Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 38 of 316
Found at i:10953823 original size:46 final size:46
Alignment explanation
Indices: 10953650--10953819 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
10953640 TGTAACCCGC
* ** ** *
10953650 CCATAAGTGAACTCGGACTCAAGTCAATAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
* *
10953696 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA--AC-A-TTCGCAT
* * *
10953746 -C-TCA-TGAACTCAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
*
10953789 CCATAAGTGAACTCGGACTCAACTTAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
10953820 TTCGGATGCT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.55
47 26 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
Found at i:10954416 original size:20 final size:18
Alignment explanation
Indices: 10954382--10954418 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
10954372 GCAACTCATA
10954382 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
10954400 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
10954419 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:10956822 original size:21 final size:21
Alignment explanation
Indices: 10956798--10956847 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10956788 TTTTCCTAGG
* *
10956798 ATGTGAATTGAATTGAATTGA
1 ATGTGAAATGAATTAAATTGA
*
10956819 ATGTGAAATGTATTAAATTG-
1 ATGTGAAATGAATTAAATTGA
*
10956839 ATGTTAAAT
1 ATGTGAAAT
10956848 TTACTCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (21 bp):
ATGTGAAATGAATTAAATTGA
Found at i:10964517 original size:18 final size:18
Alignment explanation
Indices: 10964494--10964542 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
10964484 TTCTCACATT
10964494 TATATCACTTTTGTCATG
1 TATATCACTTTTGTCATG
10964512 TATATCACTTTTGTCATG
1 TATATCACTTTTGTCATG
10964530 TATATCACTTTTG
1 TATATCACTTTTG
10964543 ACTTTTATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.51
Consensus pattern (18 bp):
TATATCACTTTTGTCATG
Found at i:10978615 original size:35 final size:33
Alignment explanation
Indices: 10978568--10978636 Score: 77
Period size: 35 Copynumber: 2.0 Consensus size: 33
10978558 TTGAACTGTG
* *
10978568 GCATGAGATTTTAAATTTTGGACATTGAATAATTT
1 GCATGAGATTTTAAATTATGG--ATTAAATAATTT
*
10978603 GCATG-GATTTTTATATTATGGATTAAATAATTT
1 GCATGAGA-TTTTAAATTATGGATTAAATAATTT
10978636 G
1 G
10978637 ACATTTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 12 0.40
34 2 0.07
35 16 0.53
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (33 bp):
GCATGAGATTTTAAATTATGGATTAAATAATTT
Found at i:10980028 original size:18 final size:19
Alignment explanation
Indices: 10979991--10980029 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10979981 ATTACAAAAT
*
10979991 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
10980010 AATTCAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
10980028 AA
1 AA
10980030 ATCCCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:10980030 original size:19 final size:19
Alignment explanation
Indices: 10979991--10980044 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
10979981 ATTACAAAAT
*
10979991 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
10980010 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
* *
10980029 AATCCCAAA-ATTTATA
1 AATTCAAAATATTTATA
10980045 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.35
19 20 0.65
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:10980073 original size:20 final size:20
Alignment explanation
Indices: 10980044--10980084 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10980034 CAAAATTTAT
10980044 ATTTT-AAAAAAGTTTATAAA
1 ATTTTAAAAAAAG-TTATAAA
*
10980064 ATTTTTAAAAAAGTTATAAA
1 ATTTTAAAAAAAGTTATAAA
10980084 A
1 A
10980085 AATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATTTTAAAAAAAGTTATAAA
Found at i:10980085 original size:21 final size:21
Alignment explanation
Indices: 10980045--10980084 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10980035 AAAATTTATA
10980045 TTTTAAAAAAGTTTATAAAAT
1 TTTTAAAAAAGTTTATAAAAT
10980066 TTTTAAAAAAG-TTATAAAA
1 TTTTAAAAAAGTTTATAAAA
10980085 AATATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAAGTTTATAAAAT
Found at i:10980315 original size:23 final size:23
Alignment explanation
Indices: 10980272--10980318 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10980262 TGTAATAAGA
*
10980272 TTTTAATTTAACATATTTAATTT
1 TTTTAATTTAACATATATAATTT
* *
10980295 TTTTAATTTAACTTGTATAATTT
1 TTTTAATTTAACATATATAATTT
10980318 T
1 T
10980319 ACTCTATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAATTTAACATATATAATTT
Found at i:10988729 original size:21 final size:21
Alignment explanation
Indices: 10988687--10988753 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
10988677 GAATACATTG
*
10988687 ACAGAAGCTTG-AA-AGCTAA
1 ACAGAAGCTCGTAAGAGCTAA
*
10988706 ACAGAAGCTCGTAAGAGCTTA
1 ACAGAAGCTCGTAAGAGCTAA
* * *
10988727 ACAGAAGCTCGTAGGAACTGA
1 ACAGAAGCTCGTAAGAGCTAA
10988748 ACAGAA
1 ACAGAA
10988754 AGTAAAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
19 10 0.24
20 2 0.05
21 29 0.71
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (21 bp):
ACAGAAGCTCGTAAGAGCTAA
Found at i:10988914 original size:17 final size:17
Alignment explanation
Indices: 10988894--10988930 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10988884 ATTAAATTCG
*
10988894 ATAATATATTTCCAATA
1 ATAATATAATTCCAATA
*
10988911 ATAATTTAATTCCAATA
1 ATAATATAATTCCAATA
10988928 ATA
1 ATA
10988931 TAACATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATATAATTCCAATA
Found at i:10992058 original size:29 final size:30
Alignment explanation
Indices: 10992011--10992078 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
10992001 TGGCCCAAGA
* * *
10992011 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAACGACTAATAGT
*
10992041 GTAAATATGAAAAGTTGAACGACTAATAGT
1 GTAAATATCAAAAGTTGAACGACTAATAGT
*
10992071 GCAAATAT
1 GTAAATAT
10992079 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAACGACTAATAGT
Found at i:10994339 original size:72 final size:72
Alignment explanation
Indices: 10994222--10994366 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
10994212 GCTCTCTGAT
* * *
10994222 ATGAAGTGTTTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
10994287 GGTTGAA
66 GGTTGAA
10994294 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
10994359 GGTTGAA
66 GGTTGAA
10994366 A
1 A
10994367 GATACCATGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (72 bp):
ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
GGTTGAA
Found at i:10994346 original size:46 final size:46
Alignment explanation
Indices: 10994294--10994567 Score: 372
Period size: 46 Copynumber: 6.0 Consensus size: 46
10994284 CATGGTTGAA
** * *
10994294 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** *
10994340 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
10994386 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
10994432 A-GAAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAACGTGAT
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
10994478 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
10994524 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
10994568 TCAAAGATAA
Statistics
Matches: 208, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 2 0.01
46 205 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:10994403 original size:92 final size:92
Alignment explanation
Indices: 10994294--10994562 Score: 423
Period size: 92 Copynumber: 2.9 Consensus size: 92
10994284 CATGGTTGAA
** * * * *
10994294 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACCTGATATG-AAATGTGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCA
10994358 TGGTTGAAAGATACCATGGCAACGTGAT
65 TGGTTGAAAGATACCATGGCAACGTGAT
*
10994386 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAATAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
*
10994451 GGTTGAAAGATGCCATGGCAACGTGAT
66 GGTTGAAAGATACCATGGCAACGTGAT
10994478 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
* * *
10994543 AGTTGAAAGACACTATGGCA
66 GGTTGAAAGATACCATGGCA
10994563 TCATGTCAAA
Statistics
Matches: 163, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
91 1 0.01
92 162 0.99
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCAT
GGTTGAAAGATACCATGGCAACGTGAT
Found at i:10994869 original size:16 final size:17
Alignment explanation
Indices: 10994848--10994880 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10994838 ATGATGGAGC
10994848 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
10994864 ATGAAATAATTGATATA
1 ATGAAATAATTGATATA
10994881 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:11001296 original size:47 final size:48
Alignment explanation
Indices: 11001179--11001303 Score: 162
Period size: 48 Copynumber: 2.6 Consensus size: 48
11001169 GTGCGAATGA
* ***
11001179 TACCTTGATTTGGCTAGGGGCCATGGTATAGGTATTTCAGAGAGAAGT
1 TACCTTGATTTGGCTAGGGGCCATGGTATAGATACAGCAGAGAGAAGT
* *
11001227 TACCTTTATTTGGCTAGGGGCCATGGTATAGATACAGCAG-GATAAGT
1 TACCTTGATTTGGCTAGGGGCCATGGTATAGATACAGCAGAGAGAAGT
* **
11001274 TACCTTGATTTGGTTACAGGCCATGGTATA
1 TACCTTGATTTGGCTAGGGGCCATGGTATA
11001304 AGTACTTATC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 32 0.48
48 35 0.52
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (48 bp):
TACCTTGATTTGGCTAGGGGCCATGGTATAGATACAGCAGAGAGAAGT
Found at i:11002925 original size:39 final size:39
Alignment explanation
Indices: 11002746--11002922 Score: 228
Period size: 39 Copynumber: 4.5 Consensus size: 39
11002736 CATTTTTGTT
11002746 AGTATTGTGATATATATGCTTGAATGTTATGTGATTATATG
1 AGTATTGTG--ATATATGCTTGAATGTTATGTGATTATATG
* * *
11002787 AGTATTGTGAGATATGTTTGAATGTTATGTGATTATATA
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * * *
11002826 AATATTGAGATATATGCTTGAACGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* * *
11002865 AGTATTTTGATATATGCTTAAATATTATGTGATTATATG
1 AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
* *
11002904 TGTAATGTGATATATGCTT
1 AGTATTGTGATATATGCTT
11002923 AAAAGTTAAC
Statistics
Matches: 116, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 107 0.92
41 9 0.08
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTGAATGTTATGTGATTATATG
Found at i:11003232 original size:30 final size:30
Alignment explanation
Indices: 11003198--11003257 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
11003188 TCGTAGGTGT
*
11003198 TATTGTTGTTTGTTTTCATTTTGGGAATAA
1 TATTGTTGTTTATTTTCATTTTGGGAATAA
*
11003228 TATTGTTGTTTATTTTCGTTTTGGGAATAA
1 TATTGTTGTTTATTTTCATTTTGGGAATAA
11003258 GGCAATGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.03, G:0.20, T:0.57
Consensus pattern (30 bp):
TATTGTTGTTTATTTTCATTTTGGGAATAA
Found at i:11004356 original size:22 final size:22
Alignment explanation
Indices: 11004330--11004374 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11004320 AGATCAACAC
11004330 AAATAT-AATCACATACATATCA
1 AAATATCAATCACAT-CATATCA
**
11004352 AAATATCAATTTCATCATATCA
1 AAATATCAATCACATCATATCA
11004374 A
1 A
11004375 TCATCATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATCAATCACATCATATCA
Found at i:11004571 original size:22 final size:22
Alignment explanation
Indices: 11004546--11004588 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11004536 AAACCACAAC
*
11004546 TGATCTGTAGATAAACTGCCAT
1 TGATCTGCAGATAAACTGCCAT
*
11004568 TGATTTGCAGATAAACTGCCA
1 TGATCTGCAGATAAACTGCCA
11004589 CTAATAACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (22 bp):
TGATCTGCAGATAAACTGCCAT
Found at i:11004673 original size:73 final size:73
Alignment explanation
Indices: 11004534--11004712 Score: 286
Period size: 73 Copynumber: 2.5 Consensus size: 73
11004524 TCGTTTATGG
* * * *
11004534 ACAAACCACAACTGATCTGTAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAACAC
1 ACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAACAC
11004599 TGATGTGA
66 TGATGTGA
*
11004607 ACAAGCCACCACTGGTTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAACAC
1 ACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAACAC
*
11004672 TGATGTGG
66 TGATGTGA
* *
11004680 ACAAGCCACCATTGATTTGCAGATAAATTGCCA
1 ACAAGCCACCACTGATTTGCAGATAAACTGCCA
11004713 CTAATAACAC
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 97 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (73 bp):
ACAAGCCACCACTGATTTGCAGATAAACTGCCATTGATTTGCAGATAAACTGCCACTAATAACAC
TGATGTGA
Found at i:11004697 original size:51 final size:51
Alignment explanation
Indices: 11004637--11004741 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
11004627 AGATAAACTG
*
11004637 CCATTGATTTGCAGATAAACTGCCACTAATAACACTGATGTGGACAAGCCA
1 CCATTGATTTGCAGATAAACTGCCACTAATAACACTAATGTGGACAAGCCA
*
11004688 CCATTGATTTGCAGATAAATTGCCACTAATAACACTAATGTGGACAAGCCA
1 CCATTGATTTGCAGATAAACTGCCACTAATAACACTAATGTGGACAAGCCA
11004739 CCA
1 CCA
11004742 CTAAATTGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (51 bp):
CCATTGATTTGCAGATAAACTGCCACTAATAACACTAATGTGGACAAGCCA
Found at i:11010668 original size:145 final size:147
Alignment explanation
Indices: 11010389--11010672 Score: 473
Period size: 145 Copynumber: 1.9 Consensus size: 147
11010379 AACAGGAAAG
*
11010389 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGATATCATAATAAAAAAGCATGGTAGGCA
1 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
* * *
11010454 AAGGAATGAGTGGTCGGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAGAGAGCA
66 AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
11010519 GGGGAGAGGCTGATGAA
131 GGGGAGAGGCTGATGAA
* * *
11010536 AGGATGGGAGAAATAAGATGCATATGC-AATTAGAAGAAATCATAATAGAAAAGCATGGTAGGCA
1 AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
* *
11010600 AAGGAATGAGT-GTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGTAACAGGCAAAAGAACA
66 AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
11010664 GGGGAGAGG
131 GGGGAGAGG
11010673 TTTTAGACTT
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
145 57 0.45
146 45 0.35
147 26 0.20
ACGTcount: A:0.45, C:0.09, G:0.31, T:0.14
Consensus pattern (147 bp):
AGGATGCGAGAAATAAGATGCATATGCAAACTAGAAGAAATCATAATAAAAAAGCATGGTAGGCA
AAGGAATGAGTGGTCAGGGTTTAAGGAAGAACTGAGAACAGAAGAAAGAAACAGACAAAAGAACA
GGGGAGAGGCTGATGAA
Found at i:11013605 original size:36 final size:37
Alignment explanation
Indices: 11013529--11013605 Score: 88
Period size: 36 Copynumber: 2.1 Consensus size: 37
11013519 ATTTTTCGAA
* *
11013529 AAATCTATTTTTACATATATTAATAAATTTATATTTT
1 AAATCTATTTTTACATATATCAATAAATTTATATTAT
*
11013566 AAAT-TATTTTTATATATACTACAAT-AATTTAT-TTAT
1 AAATCTATTTTTACATATA-T-CAATAAATTTATATTAT
11013602 AAAT
1 AAAT
11013606 AAATAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 20 0.57
37 12 0.34
38 3 0.09
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (37 bp):
AAATCTATTTTTACATATATCAATAAATTTATATTAT
Found at i:11019270 original size:21 final size:21
Alignment explanation
Indices: 11019233--11019318 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
11019223 CCTGATTAGA
* *
11019233 AAACGACACA-TAAGTGCCTG
1 AAACGACACACGAGGTGCCTG
11019253 AAACGACACACGAGGTGCCTG
1 AAACGACACACGAGGTGCCTG
***
11019274 CTGCGACACACGAGGTGCCTG
1 AAACGACACACGAGGTGCCTG
*** *
11019295 CTGCGACACACAAGGTGCCTG
1 AAACGACACACGAGGTGCCTG
11019316 AAA
1 AAA
11019319 TATGACACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
20 10 0.18
21 46 0.82
ACGTcount: A:0.31, C:0.29, G:0.27, T:0.13
Consensus pattern (21 bp):
AAACGACACACGAGGTGCCTG
Found at i:11019575 original size:28 final size:29
Alignment explanation
Indices: 11019544--11019599 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
11019534 AACACACTAG
*
11019544 TATAATCC-TCCCAAACACACCAGAATAA
1 TATAATCCATCCAAAACACACCAGAATAA
11019572 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCCATCCAAAACACACCAGAATA
11019600 GCACAAAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (29 bp):
TATAATCCATCCAAAACACACCAGAATAA
Found at i:11024758 original size:20 final size:20
Alignment explanation
Indices: 11024733--11024771 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
11024723 TTATTTAAAT
11024733 TAATATAC-AGTTTTATATAC
1 TAATATACTA-TTTTATATAC
11024753 TAATATACTATTTTATATA
1 TAATATACTATTTTATATA
11024772 ATTTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATATACTATTTTATATAC
Found at i:11024816 original size:22 final size:22
Alignment explanation
Indices: 11024786--11024828 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11024776 TTCAAATATG
11024786 TAAAATAATATACTGTTTTATT
1 TAAAATAATATACTGTTTTATT
*
11024808 TAAACTAATATACTGTTTTAT
1 TAAAATAATATACTGTTTTAT
11024829 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (22 bp):
TAAAATAATATACTGTTTTATT
Found at i:11026413 original size:39 final size:39
Alignment explanation
Indices: 11026368--11026444 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
11026358 AATGGATCAA
11026368 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
1 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
11026407 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCA
1 ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCA
11026445 GAGATTAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (39 bp):
ACATGTTGATATCATCCAACTAAAATAGACAGCTTTCAT
Found at i:11027299 original size:23 final size:23
Alignment explanation
Indices: 11027249--11027299 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
11027239 CCTTAGAAAG
11027249 AGAGATTTGCCTTTGCCTGGTAA
1 AGAGATTTGCCTTTGCCTGGTAA
*
11027272 TGAGATTTGCCTTTGCCTGAG-AA
1 AGAGATTTGCCTTTGCCTG-GTAA
11027295 AGAGA
1 AGAGA
11027300 GAAAAAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (23 bp):
AGAGATTTGCCTTTGCCTGGTAA
Found at i:11031490 original size:18 final size:18
Alignment explanation
Indices: 11031467--11031502 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11031457 GTCAATACAC
11031467 AATCTCAAATATCCATCT
1 AATCTCAAATATCCATCT
11031485 AATCTCAAATATCCATCT
1 AATCTCAAATATCCATCT
11031503 TTCTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
AATCTCAAATATCCATCT
Found at i:11036925 original size:22 final size:24
Alignment explanation
Indices: 11036883--11036926 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
11036873 TAACTAAGTT
11036883 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
11036907 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
11036927 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:11037993 original size:5 final size:5
Alignment explanation
Indices: 11037983--11038034 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
11037973 AATCTGTTTC
*
11037983 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -CAAT -TAAT AGTAAT AT-AT
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
11038032 ATA
1 ATA
11038035 CCTAAGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 10 0.24
5 21 0.51
6 10 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:11038008 original size:16 final size:15
Alignment explanation
Indices: 11037983--11038034 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
11037973 AATCTGTTTC
11037983 ATAATATAATATAAT
1 ATAATATAATATAAT
11037998 ATAATTATAATATAAT
1 ATAA-TATAATATAAT
*
11038014 -CAAT-TAATAGTAAT
1 ATAATATAATA-TAAT
11038028 AT-ATATA
1 ATAATATA
11038035 CCTAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 8 0.26
16 11 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:11043366 original size:28 final size:27
Alignment explanation
Indices: 11043298--11043442 Score: 121
Period size: 28 Copynumber: 5.2 Consensus size: 27
11043288 TGGTGAATTA
** *
11043298 TGAAAAGAATATACTTTGTGGCGAACTC
1 TGAAAAGAATAGCCTGTGTGGCGAAC-C
* *
11043326 CGAAAAGAATAGCCTCTGTGGCGAACC
1 TGAAAAGAATAGCCTGTGTGGCGAACC
* **
11043353 ATGAAAAGAATAGCCTATGTACCGAA-C
1 -TGAAAAGAATAGCCTGTGTGGCGAACC
* * *
11043380 TGTAAAAATAATAGCCTGTGAGGCAAACTC
1 TG--AAAAGAATAGCCTGTGTGGCGAAC-C
*
11043410 TGAAAAGAATAGCTTGTGTGGCGAACTC
1 TGAAAAGAATAGCCTGTGTGGCGAAC-C
11043438 TGAAA
1 TGAAA
11043443 GGGATGCCTT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 2 0.02
27 2 0.02
28 87 0.93
30 3 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (27 bp):
TGAAAAGAATAGCCTGTGTGGCGAACC
Found at i:11043379 original size:56 final size:56
Alignment explanation
Indices: 11043274--11043422 Score: 129
Period size: 56 Copynumber: 2.7 Consensus size: 56
11043264 AATGACAATT
* * * ** ** * ** *
11043274 AAGAATAGCCTTTATGGTGAATTATGAAAAGAATATACTTTGTGGCGAACTCCGAA
1 AAGAATAGCCTCTGTGGCGAACCATGAAAAGAATAGCCTATGTACCGAACTCCAAA
**
11043330 AAGAATAGCCTCTGTGGCGAACCATGAAAAGAATAGCCTATGTACCGAACTGTAAA
1 AAGAATAGCCTCTGTGGCGAACCATGAAAAGAATAGCCTATGTACCGAACTCCAAA
* * * *
11043386 AATAATAGCCTGTGAGGCAAACTC-TGAAAAGAATAGC
1 AAGAATAGCCTCTGTGGCGAAC-CATGAAAAGAATAGC
11043423 TTGTGTGGCG
Statistics
Matches: 75, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
56 74 0.99
57 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (56 bp):
AAGAATAGCCTCTGTGGCGAACCATGAAAAGAATAGCCTATGTACCGAACTCCAAA
Found at i:11043435 original size:56 final size:55
Alignment explanation
Indices: 11043297--11043437 Score: 140
Period size: 56 Copynumber: 2.5 Consensus size: 55
11043287 ATGGTGAATT
* * * *
11043297 ATGAAAAGAATATACTTTGTGGCGAACTCCGAAAAGAATAGCCTCTGTGGCGAACC
1 ATGAAAAGAATA-GCTTTGTGGCGAACTCCAAAAAGAATAGCCTCTGAGGCAAACC
* ** ** * *
11043353 ATGAAAAGAATAGCCTATGTACCGAACTGTAAAAATAATAGCCTGTGAGGCAAACTC
1 ATGAAAAGAATAG-CTTTGTGGCGAACTCCAAAAAGAATAGCCTCTGAGGCAAAC-C
11043410 -TGAAAAGAATAGCTTGTGTGGCGAACTC
1 ATGAAAAGAATAGCTT-TGTGGCGAACTC
11043438 TGAAAGGGAT
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
55 2 0.03
56 64 0.96
57 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.22
Consensus pattern (55 bp):
ATGAAAAGAATAGCTTTGTGGCGAACTCCAAAAAGAATAGCCTCTGAGGCAAACC
Found at i:11045246 original size:34 final size:34
Alignment explanation
Indices: 11045203--11045326 Score: 135
Period size: 34 Copynumber: 3.6 Consensus size: 34
11045193 ACATATACGA
*
11045203 ATATCATATCAGAATGTCATATTACCAGAAACAT
1 ATATCATATCAGAATGTCATATTTCCAGAAACAT
* *
11045237 ATATCATATCAAAATGTCGTATTTCCAGAAACAT
1 ATATCATATCAGAATGTCATATTTCCAGAAACAT
* * * * *
11045271 AT-GCTAGATTAGAATGTCATATTTTCATAAACAT
1 ATATC-ATATCAGAATGTCATATTTCCAGAAACAT
*
11045305 ATAT-TTGATCAGAATGTCATAT
1 ATATCAT-ATCAGAATGTCATAT
11045327 CAAATCAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 1 0.01
34 72 0.99
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTTCCAGAAACAT
Found at i:11046177 original size:30 final size:30
Alignment explanation
Indices: 11046141--11046203 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
11046131 ATTTATTTTA
11046141 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
11046171 TTGTTAATTTTGTTATTATTTTAGATACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
11046201 TTG
1 TTG
11046204 ATTGTTAAAT
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:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:11059476 original size:30 final size:30
Alignment explanation
Indices: 11059407--11059477 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
11059397 TTTTATAGTC
* * *
11059407 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATAATTTTATAATTTTTAAAAAATCAAAG
*
11059437 TA-AATTTTTATAA-TTTTAAAGAGATCAAAG
1 TATAA-TTTTATAATTTTTAAA-AAATCAAAG
11059467 TATAATTTTAT
1 TATAATTTTAT
11059478 TTTTATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 8 0.24
30 24 0.71
31 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAAAATCAAAG
Found at i:11063136 original size:20 final size:21
Alignment explanation
Indices: 11063107--11063149 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11063097 TTGTAAATTT
11063107 AAAAACTAAA-AAAAGACGAA
1 AAAAACTAAATAAAAGACGAA
* *
11063127 AAAAATTAAATAAAAGACTAA
1 AAAAACTAAATAAAAGACGAA
11063148 AA
1 AA
11063150 TACATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAAACTAAATAAAAGACGAA
Found at i:11063870 original size:17 final size:17
Alignment explanation
Indices: 11063848--11063881 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11063838 TACATACCAT
11063848 TTTTATTTTATAAAATA
1 TTTTATTTTATAAAATA
*
11063865 TTTTATTTTATGAAATA
1 TTTTATTTTATAAAATA
11063882 ATATCATTTA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTATTTTATAAAATA
Found at i:11064105 original size:18 final size:17
Alignment explanation
Indices: 11064078--11064111 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
11064068 TCAATTAGTT
11064078 AATTTTAAAAAAATTAA
1 AATTTTAAAAAAATTAA
11064095 AATTATTAAAAAAATTA
1 AATT-TTAAAAAAATTA
11064112 TAAGAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTTTAAAAAAATTAA
Found at i:11064154 original size:18 final size:18
Alignment explanation
Indices: 11064070--11064156 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 18
11064060 TCACATCATC
*
11064070 AATTAGTTAATTTTAAAAA
1 AATTAATTAA-TTTAAAAA
11064089 AATTAA--AATTATTAAAAA
1 AATTAATTAA-T-TTAAAAA
**
11064107 AATTATAAGAATTATAAAGAA
1 AATTA-ATTAATT-TAAA-AA
* *
11064128 TATT-TTTAATTTAAAAA
1 AATTAATTAATTTAAAAA
11064145 AATTAATTAATT
1 AATTAATTAATT
11064157 GCTAACGGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
17 9 0.17
18 22 0.41
19 11 0.20
20 5 0.09
21 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
AATTAATTAATTTAAAAA
Found at i:11067914 original size:31 final size:31
Alignment explanation
Indices: 11067865--11067977 Score: 120
Period size: 31 Copynumber: 3.6 Consensus size: 31
11067855 AAAAAAATAT
* *
11067865 TTTAAA-AATTAAATATAATAATAAATGAGA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * *
11067895 TTTAAATAATTTAATATAATGATAAATTATA
1 TTTAAATAATTTAATATAATAATAAATGAAA
* * * *
11067926 TTTAAATAATTTCATTTAATCATATATGAAAA
1 TTTAAATAATTTAATATAATAATAAATG-AAA
*
11067958 TTTAAATAATTCAATATAAT
1 TTTAAATAATTTAATATAAT
11067978 GGAATATAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
30 6 0.09
31 43 0.63
32 19 0.28
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATAATAAATGAAA
Found at i:11068578 original size:15 final size:16
Alignment explanation
Indices: 11068557--11068610 Score: 74
Period size: 15 Copynumber: 3.3 Consensus size: 16
11068547 TTAGAATTGC
11068557 TATTTTTAGTGTTTGT
1 TATTTTTAGTGTTTGT
*
11068573 TATTTTTA-TGTTTGC
1 TATTTTTAGTGTTTGT
11068588 TATTTTTAAGTGTTTTGT
1 TATTTTT-AGTG-TTTGT
11068606 TATTT
1 TATTT
11068611 GAATTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 13 0.39
16 9 0.27
17 2 0.06
18 9 0.27
ACGTcount: A:0.15, C:0.02, G:0.15, T:0.69
Consensus pattern (16 bp):
TATTTTTAGTGTTTGT
Found at i:11068728 original size:30 final size:30
Alignment explanation
Indices: 11068692--11068748 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
11068682 TTGAATAATA
11068692 TTCATCAATTCAGTTTTCTTTTCTTTTATC
1 TTCATCAATTCAGTTTTCTTTTCTTTTATC
*
11068722 TTCATCAGTTCAGTTTTCTTTTCTTTT
1 TTCATCAATTCAGTTTTCTTTTCTTTT
11068749 CTGATAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.14, C:0.19, G:0.05, T:0.61
Consensus pattern (30 bp):
TTCATCAATTCAGTTTTCTTTTCTTTTATC
Found at i:11072762 original size:46 final size:46
Alignment explanation
Indices: 11072695--11072869 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
11072685 TGTAACCCAC
11072695 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
11072741 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * ** *
11072791 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
11072834 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
11072870 ATACTCAACC
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 63 0.58
47 26 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:11072815 original size:93 final size:93
Alignment explanation
Indices: 11072703--11072871 Score: 293
Period size: 93 Copynumber: 1.8 Consensus size: 93
11072693 ACCCATAAGT
** *
11072703 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11072768 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
11072796 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11072861 CGAGTTCGGAT
66 CGAGCTCGGAT
11072872 ACTCAACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:11075182 original size:197 final size:196
Alignment explanation
Indices: 11074847--11075241 Score: 745
Period size: 197 Copynumber: 2.0 Consensus size: 196
11074837 ACATCTTCGC
*
11074847 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGTTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
11074912 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAATAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAATAGCCTAAAGGTTTTACGAAGAAAATGAG
11074977 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGGAGCTTG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAA-GAGCTTG
11075042 GT
195 GT
11075044 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
1 ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
*
11075109 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAGTAGCCTAAAGGTTTTACGAAGAAAATGAG
66 TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAATAGCCTAAAGGTTTTACGAAGAAAATGAG
* *
11075174 AGGAAGACAAGTTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
131 AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
11075239 T
196 T
11075240 AC
1 AC
11075242 AGTAAGATAG
Statistics
Matches: 194, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
196 11 0.06
197 183 0.94
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (196 bp):
ACCAGTTGTTCATTTGGACACCATAAGACTTTTAAGTGTATCAGCTTGATGTAAAATTAGCTTTT
TTAAATGGCACTTTGTAGGAAGAAATTTATGTTGAATAGCCTAAAGGTTTTACGAAGAAAATGAG
AAGAAGACAAGCTGTTTCTTCTTAATAAGGCTCTTTATGGGCTGAAACAAGCTCCAAGAGCTTGG
T
Found at i:11076298 original size:16 final size:17
Alignment explanation
Indices: 11076277--11076308 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11076267 TTTAGGACTC
11076277 CTATTTTTA-GTGTTTG
1 CTATTTTTAGGTGTTTG
11076293 CTATTTTTAGGTGTTT
1 CTATTTTTAGGTGTTT
11076309 TGTTATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.19, T:0.62
Consensus pattern (17 bp):
CTATTTTTAGGTGTTTG
Found at i:11083191 original size:46 final size:46
Alignment explanation
Indices: 11083124--11083214 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
11083114 TATATATATA
* *
11083124 TATATTTGTATTCTTGTTTTGGTCATCTAATTTTAAAAATTTTAAG
1 TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAAG
* *
11083170 TATATTTGTGTTCTTGTTTTGGTCATCCCATTTTAAAAAATTTAA
1 TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAA
11083215 TTTAGGTACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (46 bp):
TATATTTGTATTCTTGTTTTGGTCATCCAATTTTAAAAAATTTAAG
Found at i:11083566 original size:20 final size:19
Alignment explanation
Indices: 11083533--11083570 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11083523 TTTTAATTTA
11083533 ATAATAATTAAAATATTTTT
1 ATAATAATTAAAAT-TTTTT
11083553 ATAACTAATT-AAATTTTT
1 ATAA-TAATTAAAATTTTT
11083571 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
ATAATAATTAAAATTTTTT
Found at i:11092796 original size:13 final size:13
Alignment explanation
Indices: 11092778--11092802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11092768 GCTGATTCTC
11092778 TTTTTTTTTTGGT
1 TTTTTTTTTTGGT
11092791 TTTTTTTTTTGG
1 TTTTTTTTTTGG
11092803 GGGGGGGCTT
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:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTGGT
Found at i:11094984 original size:12 final size:12
Alignment explanation
Indices: 11094967--11094991 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11094957 GGGAAGAAAG
11094967 TTGATGGCCAGA
1 TTGATGGCCAGA
11094979 TTGATGGCCAGA
1 TTGATGGCCAGA
11094991 T
1 T
11094992 AATTCTTTAC
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:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGATGGCCAGA
Found at i:11099249 original size:52 final size:51
Alignment explanation
Indices: 11099169--11099373 Score: 245
Period size: 52 Copynumber: 3.9 Consensus size: 51
11099159 ATGGAATAGA
11099169 TGTGATATGTG-TGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
1 TGTGATATGTGCT--CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
* *
11099221 TATGATATGTGCATCCATATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
1 TGTGATATGTGC-TCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
* *
11099273 TGTGATATGTACTCTCGTATAAGACCATGGCTGGGCTATGGCATCGGT--AT
1 TGTGATATGTGCTC-CGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
** * *
11099323 GATGTGATAATGTGCCTCCGTATAAGACCATATATAGGATATGGCATCGGT
1 --TGTGAT-ATGTG-CTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
11099374 ATGATATGTG
Statistics
Matches: 134, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
50 2 0.01
51 2 0.01
52 94 0.70
53 32 0.24
54 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGATATGTGCTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
Found at i:11105068 original size:31 final size:31
Alignment explanation
Indices: 11105033--11105097 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
11105023 CGTGAAAGAA
11105033 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
*
11105064 AGTTTTACGGTTTGGTAGAAAGGGAAAGCTT
1 AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
11105095 AGT
1 AGT
11105098 CCATGATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.32
Consensus pattern (31 bp):
AGTTTTACAGTTTGGTAGAAAGGGAAAGCTT
Found at i:11106890 original size:52 final size:52
Alignment explanation
Indices: 11106812--11107017 Score: 191
Period size: 52 Copynumber: 3.9 Consensus size: 52
11106802 ACGAAGTAGA
* * *
11106812 TGTGATATGTGCACCCTTATAAGACCATAGCTGAGCTTTGGCATTGGTACAT
1 TGTGATATGTGCACCCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAT
* * *
11106864 TGTGATATGTGCGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAT
1 TGTGATATGTGCACCCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAT
* *** * * * * * * *
11106916 TGTGATATATATTCCTGTATAAGACCATGGTTGGGCTATGGCTTCAGTATGA-
1 TGTGATATGTGCACCCGTATAAGACCATAGCTGAGCTATGGCATCGGTA-CAT
* * *
11106968 TGTGATAATGTGC-CTCCGTATAAGACCATATCTGGGATATGGCATCGGTA
1 TGTGAT-ATGTGCAC-CCGTATAAGACCATAGCTGAGCTATGGCATCGGTA
11107018 TGATATGTGA
Statistics
Matches: 124, Mismatches: 27, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
52 92 0.74
53 32 0.26
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (52 bp):
TGTGATATGTGCACCCGTATAAGACCATAGCTGAGCTATGGCATCGGTACAT
Found at i:11111007 original size:16 final size:16
Alignment explanation
Indices: 11110988--11111020 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11110978 TTTTATATAA
11110988 TTCTATGTAAATATTT
1 TTCTATGTAAATATTT
*
11111004 TTCTATGTATATATTT
1 TTCTATGTAAATATTT
11111020 T
1 T
11111021 CCTCTAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
TTCTATGTAAATATTT
Found at i:11111733 original size:13 final size:13
Alignment explanation
Indices: 11111715--11111748 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11111705 TGCCATGTTA
11111715 ATTATTGTTGTAT
1 ATTATTGTTGTAT
*
11111728 ATTATTTTTGTAT
1 ATTATTGTTGTAT
11111741 -TTATTGTT
1 ATTATTGTT
11111749 CACCATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (13 bp):
ATTATTGTTGTAT
Found at i:11113725 original size:40 final size:40
Alignment explanation
Indices: 11113681--11113762 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
11113671 TTTATAAAAA
11113681 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
1 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
11113721 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
1 AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
11113761 AA
1 AA
11113763 CTTTGAAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (40 bp):
AAAATAATGTCTTCATAAAGTGCTTTAAAAGGTGGAGTTT
Found at i:11121482 original size:15 final size:16
Alignment explanation
Indices: 11121462--11121491 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11121452 TCTCCTTGAA
11121462 TTTTGAAT-TTTTATT
1 TTTTGAATATTTTATT
11121477 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
11121492 GGTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTTGAATATTTTATT
Found at i:11122285 original size:26 final size:25
Alignment explanation
Indices: 11122242--11122297 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
11122232 TCATTATTTT
*
11122242 ATATTGTTTTTTTGTTTT-TTAATAAA
1 ATATTATTTTTTTGTTTTATT-A-AAA
11122268 ATATTATTTTTTAT-TTTTATTAAAA
1 ATATTATTTTTT-TGTTTTATTAAAA
11122293 ATATT
1 ATATT
11122298 TAAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.30
26 16 0.59
27 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (25 bp):
ATATTATTTTTTTGTTTTATTAAAA
Found at i:11122838 original size:33 final size:32
Alignment explanation
Indices: 11122795--11122901 Score: 82
Period size: 33 Copynumber: 3.4 Consensus size: 32
11122785 GTTTTTTATA
*
11122795 ATTATTTTAAAAATAATTTGTTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* *
11122828 ATTATGTT-AAAAT--TTTTT-GT-GTTT-GTA
1 ATTATGTTAAAAATAATTTTTAGTAATTTAG-G
* *
11122855 ATTATATTAAAATTAATTTATTAGTAATTTAGG
1 ATTATGTTAAAAATAATTT-TTAGTAATTTAGG
* *
11122888 ATTAAGTTATAAAT
1 ATTATGTTAAAAAT
11122902 TGTTGTGTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
26 1 0.02
27 10 0.18
28 6 0.11
29 2 0.04
30 6 0.11
31 2 0.04
32 7 0.13
33 20 0.36
34 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.50
Consensus pattern (32 bp):
ATTATGTTAAAAATAATTTTTAGTAATTTAGG
Found at i:11122872 original size:60 final size:61
Alignment explanation
Indices: 11122779--11122912 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 61
11122769 GAATGTAATT
* * * *
11122779 TTTTTTGTTTTTTATAATTATTTTAAAAATAATTTGTTAGTAATTTAGGATTATGTTA-AAA
1 TTTTTTG-TGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
* *
11122840 TTTTTTGTGTTTGTAATTATATTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAA
1 TTTTTTGTGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
*
11122901 -TTGTTGTGTTTA
1 TTTTTTGTGTTTA
11122913 GTTTAGTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
60 54 0.84
61 10 0.16
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (61 bp):
TTTTTTGTGTTTATAATTATATTAAAAATAATTTATTAGTAATTTAGGATTAAGTTATAAA
Found at i:11128357 original size:132 final size:132
Alignment explanation
Indices: 11128120--11128408 Score: 393
Period size: 132 Copynumber: 2.2 Consensus size: 132
11128110 TAAGTATCCA
11128120 TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATTCGCGAAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATTCGCGAAATAGTGCCCTAAC
* * * * *
11128185 GTGTTGGGTTGCAATTTCACGTTTGCTCAAAATAATCGAATGTCCTTTCAATATTTCATTCATGC
66 ATGTTGGGTTGCAATTTCACGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
11128250 CT
131 CT
** * *
11128252 TTTAAAAATTCTTTAAAACGAAGGCGATGTGC-GATATTT-AGCAATTCGCGGAATCGTGCCCTA
1 TTTAAAAATTCTTTAAAACGAAGGCGAAAT-CTGATATTTGA-CAATTCGCGAAATAGTGCCCTA
** * *
11128315 ACATGTTGGGTTGCAATTTCGTGTTCGCTTAAAATAATCGAATATCCCTTCAAAATTTCATTTAT
64 ACATGTTGGGTTGCAATTTCACGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCAT
*
11128380 GTCT
129 GCCT
* * *
11128384 TCTAAAAATTATTTAAAACAAAGGC
1 TTTAAAAATTCTTTAAAACGAAGGC
11128409 AATATTCGGC
Statistics
Matches: 138, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
131 1 0.01
132 136 0.99
133 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCGAAATCTGATATTTGACAATTCGCGAAATAGTGCCCTAAC
ATGTTGGGTTGCAATTTCACGTTCGCTCAAAATAATCGAATATCCCTTCAAAATTTCATTCATGC
CT
Found at i:11138037 original size:53 final size:53
Alignment explanation
Indices: 11137957--11138064 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
11137947 CCTAAGTTGA
11137957 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
*
11138010 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCGACGACATTACC
1 TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
11138063 TT
1 TT
11138065 CCACTACCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (53 bp):
TTGATTATCGAAAACTGGTCCTTGAATTGGTCAAAGAGTTCAACGACATTACC
Found at i:11140460 original size:44 final size:44
Alignment explanation
Indices: 11140399--11140801 Score: 574
Period size: 44 Copynumber: 9.2 Consensus size: 44
11140389 TGGCGAATCC
* * * *
11140399 AGCAAATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAATAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
*
11140443 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * * *
11140487 AGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * **
11140531 AGCAGATTTGGCGTCTCTATATTGGTAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
11140575 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * *
11140619 AGCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * * *
11140663 AGTAGATTTGGCGTCTCTGTATTGGCGAAGAGCAGATCAAATAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
*
11140707 AGCAGATTTGGCATATCTGTATTGGCGGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
* * *
11140751 AGCAGATTTGACATCTCTG-ATGGGCGGAGAACAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
*
11140794 AACAGATT
1 AGCAGATT
11140802 GGTGTTCCCG
Statistics
Matches: 321, Mismatches: 38, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
43 29 0.09
44 292 0.91
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCAAAGAT
Found at i:11143888 original size:132 final size:132
Alignment explanation
Indices: 11143651--11143941 Score: 399
Period size: 132 Copynumber: 2.2 Consensus size: 132
11143641 TAAGTATCCA
11143651 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
1 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
* * *
11143716 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATGTCCCTTCAAGA-TTTCATTCATG
66 GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAA-ATTTTCATTCATG
11143780 CCT
130 CCT
* ** * * *
11143783 TTTAAAAATTCTTTAAAACGAAGGCGATGTGCGATATTT-AGCAATTCGCGGAATCGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGA-CAATTCGCAGAATAGTGCCCTAA
* * *
11143847 CGTGTTGGGTTGCAATTCCGTGTTCGCTTAAAATAATCGAATATCCCTTCAAATTTTCATTTATG
65 CGTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAATTTTCATTCATG
*
11143912 TCT
130 CCT
* *
11143915 TCTAAAAATTATTTAAAA-GAAAGGCAA
1 TTTAAAAATTCTTTAAAACG-AAGGCAA
11143942 TATTCGGCGT
Statistics
Matches: 140, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
131 3 0.02
132 137 0.98
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGGCAAAATCCGATATTTGACAATTCGCAGAATAGTGCCCTAAC
GTGTTGGGTTGCAATTCCGCGTTCGCTCAAAATAATCGAATATCCCTTCAAATTTTCATTCATGC
CT
Found at i:11144303 original size:130 final size:130
Alignment explanation
Indices: 11144065--11144303 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 130
11144055 AAATACTTAA
* *
11144065 AAAACGAAGACAATGTTCAATGTTTGGCAATTTGAGAATCGTGCCCTACCATGCTGGGTCGCGCT
1 AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCGCGCT
* * *
11144130 TTTTCATTGGTCCGAAACAATTAAAGATCCCTTCAGAATTTCACTCACATTTTCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCAAAGATCCCTTCAGAAGTTCACTCACATTTTCTAAAATCTTTC
* * * * * *
11144195 AAAATGAAGACGATATTCAATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCGCGCT
* * * * *
11144260 TTTTCATTTGTCCAAAATAATCGAATATCTCCTT-GGAAGTTCAC
66 TTTTCATTGGTCCAAAACAATCAAAGATC-CCTTCAGAAGTTCAC
11144304 ACGTATTTTA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
130 88 0.96
131 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (130 bp):
AAAACGAAGACAATATTCAATGTTTGGCAATTTGAGAATCGAGCCCTACCATGCTGGGTCGCGCT
TTTTCATTGGTCCAAAACAATCAAAGATCCCTTCAGAAGTTCACTCACATTTTCTAAAATCTTTC
Found at i:11147405 original size:27 final size:27
Alignment explanation
Indices: 11147373--11147450 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
11147363 ACGTATGGGC
*
11147373 ACCATTTGCGCCTCTGGGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
11147400 ACCATTTGCGCCTCTGAGATAGGCACA
1 ACCATTTGCGCCTCTGAGATAGGCACA
* *
11147427 ACCATTTGCGCCTCAGAGAAAGGC
1 ACCATTTGCGCCTCTGAGATAGGC
11147451 TCGATTAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (27 bp):
ACCATTTGCGCCTCTGAGATAGGCACA
Found at i:11157067 original size:15 final size:14
Alignment explanation
Indices: 11157048--11157082 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11157038 TCAAAAATAG
*
11157048 AAAATTCAAAGAAA
1 AAAATTAAAAGAAA
11157062 ATAAATTAAAAGAAA
1 A-AAATTAAAAGAAA
11157077 AAAATT
1 AAAATT
11157083 TATTTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.20
Consensus pattern (14 bp):
AAAATTAAAAGAAA
Found at i:11159049 original size:147 final size:148
Alignment explanation
Indices: 11158781--11159153 Score: 562
Period size: 147 Copynumber: 2.6 Consensus size: 148
11158771 ACTTTTAGAG
* *
11158781 TTTGATTTTTATGCATCTAATTTTATCACTAGCTATAAATTTACATCAGCTGGTCAAACACCAAC
1 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
11158846 TATTTGCCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
66 TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
11158911 TCCAACGTGGAGGCAGAA
131 TCCAACGTGGAGGCAGAA
11158929 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACT-GTCAAACACC-AC
1 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
11158992 TTATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
66 -TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCC
*
11159057 CTCCAATGTGGAGGCAGAA
130 CTCCAACGTGGAGGCAGAA
* *
11159076 TTTGA-TTT--TG------A---TA-CACTAGCTATAAATTTACATCAGCTGGTCAAACACCACC
1 TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
*
11159128 TATTTACCTCGTAAAA-AATCATAAGA
66 TATTTACCTTGTAAAACAATCATAAGA
11159154 CCACCTATTT
Statistics
Matches: 215, Mismatches: 7, Indels: 20
0.89 0.03 0.08
Matches are distributed among these distances:
134 34 0.16
135 27 0.13
136 1 0.00
138 1 0.00
144 2 0.01
146 5 0.02
147 96 0.45
148 49 0.23
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (148 bp):
TTTGATTTTGATGCATCTAATTTTATCACTAGCTATAAATTTACATCAACTGGTCAAACACCAAC
TATTTACCTTGTAAAACAATCATAAGAAATCATCACACTTTCAACTATTATTAAACTTATCTCCC
TCCAACGTGGAGGCAGAA
Found at i:11159158 original size:31 final size:32
Alignment explanation
Indices: 11159122--11159185 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
11159112 CTGGTCAAAC
11159122 ACCACCTATTTACCTCGTAAAA-AATCATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
*
11159153 ACCACCTATTTACCTCGTAAAACAATTATAAG
1 ACCACCTATTTACCTCGTAAAACAATCATAAG
11159185 A
1 A
11159186 AATCATCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 22 0.71
32 9 0.29
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (32 bp):
ACCACCTATTTACCTCGTAAAACAATCATAAG
Found at i:11160655 original size:62 final size:62
Alignment explanation
Indices: 11160565--11160699 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 62
11160555 AGTGTGTGTT
* * * * *
11160565 CGGGCTGTATAACTCACTGTTTATGGTATAAGACCACACGACCAGAGACACGGGCGTGTGCC
1 CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGAGACACGGGCGTGTACC
** * ** *
11160627 TTGGCCGTGTAACTCACTATTTATGGTATAAAACCATACGGTCAGGGACACGGGCGTGTACC
1 CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGAGACACGGGCGTGTACC
11160689 CGGGCCGTGTA
1 CGGGCCGTGTA
11160700 CCCGGGCTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (62 bp):
CGGGCCGTGTAACTCACTATTTATGGTATAAAACCACACGACCAGAGACACGGGCGTGTACC
Found at i:11160699 original size:13 final size:13
Alignment explanation
Indices: 11160677--11160711 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
11160667 GTCAGGGACA
11160677 CGGG-CGTGTACC
1 CGGGCCGTGTACC
11160689 CGGGCCGTGTACC
1 CGGGCCGTGTACC
*
11160702 CGGGCTGTGT
1 CGGGCCGTGT
11160712 GATTCATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.06, C:0.31, G:0.43, T:0.20
Consensus pattern (13 bp):
CGGGCCGTGTACC
Found at i:11162944 original size:26 final size:24
Alignment explanation
Indices: 11162913--11162961 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11162903 AATAAAAAAT
*
11162913 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAAT-AAATATA
11162939 TTTAAAAACATAAAAATAAATAT
1 TTTAAAAACATAAAAATAAATAT
11162962 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 4 0.18
26 12 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAACATAAAAATAAATATA
Found at i:11162981 original size:21 final size:22
Alignment explanation
Indices: 11162948--11162990 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
11162938 ATTTAAAAAC
* *
11162948 ATAAAAATAAATATTAAGACAA
1 ATAAAAATAAATACTAAAACAA
11162970 ATAAAAAT-AATACTAAAACAA
1 ATAAAAATAAATACTAAAACAA
11162991 TTCTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
ATAAAAATAAATACTAAAACAA
Found at i:11165498 original size:40 final size:40
Alignment explanation
Indices: 11165443--11165566 Score: 187
Period size: 40 Copynumber: 3.1 Consensus size: 40
11165433 AGTTTTGTAC
* * *
11165443 ATAGCCGAAGCTATCTCAAATCGCACACTTAGTGCCATAT
1 ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
* *
11165483 ATAGCTGAAGTTATCTCGAATCGCATACTAAGTGCCATAT
1 ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
11165523 ATAGCCGAA-TCTATCTCGAATCGCACACTAAGTGCCATAT
1 ATAGCCGAAGT-TATCTCGAATCGCACACTAAGTGCCATAT
11165563 ATAG
1 ATAG
11165567 TCGATTTGTC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (40 bp):
ATAGCCGAAGTTATCTCGAATCGCACACTAAGTGCCATAT
Found at i:11165582 original size:40 final size:39
Alignment explanation
Indices: 11165454--11165583 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
11165444 TAGCCGAAGC
* * *
11165454 TATCTCAAATCGCACACTTAGTGCCATATATAGCTGAAGT
1 TATCTCGAATCGCACACTAAGTGCCATATATAGC-GAATT
* *
11165494 TATCTCGAATCGCATACTAAGTGCCATATATAGCCGAATC
1 TATCTCGAATCGCACACTAAGTGCCATATATAG-CGAATT
11165534 TATCTCGAATCGCACACTAAGTGCCATATATAGTCG-ATT
1 TATCTCGAATCGCACACTAAGTGCCATATATAG-CGAATT
*
11165573 TGTCTTCGAAT
1 TATC-TCGAAT
11165584 ATAACTGTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 5 0.06
40 73 0.92
41 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (39 bp):
TATCTCGAATCGCACACTAAGTGCCATATATAGCGAATT
Found at i:11168811 original size:21 final size:21
Alignment explanation
Indices: 11168746--11168812 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
11168736 GAGGACAAGG
*
11168746 TCGTGTGACTAAAACACA-GC
1 TCGTGTGGCTAAAACACACGC
* * * * *
11168766 CCGTGTGGCTAAGATATACGG
1 TCGTGTGGCTAAAACACACGC
11168787 TCGTGTGGCTAAAACACACGC
1 TCGTGTGGCTAAAACACACGC
11168808 TCGTG
1 TCGTG
11168813 CGCGATTGAA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (21 bp):
TCGTGTGGCTAAAACACACGC
Found at i:11170568 original size:14 final size:14
Alignment explanation
Indices: 11170536--11170578 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
11170526 ATAGTTGTGG
11170536 ATAACTAATTACAA
1 ATAACTAATTACAA
*
11170550 ATAAC-AATTATAA
1 ATAACTAATTACAA
11170563 AGTAACTAATTA-AA
1 A-TAACTAATTACAA
11170577 AT
1 AT
11170579 TGATAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
ATAACTAATTACAA
Found at i:11179433 original size:33 final size:32
Alignment explanation
Indices: 11179394--11179457 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
11179384 TAGCAAAATT
* *
11179394 AACAACAGAATAATAATTATACAATATCCAAAC
1 AACAACAAAATAATAATAATACAATA-CCAAAC
* *
11179427 AACAACAAAATAGTAATAATATAATACCAAA
1 AACAACAAAATAATAATAATACAATACCAAA
11179458 ATGATAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.61, C:0.16, G:0.03, T:0.20
Consensus pattern (32 bp):
AACAACAAAATAATAATAATACAATACCAAAC
Found at i:11182893 original size:51 final size:51
Alignment explanation
Indices: 11182813--11182915 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
11182803 ACAAATCAGA
*
11182813 ATGAATATACTCCAATATTCTCTTTGTGTTATGGATTTCTCTGGTGAATCT
1 ATGAATATACTCCAATATTCTCTTCGTGTTATGGATTTCTCTGGTGAATCT
11182864 ATGAATATACTCCAATATTCTCTTCGTGTTATGGATTTCTCTGGTGAATCT
1 ATGAATATACTCCAATATTCTCTTCGTGTTATGGATTTCTCTGGTGAATCT
11182915 A
1 A
11182916 ACTCTCTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (51 bp):
ATGAATATACTCCAATATTCTCTTCGTGTTATGGATTTCTCTGGTGAATCT
Found at i:11190569 original size:16 final size:17
Alignment explanation
Indices: 11190533--11190569 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
11190523 TTGTATTTAA
11190533 ATAA-TAATATAAAATC
1 ATAATTAATATAAAATC
11190549 A-AATTAATATAAAAT-
1 ATAATTAATATAAAATC
11190564 ATAATT
1 ATAATT
11190570 GTTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATTAATATAAAATC
Found at i:11201815 original size:18 final size:18
Alignment explanation
Indices: 11201784--11201844 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
11201774 AAAAATTATT
*
11201784 AAAATTATTAAAAAATAGAA
1 AAAATTA-T-AAAAATACAA
*
11201804 AAAATTATAAAATTACAA
1 AAAATTATAAAAATACAA
*
11201822 AACAA-TAT-AAAATATAA
1 AA-AATTATAAAAATACAA
11201839 AAAATT
1 AAAATT
11201845 TCTAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.06
17 10 0.29
18 13 0.37
19 3 0.09
20 7 0.20
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAATTATAAAAATACAA
Found at i:11201828 original size:28 final size:29
Alignment explanation
Indices: 11201773--11201833 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
11201763 AAAAATTACA
*
11201773 AAAAAATTATTAAAATTATTAAAAAATAG
1 AAAAAATTATTAAAATTATCAAAAAATAG
*
11201802 AAAAAATTA-TAAAATTA-CAAAACAATAT
1 AAAAAATTATTAAAATTATCAAAA-AATAG
11201830 AAAA
1 AAAA
11201834 TATAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 4 0.14
28 16 0.55
29 9 0.31
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (29 bp):
AAAAAATTATTAAAATTATCAAAAAATAG
Found at i:11202189 original size:19 final size:19
Alignment explanation
Indices: 11202167--11202205 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11202157 ATATTTAGCA
*
11202167 TTTTTATACTTTTATAATT
1 TTTTTATAATTTTATAATT
*
11202186 TTTTTGTAATTTTATAATT
1 TTTTTATAATTTTATAATT
11202205 T
1 T
11202206 ATCCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTATAATT
Found at i:11202311 original size:12 final size:11
Alignment explanation
Indices: 11202284--11202313 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11202274 TTTTTTTTGT
11202284 AATTTTTAAAG
1 AATTTTTAAAG
11202295 AATTTTTAAAG
1 AATTTTTAAAG
11202306 ATATTTTT
1 A-ATTTTT
11202314 GAATGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (11 bp):
AATTTTTAAAG
Found at i:11202491 original size:27 final size:27
Alignment explanation
Indices: 11202453--11202514 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
11202443 GGATTGGAAT
*
11202453 GGGTAAAAGAACTTTAAGGACTAAAGC
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
11202480 GGGTAAAAGAACTTTAAGGACCAAAGT
1 GGGTAAAAGAACTTTAAGGACCAAAGC
*
11202507 GGGAAAAA
1 GGGTAAAA
11202515 CAGTATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.47, C:0.10, G:0.27, T:0.16
Consensus pattern (27 bp):
GGGTAAAAGAACTTTAAGGACCAAAGC
Found at i:11213142 original size:13 final size:13
Alignment explanation
Indices: 11213121--11213178 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
11213111 AAATTTTTCC
11213121 AAAGCACTTCTCA
1 AAAGCACTTCTCA
*
11213134 AAAGTACTTCTCA
1 AAAGCACTTCTCA
* *
11213147 AAAGCACTTTTCC
1 AAAGCACTTCTCA
* *
11213160 ACAGCACTTTTCA
1 AAAGCACTTCTCA
11213173 AAAGCA
1 AAAGCA
11213179 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:11224797 original size:43 final size:42
Alignment explanation
Indices: 11224719--11224800 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
11224709 TATGGGACAT
* * *
11224719 TGGCATCGTATATGATTTCGTGTAAGACCCTGTCTGGGATAG
1 TGGCATCGTATATGATTACATATAAGACCCTGTCTGGGATAG
*
11224761 TGGCATCGATATTTGATTACATATAAGACCAC-GTCTGGGA
1 TGGCATCG-TATATGATTACATATAAGACC-CTGTCTGGGA
11224801 CGTTGGAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.24
43 25 0.74
44 1 0.03
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGGCATCGTATATGATTACATATAAGACCCTGTCTGGGATAG
Found at i:11234170 original size:13 final size:13
Alignment explanation
Indices: 11234152--11234176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11234142 GGTTTGTTTA
11234152 TTAAACTAATTAT
1 TTAAACTAATTAT
11234165 TTAAACTAATTA
1 TTAAACTAATTA
11234177 ACTAATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:11236960 original size:6 final size:5
Alignment explanation
Indices: 11236931--11237027 Score: 83
Period size: 6 Copynumber: 18.4 Consensus size: 5
11236921 TATGTCTTTC
* *
11236931 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
11236979 AAAAAT AAAAT -AAAT AAAAT AGAAAT AAAAT AAAAAT AAAAT AAAAT
1 -AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT -AAAAT AAAAT AAAAT
11237026 AA
1 AA
11237028 TAGGAGGATT
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.04
4 4 0.05
5 34 0.44
6 36 0.47
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11237541 original size:44 final size:45
Alignment explanation
Indices: 11237475--11237567 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 45
11237465 GATGTTGAAG
11237475 AGGCCGAAGTTAGTCACGTGTGCATTCGACATGCACATAAATAGT
1 AGGCCGAAGTTAGTCACGTGTGCATTCGACATGCACATAAATAGT
*
11237520 AGGCC-AAGTTAGTCACTTGTGCATTCGACATGCACATAAATAGT
1 AGGCCGAAGTTAGTCACGTGTGCATTCGACATGCACATAAATAGT
11237564 AGGC
1 AGGC
11237568 GTCGTGGGTG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 42 0.89
45 5 0.11
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (45 bp):
AGGCCGAAGTTAGTCACGTGTGCATTCGACATGCACATAAATAGT
Found at i:11240304 original size:24 final size:24
Alignment explanation
Indices: 11240252--11240393 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
11240242 GCTTTATCAT
*
11240252 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
11240277 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
11240301 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
11240324 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
11240348 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11240371 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11240394 TCACTTCCTC
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
23 42 0.41
24 49 0.48
25 12 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11240328 original size:47 final size:47
Alignment explanation
Indices: 11240251--11240394 Score: 209
Period size: 47 Copynumber: 3.0 Consensus size: 47
11240241 TGCTTTATCA
* *
11240251 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTTT
*
11240300 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
* *
11240347 GATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
11240394 T
1 T
11240395 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
47 69 0.79
48 5 0.06
49 13 0.15
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:11240331 original size:23 final size:23
Alignment explanation
Indices: 11240273--11240392 Score: 177
Period size: 23 Copynumber: 5.1 Consensus size: 23
11240263 CCTAGCCTCT
*
11240273 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
11240296 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11240320 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
11240343 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11240367 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11240390 TTT
1 TTT
11240393 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
23 45 0.52
24 41 0.48
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11240471 original size:20 final size:20
Alignment explanation
Indices: 11240443--11240509 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
11240433 TTATGAATAC
11240443 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
11240463 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
11240483 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
11240503 ACCATGT
1 ATCATGT
11240510 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:11259883 original size:34 final size:34
Alignment explanation
Indices: 11259844--11259912 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11259834 ATTGTCCAAA
11259844 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
1 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
11259878 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
1 TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
11259912 T
1 T
11259913 ACTTTTTGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (34 bp):
TCATTCAGTTTTCCAAAAAGTTATTTCCCCAATT
Found at i:11265618 original size:17 final size:17
Alignment explanation
Indices: 11265569--11265660 Score: 66
Period size: 17 Copynumber: 5.5 Consensus size: 17
11265559 AGTAAATGAA
*
11265569 AGAAAAAGGAATGAAAT
1 AGAAAAAGGAAAGAAAT
*
11265586 A-AAAGAAAGAAAGAAAT
1 AGAAA-AAGGAAAGAAAT
* * *
11265603 AGAATAAGGAACGAAAC
1 AGAAAAAGGAAAGAAAT
* * *
11265620 AG-AGAAGGAAGGAAAG
1 AGAAAAAGGAAAGAAAT
11265636 A-AAGAAAGGAAAGAAA-
1 AGAA-AAAGGAAAGAAAT
11265652 AGAAAAAGG
1 AGAAAAAGG
11265661 GAAAATTAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
16 22 0.37
17 35 0.59
18 2 0.03
ACGTcount: A:0.66, C:0.02, G:0.27, T:0.04
Consensus pattern (17 bp):
AGAAAAAGGAAAGAAAT
Found at i:11266366 original size:26 final size:24
Alignment explanation
Indices: 11266336--11266385 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
11266326 AAATAAAAAA
*
11266336 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
11266362 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
11266386 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:11266405 original size:21 final size:20
Alignment explanation
Indices: 11266325--11266414 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 20
11266315 CTTATTTCAT
11266325 TAAATAAAAAAAT-TTAAAAA
1 TAAATAAAAAAATATT-AAAA
11266345 TATAATAAATCAAATATATTTAAAA
1 TA-AATAAA--AAA-ATA-TTAAAA
*
11266370 -ACATAAAAACAAATATTAAAA
1 TAAAT-AAAA-AAATATTAAAA
*
11266391 TAAATAAAAATAATACTAAAA
1 TAAATAAAAA-AATATTAAAA
11266412 TAA
1 TAA
11266415 TTCTTAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
20 3 0.05
21 28 0.49
22 7 0.12
23 7 0.12
24 6 0.11
25 4 0.07
26 2 0.04
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAATAAAAAAATATTAAAA
Found at i:11267264 original size:6 final size:6
Alignment explanation
Indices: 11267250--11267279 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11267240 TATGTACCGC
*
11267250 TACTGT TACTAT TACTGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT
11267280 GTATCCTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TACTGT
Found at i:11267408 original size:18 final size:18
Alignment explanation
Indices: 11267385--11267432 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
11267375 CAAAAAAAGG
11267385 TACTGAAAAATTGACTAC
1 TACTGAAAAATTGACTAC
* * **
11267403 TACTGAATATTTGACTGT
1 TACTGAAAAATTGACTAC
11267421 TACTGAATAAAT
1 TACTGAA-AAAT
11267433 GATTGACTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TACTGAAAAATTGACTAC
Found at i:11267467 original size:24 final size:22
Alignment explanation
Indices: 11267421--11267467 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
11267411 ATTTGACTGT
* *
11267421 TACTGAATAAATGATTGACTGA
1 TACTGAATAAATGATTAAATGA
11267443 TACTGAATAATAATGATTAAATGA
1 TACTGAAT-A-AATGATTAAATGA
11267467 T
1 T
11267468 TGTTATTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 1 0.05
24 12 0.57
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (22 bp):
TACTGAATAAATGATTAAATGA
Found at i:11275491 original size:47 final size:48
Alignment explanation
Indices: 11275314--11275489 Score: 207
Period size: 49 Copynumber: 3.6 Consensus size: 48
11275304 GGATAAGTTA
* *
11275314 CCGATGCCATGTCCCAAACATGGTCTTACACTAGTTATCATCATCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
* * * *
11275363 CCGATGCCATGTCCCTGACATGGTCTTGCACTAGCTGTCTTAT-ATACG-TG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTATC--ATCAT-CGAGG
*
11275413 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
*
11275460 CCAATGCATGTCCCAGACAT-GTCTTACACT
1 CCGATGCATGTCCCAGACATGGTCTTACACT
11275490 GGTACACAAT
Statistics
Matches: 110, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
46 4 0.04
47 32 0.29
48 14 0.13
49 47 0.43
50 9 0.08
51 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCGAGG
Found at i:11287004 original size:35 final size:35
Alignment explanation
Indices: 11286965--11287126 Score: 200
Period size: 35 Copynumber: 4.6 Consensus size: 35
11286955 CATGGAAAAG
* * *
11286965 TGTGAAACTTAGGTATGGTATCATCCATGCCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
11287000 TGTGAAACGTAGATATGGTATTAACCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
* *
11287035 TGTGAAAAGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
** * *
11287070 TAAGAAACATAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAT-CCATACCGAGT
*
11287105 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
11287127 TCAATGAGGA
Statistics
Matches: 106, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
34 1 0.01
35 105 0.99
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTATCCATACCGAGT
Found at i:11287260 original size:31 final size:30
Alignment explanation
Indices: 11287222--11287313 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 30
11287212 ATAAGTAATT
11287222 TGATCAGTGAGAAGTGGTAGCTCCGGCTACC
1 TGATCAGTGA-AAGTGGTAGCTCCGGCTACC
*
11287253 TGATCAGTGAAAAGTGGTAGGTCCGGCTACC
1 TGATCAGTG-AAAGTGGTAGCTCCGGCTACC
*
11287284 TGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 TGATCAGTGAA-AGTGGTAGCTCCGGCTAC
11287314 AAGTGACAAG
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 2 0.04
31 53 0.95
32 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (30 bp):
TGATCAGTGAAAGTGGTAGCTCCGGCTACC
Found at i:11291643 original size:5 final size:5
Alignment explanation
Indices: 11291633--11291660 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
11291623 ATCTTGTAAA
11291633 GATTT GATTT GATTT GATTT GATTT GAT
1 GATTT GATTT GATTT GATTT GATTT GAT
11291661 GTAATCTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (5 bp):
GATTT
Found at i:11299010 original size:13 final size:13
Alignment explanation
Indices: 11298994--11299026 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11298984 TTTAATTAAA
*
11298994 TTAGTTAATTAGT
1 TTAGATAATTAGT
11299007 TTAGATAATTAGT
1 TTAGATAATTAGT
11299020 TTA-ATAA
1 TTAGATAA
11299027 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:11300401 original size:86 final size:86
Alignment explanation
Indices: 11300193--11300436 Score: 289
Period size: 85 Copynumber: 2.8 Consensus size: 86
11300183 AACCAAATGG
* * * *
11300193 TGGCGCCATTTAGAATGGCTACACCAAATAAAATATTATTTTTCAAAAATTTTAAATAAAA-AAA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAAAATA-TATATTT--AAAATATT--ATAAAACAAA
11300257 TAAATTTAAAAAACATTTAAATGAACTAA
61 T-AA--TAAAAAACATTTAAATGAACTAA
* *
11300286 TGGCGCCATTTAGAATGGCTCTACCAAAAAAAATATACATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAAAATATATATTTAAAATATTATAAAACAAATAATA
* *
11300351 AAAAA-AGTTTAAATTAACTGGA
66 AAAAACA-TTTAAATGAACT-AA
*
11300373 -GGCGCCATTTAGAATGGCTCCA-CAAAAAATATATATATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAAAATATATATTTAAAATATTATAAAACAAATAATA
11300436 A
66 A
11300437 TAATAAAAAA
Statistics
Matches: 137, Mismatches: 11, Indels: 14
0.85 0.07 0.09
Matches are distributed among these distances:
85 41 0.30
86 39 0.28
87 1 0.01
88 8 0.06
89 4 0.03
90 7 0.05
92 5 0.04
93 32 0.23
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.29
Consensus pattern (86 bp):
TGGCGCCATTTAGAATGGCTCCACCAAAAAAAATATATATTTAAAATATTATAAAACAAATAATA
AAAAACATTTAAATGAACTAA
Found at i:11300422 original size:85 final size:85
Alignment explanation
Indices: 11300193--11300436 Score: 280
Period size: 86 Copynumber: 2.8 Consensus size: 85
11300183 AACCAAATGG
* * *
11300193 TGGCGCCATTTAGAATGGCTACACCAAATAAAATATTATTTTTCAAAAATTTTAAATAAAA-AAA
1 TGGCGCCATTTAGAATGGCTCCACCAAA-AAAATA-TATATTT--AAAATATT--ATAAAACAAA
11300257 TAAATTTAAAAAACATTTAAATGAACTAA
60 T-AA--TAAAAAACATTTAAATGAACTAA
* *
11300286 TGGCGCCATTTAGAATGGCTCTACCAAAAAAAATATACATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTCCACC-AAAAAAATATATATTTAAAATATTATAAAACAAATAATA
* *
11300351 AAAAA-AGTTTAAATTAACTGGA
65 AAAAACA-TTTAAATGAACT-AA
11300373 -GGCGCCATTTAGAATGGCTCCA-CAAAAAATATATATATTTAAAATATTATAAAACAAATAATA
1 TGGCGCCATTTAGAATGGCTCCACCAAAAAA-ATATATATTTAAAATATTATAAAACAAATAATA
11300436 A
65 A
11300437 TAATAAAAAA
Statistics
Matches: 137, Mismatches: 9, Indels: 18
0.84 0.05 0.11
Matches are distributed among these distances:
84 6 0.04
85 35 0.26
86 39 0.28
87 1 0.01
88 8 0.06
89 4 0.03
90 7 0.05
92 5 0.04
93 29 0.21
94 3 0.02
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.29
Consensus pattern (85 bp):
TGGCGCCATTTAGAATGGCTCCACCAAAAAAATATATATTTAAAATATTATAAAACAAATAATAA
AAAACATTTAAATGAACTAA
Found at i:11302037 original size:43 final size:43
Alignment explanation
Indices: 11301989--11302075 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
11301979 ATATAAAGAA
* *
11301989 AACCCAAAACTTCTGAAGGGAAATTGAGGAGCGATCTTCAGTC
1 AACCCAAAACTTCTGAAAGGAAATTGAGGAGAGATCTTCAGTC
11302032 AACCCAAAACTTCTGAAAGGAAATTGAGGAGAGATCTTCAGTC
1 AACCCAAAACTTCTGAAAGGAAATTGAGGAGAGATCTTCAGTC
11302075 A
1 A
11302076 TGATGATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.21
Consensus pattern (43 bp):
AACCCAAAACTTCTGAAAGGAAATTGAGGAGAGATCTTCAGTC
Found at i:11302453 original size:19 final size:19
Alignment explanation
Indices: 11302420--11302458 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
11302410 TGAGTTCGTA
*
11302420 TTTTGGCCCATTTTCTCTGT
1 TTTTGGCCCAGTTTCT-TGT
11302440 TTTTGGCCC-GTTTCTTGT
1 TTTTGGCCCAGTTTCTTGT
11302458 T
1 T
11302459 CCTTTCGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.03, C:0.23, G:0.18, T:0.56
Consensus pattern (19 bp):
TTTTGGCCCAGTTTCTTGT
Found at i:11302970 original size:12 final size:12
Alignment explanation
Indices: 11302953--11302983 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11302943 CATTTATAGT
*
11302953 CAAATACATCGC
1 CAAATACATCAC
11302965 CAAATACATCAC
1 CAAATACATCAC
11302977 CAAATAC
1 CAAATAC
11302984 TACCTACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.16
Consensus pattern (12 bp):
CAAATACATCAC
Found at i:11303869 original size:26 final size:26
Alignment explanation
Indices: 11303814--11303883 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
11303804 TTTCTCACTA
* * *
11303814 AGCTCACAGCTTTCACA-TCTTGCTG
1 AGCTTACAGCTTGCACATTCTTGCTC
* *
11303839 AGCTTGCAGCTTGCACATTTTTGCTC
1 AGCTTACAGCTTGCACATTCTTGCTC
*
11303865 AGCTTACAACTTGCACATT
1 AGCTTACAGCTTGCACATT
11303884 GGAAAGCTCA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 14 0.38
26 23 0.62
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (26 bp):
AGCTTACAGCTTGCACATTCTTGCTC
Found at i:11319266 original size:7 final size:7
Alignment explanation
Indices: 11319254--11319291 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
11319244 GGAGCTCACA
11319254 TGAAGGC
1 TGAAGGC
11319261 TGAAGGC
1 TGAAGGC
*
11319268 TGGAGGC
1 TGAAGGC
11319275 TGAAGGC
1 TGAAGGC
11319282 TGAAGG-
1 TGAAGGC
11319288 TGAA
1 TGAA
11319292 AGGGTTTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.29, C:0.11, G:0.45, T:0.16
Consensus pattern (7 bp):
TGAAGGC
Done.