Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 70 of 218
Found at i:20930908 original size:81 final size:81
Alignment explanation
Indices: 20930663--20930939 Score: 303
Period size: 81 Copynumber: 3.4 Consensus size: 81
20930653 AAATAGTCAC
* * * *
20930663 TTTACCCTACAGGGGCATTATGGTCATTTCACCCTACAGGGGCAATAC-GACCATTTTACCCTAT
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACAG-TCATTTTACCCTAT
* *
20930727 -AGGGGCAATACGACCAT
65 GA-GGGCATTACGATCAT
*
20930744 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTAT-
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATG
*
20930808 AGGTGCATTACGGTCAT
66 AGG-GCATTACGATCAT
* * * *
20930825 TTTACCCTATAGGGGCATTACGGTTATTTTACCTTACAGGGGCATTACAGTCATCTTACCC-ATC
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTAT-
* * *
20930889 GAGGGTATTTCGATTAT
65 GAGGGCATTACGATCAT
* * * * *
20930906 TTTA-CCTTTCGGGGTATTTTGATCATTTTACCCT
1 TTTACCCTATAGGGGCATTATGGTCATTTTACCCT
20930940 TCGAGGGTAT
Statistics
Matches: 167, Mismatches: 25, Indels: 9
0.83 0.12 0.04
Matches are distributed among these distances:
80 26 0.16
81 137 0.82
82 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (81 bp):
TTTACCCTATAGGGGCATTATGGTCATTTTACCCTACAGGGGCATTACAGTCATTTTACCCTATG
AGGGCATTACGATCAT
Found at i:20930921 original size:26 final size:28
Alignment explanation
Indices: 20930880--20931007 Score: 140
Period size: 27 Copynumber: 4.8 Consensus size: 28
20930870 TACAGTCATC
* *
20930880 TTACCCATCGAGGGTATTTCGA-TTATT
1 TTACCCTTCGAGGGTATTTCGAGTAATT
* * *
20930907 TTACCTTTCG-GGGTATTTTGA-TCATT
1 TTACCCTTCGAGGGTATTTCGAGTAATT
*
20930933 TTACCCTTCGAGGGTA-TTCTAGTAATT
1 TTACCCTTCGAGGGTATTTCGAGTAATT
* *
20930960 TTATCATTCGAGGGTATTTC-AGTAATT
1 TTACCCTTCGAGGGTATTTCGAGTAATT
*
20930987 TTACCCTTCAAGGGTATTTCG
1 TTACCCTTCGAGGGTATTTCG
20931008 GTCCAACCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
26 26 0.31
27 55 0.65
28 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (28 bp):
TTACCCTTCGAGGGTATTTCGAGTAATT
Found at i:20930945 original size:53 final size:55
Alignment explanation
Indices: 20930872--20931007 Score: 154
Period size: 53 Copynumber: 2.5 Consensus size: 55
20930862 AGGGGCATTA
* * * *
20930872 CAGTCATCTTACCCATCGAGGGTATTTCGA-TTATTTTACCTTTCG-GGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTTCGAGTAATTTTACCATTCGAGGGTATTT
* * *
20930925 -TGATCATTTTACCCTTCGAGGGTA-TTCTAGTAATTTTATCATTCGAGGGTATTT
1 CAG-TCATTTTACCCTTCGAGGGTATTTCGAGTAATTTTACCATTCGAGGGTATTT
* *
20930979 CAGTAATTTTACCCTTCAAGGGTATTTCG
1 CAGTCATTTTACCCTTCGAGGGTATTTCG
20931008 GTCCAACCTT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
52 5 0.07
53 31 0.46
54 27 0.40
55 4 0.06
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (55 bp):
CAGTCATTTTACCCTTCGAGGGTATTTCGAGTAATTTTACCATTCGAGGGTATTT
Found at i:20936114 original size:18 final size:17
Alignment explanation
Indices: 20936091--20936125 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20936081 ATTGGGCTAA
20936091 AATGGGTCGTGTGGGCCC
1 AATGGG-CGTGTGGGCCC
*
20936109 AATGGGCTTGTGGGCCC
1 AATGGGCGTGTGGGCCC
20936126 CACACGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (17 bp):
AATGGGCGTGTGGGCCC
Found at i:20936356 original size:27 final size:27
Alignment explanation
Indices: 20936317--20936560 Score: 278
Period size: 27 Copynumber: 9.1 Consensus size: 27
20936307 AATGTTTGTC
*
20936317 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
20936344 GAATGATTGAAATACCCCTATAGGG-A
1 AAATGACCGAAATACCCCCATAGGGTA
* *
20936370 AAATGACTGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
**
20936397 AAAT-AATGAAATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
20936422 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
20936449 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
20936476 AAATTATCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
20936503 AAATGACCGTAATACCCCCATAAGGTT
1 AAATGACCGAAATACCCCCATAGGGTA
* * * *
20936530 AAATAATCGAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
20936557 AAAT
1 AAAT
20936561 AATCGTAATG
Statistics
Matches: 185, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
25 15 0.08
26 36 0.19
27 134 0.72
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:20936692 original size:24 final size:24
Alignment explanation
Indices: 20936608--20936680 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
20936598 CCATCGAGTG
*
20936608 TAAATGATTGATTTGTCTGTGATG
1 TAAATGATTGATTTGTCTGTGATT
* *
20936632 TAAATGACTAATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
20936656 TAAATGATTGATTTGTCTGTGATT
1 TAAATGATTGATTTGTCTGTGATT
20936680 T
1 T
20936681 GTATGAATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.48
Consensus pattern (24 bp):
TAAATGATTGATTTGTCTGTGATT
Found at i:20936905 original size:32 final size:32
Alignment explanation
Indices: 20936864--20937034 Score: 236
Period size: 32 Copynumber: 5.4 Consensus size: 32
20936854 ACTGCGATGC
* *
20936864 TACTGATGGCTTTGTGCTGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
20936896 TACTGATGGCTTTATGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* *
20936928 TACTGATGGATTTATGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
20936960 TACTGATGGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
20936992 TACTGATGGCTTTGTGCCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
20937023 TACTTATGGCTT
1 TACTGATGGCTT
20937035 GTAGCCATTC
Statistics
Matches: 126, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 11 0.09
32 115 0.91
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:20939511 original size:5 final size:5
Alignment explanation
Indices: 20939503--20939531 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
20939493 TTTAGTTTTA
20939503 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
20939532 ATGCACTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:20940852 original size:19 final size:17
Alignment explanation
Indices: 20940813--20940853 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
20940803 AAAATAAGAT
20940813 AAAAATAAAATAATAAG
1 AAAAATAAAATAATAAG
*
20940830 AAAAATAATAATAAATGAG
1 AAAAATAA-AAT-AATAAG
20940849 AAAAA
1 AAAAA
20940854 GGGTACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (17 bp):
AAAAATAAAATAATAAG
Found at i:20942194 original size:24 final size:23
Alignment explanation
Indices: 20942151--20942207 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
20942141 AAAAGTCACC
*
20942151 TTTGATTTCTTTTGTATTTTGTT-
1 TTTGATTTTTTTTGTATTTT-TTG
20942174 TTTCGATTTTTTTTG-AGTTTTTTG
1 TTT-GATTTTTTTTGTA-TTTTTTG
20942198 TTTGATTTTT
1 TTTGATTTTT
20942208 ATTTCTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.09, C:0.04, G:0.14, T:0.74
Consensus pattern (23 bp):
TTTGATTTTTTTTGTATTTTTTG
Found at i:20942895 original size:44 final size:44
Alignment explanation
Indices: 20942871--20943129 Score: 200
Period size: 44 Copynumber: 5.9 Consensus size: 44
20942861 AGGATTTGTC
*
20942871 ACTTTAATCTGCTCTACCGCAACTTCAGGGAGATTAGATTTATA
1 ACTTTAATCTGCTCCACCGCAACTTCAGGGAGATTAGATTTATA
* * * * * **
20942915 ACTTTAATCTGCTCCACTGTAACTTCAGGGAGATGAAACTCGTA
1 ACTTTAATCTGCTCCACCGCAACTTCAGGGAGATTAGATTTATA
* * * * * *
20942959 TCTTCAATCTACTCCA-CGACAACCTCAGGGAGATAAGATTTGTA
1 ACTTTAATCTGCTCCACCG-CAACTTCAGGGAGATTAGATTTATA
* * * * * *
20943003 ACTTCAATCTACTCCACAGCAACCTCAGGGAGATAAGATTTGTA
1 ACTTTAATCTGCTCCACCGCAACTTCAGGGAGATTAGATTTATA
* * * * * *
20943047 ACTTCAATATACTCCACGGCAATTTCAGGGAGA-TAGATTTGTA
1 ACTTTAATCTGCTCCACCGCAACTTCAGGGAGATTAGATTTATA
* * * * *
20943090 A-TTTCAATCTGCTTCACTGTAACTTTAGGGAGATAAGATT
1 ACTTT-AATCTGCTCCACCGCAACTTCAGGGAGATTAGATT
20943130 CACTACGGTG
Statistics
Matches: 177, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
42 2 0.01
43 32 0.18
44 142 0.80
45 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
ACTTTAATCTGCTCCACCGCAACTTCAGGGAGATTAGATTTATA
Found at i:20942939 original size:88 final size:85
Alignment explanation
Indices: 20942728--20943120 Score: 265
Period size: 88 Copynumber: 4.5 Consensus size: 85
20942718 AGAGGCATAG
** * * * * **
20942728 GATTTGTTTCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAAT-TGTT
1 GATTTGTAACTTTAATCTGCTCCACTGTAACTTCA-GG-GATAGGATTTGTA-CTTCAATCTACT
* * * *
20942792 CCACTGTAACTTCAAGGAGATAA
63 CCACCGCAACTTCAGGGAGATTA
* * *
20942815 GATTTGTGACTTGATTTAATCCGAC-CCACTGTAACTTCAGAGGTATAGGATTTGTCACTTTAAT
1 GATTTGTAAC----TTTAATCTG-CTCCACTGTAACTTCAG-GG-ATAGGATTTGT-ACTTCAAT
* *
20942879 CTGCTCTACCGCAACTTCAGGGAGATTA
58 CTACTCCACCGCAACTTCAGGGAGATTA
* * * * *
20942907 GATTTATAACTTTAATCTGCTCCACTGTAACTTCAGGGAGATGAAACTCGTATCTTCAATCTACT
1 GATTTGTAACTTTAATCTGCTCCACTGTAACTTCAGGGATA-G-GATTTGTA-CTTCAATCTACT
* *
20942972 CCA-CGACAACCTCAGGGAGATAA
63 CCACCG-CAACTTCAGGGAGATTA
* * * * * * *
20942995 GATTTGTAACTTCAATCTACTCCACAGCAACCTCAGGGAGATAAGATTTGTAACTTCAATATACT
1 GATTTGTAACTTTAATCTGCTCCACTGTAACTTCA-GG-GATAGGATTTGT-ACTTCAATCTACT
* *
20943060 CCACGGCAATTTCAGGGAGA-TA
63 CCACCGCAACTTCAGGGAGATTA
* *
20943082 GATTTGTAA-TTTCAATCTGCTTCACTGTAACTTTAGGGA
1 GATTTGTAACTTT-AATCTGCTCCACTGTAACTTCAGGGA
20943121 GATAAGATTC
Statistics
Matches: 238, Mismatches: 49, Indels: 40
0.73 0.15 0.12
Matches are distributed among these distances:
85 2 0.01
86 6 0.03
87 41 0.17
88 113 0.47
89 4 0.02
90 5 0.02
91 36 0.15
92 31 0.13
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (85 bp):
GATTTGTAACTTTAATCTGCTCCACTGTAACTTCAGGGATAGGATTTGTACTTCAATCTACTCCA
CCGCAACTTCAGGGAGATTA
Found at i:20943168 original size:50 final size:50
Alignment explanation
Indices: 20943110--20943219 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 50
20943100 GCTTCACTGT
*
20943110 AACTTTAGGGAGATAAGATTCACTACGGTGACCTCAATCCATCCCACTAC
1 AACTTTAGGGAGATAAGATTCACTACAGTGACCTCAATCCATCCCACTAC
* * *
20943160 AACTTTAGGGAGATAAGATTCACTACAGTGACTTCAATTCATCCCACTGC
1 AACTTTAGGGAGATAAGATTCACTACAGTGACCTCAATCCATCCCACTAC
20943210 AACTTTAGGG
1 AACTTTAGGG
20943220 TTACAGGATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
AACTTTAGGGAGATAAGATTCACTACAGTGACCTCAATCCATCCCACTAC
Found at i:20944468 original size:23 final size:23
Alignment explanation
Indices: 20944442--20944494 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
20944432 ATAACCGCCA
20944442 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20944465 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
20944488 CCCTGAT
1 CACTGAT
20944495 CAATAACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:20962609 original size:13 final size:13
Alignment explanation
Indices: 20962591--20962621 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20962581 TGAAATAAAA
*
20962591 TAAAATTAAATGG
1 TAAAATTAAAAGG
20962604 TAAAATTAAAAGG
1 TAAAATTAAAAGG
20962617 TAAAA
1 TAAAA
20962622 AGGACTACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.13, T:0.26
Consensus pattern (13 bp):
TAAAATTAAAAGG
Found at i:20967964 original size:6 final size:6
Alignment explanation
Indices: 20967953--20968253 Score: 548
Period size: 6 Copynumber: 50.2 Consensus size: 6
20967943 CATATTATGG
20967953 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
20968001 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
20968049 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
20968097 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
20968145 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
* * * * * *
20968193 GTGTAT GTGTAT GTGTAT ATGTAT GTGTAT GTGTAT GTGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
20968241 ATGTAT ATGTAT A
1 ATGTAT ATGTAT A
20968254 ATACACATCT
Statistics
Matches: 291, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 291 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:20969652 original size:44 final size:43
Alignment explanation
Indices: 20969553--20969655 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 43
20969543 TGCCAATGTC
* * * *
20969553 CCAGACGTGGTCTTACATGTAATCAAACATTGATGCCACTGTC
1 CCAGACGTGGTCTTACACGTAATCAAACATAGATGCAACTGTA
*
20969596 CCAGACAG-GGTCTTACACGTAAATCTCAA-ATAGATGACAAC-GTA
1 CCAGAC-GTGGTCTTACACGT-AATC-AAACATAGATG-CAACTGTA
20969640 CCAGACGTGGTCTTAC
1 CCAGACGTGGTCTTAC
20969656 GCAATAACTC
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
43 18 0.36
44 27 0.54
45 5 0.10
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
CCAGACGTGGTCTTACACGTAATCAAACATAGATGCAACTGTA
Found at i:20971219 original size:42 final size:42
Alignment explanation
Indices: 20971173--20971272 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
20971163 CACGGCCTAA
* *
20971173 GACATGAGCTTGTGTCTCGGT-CGTGTACGACACAC-GCCATGC
1 GACATGAGCGTGTGTCTC-GTCCGGGTACGACACACAG-CATGC
* *
20971215 GACATGGGCGTGTGTCTCGTCCGGGTGCGACACACAGCATGC
1 GACATGAGCGTGTGTCTCGTCCGGGTACGACACACAGCATGC
20971257 GACATG-GACGTGTGTC
1 GACATGAG-CGTGTGTC
20971273 CCTTGTAGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
41 3 0.06
42 47 0.92
43 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (42 bp):
GACATGAGCGTGTGTCTCGTCCGGGTACGACACACAGCATGC
Found at i:20972994 original size:24 final size:24
Alignment explanation
Indices: 20972946--20972992 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20972936 ACTGGTCATA
*
20972946 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
20972970 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
20972993 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:20973699 original size:27 final size:27
Alignment explanation
Indices: 20973661--20973743 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
20973651 TCCATATCTG
*
20973661 GACTAAAATACCCTCAAAGGGTAAAAT
1 GACTGAAATACCCTCAAAGGGTAAAAT
** *
20973688 GACTGAAATACCCTTGATGGGTAAAAT
1 GACTGAAATACCCTCAAAGGGTAAAAT
* * *
20973715 GACTGAAATGCCCACATAGGGTAAAAT
1 GACTGAAATACCCTCAAAGGGTAAAAT
20973742 GA
1 GA
20973744 TCGTAATGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.20
Consensus pattern (27 bp):
GACTGAAATACCCTCAAAGGGTAAAAT
Found at i:20973751 original size:27 final size:27
Alignment explanation
Indices: 20973678--20973966 Score: 257
Period size: 27 Copynumber: 10.8 Consensus size: 27
20973668 ATACCCTCAA
* * * *
20973678 AGGGTAAAATGACTGAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATGCCCCT-AT
* *
20973706 -GGGTAAAATGACTGAAATGCCCAC-AT
1 AGGGTAAAATGACCGTAATGCCC-CTAT
* *
20973732 AGGGTAAAATGATCGTAATGCCTCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * *
20973759 AAGGTAAAATGACCATAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
*
20973786 AGGGT-AAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * * *
20973812 AGTGTAAAATGACCATAATACCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCC-TAT
* * *
20973840 AGGGTAAAAT-AGTCGTAATGCCCTTGT
1 AGGGTAAAATGA-CCGTAATGCCCCTAT
* *
20973867 AGGGT-AAATGACGGTAATG-CCCTTT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * *
20973892 AGGGTAAAACGACTGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTAT
* * *
20973919 AAGGTAAAATAACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTAT
20973946 AGGGTAAAATGACCGTAATGC
1 AGGGTAAAATGACCGTAATGC
20973967 TCTGATGGGT
Statistics
Matches: 213, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
25 9 0.04
26 47 0.22
27 137 0.64
28 20 0.09
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTAT
Found at i:20973819 original size:53 final size:54
Alignment explanation
Indices: 20973730--20973966 Score: 277
Period size: 53 Copynumber: 4.4 Consensus size: 54
20973720 AAATGCCCAC
* * *
20973730 ATAGGGTAAAATGATCGTAATGCCTCTATAAGGTAAAATGACCATAATACCCCT
1 ATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCATAATACCCCT
20973784 ATAGGGT-AAATGACCGTAATGCCCCTGT-AGTGTAAAATGACCATAATACCCCTT
1 ATAGGGTAAAATGACCGTAATGCCCCTGTAAG-GTAAAATGACCATAATACCCC-T
* * * * ** *
20973838 GTAGGGTAAAAT-AGTCGTAATGCCCTTGTAGGGT-AAATGACGGTAAT-GCCCT
1 ATAGGGTAAAATGA-CCGTAATGCCCCTGTAAGGTAAAATGACCATAATACCCCT
* * * * *
20973890 TTAGGGTAAAACGACTGTAATGCCCCTGTAAGGTAAAATAACCGTAATACCCCT
1 ATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCATAATACCCCT
20973944 ATAGGGTAAAATGACCGTAATGC
1 ATAGGGTAAAATGACCGTAATGC
20973967 TCTGATGGGT
Statistics
Matches: 153, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
52 29 0.19
53 54 0.35
54 50 0.33
55 19 0.12
56 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (54 bp):
ATAGGGTAAAATGACCGTAATGCCCCTGTAAGGTAAAATGACCATAATACCCCT
Found at i:20973977 original size:80 final size:80
Alignment explanation
Indices: 20973680--20973984 Score: 280
Period size: 80 Copynumber: 3.8 Consensus size: 80
20973670 ACCCTCAAAG
* * * * * * **
20973680 GGTAAAATGACTGAAATACCCTTGAT-GGGTAAAATGACTGAAATGCCCACATAGGGTAAAATGA
1 GGTAAAATAACCGTAATACCCCT-ATAGGGT-AAATGACCGTAATGCCCTGATAGGGTAAAATGA
* *
20973744 -TCGTAATGCCTCTATAA
64 CT-GTAATGCCCCTGTAA
* * *
20973761 GGTAAAATGACCATAATACCCCTATAGGGTAAATGACCGTAATGCCCCTG-TAGTGTAAAATGAC
1 GGTAAAATAACCGTAATACCCCTATAGGGTAAATGACCGTAATG-CCCTGATAGGGTAAAATGAC
** * *
20973825 CATAATACCCCTTGTAG
65 TGTAATGCCCC-TGTAA
** * * * * * *
20973842 GGTAAAATAGTCGTAATGCCCTTGTAGGGTAAATGACGGTAATGCCCT-TTAGGGTAAAACGACT
1 GGTAAAATAACCGTAATACCCCTATAGGGTAAATGACCGTAATGCCCTGATAGGGTAAAATGACT
20973906 GTAATGCCCCTGTAA
66 GTAATGCCCCTGTAA
*
20973921 GGTAAAATAACCGTAATACCCCTATAGGGTAAAATGACCGTAATGCTCTGAT-GGGT-AAATGAC
1 GGTAAAATAACCGTAATACCCCTATAGGGT-AAATGACCGTAATGCCCTGATAGGGTAAAATGAC
20973984 T
65 T
20973985 ATTTTTACCC
Statistics
Matches: 179, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
79 36 0.20
80 77 0.43
81 66 0.37
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (80 bp):
GGTAAAATAACCGTAATACCCCTATAGGGTAAATGACCGTAATGCCCTGATAGGGTAAAATGACT
GTAATGCCCCTGTAA
Found at i:20974040 original size:23 final size:24
Alignment explanation
Indices: 20974014--20974067 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
20974004 AAATGATTAT
*
20974014 TTTGTTTGTGGTT-AAATGACTGA
1 TTTGTCTGTGGTTGAAATGACTGA
* **
20974037 TTTGTCTGTGTTTGGTATGACTGA
1 TTTGTCTGTGGTTGAAATGACTGA
20974061 TTTGTCT
1 TTTGTCT
20974068 ATGATTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.15, C:0.07, G:0.26, T:0.52
Consensus pattern (24 bp):
TTTGTCTGTGGTTGAAATGACTGA
Found at i:20974082 original size:24 final size:24
Alignment explanation
Indices: 20974031--20974082 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
20974021 GTGGTTAAAT
* * *
20974031 GACTGATTTGTCTGTGTTTGGTAT
1 GACTGATTTGTCTATGTTTGGAAC
20974055 GACTGATTTGTCTATGATTT-GAAC
1 GACTGATTTGTCTATG-TTTGGAAC
20974079 GACT
1 GACT
20974083 AATGCTGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (24 bp):
GACTGATTTGTCTATGTTTGGAAC
Found at i:20974198 original size:27 final size:27
Alignment explanation
Indices: 20974155--20974214 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
20974145 GGAAGTATTG
* *
20974155 TACTAGTGGCTCTGCCACA-ATCACTGT
1 TACTGGTGGCTCTGCCACATAT-ACTAT
20974182 TACTGGTGGCT-TAGCCACATATACTAT
1 TACTGGTGGCTCT-GCCACATATACTAT
20974209 TACTGG
1 TACTGG
20974215 CAGCTTTGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
TACTGGTGGCTCTGCCACATATACTAT
Found at i:20974220 original size:27 final size:27
Alignment explanation
Indices: 20974168--20974220 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
20974158 TAGTGGCTCT
* **
20974168 GCCACAATCACTGTTACTGGTGGCTTA
1 GCCACAATCACTATTACTGGCAGCTTA
20974195 GCCACATAT-ACTATTACTGGCAGCTT
1 GCCACA-ATCACTATTACTGGCAGCTT
20974221 TGTCGGGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (27 bp):
GCCACAATCACTATTACTGGCAGCTTA
Found at i:20974299 original size:32 final size:32
Alignment explanation
Indices: 20974258--20974497 Score: 161
Period size: 32 Copynumber: 7.5 Consensus size: 32
20974248 GCTGCGATAC
*
20974258 TACTGATGGCTTTCTGCTGATCATAGTACCGT
1 TACTGATGGCTTTGTGCTGATCATAGTACCGT
* * *
20974290 TACTGATGGCTTCGTGCTGATCACAGTACCAT
1 TACTGATGGCTTTGTGCTGATCATAGTACCGT
* * *
20974322 TACTGATGGCTTTGTG-TCGATCATATTATCAT
1 TACTGATGGCTTTGTGCT-GATCATAGTACCGT
* * * * *
20974354 TA-TCGATGG-TTGTCTACCGATCAT-TTCACTGT
1 TACT-GATGGCTT-TGTGCTGATCATAGT-ACCGT
* ** * *
20974386 TACTGATGGCTGTGTGCCAATCATA-TCACTGC
1 TACTGATGGCTTTGTGCTGATCATAGT-ACCGT
* *
20974418 TATTGATGGCTTTGTGCTAATCAT-GTTACCGT
1 TACTGATGGCTTTGTGCTGATCATAG-TACCGT
* * * *
20974450 TACTGATGGCTGTGTGCCGATCATA-TCACTGC
1 TACTGATGGCTTTGTGCTGATCATAGT-ACCGT
20974482 TACTGATGGCTTTGTG
1 TACTGATGGCTTTGTG
20974498 ATAATCACAT
Statistics
Matches: 165, Mismatches: 31, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
31 7 0.04
32 155 0.94
33 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCTGATCATAGTACCGT
Found at i:20974426 original size:64 final size:63
Alignment explanation
Indices: 20974384--20974504 Score: 197
Period size: 64 Copynumber: 1.9 Consensus size: 63
20974374 TCATTTCACT
*
20974384 GTTACTGATGGCTGTGTGCCAATCATATCACTGCTATTGATGGCTTTGTGCTAATCATGTTACC
1 GTTACTGATGGCTGTGTGCCAATCATATCACTGCTACTGATGGC-TTGTGCTAATCATGTTACC
* *
20974448 GTTACTGATGGCTGTGTGCCGATCATATCACTGCTACTGATGGCTTTGTGATAATCA
1 GTTACTGATGGCTGTGTGCCAATCATATCACTGCTACTGATGGC-TTGTGCTAATCA
20974505 CATTACTGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (63 bp):
GTTACTGATGGCTGTGTGCCAATCATATCACTGCTACTGATGGCTTGTGCTAATCATGTTACC
Found at i:20974603 original size:26 final size:26
Alignment explanation
Indices: 20974574--20974624 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
20974564 GGCTCTTAGC
* *
20974574 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
* *
20974600 CATTATTATTACTGGCAGCTATGCT
1 CATTATGACTACTGGCAGCTATGCT
20974625 TCGATATTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:20985621 original size:18 final size:19
Alignment explanation
Indices: 20985593--20985629 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
20985583 GCATTCACAT
20985593 CTTTCCTCTCTTCTCTCCA
1 CTTTCCTCTCTTCTCTCCA
*
20985612 CTTT-CTCTCTTCTTTCCA
1 CTTTCCTCTCTTCTCTCCA
20985630 TTCCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.51
Consensus pattern (19 bp):
CTTTCCTCTCTTCTCTCCA
Found at i:21000138 original size:20 final size:21
Alignment explanation
Indices: 21000104--21000143 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21000094 GAAACTTATT
21000104 ATTTTAATAAAATATTATTTA
1 ATTTTAATAAAATATTATTTA
*
21000125 ATTTT-ATAATATATTATTT
1 ATTTTAATAAAATATTATTT
21000144 TAGCAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTAATAAAATATTATTTA
Found at i:21011113 original size:46 final size:46
Alignment explanation
Indices: 21011046--21011205 Score: 254
Period size: 46 Copynumber: 3.5 Consensus size: 46
21011036 TGAGTACTTT
*
21011046 TGATCAAGTGACAAAGTGATAAGTGGTAACTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
21011092 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGTTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
* *
21011138 TGATCAAGTGACAAAGTGAAAAGTGGTAGC-CTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
*
21011183 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
21011206 ATCATATTTA
Statistics
Matches: 107, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
43 11 0.10
44 5 0.05
45 18 0.17
46 73 0.68
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:21016382 original size:3 final size:3
Alignment explanation
Indices: 21016374--21016413 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21016364 TTTAAATTCA
21016374 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21016414 ATAAAAAAAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21018446 original size:4 final size:4
Alignment explanation
Indices: 21018430--21018480 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
21018420 TTACCATATT
* * * *
21018430 TTTA TTCA TTTA TTTA -TTA TTTA ATTA TTTT TTTAA TTTA TTTA TTAA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA
21018478 TTT
1 TTT
21018481 CCTTATTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 3 0.08
4 31 0.84
5 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:21018469 original size:28 final size:27
Alignment explanation
Indices: 21018426--21018548 Score: 106
Period size: 29 Copynumber: 4.3 Consensus size: 27
21018416 CTATTTACCA
21018426 TATTTTTATTCATTTATTTATTATTTAAT
1 TATTTTT-TTCATTTATTTATT-TTTAAT
* **
21018455 TATTTTTTTAATTTATTTATTAATTTCCT
1 TATTTTTTTCATTTATTTATT--TTTAAT
*
21018484 TATTTTTTTC-TTCTACTTA-TTTTAATT
1 TATTTTTTTCATT-TATTTATTTTTAA-T
* *
21018511 TATTTTTTTCCATTTAGTAATTTTATAAT
1 TATTTTTTT-CATTTATTTATTTT-TAAT
21018540 TATTTTTTT
1 TATTTTTTT
21018549 GTTATTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.04
27 10 0.13
28 21 0.27
29 41 0.53
30 3 0.04
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.69
Consensus pattern (27 bp):
TATTTTTTTCATTTATTTATTTTTAAT
Found at i:21020316 original size:6 final size:6
Alignment explanation
Indices: 21020305--21020361 Score: 87
Period size: 6 Copynumber: 9.0 Consensus size: 6
21020295 AGTTTATTTC
21020305 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAGT TAATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T--TTTAT
21020356 TTTTAT
1 TTTTAT
21020362 GTTCCTAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
6 40 0.83
7 2 0.04
8 2 0.04
9 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:21020994 original size:14 final size:14
Alignment explanation
Indices: 21020975--21021003 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21020965 CATACATTTT
21020975 TCATGTTCATTCTA
1 TCATGTTCATTCTA
21020989 TCATGTTCATTCTA
1 TCATGTTCATTCTA
21021003 T
1 T
21021004 TATTGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.52
Consensus pattern (14 bp):
TCATGTTCATTCTA
Found at i:21026448 original size:3 final size:3
Alignment explanation
Indices: 21026440--21026465 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21026430 AAATATACAT
21026440 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
21026466 TGCATATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:21027058 original size:23 final size:22
Alignment explanation
Indices: 21027030--21027074 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21027020 AAATTAAATG
21027030 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
21027053 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
21027075 AAGATTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:21027077 original size:19 final size:19
Alignment explanation
Indices: 21027053--21027163 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
21027043 AATCATATCT
21027053 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
21027072 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
21027091 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
21027110 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
21027129 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
21027148 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
21027164 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:21027100 original size:38 final size:38
Alignment explanation
Indices: 21027053--21027156 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
21027043 AATCATATCT
21027053 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
21027091 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
21027129 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
21027157 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:21028072 original size:31 final size:31
Alignment explanation
Indices: 21028037--21028097 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
21028027 AAAATTTTAA
*
21028037 AATTCGAAAAG-TAAAAAAATTAAAATTGATC
1 AATTC-AAAAGATAAAAAAACTAAAATTGATC
* *
21028068 AATTCAAAAGATATAGAAACTAAAATTGAT
1 AATTCAAAAGATAAAAAAACTAAAATTGAT
21028098 TAAATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.26
Consensus pattern (31 bp):
AATTCAAAAGATAAAAAAACTAAAATTGATC
Found at i:21031675 original size:70 final size:70
Alignment explanation
Indices: 21031562--21031703 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
21031552 CGTGATCGTC
*
21031562 ATCAACATGTTGATTTCGATATGGAACACCATTATCAGGTTGATATATTCAATGTTGCTATAGAT
1 ATCAACATGTTGATTTCGATATGGAACACCATTATCAGGTTGATATATTCAATGCTGCTATAGAT
21031627 TCTCA
66 TCTCA
* *
21031632 ATCAACATGTTGATTTTGATATGGAACACCATTATTAGGTTGATATATTCAATGCTGCTATAGAT
1 ATCAACATGTTGATTTCGATATGGAACACCATTATCAGGTTGATATATTCAATGCTGCTATAGAT
21031697 TCTCA
66 TCTCA
21031702 AT
1 AT
21031704 TTCTTGAGCG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (70 bp):
ATCAACATGTTGATTTCGATATGGAACACCATTATCAGGTTGATATATTCAATGCTGCTATAGAT
TCTCA
Found at i:21036976 original size:60 final size:60
Alignment explanation
Indices: 21036899--21037019 Score: 215
Period size: 60 Copynumber: 2.0 Consensus size: 60
21036889 GAAGTCGTAT
*
21036899 ACTCAACACACCAGCTTTCGATTTCTTATCTATTTGAACTTAAACTTCTACTTACATCAA
1 ACTCAACACACCAGCTTTCGACTTCTTATCTATTTGAACTTAAACTTCTACTTACATCAA
* *
21036959 ACTCAACACACCGGCTTTCGACTTCTTATCTATTTGAACTTAAACTTTTACTTACATCAA
1 ACTCAACACACCAGCTTTCGACTTCTTATCTATTTGAACTTAAACTTCTACTTACATCAA
21037019 A
1 A
21037020 GTATATGAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (60 bp):
ACTCAACACACCAGCTTTCGACTTCTTATCTATTTGAACTTAAACTTCTACTTACATCAA
Found at i:21037182 original size:25 final size:24
Alignment explanation
Indices: 21037149--21037196 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
21037139 TGAGAGATTT
21037149 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
21037173 TTATATTTATTTAATATTAATATA
1 TTAT-TTTATTTAATATTAATATA
21037197 GAATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:21041024 original size:26 final size:27
Alignment explanation
Indices: 21040965--21041024 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
21040955 ATGTGTTTTT
* *
21040965 CTATTTTTTTAAAATAAAAAATGAAAA
1 CTATTTTCTGAAAATAAAAAATGAAAA
*
21040992 CTCTTTTCTGAAAAT-AAAAATAGAAAA
1 CTATTTTCTGAAAATAAAAAAT-GAAAA
21041019 -TATTTT
1 CTATTTT
21041025 AAAAAACCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (27 bp):
CTATTTTCTGAAAATAAAAAATGAAAA
Found at i:21046001 original size:44 final size:44
Alignment explanation
Indices: 21045938--21046031 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
21045928 GTCTCGACTT
21045938 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
21045982 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
1 TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
21046026 TCATTT
1 TCATTT
21046032 ATTGAATATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (44 bp):
TCATTTTCATATGCTTATCAAATATAAGTATTGTATTAACCAAA
Found at i:21046025 original size:22 final size:22
Alignment explanation
Indices: 21045956--21046026 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
21045946 ATATGCTTAT
21045956 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
** * *
21045978 CAAATCAT-TTTCATATG-CTT-AT
1 CAAAT-ATAAGT-AT-TGTATTAAC
21046000 CAAATATAAGTATTGTATTAAC
1 CAAATATAAGTATTGTATTAAC
21046022 CAAAT
1 CAAAT
21046027 CATTTATTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 6 0.17
22 19 0.54
23 6 0.17
24 2 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (22 bp):
CAAATATAAGTATTGTATTAAC
Found at i:21046035 original size:21 final size:22
Alignment explanation
Indices: 21046010--21046053 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21046000 CAAATATAAG
*
21046010 TATTGTAT-TAACCAAATCATT
1 TATTGAATATAACCAAATCATT
*
21046031 TATTGAATATAACTAAATCATT
1 TATTGAATATAACCAAATCATT
21046053 T
1 T
21046054 TCATATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (22 bp):
TATTGAATATAACCAAATCATT
Found at i:21046370 original size:24 final size:24
Alignment explanation
Indices: 21046330--21046383 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
21046320 TATATATTCT
* *
21046330 AATTAAAT-TTTATAAATAATTAA
1 AATTAATTATTTAGAAATAATTAA
* *
21046353 TATTAATTATTTAGAAATATTTAA
1 AATTAATTATTTAGAAATAATTAA
21046377 AATTAAT
1 AATTAAT
21046384 ATTATATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTAATTATTTAGAAATAATTAA
Found at i:21047010 original size:30 final size:31
Alignment explanation
Indices: 21046962--21047021 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
21046952 AAACCTTTTA
* *
21046962 TTTTCCCCCCAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
21046992 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
21047022 TACCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:21047789 original size:5 final size:5
Alignment explanation
Indices: 21047779--21047804 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
21047769 CTCAAAAATT
21047779 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
21047805 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:21047849 original size:13 final size:13
Alignment explanation
Indices: 21047828--21047878 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
21047818 CTACTCAAAT
21047828 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
21047841 TTCTTAAAAGAAC
1 TTCTCAAAAGCAC
*
21047854 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
21047867 TTCTCAAAAGCA
1 TTCTCAAAAGCA
21047879 ATAAAGAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:21054226 original size:8 final size:8
Alignment explanation
Indices: 21054213--21054242 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
21054203 TCATTTAGCA
21054213 TCCAAGTG
1 TCCAAGTG
21054221 TCCAAGT-
1 TCCAAGTG
21054228 TCCAAGTG
1 TCCAAGTG
21054236 TCCAAGT
1 TCCAAGT
21054243 TTGACACTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (8 bp):
TCCAAGTG
Found at i:21054233 original size:15 final size:15
Alignment explanation
Indices: 21054213--21054243 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21054203 TCATTTAGCA
21054213 TCCAAGTGTCCAAGT
1 TCCAAGTGTCCAAGT
21054228 TCCAAGTGTCCAAGT
1 TCCAAGTGTCCAAGT
21054243 T
1 T
21054244 TGACACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (15 bp):
TCCAAGTGTCCAAGT
Found at i:21054844 original size:7 final size:8
Alignment explanation
Indices: 21054805--21054851 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
21054795 AAAATGTCAA
21054805 ACTCAAAT
1 ACTCAAAT
21054813 ACTCAAAT
1 ACTCAAAT
21054821 ACTCAAAT
1 ACTCAAAT
21054829 ACTCAAAT
1 ACTCAAAT
21054837 AC-CAAAT
1 ACTCAAAT
21054844 AC-CAAAT
1 ACTCAAAT
21054851 A
1 A
21054852 AAAATTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
7 13 0.33
8 26 0.67
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (8 bp):
ACTCAAAT
Found at i:21062078 original size:23 final size:23
Alignment explanation
Indices: 21062038--21062081 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21062028 AATCTGGATT
*
21062038 TTAAAATTTGAAAGATAAAAAAA
1 TTAAAATTTGAAAAATAAAAAAA
* *
21062061 TTAAATTTTTAAAAATAAAAA
1 TTAAAATTTGAAAAATAAAAA
21062082 TAAAATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (23 bp):
TTAAAATTTGAAAAATAAAAAAA
Found at i:21062699 original size:20 final size:21
Alignment explanation
Indices: 21062661--21062699 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21062651 CATTCTTATT
*
21062661 TTAATATTAAATAAAGAAATA
1 TTAATATTAAACAAAGAAATA
*
21062682 TTAATA-TAAACAATGAAA
1 TTAATATTAAACAAAGAAA
21062700 CTTATTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
TTAATATTAAACAAAGAAATA
Found at i:21073238 original size:18 final size:18
Alignment explanation
Indices: 21073215--21073250 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21073205 CTCGGTTACT
21073215 ATGTTTCATCAATTTTCA
1 ATGTTTCATCAATTTTCA
21073233 ATGTTTCATCAATTTTCA
1 ATGTTTCATCAATTTTCA
21073251 TACAATGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGTTTCATCAATTTTCA
Found at i:21074931 original size:12 final size:12
Alignment explanation
Indices: 21074914--21074945 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
21074904 ATTTTTACCC
*
21074914 AATTTCTTCAAT
1 AATTTCTTCAAG
21074926 AATTTCTTCAAG
1 AATTTCTTCAAG
21074938 AATTTCTT
1 AATTTCTT
21074946 TTCCTAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.03, T:0.50
Consensus pattern (12 bp):
AATTTCTTCAAG
Found at i:21080008 original size:98 final size:98
Alignment explanation
Indices: 21079837--21080033 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
21079827 GTGCAATAAA
* * *
21079837 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
*
21079902 CCTCTAAAATCCCAAACTCGGAATATTTCATTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCATTT
21079935 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
* *
21080000 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCATTT
21080033 A
1 A
21080034 TTATTTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAAGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCATTT
Found at i:21081483 original size:22 final size:21
Alignment explanation
Indices: 21081448--21081526 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
21081438 AAAGGGCATC
* * *
21081448 TACAAATTAAATCTCTAAGCT
1 TACAAATCATATCTCTAAGAT
21081469 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
21081492 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
21081511 TGCATATATCATATCT
1 TACA-A-ATCATATCT
21081527 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
19 11 0.24
21 9 0.20
22 15 0.33
23 11 0.24
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:21081494 original size:23 final size:22
Alignment explanation
Indices: 21081448--21081505 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21081438 AAAGGGCATC
* * *
21081448 TACAAATTAAATC-TCTAAGCT
1 TACAAATCATATCTTCTAAGAT
21081469 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
21081492 TACATATCATATCT
1 TACAAATCATATCT
21081506 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21081521 original size:21 final size:21
Alignment explanation
Indices: 21081495--21081538 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21081485 CTAAGATTAC
21081495 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
21081516 ATATCATATCTAAGATTGTAT
1 ATATCATATCTAAGATTGCAT
21081537 AT
1 AT
21081539 CCTCGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:21081539 original size:19 final size:19
Alignment explanation
Indices: 21081484--21081539 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
21081474 AATCATATCT
**
21081484 TCTAAGATTACATATCATA
1 TCTAAGATTGTATATCATA
21081503 TCTAAGATTGCATATATCATA
1 TCTAAGATTG--TATATCATA
21081524 TCTAAGATTGTATATC
1 TCTAAGATTGTATATC
21081540 CTCGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGTATATCATA
Found at i:21082981 original size:10 final size:10
Alignment explanation
Indices: 21082966--21083025 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
21082956 CCATTGTATA
21082966 ATTTTTATTT
1 ATTTTTATTT
21082976 ATTTTTATTT
1 ATTTTTATTT
* *
21082986 CGTCTTTATTT
1 -ATTTTTATTT
21082997 ATTTTTATGTCT
1 ATTTTTAT-T-T
*
21083009 ATTTATATTT
1 ATTTTTATTT
21083019 ATGTTTT
1 AT-TTTT
21083026 TTACACATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
10 19 0.47
11 13 0.32
12 8 0.20
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:21083013 original size:16 final size:16
Alignment explanation
Indices: 21082992--21083022 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21082982 ATTTCGTCTT
*
21082992 TATTTATTTTTATGTC
1 TATTTATATTTATGTC
21083008 TATTTATATTTATGT
1 TATTTATATTTATGT
21083023 TTTTTACACA
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:0.23, C:0.03, G:0.06, T:0.68
Consensus pattern (16 bp):
TATTTATATTTATGTC
Found at i:21087658 original size:30 final size:31
Alignment explanation
Indices: 21087578--21087659 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
21087568 AGGGATTTAT
* *
21087578 TGAGAATTTTCAAAAATTTTGGTAGGCCTAA
1 TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
* * *
21087609 TTAGAACTTTAACAAATTTTGG-AGGCTTAA
1 TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
*
21087639 TGAG-AGTTCTAAAAAATTTTG
1 TGAGAACTT-TAAAAAATTTTG
21087660 AAATGCTTCA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 3 0.07
30 21 0.50
31 18 0.43
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (31 bp):
TGAGAACTTTAAAAAATTTTGGTAGGCCTAA
Found at i:21088081 original size:22 final size:23
Alignment explanation
Indices: 21088036--21088083 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21088026 TTTTTTTTCA
* * *
21088036 TTTTAATAGATTATATTTATAAT
1 TTTTAAAAGATTATAATTAAAAT
21088059 TTTTAAAAGATTA-AATTAAAAT
1 TTTTAAAAGATTATAATTAAAAT
21088081 TTT
1 TTT
21088084 ATATAAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTTAAAAGATTATAATTAAAAT
Found at i:21088611 original size:21 final size:21
Alignment explanation
Indices: 21088582--21088626 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21088572 TTACGCCTCT
*
21088582 ATTCTATTACAACTCTATTCC
1 ATTCCATTACAACTCTATTCC
*
21088603 ATTCCATTACACCTCTATTCC
1 ATTCCATTACAACTCTATTCC
21088624 ATT
1 ATT
21088627 ACAGCGAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTCCATTACAACTCTATTCC
Found at i:21096287 original size:51 final size:50
Alignment explanation
Indices: 21096163--21096499 Score: 349
Period size: 51 Copynumber: 6.7 Consensus size: 50
21096153 GTGAAGTTGC
*
21096163 TAGGTCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTACCCGAAT-GA
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGAATAGA
* * *** *
21096213 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGAATAGCT
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-A
* * * * *
21096264 TCGATCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGAT-GAA
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-A
* * * * *
21096314 AATGGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAA
1 TA-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAT--AGA
21096367 TA-GTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA-ATGA
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATA-GA
* * * * * *
21096416 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAG-A
* *
21096467 TTGATCACGTGTGTAGTACTATGTGCAGGCTAC
1 TAGGTCACGTGTGTAGTACTATGTGCAGGCTAC
21096500 CATGTGAACC
Statistics
Matches: 237, Mismatches: 40, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.00
49 9 0.04
50 76 0.32
51 149 0.63
53 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TAGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATAGA
Found at i:21096445 original size:152 final size:152
Alignment explanation
Indices: 21096165--21096499 Score: 392
Period size: 152 Copynumber: 2.2 Consensus size: 152
21096155 GAAGTTGCTA
* *
21096165 GGTCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTACCCGAATGATAGGTCGCATGTGTAGT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATGATAGGTCACATGTGTAGT
* * * *
21096230 ACTATGTGCAGGCTACTATACGTACCGAATAGCTTCGATCACGTGTGTAGTACTATGTACAGGCT
66 ACTATGTGCAGGCTACTACACGTACCGAATAGCATAGATCACATGTGTAGTACTATGTACAGGCT
* *
21096295 ACTACGTGTATCGGAT-GAAAAT
131 ACTACGCGTACCGGATAG-AAAT
* * * *
21096317 GGTCACGTATGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATGAAAATA-GTCACGTGTGT
1 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATG---ATAGGTCACATGTGT
** * * *
21096380 AGTACTATGTGCAGGCTACTACGTGTACCGAA-ATG-ATAGGTCGCATGTGTAGTACTATGTGCA
63 AGTACTATGTGCAGGCTACTACACGTACCGAATA-GCATAGATCACATGTGTAGTACTATGTACA
* ***
21096443 GGCTACTATGCGTACCGGATAGCTTT
127 GGCTACTACGCGTACCGGATAGAAAT
*
21096469 GATCACGTGTGTAGTACTATGTGCAGGCTAC
1 GGTCACGTGTGTAGTACTATGTGCAGGCTAC
21096500 CATGTGAACC
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
151 5 0.03
152 107 0.69
153 40 0.26
154 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (152 bp):
GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCCGAATGATAGGTCACATGTGTAGT
ACTATGTGCAGGCTACTACACGTACCGAATAGCATAGATCACATGTGTAGTACTATGTACAGGCT
ACTACGCGTACCGGATAGAAAT
Found at i:21096477 original size:101 final size:100
Alignment explanation
Indices: 21096167--21096499 Score: 452
Period size: 101 Copynumber: 3.3 Consensus size: 100
21096157 AGTTGCTAGG
*
21096167 TCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTACCCGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGAATGATAGGTCGCATGTGTAGTAC
* * *
21096232 TATGTGCAGGCTACTATACGTACCGAATAGCTTCGA
65 TATGTGCAGGCTACTATGCGTACCGGATAGCTTAGA
* * * * * * *
21096268 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGTATCGGATGAAAATGGTCACGTATGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATG-ATA-GGTCGCATGTGTAGTA
* * * ***
21096333 CTATGTGCAGGCTACTACGTGTATCGGATGAAAATAG-
64 CTATGTGCAGGCTACTATGCGTACCGGAT-AGCTTAGA
21096370 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCG-AATGATAGGTCGCATGTGTAGTAC
*
21096435 TATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
65 TATGTGCAGGCTACTATGCGTACCGGATAGCTTAGA
21096471 TCACGTGTGTAGTACTATGTGCAGGCTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTAC
21096500 CATGTGAACC
Statistics
Matches: 197, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
100 8 0.04
101 106 0.54
102 77 0.39
103 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAGGTCGCATGTGTAGTACT
ATGTGCAGGCTACTATGCGTACCGGATAGCTTAGA
Found at i:21110339 original size:21 final size:19
Alignment explanation
Indices: 21110293--21110330 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21110283 TACTTTTTTT
21110293 AAAAATTTTTTATTTTTAA
1 AAAAATTTTTTATTTTTAA
*
21110312 AATAAATTTTTTATGTTTA
1 AA-AAATTTTTTATTTTTA
21110331 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
AAAAATTTTTTATTTTTAA
Found at i:21116744 original size:16 final size:17
Alignment explanation
Indices: 21116720--21116755 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
21116710 ACCTACAATT
*
21116720 ATAATTATAAATT-AGA
1 ATAAATATAAATTAAGA
21116736 ATAAATATAAATTAAGA
1 ATAAATATAAATTAAGA
21116753 ATA
1 ATA
21116756 GCAATAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
ATAAATATAAATTAAGA
Found at i:21116967 original size:31 final size:30
Alignment explanation
Indices: 21116932--21116995 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
21116922 TATAATTTGA
***
21116932 TCATTGAACTATTTGTAAGTTTTTATTTAAG
1 TCATTGAACTATTAAAAAGTTTTTA-TTAAG
*
21116963 TCATTGATCTATTAAAAAGTTTTTATTAAG
1 TCATTGAACTATTAAAAAGTTTTTATTAAG
21116993 TCA
1 TCA
21116996 CTAAGTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (30 bp):
TCATTGAACTATTAAAAAGTTTTTATTAAG
Found at i:21126001 original size:51 final size:51
Alignment explanation
Indices: 21125942--21126050 Score: 200
Period size: 51 Copynumber: 2.1 Consensus size: 51
21125932 ATTTATTACT
21125942 TGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACC
1 TGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACC
* *
21125993 TGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACT
1 TGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACC
21126044 TGTCACT
1 TGTCACT
21126051 GATCAAAAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
TGTCACTTGTCACTGATCAGATAAATGTAGCTAAAGCTACCACTTATCACC
Found at i:21134669 original size:21 final size:21
Alignment explanation
Indices: 21134639--21134700 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
21134629 GCTTCAGTTT
21134639 AACCCTTATGAGTTTTTGTTC
1 AACCCTTATGAGTTTTTGTTC
* * * *
21134660 AGCTCTTATGAGCTTTCGTTC
1 AACCCTTATGAGTTTTTGTTC
* *
21134681 AACCCTTATGGGTTTCTGTT
1 AACCCTTATGAGTTTTTGTT
21134701 TAGCACTTCA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
AACCCTTATGAGTTTTTGTTC
Found at i:21134685 original size:42 final size:42
Alignment explanation
Indices: 21134590--21134700 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
21134580 TAACTCATAT
* * *
21134590 TTCAGTTTAACCC-TATTGGGTTTCT-TTTAGCTCTTTCGAGC
1 TTCAGTTCAACCCTTA-TGAGTTTCTGTTCAGCTCTTTCGAGC
* *
21134631 TTCAGTTTAACCCTTATGAGTTTTTGTTCAGCTCTTAT-GAGC
1 TTCAGTTCAACCCTTATGAGTTTCTGTTCAGCTCTT-TCGAGC
*
21134673 TTTC-GTTCAACCCTTATGGGTTTCTGTT
1 -TTCAGTTCAACCCTTATGAGTTTCTGTT
21134701 TAGCACTTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
41 20 0.33
42 36 0.60
43 4 0.07
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (42 bp):
TTCAGTTCAACCCTTATGAGTTTCTGTTCAGCTCTTTCGAGC
Found at i:21145244 original size:18 final size:18
Alignment explanation
Indices: 21145221--21145259 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21145211 CCACATCAAT
* *
21145221 AAATATTTAAAAATTAAA
1 AAATATTAAAAAAATAAA
21145239 AAATATTAAAAAAATAAA
1 AAATATTAAAAAAATAAA
21145257 AAA
1 AAA
21145260 ATCAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATTAAAAAAATAAA
Found at i:21145246 original size:10 final size:9
Alignment explanation
Indices: 21145229--21145261 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
21145219 ATAAATATTT
21145229 AAAAATTAA
1 AAAAATTAA
21145238 AAAATATTAA
1 AAAA-ATTAA
21145248 AAAAA-TAA
1 AAAAATTAA
21145256 AAAAAT
1 AAAAAT
21145262 CAAATTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
9 5 0.23
10 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:21147945 original size:36 final size:35
Alignment explanation
Indices: 21147898--21148019 Score: 147
Period size: 36 Copynumber: 3.4 Consensus size: 35
21147888 GAAAATCCCA
*
21147898 CCAAAACACACCAGATGCTCATAAGAGCTAGTCCAT
1 CCAAAACACACCA-ATGCTCATAAGAGCTAATCCAT
*
21147934 CCAAAGCACACCAAATGCTCATAAGAGCTAATCCAT
1 CCAAAACACACC-AATGCTCATAAGAGCTAATCCAT
* * *
21147970 TCAAAACACACCAATAGCTC-TGAAGAGCTAATCTAA
1 CCAAAACACACCAAT-GCTCAT-AAGAGCTAATCCAT
*
21148006 CCGAAACACACCAA
1 CCAAAACACACCAA
21148020 AACAAAGAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
35 4 0.05
36 70 0.93
37 1 0.01
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.16
Consensus pattern (35 bp):
CCAAAACACACCAATGCTCATAAGAGCTAATCCAT
Found at i:21152335 original size:20 final size:20
Alignment explanation
Indices: 21152307--21152347 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21152297 ACTCTGTTGC
*
21152307 TTGAGTTTGCCGCTGGAATT
1 TTGACTTTGCCGCTGGAATT
* *
21152327 TTGACTTTGCTGCTTGAATT
1 TTGACTTTGCCGCTGGAATT
21152347 T
1 T
21152348 ACTGCTTGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
TTGACTTTGCCGCTGGAATT
Found at i:21153296 original size:20 final size:20
Alignment explanation
Indices: 21153271--21153313 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
21153261 AAATAAAAGT
*
21153271 ATGGTGATTAAACAGGTGGC
1 ATGGTGATTAAACAGGCGGC
21153291 ATGGTGATTAAACAGGCGGC
1 ATGGTGATTAAACAGGCGGC
21153311 ATG
1 ATG
21153314 TATTAAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (20 bp):
ATGGTGATTAAACAGGCGGC
Found at i:21153525 original size:13 final size:13
Alignment explanation
Indices: 21153507--21153531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21153497 TTTTAAAACG
21153507 CAACATGTAAAAA
1 CAACATGTAAAAA
21153520 CAACATGTAAAA
1 CAACATGTAAAA
21153532 TTTTGTTTAA
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (13 bp):
CAACATGTAAAAA
Found at i:21158006 original size:236 final size:236
Alignment explanation
Indices: 21157588--21158062 Score: 833
Period size: 236 Copynumber: 2.0 Consensus size: 236
21157578 TTATTGGGGG
* * *
21157588 AAAACATACGGACTGTTGGCTTTGAATTAAGTAGGAGCATTTCCTCTGAGAAAGTAATTTAAGAA
1 AAAACATACGGACTGTTGGCATTGAATTAAGTAGGAGCATTGCCTCCGAGAAAGTAATTTAAGAA
* * * *
21157653 AGTGCTTAAAAATTATATCCAACCTTATAAAAAGTATAATGATTAATTGAGGTTGAGCGCTATCG
66 AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
* *
21157718 TGCATTAAGCAAAATTCCTGACTATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAG
131 TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
21157783 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
196 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
*
21157824 AAAATATACGGACTGTTGGCATTGAATTAAGTAGGAGCATTGCCTCCGAGAAAGTAATTTAAGAA
1 AAAACATACGGACTGTTGGCATTGAATTAAGTAGGAGCATTGCCTCCGAGAAAGTAATTTAAGAA
*
21157889 AGTGCTCAAAAATTATATCCGACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
66 AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
* *
21157954 TGCGTTGAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
131 TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
21158019 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
196 TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
21158060 AAA
1 AAA
21158063 TCATGGTTGT
Statistics
Matches: 226, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
236 226 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (236 bp):
AAAACATACGGACTGTTGGCATTGAATTAAGTAGGAGCATTGCCTCCGAGAAAGTAATTTAAGAA
AGTGCTCAAAAATTATATCCAACCTTATAAAAAGTAGAAGGATTAATTGAGGATGAGCGCTATCG
TGCATTAAGCAAAATTCCTGACCATCCAATGCAAATGCTTATTTTCTTCAGTCTACCTTCTTCAA
TGCGATTGGAATGGGTTAGAAGATTTCTTTCTGACCATTAA
Found at i:21158373 original size:24 final size:23
Alignment explanation
Indices: 21158324--21158373 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
21158314 TAAAGTATGT
* *
21158324 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
21158347 TATATTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
21158371 TAT
1 TAT
21158374 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:21158495 original size:61 final size:59
Alignment explanation
Indices: 21158347--21158500 Score: 170
Period size: 61 Copynumber: 2.6 Consensus size: 59
21158337 TATAATATTA
* * * *
21158347 TATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAGAATGTTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATA-TTTAATAAAAATTATATTAAGAATATGATTAAAT
* *
21158408 TATATATTA-TTTTATTAAATTGTATTTAATAAAAATTATGTTAA-AATATGATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAAAAATTATATTAAGAATATGATTAAAT
*
21158465 TATTTATTTTTATTTTTATTAAATTATATTTAATAA
1 TA--TA-TATTATTTTTATTAAATTATATTTAATAA
21158501 TAATCTTATT
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
57 13 0.16
58 18 0.22
59 11 0.14
60 12 0.15
61 26 0.32
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.54
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAATAAAAATTATATTAAGAATATGATTAAAT
Found at i:21158707 original size:16 final size:16
Alignment explanation
Indices: 21158688--21158736 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
21158678 AATTACTAAA
*
21158688 TACAACTCTAATCCAT
1 TACAACTCTATTCCAT
*
21158704 TACATCTCTATTCCAT
1 TACAACTCTATTCCAT
*
21158720 TACAACCCTATTCCAT
1 TACAACTCTATTCCAT
21158736 T
1 T
21158737 CACCCTAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.37
Consensus pattern (16 bp):
TACAACTCTATTCCAT
Found at i:21170487 original size:49 final size:49
Alignment explanation
Indices: 21170415--21170796 Score: 401
Period size: 49 Copynumber: 7.8 Consensus size: 49
21170405 GAACTTGTAC
* * * *
21170415 ATTCTACCAT-CCTGGTTGGCCCGACAACGATTGCTTTCACTATTTGTAT
1 ATTCTACCATCCCAGG-TGGCCCGACAACGATAGTTTTCACTATTTGCAT
* *
21170464 ATTCTACCATCCCAGGTGACCCGACAACGATAGCTTTCACTATTTGCAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* *
21170513 ATTCTACCATCCC-GAGTGACCCGACAACGATGGTTTTCACTATTTGCAT
1 ATTCTACCATCCCAG-GTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* * ** ** *
21170562 ATTCCACCATCTCAGGTGGCTTGATTACGATAGTTTTCACTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
*** * *
21170611 ATTCTACCATCTTGGGTGGCCCGACAACGATGGTTTTCGCTATTTGCAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* * * * *
21170660 ATTCTACCATCCCAGGTGGCTCGATAACGATAGTTTTTAGTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
*** * * *
21170709 ATTCTACCATCTTGGGTGGCCCGACAACAATAGCTTTCACTATTTACAT
1 ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
* ** *
21170758 ATTCTACCAT-CCTGAGTGGCCTAACAACGATGGTTTTCA
1 ATTCTACCATCCCAG-GTGGCCCGACAACGATAGTTTTCA
21170797 ATCACTATAT
Statistics
Matches: 277, Mismatches: 52, Indels: 8
0.82 0.15 0.02
Matches are distributed among these distances:
48 2 0.01
49 270 0.97
50 5 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (49 bp):
ATTCTACCATCCCAGGTGGCCCGACAACGATAGTTTTCACTATTTGCAT
Found at i:21170689 original size:147 final size:147
Alignment explanation
Indices: 21170431--21170796 Score: 446
Period size: 147 Copynumber: 2.5 Consensus size: 147
21170421 CCATCCTGGT
* * ** ** * *
21170431 TGGCCCGACAACGATTGCTTTCACTATTTGTATATTCTACCATCCCAGGTGACCCGACAACGATA
1 TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGGTGGCCCGACAACGATG
* * *
21170496 GCTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGATGGTTTTCACTATTTGCA
66 GTTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGATAGTTTTCACTATTTACA
21170561 TATTCCACCATCTCAGG
131 TATTCCACCATCTCAGG
** ** * * *
21170578 TGGCTTGATTACGATAGTTTTCACTATTTACATATTCTACCATCTTGGGTGGCCCGACAACGATG
1 TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGGTGGCCCGACAACGATG
* * * * * *
21170643 GTTTTCGCTATTTGCATATTCTACCATCCC-AGGTGGCTCGATAACGATAGTTTTTAGTATTTAC
66 GTTTTCACTATTTGCATATTCTACCATCCCGA-GTGACCCGACAACGATAGTTTTCACTATTTAC
* **
21170707 ATATTCTACCATCTTGGG
130 ATATTCCACCATCTCAGG
* **
21170725 TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGAGTGGCCTAACAACGATG
1 TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGGTGGCCCGACAACGATG
21170790 GTTTTCA
66 GTTTTCA
21170797 ATCACTATAT
Statistics
Matches: 182, Mismatches: 36, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
146 1 0.01
147 181 0.99
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (147 bp):
TGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCCTGGGTGGCCCGACAACGATG
GTTTTCACTATTTGCATATTCTACCATCCCGAGTGACCCGACAACGATAGTTTTCACTATTTACA
TATTCCACCATCTCAGG
Found at i:21170777 original size:98 final size:98
Alignment explanation
Indices: 21170415--21170769 Score: 485
Period size: 98 Copynumber: 3.6 Consensus size: 98
21170405 GAACTTGTAC
* * *
21170415 ATTCTACCATCCTGGTTGGCCCGACAACGATTGCTTTCACTATTTGTATATTCTACCATCCCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* * * * *
21170480 TGACCCGACAACGATAGCTTTCACTATTTGCAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * * * * *
21170513 ATTCTACCATCCCGAGTGACCCGACAACGATGGTTTTCACTATTTGCATATTCCACCATCTCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* *
21170578 TGGCTTGATTACGATAGTTTTCACTATTTACAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * *
21170611 ATTCTACCATCTTGGGTGGCCCGACAACGATGGTTTTCGCTATTTGCATATTCTACCATCCCAGG
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
* *
21170676 TGGCTCGATAACGATAGTTTTTAGTATTTACAT
66 TGGCTCGATAACGATAGTTTTCACTATTTACAT
* * * *
21170709 ATTCTACCATCTTGGGTGGCCCGACAACAATAGCTTTCACTATTTACATATTCTACCATCC
1 ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCC
21170770 TGAGTGGCCT
Statistics
Matches: 225, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 225 1.00
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (98 bp):
ATTCTACCATCCTGGGTGGCCCGACAACGATGGCTTTCACTATTTGCATATTCTACCATCCCAGG
TGGCTCGATAACGATAGTTTTCACTATTTACAT
Found at i:21172814 original size:21 final size:21
Alignment explanation
Indices: 21172788--21172830 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21172778 GTGTGGAAAG
21172788 AACATCCCGAATCTAGAATTC
1 AACATCCCGAATCTAGAATTC
21172809 AACATCCCGAATCTAGAATTC
1 AACATCCCGAATCTAGAATTC
21172830 A
1 A
21172831 TTCAGACGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (21 bp):
AACATCCCGAATCTAGAATTC
Found at i:21173886 original size:24 final size:23
Alignment explanation
Indices: 21173842--21173886 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
21173832 AGATAAATAT
* *
21173842 GAAAAAAATAAATCTCGAAACAC
1 GAAAAAAATAAACCTCAAAACAC
*
21173865 GAAAACAAATAACCCTCAAAAC
1 GAAAA-AAATAAACCTCAAAAC
21173887 GTAAATAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.60, C:0.22, G:0.07, T:0.11
Consensus pattern (23 bp):
GAAAAAAATAAACCTCAAAACAC
Found at i:21175525 original size:9 final size:9
Alignment explanation
Indices: 21175513--21175541 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
21175503 TGTATTTATG
21175513 AAAAAATAT
1 AAAAAATAT
21175522 -AAAAATAT
1 AAAAAATAT
21175530 AAAAAATAT
1 AAAAAATAT
21175539 AAA
1 AAA
21175542 TAAGAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAAATAT
Found at i:21177753 original size:19 final size:20
Alignment explanation
Indices: 21177723--21177760 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
21177713 GACAATCTCT
21177723 CATAATTTTTAGTATTTTCC
1 CATAATTTTTAGTATTTTCC
21177743 CATAA-TTTTAGTATTTTC
1 CATAATTTTTAGTATTTTC
21177761 TCGTAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (20 bp):
CATAATTTTTAGTATTTTCC
Found at i:21177969 original size:20 final size:20
Alignment explanation
Indices: 21177946--21178020 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 20
21177936 CCTCTTATAA
21177946 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATGT
*
21177966 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATGT
* *
21177987 TTTTTGGTATTTCC-TCGTGT
1 TTTTTGGTA-CTCCATCATGT
*
21178007 TTTTTAGTACTCCA
1 TTTTTGGTACTCCA
21178021 AAAATTATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.07
20 24 0.52
21 17 0.37
22 2 0.04
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATGT
Found at i:21177982 original size:21 final size:20
Alignment explanation
Indices: 21177946--21177995 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
21177936 CCTCTTATAA
*
21177946 TTTTTGGTACTCCATCATGT
1 TTTTTGGTACTCCATCATAT
21177966 TTTTTGGTACTCACATCATAT
1 TTTTTGGTACTC-CATCATAT
21177987 TTTTTGGTA
1 TTTTTGGTA
21177996 TTTCCTCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (20 bp):
TTTTTGGTACTCCATCATAT
Found at i:21182743 original size:16 final size:17
Alignment explanation
Indices: 21182724--21182756 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21182714 CTTATAATTT
21182724 TTTTCAT-TTATTTAAA
1 TTTTCATATTATTTAAA
*
21182740 TTTTCATATTTTTTAAA
1 TTTTCATATTATTTAAA
21182757 AATTATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTCATATTATTTAAA
Found at i:21184510 original size:30 final size:28
Alignment explanation
Indices: 21184436--21184595 Score: 151
Period size: 29 Copynumber: 5.5 Consensus size: 28
21184426 ACAAAAAATA
*
21184436 AAAATTACATTTTGACCCCTAAACTTCTT
1 AAAATTACATTTTGACCCCTAAA-TTTTT
* ** *
21184465 GAAATCGC-GTTTGACCCCTAAATTTTCCT
1 AAAATTACATTTTGACCCCTAAATTTT--T
*
21184494 AAAATTATATTTTGACCCCTAAACTTTTT
1 AAAATTACATTTTGACCCCTAAA-TTTTT
* *
21184523 GAAATTACATTTTGACCCATTAAATTTTT
1 AAAATTACATTTTGACCC-CTAAATTTTT
* *
21184552 GAAATTACATTTTGACTCCTAAATTTTCT
1 AAAATTACATTTTGACCCCTAAATTTT-T
*
21184581 AAAAATTATATTTTG
1 -AAAATTACATTTTG
21184596 GCCACACAAG
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
27 3 0.03
28 21 0.20
29 50 0.47
30 29 0.27
31 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (28 bp):
AAAATTACATTTTGACCCCTAAATTTTT
Found at i:21184563 original size:14 final size:14
Alignment explanation
Indices: 21184518--21184564 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
21184508 ACCCCTAAAC
21184518 TTTTTGAAATTACA
1 TTTTTGAAATTACA
* *
21184532 -TTTTGACCCATTAAA
1 TTTTTGA--AATTACA
21184547 TTTTTGAAATTACA
1 TTTTTGAAATTACA
21184561 TTTT
1 TTTT
21184565 GACTCCTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 6 0.23
14 9 0.35
15 5 0.19
16 6 0.23
ACGTcount: A:0.32, C:0.11, G:0.06, T:0.51
Consensus pattern (14 bp):
TTTTTGAAATTACA
Found at i:21184575 original size:28 final size:28
Alignment explanation
Indices: 21184437--21184578 Score: 160
Period size: 29 Copynumber: 4.9 Consensus size: 28
21184427 CAAAAAATAA
*
21184437 AAATTACATTTTGACCCCTAAACTTCTTG
1 AAATTACATTTTGACCCCTAAA-TTTTTG
** * *
21184466 AAATCGC-GTTTGACCCCTAAATTTTCCTA
1 AAATTACATTTTGACCCCTAAATTTT--TG
*
21184495 AAATTATATTTTGACCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAA-TTTTTG
*
21184524 AAATTACATTTTGACCCATTAAATTTTTG
1 AAATTACATTTTGACCC-CTAAATTTTTG
*
21184553 AAATTACATTTTGACTCCTAAATTTT
1 AAATTACATTTTGACCCCTAAATTTT
21184579 CTAAAAATTA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.03
28 21 0.22
29 49 0.52
30 17 0.18
31 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.42
Consensus pattern (28 bp):
AAATTACATTTTGACCCCTAAATTTTTG
Found at i:21184964 original size:3 final size:3
Alignment explanation
Indices: 21184956--21184994 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
21184946 GGTTTTGAGA
* *
21184956 AAG AAG AAGG AAG AAG AAG AAA AAT AAG AAG AAG AAG AA
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
21184995 AGGAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:21184984 original size:25 final size:24
Alignment explanation
Indices: 21184955--21185029 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 24
21184945 GGGTTTTGAG
21184955 AAAGAAGAAGGAAGAAGAAGAAAA
1 AAAGAAGAAGGAAGAAGAAGAAAA
*
21184979 ATAAGAAGAA-GAAG-A-AAGGAAA
1 A-AAGAAGAAGGAAGAAGAAGAAAA
*
21185001 AAA-AAGAAAGGAAAAAG-AGAAAA
1 AAAGAAG-AAGGAAGAAGAAGAAAA
21185024 AAAGAA
1 AAAGAA
21185030 AATAAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 3 0.07
21 4 0.10
22 10 0.24
23 10 0.24
24 7 0.17
25 8 0.19
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (24 bp):
AAAGAAGAAGGAAGAAGAAGAAAA
Found at i:21184991 original size:21 final size:21
Alignment explanation
Indices: 21184959--21185029 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 21
21184949 TTTGAGAAAG
21184959 AAGAAGGAAGAAGAAGAAAAA
1 AAGAAGGAAGAAGAAGAAAAA
21184980 TAAGAA-GAAGAAGAAAGGAAAAAA
1 -AAGAAGGAAGAAG-AA-G-AAAAA
*
21185004 AAGAAAGGAAAAAG-AGAAAAA
1 AAG-AAGGAAGAAGAAGAAAAA
21185025 AAGAA
1 AAGAA
21185030 AATAAATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
20 2 0.05
21 15 0.35
22 8 0.19
23 5 0.12
24 7 0.16
25 6 0.14
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.01
Consensus pattern (21 bp):
AAGAAGGAAGAAGAAGAAAAA
Found at i:21185022 original size:13 final size:14
Alignment explanation
Indices: 21184990--21185016 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21184980 TAAGAAGAAG
21184990 AAGAAAGGAAAAAA
1 AAGAAAGGAAAAAA
21185004 AAGAAAGGAAAAA
1 AAGAAAGGAAAAA
21185017 GAGAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAGAAAGGAAAAAA
Found at i:21185276 original size:9 final size:9
Alignment explanation
Indices: 21185262--21185350 Score: 54
Period size: 9 Copynumber: 9.0 Consensus size: 9
21185252 AGAATAAAGG
21185262 AAGGAAAAA
1 AAGGAAAAA
21185271 AAGGAAAAAAGA
1 AAGG--AAAA-A
*
21185283 AAGAAAAAA
1 AAGGAAAAA
*
21185292 AAGAAAAAAA
1 AAG-GAAAAA
21185302 AAGAGAAAAAGA
1 AAG-G-AAAA-A
*
21185314 GTAATGAAAAA
1 --AAGGAAAAA
*
21185325 AAAGAAAAA
1 AAGGAAAAA
21185334 AA-GAAAAA
1 AAGGAAAAA
21185342 AAGGAAAAA
1 AAGGAAAAA
21185351 GGGTTGTGTA
Statistics
Matches: 67, Mismatches: 4, Indels: 18
0.75 0.04 0.20
Matches are distributed among these distances:
8 8 0.12
9 24 0.36
10 14 0.21
11 9 0.13
12 9 0.13
13 1 0.01
14 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (9 bp):
AAGGAAAAA
Found at i:21185301 original size:8 final size:8
Alignment explanation
Indices: 21185265--21185350 Score: 70
Period size: 8 Copynumber: 10.8 Consensus size: 8
21185255 ATAAAGGAAG
21185265 GAAAAAAA
1 GAAAAAAA
*
21185273 GGAAAAAA
1 GAAAAAAA
21185281 GAAAGAAAA
1 GAAA-AAAA
*
21185290 -AAAAGAA
1 GAAAAAAA
21185297 -AAAAAAA
1 GAAAAAAA
*
21185304 GAGAAAAA
1 GAAAAAAA
** *
21185312 G-AGTAAT
1 GAAAAAAA
21185319 GAAAAAAAA
1 G-AAAAAAA
21185328 GAAAAAAA
1 GAAAAAAA
21185336 GAAAAAAA
1 GAAAAAAA
21185344 GGAAAAA
1 -GAAAAA
21185351 GGGTTGTGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
7 12 0.20
8 35 0.57
9 14 0.23
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:21185304 original size:31 final size:34
Alignment explanation
Indices: 21185266--21185335 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
21185256 TAAAGGAAGG
21185266 AAAAAAAG-GAAAAA-AG-AAAGAAAAAAAAGAA
1 AAAAAAAGAGAAAAAGAGTAAAGAAAAAAAAGAA
*
21185297 AAAAAAAGAGAAAAAGAGTAATGAAAAAAAAGAA
1 AAAAAAAGAGAAAAAGAGTAAAGAAAAAAAAGAA
21185331 AAAAA
1 AAAAA
21185336 GAAAAAAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 8 0.23
32 6 0.17
33 2 0.06
34 19 0.54
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (34 bp):
AAAAAAAGAGAAAAAGAGTAAAGAAAAAAAAGAA
Found at i:21197831 original size:81 final size:79
Alignment explanation
Indices: 21197616--21198441 Score: 927
Period size: 81 Copynumber: 10.3 Consensus size: 79
21197606 TCAAGAAATA
* * *
21197616 TTTTTTAATTTCTGTTTTTTTCAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTTAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAC
*
21197681 ACATACCGAGGTA-T
65 ACATGCCGAGGTATT
* * *
21197695 TTTTTTAAATTCTG--TTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGACA
1 TTTTTTAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
* *
21197758 CATGCTGAGGAATT
66 CATGCCGAGGTATT
* *
21197772 TTTTTTAATTTCTATTTTTTTAAAAAAACTCTACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
1 TTTTTTAATTTCTGTTTTTTT-AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
* *
21197837 CATATACCGAGGTATT
64 CACATGCCGAGGTATT
* * * * * *
21197853 TTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTCACTTGAGCCTCGAATA
1 TTTTTTAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
*
21197916 CATGCCGATGTATT
66 CATGCCGAGGTATT
* * * *
21197930 TCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGT
1 T-TTTTTAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGA
*
21197993 CACATGCTGAGGTATT
64 CACATGCCGAGGTATT
** * *
21198009 TTTTAAAATTTCTATTTTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
1 TTTTTTAATTTCTGTTTTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
21198074 ACATGCCGAGGTATT
65 ACATGCCGAGGTATT
**
21198089 TCTTTTTAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
1 T-TTTTTAATTTCTGTTTTT---TTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-
* * **
21198154 GGTCACACGTTGAGGTATT
61 GGACACATGCCGAGGTATT
*
21198173 TTTTTTAAATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA
1 TTTTTT-AATTTCTGTTTTTTT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
21198238 CACATGCCGAGGTATT
64 CACATGCCGAGGTATT
* ** *
21198254 TCTTTTAAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGG
1 T-TTTTTAATTTCTGTTTTT--TTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
* * *
21198319 GTCACACGACGAGGTA--
62 GACACATGCCGAGGTATT
** *
21198335 TTTTTTAATTTCTGTTTTTTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
1 TTTTTTAATTTCTG--TTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG
* * *
21198400 TCACAAGTCGAGGTA--
63 ACACATGCCGAGGTATT
* * *
21198415 TTTTTCAATTTCTATTTTTTAAAAAAA
1 TTTTTTAATTTCTGTTTTTTTAAAAAA
21198442 AAAGGAATCG
Statistics
Matches: 644, Mismatches: 80, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
76 13 0.02
77 100 0.16
78 80 0.12
79 38 0.06
80 102 0.16
81 140 0.22
82 86 0.13
83 56 0.09
84 29 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (79 bp):
TTTTTTAATTTCTGTTTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
CATGCCGAGGTATT
Found at i:21198281 original size:164 final size:162
Alignment explanation
Indices: 21197638--21198443 Score: 1054
Period size: 164 Copynumber: 5.0 Consensus size: 162
21197628 TGTTTTTTTC
* * *
21197638 AAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTTTTAA
* * *
21197703 A-TTCTG--TTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCTCGGACACATGCTG
66 ATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGCCG
* * * **
21197765 AGGAATTT-TTTTTAATTTCTATTTTTTTAAA
131 AGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
* * * * *
21197796 AAAACTCTACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATATACCGAGGTATTTTTTTAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTTTTAA
* * *
21197860 ATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTCACTTGAGCCTC-GAATACATGCC
66 ATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACACATGCC
*
21197922 GATGTATTTCTTTTAAATTTCTGTTTTTC----
130 GAGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
* * *
21197951 AAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGTCACATGCTGAGGTATTTTTTAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTTTTAA
* *
21198016 ATTTCTATTTTTTTGCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCC
66 ATTTCTGTTTTTTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGCC
*
21198081 GAGGTATTTCTTTTTAATTTCTGTTTTTCAAAAA
130 GAGGTATTTCTTTTAAATTTCTGTTTTTC-AAAA
* **
21198115 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGTTGAGGTATTTTTTTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTA-TTTTTTTA
21198180 AATTTCTGTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGC
65 AATTTCTGTTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGC
21198245 CGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
129 CGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
* * * *
21198279 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACACGACGAGGTA-TTTTTT-A
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTTTTAA
* *
21198342 ATTTCTGTTTTTTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGTCACAA
66 ATTTCTG---TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACAT
* * * *
21198406 GTCGAGGTA--T-TTTTCAATTTCTATTTTTTAAAA
127 GCCGAGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
21198439 AAAAA
1 AAAAA
21198444 AGGAATCGCA
Statistics
Matches: 584, Mismatches: 45, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
155 35 0.06
156 27 0.05
157 26 0.04
158 101 0.17
159 88 0.15
160 26 0.04
161 9 0.02
162 43 0.07
163 14 0.02
164 118 0.20
165 97 0.17
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (162 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTTTTTTAA
ATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACATGCCG
AGGTATTTCTTTTAAATTTCTGTTTTTCAAAA
Found at i:21201450 original size:59 final size:58
Alignment explanation
Indices: 21201379--21201517 Score: 179
Period size: 59 Copynumber: 2.4 Consensus size: 58
21201369 AAAAATTCAA
* * * * *
21201379 AAAATTATATTTTGACCCCTAAACTTCTTGAAATCATATTTTGACCCCTAAATTTTTC
1 AAAATTAAATTTTGACCCCTAAAATTCTTGAAATCACATTTTGACCCATAAAATTTTC
* * *
21201437 TAAAATTAAATTTTGACCCCTAAAATTTTTGAAATTACATTTTGATCCATAAAATTTTC
1 -AAAATTAAATTTTGACCCCTAAAATTCTTGAAATCACATTTTGACCCATAAAATTTTC
* *
21201496 AAAATTACATTTTGACTCCTAA
1 AAAATTAAATTTTGACCCCTAA
21201518 GTTTTCTCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
58 20 0.29
59 50 0.71
ACGTcount: A:0.37, C:0.17, G:0.05, T:0.41
Consensus pattern (58 bp):
AAAATTAAATTTTGACCCCTAAAATTCTTGAAATCACATTTTGACCCATAAAATTTTC
Found at i:21201452 original size:30 final size:30
Alignment explanation
Indices: 21201379--21201544 Score: 169
Period size: 29 Copynumber: 5.6 Consensus size: 30
21201369 AAAAATTCAA
* *
21201379 AAAATTATATTTTGACCCCTAAACTTCT-T
1 AAAATTATATTTTGACCCCTAAAATTTTCT
* * *
21201408 GAAATCATATTTTGACCCCTAAATTTTTCT
1 AAAATTATATTTTGACCCCTAAAATTTTCT
*
21201438 AAAATTAAATTTTGACCCCTAAAATTTT-T
1 AAAATTATATTTTGACCCCTAAAATTTTCT
* * * *
21201467 GAAATTACATTTTGATCCATAAAATTTTC-
1 AAAATTATATTTTGACCCCTAAAATTTTCT
* * *
21201496 AAAATTACATTTTGACTCCT-AAGTTTTCT
1 AAAATTATATTTTGACCCCTAAAATTTTCT
*
21201525 CAAAATTATATTTTGGCCCC
1 -AAAATTATATTTTGACCCC
21201545 AGAAGTTTTG
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.06
29 65 0.58
30 41 0.36
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (30 bp):
AAAATTATATTTTGACCCCTAAAATTTTCT
Found at i:21201538 original size:59 final size:59
Alignment explanation
Indices: 21201379--21201539 Score: 173
Period size: 59 Copynumber: 2.7 Consensus size: 59
21201369 AAAAATTCAA
* * * * * * *
21201379 AAAATTATATTTTGACCCCTAAACTTCTTGAAATCATATTTTGACCCCTAAATTTTTCT
1 AAAATTAAATTTTGACCCCTAAAATTTTTAAAATTATATTTTGACCCATAAAATTTTCT
* * *
21201438 AAAATTAAATTTTGACCCCTAAAATTTTTGAAATTACATTTTGATCCATAAAATTTTC-
1 AAAATTAAATTTTGACCCCTAAAATTTTTAAAATTATATTTTGACCCATAAAATTTTCT
* * *
21201496 AAAATTACATTTTGACTCCT-AAGTTTTCTCAAAATTATATTTTG
1 AAAATTAAATTTTGACCCCTAAAATTTT-T-AAAATTATATTTTG
21201540 GCCCCAGAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 6 0.07
58 19 0.22
59 62 0.71
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (59 bp):
AAAATTAAATTTTGACCCCTAAAATTTTTAAAATTATATTTTGACCCATAAAATTTTCT
Found at i:21202005 original size:35 final size:35
Alignment explanation
Indices: 21201966--21202035 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21201956 GAAAAAAGGA
21201966 AAATAATTTTTTTTAAAATAGTCGGGTTGATCGAC
1 AAATAATTTTTTTTAAAATAGTCGGGTTGATCGAC
21202001 AAATAATTTTTTTTAAAATAGTCGGGTTGATCGAC
1 AAATAATTTTTTTTAAAATAGTCGGGTTGATCGAC
21202036 CCGACTCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (35 bp):
AAATAATTTTTTTTAAAATAGTCGGGTTGATCGAC
Found at i:21202127 original size:18 final size:18
Alignment explanation
Indices: 21202095--21202145 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 18
21202085 CAACCCCCCC
* *
21202095 AAAAAAAATATAGCAGCA
1 AAAAAAAAAAAAGCAGCA
*
21202113 AAAAAGAAAAAAGCA--A
1 AAAAAAAAAAAAGCAGCA
*
21202129 AAAAAAAAAAAAACAGC
1 AAAAAAAAAAAAGCAGC
21202146 TCCCATAGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 14 0.54
18 12 0.46
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAAAGCAGCA
Found at i:21202139 original size:15 final size:15
Alignment explanation
Indices: 21202109--21202139 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21202099 AAAATATAGC
*
21202109 AGCAAAAAAGAAAAA
1 AGCAAAAAAAAAAAA
21202124 AGCAAAAAAAAAAAA
1 AGCAAAAAAAAAAAA
21202139 A
1 A
21202140 AACAGCTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (15 bp):
AGCAAAAAAAAAAAA
Found at i:21202237 original size:28 final size:28
Alignment explanation
Indices: 21202205--21202259 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
21202195 CCAGGCCCAA
*
21202205 CAGCAGGCCAGCAGGCCCATCCCAGCAT
1 CAGCAGGCCACCAGGCCCATCCCAGCAT
* * *
21202233 CAGCAGGCCCCCAGGCCCGTTCCAGCA
1 CAGCAGGCCACCAGGCCCATCCCAGCA
21202260 GCAGGCCCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.45, G:0.25, T:0.07
Consensus pattern (28 bp):
CAGCAGGCCACCAGGCCCATCCCAGCAT
Found at i:21202322 original size:7 final size:7
Alignment explanation
Indices: 21202305--21202361 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
21202295 AAAGGAAGGA
21202305 AAAAAAGG
1 AAAAAA-G
21202313 AAAAAAG
1 AAAAAAG
21202320 AAAGAAA-
1 AAA-AAAG
*
21202327 AAAAGAAA
1 AAAA-AAG
21202335 AAAAAAG
1 AAAAAAG
*
21202342 AGAAAAG
1 AAAAAAG
*
21202349 AGAAAAG
1 AAAAAAG
21202356 AAAAAA
1 AAAAAA
21202362 AAAGCAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 1 0.02
7 29 0.67
8 13 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Done.