTCGCAGTCGCGTTT
14524350 GTCGCGGTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.29, G:0.35, T:0.32
Consensus pattern (18 bp):
CGGTCGCAGTCGCGTTTT
Found at i:14526172 original size:14 final size:14
Alignment explanation
Indices: 14526134--14526176 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
14526124 TAAAATGTAC
14526134 AATATAATTAAA-T
1 AATATAATTAAATT
14526147 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
14526162 AA-ATAATTTAATT
1 AATATAATTAAATT
14526175 AA
1 AA
14526177 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:14528659 original size:3 final size:3
Alignment explanation
Indices: 14528651--14528693 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
14528641 TAAAACAATT
**
14528651 TAA TAA TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14528694 GATGATGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14536789 original size:18 final size:17
Alignment explanation
Indices: 14536745--14536790 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
14536735 AAAAGTGACT
*
14536745 TTGATATTGAAAGTAAA
1 TTGAAATTGAAAGTAAA
*
14536762 TTGTACATTGAAAGTGAAA
1 TTG-AAATTGAAAGT-AAA
14536781 TTGAAATTGA
1 TTGAAATTGA
14536791 GAAAGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 16 0.64
19 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.20, T:0.35
Consensus pattern (17 bp):
TTGAAATTGAAAGTAAA
Found at i:14536915 original size:21 final size:21
Alignment explanation
Indices: 14536889--14536953 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
14536879 GGCCTTGCCG
14536889 ATTAGGCACTATATGTGTCGT
1 ATTAGGCACTATATGTGTCGT
* *
14536910 ATTAGGCACCATGTGTGTC-T
1 ATTAGGCACTATATGTGTCGT
* *
14536930 TTTCAGGCACTTTATGTGTCGT
1 ATT-AGGCACTATATGTGTCGT
14536952 AT
1 AT
14536954 ACTGCTTCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 3 0.09
21 30 0.86
22 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
ATTAGGCACTATATGTGTCGT
Found at i:14544774 original size:16 final size:16
Alignment explanation
Indices: 14544705--14544772 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
14544695 TTTGGTTCGC
14544705 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14544721 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14544737 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
14544753 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
14544769 TGTA
1 TGTA
14544773 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14544807 original size:45 final size:44
Alignment explanation
Indices: 14544753--14544847 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
14544743 GGATTAGAGG
* *
14544753 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
14544798 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
14544842 TGTAAT
1 TGTAAT
14544848 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:14545017 original size:25 final size:25
Alignment explanation
Indices: 14544985--14545039 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
14544975 TAATTTAATC
*
14544985 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
14545009 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
14545034 ATATAT
1 ATATAT
14545040 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:14545221 original size:47 final size:46
Alignment explanation
Indices: 14545170--14545330 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
14545160 GATTTAATAA
14545170 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
14545217 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
14545258 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
14545305 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
14545331 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:14558108 original size:50 final size:50
Alignment explanation
Indices: 14557997--14558183 Score: 182
Period size: 50 Copynumber: 3.8 Consensus size: 50
14557987 GGGTAAAGAG
* *
14557997 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGATGAGAA
** * * *
14558047 GTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCCATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGATGAGAA
* * * * * **
14558097 TTCTCATGTAAGGCCATATCTGGGATATGGCATTGGCAGTACAG--GA-AA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CCCAGATGAGAA
* * *
14558145 CATCCCATGTAAGACCATGTCTGGGAAATGGCTTTGGCA
1 -GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14558184 TGTTATTATC
Statistics
Matches: 110, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
48 2 0.02
49 34 0.31
50 72 0.65
51 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCCAGATGAGAA
Found at i:14560996 original size:19 final size:19
Alignment explanation
Indices: 14560974--14561011 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14560964 AACTAGGAAT
14560974 AGGAAATTCCATTAGGTTA
1 AGGAAATTCCATTAGGTTA
14560993 AGGAAATTCCATTAGGTTA
1 AGGAAATTCCATTAGGTTA
14561012 TTTTAGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
AGGAAATTCCATTAGGTTA
Found at i:14561033 original size:9 final size:9
Alignment explanation
Indices: 14561019--14561045 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14561009 TTATTTTAGG
14561019 TTAATTAAT
1 TTAATTAAT
14561028 TTAATTAAT
1 TTAATTAAT
14561037 TTAATTAAT
1 TTAATTAAT
14561046 ATTTTAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:14561555 original size:12 final size:11
Alignment explanation
Indices: 14561530--14561567 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
14561520 GAACATGGTG
14561530 AATTTTA-ATT
1 AATTTTATATT
14561540 AATTTTATAGTT
1 AATTTTATA-TT
14561552 AATTTT-TATT
1 AATTTTATATT
14561562 AATTTT
1 AATTTT
14561568 GAGTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:14565432 original size:323 final size:323
Alignment explanation
Indices: 14564838--14565480 Score: 1047
Period size: 323 Copynumber: 2.0 Consensus size: 323
14564828 TTAGAAGAAG
*
14564838 TTCAACCAAGTGTTGAAATTCCAGTTTCACCAGAACTAGAATCTGCAAAACCCAACAAAGTAACC
1 TTCAACCAAGTGTTAAAATTCCAGTTTCACCAGAACTAGAATCTGCAAAACCCAACAAAGTAACC
* * *
14564903 TCAGGACCAGCTAATTCTGATCAACTAACAACATCGTTAGATGCAGAATTTTTGAAGATGAATAA
66 TCAGGACCAGCTAATTCTGATAAACTAACAACATCGTTAGATGCAGAATTTCTGAAGACGAATAA
* *
14564968 AGCAGAATCAGTCCTAGTAATAAAACCACCACCACCCTACCCTCAAAGACTTCAGAAACAGAAGT
131 ACCAGAATCAGTCCTAGTAATAAAACCACCACCACCCTACCCTCAAAGACTTCAGAAACAGAAGC
* *
14565033 AGGAGATTCAATTTAAGAAGTTCCTTGACGTACTCAAGCAACTACACATCAACATCCCGTTGGTT
196 AGGAGATTCAATTCAAGAAGTTCCTTGACGTACTCAAGCAAATACACATCAACATCCCGTTGGTT
* * *
14565098 GAAGCACTTGAGCAAATG-CTAAACTACGTCAAGTTTATGAAATATATCTTGTTTAAGAAACGA
261 GAAGCACTTGAGCAAATGTC-AAACTACGTCAAGTTCATGAAAGATATCTTGTCTAAGAAACGA
* * * *
14565161 TTCAATCAAGTGTTAAAATTCCAGTTTCACCATAACTAGAATCTGTAAAACCTGAA-AAAGTAAC
1 TTCAACCAAGTGTTAAAATTCCAGTTTCACCAGAACTAGAATCTGCAAAACC-CAACAAAGTAAC
* * *
14565225 CTCAGGACCAGCTAATTCTGATAAACTAACAACGTCGTTAGATGCAGAGTTTCTGAAGACGAATC
65 CTCAGGACCAGCTAATTCTGATAAACTAACAACATCGTTAGATGCAGAATTTCTGAAGACGAATA
* *
14565290 AACCAGAATCAGTCTTAGTAATGAAACCACCACCACCCTACCCTCAAAGACTTCAGAAACAGAAG
130 AACCAGAATCAGTCCTAGTAATAAAACCACCACCACCCTACCCTCAAAGACTTCAGAAACAGAAG
* *
14565355 CAGGAGATTCAATTCAAGAAGTTCCTTGACGTACTCAAGCAAATTCACATCAACATTCCGTTGGT
195 CAGGAGATTCAATTCAAGAAGTTCCTTGACGTACTCAAGCAAATACACATCAACATCCCGTTGGT
*
14565420 TGAAGCACTTGAGCAAATGTCGAACTACGTCAAGTTCATGAAAGATATCTTGTCTAAGAAA
260 TGAAGCACTTGAGCAAATGTCAAACTACGTCAAGTTCATGAAAGATATCTTGTCTAAGAAA
14565481 TGAAGACTTA
Statistics
Matches: 295, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
323 292 0.99
324 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (323 bp):
TTCAACCAAGTGTTAAAATTCCAGTTTCACCAGAACTAGAATCTGCAAAACCCAACAAAGTAACC
TCAGGACCAGCTAATTCTGATAAACTAACAACATCGTTAGATGCAGAATTTCTGAAGACGAATAA
ACCAGAATCAGTCCTAGTAATAAAACCACCACCACCCTACCCTCAAAGACTTCAGAAACAGAAGC
AGGAGATTCAATTCAAGAAGTTCCTTGACGTACTCAAGCAAATACACATCAACATCCCGTTGGTT
GAAGCACTTGAGCAAATGTCAAACTACGTCAAGTTCATGAAAGATATCTTGTCTAAGAAACGA
Found at i:14569535 original size:22 final size:21
Alignment explanation
Indices: 14569510--14569553 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
14569500 TGATAAACTT
14569510 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
14569532 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
14569553 T
1 T
14569554 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:14577995 original size:3 final size:3
Alignment explanation
Indices: 14577987--14578026 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14577977 ACTTAGTTGT
14577987 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
14578027 CATCATCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14581103 original size:18 final size:18
Alignment explanation
Indices: 14581080--14581115 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14581070 ATATATTTTA
14581080 ATTTTAATACTTTTTAAT
1 ATTTTAATACTTTTTAAT
*
14581098 ATTTTAATATTTTTTAAT
1 ATTTTAATACTTTTTAAT
14581116 TAAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAATACTTTTTAAT
Found at i:14601348 original size:8 final size:8
Alignment explanation
Indices: 14601335--14601360 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14601325 GGGTAATTAC
14601335 ACTATTTA
1 ACTATTTA
14601343 ACTATTTA
1 ACTATTTA
14601351 ACTATTTA
1 ACTATTTA
14601359 AC
1 AC
14601361 ACTAAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (8 bp):
ACTATTTA
Found at i:14609270 original size:3 final size:3
Alignment explanation
Indices: 14609262--14609300 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
14609252 AATCTAGTCC
*
14609262 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14609301 CTTTTTAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14615970 original size:173 final size:174
Alignment explanation
Indices: 14615608--14616395 Score: 968
Period size: 173 Copynumber: 4.5 Consensus size: 174
14615598 ATTAGTGAAT
* * * *
14615608 ATCGAAAACA-AAGCCTTGCCTCCATCGGTTGTAGTGGAACTGATTAAAGATAGCAGATCTTGCC
1 ATCGAAGACACAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
14615672 TTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTG
66 TTCCTGCGTTAACAGCGAAGCAGATCG-AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTG
* * * *
14615737 GTTAAAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAG
130 GTTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAG
* *
14615782 ATCGAA-A-AAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
1 ATCGAAGACACAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
** *
14615845 TTCCTGCGTTAACAGCGAAGCAGATCGAAA-AAAGCCTTGCCTCCATTAGTTGCAGTGGAGTTGG
66 TTCCTGCGTTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGG
* * * *
14615909 TTAAAAATAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAG
131 TTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAG
* * * * *
14615953 ATCGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAGGTCAAAGATAGCAGATCTTGCC
1 ATCGAAGACACAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
* * *
14616018 TTCCTGCGTTAACAGCGAACCAGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGTTG
66 TTCCTGCGTTAACAGCGAAGCAGATCG-AAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTG
* * *
14616083 GTTGAAGACAACAGAGCTTGCCTTCCTGCCTTGACAGCGAAACAG
130 GTTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAG
* * * * *
14616128 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAATAGAGCTGGTTGAAGACAACAGATCTTGC
1 ATCGAAGACACAAGCCTTGCCTC-CATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
* * * * **
14616192 CTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTACCT--ATCTTGGTTATAGTGGA
65 CTTCCTGCGTTAACAGCGAAGCAGATCGAA-ACA-AAGCCTTGCCTCCATC--GGTTGCAGTGGA
* * * * *
14616255 GCTAGTTGAAGACAACATATCTTGCCTTCCTTCCTTGACAGCGAAGTAG
126 GCTGGTTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAG
* * * *
14616304 ATCGAAGACACAAACCTTGTCT-CACTCGGTTGTAGTGGAGCTGGTTGAAA-ACAACAGGTCTTG
1 ATCGAAGACACAAGCCTTGCCTCCA-TCGGTTGTAGTGGAGCTGGTT-AAAGATAACAGATCTTG
* *
14616367 CCTTCCT--GTTGACAGCGGAGCAGATCGAA
64 CCTTCCTGCGTTAACAGCGAAGCAGATCGAA
14616396 GACAGCAAAT
Statistics
Matches: 541, Mismatches: 60, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
171 76 0.14
172 5 0.01
173 153 0.28
174 35 0.06
175 149 0.28
176 121 0.22
177 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (174 bp):
ATCGAAGACACAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
TTCCTGCGTTAACAGCGAAGCAGATCGAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGG
TTAAAGACAACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAG
Found at i:14616017 original size:88 final size:87
Alignment explanation
Indices: 14615608--14616399 Score: 929
Period size: 88 Copynumber: 9.1 Consensus size: 87
14615598 ATTAGTGAAT
* * * *
14615608 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAACTGATTAAAGATAGCAGATCTTGCCT
1 ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
*
14615673 TCCTGCGTTAACAGCGAAGCAG
66 TCCTGCGTTGACAGCGAAGCAG
* * *
14615695 ATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
1 ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
*
14615760 TCCTGCGTTAACAGCGAAGCAG
66 TCCTGCGTTGACAGCGAAGCAG
* *
14615782 ATCGAA-AAAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
1 ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
*
14615846 TCCTGCGTTAACAGCGAAGCAG
66 TCCTGCGTTGACAGCGAAGCAG
** * * *
14615868 ATCGAA-A-AAAGCCTTGCCTCCATTAGTTGCAGTGGAGTTGGTTAAAAATAACAGATCTTGCCT
1 ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
* *
14615931 TCTTGCATTGACAGCGAAGCAG
66 TCCTGCGTTGACAGCGAAGCAG
* * * * *
14615953 ATCGAAGACACAAGCCTTGCCTCCCTCAGTTGTAGTGGAGCAGGTCAAAGATAGCAGATCTTGCC
1 ATCGAAGACA-AAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCC
* *
14616018 TTCCTGCGTTAACAGCGAACCAG
65 TTCCTGCGTTGACAGCGAAGCAG
* * * * * * *
14616041 ATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGTTGGTTGAAGACAACAGAGCTTGCCT
1 ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
* *
14616106 TCCTGCCTTGACAGCGAAACAG
66 TCCTGCGTTGACAGCGAAGCAG
* * * * *
14616128 ATCGAAGACACAAACCTTGCCTCTC-TCGGTTGTAATAGAGCTGGTTGAAGACAACAGATCTTGC
1 ATCGAAGACA-AAGCCTTGCCTC-CATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGC
*
14616192 CTTCCTGCATTGACAGCGAAGCAG
64 CTTCCTGCGTTGACAGCGAAGCAG
* * * * * * *
14616216 ATCGAAGACACAAACCTTACCT--ATCTTGGTTATAGTGGAGCTAGTTGAAGACAACATATCTTG
1 ATCGAAGACA-AAGCCTTGCCTCCATC--GGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTG
* * *
14616279 CCTTCCTTCCTTGACAGCGAAGTAG
63 CCTTCCTGCGTTGACAGCGAAGCAG
* * * *
14616304 ATCGAAGACACAAACCTTGTCT-CACTCGGTTGTAGTGGAGCTGGTTGAAA-ACAACAGGTCTTG
1 ATCGAAGACA-AAGCCTTGCCTCCA-TCGGTTGTAGTGGAGCTGGTT-AAAGATAACAGATCTTG
*
14616367 CCTTCCT--GTTGACAGCGGAGCAG
63 CCTTCCTGCGTTGACAGCGAAGCAG
14616390 ATCGAAGACA
1 ATCGAAGACA
14616400 GCAAATCTTA
Statistics
Matches: 626, Mismatches: 68, Indels: 23
0.87 0.09 0.03
Matches are distributed among these distances:
85 77 0.12
86 111 0.18
87 163 0.26
88 270 0.43
89 3 0.00
90 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (87 bp):
ATCGAAGACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAACAGATCTTGCCT
TCCTGCGTTGACAGCGAAGCAG
Found at i:14623594 original size:39 final size:39
Alignment explanation
Indices: 14623551--14623689 Score: 172
Period size: 39 Copynumber: 3.6 Consensus size: 39
14623541 CATATTCACT
* *
14623551 TTTAAACATATATCACATTACACATATAATCACATAGA-A
1 TTTAAACATATATCACAATACTCATATAATCACATA-ACA
* * *
14623590 TTTAAGCATATACCACAATACTCATATAATTACATAACA
1 TTTAAACATATATCACAATACTCATATAATCACATAACA
* * *
14623629 TTTAAGCATATATCACAAAACTCATGTAATCACATAACA
1 TTTAAACATATATCACAATACTCATATAATCACATAACA
* *
14623668 TTCAAAAATATATCACAATACT
1 TTTAAACATATATCACAATACT
14623690 AAAAAACATG
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
38 1 0.01
39 85 0.99
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.30
Consensus pattern (39 bp):
TTTAAACATATATCACAATACTCATATAATCACATAACA
Found at i:14625785 original size:2 final size:2
Alignment explanation
Indices: 14625780--14625805 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14625770 TTCTCTCTTT
14625780 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
14625806 TATATATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:14631038 original size:95 final size:95
Alignment explanation
Indices: 14630939--14631118 Score: 263
Period size: 95 Copynumber: 1.9 Consensus size: 95
14630929 ACCAACATAG
** *
14630939 GTATCAATACTTTGTTGAGTGTATCAATAC-TTTTTGTTTGTTTATCAATTTTTATTAACTTTAA
1 GTATCAATACTTTGTTGAGTGTATCAATACATTTGGGTTT-TTTATCAATTTTTATTAACTTCAA
**
14631003 AGCTCAATTTGGTATCGATACAAAAGGTTAT
65 AGCTCAAAGTGGTATCGATACAAAAGGTTAT
* * * *
14631034 GTATCGATACTTTGTTTAGTGTATCAATACATTTGGGTTTTTTTTCAATTTTTCTTAACTTCAAA
1 GTATCAATACTTTGTTGAGTGTATCAATACATTTGGGTTTTTTATCAATTTTTATTAACTTCAAA
14631099 GCTCAAAGTGGTATCGATAC
66 GCTCAAAGTGGTATCGATAC
14631119 CAACTAAGGG
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
95 68 0.91
96 7 0.09
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (95 bp):
GTATCAATACTTTGTTGAGTGTATCAATACATTTGGGTTTTTTATCAATTTTTATTAACTTCAAA
GCTCAAAGTGGTATCGATACAAAAGGTTAT
Found at i:14632996 original size:27 final size:26
Alignment explanation
Indices: 14632929--14633026 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
14632919 TAATGAGATT
14632929 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATT-AA
*
14632956 ATGCACTAAGTGTGCGAGTATAATGTAA
1 A-GCACTAAGTGTGCGAGTTTAAT-TAA
*
14632984 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTA--A
14633012 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14633027 TACTTATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTAATTAA
Found at i:14634108 original size:71 final size:71
Alignment explanation
Indices: 14634019--14634304 Score: 286
Period size: 71 Copynumber: 4.0 Consensus size: 71
14634009 TTGATGTCCG
*
14634019 TTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGATGTATTGATGCT
1 TTTTGAGTATATTAATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGATGTATTGATGCT
14634084 GTCCAA
66 GTCCAA
* * *
14634090 TTTTGAGTGTACTAATGCTGTCCATTTTAATGTATGATGCTGTCCAATTTTGAGTGTATTGATGC
1 TTTTGAGTATATTAATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGA-TGTATTGATGC
14634155 TGTCC-A
65 TGTCCAA
* * * * * *
14634161 TTTT-AATATA-TAATGCTGCCCGATTTTGA-GTATATTTAAGCTGTCTAA-TTTGATGTA-TAA
1 TTTTGAGTATATTAATGCTGTCC-ATTTTAATGTATA---ATGCTGTCCAATTTTGATGTATTGA
14634221 TGCTGTCCAA
62 TGCTGTCCAA
* * * * *
14634231 TTTTGAGTATATTTAA-GCTGTCTAATTTGATATATAGTGCTGTCC-ATTTTGA-GCATATT-AT
1 TTTTGAGTATA-TTAATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGATG--TATTGA-
14634292 TGCTGTCCAA
62 TGCTGTCCAA
14634302 TTT
1 TTT
14634305 GTTGAATAAT
Statistics
Matches: 180, Mismatches: 20, Indels: 30
0.78 0.09 0.13
Matches are distributed among these distances:
68 2 0.01
69 35 0.19
70 22 0.12
71 84 0.47
72 34 0.19
73 3 0.02
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (71 bp):
TTTTGAGTATATTAATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGATGTATTGATGCT
GTCCAA
Found at i:14634131 original size:47 final size:47
Alignment explanation
Indices: 14634031--14634300 Score: 257
Period size: 47 Copynumber: 5.8 Consensus size: 47
14634021 TTGAGTATAT
* *
14634031 TGATGCTGTCC-ATTTT-AATGTA-TAATGCTGTCCAATTTTGATGTA
1 TGATGCTGTCCAATTTTGAGTGTATTAATGCTGTCC-ATTTTAATGTA
*
14634076 TTGATGCTGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTAATGTA
1 -TGATGCTGTCCAATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
* *
14634124 TGATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATA
1 TGATGCTGTCCAATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
* * * * * * *
14634171 TAATGCTGCCCGATTTTGAGTATATTTAA-GCTGTCTAATTTGATGTA
1 TGATGCTGTCCAATTTTGAGTGTA-TTAATGCTGTCCATTTTAATGTA
* * * * * *
14634218 TAATGCTGTCCAATTTTGAGTATATTTAA-GCTGTCTAATTTGATATA
1 TGATGCTGTCCAATTTTGAGTGTA-TTAATGCTGTCCATTTTAATGTA
** *
14634265 T-AGTGCTGTCC-ATTTTGAGCATATTATTGCTGTCCA
1 TGA-TGCTGTCCAATTTTGAGTGTATTAATGCTGTCCA
14634301 ATTTGTTGAA
Statistics
Matches: 198, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.02
46 30 0.15
47 136 0.69
48 18 0.09
49 11 0.06
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (47 bp):
TGATGCTGTCCAATTTTGAGTGTATTAATGCTGTCCATTTTAATGTA
Found at i:14634159 original size:118 final size:117
Alignment explanation
Indices: 14634019--14634234 Score: 319
Period size: 118 Copynumber: 1.8 Consensus size: 117
14634009 TTGATGTCCG
* * * *
14634019 TTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGA-TGTATTGATGC
1 TTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGCCCAATTTTGAGTATATTGAAGC
14634083 TGTCCAATTTTGAGTGTACTAATGCTGTCC-ATTTTAATGTATGATGCTGTCCAA
66 TGTCCAA-TTTGA-TGTA-TAATGCTGTCCAATTTTAATGTATGATGCTGTCCAA
* * *
14634137 TTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGCTGCCCGATTTTGAGTATATTTAAGC
1 TTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGCCCAATTTTGAGTATATTGAAGC
*
14634202 TGTCTAATTTGATGTATAATGCTGTCCAATTTT
66 TGTCCAATTTGATGTATAATGCTGTCCAATTTT
14634235 GAGTATATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
116 11 0.12
117 9 0.10
118 54 0.61
119 14 0.16
ACGTcount: A:0.24, C:0.13, G:0.18, T:0.45
Consensus pattern (117 bp):
TTTTGAGTATATTGATGCTGTCCATTTTAATATATAATGCTGCCCAATTTTGAGTATATTGAAGC
TGTCCAATTTGATGTATAATGCTGTCCAATTTTAATGTATGATGCTGTCCAA
Found at i:14634319 original size:94 final size:94
Alignment explanation
Indices: 14634106--14634324 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 94
14634096 GTGTACTAAT
* * * * * * *
14634106 GCTGTCCATTTTAATGTATGATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATA
1 GCTGTCCAATTTGATGAATAATGCTGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATATA
*
14634171 TAATGCTGCCCGATTTTGAGTATATTTAA
66 TAATGCTGCCCGATTTTGAGCATATTTAA
* * * * *
14634200 GCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATATA
1 GCTGTCCAATTTGATGAATAATGCTGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATATA
* * *
14634265 TAGTGCTGTCC-ATTTTGAGCATA-TTATT
66 TAATGCTGCCCGATTTTGAGCATATTTA-A
*
14634293 GCTGTCCAATTTGTTGAATAATTGCTGTCCAA
1 GCTGTCCAATTTGATGAATAA-TGCTGTCCAA
14634325 AACAGGGTTG
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
92 3 0.03
93 29 0.27
94 74 0.70
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (94 bp):
GCTGTCCAATTTGATGAATAATGCTGTCCAATTTTGAGTATATTGAAGCTGTCCAATTTAATATA
TAATGCTGCCCGATTTTGAGCATATTTAA
Found at i:14640807 original size:27 final size:26
Alignment explanation
Indices: 14640740--14640837 Score: 133
Period size: 28 Copynumber: 3.6 Consensus size: 26
14640730 TAATGAGATT
14640740 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATT-AA
*
14640767 ATGCACTAAGTGTGCGAGTATAATGTAA
1 A-GCACTAAGTGTGCGAGTTTAAT-TAA
*
14640795 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTA--A
14640823 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
14640838 TACTTATTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
26 2 0.03
27 21 0.33
28 40 0.62
29 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGAGTTTAATTAA
Found at i:14641890 original size:47 final size:47
Alignment explanation
Indices: 14641824--14642134 Score: 394
Period size: 47 Copynumber: 6.7 Consensus size: 47
14641814 CCAAATTTGA
14641824 TGTCC-ATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* *
14641870 TGTCCAATTTTGAATGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * *
14641917 TGTCCAATTTTGAGTGTACTAATGCTGTCCATTTTAATGTATGATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* *
14641964 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATAATGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * *
14642011 TGTCCGATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAATAC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
* * * * * *
14642058 TGTCCAATTTTGAGTATATTTAAGCTGTCTAATTTGATGTATAGTGC
1 TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
*
14642105 TGTCC-ATTTTGAGCATATT-ATTGCTGTCCA
1 TGTCCAATTTTGAGTATATTGA-TGCTGTCCA
14642135 ATTTGTTGAA
Statistics
Matches: 238, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 25 0.11
47 212 0.89
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTATATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:14643521 original size:13 final size:13
Alignment explanation
Indices: 14643503--14643527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14643493 CGATTAGATT
14643503 AGTAATTAATTTC
1 AGTAATTAATTTC
14643516 AGTAATTAATTT
1 AGTAATTAATTT
14643528 AACAATAAAT
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AGTAATTAATTTC
Found at i:14643845 original size:5 final size:5
Alignment explanation
Indices: 14643837--14643861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14643827 TTCATTTTCA
14643837 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
14643862 CAGTTACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:14644653 original size:43 final size:43
Alignment explanation
Indices: 14644605--14644690 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
14644595 GATCCCATTG
14644605 GATAAGGTCGAACATGATGCCCCAAACTATGATTATGAGACTT
1 GATAAGGTCGAACATGATGCCCCAAACTATGATTATGAGACTT
14644648 GATAAGGTCGAACATGATGCCCCAAACTATGATTATGAGACTT
1 GATAAGGTCGAACATGATGCCCCAAACTATGATTATGAGACTT
14644691 ACTATGGCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
GATAAGGTCGAACATGATGCCCCAAACTATGATTATGAGACTT
Found at i:14652508 original size:233 final size:233
Alignment explanation
Indices: 14652101--14652565 Score: 894
Period size: 233 Copynumber: 2.0 Consensus size: 233
14652091 AATATTAATA
14652101 CATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGGTGCATAATGGTATTTGTT
1 CATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGGTGCATAATGGTATTTGTT
14652166 TCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGTCTGA
66 TCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGTCTGA
14652231 AGGTGTCTTGATTCTTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGCCTCA
131 AGGTGTCTTGATTCTTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGCCTCA
14652296 AGGAACTTCAGCTTTCTGATTTCAAAATAAAATAAATG
196 AGGAACTTCAGCTTTCTGATTTCAAAATAAAATAAATG
* *
14652334 CATATTGGATATTCGTGAATATTGATTAACTACTGTAGATATAATGGTGCATAATGGTATTTGTT
1 CATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGGTGCATAATGGTATTTGTT
14652399 TCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGTCTGA
66 TCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGTCTGA
*
14652464 AGGTGTCTTGATTCTTTCTCTATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGCCTCA
131 AGGTGTCTTGATTCTTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGCCTCA
*
14652529 AGGAACTTTAGCTTTCTGATTTCAAAATAAAATAAAT
196 AGGAACTTCAGCTTTCTGATTTCAAAATAAAATAAAT
14652566 CTTTATTTTT
Statistics
Matches: 228, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
233 228 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.43
Consensus pattern (233 bp):
CATATTGGATATTCATGAATATTGATTAACTACTGCAGATATAATGGTGCATAATGGTATTTGTT
TCTGTAAATTACTGATTTGCTTCAATTTGTTTCGGTGTTAAATTGTGTACTTGTTATTCGTCTGA
AGGTGTCTTGATTCTTTCTCCATTTATGAAGTTTATTTAGAATAGCTTACTTGTCCAATGCCTCA
AGGAACTTCAGCTTTCTGATTTCAAAATAAAATAAATG
Found at i:14653690 original size:34 final size:34
Alignment explanation
Indices: 14653632--14653697 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
14653622 CAAACACCAG
*
14653632 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTTCAGAAAATCATTTTAC-GAAAAGT
14653667 AAAATATTTTTCA-AAAATCATTTTACGAAAA
1 AAAATATTTTTCAGAAAATCATTTTACGAAAA
14653698 ATATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (34 bp):
AAAATATTTTTCAGAAAATCATTTTACGAAAAGT
Found at i:14654832 original size:16 final size:16
Alignment explanation
Indices: 14654811--14654841 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14654801 ATATTAGTGT
*
14654811 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
14654827 TATTTAATATTAAAA
1 TATTTAATATTAAAA
14654842 TCATACAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:14658106 original size:8 final size:9
Alignment explanation
Indices: 14658081--14658105 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14658071 CCCCAACTCA
14658081 ATTAAAAAT
1 ATTAAAAAT
14658090 ATTAAAAAT
1 ATTAAAAAT
14658099 ATTAAAA
1 ATTAAAA
14658106 TCGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:14658629 original size:2 final size:2
Alignment explanation
Indices: 14658622--14658646 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14658612 ATAGGATGTG
14658622 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14658647 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14663178 original size:20 final size:20
Alignment explanation
Indices: 14663155--14663209 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
14663145 TCAAAGGTCG
14663155 AGTATCGATACTTTGAAAAA
1 AGTATCGATACTTTGAAAAA
* * **
14663175 AGTATAGATACTTAGAGCAA
1 AGTATCGATACTTTGAAAAA
14663195 AGTATCGATA-TTTGA
1 AGTATCGATACTTTGA
14663210 GGTATTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTTTGAAAAA
Found at i:14664492 original size:29 final size:29
Alignment explanation
Indices: 14664457--14664519 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
14664447 TTTTTTTTTA
*
14664457 ATTTACCGAAATAGATCCGGTATTTTATT
1 ATTTACCGAAATAGACCCGGTATTTTATT
*
14664486 ATTTACCGAAATAGACCCTGTATTTTATT
1 ATTTACCGAAATAGACCCGGTATTTTATT
14664515 ATTTA
1 ATTTA
14664520 TTGGAATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (29 bp):
ATTTACCGAAATAGACCCGGTATTTTATT
Found at i:14664838 original size:11 final size:12
Alignment explanation
Indices: 14664817--14664881 Score: 75
Period size: 11 Copynumber: 5.8 Consensus size: 12
14664807 AACTAATCCT
14664817 CTCTCAAATTTC
1 CTCTCAAATTTC
14664829 CTCT-AAATTTC
1 CTCTCAAATTTC
* *
14664840 CTCTC-ATTTTG
1 CTCTCAAATTTC
14664851 CTCTCAAA-TTC
1 CTCTCAAATTTC
*
14664862 CTTTCAAATTT-
1 CTCTCAAATTTC
14664873 CTCTCAAAT
1 CTCTCAAAT
14664882 CCATATTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
11 37 0.84
12 7 0.16
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.45
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:14664902 original size:51 final size:51
Alignment explanation
Indices: 14664841--14664940 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
14664831 CTAAATTTCC
*
14664841 TCTCATTTTGCTCTCAAATTCCT-TTCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCTT-AAATTTCTCTCAAATCCATATTTAA
* * *
14664892 TCTCAATTTGCTCTCAACTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTT
14664941 TTAAATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.95
52 2 0.05
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTTAAATTTCTCTCAAATCCATATTTAA
Found at i:14665175 original size:21 final size:19
Alignment explanation
Indices: 14665126--14665181 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
14665116 AATTTTCGAG
14665126 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
14665145 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
14665164 GATATATACAATCTTAGA
1 G--ATATACAATCTTAGA
14665182 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.58
21 14 0.42
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:14665185 original size:24 final size:23
Alignment explanation
Indices: 14665128--14665204 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 23
14665118 TTTTCGAGGA
14665128 TATACAATCTT---AGATATGA-
1 TATACAATCTTAGAAGATATGAT
*
14665147 TATGCAATCTTAG---ATATGAT
1 TATACAATCTTAGAAGATATGAT
14665167 ATATACAATCTTAGAAGATATGAT
1 -TATACAATCTTAGAAGATATGAT
* *
14665191 TTTATAATCTTAGA
1 TATACAATCTTAGA
14665205 GATTTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
19 16 0.34
21 12 0.26
23 12 0.26
24 7 0.15
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (23 bp):
TATACAATCTTAGAAGATATGAT
Found at i:14665203 original size:23 final size:24
Alignment explanation
Indices: 14665158--14665204 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
14665148 ATGCAATCTT
14665158 AGATATGATATATACAATCTTAGA
1 AGATATGATATATACAATCTTAGA
* *
14665182 AGATATGAT-TTTATAATCTTAGA
1 AGATATGATATATACAATCTTAGA
14665205 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (24 bp):
AGATATGATATATACAATCTTAGA
Found at i:14665404 original size:19 final size:21
Alignment explanation
Indices: 14665380--14665418 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14665370 ACTGTTTTAT
*
14665380 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
14665399 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
14665419 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:14668979 original size:21 final size:21
Alignment explanation
Indices: 14668955--14669830 Score: 569
Period size: 22 Copynumber: 41.0 Consensus size: 21
14668945 TAAAAATGCT
*
14668955 AACCCTAACCCTAAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
14668976 AACCCTAACTCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
14668996 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * **
14669018 TACCCTAACCCTTTTTTATCAAAAAA
1 AACCCTAACCC----TTAAC-TTAAA
*
14669044 ATACCCTCACCCTTAACTTAAA
1 A-ACCCTAACCCTTAACTTAAA
*
14669066 AACCTTAAACCCTTAACTT-AA
1 AACCCT-AACCCTTAACTTAAA
14669087 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
14669109 AACCCTAAACCCTAAACCCT-AA
1 AACCCT-AACCCTTAA-CTTAAA
* * * *
14669131 AATCCTAAACCTTTAAATTTAA
1 AACCCT-AACCCTTAACTTAAA
* *
14669153 AACTCTAAACC----C-T-AA
1 AACCCTAACCCTTAACTTAAA
* * *
14669168 AACCCTAAATCCATAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
14669190 AACCTTAACCATTAACATAAA
1 AACCCTAACCCTTAACTTAAA
* *
14669211 AACCTTAAACCCTTAACATAAA
1 AACCCT-AACCCTTAACTTAAA
* *
14669233 AACCTTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
14669255 AGCCCTAACCCTCAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* *
14669276 AACTCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
14669298 AACCCTAAGCACTTAACTTTAA
1 AACCCTAA-CCCTTAACTTAAA
*
14669320 AACCCTAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
14669342 AAACGTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
14669363 AACCATAAACCTTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
**
14669385 AACTATAACCCTTTAA-TTAAA
1 AACCCTAACCC-TTAACTTAAA
** *
14669406 AATTCTAA-----ACCTT-AA
1 AACCCTAACCCTTAACTTAAA
* *
14669421 AACCATAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
14669443 AACCTTAAACCCTAAAACTTTAA
1 AACCCT-AACCCT-TAACTTAAA
* * *
14669466 AACCCTAAATCCATAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
**
14669488 AACCCTAACTTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
14669509 AACCTTACACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTTAAA
* *
14669531 AACTCTAAACCCTTAAATTAAA
1 AACCCT-AACCCTTAACTTAAA
*
14669553 AACCCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
14669574 AACCCTAAACCCTTAATTTAAA
1 AACCCT-AACCCTTAACTTAAA
** *
14669596 AACTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
14669617 AACACTAACACTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
**
14669638 AACATTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * *
14669660 AATCGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* * *
14669681 AACTCTAACCTTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
14669702 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* * ** *
14669724 AATCATTGCCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
* *
14669745 AACCTTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * * *
14669767 AATCGTAACCCTTAAATAAAAA
1 AACCCTAACCCTTAACT-TAAA
** *
14669789 AACCCTGTCACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
14669810 AACCCTAGCCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
14669831 TATAATTTAA
Statistics
Matches: 665, Mismatches: 149, Indels: 82
0.74 0.17 0.09
Matches are distributed among these distances:
15 13 0.02
16 9 0.01
20 8 0.01
21 282 0.42
22 312 0.47
23 25 0.04
25 4 0.01
26 3 0.00
27 9 0.01
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:14669098 original size:7 final size:7
Alignment explanation
Indices: 14669086--14669141 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
14669076 CCTTAACTTA
14669086 AAACCCT
1 AAACCCT
14669093 AAACCCT
1 AAACCCT
* *
14669100 TAA-CTT
1 AAACCCT
14669106 AAAAACCCT
1 --AAACCCT
14669115 AAACCCT
1 AAACCCT
14669122 AAACCCT
1 AAACCCT
*
14669129 AAAATCCT
1 -AAACCCT
14669137 AAACC
1 AAACC
14669142 TTTAAATTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
6 2 0.05
7 27 0.69
8 8 0.21
9 2 0.05
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (7 bp):
AAACCCT
Found at i:14669099 original size:43 final size:43
Alignment explanation
Indices: 14668955--14669830 Score: 501
Period size: 43 Copynumber: 20.5 Consensus size: 43
14668945 TAAAAATGCT
* * *
14668955 AACCCT-AACCCTAAACTTAAAAACCCT-AACTCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
* * ***
14668996 AACCCTAAACCCTTAACTTAAATACCCT-AACCCTTTTTTATCAAAAAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCC----TTA--ACTTAA
*
14669044 ATACCCT-CACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
1 A-ACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
* * *
14669087 AACCCTAAACCCTTAACTTAAAAACCCTAAACCCTAAACCCTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAA-CTTAA
* * * *
14669131 AATCCTAAACCTTTAAATTTAAAA-CTCTAAA-CC----C-TAA
1 AACCCTAAACCCTTAACTTAAAAACCT-TAAACCCTTAACTTAA
* * * * *
14669168 AACCCTAAATCCATAAATTAAAAACCTT-AACCATTAACATAAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAAC-TTAA
* * *
14669211 AACCTTAAACCCTTAACATAAAAACCTTAAACCCTTAAATTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
* * *
14669254 AAGCCCT-AACCCTCAACTTTAAAA-CTCTAAACCCTTAAATTAAA
1 AA-CCCTAAACCCTTAACTTAAAAACCT-TAAACCCTTAACTT-AA
* * * * *
14669298 AACCCTAAGCACTTAACTTTAAAACCCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAA-CTTAA
* * * * *
14669342 AAACGT-AACCCTTAACTTAAAAACCATAAACCTTTAAATTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
* *
14669384 AA-ACTATAACCCTTTAA-TTAAAAA--TT-----CTAAACCTTAA
1 AACCCTA-AACCC-TTAACTTAAAAACCTTAAACCCTTAA-CTTAA
* * *
14669421 AACCATAAACCCTTAAATTAAAAACCTTAAACCCTAAAACTTTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCT-TAAC-TTAA
* * * * **
14669466 AACCCTAAATCCATAAATTAAAAACCCT-AACTTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTT-AA
* * *
14669509 AACCTTACACCCTTAACTTAAAAA-CTCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCT-TAAACCCTTAACTT-AA
* * *
14669553 AACCCT-AACCCTTAACTTTAAAACCCTAAACCCTTAATTTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
* * * *
14669595 AA-ACTGTAACCCTTAAATTAAAAACAC-T-AACACTTAACTTTAA
1 AACCCT-AAACCCTTAACTTAAAAAC-CTTAAACCCTTAAC-TTAA
** * * *
14669638 AACATTAAACCCTTAACTTAAAAATCGT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTT-AA
* * * *
14669681 AACTCT-AACCTTTAACTTTAAAACCCTAAACCCTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
** ** *
14669723 AAATC-ATTGCCCTTAAATTAAAAACCTTAAACCCTTAACTTTAA
1 AACCCTA-AACCCTTAACTTAAAAACCTTAAACCCTTAAC-TTAA
* * * * * ** *
14669767 AATCGT-AACCCTTAAATAAAAAAACCCT-GTCACTTAACTTAAA
1 AACCCTAAACCCTTAACT-TAAAAACCTTAAACCCTTAACTT-AA
*
14669810 AACCCT-AGCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
14669831 TATAATTTAA
Statistics
Matches: 651, Mismatches: 124, Indels: 119
0.73 0.14 0.13
Matches are distributed among these distances:
36 9 0.01
37 42 0.06
38 5 0.01
39 2 0.00
41 11 0.02
42 81 0.12
43 310 0.48
44 120 0.18
45 36 0.06
46 3 0.00
48 22 0.03
49 10 0.02
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTAAAAACCTTAAACCCTTAACTTAA
Found at i:14669105 original size:91 final size:91
Alignment explanation
Indices: 14668956--14669121 Score: 271
Period size: 91 Copynumber: 1.8 Consensus size: 91
14668946 AAAAATGCTA
* *
14668956 ACCCTAACCCTAAACTTAAAAACCCTAACTCTTAACTTAAAACCCTAAACCCTTAACTTAAATAC
1 ACCCTAACCCTAAACTTAAAAACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAAAAC
14669021 CCT-AACCCTTTTTTATCAAAAAAAT
66 CCTAAACCCTTTTTTATCAAAAAAAT
* * *
14669046 ACCCTCACCCTTAACTTAAAAACCTTAAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAAAA
1 ACCCTAACCCTAAACTTAAAAACCCT-AACCCTTAACTTAAAACCCTAAACCCTTAACTTAAAAA
14669111 CCCTAAACCCT
65 CCCTAAACCCT
14669122 AAACCCTAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
90 23 0.33
91 40 0.58
92 6 0.09
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.26
Consensus pattern (91 bp):
ACCCTAACCCTAAACTTAAAAACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAAAAC
CCTAAACCCTTTTTTATCAAAAAAAT
Found at i:14669139 original size:15 final size:14
Alignment explanation
Indices: 14669086--14669141 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
14669076 CCTTAACTTA
14669086 AAACCCTAAACCCT
1 AAACCCTAAACCCT
* *
14669100 TAA-CTTAAAAACCCT
1 AAACCCT--AAACCCT
14669115 AAACCCTAAACCCT
1 AAACCCTAAACCCT
*
14669129 AAAATCCTAAACC
1 -AAACCCTAAACC
14669142 TTTAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 20 0.61
16 2 0.06
ACGTcount: A:0.46, C:0.36, G:0.00, T:0.18
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:14669161 original size:8 final size:8
Alignment explanation
Indices: 14669107--14669176 Score: 51
Period size: 7 Copynumber: 9.4 Consensus size: 8
14669097 CCTTAACTTA
14669107 AAAACCCT
1 AAAACCCT
14669115 -AAACCCT
1 AAAACCCT
14669122 -AAACCCT
1 AAAACCCT
*
14669129 AAAATCCT
1 AAAACCCT
*
14669137 -AAACCTT
1 AAAACCCT
* **
14669144 TAAA-TTT
1 AAAACCCT
*
14669151 AAAACTCT
1 AAAACCCT
14669159 -AAACCCT
1 AAAACCCT
14669166 AAAACCCT
1 AAAACCCT
14669174 AAA
1 AAA
14669177 TCCATAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
7 30 0.59
8 21 0.41
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAACCCT
Found at i:14669185 original size:37 final size:37
Alignment explanation
Indices: 14669115--14669193 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
14669105 TAAAAACCCT
* * *
14669115 AAACCCTAAACCCTAAAATCCTAAACCTTTAAATTTA
1 AAACCCTAAACCCTAAAACCCTAAACCTATAAATTAA
*
14669152 AAACTCTAAACCCTAAAACCCTAAATCC-ATAAATTAA
1 AAACCCTAAACCCTAAAACCCTAAA-CCTATAAATTAA
14669189 AAACC
1 AAACC
14669194 TTAACCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 34 0.94
38 2 0.06
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (37 bp):
AAACCCTAAACCCTAAAACCCTAAACCTATAAATTAA
Found at i:14669452 original size:37 final size:36
Alignment explanation
Indices: 14669383--14669460 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
14669373 CTTTAAATTA
* * * *
14669383 AAAACTATAACCCTTTAATTAAAAATTCTAAACCTT
1 AAAACCATAACCCTTAAATTAAAAACTCTAAACCCT
14669419 AAAACCATAAACCCTTAAATTAAAAAC-CTTAAACCCT
1 AAAACCAT-AACCCTTAAATTAAAAACTC-TAAACCCT
14669456 AAAAC
1 AAAAC
14669461 TTTAAAACCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 8 0.22
37 28 0.78
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (36 bp):
AAAACCATAACCCTTAAATTAAAAACTCTAAACCCT
Found at i:14669459 original size:15 final size:16
Alignment explanation
Indices: 14669412--14669474 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
14669402 TAAAAATTCT
*
14669412 AAACCTTAAAACCATA
1 AAACCTTAAAACCCTA
* *
14669428 AACCCTT-AAA--TTAA
1 AAACCTTAAAACCCT-A
14669442 AAACCTT-AAACCCTA
1 AAACCTTAAAACCCTA
*
14669457 AAACTTTAAAACCCTA
1 AAACCTTAAAACCCTA
14669473 AA
1 AA
14669475 TCCATAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 10 0.26
16 17 0.45
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.22
Consensus pattern (16 bp):
AAACCTTAAAACCCTA
Found at i:14669727 original size:64 final size:64
Alignment explanation
Indices: 14669185--14669827 Score: 492
Period size: 65 Copynumber: 10.0 Consensus size: 64
14669175 AATCCATAAA
* * * * * * *
14669185 TTAAAAACCTTAACCATTAACATAAAAACCTTAAACCCTTAACA-TAAAAACCTTAAACCCTTAA
1 TTAAAACCCTAAACCCTTAACTTAAAAATCGT-AACCCTTAA-ATTAAAAACCCT-AACCCTTAA
*
14669249 -A
63 CT
* * *
14669250 TTAAAAGCCCT-AACCCTCAACTTTAAAACTC-TAAACCCTTAAATTAAAAACCCTAAGCACTTA
1 TTAAAA-CCCTAAACCCTTAAC-TTAAAAATCGT-AACCCTTAAATTAAAAACCCTAA-CCCTTA
14669313 ACT
62 ACT
* * * * * *
14669316 TTAAAACCCTAAACCCTTAACCTAAAAAACGTAACCCTTAACTTAAAAACCATAAACCTTTAA-A
1 TTAAAACCCTAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACCCT-AACCCTTAACT
* * *
14669380 TTAAAA-ACTATAACCCTTTAA-TTAAAAATTC-TAAACC-----TT-AAAACCATAAACCCTTA
1 TTAAAACCCTA-AACCC-TTAACTTAAAAA-TCGTAACCCTTAAATTAAAAACCCT-AACCCTTA
*
14669436 AAT
62 ACT
* * * * * * * * **
14669439 TAAAAACCTTAAACCCTAAAACTTTAAAACCCTAAATCCATAAATTAAAAACCCTAACTTTTAAC
1 TTAAAACCCTAAACCCT-TAACTTAAAAATCGT-AACCCTTAAATTAAAAACCCTAACCCTTAAC
14669504 T
64 T
* * *
14669505 TAAAAACCTTACACCCTTAACTTAAAAACTC-TAAACCCTTAAATTAAAAACCCTAACCCTTAAC
1 TTAAAACCCTAAACCCTTAACTTAAAAA-TCGT-AACCCTTAAATTAAAAACCCTAACCCTTAAC
14669569 T
64 T
* * *
14669570 TTAAAACCCTAAACCCTTAATTTAAAAA-CTGTAACCCTTAAATTAAAAACACTAACACTTAACT
1 TTAAAACCCTAAACCCTTAACTTAAAAATC-GTAACCCTTAAATTAAAAACCCTAACCCTTAACT
** * *
14669634 TTAAAACATTAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACTCTAACCTTTAACT
1 TTAAAACCCTAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACCCTAACCCTTAACT
* ** *
14669698 TTAAAACCCTAAACCCTTAACTTAAAAATCATTGCCCTTAAATTAAAAACCTTAAACCCTTAACT
1 TTAAAACCCTAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACCCT-AACCCTTAACT
* * * * * * ** * * *
14669763 TTAAAATCGT-AACCCTTAAATAAAAAAACCCTGTCACTTAACTTAAAAACCCTAGCCCTTAACT
1 TTAAAACCCTAAACCCTTAACT-TAAAAATCGTAACCCTTAAATTAAAAACCCTAACCCTTAACT
14669827 T
1 T
14669828 AAATATAATT
Statistics
Matches: 474, Mismatches: 75, Indels: 59
0.78 0.12 0.10
Matches are distributed among these distances:
58 18 0.04
59 15 0.03
60 9 0.02
61 4 0.01
63 4 0.01
64 178 0.38
65 185 0.39
66 54 0.11
67 7 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (64 bp):
TTAAAACCCTAAACCCTTAACTTAAAAATCGTAACCCTTAAATTAAAAACCCTAACCCTTAACT
Found at i:14673172 original size:126 final size:126
Alignment explanation
Indices: 14672969--14673633 Score: 817
Period size: 126 Copynumber: 5.3 Consensus size: 126
14672959 ACCACGTGGT
* * * *
14672969 GCGATTTCACAAATTCTTCTCATATAGCATCCTGCTAGAA--G-TGATTTTATACTATTTTCTCA
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTTG-TTTTATACTATTTGCTCA
* *
14673031 GAAACGTCAAGTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGTGCGTCCACGAGGGC
65 GAAACGTCAACTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
*
14673093 GCGATTTCACAAATTCTTCTCA-AATAGCATCCTACTTGCAGCGTTGTTTTATACTATTTGCTCA
1 GCGATTTCACAAATTCTTCTCATAA-AGCATCCTACTTGAAGCGTTGTTTTATACTATTTGCTCA
* * * * * * *
14673157 GAAACGTTAAGTCGAAATTATTCTTCCAGGACCTACTGCAGCAAAAGCGTGTCCACGTGGGC
65 GAAACGTCAACTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
** * * *
14673219 ATGATTTCACAAATTCTTCTCA-AATAGCATCTTTCTTGCAA-TGTTGTTTTATACTATTTGCTC
1 GCGATTTCACAAATTCTTCTCATAA-AGCATCCTACTTG-AAGCGTTGTTTTATACTATTTGCTC
* * * * *
14673282 AGAAACGTCAACTCAAAATTATTTTTTTCAGGACCTACTGTAGCAAAAGTGCGTCCATGTGGGC
64 AGAAACGTCAACTCGAAATTATTTTTCT-AGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* * * *
14673346 GCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGCATT-TTTTAAACTATTTGCTCAG
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTTGTTTTATACTATTTGCTCAG
* * *
14673410 AAACGTCAACTCAAAATTATTTCTTTTAGGACCAACTGTAGCAAAAGCGCGTCCACGAGGGC
66 AAACGTCAACTCGAAATTATTT-TTCTAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
* *
14673472 GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTT-TTTTAAACTATTTACTCAG
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTTGTTTTATACTATTTGCTCAG
* * * * *
14673536 AAACGTCAACTCGAAATTATTTTTCCAGGACCTAATGTAACAAAAGAGCGTACAC-ATGGGC
66 AAACGTCAACTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGCGCGTCCACGA-GGGC
* * * * *
14673597 GCGACTTCAAAAATCCTTCTGATAAATCATCCTACTT
1 GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTT
14673634 TGATTTTATC
Statistics
Matches: 474, Mismatches: 57, Indels: 19
0.86 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 35 0.07
125 62 0.13
126 304 0.64
127 70 0.15
128 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (126 bp):
GCGATTTCACAAATTCTTCTCATAAAGCATCCTACTTGAAGCGTTGTTTTATACTATTTGCTCAG
AAACGTCAACTCGAAATTATTTTTCTAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGC
Found at i:14673455 original size:253 final size:249
Alignment explanation
Indices: 14672944--14673633 Score: 863
Period size: 253 Copynumber: 2.7 Consensus size: 249
14672934 AACATGCTAT
* * * * *
14672944 TGTAGCATAAGCGTGACCACGTGGTGCGATTTCACAAATTCTTCTCATATAGCATCCTGCTAGAA
1 TGTAGCAAAAGCGTGTCCACGTGG-GCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAA
* * *
14673009 G-TGATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTTTCT-AGGACCTACTGTAG
65 GTTG-TTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCTACTGTAG
* * * *
14673072 CAAAAGTGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTACTTGCAGCG
129 CAAAAGTGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAA-AGCATCCTACTTGAAGCA
* * * * *
14673136 TTGTTTTATACTATTTGCTCAGAAACGTTAAGTCGAAATTATTCTTCCAGGACCTAC
193 TTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTCTTCCAGGACCAAC
* * *
14673193 TGCAGCAAAAGCGTGTCCACGTGGGCATGATTTCACAAATTCTTCTCAAATAGCATCTTTCTTGC
1 TGTAGCAAAAGCGTGTCCACGTGGGC--GATTTCACAAATTCTTCTCAAATAGCATCCTACTTG-
* *
14673258 AATGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTTCAGGACCTACTGT
63 AA-GTTGTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCTACTGT
* *
14673323 AGCAAAAGTGCGTCCATGTGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTGCTTGAAGC
127 AGCAAAAGTGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTACTTGAAGC
**
14673388 ATT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTTTAGGACCAAC
192 ATTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTCTTCCAGGACCAAC
* *
14673446 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTACTTG
1 TGTAGCAAAAGCGTGTCCACG-TGG-GCGATTTCACAAATTCTTCTCA-AATAGCATCCTACTTG
* * *
14673510 AAGCGTT-TTTTAAACTATTTACTCAGAAACGTCAACTCGAAATTA-TTTTTCCAGGACCTAATG
63 AA--GTTGTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCTACTG
* * * * * * * *
14673573 TAACAAAAGAGCGTACACATGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTACTT
126 TAGCAAAAGTGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTACTT
14673634 TGATTTTATC
Statistics
Matches: 384, Mismatches: 45, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
248 2 0.01
249 21 0.05
250 32 0.08
251 69 0.18
252 113 0.29
253 139 0.36
254 6 0.02
255 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (249 bp):
TGTAGCAAAAGCGTGTCCACGTGGGCGATTTCACAAATTCTTCTCAAATAGCATCCTACTTGAAG
TTGTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTTTCAGGACCTACTGTAGCA
AAAGTGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAGCATCCTACTTGAAGCATTG
TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTCTTCCAGGACCAAC
Found at i:14677469 original size:29 final size:33
Alignment explanation
Indices: 14677437--14677496 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
14677427 ATAACATATA
14677437 TAAAA-ACTT-AAAAT-AAATAATA-ATAAATC
1 TAAAATACTTCAAAATAAAATAATATATAAATC
*
14677466 TAAAATAGTTCAAAATAAAATAATATATAAA
1 TAAAATACTTCAAAATAAAATAATATATAAA
14677497 AGAAAATCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 3 0.12
31 5 0.19
32 8 0.31
33 5 0.19
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.28
Consensus pattern (33 bp):
TAAAATACTTCAAAATAAAATAATATATAAATC
Found at i:14686972 original size:20 final size:20
Alignment explanation
Indices: 14686933--14686971 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
14686923 TTTAATAGGA
14686933 AAATAATTACATAAAAATAT
1 AAATAATTACATAAAAATAT
*
14686953 AAAT-ATTATAT-AAAATAT
1 AAATAATTACATAAAAATAT
14686971 A
1 A
14686972 TTATAAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 6 0.33
20 4 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATAATTACATAAAAATAT
Found at i:14690208 original size:8 final size:8
Alignment explanation
Indices: 14690195--14690235 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
14690185 TGGTGGCCCC
14690195 TTTTTTTG
1 TTTTTTTG
14690203 TTTTTTTG
1 TTTTTTTG
14690211 TTTTTTTG
1 TTTTTTTG
*
14690219 TTTTTTTT
1 TTTTTTTG
14690227 TGTTTTTTG
1 T-TTTTTTG
14690236 CTGGGATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:14690682 original size:55 final size:56
Alignment explanation
Indices: 14690496--14690785 Score: 302
Period size: 55 Copynumber: 5.2 Consensus size: 56
14690486 TAGATATACT
* *
14690496 ACATAACAATCGATTTAAACATATAAATAATCTATT-AAAAAAAGCAGTA-TTCCA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAGTATTTCTA
* * ** *
14690550 ACATAAAAATAGATTTAAACATATAAGCAATCTATTCAAAAGAAGAAGATGCAGTATTCTA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAG-T--A-T-TTCTA
* * * *
14690611 CCATAACAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGCAGTATTTC-A
1 ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAGTATTTCTA
* * * *
14690666 ACATGACAATCAATTTAAACATATAAATAATCGATTCAAAAGAAACAGTA-TTCTA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAGTATTTCTA
* * * * * *
14690721 ATATGACAATCGATTTAAACATAAAAATAATATATTCAAAAGAAGCAATA-TTCCA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAGTATTTCTA
*
14690776 GCATAACAAT
1 ACATAACAAT
14690786 TAATCCAATC
Statistics
Matches: 197, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
54 35 0.18
55 109 0.55
56 4 0.02
57 1 0.01
58 2 0.01
60 1 0.01
61 45 0.23
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (56 bp):
ACATAACAATCGATTTAAACATATAAATAATCTATTCAAAAGAAGCAGTATTTCTA
Found at i:14690785 original size:110 final size:113
Alignment explanation
Indices: 14690496--14690785 Score: 356
Period size: 110 Copynumber: 2.6 Consensus size: 113
14690486 TAGATATACT
* *
14690496 ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAAAAGCAGTATTCCAACATAAAAATA
1 ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAGAAGCAGTATTCCAACATAACAATA
* *
14690561 GATTTAAACATATAAGCAATCTATTCAAAAGAAGAAGATGCAGTATTCTA
66 GATTTAAACATATAAACAATCGATTC-AAAGAAGAAGA-GCAGTATTCTA
* * * * *
14690611 CCATAACAATCGATTTAAACATATAAACAATCGATTTAAAAGAAGCAGTATTTCAACATGACAAT
1 ACATAACAATCGATTTAAACATATAAATAATCTA-TTAAAAGAAGCAGTATTCCAACATAACAAT
*
14690676 CA-ATTTAAACATATAAATAATCGATTC-AA-AAGAA-A-CAGTATTCTA
65 -AGATTTAAACATATAAACAATCGATTCAAAGAAGAAGAGCAGTATTCTA
* * * * * *
14690721 ATATGACAATCGATTTAAACATAAAAATAATATATTCAAAAGAAGCAATATTCCAGCATAACAAT
1 ACATAACAATCGATTTAAACATATAAATAATCTATT-AAAAGAAGCAGTATTCCAACATAACAAT
14690786 TAATCCAATC
Statistics
Matches: 151, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
109 2 0.01
110 61 0.40
112 1 0.01
113 5 0.03
114 2 0.01
115 31 0.21
116 48 0.32
117 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (113 bp):
ACATAACAATCGATTTAAACATATAAATAATCTATTAAAAGAAGCAGTATTCCAACATAACAATA
GATTTAAACATATAAACAATCGATTCAAAGAAGAAGAGCAGTATTCTA
Found at i:14692307 original size:30 final size:31
Alignment explanation
Indices: 14692268--14692327 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
14692258 AGAGGTGGGA
*
14692268 TGGGAAGGGAATAAAAGTTTT-AGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTGA-GGAAAAAG
*
14692299 TGGG-AGGGAGTAAAAATTTTGAGGAAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGAAAAA
14692328 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGAAAAAG
Found at i:14692525 original size:9 final size:9
Alignment explanation
Indices: 14692511--14692547 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14692501 TATAGTTTGA
14692511 TATTCGAAT
1 TATTCGAAT
14692520 TATTCGAAT
1 TATTCGAAT
*
14692529 TATTCGAGT
1 TATTCGAAT
*
14692538 TATTCCAAT
1 TATTCGAAT
14692547 T
1 T
14692548 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14692976 original size:20 final size:19
Alignment explanation
Indices: 14692947--14692988 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
14692937 AACCGGTTTA
*
14692947 AAATTTTTTAACTCAATTG
1 AAATTTTTTAAATCAATTG
*
14692966 AAATATTTTTAAATCGATTG
1 AAAT-TTTTTAAATCAATTG
14692986 AAA
1 AAA
14692989 AAACTGCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (19 bp):
AAATTTTTTAAATCAATTG
Found at i:14693724 original size:6 final size:6
Alignment explanation
Indices: 14693713--14693748 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
14693703 TCTCAGTTGC
14693713 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
14693749 CCCTTTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:14694418 original size:21 final size:21
Alignment explanation
Indices: 14694373--14694430 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
14694363 ATGTTATACC
*
14694373 ATTATT-TTATTTTT-TTTAT
1 ATTATTGTTATTTTTATTAAT
14694392 -TTATTGTTATTTTTATTAAT
1 ATTATTGTTATTTTTATTAAT
* *
14694412 ATTATTGTTGTTGTTATTA
1 ATTATTGTTATTTTTATTA
14694431 TAAGGGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 4 0.12
21 16 0.48
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
ATTATTGTTATTTTTATTAAT
Found at i:14694485 original size:29 final size:29
Alignment explanation
Indices: 14694453--14694519 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
14694443 ACCAATAAAA
14694453 GCCGTTTTTTTCAAAATTTACCGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
14694482 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* *
14694511 TCCATTTTT
1 GCCGTTTTT
14694520 CGGGAAATCG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.43
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:14694725 original size:51 final size:51
Alignment explanation
Indices: 14694669--14694783 Score: 194
Period size: 51 Copynumber: 2.3 Consensus size: 51
14694659 TCCTCTCTAA
*
14694669 TCCTCTCAATTTCCTTCCAAAATTCTCTCTAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* *
14694720 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCTTATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
14694771 TCCCCTCAATTTC
1 TCCTCTCAATTTC
14694784 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.43
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:14694841 original size:31 final size:33
Alignment explanation
Indices: 14694785--14694850 Score: 118
Period size: 31 Copynumber: 2.1 Consensus size: 33
14694775 CTCAATTTCA
14694785 TTTTTTAAAATAATTTTAAATTTTTTTTATATT
1 TTTTTTAAAATAATTTTAAATTTTTTTTATATT
14694818 TTTTTTAAAA-AATTTTAAA-TTTTTTTATATT
1 TTTTTTAAAATAATTTTAAATTTTTTTTATATT
14694849 TT
1 TT
14694851 CATCAATGGC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 14 0.42
32 9 0.27
33 10 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (33 bp):
TTTTTTAAAATAATTTTAAATTTTTTTTATATT
Found at i:14695944 original size:7 final size:7
Alignment explanation
Indices: 14695932--14695956 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14695922 AGTCGATTGA
14695932 TATTTAG
1 TATTTAG
14695939 TATTTAG
1 TATTTAG
14695946 TATTTAG
1 TATTTAG
14695953 TATT
1 TATT
14695957 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:14696634 original size:18 final size:18
Alignment explanation
Indices: 14696608--14696642 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14696598 AGGTGTGTTT
* *
14696608 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
14696626 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
14696643 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:14697075 original size:25 final size:25
Alignment explanation
Indices: 14697046--14697231 Score: 85
Period size: 25 Copynumber: 7.7 Consensus size: 25
14697036 TTTAAATTTA
14697046 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
14697071 TTATTTGATGTAATACGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
14697097 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
14697116 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
* ** *
14697142 TTATTTGATATAATAGGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
** *
14697168 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
*
14697187 ATTATTTGATATAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
14697213 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
14697232 ACCGGTGTGG
Statistics
Matches: 116, Mismatches: 24, Indels: 41
0.64 0.13 0.23
Matches are distributed among these distances:
19 2 0.02
20 10 0.09
21 13 0.11
23 4 0.03
24 6 0.05
25 41 0.35
26 40 0.34
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:14697132 original size:71 final size:71
Alignment explanation
Indices: 14697044--14697228 Score: 334
Period size: 71 Copynumber: 2.6 Consensus size: 71
14697034 TATTTAAATT
14697044 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
14697109 TTTTGA
66 TTTTGA
* *
14697115 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATATAATAGGCATAGAAATTTTTTCGAGTTA
1 TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
14697180 TTTTGA
66 TTTTGA
*
14697186 TATTATTTGATATAATAAAATAGAAGTTCTATTTGATGTAATA
1 TATTATTTGATGTAATAAAATAGAAGTT-TATTTGATGTAATA
14697229 AAAACCGGTG
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
71 96 0.88
72 13 0.12
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (71 bp):
TATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATACGCATAGAAATTTTTTCGAGTTA
TTTTGA
Found at i:14697256 original size:20 final size:20
Alignment explanation
Indices: 14697231--14697272 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14697221 ATGTAATAAA
14697231 AACCGGTGTGGTAGATCTGG
1 AACCGGTGTGGTAGATCTGG
14697251 AACCGGTGTGGTAGATCTGG
1 AACCGGTGTGGTAGATCTGG
14697271 AA
1 AA
14697273 ACTCTAACGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.38, T:0.24
Consensus pattern (20 bp):
AACCGGTGTGGTAGATCTGG
Found at i:14702444 original size:33 final size:32
Alignment explanation
Indices: 14702406--14702546 Score: 102
Period size: 33 Copynumber: 4.2 Consensus size: 32
14702396 ATAGCTAGGC
14702406 TATGGCATTCTAATGATAAGACCATAACTGGGT
1 TATGGCATTCTAATG-TAAGACCATAACTGGGT
* * * *** **
14702439 TATGGCACTATGAACGTAAGACCATGTTTGGAC
1 TATGGCATTCT-AATGTAAGACCATAACTGGGT
* * * *
14702472 CATGGCAGTGTTTATATGTAAGACCATAGCTGGGA
1 TATGGCA-T-TCTA-ATGTAAGACCATAACTGGGT
* *
14702507 TATGGTATTCTAATGATAATACCATAACTGGGT
1 TATGGCATTCTAATG-TAAGACCATAACTGGGT
14702540 TATGGCA
1 TATGGCA
14702547 CTACAAATGT
Statistics
Matches: 79, Mismatches: 24, Indels: 10
0.70 0.21 0.09
Matches are distributed among these distances:
32 3 0.04
33 50 0.63
34 5 0.06
35 21 0.27
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (32 bp):
TATGGCATTCTAATGTAAGACCATAACTGGGT
Found at i:14702500 original size:101 final size:101
Alignment explanation
Indices: 14702319--14702549 Score: 372
Period size: 101 Copynumber: 2.3 Consensus size: 101
14702309 TGAATTGACG
***
14702319 GATAAGACCATAACTTTTTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* * *
14702384 ATATGTAATATCATAGCTAGGCTATGGCATTCTAAT
66 ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
*
14702420 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGTTTGGACCATGGCAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
* *
14702485 ATATGTAAGACCATAGCTGGGATATGGTATTCTAAT
66 ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
*
14702521 GATAATACCATAACTGGGTTATGGCACTA
1 GATAAGACCATAACTGGGTTATGGCACTA
14702550 CAAATGTAAA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 120 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
ATATGTAAGACCATAGCTAGGATATGGCATTCTAAT
Found at i:14705800 original size:16 final size:17
Alignment explanation
Indices: 14705766--14705806 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
14705756 CCTACTCCCT
14705766 CCCAATTTAAAACCCAG
1 CCCAATTTAAAACCCAG
*
14705783 CCCAATTT-AAATCCAG
1 CCCAATTTAAAACCCAG
14705799 CCCAATTT
1 CCCAATTT
14705807 TCTCTTAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.37, C:0.34, G:0.05, T:0.24
Consensus pattern (17 bp):
CCCAATTTAAAACCCAG
Found at i:14706727 original size:16 final size:16
Alignment explanation
Indices: 14706706--14706739 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14706696 AATTATTGAA
*
14706706 TATATTGTAATTAATG
1 TATATTATAATTAATG
14706722 TATATTATAATTAATG
1 TATATTATAATTAATG
14706738 TA
1 TA
14706740 AGAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (16 bp):
TATATTATAATTAATG
Found at i:14709861 original size:24 final size:24
Alignment explanation
Indices: 14709804--14709862 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
14709794 GGTTTAATGC
* *
14709804 AAATGGAGATATTTTGGAGAGATG
1 AAATGGATATATTTTGGAAAGATG
*
14709828 AAATGAATATATTTTGGAAAGATG
1 AAATGGATATATTTTGGAAAGATG
14709852 AAATGGATATA
1 AAATGGATATA
14709863 AATGGAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (24 bp):
AAATGGATATATTTTGGAAAGATG
Found at i:14709954 original size:20 final size:19
Alignment explanation
Indices: 14709928--14709992 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
14709918 AATATTTTTA
14709928 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
* ***
14709947 ACTTATGTAAT-ATTTTTA-
1 A-TTATGTAGTGATTCAAAG
14709965 ATTATGTAGTGATTCAAAG
1 ATTATGTAGTGATTCAAAG
14709984 ATTTATGTA
1 A-TTATGTA
14709993 ATGTTTTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 6 0.18
20 15 0.44
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (19 bp):
ATTATGTAGTGATTCAAAG
Found at i:14709957 original size:37 final size:37
Alignment explanation
Indices: 14709903--14710015 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
14709893 TTATGTTTTA
*
14709903 ATTC-AAGACTTGTGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
14709939 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
* *
14709976 ATTCAAAGATTTATGTAATGTTTTTAATTATGTAGTG
1 ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
14710013 ATT
1 ATT
14710016 TAATTCGGGT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 4 0.05
37 69 0.95
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (37 bp):
ATTCAAAGACTTATGTAATATTTTTAATTATGTAGTG
Found at i:14709971 original size:17 final size:17
Alignment explanation
Indices: 14709915--14710009 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
14709905 TCAAGACTTG
14709915 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
14709932 TGTAGTGATTCAAAGACTTA
1 TGTAAT-ATTTTTA-A-TTA
14709952 TGTAATATTTTTAATTA
1 TGTAATATTTTTAATTA
* ***
14709969 TGTAGTGATTCAAAGATTTA
1 TGTAAT-ATTTTTA-A-TTA
*
14709989 TGTAATGTTTTTAATTA
1 TGTAATATTTTTAATTA
14710006 TGTA
1 TGTA
14710010 GTGATTTAAT
Statistics
Matches: 55, Mismatches: 17, Indels: 12
0.65 0.20 0.14
Matches are distributed among these distances:
17 20 0.36
18 10 0.18
19 9 0.16
20 16 0.29
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (17 bp):
TGTAATATTTTTAATTA
Found at i:14710030 original size:9 final size:9
Alignment explanation
Indices: 14710016--14710143 Score: 184
Period size: 9 Copynumber: 13.6 Consensus size: 9
14710006 TGTAGTGATT
14710016 TAATTCGGG
1 TAATTCGGG
14710025 TAATTCGGG
1 TAATTCGGG
14710034 TAATTTTCGGG
1 TAA--TTCGGG
14710045 TAATTTTCGGG
1 TAA--TTCGGG
*
14710056 TAATTTGGG
1 TAATTCGGG
14710065 TAATTTTCGGG
1 TAA--TTCGGG
14710076 TAATTCGGG
1 TAATTCGGG
14710085 TAATTCGGG
1 TAATTCGGG
14710094 TAATTCGGG
1 TAATTCGGG
14710103 TAATTCGGG
1 TAATTCGGG
*
14710112 TAAGTCGGG
1 TAATTCGGG
14710121 TAATTCGGG
1 TAATTCGGG
14710130 TAATTCGGG
1 TAATTCGGG
14710139 TAATT
1 TAATT
14710144 TTTAACCAAA
Statistics
Matches: 111, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
9 83 0.75
11 28 0.25
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (9 bp):
TAATTCGGG
Found at i:14710921 original size:187 final size:187
Alignment explanation
Indices: 14710674--14711144 Score: 642
Period size: 187 Copynumber: 2.5 Consensus size: 187
14710664 TTGACAAGAT
* * * *
14710674 GGGTTGAGGTTTGTAGAGGAAAAACACTCTAAGTAGGATGCACTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* * * * *
14710739 GCTACAAATTGGACGCCCTTTTCAGTACTGCTACTTCTGTGAAAATAAATTTGATGAGATGATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
* * * * *
14710804 TAAAAAAATATCAC-GGGATTCACTGG-ATGAGGTTTGTGAAAAATACCCCGAATAGTGG
131 T-AAAAAATATC-CTGAGATTC-CCGGAATAAAGTTTGTGAAAAATACCCCAAATAGTGG
*
14710862 GGGTTGAGGTTTCTAGAGAAAAAACGCTCCAAGCAGGAT-CACTGTCAGCAAAAGTACTGAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
* * * *
14710926 GTTTCCAATTGGACGCCCATTTCAATACTGTTGCTTCTGTGAAAATAAATTAGATGAGATAATTC
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
* * *
14710991 TGAAAAGTATCCTGAGATTCCCGGAATAAAGTTTGTGAAAAGTACCCCAAATAGTGG
131 TAAAAAATATCCTGAGATTCCCGGAATAAAGTTTGTGAAAAATACCCCAAATAGTGG
* * * * *
14711048 TGGTTGAGGTTTCTATAGGAAAAACGCTCCAAACAGGATGCACTGTCAACAAAAGTACTAAAAAC
1 GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
*
14711113 GCTTCCATTTGGACGCCCTTTTCAATACTGCT
66 GCTTCCAATTGGACGCCCTTTTCAATACTGCT
14711145 TTTGATAGTG
Statistics
Matches: 248, Mismatches: 32, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
185 4 0.02
186 77 0.31
187 133 0.54
188 34 0.14
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (187 bp):
GGGTTGAGGTTTCTAGAGGAAAAACGCTCCAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAC
GCTTCCAATTGGACGCCCTTTTCAATACTGCTACTTCTGTGAAAATAAATTAGATGAGATAATTC
TAAAAAATATCCTGAGATTCCCGGAATAAAGTTTGTGAAAAATACCCCAAATAGTGG
Found at i:14717275 original size:20 final size:20
Alignment explanation
Indices: 14717250--14717291 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14717240 CATGTGAAAT
*
14717250 AAACTAAAGATAAAACAAAA
1 AAACTAAACATAAAACAAAA
* *
14717270 AAACTAGACATAAAAGAAAA
1 AAACTAAACATAAAACAAAA
14717290 AA
1 AA
14717292 CGAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.74, C:0.10, G:0.07, T:0.10
Consensus pattern (20 bp):
AAACTAAACATAAAACAAAA
Found at i:14721330 original size:43 final size:43
Alignment explanation
Indices: 14721170--14721360 Score: 244
Period size: 42 Copynumber: 4.5 Consensus size: 43
14721160 TTCAATATCC
* * *
14721170 ATTTGAGATTTCGTATAAGACCATATCTGGGATA-TGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* * *
14721212 ATTTGAGA-TTCGTGTAGGACCATAGCTGGGTTATTGGCATCA
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
* *
14721254 ATTTGAGA-TTCGTTTAAGACCATAGCTGAGCTATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
*
14721296 ATTTGAGATTTCATGTAAGACCATAGCTGGGCTATTGGCATCG
1 ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
** *
14721339 ATACGAGATTTCCATGTAAGAC
1 ATTTGAGATTT-CGTGTAAGAC
14721361 TATGTTTGGG
Statistics
Matches: 131, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 21 0.16
42 60 0.46
43 40 0.31
44 10 0.08
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
ATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCG
Found at i:14721347 original size:85 final size:83
Alignment explanation
Indices: 14721174--14721348 Score: 233
Period size: 85 Copynumber: 2.1 Consensus size: 83
14721164 ATATCCATTT
* * * *
14721174 GAGATTTCGTATAAGACCATATCTGGGATATGGCATCGATTTGAGATTCGTGTAGGACCATAGCT
1 GAGA-TTCGTATAAGACCATAGCTGAGATATGGCATCGATTTGAGATTCATGTAAGACCATAGCT
* **
14721239 GGGTTATTGGCATCAATTT
65 GGGCTATTGGCATCAATAC
* *
14721258 GAGATTCGTTTAAGACCATAGCTGAGCTATTGGCATCGATTTGAGATTTCATGTAAGACCATAGC
1 GAGATTCGTATAAGACCATAGCTGAGATA-TGGCATCGATTTGAGA-TTCATGTAAGACCATAGC
*
14721323 TGGGCTATTGGCATCGATAC
64 TGGGCTATTGGCATCAATAC
14721343 GAGATT
1 GAGATT
14721349 TCCATGTAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
83 21 0.27
84 20 0.25
85 38 0.48
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (83 bp):
GAGATTCGTATAAGACCATAGCTGAGATATGGCATCGATTTGAGATTCATGTAAGACCATAGCTG
GGCTATTGGCATCAATAC
Found at i:14730022 original size:23 final size:23
Alignment explanation
Indices: 14729980--14730027 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
14729970 AAATACTAGT
** *
14729980 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATATACACATATA
14730003 TAAAAAATAAATATACACATATA
1 TAAAAAATAAATATACACATATA
14730026 TA
1 TA
14730028 TAGATTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAAATAAATATACACATATA
Found at i:14731781 original size:44 final size:44
Alignment explanation
Indices: 14731673--14732095 Score: 224
Period size: 44 Copynumber: 9.7 Consensus size: 44
14731663 ACTAAATGCG
* * * * *
14731673 ATCTGCT-CTCTGCAACTTCAGAGAGATACGATCT-GTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGCTTTA
** *
14731716 ATCCACTCC-CTGCAACTTCAGGGAGATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTA
*
14731759 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-A
* *
14731804 GTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTT-GC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTGGCTTTA
* * * *
14731848 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC---G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TTGGCTTTA
* * * * *
14731889 ATATGCT-CTCTGCAACTTCAGAGAGATAAGA-T-CTGTGATTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTG-GCTTTA
** * * * *
14731931 ATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTA
* * *
14731975 ATCCGCTCCACTGCAACTTCAAGGAGATAAGA-T-TTGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-A
* ** *
14732020 GTCTGC-CTCACTGCAACTTCA-AAAGGATAAGACTTGCTT-GC-TTA
1 ATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TT-ATTGGCTTTA
* *
14732064 GTCTACTCCACTGCAACTTCAGGGAGATAAGA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA
14732096 CTAGATGCGA
Statistics
Matches: 299, Mismatches: 47, Indels: 67
0.72 0.11 0.16
Matches are distributed among these distances:
37 1 0.00
39 2 0.01
40 22 0.07
41 5 0.02
42 12 0.04
43 68 0.23
44 119 0.40
45 62 0.21
47 2 0.01
48 2 0.01
49 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTA
Found at i:14731907 original size:216 final size:216
Alignment explanation
Indices: 14731633--14732187 Score: 905
Period size: 216 Copynumber: 2.6 Consensus size: 216
14731623 TTGACTTTAA
* * * * * *
14731633 TCTGCTGCACTGTAACTTCAAGAAGATAGGACTAAATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
14731698 ATACGATCTGTGGTTTTAATCCACTCC-CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATC
66 ATAAGATCTGT-GATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTCTAATC
* * **
14731762 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
130 CGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAA
14731827 AGGATAAGACTTGCTTGCTTAG
195 AGGATAAGACTTGCTTGCTTAG
*
14731849 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* *
14731914 ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCC
66 ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTCTAATCC
14731979 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
131 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
14732044 GGATAAGACTTGCTTGCTTAG
196 GGATAAGACTTGCTTGCTTAG
* *
14732065 TCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTTAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* * *
14732130 ATAAGATCTGTGATTTAATCCATTCCGCTGCAACTTCAGGGAGATAGGATTACTGGCT
66 ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCT
14732188 ACCGATCTGT
Statistics
Matches: 314, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 14 0.04
216 300 0.96
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (216 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTCTAATCC
GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAAAA
GGATAAGACTTGCTTGCTTAG
Found at i:14732096 original size:44 final size:44
Alignment explanation
Indices: 14731721--14732097 Score: 259
Period size: 44 Copynumber: 8.7 Consensus size: 44
14731711 TTTTAATCCA
* * *
14731721 CTCC-CTGCAACTTCAGGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-GC-TTAGTCTG
* *
14731764 CTCCACTGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTGCTT-AGTCTG
14731809 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTGCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTGCTTAGTCTG
* * * *
14731853 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTGCTTAGTCTG
* * * * **
14731894 CT-CTCTGCAACTTCAGAGAGATAAGA--T-CTGTGATTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TG-CTTAGTCTG
* * * * * *
14731936 CTCCACTGCAACTTCAAGGAGATAGGA-TT-ATCGGCTCTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCT-TGCT-TAGTCTG
* * *
14731980 CTCCACTGCAACTTCAAGGAGATAAGATTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTGCTT-AGTCTG
** *
14732025 C-CTCACTGCAACTTCA-AAAGGATAAGACTTGCTTGCTTAGTCTA
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTGCTTAGTCTG
14732069 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
14732098 AGATGCGATC
Statistics
Matches: 266, Mismatches: 41, Indels: 53
0.74 0.11 0.15
Matches are distributed among these distances:
39 2 0.01
40 22 0.08
41 6 0.02
42 4 0.02
43 28 0.11
44 127 0.48
45 76 0.29
47 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTGCTTAGTCTG
Found at i:14742373 original size:37 final size:37
Alignment explanation
Indices: 14742323--14742396 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
14742313 ACATCGGAGT
14742323 AAAGCCATATATTCCTCTATCGTAGGCACCAAATCGA
1 AAAGCCATATATTCCTCTATCGTAGGCACCAAATCGA
14742360 AAAGCCATATATTCCTCTATCGTAGGCACCAAATCGA
1 AAAGCCATATATTCCTCTATCGTAGGCACCAAATCGA
14742397 CCTTCCCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (37 bp):
AAAGCCATATATTCCTCTATCGTAGGCACCAAATCGA
Found at i:14744208 original size:20 final size:20
Alignment explanation
Indices: 14744153--14744208 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
14744143 GCAAAGTATC
*
14744153 AAATAAATAAAAATATGAAA
1 AAATAAATAAAAAAATGAAA
* *
14744173 ACATAAATCAACAAAAT-AAA
1 AAATAAAT-AAAAAAATGAAA
14744193 AAATAAATAAAGAAAA
1 AAATAAATAAA-AAAA
14744209 GAGAGCGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 21 0.72
21 6 0.21
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAAATGAAA
Found at i:14744452 original size:23 final size:23
Alignment explanation
Indices: 14744410--14744457 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
14744400 AAATACTAGT
** *
14744410 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATATACACATATA
14744433 TAAAAAATAAATATACACATATA
1 TAAAAAATAAATATACACATATA
14744456 TA
1 TA
14744458 TAGATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (23 bp):
TAAAAAATAAATATACACATATA
Found at i:14745649 original size:21 final size:23
Alignment explanation
Indices: 14745606--14745650 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14745596 TCTGTCATCC
* *
14745606 TTTTTTTGGGCCCTTCATTTAAT
1 TTTTTTTGGGCCCGTCATGTAAT
14745629 TTTTTTTGGG-CCGT-ATGTAAT
1 TTTTTTTGGGCCCGTCATGTAAT
14745650 T
1 T
14745651 GAGCCACTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (23 bp):
TTTTTTTGGGCCCGTCATGTAAT
Found at i:14752896 original size:21 final size:22
Alignment explanation
Indices: 14752866--14752906 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14752856 GCTCCAAGAC
* *
14752866 AAAAGGTATCGATACTTTTTGT
1 AAAAGGTATCAATACCTTTTGT
14752888 AAAA-GTATCAATACCTTTT
1 AAAAGGTATCAATACCTTTT
14752907 ACCAGGTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAAGGTATCAATACCTTTTGT
Found at i:14755683 original size:24 final size:25
Alignment explanation
Indices: 14755656--14755704 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
14755646 ATCCAATCAC
**
14755656 ATATTATTTTTGTAAAT-ATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
14755680 ATATTATTTTAATAAATAATTTTTT
1 ATATTATTTTAATAAATAATTTTTT
14755705 TCTATATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATTATTTTAATAAATAATTTTTT
Found at i:14768981 original size:25 final size:26
Alignment explanation
Indices: 14768947--14769006 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
14768937 CACATTAAGG
*
14768947 TTTTTTATAATTAA-ACCATTTATAT
1 TTTTTTATAATTAAGACCATTTATAA
**
14768972 TTTTTTATAATTAAGATTATTTATAA
1 TTTTTTATAATTAAGACCATTTATAA
14768998 TTTTTTATA
1 TTTTTTATA
14769007 TTTTCATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 14 0.45
26 17 0.55
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTTATAATTAAGACCATTTATAA
Found at i:14769308 original size:28 final size:30
Alignment explanation
Indices: 14769284--14769340 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
14769274 AACATAATTC
14769284 TAAAATAGTTTTTT-AA-AATTAATAATACA
1 TAAAAT-GTTTTTTCAATAATTAATAATACA
* *
14769313 TTAAATGTTTTTTCAATAATTAAAAATA
1 TAAAATGTTTTTTCAATAATTAATAATA
14769341 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 7 0.29
30 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (30 bp):
TAAAATGTTTTTTCAATAATTAATAATACA
Found at i:14775424 original size:88 final size:88
Alignment explanation
Indices: 14775271--14775449 Score: 331
Period size: 88 Copynumber: 2.0 Consensus size: 88
14775261 ACCTTTAAAT
14775271 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
1 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
*
14775336 CTTGTTTGCTCGTGGTTTTTTCC
66 CTCGTTTGCTCGTGGTTTTTTCC
*
14775359 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCCTTTG
1 AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
*
14775424 CTCGTTTGCTCGTGTTTTTTTCC
66 CTCGTTTGCTCGTGGTTTTTTCC
14775447 AGA
1 AGA
14775450 AAGAGTTTTC
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (88 bp):
AGATGTAGTCGAAACTCCTCTTGTATCATTTGATTTTCAACATTAGTGAATTTTCTTCTCATTTG
CTCGTTTGCTCGTGGTTTTTTCC
Found at i:14791202 original size:21 final size:21
Alignment explanation
Indices: 14791176--14791217 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14791166 CATGGTGGCC
14791176 GAAATTGGGGCTGAATTTAAA
1 GAAATTGGGGCTGAATTTAAA
14791197 GAAATTGGGGCTGAATTTAAA
1 GAAATTGGGGCTGAATTTAAA
14791218 AATAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
GAAATTGGGGCTGAATTTAAA
Found at i:14793691 original size:20 final size:20
Alignment explanation
Indices: 14793668--14793716 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
14793658 TGCATTTTGG
14793668 TGCCTCTGTTTA-CACTTCGA
1 TGCCTCTG-TTAGCACTTCGA
*
14793688 TGCCTCTGTTAGCATTTCGA
1 TGCCTCTGTTAGCACTTCGA
14793708 TGCTCTCTG
1 TGC-CTCTG
14793717 GTGTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (20 bp):
TGCCTCTGTTAGCACTTCGA
Found at i:14796256 original size:109 final size:110
Alignment explanation
Indices: 14796126--14796345 Score: 390
Period size: 109 Copynumber: 2.0 Consensus size: 110
14796116 AATTTTTTTA
14796126 AAAAAAATCTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAA
1 AAAAAAA-CTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAA
**
14796191 TTCCTGACAACAAGCTTTTCATTTTATTTTTGATTACAA-AGCATTC
65 TTCCCAACAACAAGCTTTTCATTTTATTTTTGATTA-AAGAGCATTC
14796237 AAAAAAA-TTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAAT
1 AAAAAAACTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAAT
14796301 TCCCAACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
66 TCCCAACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
14796346 TCGATTATTA
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
108 2 0.02
109 97 0.92
111 7 0.07
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (110 bp):
AAAAAAACTTTGTCTCGAGAAATCAATACGTCACATCCAATGCATTAGGACACAACATATTAAAT
TCCCAACAACAAGCTTTTCATTTTATTTTTGATTAAAGAGCATTC
Found at i:14796842 original size:20 final size:20
Alignment explanation
Indices: 14796797--14796845 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
14796787 TAAAGAAAAT
* *
14796797 ATATATATATAGAAATTTTA
1 ATATATATATAGAAAGTATA
* *
14796817 AAATATGTATAGAAAGTATA
1 ATATATATATAGAAAGTATA
14796837 ATATATATA
1 ATATATATA
14796846 CGTACATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (20 bp):
ATATATATATAGAAAGTATA
Found at i:14798690 original size:44 final size:43
Alignment explanation
Indices: 14798633--14798753 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 43
14798623 ACCCGATGTG
* * * *
14798633 ATCTACTCCACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGATAT-TGGCTTTA
* *
14798677 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAATATTGGCTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAAG-ATATTGGCTTTA
* *
14798721 ATTTACTCCATTGCAACTTCAGGGAGATAAGAT
1 ATCTACTCCACTGCAACTTCAGGGAGATAAGAT
14798754 TCGCCATCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
43 2 0.03
44 61 0.92
45 3 0.05
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAAGATATTGGCTTTA
Found at i:14798796 original size:45 final size:44
Alignment explanation
Indices: 14798547--14798834 Score: 143
Period size: 44 Copynumber: 6.6 Consensus size: 44
14798537 TTGTTTATTC
* * * * * * *
14798547 AGTCTGCCCCATTGCAATTTCAGGGGGATAAAAC-TGCTTTCTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * ** * *
14798590 GAGTTTGTTCCACTGCAACATCAGGGAGATAAGACCCG-AT-GTG
1 -AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
* * * * *
14798633 A-TCTACTCCACTGCAACTTTAGAGAGATAAGATCTGTG-GT-TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATACTT
* * *
14798676 AATCTGCTCCACTGCAACTTCAGGGAGATAGGAATATTGGC-T--TT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG-A-CTT-GCATACTT
* * * *
14798720 AATTTACTCCATTGCAACTTCAGGGAGATAAGA-TTCGCCAT-CTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-CATACTT
*
14798764 CAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCATACTT
14798809 AGTCTGCTCCACTGCAACTTCAGGGA
1 AGTCTGCTCCACTGCAACTTCAGGGA
14798835 TATCTTCAAT
Statistics
Matches: 189, Mismatches: 38, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
41 28 0.15
42 3 0.02
43 7 0.04
44 112 0.59
45 37 0.20
46 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTT
Found at i:14801497 original size:46 final size:44
Alignment explanation
Indices: 14801393--14801500 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
14801383 TGTCTTTAAC
** * * *
14801393 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
14801437 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
14801483 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
14801501 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Done.