Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 31 of 199
Found at i:9953641 original size:46 final size:44
Alignment explanation
Indices: 9953584--9953676 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
9953574 ATAGGGTTGT
*
9953584 AATGGAATAGAACTGTAATAAGTAATTCAACTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAAT-AGT-ATTCAACTATTTGGTTGAATGG
***
9953630 AATGGAATAGAACTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
9953674 AAT
1 AAT
9953677 AATGTTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 21 0.49
45 3 0.07
46 19 0.44
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCAACTATTTGGTTGAATGG
Found at i:9953850 original size:17 final size:17
Alignment explanation
Indices: 9953824--9953856 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9953814 CATAATTATT
*
9953824 AAATATAATTTAATAAA
1 AAATAAAATTTAATAAA
9953841 AAATAAAATTTAATAA
1 AAATAAAATTTAATAA
9953857 TATTCGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAAATTTAATAAA
Found at i:9954318 original size:152 final size:153
Alignment explanation
Indices: 9953997--9954318 Score: 610
Period size: 152 Copynumber: 2.1 Consensus size: 153
9953987 ATTATTCTAC
* *
9953997 AATAATTGAATTGGTAGTAAAATATAATAATTACATCTTTTAGCCCATTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
*
9954062 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTTAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
9954127 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
9954150 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
1 AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
9954215 TAATAATTGAATTGGTAGT-AAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
66 TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
9954279 ATTAATTATTTGTTAAGAAAAAT
131 ATTAATTATTTGTTAAGAAAAAT
9954302 AATAATTGAATTGGTAA
1 AATAATTGAATTGGTAA
9954319 CAATTATTTG
Statistics
Matches: 166, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
152 84 0.51
153 82 0.49
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (153 bp):
AATAATTGAATTGGTAATAAAATATAATAATTACATCTTTTAGCCCACTGAGATAATAAGAAAAA
TAATAATTGAATTGGTAGTAAAAAAAAATCCTAAGCTACTATTTTCTTATTGAAATTAAATATTA
ATTAATTATTTGTTAAGAAAAAT
Found at i:9955333 original size:20 final size:20
Alignment explanation
Indices: 9955308--9955346 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9955298 AAAACATGTC
*
9955308 GACTCATATGTTGGACTGTA
1 GACTCATATGTTAGACTGTA
9955328 GACTCATATGTTAGACTGT
1 GACTCATATGTTAGACTGT
9955347 TGTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (20 bp):
GACTCATATGTTAGACTGTA
Found at i:9955485 original size:23 final size:24
Alignment explanation
Indices: 9955459--9955511 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
9955449 TGTAATTTTA
*
9955459 TAAAATTAA-AAA-TTATTTAAAAT
1 TAAAATTAATAAATTTA-TAAAAAT
*
9955482 TAAAA-AAATAAATTTATAAAAAT
1 TAAAATTAATAAATTTATAAAAAT
9955505 TAAAATT
1 TAAAATT
9955512 TTATAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 2 0.08
23 19 0.79
24 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAAAATTAATAAATTTATAAAAAT
Found at i:9955514 original size:17 final size:17
Alignment explanation
Indices: 9955452--9955529 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 17
9955442 GCTGACATGT
*
9955452 AATTTTATAAAATTAAA
1 AATTTTATAAAAATAAA
*
9955469 AATTATT-TAAAATTAAAAA
1 AATT-TTATAAAA--ATAAA
*
9955488 AATAAATTTATAAAAATTAA
1 AAT---TTTATAAAAATAAA
*
9955508 AATTTTATAAAAGTAAA
1 AATTTTATAAAAATAAA
9955525 AATTT
1 AATTT
9955530 CTGAAAAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
17 26 0.54
18 2 0.04
19 6 0.12
20 6 0.12
21 2 0.04
22 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
AATTTTATAAAAATAAA
Found at i:9959459 original size:29 final size:29
Alignment explanation
Indices: 9959396--9959461 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
9959386 TGAATAGTAA
* *
9959396 AGTGACTATTTTGTAACTTTTTATAATTG
1 AGTGACAATTTTATAACTTTTTATAATTG
* *
9959425 AATGACAATTTTATAACTTTTTATAGTTG
1 AGTGACAATTTTATAACTTTTTATAATTG
*
9959454 GGTGACAA
1 AGTGACAA
9959462 AAAAAAAGGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (29 bp):
AGTGACAATTTTATAACTTTTTATAATTG
Found at i:9962300 original size:9 final size:9
Alignment explanation
Indices: 9962284--9962344 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
9962274 GGTATTTTTC
9962284 GGTAATTCG
1 GGTAATTCG
*
9962293 GTTAATTCG
1 GGTAATTCG
*
9962302 GTTAATTCG
1 GGTAATTCG
*
9962311 AGTAATTCG
1 GGTAATTCG
9962320 GGTAATTCG
1 GGTAATTCG
9962329 GGTAATTCG
1 GGTAATTCG
9962338 GGTAATT
1 GGTAATT
9962345 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:9986236 original size:1 final size:1
Alignment explanation
Indices: 9986230--9986261 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
9986220 TACTTTGCCT
9986230 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9986262 GGGGAGAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9987236 original size:44 final size:45
Alignment explanation
Indices: 9987160--9987693 Score: 439
Period size: 44 Copynumber: 12.2 Consensus size: 45
9987150 AAGTCATTAA
* * * * *
9987160 AGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* *
9987204 AGCAGATCTTATCTTCCTATATTGGTAG-GAAGTA-ATCGACGA-
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * * *
9987246 CGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
9987291 AACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* *
9987335 AGCAGATC-TATCTTCCTATATTGGTAG-GAAGTAGATCGACGA-
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * * *
9987377 CGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
9987422 AACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
9987466 AGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTAGATCGACGA-
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * * * *
9987509 CGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * *
9987554 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
** * * *
9987598 AGCAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATTGACGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
9987642 -GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
9987686 AGCAGATC
1 AGCAGATC
9987694 GATAATGGCG
Statistics
Matches: 378, Mismatches: 98, Indels: 27
0.75 0.19 0.05
Matches are distributed among these distances:
42 30 0.08
43 95 0.25
44 184 0.49
45 69 0.18
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
Found at i:9987573 original size:132 final size:132
Alignment explanation
Indices: 9987158--9987693 Score: 914
Period size: 132 Copynumber: 4.1 Consensus size: 132
9987148 TGAAGTCATT
*
9987158 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCTTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
9987223 TATTGGTAGGAAGTA-ATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
9987287 AG
131 AG
*
9987289 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGAT-CTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
9987353 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
9987418 AG
131 AG
* * * *
9987420 AAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
*
9987485 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGC
66 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
9987550 AG
131 AG
* * **
9987552 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGGTAGCAGATCCGGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
* * * * *
9987617 TATTGGTAGGAAGTGGATTGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
9987682 AG
131 AG
9987684 AAAGCAGATC
1 AAAGCAGATC
9987694 GATAATGGCG
Statistics
Matches: 385, Mismatches: 18, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
130 25 0.06
131 153 0.40
132 207 0.54
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTAGATCGACGACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGC
AG
Found at i:9989790 original size:17 final size:18
Alignment explanation
Indices: 9989757--9989797 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9989747 TATTTTAACA
*
9989757 TTATAT-TATATATGTAT
1 TTATATATATATACGTAT
9989774 TTATATATAT-TACGTAT
1 TTATATATATATACGTAT
*
9989791 ATATATA
1 TTATATA
9989798 CCCCTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (18 bp):
TTATATATATATACGTAT
Found at i:9991640 original size:43 final size:42
Alignment explanation
Indices: 9991568--9991690 Score: 158
Period size: 43 Copynumber: 2.9 Consensus size: 42
9991558 ACGTCGCTAA
* * *
9991568 CTTTTGCGGCACTTACAGAAAAAAAGCCGCTAAAGAACATGTT
1 CTTTAGCGGCGCTTA-AGAAAAAAAGCCGCTAAAGAACATGAT
9991611 CTTTAGCGGCGC-TAAGAAAATAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAAGAAAA-AAA-GCCGCTAAAGAACATGAT
* *
9991654 CTTTAGCGGCGCTTAGGAAAAAAATGCTGCTAAAGAA
1 CTTTAGCGGCGCTTAAGAAAAAAA-GCCGCTAAAGAA
9991691 AAAAATGCCG
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 6 0.08
42 5 0.07
43 53 0.75
44 7 0.10
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAAGAAAAAAAGCCGCTAAAGAACATGAT
Found at i:9991707 original size:19 final size:18
Alignment explanation
Indices: 9991670--9991705 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9991660 CGGCGCTTAG
*
9991670 GAAAAAAATGCTGCTAAA
1 GAAAAAAATGCCGCTAAA
9991688 GAAAAAAATGCCGCTAAA
1 GAAAAAAATGCCGCTAAA
9991706 AGTAGTGTTC
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:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (18 bp):
GAAAAAAATGCCGCTAAA
Found at i:9992182 original size:12 final size:12
Alignment explanation
Indices: 9992165--9992204 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
9992155 TTTTGAACCT
*
9992165 CTGCTTCTATCG
1 CTGCTTCTCTCG
9992177 CTGCTTCTCTCG
1 CTGCTTCTCTCG
9992189 CTGCTTCTCTCG
1 CTGCTTCTCTCG
9992201 CTGC
1 CTGC
9992205 GGCCTCTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.03, C:0.40, G:0.17, T:0.40
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:9992215 original size:21 final size:21
Alignment explanation
Indices: 9992162--9992257 Score: 84
Period size: 21 Copynumber: 4.4 Consensus size: 21
9992152 TTCTTTTGAA
* **
9992162 CCTCTGCTTCTATCGCTGCTT
1 CCTCTGCTTCTCTCGCTGCAG
*
9992183 CTCTCGCTGCTTCTCTCGCTGCGG
1 C-CT--CTGCTTCTCTCGCTGCAG
* *
9992207 CCTCTGCTTCTCTTGCTGTAG
1 CCTCTGCTTCTCTCGCTGCAG
* * *
9992228 CCTCTGCCTCCCTCGCTGCCG
1 CCTCTGCTTCTCTCGCTGCAG
9992249 CCTCTGCTT
1 CCTCTGCTT
9992258 TAAGTTGTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
21 40 0.67
22 2 0.03
23 2 0.03
24 16 0.27
ACGTcount: A:0.02, C:0.43, G:0.19, T:0.36
Consensus pattern (21 bp):
CCTCTGCTTCTCTCGCTGCAG
Found at i:9997726 original size:9 final size:9
Alignment explanation
Indices: 9997700--9997942 Score: 252
Period size: 9 Copynumber: 26.8 Consensus size: 9
9997690 ATTTGCACTG
9997700 GTAAGTTAT
1 GTAAGTTAT
* * *
9997709 TTTATTTAT
1 GTAAGTTAT
9997718 GTAAGTTAT
1 GTAAGTTAT
9997727 GTAAGTTAT
1 GTAAGTTAT
9997736 GTAAGTTAT
1 GTAAGTTAT
* *
9997745 TTAATTTAT
1 GTAAGTTAT
*
9997754 GTAGGTTAT
1 GTAAGTTAT
* *
9997763 GTAAGTCCAC
1 GTAAGT-TAT
* *
9997773 GGAATTTAT
1 GTAAGTTAT
9997782 GTAAGTTAT
1 GTAAGTTAT
9997791 GTAAGTTAT
1 GTAAGTTAT
* *
9997800 TTAATTTAT
1 GTAAGTTAT
*
9997809 GTAAGTCAT
1 GTAAGTTAT
9997818 GTAAGTTAT
1 GTAAGTTAT
* *
9997827 TTAATTTAT
1 GTAAGTTAT
*
9997836 GTAGGTTAT
1 GTAAGTTAT
*
9997845 GTAATTTAT
1 GTAAGTTAT
9997854 GTAAGTTAT
1 GTAAGTTAT
* *
9997863 TTAATTTAT
1 GTAAGTTAT
*
9997872 GCAAGTTTAT
1 GTAAG-TTAT
9997882 GTAAGTTAT
1 GTAAGTTAT
9997891 GTAAGTTAT
1 GTAAGTTAT
* *
9997900 TTAATTTAT
1 GTAAGTTAT
9997909 GTAAGTTAT
1 GTAAGTTAT
9997918 GTAAGTTAT
1 GTAAGTTAT
* *
9997927 TTAATTTAT
1 GTAAGTTAT
9997936 GTAAGTT
1 GTAAGTT
9997943 TCTATATATG
Statistics
Matches: 184, Mismatches: 48, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
9 171 0.93
10 13 0.07
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:9998012 original size:29 final size:32
Alignment explanation
Indices: 9997979--9998076 Score: 116
Period size: 32 Copynumber: 3.2 Consensus size: 32
9997969 TAGTTATTAT
* *
9997979 GTTATTATGTTATTATAT-AGGT-TT-TTTAA
1 GTTATTATGTTATTATATAAAGTATTATGTAA
9998008 GTTATTATGTTATTATATAAAGTATTATGTAA
1 GTTATTATGTTATTATATAAAGTATTATGTAA
* *
9998040 TTTATTATGTTATTATATGTAAG--TTATGTAA
1 GTTATTATGTTATTATAT-AAAGTATTATGTAA
9998071 GTTATT
1 GTTATT
9998077 TAATTTATGT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
29 18 0.30
30 3 0.05
31 15 0.25
32 21 0.35
33 3 0.05
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (32 bp):
GTTATTATGTTATTATATAAAGTATTATGTAA
Found at i:9998061 original size:22 final size:23
Alignment explanation
Indices: 9998033--9998103 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 23
9998023 TATAAAGTAT
* *
9998033 TATGTAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAAGTTATTA
9998055 TATGTAAGTTATGTAAGTTATTTAA
1 TATGTAAGTTATGTAAGTTA-TT-A
*
9998080 TTTATGTAAGTTATGCAAGCTTAT
1 --TATGTAAGTTATGTAAG-TTAT
9998104 ATACAAGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 2 0.05
25 1 0.03
27 17 0.43
28 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (23 bp):
TATGTAAGTTATGTAAGTTATTA
Found at i:9998069 original size:9 final size:9
Alignment explanation
Indices: 9998055--9998117 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
9998045 TATGTTATTA
9998055 TATGTAAGT
1 TATGTAAGT
9998064 TATGTAAGT
1 TATGTAAGT
* *
9998073 TATTTAATT
1 TATGTAAGT
9998082 TATGTAAGT
1 TATGTAAGT
*
9998091 TATGCAAGCT
1 TATGTAAG-T
*
9998101 TATATACAAGT
1 TATGT--AAGT
9998112 TATGTA
1 TATGTA
9998118 TTATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.72
10 4 0.09
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:9998085 original size:49 final size:49
Alignment explanation
Indices: 9997906--9998176 Score: 132
Period size: 49 Copynumber: 5.4 Consensus size: 49
9997896 TTATTTAATT
9997906 TATGTAAGTTATGTAAGTTAT-TTAATTTATGTAAGTTTCTATATATGTTTATA
1 TATGTAAGTTATGTAA-TTATATTAATTTATGTAA--TT-TATATATGTTT-TA
* * * * * *
9997959 TATTGTATGTTA-GTTATTATGTT-A-TTATGTTA-TTATATAGGTTTTT
1 TA-TGTAAGTTATGTAATTATATTAATTTATGTAATTTATATATGTTTTA
* * * *
9998005 TAAGTTA-TTATGTTATTATATAAAGTATTATGTAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAATTATATTAA-T-TTATGTAATTTATATATGTT-TTA
* ** * *
9998055 TATGTAAGTTATGTAAGTTAT-TTAATTTATGTAAGTTATGCAAG-CTTA
1 TATGTAAGTTATGTAA-TTATATTAATTTATGTAATTTATATATGTTTTA
** * *
9998103 TATACAAGTTATGT-ATTATAACATAAAGTATTATGGAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAATTAT---ATTAA-T-TTATGTAATTTATATATGTT-TTA
*
9998156 TATATAAGTTATGTAAATTAT
1 TATGTAAGTTATGT-AATTAT
9998177 TATGTAAGTT
Statistics
Matches: 166, Mismatches: 30, Indels: 42
0.70 0.13 0.18
Matches are distributed among these distances:
44 3 0.02
45 11 0.07
46 8 0.05
47 11 0.07
48 16 0.10
49 24 0.14
50 17 0.10
51 20 0.12
52 20 0.12
53 23 0.14
54 8 0.05
55 5 0.03
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (49 bp):
TATGTAAGTTATGTAATTATATTAATTTATGTAATTTATATATGTTTTA
Found at i:9998352 original size:62 final size:61
Alignment explanation
Indices: 9998253--9998402 Score: 167
Period size: 62 Copynumber: 2.4 Consensus size: 61
9998243 TGTATTATGT
* ** * * ***
9998253 AACTTATGTAGAAAACTTATAAATTTAATACACATAAATTTTATTTCTCCCAAATTTAGAA
1 AACTTATTTAGAAAACGAATAAATTTAATACACATAAATTTTAATACAAACAAATTTAGAA
* *
9998314 CACTTATTTAGAAAACGAAGTAAATTTAATACTA-ATAAATTTTAATACAAATAAATTTAGAA
1 AACTTATTTAGAAAACGAA-TAAATTTAATAC-ACATAAATTTTAATACAAACAAATTTAGAA
**
9998376 AACTTATTTAGAAAACTTATAAATTTA
1 AACTTATTTAGAAAACGAATAAATTTA
9998403 GAAAACTTAT
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
61 23 0.31
62 50 0.68
63 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (61 bp):
AACTTATTTAGAAAACGAATAAATTTAATACACATAAATTTTAATACAAACAAATTTAGAA
Found at i:9998359 original size:16 final size:16
Alignment explanation
Indices: 9998334--9998371 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
9998324 GAAAACGAAG
*
9998334 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
9998349 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
9998365 TAAATTT
1 TAAATTT
9998372 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:9998386 original size:13 final size:13
Alignment explanation
Indices: 9998368--9998395 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9998358 ATACAAATAA
9998368 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9998381 ATTTAGAAAACTT
1 ATTTAGAAAACTT
9998394 AT
1 AT
9998396 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:9998403 original size:17 final size:17
Alignment explanation
Indices: 9998364--9998413 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
9998354 TTTAATACAA
9998364 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
9998380 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9998394 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
9998411 ATA
1 ATA
9998414 TAGATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:9999450 original size:27 final size:29
Alignment explanation
Indices: 9999396--9999450 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
9999386 TAATTATCAC
*
9999396 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
9999426 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
9999451 TCAAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:10001383 original size:28 final size:28
Alignment explanation
Indices: 10001347--10001434 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
10001337 AACTATAAAC
10001347 CCCTAAACCCATAATCCCTAACCCCTAA
1 CCCTAAACCCATAATCCCTAACCCCTAA
* *
10001375 CCCTAAACCTATAAACCCTTAACCCC-AA
1 CCCTAAACCCATAATCCC-TAACCCCTAA
* *
10001403 CCCTTAAA-CCATAATCCATAAGCCTCTAA
1 CCC-TAAACCCATAATCCCTAA-CCCCTAA
10001432 CCC
1 CCC
10001435 AATCCCTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 3 0.06
28 31 0.62
29 16 0.32
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.19
Consensus pattern (28 bp):
CCCTAAACCCATAATCCCTAACCCCTAA
Found at i:10001391 original size:22 final size:22
Alignment explanation
Indices: 10001339--10001412 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
10001329 AAAACATTAA
*
10001339 CTATAAACCCCTAAACCCATAATC
1 CTATAAACCCCT-AACCC-TAAAC
*
10001363 C-CT-AACCCCTAACCCTAAAC
1 CTATAAACCCCTAACCCTAAAC
* * *
10001383 CTATAAACCCTTAACCCCAACC
1 CTATAAACCCCTAACCCTAAAC
10001405 CT-TAAACC
1 CTATAAACC
10001413 ATAATCCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 5 0.12
21 12 0.29
22 23 0.55
23 1 0.02
24 1 0.02
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
CTATAAACCCCTAACCCTAAAC
Found at i:10001613 original size:20 final size:21
Alignment explanation
Indices: 10001578--10001616 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
10001568 TAACTATAAA
10001578 CCCTTAAACCCCTAACCCCAG
1 CCCTTAAACCCCTAACCCCAG
*
10001599 CCCTT-AACCCTTAACCCC
1 CCCTTAAACCCCTAACCCC
10001617 TAAACCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.54, G:0.03, T:0.18
Consensus pattern (21 bp):
CCCTTAAACCCCTAACCCCAG
Found at i:10001615 original size:35 final size:35
Alignment explanation
Indices: 10001576--10001678 Score: 93
Period size: 35 Copynumber: 2.9 Consensus size: 35
10001566 ATTAACTATA
* * * *
10001576 AACCCTTAAACCCCTAACCCCAGCCCTTAACCCTT
1 AACCCATAAACCCCTAACCCCAACCCTTAAACCAT
* * * *
10001611 AACCCCTAAACCCTTAACCTCAATCCTTAAACCAT
1 AACCCATAAACCCCTAACCCCAACCCTTAAACCAT
*
10001646 -ATCCATAAACCCCTAA-CCCATATCCCTTAAACC
1 AACCCATAAACCCCTAACCCCA-A-CCCTTAAACC
10001679 CTAAATTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
33 3 0.06
34 14 0.26
35 37 0.69
ACGTcount: A:0.34, C:0.44, G:0.01, T:0.21
Consensus pattern (35 bp):
AACCCATAAACCCCTAACCCCAACCCTTAAACCAT
Found at i:10002579 original size:114 final size:113
Alignment explanation
Indices: 10002315--10002636 Score: 301
Period size: 114 Copynumber: 2.8 Consensus size: 113
10002305 GTTTTTAGAC
* * *
10002315 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGAAAACGACATCGTTTTCTTAACAGTTTTGTGGC
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGACAACGTTTTCTTAACAGTTTTGCGGC
* * * * ** * * *
10002380 ACTTCTGATAAAGTGCCACTAAAGCTTCACTACTACCGCTTTTTTTGAA
65 GCTTATGATAAAGCGCCGCTAATTCTTGACTACTACCGCTGTTTTTCAA
* * ** ** * *
10002429 AATCGCCACTAACA-TCTCGAAAAGATAAATGAAAAACGGTAACGTTTTCTTAGCAGTCTTGCGG
1 AAGCGCCACTAA-AGTCTCCAAAACCTAAATG-AAAACGACAACGTTTTCTTAACAGTTTTGCGG
* *
10002493 CGCTTATGATAAAGCGCCGCTAATTCTTGACTA-TAGCGGC-GTTTTTCATT
64 CGCTTATGATAAAGCGCCGCTAATTCTTGACTACTA-CCGCTGTTTTTCA-A
* *
10002543 AAGCGCCACTAAAGTCCCCAAAACCTAAACTGAAAACGACAGCGTTTTCTTAACAGTTTTTGCGG
1 AAGCGCCACTAAAGTCTCCAAAACCTAAA-TGAAAACGACAACGTTTTCTTAACAG-TTTTGCGG
* * *
10002608 CGTTTATGACCAAA-CGCCGGTAATTCTTG
64 CGCTTATGA-TAAAGCGCCGCTAATTCTTG
10002637 CATATTACGG
Statistics
Matches: 166, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
113 11 0.07
114 120 0.72
115 32 0.19
116 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (113 bp):
AAGCGCCACTAAAGTCTCCAAAACCTAAATGAAAACGACAACGTTTTCTTAACAGTTTTGCGGCG
CTTATGATAAAGCGCCGCTAATTCTTGACTACTACCGCTGTTTTTCAA
Found at i:10006509 original size:15 final size:15
Alignment explanation
Indices: 10006489--10006518 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10006479 TTCACTATTA
*
10006489 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
10006504 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
10006519 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:10008302 original size:14 final size:15
Alignment explanation
Indices: 10008283--10008314 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10008273 TTTGTAATAA
10008283 AAATTTT-AAAACTT
1 AAATTTTGAAAACTT
10008297 AAATTTTGAAAACTT
1 AAATTTTGAAAACTT
10008312 AAA
1 AAA
10008315 AATTCGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (15 bp):
AAATTTTGAAAACTT
Found at i:10008329 original size:18 final size:19
Alignment explanation
Indices: 10008306--10008346 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10008296 TAAATTTTGA
10008306 AAAC-TTAAAAATTCGGAG
1 AAACTTTAAAAATTCGGAG
* *
10008324 AAACTTTAAAACTTTGGAG
1 AAACTTTAAAAATTCGGAG
10008343 AAAC
1 AAAC
10008347 GAGTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (19 bp):
AAACTTTAAAAATTCGGAG
Found at i:10012315 original size:443 final size:443
Alignment explanation
Indices: 10011272--10012603 Score: 2603
Period size: 443 Copynumber: 3.0 Consensus size: 443
10011262 AATTAGATTA
10011272 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
10011337 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
10011402 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
*
10011467 TGATACCCTAATACAAGCCTAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
10011532 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCC-
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
*
10011596 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCCAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
10011661 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
*
10011714 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCAAAAAAA
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
10011779 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
10011844 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
10011909 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
10011974 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
10012039 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
10012104 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
* **
10012157 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACTGAAAAGT
1 TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
10012222 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
66 GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
10012287 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
131 TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
10012352 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
196 TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
10012417 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
261 ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
10012482 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
326 AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
10012547 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
391 TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
10012600 TATT
1 TATT
10012604 ACAACAAATG
Statistics
Matches: 882, Mismatches: 7, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
442 322 0.37
443 560 0.63
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (443 bp):
TATTGAGAATTTGGTAGAAAGTCAACCGATCAAGAAAGAACCAGTAAAAGAGATAACCGAAAAAA
GTTTTAAAGAACCAATATTCACACCTTATGAGATTCCAAAACCTTTCCAAAAATCCCAAAATGAT
TTCTTAACAGAAATCCAAAATAGACTTGATGCTTTGGAAAGTTACAAGTTTGAATTAATTGCCCC
TGATACCCTAATACAAGCCCAACATTCAGTAAATACATTACACCAATCCTTCCAATTTGACTCTG
ACCAGTCAGATGAACAACAAATTAACAAGATGGCTTGGAAAGAACGAAAAAAATTATATTATCCA
AAAACCACTGCACATGATCTTAACATAGAAGAAAAACATGTTTTCTAGAATAAATACAATGCTAC
TACAATTTATGAATGGAATATAGATGGAATGTTTGAATACAATGTTCTTAGTT
Found at i:10012925 original size:16 final size:16
Alignment explanation
Indices: 10012891--10012929 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
10012881 ATTTGTAATA
10012891 AAAATTTT-AAAACTT
1 AAAATTTTGAAAACTT
10012906 -AAATTTTGAAAACTT
1 AAAATTTTGAAAACTT
10012921 AAAATTTTG
1 AAAATTTTG
10012930 GAGAAGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.32
15 7 0.32
16 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (16 bp):
AAAATTTTGAAAACTT
Found at i:10017494 original size:40 final size:39
Alignment explanation
Indices: 10017431--10017532 Score: 132
Period size: 40 Copynumber: 2.6 Consensus size: 39
10017421 TTTGAAGCAT
* *
10017431 TTTTCAAAAAGCGTCGCTAATGCTCAATCAATAGCGGCG
1 TTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCGACG
* * *
10017470 TTTCTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGACG
1 TTT-TCAAAAAGCGCCGCTAATGCTCAATCAATAGCGACG
* *
10017510 TTTTTAAAAAACGCCGCTAATGC
1 TTTTCAAAAAGCGCCGCTAATGC
10017533 CACTAACGGC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 20 0.37
40 34 0.63
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (39 bp):
TTTTCAAAAAGCGCCGCTAATGCTCAATCAATAGCGACG
Found at i:10017620 original size:40 final size:40
Alignment explanation
Indices: 10017560--10017709 Score: 219
Period size: 40 Copynumber: 3.8 Consensus size: 40
10017550 TTAATATTTT
* *
10017560 GTGGCGTTTTTCAAAAAGCGCCGCTAATGGTCGATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
* * *
10017600 GTAGTGTTTTTAAAAAAGCGCCACTAATGCTCGATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
* *
10017640 GTGGCATTTTAAAAAAAGCGCCGCTAATGCTCGATCTATA
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
* *
10017680 GTGGCGTTTTTCAAAAAGCGCTGCTAATGC
1 GTGGCGTTTTTAAAAAAGCGCCGCTAATGC
10017710 CACTAAAGCT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (40 bp):
GTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:10018708 original size:75 final size:76
Alignment explanation
Indices: 10018626--10018773 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 76
10018616 TGGACTTTAT
* * *
10018626 TTTTAGTCAATATTGTATTTTTTATTTTCGAAACAATACACAAATTTGAGTG-TTTTTTCGTTTA
1 TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
10018690 TACGAGCATAA
66 TACGAGCATAA
* * *
10018701 TTTTAGTCAGTATTGTATTTTTTATTTTCGAAAAAACACACAAATTTTAATGCTTTTTTGGTTTA
1 TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
10018766 TACGAGCA
66 TACGAGCA
10018774 AATGGCATAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
75 47 0.71
76 19 0.29
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (76 bp):
TTTTAGTCAATATTGTATTTTTTATTTTCGAAAAAACACACAAATTTGAATGCTTTTTTCGTTTA
TACGAGCATAA
Found at i:10021057 original size:29 final size:30
Alignment explanation
Indices: 10021004--10021060 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
10020994 AAGTTGGATC
10021004 AAATCAAAATTTCATGTATAAAATTGCATA
1 AAATCAAAATTTCATGTATAAAATTGCATA
*
10021034 AAATCAAAA-TTCATGTATATAATTGCA
1 AAATCAAAATTTCATGTATAAAATTGCA
10021061 CATCAAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCATA
Found at i:10023120 original size:30 final size:30
Alignment explanation
Indices: 10023084--10023198 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
10023074 ACTTTTCTCA
*
10023084 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
10023114 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
10023144 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
10023174 TCTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
10023199 CTTGTACCTA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.24, C:0.50, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:10023787 original size:24 final size:24
Alignment explanation
Indices: 10023760--10023818 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
10023750 ATATTACGTA
*
10023760 TATATATATTTTATACTATTTTAT
1 TATATATATTTTATACTATATTAT
* * *
10023784 TATATATCTTTAATATTATATTAT
1 TATATATATTTTATACTATATTAT
10023808 T-TATATATTTT
1 TATATATATTTT
10023819 TTTTCTACAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 8 0.28
24 21 0.72
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATATATTTTATACTATATTAT
Found at i:10023882 original size:25 final size:25
Alignment explanation
Indices: 10023851--10023899 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
10023841 ATATATCTTA
*
10023851 ACTATATTATGTACGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
10023876 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
10023900 TATTATCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:10024069 original size:16 final size:15
Alignment explanation
Indices: 10024048--10024090 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
10024038 ATTATTATCC
10024048 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
10024064 TAATATTTTATATTT
1 TAATATTTTATATTT
10024079 TATATATTTTAT
1 TA-ATATTTTAT
10024091 TATTCACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:10024078 original size:7 final size:8
Alignment explanation
Indices: 10024048--10024094 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
10024038 ATTATTATCC
10024048 TAATATTT
1 TAATATTT
*
10024056 TGATATTT
1 TAATATTT
10024064 TAATATTT
1 TAATATTT
10024072 T-ATATTT
1 TAATATTT
10024079 TATATATTT
1 TA-ATATTT
*
10024088 TATTATT
1 TAATATT
10024095 CACATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:10024669 original size:14 final size:14
Alignment explanation
Indices: 10024650--10024677 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10024640 AATTTTACGT
10024650 CGCTACAGCTGGCG
1 CGCTACAGCTGGCG
10024664 CGCTACAGCTGGCG
1 CGCTACAGCTGGCG
10024678 ACTCCGCTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.36, G:0.36, T:0.14
Consensus pattern (14 bp):
CGCTACAGCTGGCG
Found at i:10025693 original size:12 final size:12
Alignment explanation
Indices: 10025676--10025711 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10025666 AATATTTTGA
10025676 CATTCATGCATT
1 CATTCATGCATT
*
10025688 CATTCATGCTTT
1 CATTCATGCATT
*
10025700 CATTCATACATT
1 CATTCATGCATT
10025712 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:10034423 original size:73 final size:69
Alignment explanation
Indices: 10034238--10034423 Score: 237
Period size: 70 Copynumber: 2.6 Consensus size: 69
10034228 GCCTTTTAAT
* * * *
10034238 TTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATT
1 TTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAAT
*
10034303 TTCAA
65 CTCAA
* **
10034308 TTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAA
1 TTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGATGAGGTAA
10034373 TCTCAA
64 TCTCAA
*
10034379 TTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTT-TGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
10034424 ACCTTTTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
69 1 0.01
70 42 0.42
71 23 0.23
72 6 0.06
73 27 0.27
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (69 bp):
TTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATC
TCAA
Found at i:10034606 original size:88 final size:88
Alignment explanation
Indices: 10034448--10034781 Score: 465
Period size: 88 Copynumber: 3.8 Consensus size: 88
10034438 ACTTTTTCAA
* *
10034448 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
10034513 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
10034536 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
10034601 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
10034624 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* *** *
10034689 GTTTTTCAATT-TCTATCTTTCAAAAAA
64 G-TTTTC-ATTAT-TATGTTTTTGAAAG
* * * *
10034716 AATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
10034780 TT
66 TT
10034782 GTCAAAAATC
Statistics
Matches: 224, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
88 124 0.55
89 22 0.10
90 24 0.11
91 33 0.15
92 21 0.09
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:10034709 original size:14 final size:14
Alignment explanation
Indices: 10034678--10034711 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10034668 GCCGAGGTAT
* *
10034678 TTTCAATTTCTGTT
1 TTTCAATTTCTATC
10034692 TTTCAATTTCTATC
1 TTTCAATTTCTATC
10034706 TTTCAA
1 TTTCAA
10034712 AAAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTATC
Found at i:10034773 original size:179 final size:176
Alignment explanation
Indices: 10034448--10034927 Score: 485
Period size: 179 Copynumber: 2.9 Consensus size: 176
10034438 ACTTTTTCAA
* *
10034448 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGT
* *** * * *
10034513 CTTCATTATTATGTTTTTGAAAGAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
66 CTTCATTATTATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
10034578 GCCGAGGTATTTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAG
131 GCCGAGGTAATTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAG
* *
10034624 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCT
1 AATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGT--CACGCCAAGGTATTTTCAATTTCT
*
10034689 GTTTTTCAATT-TCTATCTTTCAAAAAAAATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAG
64 G-TCTTC-ATTAT-TATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
10034752 GACACGCTGAGGTAATTTCAATTTTTG---------TT-TG----TCAAA-
126 GACACGCCGAGGTAATTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAG
* * ** * *
10034788 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAA---AT-T
1 AATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGT
* * *
10034849 C-T-A-T-TT-T-TATC-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACAC
66 CTTCATTATTATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* *
10034907 GCTGAGGTATTTTCAATTTTT
131 GCCGAGGTAATTTCAATTTTT
10034928 ACTTTTTAAA
Statistics
Matches: 272, Mismatches: 26, Indels: 38
0.81 0.08 0.11
Matches are distributed among these distances:
149 14 0.05
150 53 0.19
151 1 0.00
152 1 0.00
153 2 0.01
154 1 0.00
156 1 0.00
157 1 0.00
159 1 0.00
162 17 0.06
164 36 0.13
165 4 0.01
169 2 0.01
170 2 0.01
176 36 0.13
178 24 0.09
179 56 0.21
180 20 0.07
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (176 bp):
AATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACGCCAAGGTATTTTCAATTTCTGT
CTTCATTATTATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCCGAGGTAATTTCAATTTTTGTTTTCATTATTATGTTTTTGAAAG
Found at i:10034885 original size:150 final size:151
Alignment explanation
Indices: 10034711--10035010 Score: 437
Period size: 150 Copynumber: 2.0 Consensus size: 151
10034701 CTATCTTTCA
10034711 AAAAAAATCAACTCTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAAATCAACTCTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* *
10034776 TT-GTTTGTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACG-CTGAGA
66 TTACTTTGTAAAAGAATCAACTCATATTGCG-GAGGTGAGTTGAGCCTCAGGCACACGTC-GAGA
*
10034837 TATTTTCAAATTCTATTTTTATC
129 TACTTTCAAATTCTATTTTTATC
* * *
10034860 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
10034925 TTTACTTTTTAAAAGAATCAACTCATATTGCGGAGGTGAGTTGAGTCTCGGGCCACACGTCGAGG
65 TTTACTTTGTAAAAGAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGG-CACACGTCGAGA
*
10034990 TCCTTTCAAATTCTATTTTTA
129 TACTTTCAAATTCTATTTTTA
10035011 ATTTCTTTTT
Statistics
Matches: 134, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
149 14 0.10
150 50 0.37
151 25 0.19
152 17 0.13
153 27 0.20
154 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (151 bp):
AAAAAAATCAACTCTATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
TTACTTTGTAAAAGAATCAACTCATATTGCGGAGGTGAGTTGAGCCTCAGGCACACGTCGAGATA
CTTTCAAATTCTATTTTTATC
Found at i:10034907 original size:77 final size:77
Alignment explanation
Indices: 10034711--10035010 Score: 377
Period size: 77 Copynumber: 4.0 Consensus size: 77
10034701 CTATCTTTCA
*
10034711 AAAAAAATCAACTC-TATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-AAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
*
10034774 T-T-TTGTTTGTC
66 TCTATT-TTTATC
*
10034785 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAAT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
10034848 TCTATTTTTATC
66 TCTATTTTTATC
* * *
10034860 AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
* *
10034925 TTTACTTTT-T-
66 TCTATTTTTATC
* * * **
10034935 AAAAGAATCAACTCATATTGCG-GAGGTGAGTTGAGTCTCGGGCCACACG-TCGAGGTCCTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTTCA
10034998 AATTCTATTTTTA
63 AATTCTATTTTTA
10035011 ATTTCTTTTT
Statistics
Matches: 199, Mismatches: 17, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
72 12 0.06
73 44 0.22
74 23 0.12
75 27 0.14
76 27 0.14
77 66 0.33
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAAT
TCTATTTTTATC
Found at i:10035226 original size:71 final size:71
Alignment explanation
Indices: 10035126--10035263 Score: 240
Period size: 71 Copynumber: 1.9 Consensus size: 71
10035116 TTGTTTTAAT
* *
10035126 TCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
10035191 TTATCA
66 TTATCA
* *
10035197 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCAAT
1 TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
10035262 TT
66 TT
10035264 CTGCTCAATT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (71 bp):
TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACATTGAGGTATTTTCAAT
TTATCA
Found at i:10035366 original size:155 final size:156
Alignment explanation
Indices: 10035035--10035387 Score: 450
Period size: 155 Copynumber: 2.2 Consensus size: 156
10035025 AATTTATGTG
* * *
10035035 TTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCA
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAA
** * *
10035100 TTTCTATTTTCAATTTTTGTTTTAATTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAACC
65 TTTC-ATGCTCAATTTATGTTTT-ATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
10035165 TCAAGTCACATTGAGGTATTTTCAATTTAT
128 TCAAGTCACA-TGAGGTATTTTCAATTTAT
** *
10035195 CATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA--CGCTGAGGTATTTTCA
*
10035260 ATTTC-TGCTCAATTTATG-TTT-TTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
64 ATTTCATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT
* *
10035321 CACA-T-GC-TGAGGTGTTTTCAATTTCTATT
129 CA-AGTCACATGAGGTATTTTCAA-TT-TA-T
10035350 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
10035388 GCCTTGGCTT
Statistics
Matches: 172, Mismatches: 15, Indels: 17
0.84 0.07 0.08
Matches are distributed among these distances:
152 13 0.08
153 2 0.01
154 3 0.02
155 75 0.44
156 4 0.02
158 3 0.02
159 52 0.30
160 2 0.01
161 18 0.10
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (156 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCAAT
TTCATGCTCAATTTATGTTTTATTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCA
AGTCACATGAGGTATTTTCAATTTAT
Found at i:10035456 original size:78 final size:75
Alignment explanation
Indices: 10035268--10035509 Score: 316
Period size: 78 Copynumber: 3.2 Consensus size: 75
10035258 CAATTTCTGC
*
10035268 TCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C-ACATGC
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACATGC
*
10035328 TGAGGTGTTT
66 TGAGGTTTTT
* *
10035338 TCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACACG
1 TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TACATG
10035403 CTGAGGTATTTT
65 CTGAGGT-TTTT
* * * *
10035415 TCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT-ACAT
10035480 GCTGAGGTCTTTT
64 GCTGAGGT-TTTT
*
10035493 T-AATTTCTGCTTTTCAA
1 TCAATTTCTGTTTTTCAA
10035510 TTTCTGTTTT
Statistics
Matches: 150, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
70 14 0.09
71 36 0.24
72 1 0.01
74 1 0.01
76 13 0.09
77 30 0.20
78 55 0.37
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (75 bp):
TCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTACATGC
TGAGGTTTTT
Found at i:10035511 original size:14 final size:15
Alignment explanation
Indices: 10035486--10035527 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
10035476 ACATGCTGAG
*
10035486 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
10035501 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
10035515 GTTTTTTCAATTT
1 GTCTTTTCAATTT
10035528 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:10035523 original size:15 final size:14
Alignment explanation
Indices: 10035489--10035538 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
10035479 TGCTGAGGTC
10035489 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
10035502 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
10035516 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
10035531 TTTTTCAA
1 TTTTTCAA
10035539 AATCAACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:10035637 original size:73 final size:73
Alignment explanation
Indices: 10035519--10035888 Score: 289
Period size: 73 Copynumber: 4.8 Consensus size: 73
10035509 ATTTCTGTTT
* * *
10035519 TTTCAATTTATATTTTTC-AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
1 TTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
10035583 TGAGGTAA
66 TGAGGTAA
* * *
10035591 TTTCAATTTCTATTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACAC
**
10035656 GCTGAGGTCT
64 GCTGAGGTAA
* * * * * *
10035666 TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA-AAAATCA-ACT-CATATTGCGAGAGGTGA
1 TTTCAA----T-TTC-T--A-TT-TG-TC-AAAAATCAACTCATATTGC-GA--GAG----GTGA
* *
10035728 GTTGAGCCTCAGGACACGCTGAGGTATT
47 GTTGAGCCTCGGGACACGCTGAGGTA-A
* * * *
10035756 TTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACAC
1 TTTCAATTTCTATTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
10035821 GCTGAGGTAA
64 GCTGAGGTAA
* * *
10035831 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 TTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
10035889 CTCACATGCT
Statistics
Matches: 235, Mismatches: 36, Indels: 53
0.73 0.11 0.16
Matches are distributed among these distances:
72 16 0.07
73 74 0.31
75 33 0.14
76 29 0.12
79 3 0.01
80 9 0.04
81 8 0.03
82 3 0.01
83 2 0.01
84 4 0.02
85 8 0.03
86 8 0.03
87 6 0.03
89 11 0.05
90 6 0.03
91 15 0.06
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTCAATTTCTATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTAA
Found at i:10035652 original size:176 final size:177
Alignment explanation
Indices: 10035335--10035844 Score: 656
Period size: 176 Copynumber: 2.9 Consensus size: 177
10035325 TGCTGAGGTG
* * *
10035335 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTAC
1 TTTTCAATTTATATTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GAC
*
10035400 ACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTG
62 ACGCTGAGGTATTTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
10035465 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
126 AGCCTCGGCTCACATGCTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTG-T
*
10035518 TTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGC
1 TTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* * *
10035583 TGAGGTA-ATTTCAATTTCTATTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TGAGGTATTTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10035646 CGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGT
131 CGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGT
** *
10035693 TCGT-AA---A-A------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
* * *
10035747 TGAGGTATTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCC
66 TGAGGTATTTTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * **
10035812 TCGG--GACACGCTGAGGTAATTTCAATTTCTGTT
130 TCGGCTCACATGCTGAGGTCTTTTCAATTTCTGTT
10035845 TGTCAAAAAT
Statistics
Matches: 299, Mismatches: 24, Indels: 26
0.86 0.07 0.07
Matches are distributed among these distances:
164 51 0.17
165 40 0.13
167 38 0.13
170 1 0.00
171 1 0.00
174 2 0.01
175 5 0.02
176 76 0.25
178 17 0.06
179 13 0.04
181 37 0.12
183 18 0.06
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (177 bp):
TTTTCAATTTATATTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGC
TGAGGTATTTTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CGGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGT
Found at i:10035686 original size:14 final size:14
Alignment explanation
Indices: 10035667--10035694 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10035657 CTGAGGTCTT
10035667 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
10035681 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
10035695 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:10035715 original size:91 final size:90
Alignment explanation
Indices: 10035609--10035775 Score: 248
Period size: 91 Copynumber: 1.8 Consensus size: 90
10035599 TCTATTTGTC
* * *
10035609 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT-CTTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTACTTTTAAA
10035672 TTTCTGTTCTTCAATTTCTGTTCGTAAA
63 TTTCTGTTCTTCAATTTCTGTTCGTAAA
*
10035700 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTACTTTTAAATTT
*
10035765 CTGTTTTTCAA
66 CTGTTCTTCAA
10035776 AAAAATCAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
89 11 0.16
90 19 0.28
91 37 0.54
92 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTACTTTTAAATTT
CTGTTCTTCAATTTCTGTTCGTAAA
Found at i:10035810 original size:76 final size:74
Alignment explanation
Indices: 10035684--10035925 Score: 310
Period size: 76 Copynumber: 3.2 Consensus size: 74
10035674 TCTGTTCTTC
* *
10035684 AATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTG
10035749 AGGTATTTTT
65 AGGTATTTTT
* *
10035759 AAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCT
1 -AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCT
* *
10035824 GAGGTAATTTC
64 GAGGTATTTTT
* * *
10035835 AATTTCTGTTTGTC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGC
1 AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGC
*
10035898 TGAGGTCTTTTT
63 TGAGGTATTTTT
10035910 AATTTCTGCTTT-TCAA
1 AATTTCTG-TTTGTCAA
10035926 TTTCTGTTTT
Statistics
Matches: 145, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
72 2 0.01
73 35 0.24
75 37 0.26
76 71 0.49
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGA
GGTATTTTT
Found at i:10035889 original size:416 final size:406
Alignment explanation
Indices: 10035129--10036000 Score: 1209
Period size: 416 Copynumber: 2.1 Consensus size: 406
10035119 TTTTAATTCA
* * * * * *
10035129 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTCAAGTCACATTGAGGTATTTTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAATTTCAATTTA
*
10035194 TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCCGTTGAGGTATTTTC
66 TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AGACCCGCTGAGGTATTTTC
***
10035259 AATTTCTGCTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAC
130 AATTTCTGCTCAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAC
* * *
10035324 ATGCTGAGGTGTTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
195 ACGCTGAGGTGTTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAG
* * * *
10035389 CCTTGGCTTACACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGA
260 CCTCGGC-GACACGCTGAGGTATATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGA
10035454 GAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTG-TT
323 GAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTT
10035518 TTTTCAATTTATATTTTTC
388 TTTTCAATTTATATTTTTC
* * *
10035537 -AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAATTTCAA-TT-
** * * *
10035601 TATTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGT
64 TA-TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGAC-C-C--GCTGAGGT
* *
10035664 CTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAG
124 ATTTTCAATTTCTG--C-TCAATTTATGTT--TAAAAAAAATCAACTCATATTGCGAGAGGTGAG
* *
10035729 TTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTCTGTTTTTCAAAAAAATCAACTCATATTG
184 TTGAGCCTC---ACACGCTGAGGT-GTTTTAAATTTCTATTTTTC-AAAAAATCAACTCATATTG
*
10035794 CGAAAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTA-ATTTCAATTTCTGTTTGTC-AAAAATT
244 CGAAAGGTGAGTTGAGCCTCGGCGACACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATC
10035856 AACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTT
309 AACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTT
10035921 TTCAATTTCTGTTTTTTTCAATTTATATTTTTC
374 TTCAATTTCTGTTTTTTTCAATTTATATTTTTC
* * *
10035954 AAAATATCAACTTATATTGCGAGAGGTGAGTAGAGCCTCGAGTCACA
1 AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACA
10036001 TGCCGAGGTA
Statistics
Matches: 408, Mismatches: 36, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
407 53 0.13
408 3 0.01
409 39 0.10
410 3 0.01
411 20 0.05
413 1 0.00
414 11 0.03
416 120 0.29
417 21 0.05
418 21 0.05
419 60 0.15
420 17 0.04
421 39 0.10
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (406 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAATTTCAATTTA
TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGACCCGCTGAGGTATTTTCA
ATTTCTGCTCAATTTATGTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACA
CGCTGAGGTGTTTTAAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGC
CTCGGCGACACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTTTTT
TCAATTTATATTTTTC
Found at i:10035936 original size:14 final size:14
Alignment explanation
Indices: 10035905--10035955 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
10035895 TGCTGAGGTC
10035905 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
10035918 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
10035932 TTTTTTTCAATTTATA
1 --TTTTTCAATTTCTG
10035948 TTTTTCAA
1 TTTTTCAA
10035956 AATATCAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
16 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.65
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:10035951 original size:16 final size:16
Alignment explanation
Indices: 10035919--10035952 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10035909 TAATTTCTGC
* *
10035919 TTTTCAATTTCTGTTT
1 TTTTCAATTTATATTT
10035935 TTTTCAATTTATATTT
1 TTTTCAATTTATATTT
10035951 TT
1 TT
10035953 CAAAATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCAATTTATATTT
Found at i:10036023 original size:106 final size:102
Alignment explanation
Indices: 10035831--10036092 Score: 305
Period size: 106 Copynumber: 2.5 Consensus size: 102
10035821 GCTGAGGTAA
* * * * *
10035831 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* * * * **
10035896 GCTGAGGTCTTTTTAATTTCTG-CTTTTCAATTTCTGTTTT
66 GCCGAGGTATTTTCAAATTCTGTC-TTTCAAACTCTG---T
* *
10035936 TTTCAATTTATATTTTTCAAAATATCAACTTATATTGCGAGAGGTGAGTAGAGCCTCGAG-TCAC
1 TTTCAATTTATATTTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GCTCAC
10036000 ATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTGT
64 ATGCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTGT
* * *
10036039 TTT-AATTTTTACTTTTCAAAAATCAACTCATATTGAGAGAGGTGAGTTGAGCCT
1 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
10036093 TTTAATTTCT
Statistics
Matches: 136, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
101 30 0.22
102 16 0.12
103 4 0.03
105 19 0.14
106 65 0.48
107 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (102 bp):
TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCCGAGGTATTTTCAAATTCTGTCTTTCAAACTCTGT
Found at i:10036246 original size:77 final size:74
Alignment explanation
Indices: 10036086--10036334 Score: 288
Period size: 75 Copynumber: 3.3 Consensus size: 74
10036076 AGAGGTGAGT
* * * **
10036086 TGAGCCTTTT-AATTTCTG-TTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTG
1 TGAGGCTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* **
10036149 CTCACGTGC
66 GTCACACGC
*
10036158 TGA-GCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCC
1 TGAGGC--TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
10036222 TCGGGTCACACGC
62 TCAGGTCACACGC
*
10036235 TGAGGCGTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCA
1 TGAGGC-TTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* *
10036300 GGCCACACAC
65 GGTCACACGC
* *
10036310 TGAGGTCTTTTCAAATTCTGTTTTT
1 TGAGG-CTTTTCAATTTCTGCTTTT
10036335 AATTTCTACT
Statistics
Matches: 152, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 3 0.02
73 4 0.03
74 8 0.05
75 66 0.43
76 7 0.05
77 61 0.40
78 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (74 bp):
TGAGGCTTTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GTCACACGC
Found at i:10036355 original size:27 final size:28
Alignment explanation
Indices: 10036316--10036379 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
10036306 ACACTGAGGT
*
10036316 CTTTTCAAATTCTGTTTTT-AATTTCTA
1 CTTTTCAAATTCTGTTTTTCAATTTATA
*
10036343 CTTTTCAATTTCTGTTTTTCAATTTATA
1 CTTTTCAAATTCTGTTTTTCAATTTATA
*
10036371 TTTTTCAAA
1 CTTTTCAAA
10036380 AATCAACTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 18 0.56
28 14 0.44
ACGTcount: A:0.23, C:0.14, G:0.03, T:0.59
Consensus pattern (28 bp):
CTTTTCAAATTCTGTTTTTCAATTTATA
Found at i:10036361 original size:14 final size:14
Alignment explanation
Indices: 10036317--10036378 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 14
10036307 CACTGAGGTC
* *
10036317 TTTTCAAATTCTGT
1 TTTTCAATTTCTAT
*
10036331 TTTT-AATTTCTAC
1 TTTTCAATTTCTAT
*
10036344 TTTTCAATTTCTGT
1 TTTTCAATTTCTAT
*
10036358 TTTTCAATTTATAT
1 TTTTCAATTTCTAT
10036372 TTTTCAA
1 TTTTCAA
10036379 AAATCAACTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
13 10 0.25
14 30 0.75
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTTCAATTTCTAT
Found at i:10037162 original size:30 final size:30
Alignment explanation
Indices: 10037126--10037270 Score: 236
Period size: 30 Copynumber: 4.8 Consensus size: 30
10037116 ACTTTTCTCA
10037126 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
10037156 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
**
10037186 ACTAGCCACTTTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
10037216 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
10037246 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACTCCTTTTCCACCACCA
10037271 CTTGTACCTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 107 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:10037859 original size:25 final size:25
Alignment explanation
Indices: 10037831--10037988 Score: 81
Period size: 25 Copynumber: 6.1 Consensus size: 25
10037821 ATATTACGTA
*
10037831 TATATATATTTTATACTATTTTATT
1 TATATATATTTTATACTATATTATT
* * *
10037856 TATATATCTTTAATATTATATTATT
1 TATATATATTTTATACTATATTATT
* * *
10037881 TATATAT-TTTTTTTCTACATGTTATCT
1 TATATATATTTTATACT--ATATTAT-T
* *
10037908 TATGTATATATCTTA-ACTATATTATG
1 TA--TATATATTTTATACTATATTATT
* * *
10037934 TATGTAT-TTTTAACACTATATTATG
1 TATATATATTTT-ATACTATATTATT
* *
10037959 TACATAT-TTTTAATATTATCATGTATT
1 TATATATATTTT-ATACTAT-AT-TATT
10037986 TAT
1 TAT
10037989 TTTTTATATA
Statistics
Matches: 101, Mismatches: 22, Indels: 18
0.72 0.16 0.13
Matches are distributed among these distances:
23 3 0.03
24 10 0.10
25 54 0.53
26 10 0.10
27 14 0.14
29 7 0.07
30 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.58
Consensus pattern (25 bp):
TATATATATTTTATACTATATTATT
Found at i:10037859 original size:27 final size:27
Alignment explanation
Indices: 10037820--10037957 Score: 81
Period size: 27 Copynumber: 5.3 Consensus size: 27
10037810 TTTTAAATTT
**
10037820 TATATTACGTATATATATATTTTATAC
1 TATATTATTTATATATATATTTTATAC
* * * *
10037847 TATTTTA-TT-TATATATCTTTAATAT
1 TATATTATTTATATATATATTTTATAC
* * *
10037872 TATATTATTTATATATTTTTTTTCTAC
1 TATATTATTTATATATATATTTTATAC
* * *
10037899 -ATGTTATCTTATGTATATATCTTA-AC
1 TATATTAT-TTATATATATATTTTATAC
* * * *
10037925 TATATTATGTATGTAT-T-TTTAACAC
1 TATATTATTTATATATATATTTTATAC
10037950 TATATTAT
1 TATATTAT
10037958 GTACATATTT
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
24 3 0.04
25 30 0.35
26 18 0.21
27 34 0.40
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (27 bp):
TATATTATTTATATATATATTTTATAC
Found at i:10037887 original size:16 final size:16
Alignment explanation
Indices: 10037835--10037888 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 16
10037825 TACGTATATA
* *
10037835 TATATTTTATACTATT
1 TATATATTATATTATT
*
10037851 T-TAT-TTATATATCTT
1 TATATATTATAT-TATT
10037866 TA-ATATTATATTATT
1 TATATATTATATTATT
10037881 TATATATT
1 TATATATT
10037889 TTTTTTCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 12 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TATATATTATATTATT
Found at i:10037989 original size:23 final size:24
Alignment explanation
Indices: 10037909--10037999 Score: 73
Period size: 23 Copynumber: 3.9 Consensus size: 24
10037899 ATGTTATCTT
*
10037909 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* * *
10037931 ATGTATGTATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
10037956 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
10037979 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
10038000 GTACATATTG
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
22 9 0.17
23 27 0.50
24 3 0.06
25 15 0.28
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:10038141 original size:16 final size:15
Alignment explanation
Indices: 10038120--10038162 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 15
10038110 ATTATTATCC
10038120 TAATATTTTGATATTT
1 TAATATTTT-ATATTT
10038136 TAATATTTTATATTT
1 TAATATTTTATATTT
10038151 TATATATTTTAT
1 TA-ATATTTTAT
10038163 TATTCACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TAATATTTTATATTT
Found at i:10038150 original size:7 final size:8
Alignment explanation
Indices: 10038120--10038166 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
10038110 ATTATTATCC
10038120 TAATATTT
1 TAATATTT
*
10038128 TGATATTT
1 TAATATTT
10038136 TAATATTT
1 TAATATTT
10038144 T-ATATTT
1 TAATATTT
10038151 TATATATTT
1 TA-ATATTT
*
10038160 TATTATT
1 TAATATT
10038167 CACATCATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 19 0.56
9 8 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (8 bp):
TAATATTT
Found at i:10038949 original size:19 final size:21
Alignment explanation
Indices: 10038912--10038953 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
10038902 AACTAATATC
*
10038912 ATTATAAATATAGATAATTAA
1 ATTATAAATATAGAAAATTAA
10038933 ATTA-AAATATA-AAAATTAA
1 ATTATAAATATAGAAAATTAA
10038952 AT
1 AT
10038954 CTCAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATTATAAATATAGAAAATTAA
Found at i:10039798 original size:88 final size:86
Alignment explanation
Indices: 10039642--10039855 Score: 290
Period size: 88 Copynumber: 2.5 Consensus size: 86
10039632 TTAAGGATAT
*
10039642 AAAAA-GCCCTCAAACTTTTTCAAAAAAGTAATTAAGTCCCTCTTTTTTTTGTACTTAATTGAGC
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAG-CCCTCTTTTTTTTGTACTTAATTGAGC
10039706 ACTTAAACTTTCAAAATACATC
65 ACTTAAACTTTCAAAATACATC
*
10039728 AAAAAGGCCCTCAAACTTGTTCAAAAAAAAGCAATTAAGCCCT-TATTTTTTT-TCACTTAATTG
1 AAAAAGGCCCTCAAACTTTTTC--AAAAAAGCAATTAAGCCCTCT-TTTTTTTGT-ACTTAATTG
* * *
10039791 GGTACTTAAACTTTCAAAATGCATC
62 AGCACTTAAACTTTCAAAATACATC
* * *
10039816 AAAAAGACCCTCAAAATTTTTCAAAAAATCAATTAAGCCC
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAGCCC
10039856 ATGCTTTTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 10
0.86 0.07 0.08
Matches are distributed among these distances:
86 22 0.19
87 17 0.15
88 61 0.54
89 14 0.12
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (86 bp):
AAAAAGGCCCTCAAACTTTTTCAAAAAAGCAATTAAGCCCTCTTTTTTTTGTACTTAATTGAGCA
CTTAAACTTTCAAAATACATC
Found at i:10039976 original size:12 final size:12
Alignment explanation
Indices: 10039959--10039983 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10039949 AAAATTGTAA
10039959 AATTTTATAAAC
1 AATTTTATAAAC
10039971 AATTTTATAAAC
1 AATTTTATAAAC
10039983 A
1 A
10039984 TTATAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTTTATAAAC
Found at i:10040206 original size:18 final size:17
Alignment explanation
Indices: 10040175--10040260 Score: 54
Period size: 18 Copynumber: 5.0 Consensus size: 17
10040165 ACTTTATAAA
10040175 ATTTTATA-ATTTTTTAT
1 ATTTTATATA-TTTTTAT
10040192 ATTTCTATATA-TTTTAT
1 ATTT-TATATATTTTTAT
* *
10040209 AATTTTTTACGATTTTTAT
1 -ATTTTATA-TATTTTTAT
* * *
10040228 ATTTTTCTAAATTTTAAT
1 A-TTTTATATATTTTTAT
10040246 ATTTTA-AT-TTTTTAT
1 ATTTTATATATTTTTAT
10040261 TAAAATTTTA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
15 6 0.11
16 1 0.02
17 17 0.31
18 18 0.33
19 13 0.24
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (17 bp):
ATTTTATATATTTTTAT
Found at i:10040465 original size:88 final size:90
Alignment explanation
Indices: 10040329--10040511 Score: 275
Period size: 88 Copynumber: 2.1 Consensus size: 90
10040319 AATTTTTAAT
10040329 AAAAA-TAGGGGCTTAATTGTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
1 AAAAAGTAGGGGCTTAATTGTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
* *
10040393 TTCAAGTACCCAATTGAGTGCAAAC
66 TTCAACTACCCAATTGAGTGCAAAA
* * *
10040418 AAAAAGTAGGGGCTTAATT-TTTTTT-TGAAAAGGTTTGAGGG-CATTTTTGATGCATTTTGAAA
1 AAAAAGTAGGGGCTTAATTGTTTTTTCTAAAAAAGTTTGAGGGTC-TTTTTGATACATTTTGAAA
*
10040480 GTTCAACTGCCCAATTGAGTGCAAAA
65 GTTCAACTACCCAATTGAGTGCAAAA
10040506 AAAAAG
1 AAAAAG
10040512 AAAGAAAAGG
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
87 1 0.01
88 61 0.71
89 11 0.13
90 13 0.15
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (90 bp):
AAAAAGTAGGGGCTTAATTGTTTTTTCTAAAAAAGTTTGAGGGTCTTTTTGATACATTTTGAAAG
TTCAACTACCCAATTGAGTGCAAAA
Found at i:10049168 original size:40 final size:39
Alignment explanation
Indices: 10049050--10049159 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 39
10049040 GTTTGGATAA
* * *
10049050 AAAAACGCCGCTAAAAAGCGAGCACTAGCGGCGCTTTATG
1 AAAAACGCCGCTAAAAA-TGAGCATTAGCGGCGCTTTCTG
* * **
10049090 AAAAACGCCGCTAAAGATCGAGCATTTGTAGCGCTTTCTG
1 AAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTCTG
10049130 AAAAACGCCGCTAAAAATGAGCATTAGCGG
1 AAAAACGCCGCTAAAAATGAGCATTAGCGG
10049160 TGTTTTTCTA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 9 0.16
40 49 0.84
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTCTG
Found at i:10049174 original size:40 final size:39
Alignment explanation
Indices: 10049049--10049174 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 39
10049039 CGTTTGGATA
* * *
10049049 AAAAAACGCCGCTAAAAAGCGAGCACTAGCGGCGCTTTAT
1 AAAAAACGCCGCTAAAAA-TGAGCATTAGCGGCGCTTTCT
* * * **
10049089 GAAAAACGCCGCTAAAGATCGAGCATTTGTAGCGCTTTCT
1 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCGCTTTCT
* * *
10049129 GAAAAACGCCGCTAAAAATGAGCATTAGCGGTGTTTTTCT
1 AAAAAACGCCGCTAAAAATGAGCATTAGCGGCG-CTTTCT
10049169 AAAAAA
1 AAAAAA
10049175 TACCGCAAAA
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
39 10 0.14
40 59 0.86
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (39 bp):
AAAAAACGCCGCTAAAAATGAGCATTAGCGGCGCTTTCT
Found at i:10049281 original size:41 final size:41
Alignment explanation
Indices: 10049222--10049334 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
10049212 GACCTTTCGG
10049222 GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
* ** * **
10049263 TGCTTTAGTGGC-TGTTTTGAAAAAGCGTCGCTAATGCTCGG
1 GGCTTTAGCAGCGT-TTTTGAAAAAGCGCCGCTAATGCTCAA
10049304 GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGC
1 GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGC
10049335 AAAAAACATT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 58 0.97
42 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (41 bp):
GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
Found at i:10049716 original size:7 final size:7
Alignment explanation
Indices: 10049698--10049748 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
10049688 GAGTTACTAT
*
10049698 TTTAAGG
1 TTTATGG
10049705 TTTATGG
1 TTTATGG
*
10049712 ATTATAGG
1 TTTAT-GG
*
10049720 TTTAAGG
1 TTTATGG
*
10049727 GTTATGG
1 TTTATGG
10049734 TTTATGG
1 TTTATGG
10049741 TTTATGG
1 TTTATGG
10049748 T
1 T
10049749 ATAAAGGCTG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:10049723 original size:22 final size:22
Alignment explanation
Indices: 10049653--10049744 Score: 77
Period size: 22 Copynumber: 4.3 Consensus size: 22
10049643 TAAGGTTTTT
* *
10049653 GGTTTAGGGTATATGG-TT-TA
1 GGTTTAAGGTTTATGGATTATA
10049673 GAGTTTAAGGTTTA-GGAGTTACTA
1 G-GTTTAAGGTTTATGGA-TTA-TA
*
10049697 -TTTTAAGGTTTATGGATTATA
1 GGTTTAAGGTTTATGGATTATA
* *
10049718 GGTTTAAGGGTTATGGTTTAT-
1 GGTTTAAGGTTTATGGATTATA
10049739 GGTTTA
1 GGTTTA
10049745 TGGTATAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
20 3 0.05
21 18 0.31
22 33 0.56
23 3 0.05
24 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
GGTTTAAGGTTTATGGATTATA
Found at i:10049835 original size:14 final size:14
Alignment explanation
Indices: 10049640--10049837 Score: 102
Period size: 14 Copynumber: 13.9 Consensus size: 14
10049630 TATCACTATA
* *
10049640 GTTTAAGGTTTTTG
1 GTTTAGGGTTTATG
*
10049654 GTTTAGGGTATATG
1 GTTTAGGGTTTATG
* *
10049668 GTTTAGAGTTTAAG
1 GTTTAGGGTTTATG
10049682 GTTTAGGAGTTACTAT-
1 GTTTAGG-GTT--TATG
*
10049698 -TTTAAGGTTTATG
1 GTTTAGGGTTTATG
*
10049711 GATTATA-GGTTTAAG
1 G-TT-TAGGGTTTATG
* *
10049726 GGTTATGGTTTATG
1 GTTTAGGGTTTATG
* * *
10049740 GTTTATGGTATAAAG
1 GTTTAGGGT-TTATG
* * *
10049755 G-CTGGGGTTTAAG
1 GTTTAGGGTTTATG
10049768 GTTTAGAGG-TTATG
1 GTTTAG-GGTTTATG
* *
10049782 TGTTAAGGGTTTAAG
1 -GTTTAGGGTTTATG
*
10049797 GTTTTAGGGTTTTAGG
1 G-TTTAGGG-TTTATG
10049813 GTTTA-GGTTTATG
1 GTTTAGGGTTTATG
10049826 GTTTAGGGTTTA
1 GTTTAGGGTTTA
10049838 GATTAACTAG
Statistics
Matches: 141, Mismatches: 27, Indels: 32
0.70 0.14 0.16
Matches are distributed among these distances:
12 3 0.02
13 17 0.12
14 68 0.48
15 43 0.30
16 8 0.06
17 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:10049838 original size:7 final size:7
Alignment explanation
Indices: 10049759--10049838 Score: 65
Period size: 7 Copynumber: 11.1 Consensus size: 7
10049749 ATAAAGGCTG
10049759 GGGTTTA
1 GGGTTTA
*
10049766 AGGTTTA
1 GGGTTTA
10049773 GAGG-TTA
1 G-GGTTTA
* *
10049780 TGTGTTAA
1 -GGGTTTA
10049788 GGGTTTAA
1 GGGTTT-A
*
10049796 GGTTTTA
1 GGGTTTA
10049803 GGGTTTTA
1 GGG-TTTA
10049811 GGGTTTA
1 GGGTTTA
10049818 -GGTTTA
1 GGGTTTA
*
10049824 TGGTTTA
1 GGGTTTA
10049831 GGGTTTA
1 GGGTTTA
10049838 G
1 G
10049839 ATTAACTAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
6 6 0.10
7 34 0.59
8 18 0.31
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
GGGTTTA
Found at i:10051299 original size:43 final size:43
Alignment explanation
Indices: 10051250--10051388 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
10051240 ATAAATGTCG
* *
10051250 CTAAAGAACGGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
1 CTAAAGATCAGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
* * ** * *
10051293 CTAAAGATCATGTTC-TATAATGGCGTTTGTGATAAAAGCGTCG
1 CTAAAGATCA-GTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
* *
10051336 CTAAAGGTCATTA-TCTTTAGCGGCGTTTGTGATAAAAGCGCCA
1 CTAAAGATCAGTACT-TTTAGCGGCGTTTGTGATAAAAGCGCCA
*
10051379 TTAAAGATCA
1 CTAAAGATCA
10051389 TGCCCAAAAG
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
42 1 0.01
43 71 0.95
44 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (43 bp):
CTAAAGATCAGTACTTTTAGCGGCGTTTGTGATAAAAGCGCCA
Found at i:10052882 original size:22 final size:21
Alignment explanation
Indices: 10052856--10052905 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
10052846 AATCCGAATT
10052856 TTAAAATTTTAAAAATAAACAA
1 TTAAAATTTTAAAAATAAA-AA
*
10052878 TTAAATTTTTAAAAATAAAAA
1 TTAAAATTTTAAAAATAAAAA
10052899 TATAAAA
1 T-TAAAA
10052906 ATTAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAAAATTTTAAAAATAAAAA
Found at i:10054622 original size:15 final size:15
Alignment explanation
Indices: 10054598--10054631 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10054588 TTACTCTATC
*
10054598 AATT-ATATTAGGAT
1 AATTAATATTAAGAT
10054612 AATTAATATTAAGAT
1 AATTAATATTAAGAT
10054627 AATTA
1 AATTA
10054632 TTAAGGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (15 bp):
AATTAATATTAAGAT
Found at i:10059392 original size:13 final size:13
Alignment explanation
Indices: 10059357--10059393 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
10059347 AAACGGGTTG
* *
10059357 CAATGTGTGACTT
1 CAATGTGAGGCTT
10059370 CAATGTGAGGCTT
1 CAATGTGAGGCTT
10059383 CAATGTGAGGC
1 CAATGTGAGGC
10059394 AATAGAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (13 bp):
CAATGTGAGGCTT
Found at i:10069970 original size:28 final size:28
Alignment explanation
Indices: 10069930--10069986 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
10069920 TTAGGTTGGT
*
10069930 AATCAGTCAAACAATGTTATGCTTTACA
1 AATCAGTCAAACAATGTTATGCTTGACA
10069958 AATCAGTCAAACAATGTTATGCTTGACA
1 AATCAGTCAAACAATGTTATGCTTGACA
10069986 A
1 A
10069987 CTTCATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (28 bp):
AATCAGTCAAACAATGTTATGCTTGACA
Found at i:10079498 original size:18 final size:19
Alignment explanation
Indices: 10079468--10079504 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10079458 ATGTCACACA
10079468 TGCTTTACAAAAATAATTG
1 TGCTTTACAAAAATAATTG
*
10079487 TGCTTT-CAAAAATGATTG
1 TGCTTTACAAAAATAATTG
10079505 ACACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (19 bp):
TGCTTTACAAAAATAATTG
Found at i:10085472 original size:18 final size:18
Alignment explanation
Indices: 10085435--10085472 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10085425 GTATTAACAA
*
10085435 ATATATATTAAATATTTT
1 ATATATATTAAATATGTT
10085453 ATAT-TATTAAATTATGTT
1 ATATATATTAAA-TATGTT
10085471 AT
1 AT
10085473 TATCCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
ATATATATTAAATATGTT
Found at i:10088692 original size:77 final size:78
Alignment explanation
Indices: 10088551--10088698 Score: 226
Period size: 78 Copynumber: 1.9 Consensus size: 78
10088541 TACTTGCTCA
*
10088551 ATAAACCAAAAAAACATTCAAATATGTGTATTGTTTTGAAAACAAAAAAAATACAATATTGACTA
1 ATAAACCAAAAAAACATTCAAATATGTGTACTGTTTTGAAAACAAAAAAAATACAATATTGACTA
10088616 AAATTATGCTTGT
66 AAATTATGCTTGT
* * * * * *
10088629 ATAAACGAAAAAAGCATTCAAATTTTTGTACTGTTTTGGAAA-TAAAAAAATACAATATTGACTA
1 ATAAACCAAAAAAACATTCAAATATGTGTACTGTTTTGAAAACAAAAAAAATACAATATTGACTA
10088693 AAATTA
66 AAATTA
10088699 AAGTCCAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 27 0.43
78 36 0.57
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (78 bp):
ATAAACCAAAAAAACATTCAAATATGTGTACTGTTTTGAAAACAAAAAAAATACAATATTGACTA
AAATTATGCTTGT
Found at i:10094901 original size:50 final size:50
Alignment explanation
Indices: 10094740--10094981 Score: 351
Period size: 50 Copynumber: 4.8 Consensus size: 50
10094730 GATCATAACA
* ** *
10094740 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
10094791 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGGGGCCTCTCATCTCGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
10094840 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
10094890 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
10094940 TGCCAATGCCGTGTCCCAGACATGGTCTTACATGGGGCCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
10094982 TTACCCAAAT
Statistics
Matches: 173, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
49 38 0.22
50 106 0.61
51 29 0.17
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:10095353 original size:30 final size:29
Alignment explanation
Indices: 10095319--10095375 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
10095309 CCTCGACTCT
*
10095319 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ATTTTGCCCCTA
* *
10095349 AACTTTTGCATAATTACATTTTTCCCC
1 AACTTTTGCAAAATTACATTTTGCCCC
10095376 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.42
Consensus pattern (29 bp):
AACTTTTGCAAAATTACATTTTGCCCCTA
Found at i:10107376 original size:11 final size:11
Alignment explanation
Indices: 10107360--10107401 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
10107350 TAGCTATTTA
10107360 TAATAAAATAT
1 TAATAAAATAT
10107371 TAATAAAATAT
1 TAATAAAATAT
*
10107382 CTCACTAAAATAT
1 -T-AATAAAATAT
10107395 TAATAAA
1 TAATAAA
10107402 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:10108741 original size:17 final size:18
Alignment explanation
Indices: 10108709--10108743 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
10108699 ATATGATGTT
10108709 CACCCGTATGGGCCCACA
1 CACCCGTATGGGCCCACA
*
10108727 CACCCGTGT-GGCCCACA
1 CACCCGTATGGGCCCACA
10108744 TGACCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.46, G:0.23, T:0.11
Consensus pattern (18 bp):
CACCCGTATGGGCCCACA
Found at i:10111701 original size:25 final size:25
Alignment explanation
Indices: 10111673--10111785 Score: 97
Period size: 25 Copynumber: 4.5 Consensus size: 25
10111663 GACACACCAC
10111673 AGCTCATATGAGCTTACCAATT-TGT
1 AGCTCATATGAGCTTACCAATTCT-T
*
10111698 AGCTCATGA-GAGCTTACCGATTCTT
1 AGCTCAT-ATGAGCTTACCAATTCTT
* **
10111723 AGCTCGTATGAGCTTACCAATTCAC
1 AGCTCATATGAGCTTACCAATTCTT
* * * *
10111748 AACTCATGA-GAACATACCAATTCAT
1 AGCTCAT-ATGAGCTTACCAATTCTT
*
10111773 AGCTCTTATGAGC
1 AGCTCATATGAGC
10111786 ATACATGTAC
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
24 2 0.03
25 65 0.93
26 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCAATTCTT
Found at i:10111754 original size:50 final size:50
Alignment explanation
Indices: 10111673--10111785 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 50
10111663 GACACACCAC
*** * * * * *
10111673 AGCTCATATGAGCTTACCAATTTGTAGCTCATGAGAGCTTACCGATTCTT
1 AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCAATTCAT
*
10111723 AGCTCGTATGAGCTTACCAATTCACAACTCATGAGAACATACCAATTCAT
1 AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCAATTCAT
*
10111773 AGCTCTTATGAGC
1 AGCTCATATGAGC
10111786 ATACATGTAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (50 bp):
AGCTCATATGAGCTTACCAATTCACAACTCATGAGAACATACCAATTCAT
Found at i:10111976 original size:30 final size:30
Alignment explanation
Indices: 10111937--10111997 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
10111927 TACATGAAAT
10111937 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
10111968 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
10111997 A
1 A
10111998 TTTGCTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 5 0.18
30 9 0.32
31 13 0.46
32 1 0.04
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.30
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:10112421 original size:30 final size:30
Alignment explanation
Indices: 10112385--10112447 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
10112375 TTTTGGTGTA
10112385 TATATATATGTGGCCTTATCATATTTAATG
1 TATATATATGTGGCCTTATCATATTTAATG
**
10112415 TATATATATGTGGTTTTATCATATTTAATG
1 TATATATATGTGGCCTTATCATATTTAATG
10112445 TAT
1 TAT
10112448 GTTTGATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (30 bp):
TATATATATGTGGCCTTATCATATTTAATG
Found at i:10117318 original size:18 final size:18
Alignment explanation
Indices: 10117286--10117320 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10117276 CAAGGAAAAG
**
10117286 AAGAAAAAGTGAAGGGGC
1 AAGAAAAAGAAAAGGGGC
10117304 AAGAAAAAGAAAAGGGG
1 AAGAAAAAGAAAAGGGG
10117321 GCGGCCAAAA
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:0.57, C:0.03, G:0.37, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAAAGGGGC
Found at i:10119706 original size:14 final size:14
Alignment explanation
Indices: 10119678--10119711 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10119668 CATGACCACT
10119678 CTCGA-TCTACAAA
1 CTCGATTCTACAAA
*
10119691 CTCGATTCTACTAA
1 CTCGATTCTACAAA
10119705 CTCGATT
1 CTCGATT
10119712 TTTGGGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (14 bp):
CTCGATTCTACAAA
Found at i:10125014 original size:31 final size:31
Alignment explanation
Indices: 10124971--10125031 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
10124961 TTATTTAAGT
*
10124971 ATATACAATTAAATCAAAATTAAAGTTTTAC
1 ATATACAATTAAACCAAAATTAAAGTTTTAC
* *
10125002 ATATACATTTAAACCATAATTAAAGTTTTA
1 ATATACAATTAAACCAAAATTAAAGTTTTA
10125032 TGTGTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (31 bp):
ATATACAATTAAACCAAAATTAAAGTTTTAC
Found at i:10131028 original size:57 final size:57
Alignment explanation
Indices: 10130935--10131140 Score: 236
Period size: 57 Copynumber: 3.6 Consensus size: 57
10130925 GAAAAAATAA
* * *
10130935 TGCAAGAAAAGACAAGTGAACAAGAAATATTCTCTAGCGAAAACAGTAAATATTTCT
1 TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGAAAACAGTAAATATTCCC
* *
10130992 TGCAAGAAAAGACGAA-TGAACAGGAAATATTATCTAGCGAAAACAATAAATATTCCC
1 TGCAAGAAAAGAC-AAGTGAACAGGAAATATTCTCTAGCGAAAACAGTAAATATTCCC
* * * * * * *
10131049 CGCAAGACAAGACAAGTGGACGGGAAATATTCTATGGTGAAAACAGTAAATATTCCC
1 TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGAAAACAGTAAATATTCCC
* * * *
10131106 TACAAGAAAAGACGCA-TGAATAGTAAATATTCTCT
1 TGCAAGAAAAGAC-AAGTGAACAGGAAATATTCTCT
10131141 GTAGTTTGTA
Statistics
Matches: 123, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
56 2 0.02
57 118 0.96
58 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (57 bp):
TGCAAGAAAAGACAAGTGAACAGGAAATATTCTCTAGCGAAAACAGTAAATATTCCC
Found at i:10131390 original size:16 final size:16
Alignment explanation
Indices: 10131351--10131390 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10131341 AAGTTTCTCC
10131351 AAATT-TTTAAGTTTT
1 AAATTATTTAAGTTTT
**
10131366 AAAAAATTTAAGTTTT
1 AAATTATTTAAGTTTT
10131382 AAATTATTT
1 AAATTATTT
10131391 TTCTTTTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (16 bp):
AAATTATTTAAGTTTT
Found at i:10133697 original size:57 final size:57
Alignment explanation
Indices: 10133572--10133720 Score: 201
Period size: 57 Copynumber: 2.6 Consensus size: 57
10133562 TACAAACTAT
* * * ** *
10133572 AGAAAATATTTATTATTCA-TACGTCTTTTCTTATAGGGAATATTTACTGTTTTCGTC
1 AGAAAATATTTCTTGTTCACT-TGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCC
*
10133629 AGAGAATATTTCTTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCC
1 AGAAAATATTTCTTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCC
* *
10133686 AGAAAATATTTCCTGTTCACTTATCTTTTCTTGCA
1 AGAAAATATTTCTTGTTCACTTGTCTTTTCTTGCA
10133721 TCATTCTTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 80 0.99
58 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.46
Consensus pattern (57 bp):
AGAAAATATTTCTTGTTCACTTGTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCC
Found at i:10135943 original size:20 final size:20
Alignment explanation
Indices: 10135918--10135958 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
10135908 AATTTTACAA
10135918 AATCTTGCCAAATAT-TTGAT
1 AATCTTGCCAAA-ATCTTGAT
10135938 AATCTTGCCAAAATCTTGAT
1 AATCTTGCCAAAATCTTGAT
10135958 A
1 A
10135959 TCAATCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (20 bp):
AATCTTGCCAAAATCTTGAT
Found at i:10143534 original size:13 final size:13
Alignment explanation
Indices: 10143516--10143540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10143506 AAATAAAAAA
10143516 ATATATTTATTAT
1 ATATATTTATTAT
10143529 ATATATTTATTA
1 ATATATTTATTA
10143541 GATAAATACT
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:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:10145143 original size:5 final size:5
Alignment explanation
Indices: 10145133--10145158 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10145123 TTTACTCTAA
10145133 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
10145159 CCTACGCCAG
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:10146654 original size:18 final size:19
Alignment explanation
Indices: 10146617--10146654 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
10146607 TTAACAGTGC
* *
10146617 TAAAATCATTACTCTTTAA
1 TAAAAACATAACTCTTTAA
10146636 TAAAAACATAACT-TTTAA
1 TAAAAACATAACTCTTTAA
10146654 T
1 T
10146655 CCTTTCTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAAACATAACTCTTTAA
Found at i:10149345 original size:17 final size:17
Alignment explanation
Indices: 10149323--10149356 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10149313 ATCCACTAAT
*
10149323 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
10149340 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
10149357 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:10153984 original size:17 final size:17
Alignment explanation
Indices: 10153962--10153995 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10153952 ATCCACTAAT
*
10153962 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
10153979 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
10153996 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:10156623 original size:3 final size:3
Alignment explanation
Indices: 10156615--10156665 Score: 75
Period size: 3 Copynumber: 16.3 Consensus size: 3
10156605 ACAAATTTTA
*
10156615 TAT TAT TAT TGT TAT TGCAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT T--AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10156662 TAT T
1 TAT T
10156666 GTTTTTATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 41 0.93
5 3 0.07
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10156813 original size:24 final size:24
Alignment explanation
Indices: 10156786--10156840 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
10156776 ATTTCTAACC
10156786 TTTATAAATATATATATACATATT
1 TTTATAAATATATATATACATATT
* * *
10156810 TTTACATATATATATGTACATATT
1 TTTATAAATATATATATACATATT
10156834 TTATATA
1 TT-TATA
10156841 TTTTATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTATAAATATATATATACATATT
Found at i:10160999 original size:21 final size:21
Alignment explanation
Indices: 10160970--10161013 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10160960 ACACCAAAAC
*
10160970 AGGCTTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
* *
10160991 AGGCCTTTAGTGGCGCTTTTT
1 AGGCCTTTAGCGGCACTTTTT
10161012 AG
1 AG
10161014 CGCCGCAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (21 bp):
AGGCCTTTAGCGGCACTTTTT
Done.