Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 50 of 129
Found at i:7058558 original size:19 final size:19
Alignment explanation
Indices: 7058536--7058587 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
7058526 AAAACATTCA
*
7058536 AAGGTTTGCAAAAGATCCC
1 AAGGTTCGCAAAAGATCCC
*
7058555 AAGGTTCACAAAAGATCCC
1 AAGGTTCGCAAAAGATCCC
7058574 AAGGTTCGCAAAAG
1 AAGGTTCGCAAAAG
7058588 TTTCTAAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (19 bp):
AAGGTTCGCAAAAGATCCC
Found at i:7058853 original size:22 final size:22
Alignment explanation
Indices: 7058826--7058916 Score: 66
Period size: 22 Copynumber: 4.2 Consensus size: 22
7058816 TATTCTCAAC
7058826 TAAAAATTCTAAAATTCACATT
1 TAAAAATTCTAAAATTCACATT
* * **
7058848 TGAAAA-T-T--AATCTCTCAAC
1 TAAAAATTCTAAAAT-TCACATT
*
7058867 TAAAAATTC-AAATATTAACATT
1 TAAAAATTCTAAA-ATTCACATT
*
7058889 TAAAAATTCTAGAAATTCACATC
1 TAAAAATTCTA-AAATTCACATT
7058912 TAAAA
1 TAAAA
7058917 TTCAAAGATT
Statistics
Matches: 50, Mismatches: 11, Indels: 15
0.66 0.14 0.20
Matches are distributed among these distances:
18 3 0.06
19 9 0.18
20 2 0.04
21 1 0.02
22 18 0.36
23 15 0.30
24 2 0.04
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAAATTCTAAAATTCACATT
Found at i:7058864 original size:41 final size:41
Alignment explanation
Indices: 7058819--7058896 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
7058809 TTTTAAATAT
* *
7058819 TCTCAACTAAAAATTCTAAA-ATTCACATTTGAAAATTAATC
1 TCTCAACTAAAAATTC-AAATATTAACATTTAAAAATTAATC
7058860 TCTCAACTAAAAATTCAAATATTAACATTTAAAAATT
1 TCTCAACTAAAAATTCAAATATTAACATTTAAAAATT
7058897 CTAGAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 3 0.09
41 31 0.91
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.35
Consensus pattern (41 bp):
TCTCAACTAAAAATTCAAATATTAACATTTAAAAATTAATC
Found at i:7058910 original size:23 final size:22
Alignment explanation
Indices: 7058866--7058922 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7058856 AATCTCTCAA
7058866 CTAAAAATTCAAATATTAACAT
1 CTAAAAATTCAAATATTAACAT
* *
7058888 TTAAAAATTCTAGAA-ATTCACAT
1 CTAAAAATTC-A-AATATTAACAT
7058911 CT-AAAATTCAAA
1 CTAAAAATTCAAA
7058923 GATTTGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 16 0.53
23 9 0.30
24 2 0.07
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (22 bp):
CTAAAAATTCAAATATTAACAT
Found at i:7058992 original size:46 final size:45
Alignment explanation
Indices: 7058869--7059185 Score: 241
Period size: 45 Copynumber: 7.0 Consensus size: 45
7058859 CTCTCAACTA
* ** * *
7058869 AAAATTCAAATATTAACATTT-AAAAATTCTAGAAATTCACATCT
1 AAAATTCAAAGATTTGCATTTGAAAAATTTTAGAGATTCACATCT
* *
7058913 AAAATTCAAAGATTTGCATTTGAAAAGTCTTAGAGATTCACATTCT
1 AAAATTCAAAGATTTGCATTTGAAAAATTTTAGAGATTCACA-TCT
* ** *
7058959 AAAA-TCAAAG-TTTCTCATTTGAAAAATTTTTAGAGATTTTCAACT
1 AAAATTCAAAGATTT-GCATTTGAAAAA-TTTTAGAGATTCACATCT
* * * * *
7059004 AAAACTTCAAAGA-TT-CAGATTCAAAAATTCTAGAGATTCTCAACT
1 AAAA-TTCAAAGATTTGCA-TTTGAAAAATTTTAGAGATTCACATCT
* ** *
7059049 AAAAATTTAAAGATTCACATTT-AAAAAGTTTAGAGATTCACATCT
1 -AAAATTCAAAGATTTGCATTTGAAAAATTTTAGAGATTCACATCT
* * ** * * * **
7059094 AAAATTTCAATGATTTTCATTCAAAAAATTTTTAAAAATTCTCAAGT
1 AAAA-TTCAAAGATTTGCATTTGAAAAA-TTTTAGAGATTCACATCT
*
7059141 AAAAATTCAAAGATTTGCATTCGAAAAATTTTAGAGATTCACATC
1 -AAAATTCAAAGATTTGCATTTGAAAAATTTTAGAGATTCACATC
7059186 GTTATAACAT
Statistics
Matches: 215, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
44 25 0.12
45 94 0.44
46 50 0.23
47 42 0.20
48 4 0.02
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (45 bp):
AAAATTCAAAGATTTGCATTTGAAAAATTTTAGAGATTCACATCT
Found at i:7059035 original size:136 final size:135
Alignment explanation
Indices: 7058860--7059185 Score: 379
Period size: 137 Copynumber: 2.4 Consensus size: 135
7058850 AAAATTAATC
* * * *
7058860 TCTCAACTAAAAATTCAAATATTAACATTTAAAAATTCTAGAAATTCACATCT-AAAATTCAAAG
1 TCTCAACTAAAAATTCAAAGATT-AGATTCAAAAATTCTAGAGATTCACATCTAAAAATTCAAAG
** * **
7058924 ATTTGCATTTGAAAAGTCTTAGAGATTCACATTCTAAAA-TCAAAG-TTTCTCATTTGAAAAATT
65 ATTCACATTTAAAAAGT-TTAGAGATTCACA-TCTAAAATTCAAAGATTT-TCATTCAAAAAATT
* *
7058987 TTTAGAGAT
127 TTTAAAAAT
* * * * *
7058996 TTTCAACTAAAACTTCAAAGATTCAGATTCAAAAATTCTAGAGATTCTCAACTAAAAATTTAAAG
1 TCTCAACTAAAAATTCAAAGATT-AGATTCAAAAATTCTAGAGATTCACATCTAAAAATTCAAAG
*
7059061 ATTCACATTTAAAAAGTTTAGAGATTCACATCTAAAATTTCAATGATTTTCATTCAAAAAATTTT
65 ATTCACATTTAAAAAGTTTAGAGATTCACATCTAAAA-TTCAAAGATTTTCATTCAAAAAATTTT
7059126 TAAAAAT
129 TAAAAAT
* * *
7059133 TCTCAAGTAAAAATTCAAAGATTTGCATTCGAAAAATTTTAGAGATTCACATC
1 TCTCAACTAAAAATTCAAAGATTAG-ATTC-AAAAATTCTAGAGATTCACATC
7059186 GTTATAACAT
Statistics
Matches: 159, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
135 7 0.04
136 58 0.36
137 72 0.45
138 22 0.14
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (135 bp):
TCTCAACTAAAAATTCAAAGATTAGATTCAAAAATTCTAGAGATTCACATCTAAAAATTCAAAGA
TTCACATTTAAAAAGTTTAGAGATTCACATCTAAAATTCAAAGATTTTCATTCAAAAAATTTTTA
AAAAT
Found at i:7059062 original size:22 final size:22
Alignment explanation
Indices: 7058987--7059155 Score: 74
Period size: 22 Copynumber: 7.5 Consensus size: 22
7058977 TTGAAAAATT
* * *
7058987 TTTAGAGATTTTCAACTAAAAC
1 TTTAAAGATTCTCAACTAAAAA
* *
7059009 TTCAAAGA-T-TCAGATTCAAAAA
1 TTTAAAGATTCTCA-ACT-AAAAA
*
7059031 TTCTAGAGATTCTCAACTAAAAA
1 TT-TAAAGATTCTCAACTAAAAA
* **
7059054 TTTAAAGATTCACATTTAAAAA
1 TTTAAAGATTCTCAACTAAAAA
* * *
7059076 GTTTAGAGATTCACATCT-AAAA
1 -TTTAAAGATTCTCAACTAAAAA
* * * *
7059098 TTTCAATGATTTTCATTCAAAAAA
1 TTT-AAAGATTCTCA-ACTAAAAA
* *
7059122 TTTTTAAAAATTCTCAAGTAAAAA
1 --TTTAAAGATTCTCAACTAAAAA
*
7059146 TTCAAAGATT
1 TTTAAAGATT
7059156 TGCATTCGAA
Statistics
Matches: 110, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
20 3 0.03
21 6 0.05
22 47 0.43
23 28 0.25
24 12 0.11
25 11 0.10
26 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (22 bp):
TTTAAAGATTCTCAACTAAAAA
Found at i:7059089 original size:23 final size:22
Alignment explanation
Indices: 7058866--7059097 Score: 94
Period size: 23 Copynumber: 10.3 Consensus size: 22
7058856 AATCTCTCAA
* * * *
7058866 CTAAAAATTCAAATATTAACAT
1 CTAAAAATTTAGAGATTCACAT
* *
7058888 TTAAAAATTCTAGAAATTCACAT
1 CTAAAAATT-TAGAGATTCACAT
* * **
7058911 CT-AAAATTCAAAGATTTGCAT
1 CTAAAAATTTAGAGATTCACAT
* *
7058932 TTGAAAAGTCTTAGAGATTCACATT
1 CT-AAAAAT-TTAGAGATTCACA-T
* * * *
7058957 CT-AAAA-TCAAAGTTTCTCAT
1 CTAAAAATTTAGAGATTCACAT
* ** *
7058977 TTGAAAAATTTTTAGAGATTTTCAA
1 CT-AAAAA--TTTAGAGATTCACAT
* * * *
7059002 CTAAAACTTCAAAGATTCAGAT
1 CTAAAAATTTAGAGATTCACAT
* *
7059024 -TCAAAAATTCTAGAGATTCTCAA
1 CT-AAAAATT-TAGAGATTCACAT
*
7059047 CTAAAAATTTAAAGATTCACAT
1 CTAAAAATTTAGAGATTCACAT
*
7059069 TTAAAAAGTTTAGAGATTCACAT
1 CTAAAAA-TTTAGAGATTCACAT
7059092 CTAAAA
1 CTAAAA
7059098 TTTCAATGAT
Statistics
Matches: 147, Mismatches: 49, Indels: 27
0.66 0.22 0.12
Matches are distributed among these distances:
20 2 0.01
21 19 0.13
22 49 0.33
23 51 0.35
24 14 0.10
25 12 0.08
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (22 bp):
CTAAAAATTTAGAGATTCACAT
Found at i:7060024 original size:17 final size:16
Alignment explanation
Indices: 7059997--7060067 Score: 69
Period size: 17 Copynumber: 4.5 Consensus size: 16
7059987 AATAAAACAG
7059997 AATAAAAAAAATTTAA
1 AATAAAAAAAATTTAA
7060013 AATAAAACAAAATTTAA
1 AATAAAA-AAAATTTAA
*
7060030 AATATGAAAAAAA-TAAA
1 AATA--AAAAAAATTTAA
*
7060047 AAT-CAAAAAA--TAA
1 AATAAAAAAAATTTAA
7060060 AATAAAAA
1 AATAAAAA
7060068 TAAAAACGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
13 5 0.11
14 9 0.19
16 7 0.15
17 19 0.40
18 4 0.09
19 3 0.06
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (16 bp):
AATAAAAAAAATTTAA
Found at i:7060509 original size:20 final size:21
Alignment explanation
Indices: 7060484--7060526 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
7060474 TAGAAATCCA
**
7060484 AAATTTTTTTCAAATT-CTTC
1 AAATTTTGCTCAAATTCCTTC
7060504 AAATTTTGCTCAAATTCCTTC
1 AAATTTTGCTCAAATTCCTTC
7060525 AA
1 AA
7060527 GAGACTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATTTTGCTCAAATTCCTTC
Found at i:7060558 original size:20 final size:20
Alignment explanation
Indices: 7060533--7060581 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
7060523 TCAAGAGACT
*
7060533 TCCCAAAAGCCTAAA-CTTAA
1 TCCCAAAAACCTAAATC-TAA
7060553 TCCCAAAAACCTAAATCTAA
1 TCCCAAAAACCTAAATCTAA
*
7060573 GCCCAAAAA
1 TCCCAAAAA
7060582 TTTTCAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (20 bp):
TCCCAAAAACCTAAATCTAA
Found at i:7060981 original size:3 final size:3
Alignment explanation
Indices: 7060975--7061010 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
7060965 TAAATAAAAA
*
7060975 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7061011 TTATACAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7061554 original size:56 final size:56
Alignment explanation
Indices: 7061425--7061547 Score: 183
Period size: 56 Copynumber: 2.2 Consensus size: 56
7061415 TAAATGACCA
*
7061425 AGACAAAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATTG
1 AGACAAAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCG
* * * * *
7061481 GGACAAAACCACAAGTCATAAGAAATTATCTGGATTGAGCTAAGATCAGGTGATCG
1 AGACAAAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCG
*
7061537 AGATAAAACCA
1 AGACAAAACCA
7061548 TGAGTCAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (56 bp):
AGACAAAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCG
Found at i:7061560 original size:176 final size:176
Alignment explanation
Indices: 7061247--7061659 Score: 531
Period size: 176 Copynumber: 2.3 Consensus size: 176
7061237 AATAATTACT
* * * * * *
7061247 AAGACAAAACCATGAGTCATAAAAAAATGATCTAGATTGAGCTAAGATCAGGTGACCAGGACTAA
1 AAGACAAAACCATGAGTCAT-AAGAAATGATCTGGATTGAGCCAAGATCAGGTGATCGGGACAAA
** * * *
7061312 ACCATGAGTCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGATCGGGATGAAACTAGAAGT
65 ACCACAAGTCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAACCAGAAGT
**
7061377 AAAAAATAAAGTGACTAGGATCGAGTCGAGGTAAAAAATAAATGACC
130 AAAAAATAAAACGACTAGGATCGAGTCGAGGTAAAAAATAAATGACC
** * * *
7061424 AAGACAAAACCACAAGTCATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATTGGGACAAAA
1 AAGACAAAACCATGAGTCATAAGAAATGATCTGGATTGAGCCAAGATCAGGTGATCGGGACAAAA
* * * * *
7061489 CCACAAGTCATAAGAAATTATCTGGATTGAGCTAAGATCAGGTGATCGAGATAAAACCATG-AGT
66 CCACAAGTCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAACCA-GAAGT
* **
7061553 CAAAAATAAAACGACTAGGATCGAGTCGAGGTCGAAAATAAATGACC
130 AAAAAATAAAACGACTAGGATCGAGTCGAGGTAAAAAATAAATGACC
* * * *
7061600 AGGACGAAACCATGAGTCACAAGAAATGATCTGGATTGAGCCAACATCAGGTGATCGGGA
1 AAGACAAAACCATGAGTCATAAGAAATGATCTGGATTGAGCCAAGATCAGGTGATCGGGA
7061660 TGAAACTACG
Statistics
Matches: 200, Mismatches: 35, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
176 181 0.90
177 19 0.09
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (176 bp):
AAGACAAAACCATGAGTCATAAGAAATGATCTGGATTGAGCCAAGATCAGGTGATCGGGACAAAA
CCACAAGTCATAAGAAATGATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAACCAGAAGTA
AAAAATAAAACGACTAGGATCGAGTCGAGGTAAAAAATAAATGACC
Found at i:7061704 original size:120 final size:120
Alignment explanation
Indices: 7061481--7061978 Score: 507
Period size: 120 Copynumber: 4.2 Consensus size: 120
7061471 CAAGTGATTG
* * * *
7061481 GGACAAAACCACAAGTCATAAGAAATTATCTGGATTGAGCTAAGATCAGGTGATCGAGATAAAAC
1 GGACAAAACCACGAGTCATAAGAAATTATCTAGATTGAGCCAAGATCAGGTGATCGAGATGAAAC
* * * *
7061546 CATGAGTCAAAAATAAAACGACTAGGATCGAGTCGAGGTCGAAAATAAATGACCA
66 CACGAGTCAAAAATAAAGCGACCAGGATCGAGTCGAGGTCAAAAATAAATGACCA
* * * * * * *
7061601 GGACGAAACCATGAGTCACAAGAAATGATCTGGATTGAGCCAACATCAGGTGATCGGGATGAAAC
1 GGACAAAACCACGAGTCATAAGAAATTATCTAGATTGAGCCAAGATCAGGTGATCGAGATGAAAC
* * * * **
7061666 TACGAGTCAAAAATGAAGCGACCAGGCA-CGAGTTGAGGTCAAAAATAAATAATTA
66 CACGAGTCAAAAATAAAGCGACCAGG-ATCGAGTCGAGGTCAAAAATAAATGACCA
* * * * *
7061721 GGACAAAACCACAAGTCATAAGAAATTATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAAT
1 GGACAAAACCACGAGTCATAAGAAATTATCTAGATTGAGCCAAGATCAGGTGATCGAGATGAAAC
* * * **
7061786 CACGAGTCAAAAATAAAGTGACCAGGATTGAGTCAAGAG-CAAAAATAAATGACTG
66 CACGAGTCAAAAATAAAGCGACCAGGATCGAGTCGAG-GTCAAAAATAAATGACCA
** * * * *
7061841 GGATGAAACCACGATTCAAAAGAAATTATCTAGATTAAGCCAAGATCAGGTGA-CTGGGATGAAA
1 GGACAAAACCACGAGTCATAAGAAATTATCTAGATTGAGCCAAGATCAGGTGATC-GAGATGAAA
* * * * ** ** *
7061905 CCACGAATAAAAAATGAAGTGACCAAAATCGAGTCGAGGTTGAAAATAAATGATCA
65 CCACGAGTCAAAAATAAAGCGACCAGGATCGAGTCGAGGTCAAAAATAAATGACCA
* * *
7061961 GGATAAAATCATGAGTCA
1 GGACAAAACCACGAGTCA
7061979 AAAAAGTGAA
Statistics
Matches: 306, Mismatches: 67, Indels: 10
0.80 0.17 0.03
Matches are distributed among these distances:
119 3 0.01
120 301 0.98
121 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (120 bp):
GGACAAAACCACGAGTCATAAGAAATTATCTAGATTGAGCCAAGATCAGGTGATCGAGATGAAAC
CACGAGTCAAAAATAAAGCGACCAGGATCGAGTCGAGGTCAAAAATAAATGACCA
Found at i:7061904 original size:240 final size:240
Alignment explanation
Indices: 7061481--7061929 Score: 632
Period size: 240 Copynumber: 1.9 Consensus size: 240
7061471 CAAGTGATTG
* * * *
7061481 GGACAAAACCACAAGTCATAAGAAATTATCTGGATTGAGCTAAGATCAGGTGATCGAGATAAAAC
1 GGACAAAACCACAAGTCATAAGAAATTATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAAC
* * * *
7061546 CATGAGTCAAAAATAAAACGACTAGGATCGAGTCGAGGTCGAAAATAAATGACCAGGACGAAACC
66 CACGAGTCAAAAATAAAACGACCAGGATCGAGTCAAGGTCAAAAATAAATGACCAGGACGAAACC
* * * * * * *
7061611 ATGAGTCACAAGAAATGATCTGGATTGAGCCAACATCAGGTGATCGGGATGAAACTACGAGTCAA
131 ACGAGTCAAAAGAAATGATCTAGATTAAGCCAACATCAGGTGATCGGGATGAAACCACGAATAAA
7061676 AAATGAAGCGACCAGGCACGAGTTGAGGTCAAAAATAAATAATTA
196 AAATGAAGCGACCAGGCACGAGTTGAGGTCAAAAATAAATAATTA
*
7061721 GGACAAAACCACAAGTCATAAGAAATTATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAAT
1 GGACAAAACCACAAGTCATAAGAAATTATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAAC
** * ** *
7061786 CACGAGTCAAAAATAAAGTGACCAGGATTGAGTCAAGAG-CAAAAATAAATGACTGGGATGAAAC
66 CACGAGTCAAAAATAAAACGACCAGGATCGAGTCAAG-GTCAAAAATAAATGACCAGGACGAAAC
* * *
7061850 CACGATTCAAAAGAAATTATCTAGATTAAGCCAAGATCAGGTGA-CTGGGATGAAACCACGAATA
130 CACGAGTCAAAAGAAATGATCTAGATTAAGCCAACATCAGGTGATC-GGGATGAAACCACGAATA
*
7061914 AAAAATGAAGTGACCA
194 AAAAATGAAGCGACCA
7061930 AAATCGAGTC
Statistics
Matches: 181, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
239 1 0.01
240 179 0.99
241 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (240 bp):
GGACAAAACCACAAGTCATAAGAAATTATCTAGACTGAGCCAAGATCAAGTGATCGAGATAAAAC
CACGAGTCAAAAATAAAACGACCAGGATCGAGTCAAGGTCAAAAATAAATGACCAGGACGAAACC
ACGAGTCAAAAGAAATGATCTAGATTAAGCCAACATCAGGTGATCGGGATGAAACCACGAATAAA
AAATGAAGCGACCAGGCACGAGTTGAGGTCAAAAATAAATAATTA
Found at i:7062253 original size:69 final size:69
Alignment explanation
Indices: 7062169--7062333 Score: 195
Period size: 69 Copynumber: 2.4 Consensus size: 69
7062159 AGGTTCTAGA
** * * * * **
7062169 TTCACAAAAATGCAAGGTTTGTAAAGACTTTCAGATTTGCAAGAAAAAAATATTCGTAAGATTCC
1 TTCACAAAGGTGCAAGGTTTGCAAAGACTTTCAAATTCGCAAGAAAAAAAGATTCACAAGATTCC
7062234 AAGT
66 AAGT
** * * *
7062238 TTTGCAAAGGTGCAAGGTTTGCAAAGATTTTCAAATTCGTAAGAAAGAAAGATTCACAAGATTCC
1 TTCACAAAGGTGCAAGGTTTGCAAAGACTTTCAAATTCGCAAGAAAAAAAGATTCACAAGATTCC
7062303 AAGT
66 AAGT
* *
7062307 TTCACAAAGGTGCGAGGTTTACAAAGA
1 TTCACAAAGGTGCAAGGTTTGCAAAGA
7062334 TTTTTAGATT
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 79 1.00
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.27
Consensus pattern (69 bp):
TTCACAAAGGTGCAAGGTTTGCAAAGACTTTCAAATTCGCAAGAAAAAAAGATTCACAAGATTCC
AAGT
Found at i:7062344 original size:52 final size:52
Alignment explanation
Indices: 7062287--7062397 Score: 141
Period size: 52 Copynumber: 2.1 Consensus size: 52
7062277 TAAGAAAGAA
* * *
7062287 AGATTCACAAGATTCCAAGTTTCACAAAGGTGCGAGGTTTACAAAGATTTTT
1 AGATTCACAAGATTCCAAGTTTCACAAAGGTGCAAGGTTTACAAAGACTTTC
** * * * *
7062339 AGATTCGTAAGATTTCAAGTTTCGCAAAGGTGCAAGGTTTGCAAGGACTTTC
1 AGATTCACAAGATTCCAAGTTTCACAAAGGTGCAAGGTTTACAAAGACTTTC
7062391 AGATTCA
1 AGATTCA
7062398 TAAGCAAGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (52 bp):
AGATTCACAAGATTCCAAGTTTCACAAAGGTGCAAGGTTTACAAAGACTTTC
Found at i:7062774 original size:114 final size:114
Alignment explanation
Indices: 7062569--7062774 Score: 254
Period size: 114 Copynumber: 1.8 Consensus size: 114
7062559 TCAAATGGAT
* * * * *
7062569 AAAGTAACCAAGATCTAGTTAAGGTCGAAAATGAATGGCCAAGATGATATCGCGAGTCAAAAAAT
1 AAAGCAACCAAGATCTAGTCAAGGTCGAAAATGAATGACCAAGATGATAGCGCAAGTCAAAAAAT
* * **
7062634 GATCTGACCTGAGTCGAGATTGGATGATTGAAACGATGCTGCGAGTTTG
66 GATCTGACCTGAGCCAAGATCAGATGATTGAAACGATGCTGCGAGTTTG
* * * *
7062683 AAAGCAACCAAGAT-TGAGTCAAGGTCGAAGATGAATGATCGAGATGAT-GCGTCAAGTTAAAAA
1 AAAGCAACCAAGATCT-AGTCAAGGTCGAAAATGAATGACCAAGATGATAGCG-CAAGTCAAAAA
*
7062746 ATGATCTGACTTGAGCCAAGATCAGATGA
64 ATGATCTGACCTGAGCCAAGATCAGATGA
7062775 GTAATAATAG
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
113 3 0.04
114 73 0.96
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (114 bp):
AAAGCAACCAAGATCTAGTCAAGGTCGAAAATGAATGACCAAGATGATAGCGCAAGTCAAAAAAT
GATCTGACCTGAGCCAAGATCAGATGATTGAAACGATGCTGCGAGTTTG
Found at i:7067549 original size:16 final size:18
Alignment explanation
Indices: 7067520--7067578 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
7067510 AATTCATGAA
*
7067520 TTTATTTTGTAAAA-ATT
1 TTTATTTTGAAAAAGATT
7067537 TTTA-TTTGAAAAAGATT
1 TTTATTTTGAAAAAGATT
* *
7067554 TTTTTTATTG-AAAGGATT
1 TTTATT-TTGAAAAAGATT
7067572 TTT-TTTT
1 TTTATTTT
7067579 TTATAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 10 0.28
17 12 0.33
18 11 0.31
19 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (18 bp):
TTTATTTTGAAAAAGATT
Found at i:7067571 original size:18 final size:20
Alignment explanation
Indices: 7067535--7067577 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
7067525 TTTGTAAAAA
7067535 TTTTTATTTGAAAAAGATTT
1 TTTTTATTTGAAAAAGATTT
*
7067555 TTTTTA-TTG-AAAGGATTT
1 TTTTTATTTGAAAAAGATTT
7067573 TTTTT
1 TTTTT
7067578 TTTATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.59
19 3 0.14
20 6 0.27
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTTTATTTGAAAAAGATTT
Found at i:7067797 original size:17 final size:18
Alignment explanation
Indices: 7067777--7067822 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
7067767 ACACAAAATT
7067777 TAAAATATGAAAAT-AAA
1 TAAAATATGAAAATAAAA
7067794 TAAAATCA--AAAATAAAA
1 TAAAAT-ATGAAAATAAAA
7067811 TAAAA-ATGAAAA
1 TAAAATATGAAAA
7067823 AGGGGAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 1 0.04
16 5 0.20
17 18 0.72
18 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
TAAAATATGAAAATAAAA
Found at i:7068725 original size:3 final size:3
Alignment explanation
Indices: 7068719--7068776 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
7068709 AATGATGATG
*
7068719 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA CTA TATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* *
7068763 ATA ACA AAA ATA AT
1 ATA ATA ATA ATA AT
7068777 GAAATACGGT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.87
4 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7072005 original size:33 final size:31
Alignment explanation
Indices: 7071948--7072011 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
7071938 ACTTATAGAA
* *
7071948 GAAAAATTCTAAGAAAAAATGGATTCTTGAT
1 GAAAAATTCTAAAAAAAAAGGGATTCTTGAT
*
7071979 GAAAGAATTCTAAAAAAAAAAGGGATTTTTGAT
1 GAAA-AATTCT-AAAAAAAAAGGGATTCTTGAT
7072012 AGACAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 4 0.14
32 6 0.21
33 18 0.64
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (31 bp):
GAAAAATTCTAAAAAAAAAGGGATTCTTGAT
Found at i:7078108 original size:65 final size:65
Alignment explanation
Indices: 7078038--7078226 Score: 261
Period size: 65 Copynumber: 2.9 Consensus size: 65
7078028 AATAATTTTA
* * * *
7078038 TAATGAAAAATAAAATTACATGTAGAAAAGTCGGAAACATATGTATTATCACAATCAGTATCTTC
1 TAATGAAAAATAAAATTACATATAAAAAAGTTGAAAACATATGTATTATCACAATCAGTATCTTC
* * * *
7078103 TAATGAAAAATAAAATTACATATAAAAAAGTTGAAAACATATATATCATCACAATCAGTATTTTG
1 TAATGAAAAATAAAATTACATATAAAAAAGTTGAAAACATATGTATTATCACAATCAGTATCTTC
* * * * *
7078168 TAATGAAAAATAAAGTAACGTATAAAAAAGTTTAAAACATATGCATTATCACAATCAGT
1 TAATGAAAAATAAAATTACATATAAAAAAGTTGAAAACATATGTATTATCACAATCAGT
7078227 CGTAATATTT
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 109 1.00
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (65 bp):
TAATGAAAAATAAAATTACATATAAAAAAGTTGAAAACATATGTATTATCACAATCAGTATCTTC
Found at i:7081315 original size:4 final size:4
Alignment explanation
Indices: 7081308--7081334 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7081298 AAATTTTCTG
7081308 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
7081335 TTTTTGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:7087476 original size:295 final size:295
Alignment explanation
Indices: 7086905--7087495 Score: 1103
Period size: 295 Copynumber: 2.0 Consensus size: 295
7086895 TTAATTTTTT
7086905 TAATTTTTAGTTTTTAATCTTAAGAGTAATAGATCATAAAACACTAACTTTATTAAGTAACTTAA
1 TAATTTTTAGTTTTTAATCTTAAGAGTAATAGATCATAAAACACTAACTTTATTAAGTAACTTAA
* *
7086970 TCTTTTTGATACACTAATTGATATAATTTTTTTTATCACAAATAACTTTCAGTAATTATATAATA
66 TCTTTTTGATACACTAATTGATATAATTTTTTTCATCACAAATAACTTTCAATAATTATATAATA
* * *
7087035 AATATAATCTTCAATAATTAAACAAAAATAATAAGTATTAATCTAATATCAAAAGAATTGATAAC
131 AATACAATCTTCAATAATTAAACAAAAATAATAAGAATTAATCTAAAATCAAAAGAATTGATAAC
*
7087100 AATATAAATACCAAAACAACAAAAAAATTATTAAATTTCAGATACAAAATTATAAATTAATATAT
196 AATATAAATACCAAAACAACAAAAAAAATATTAAATTTCAGATACAAAATTATAAATTAATATAT
7087165 AACACAATCAAAATATAATATTTAATTTTAATTAA
261 AACACAATCAAAATATAATATTTAATTTTAATTAA
7087200 TAATTTTTAGTTTTTAATCTTAAGAGTAATAGATCATAAAACACTAACTTTATTAAGTAACTTAA
1 TAATTTTTAGTTTTTAATCTTAAGAGTAATAGATCATAAAACACTAACTTTATTAAGTAACTTAA
7087265 TCTTTTTGATACACTAATTGATATAATTTTTTTCATCACAAATAACTTTCAATAATTATATAATA
66 TCTTTTTGATACACTAATTGATATAATTTTTTTCATCACAAATAACTTTCAATAATTATATAAT-
*
7087330 AAATACAATCTTCAATAATTACACAAAAATAATAAGAATTAATCTAAAATCAAAAGAATTGATAA
130 AAATACAATCTTCAATAATTAAACAAAAATAATAAGAATTAATCTAAAATCAAAAGAATTGATAA
7087395 CAATATAAATACCAAAACAACAAAAAAAATATTAAATTTCAGATACAAAATTATAAATTAATATA
195 CAATATAAATACCAAAACAACAAAAAAAATATTAAATTTCAGATACAAAATTATAAATTAATATA
7087460 TAACACAATC-AAATATAATATTTAATTTTAATTAA
260 TAACACAATCAAAATATAATATTTAATTTTAATTAA
7087495 T
1 T
7087496 TTTCATCTAA
Statistics
Matches: 288, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
295 153 0.53
296 135 0.47
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (295 bp):
TAATTTTTAGTTTTTAATCTTAAGAGTAATAGATCATAAAACACTAACTTTATTAAGTAACTTAA
TCTTTTTGATACACTAATTGATATAATTTTTTTCATCACAAATAACTTTCAATAATTATATAATA
AATACAATCTTCAATAATTAAACAAAAATAATAAGAATTAATCTAAAATCAAAAGAATTGATAAC
AATATAAATACCAAAACAACAAAAAAAATATTAAATTTCAGATACAAAATTATAAATTAATATAT
AACACAATCAAAATATAATATTTAATTTTAATTAA
Found at i:7091764 original size:15 final size:17
Alignment explanation
Indices: 7091722--7091846 Score: 51
Period size: 18 Copynumber: 7.1 Consensus size: 17
7091712 CCTTTGTTCT
7091722 TGATACATTTGAGGTGGA
1 TGATACATTTGA-GTGGA
* *
7091740 AGATATATTTGA-T-GA
1 TGATACATTTGAGTGGA
**
7091755 TGATACATTTTTTGTAGG-
1 TGATACA-TTTGAGT-GGA
* **
7091773 -GATACATTTGTGGTAAA
1 TGATACATTTG-AGTGGA
7091790 TGATACATTTGAGGTGGA
1 TGATACATTTGA-GTGGA
* * *
7091808 GGATATATTTGAATAGGTGA
1 TGATACATTTGAGT--G-GA
7091828 TGATACATTTGAAGTGGA
1 TGATACATTTG-AGTGGA
7091846 T
1 T
7091847 AATAACTATA
Statistics
Matches: 76, Mismatches: 19, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
15 7 0.09
16 7 0.09
17 10 0.13
18 36 0.47
19 3 0.04
20 11 0.14
21 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (17 bp):
TGATACATTTGAGTGGA
Found at i:7091812 original size:18 final size:18
Alignment explanation
Indices: 7091723--7091819 Score: 58
Period size: 18 Copynumber: 5.6 Consensus size: 18
7091713 CTTTGTTCTT
* *
7091723 GATACATTTGAGGTGGAA
1 GATACATTTGAGGTAGAG
* *
7091741 GATATATTTGA--T-GAT
1 GATACATTTGAGGTAGAG
***
7091756 GATACATTTTTTGTAG-G
1 GATACATTTGAGGTAGAG
* * *
7091773 GATACATTTGTGGTAAAT
1 GATACATTTGAGGTAGAG
*
7091791 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTAGAG
*
7091809 GATATATTTGA
1 GATACATTTGA
7091820 ATAGGTGATG
Statistics
Matches: 60, Mismatches: 15, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
15 10 0.17
16 1 0.02
17 14 0.23
18 35 0.58
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (18 bp):
GATACATTTGAGGTAGAG
Found at i:7091837 original size:20 final size:20
Alignment explanation
Indices: 7091789--7091840 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
7091779 TTTGTGGTAA
7091789 ATGATACATTTG--AGGTGG
1 ATGATACATTTGAAAGGTGG
* *
7091807 AGGATATATTTGAATAGGT-G
1 ATGATACATTTGAA-AGGTGG
7091827 ATGATACATTTGAA
1 ATGATACATTTGAA
7091841 GTGGATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (20 bp):
ATGATACATTTGAAAGGTGG
Found at i:7095405 original size:20 final size:20
Alignment explanation
Indices: 7095380--7095420 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7095370 AAAAGAATTG
* *
7095380 ACAACAATATAAATATCAAA
1 ACAACAAAAAAAATATCAAA
*
7095400 ACAACAAAAAAAATATTAAA
1 ACAACAAAAAAAATATCAAA
7095420 A
1 A
7095421 TTCATATACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (20 bp):
ACAACAAAAAAAATATCAAA
Found at i:7096664 original size:18 final size:19
Alignment explanation
Indices: 7096631--7096666 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
7096621 AGATTCTGAG
*
7096631 TTTTATTTTTTGCTTTTGC
1 TTTTATTTTTTACTTTTGC
7096650 TTTTA-TTTTTACTTTTG
1 TTTTATTTTTTACTTTTG
7096667 TAGGCCTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.75
Consensus pattern (19 bp):
TTTTATTTTTTACTTTTGC
Found at i:7104392 original size:13 final size:13
Alignment explanation
Indices: 7104374--7104398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7104364 CTCATGAACT
7104374 AGTAAAATTAAAG
1 AGTAAAATTAAAG
7104387 AGTAAAATTAAA
1 AGTAAAATTAAA
7104399 ATATAAGATA
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AGTAAAATTAAAG
Found at i:7104824 original size:50 final size:48
Alignment explanation
Indices: 7104738--7105049 Score: 176
Period size: 49 Copynumber: 6.3 Consensus size: 48
7104728 CGTCTCATTA
* * * *
7104738 AAAAAATAGTAAAATTATCAAATGGAA-AATGCAATGATAGTGTTTCCTT
1 AAAAAATAG-AAAATTATTAAAAGGAATAA-GTAATGAGAGTGTTTCCTT
* * *
7104787 AAAGAAATAGAAACATTATTAAAAGGAATAAGTAATGAGAAT-TTTTCTAAAA
1 AAA-AAATAGAAA-ATTATTAAAAGGAATAAGTAATGAGAGTGTTTCCT---T
* *
7104839 AAAAAAAAGGAAAATTATTAAAAGGAAT-AGATAAATGAGTGT-TTTCC-T
1 AAAAAATA-GAAAATTATTAAAAGGAATAAG-T-AATGAGAGTGTTTCCTT
* * * * *
7104887 AAAAATATAAAAAAAATTA-TAAAAAGAATAGGCAATG-GAAGTGTTTCCCT
1 AAAAA-AT--AGAAAATTATTAAAAGGAATAAGTAATGAG-AGTGTTTCCTT
* * *
7104937 AAAAAATAGAAAAATTATTAAAAAGAATAGGTAA-G-GAGTGTTTCCCT
1 AAAAAATAG-AAAATTATTAAAAGGAATAAGTAATGAGAGTGTTTCCTT
* * * * * * *
7104984 AAAACAATAAGAAAACTATTGAAAGAAATAGGTAA-GTGAGTATTTCCCT
1 AAAA-AAT-AGAAAATTATTAAAAGGAATAAGTAATGAGAGTGTTTCCTT
7105033 AAAAAATAAGAAAATTA
1 AAAAAAT-AGAAAATTA
7105050 GTAATAAGAA
Statistics
Matches: 216, Mismatches: 26, Indels: 43
0.76 0.09 0.15
Matches are distributed among these distances:
47 17 0.08
48 56 0.26
49 60 0.28
50 42 0.19
51 23 0.11
52 18 0.08
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (48 bp):
AAAAAATAGAAAATTATTAAAAGGAATAAGTAATGAGAGTGTTTCCTT
Found at i:7104884 original size:51 final size:51
Alignment explanation
Indices: 7104795--7104917 Score: 132
Period size: 52 Copynumber: 2.4 Consensus size: 51
7104785 TTAAAGAAAT
7104795 AGAAACATTATTAAAAGGAATA-AGTAATGAGAATTTTT-CTAAAAAAAAAAA
1 AGAAA-ATTATTAAAAGGAATAGAGTAATGAG-ATTTTTCCTAAAAAAAAAAA
* *
7104846 AGGAAAATTATTAAAAGGAATAGA-TAAATGAG-TGTTTTCCTAAAAATATAAA
1 A-GAAAATTATTAAAAGGAATAGAGT-AATGAGAT-TTTTCCTAAAAAAAAAAA
*
7104898 A-AAAATTA-TAAAAAGAATAG
1 AGAAAATTATTAAAAGGAATAG
7104918 GCAATGGAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
49 11 0.17
50 8 0.12
51 22 0.34
52 23 0.36
ACGTcount: A:0.58, C:0.03, G:0.13, T:0.26
Consensus pattern (51 bp):
AGAAAATTATTAAAAGGAATAGAGTAATGAGATTTTTCCTAAAAAAAAAAA
Found at i:7104916 original size:49 final size:48
Alignment explanation
Indices: 7104776--7105060 Score: 220
Period size: 49 Copynumber: 5.8 Consensus size: 48
7104766 ATGCAATGAT
* * * * *
7104776 AGTGTTTCCTTAAAGAAATAGAAACATTATTAAAAGGAATAAGT-AATG
1 AGTGTTTCCCTAAA-AAATAAAAAAATTATTAAAAAGAATAGGTAAATG
* *** * * *
7104824 AGAATTTTTCTAAAAAAAAAAAAGGAAAATTATTAAAAGGAATAGATAAATG
1 AG--TGTTTCCCTAAAAAATAAA--AAAATTATTAAAAAGAATAGGTAAATG
* *
7104876 AGTGTTTTCCTAAAAATATAAAAAAAATTA-TAAAAAGAATAGG-CAATGG
1 AGTGTTTCCCTAAAAA-AT-AAAAAAATTATTAAAAAGAATAGGTAAAT-G
* *
7104925 AAGTGTTTCCCTAAAAAATAGAAAAATTATTAAAAAGAATAGGT-AAGG
1 -AGTGTTTCCCTAAAAAATAAAAAAATTATTAAAAAGAATAGGTAAATG
* * * *
7104973 AGTGTTTCCCTAAAACAATAAGAAAACTATT-GAAAGAAATAGGTAAGTG
1 AGTGTTTCCCTAAAA-AATAAAAAAATTATTAAAAAG-AATAGGTAAATG
* * * *
7105022 AGTATTTCCCTAAAAAATAAGAAAATTAGTAATAAGAAT
1 AGTGTTTCCCTAAAAAATAAAAAAATTATTAAAAAGAAT
7105061 GTTTCCCTTA
Statistics
Matches: 190, Mismatches: 32, Indels: 30
0.75 0.13 0.12
Matches are distributed among these distances:
47 19 0.10
48 50 0.26
49 53 0.28
50 39 0.21
51 20 0.11
52 9 0.05
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.26
Consensus pattern (48 bp):
AGTGTTTCCCTAAAAAATAAAAAAATTATTAAAAAGAATAGGTAAATG
Found at i:7105048 original size:96 final size:98
Alignment explanation
Indices: 7104838--7105060 Score: 242
Period size: 96 Copynumber: 2.3 Consensus size: 98
7104828 TTTTTCTAAA
* * * *
7104838 AAAAAAAAAGGAAAATTATTAAAAGGAATAGATAAATGAGTGTTTTCCTAAAAATATAAAAAAAA
1 AAAAAATAA-GAAAATTATTAAAAAGAATAGATAAAGGAGTGTTTCCCTAAAAATATAAAAAAAA
* *
7104903 TTATAAAAAGAATAGGCAATGGAAGTGTTTCCCT
65 CTATAAAAAGAATAGGCAATGGAAGTATTTCCCT
* *
7104937 AAAAAAT-AGAAAAATTATTAAAAAGAATAGGT-AAGGAGTGTTTCCCTAAAACA-AT-AAGAAA
1 AAAAAATAAG-AAAATTATTAAAAAGAATAGATAAAGGAGTGTTTCCCTAAAA-ATATAAAAAAA
** *
7104998 ACTATTGAAAGAAATAGGTAA-GTG-AGTATTTCCCT
64 ACTATAAAAAG-AATAGGCAATG-GAAGTATTTCCCT
* *
7105033 AAAAAATAAGAAAATTAGTAATAAGAAT
1 AAAAAATAAGAAAATTATTAAAAAGAAT
7105061 GTTTCCCTTA
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 47 0.44
97 31 0.29
98 22 0.21
99 6 0.06
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (98 bp):
AAAAAATAAGAAAATTATTAAAAAGAATAGATAAAGGAGTGTTTCCCTAAAAATATAAAAAAAAC
TATAAAAAGAATAGGCAATGGAAGTATTTCCCT
Found at i:7105067 original size:36 final size:36
Alignment explanation
Indices: 7105026--7105165 Score: 113
Period size: 36 Copynumber: 3.8 Consensus size: 36
7105016 TAAGTGAGTA
*
7105026 TTTCCCTAAAAAATAAGAAAATTAGTAATAAGAATG
1 TTTCCCTAAAAAATAAGAAAATAAGTAATAAGAATG
* * *
7105062 TTTCCCTTAAGAAAAAATAGGAGAATAAGTAATGTA-AATG
1 TTTCCC-T---AAAAAATAAGAAAATAAGTAAT-AAGAATG
* * * *
7105102 TTTTCCTAAAAAAT-AGAAGAACAATTAATAAGAGTG
1 TTTCCCTAAAAAATAAGAA-AATAAGTAATAAGAATG
* * *
7105138 TTTCTCTAAAAAATAAGAGAACAAGTAA
1 TTTCCCTAAAAAATAAGAAAATAAGTAA
7105166 ATATTTATCC
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
35 3 0.04
36 44 0.54
37 4 0.05
39 1 0.01
40 28 0.35
41 1 0.01
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.27
Consensus pattern (36 bp):
TTTCCCTAAAAAATAAGAAAATAAGTAATAAGAATG
Found at i:7105233 original size:36 final size:36
Alignment explanation
Indices: 7105193--7105296 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
7105183 GAAGAACAAG
7105193 TAATGAAAGTATTTCCCTAAAAAATAGGAGAATATC
1 TAATGAAAGTATTTCCCTAAAAAATAGGAGAATATC
* * * * *
7105229 TAATGAGAGTTTTTTCCTAAAAAATAGTAGAATATG
1 TAATGAAAGTATTTCCCTAAAAAATAGGAGAATATC
*
7105265 TAATG-AAGATATTTCCCTAAAAAGTAGGAGAA
1 TAATGAAAG-TATTTCCCTAAAAAATAGGAGAA
7105297 CAATTAATAG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 2 0.04
36 55 0.96
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (36 bp):
TAATGAAAGTATTTCCCTAAAAAATAGGAGAATATC
Found at i:7105340 original size:72 final size:72
Alignment explanation
Indices: 7105073--7105342 Score: 181
Period size: 72 Copynumber: 3.8 Consensus size: 72
7105063 TTCCCTTAAG
* * * *
7105073 AAAAAATAGGAGAATAA-GTAATGTA-AATGTTTTCCTAAAAAATAGAAGAACAATTAAT-AAGA
1 AAAAAATAGGAGAA-AATCTAATG-AGAATGTTTCCCTAAAAAATAGAAGAATAAGTAATGAA-A
* *
7105135 GTGTTTCTCT
63 GTATTTCCCT
* * * * *
7105145 AAAAAATA--AGAGAA-C-AA-GTA-AATATTTATCC--AAAAATTGAAGAACAAGTAATGAAAG
1 AAAAAATAGGAGAAAATCTAATG-AGAATGTTT-CCCTAAAAAATAGAAGAATAAGTAATGAAAG
7105202 TATTTCCCT
64 TATTTCCCT
* * * * * *
7105211 AAAAAATAGGAGAATATCTAATGAGAGTTTTTTCCTAAAAAATAGTAGAATATGTAATG-AAGAT
1 AAAAAATAGGAGAAAATCTAATGAGAATGTTTCCCTAAAAAATAGAAGAATAAGTAATGAAAG-T
7105275 ATTTCCCT
65 ATTTCCCT
* * * *
7105283 AAAAAGTAGGAGAACAAT-TAAT-AGGAATGTTTCCCTTAAAAATGGAATAATAAGTAATGA
1 AAAAAATAGGAGAA-AATCTAATGA-GAATGTTTCCCTAAAAAATAGAAGAATAAGTAATGA
7105343 GATTGCTTAC
Statistics
Matches: 159, Mismatches: 25, Indels: 27
0.75 0.12 0.13
Matches are distributed among these distances:
66 36 0.23
67 11 0.07
68 9 0.06
69 3 0.02
70 9 0.06
71 10 0.06
72 79 0.50
73 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (72 bp):
AAAAAATAGGAGAAAATCTAATGAGAATGTTTCCCTAAAAAATAGAAGAATAAGTAATGAAAGTA
TTTCCCT
Found at i:7107406 original size:12 final size:12
Alignment explanation
Indices: 7107389--7107415 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7107379 ATCTATAAAC
7107389 AATACATATACA
1 AATACATATACA
7107401 AATACATATACA
1 AATACATATACA
7107413 AAT
1 AAT
7107416 GATGATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (12 bp):
AATACATATACA
Found at i:7107775 original size:26 final size:25
Alignment explanation
Indices: 7107746--7107801 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
7107736 GGTTTTGACC
*
7107746 TTAGGGCTTCATTTAGGATTTCAACT
1 TTAGAGCTTCATTTAGGATTTC-ACT
*
7107772 TTAGAGCTTCATTTAGGGTTTCACT
1 TTAGAGCTTCATTTAGGATTTCACT
7107797 TTAGA
1 TTAGA
7107802 TTTCGGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (25 bp):
TTAGAGCTTCATTTAGGATTTCACT
Found at i:7108016 original size:13 final size:12
Alignment explanation
Indices: 7107998--7108050 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
7107988 CCATTAAAAG
7107998 TTTTATTATTATT
1 TTTTATT-TTATT
7108011 TTTTATTTATATT
1 TTTTATTT-TATT
7108024 TTATTATTTTATT
1 TT-TTATTTTATT
*
7108037 ACTTTATTTATATT
1 -TTTTATTT-TATT
7108051 ACTTAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 1 0.03
13 23 0.66
14 11 0.31
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:7108029 original size:21 final size:22
Alignment explanation
Indices: 7108003--7108051 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
7107993 AAAAGTTTTA
7108003 TTATTATTTT-TTA-TTTATATT
1 TTATTATTTTATTACTTTAT-TT
7108024 TTATTATTTTATTACTTTATTT
1 TTATTATTTTATTACTTTATTT
*
7108046 ATATTA
1 TTATTA
7108052 CTTAATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 10 0.40
23 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTATTATTTTATTACTTTATTT
Found at i:7108033 original size:8 final size:8
Alignment explanation
Indices: 7108003--7108044 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
7107993 AAAAGTTTTA
7108003 TTATTATT
1 TTATTATT
7108011 TT-TTA-T
1 TTATTATT
7108017 TTA-TATT
1 TTATTATT
7108024 TTATTATT
1 TTATTATT
*
7108032 TTATTACT
1 TTATTATT
7108040 TTATT
1 TTATT
7108045 TATATTACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 5 0.17
7 7 0.23
8 18 0.60
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:7108050 original size:14 final size:14
Alignment explanation
Indices: 7108012--7108054 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
7108002 ATTATTATTT
*
7108012 TTTATTTATATT-T
1 TTTATTTATATTAC
7108025 TATTATTT-TATTAC
1 T-TTATTTATATTAC
7108039 TTTATTTATATTAC
1 TTTATTTATATTAC
7108053 TT
1 TT
7108055 AATAATTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTATTTATATTAC
Found at i:7108205 original size:3 final size:3
Alignment explanation
Indices: 7108197--7108249 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
7108187 CTTTACATAT
* *
7108197 TTA TTA TTA TTA TTA TTA TGTA TTA TTGC TTA TTA TTA -TA TAA TTTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TT-A TTA TTA TTA TTA TTA -TTA
7108244 TTA TTA
1 TTA TTA
7108250 AGCTTACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 2 0.05
3 33 0.79
4 7 0.17
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7114391 original size:2 final size:2
Alignment explanation
Indices: 7114384--7114412 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7114374 CCTTCTTTTC
7114384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7114413 TTGTTGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7119497 original size:17 final size:17
Alignment explanation
Indices: 7119475--7119510 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7119465 AGAACAGCCA
*
7119475 TTCCATGAAAATGTTGT
1 TTCCATGAAAAAGTTGT
7119492 TTCCATGAAAAAGTTGT
1 TTCCATGAAAAAGTTGT
7119509 TT
1 TT
7119511 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (17 bp):
TTCCATGAAAAAGTTGT
Found at i:7119533 original size:15 final size:15
Alignment explanation
Indices: 7119513--7119546 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7119503 AGTTGTTTAT
*
7119513 TAAATAATTATTCTG
1 TAAATAATTATTCTA
*
7119528 TAAATAGTTATTCTA
1 TAAATAATTATTCTA
7119543 TAAA
1 TAAA
7119547 AAAGTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (15 bp):
TAAATAATTATTCTA
Found at i:7122784 original size:14 final size:14
Alignment explanation
Indices: 7122737--7122791 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
7122727 GGGTCTAGAG
*
7122737 TTAGCTTTTAGGGT
1 TTAGCATTTAGGGT
*
7122751 TT--CATTTAGGTT
1 TTAGCATTTAGGGT
*
7122763 TTTG-ATTTAGGGT
1 TTAGCATTTAGGGT
7122776 TTAGCATTTAGGGT
1 TTAGCATTTAGGGT
7122790 TT
1 TT
7122792 GACTAAGATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 10 0.29
13 11 0.32
14 13 0.38
ACGTcount: A:0.16, C:0.05, G:0.25, T:0.53
Consensus pattern (14 bp):
TTAGCATTTAGGGT
Found at i:7124546 original size:17 final size:15
Alignment explanation
Indices: 7124524--7124557 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
7124514 ATGGTTTTTA
7124524 TCTATTGAATTTTAATT
1 TCTATTG-ATTTT-ATT
7124541 TCTATTGATTTTATT
1 TCTATTGATTTTATT
7124556 TC
1 TC
7124558 AAAATTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.62
Consensus pattern (15 bp):
TCTATTGATTTTATT
Found at i:7126866 original size:70 final size:70
Alignment explanation
Indices: 7126748--7126884 Score: 179
Period size: 70 Copynumber: 2.0 Consensus size: 70
7126738 CAAATATAAT
* * * * *
7126748 AAAAATTAAAATATACAAGTTTATACTGACGAGCGCTAACCGTAGGTATAGGTAAGAAAAATTAA
1 AAAAATTAAAACATACAAGTCTATAATGACGAGCGCTAACAGTAGGTATAGATAAGAAAAATTAA
7126813 AATAC
66 AATAC
* *
7126818 AAAAATTAAAACATATAAGTCTATAATGAC-AG-GCATTAACAGTTGGTATAGATAAGAAAAATT
1 AAAAATTAAAACATACAAGTCTATAATGACGAGCGC--TAACAGTAGGTATAGATAAGAAAAATT
7126881 AAAA
64 AAAA
7126885 ATATAAGTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 2 0.03
69 2 0.03
70 54 0.93
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (70 bp):
AAAAATTAAAACATACAAGTCTATAATGACGAGCGCTAACAGTAGGTATAGATAAGAAAAATTAA
AATAC
Found at i:7126966 original size:56 final size:55
Alignment explanation
Indices: 7126818--7126976 Score: 176
Period size: 55 Copynumber: 2.9 Consensus size: 55
7126808 ATTAAAATAC
* ** * *
7126818 AAAAATTAAAACATATAAGTCTATAATGACAGGCATTAACAGTTGGTATAGATAAG
1 AAAAATTAAAA-ATATAAGTCTATATTGACAGGTGTTAACAGTCGGTATAGATAAA
** ** *
7126874 AAAAATTAAAAATATAAGTCTATATTGATGGGTGTTAATTGTCGGTATAGGTAAA
1 AAAAATTAAAAATATAAGTCTATATTGACAGGTGTTAACAGTCGGTATAGATAAA
* *
7126929 AAAAATTAAAATATACAAGTCTATATTAACAGGTGTTAACCA-TCGGTA
1 AAAAATTAAAA-ATATAAGTCTATATTGACAGGTGTTAA-CAGTCGGTA
7126977 AAATATATAA
Statistics
Matches: 85, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
55 45 0.53
56 40 0.47
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.30
Consensus pattern (55 bp):
AAAAATTAAAAATATAAGTCTATATTGACAGGTGTTAACAGTCGGTATAGATAAA
Found at i:7128351 original size:20 final size:21
Alignment explanation
Indices: 7128328--7128366 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
7128318 AACTTTTAGG
7128328 TTGAGTTTTT-TT-TTTTTCCT
1 TTGA-TTTTTGTTATTTTTCCT
7128348 TTGATTTTTGTTATTTTTC
1 TTGATTTTTGTTATTTTTC
7128367 TTGCATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.08, C:0.08, G:0.10, T:0.74
Consensus pattern (21 bp):
TTGATTTTTGTTATTTTTCCT
Found at i:7132605 original size:4 final size:4
Alignment explanation
Indices: 7132585--7132655 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
7132575 ATATGTACAT
* * *
7132585 AATA AAAA AAT- AATA AATA AATA AGA-A AATC AATA AATA AA-A ATTAA
1 AATA AATA AATA AATA AATA AATA A-ATA AATA AATA AATA AATA AAT-A
7132632 AATA AATAA AATAA AATA AATA AA
1 AATA AAT-A AAT-A AATA AATA AA
7132656 ATACCAAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
3 6 0.11
4 36 0.65
5 13 0.24
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:7132619 original size:20 final size:19
Alignment explanation
Indices: 7132585--7132658 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 19
7132575 ATATGTACAT
7132585 AATAAAAAAATAATAAATA
1 AATAAAAAAATAATAAATA
*
7132604 AATAAGAAAATCAATAAATA
1 AATAAAAAAAT-AATAAATA
*
7132624 AA-AATTAAAATAAATAAAATAA
1 AATAA-AAAAAT-AAT-AAAT-A
7132646 AATAAATAAAATA
1 AATAAA-AAAATA
7132659 CCAAAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
19 12 0.27
20 18 0.40
21 4 0.09
22 4 0.09
23 7 0.16
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (19 bp):
AATAAAAAAATAATAAATA
Found at i:7132646 original size:14 final size:14
Alignment explanation
Indices: 7132585--7132658 Score: 71
Period size: 16 Copynumber: 4.9 Consensus size: 14
7132575 ATATGTACAT
7132585 AATAAA-AAAATAATA
1 AATAAATAAAAT-A-A
7132600 AATAAATAAGAA-AA
1 AATAAATAA-AATAA
7132614 TCAATAAATAAAAATTAA
1 --AATAAAT-AAAA-TAA
7132632 AATAAATAAAATAA
1 AATAAATAAAATAA
7132646 AATAAATAAAATA
1 AATAAATAAAATA
7132659 CCAAAATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
14 17 0.33
15 11 0.21
16 18 0.35
17 4 0.08
18 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:7133990 original size:13 final size:13
Alignment explanation
Indices: 7133957--7133994 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7133947 TGGCGGTATA
7133957 TATATTATT-TATT
1 TATATT-TTATATT
7133970 TA-ATTTTATATT
1 TATATTTTATATT
7133982 TATATTTTATATT
1 TATATTTTATATT
7133995 AAAAGTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 9 0.39
13 12 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTTTATATT
Found at i:7135771 original size:15 final size:15
Alignment explanation
Indices: 7135746--7135780 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7135736 CTTTTGGTAG
7135746 AATAT-ATTAAAAAT
1 AATATAATTAAAAAT
7135760 AATATAATTAAAAAT
1 AATATAATTAAAAAT
*
7135775 ATTATA
1 AATATA
7135781 CAAACGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATAATTAAAAAT
Found at i:7136554 original size:18 final size:18
Alignment explanation
Indices: 7136520--7136553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7136510 CCTCTTATTC
*
7136520 TAAAAAATATATATTTTA
1 TAAAAAATAAATATTTTA
7136538 TAAAAAATAAA-ATTTT
1 TAAAAAATAAATATTTT
7136554 TTTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAAATAAATATTTTA
Found at i:7145782 original size:13 final size:13
Alignment explanation
Indices: 7145750--7145786 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7145740 TGATAAGATC
*
7145750 TTTTAATTTATCGG
1 TTTTAATTT-TCGA
7145764 TTTTAATTTTCGA
1 TTTTAATTTTCGA
7145777 TTTTAATTTT
1 TTTTAATTTT
7145787 TATTTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (13 bp):
TTTTAATTTTCGA
Found at i:7150991 original size:69 final size:69
Alignment explanation
Indices: 7150880--7151017 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
7150870 AACTGACTTC
* ** *
7150880 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTGTCACTTGTGTTTTAGTGTAC
1 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
7150945 ATGG
66 ATGG
* * *
7150949 CAATCCTTTGGACTAACTTGGAAAAGAAATGGAAGAGTTCTACTATCACCAGTGTTTTAGCGTAT
1 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
7151014 ATGG
66 ATGG
7151018 TTATGGCATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (69 bp):
CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
ATGG
Found at i:7153613 original size:20 final size:19
Alignment explanation
Indices: 7153574--7153620 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
7153564 TAAAATCTCA
*
7153574 TTTTATTAATTTTTTTATT
1 TTTTATTAATTTTGTTATT
*
7153593 TTTTATTTATATTTGTTATT
1 TTTTATTAAT-TTTGTTATT
*
7153613 TATTATTA
1 TTTTATTA
7153621 TTATTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTAATTTTGTTATT
Found at i:7153625 original size:20 final size:19
Alignment explanation
Indices: 7153576--7153627 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
7153566 AAATCTCATT
*
7153576 TTATTAATT-TTTTTATTTT
1 TTATT-ATTATTTTTATTTA
7153595 TTATT-TATATTTGTTATTTA
1 TTATTAT-TATTT-TTATTTA
7153615 TTATTATTATTTT
1 TTATTATTATTTT
7153628 AATTACAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
17 1 0.04
18 1 0.04
19 9 0.32
20 16 0.57
21 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (19 bp):
TTATTATTATTTTTATTTA
Found at i:7153905 original size:14 final size:14
Alignment explanation
Indices: 7153864--7153957 Score: 82
Period size: 14 Copynumber: 6.8 Consensus size: 14
7153854 TTACTTGAGA
*
7153864 TTTTGATTTTAGGG
1 TTTTAATTTTAGGG
* **
7153878 TTTCAACCTTAGGG
1 TTTTAATTTTAGGG
*
7153892 TTTTAATTTCAGGG
1 TTTTAATTTTAGGG
* *
7153906 TTTTGATTTT-GAG
1 TTTTAATTTTAGGG
*
7153919 TTTCAATTTTAGGG
1 TTTTAATTTTAGGG
** *
7153933 TTTCGATTTTAGGA
1 TTTTAATTTTAGGG
7153947 TTTTAATTTTA
1 TTTTAATTTTA
7153958 AGATTTCGAT
Statistics
Matches: 61, Mismatches: 18, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
13 10 0.16
14 51 0.84
ACGTcount: A:0.20, C:0.06, G:0.20, T:0.53
Consensus pattern (14 bp):
TTTTAATTTTAGGG
Found at i:7153932 original size:27 final size:27
Alignment explanation
Indices: 7153891--7153942 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
7153881 CAACCTTAGG
* *
7153891 GTTTTAATTTCAGGGTTTTGATTTTGA
1 GTTTCAATTTCAGGGTTTCGATTTTGA
*
7153918 GTTTCAATTTTAGGGTTTCGATTTT
1 GTTTCAATTTCAGGGTTTCGATTTT
7153943 AGGATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.17, C:0.06, G:0.21, T:0.56
Consensus pattern (27 bp):
GTTTCAATTTCAGGGTTTCGATTTTGA
Found at i:7153962 original size:14 final size:14
Alignment explanation
Indices: 7153919--7153979 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
7153909 TGATTTTGAG
* *
7153919 TTTCAATTTTAGGG
1 TTTCAATTTTAAGA
* *
7153933 TTTCGATTTTAGGA
1 TTTCAATTTTAAGA
*
7153947 TTTTAATTTTAAGA
1 TTTCAATTTTAAGA
* *
7153961 TTTCGATTTTAAGG
1 TTTCAATTTTAAGA
7153975 TTTCA
1 TTTCA
7153980 TTTATCAAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (14 bp):
TTTCAATTTTAAGA
Found at i:7153969 original size:55 final size:56
Alignment explanation
Indices: 7153869--7153979 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 56
7153859 TGAGATTTTG
* * * * *
7153869 ATTTTAGGGTTTCAACCTTAGGGTTTTAATTTCAGGGTTTTGATTTTGA-GTTTCA
1 ATTTTAGGGTTTCAACCTTAGGATTTTAATTTCAAGATTTCGATTTTAAGGTTTCA
* ** *
7153924 ATTTTAGGGTTTCGATTTTAGGATTTTAATTTTAAGATTTCGATTTTAAGGTTTCA
1 ATTTTAGGGTTTCAACCTTAGGATTTTAATTTCAAGATTTCGATTTTAAGGTTTCA
7153980 TTTATCAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 40 0.87
56 6 0.13
ACGTcount: A:0.23, C:0.07, G:0.20, T:0.50
Consensus pattern (56 bp):
ATTTTAGGGTTTCAACCTTAGGATTTTAATTTCAAGATTTCGATTTTAAGGTTTCA
Found at i:7154215 original size:11 final size:9
Alignment explanation
Indices: 7154190--7154232 Score: 52
Period size: 8 Copynumber: 4.6 Consensus size: 9
7154180 ACATTTATCA
7154190 TTATTATTAT
1 TTATTATT-T
7154200 TTATTAATCTT
1 TTATT-AT-TT
7154211 TTATTATTT
1 TTATTATTT
7154220 TTATT-TTT
1 TTATTATTT
7154228 TTATT
1 TTATT
7154233 TAATAATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.26
9 7 0.23
10 7 0.23
11 8 0.26
12 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (9 bp):
TTATTATTT
Found at i:7154478 original size:3 final size:3
Alignment explanation
Indices: 7154450--7154509 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
7154440 TCCATATATG
* * * * *
7154450 TAT T-T TAT TAA TAT TGT TAG TAT TAT TAT TAC TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7154497 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
7154510 TCATGAAGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7154636 original size:34 final size:33
Alignment explanation
Indices: 7154551--7154655 Score: 124
Period size: 34 Copynumber: 3.2 Consensus size: 33
7154541 ACATTACATG
* *
7154551 AAAATAAACTAAGGCATGAAAGCTTAAATTGCAT
1 AAAATAAACTAAGGCATGAAAG-ATAAGTTGCAT
* *
7154585 AAAATCAA--AATGCATGAAAGATAAGTTGCATT
1 AAAATAAACTAAGGCATGAAAGATAAGTTGCA-T
*
7154617 AAAATAAACTAAGGCATGAAAGATTAGATTGCAT
1 AAAATAAACTAAGGCATGAAAGATAAG-TTGCAT
7154651 AAAAT
1 AAAAT
7154656 CAAAGTAATC
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
31 8 0.13
32 19 0.32
34 28 0.47
35 5 0.08
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (33 bp):
AAAATAAACTAAGGCATGAAAGATAAGTTGCAT
Found at i:7155663 original size:1 final size:1
Alignment explanation
Indices: 7155613--7155646 Score: 68
Period size: 1 Copynumber: 34.0 Consensus size: 1
7155603 ATTCTGCTTG
7155613 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7155647 CTGGTTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7156233 original size:18 final size:19
Alignment explanation
Indices: 7156201--7156239 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
7156191 TAGTGTTTGC
7156201 ATTTATTTATTATATATTT
1 ATTTATTTATTATATATTT
*
7156220 ATTTATTT-TTATATGTTT
1 ATTTATTTATTATATATTT
7156238 AT
1 AT
7156240 ATGTTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
ATTTATTTATTATATATTT
Found at i:7156241 original size:26 final size:26
Alignment explanation
Indices: 7156202--7156292 Score: 67
Period size: 31 Copynumber: 3.3 Consensus size: 26
7156192 AGTGTTTGCA
*
7156202 TTTATTTA-TTATATATTTATTTATT
1 TTTATATATTTATATATTTATTTATT
* *
7156227 TTTATATGTTTATATGTTTATATTTATT
1 TTTATATATTTATAT-ATT-TATTTATT
* *
7156255 TGACATATATATTATATATATTTTATTTGTT
1 T---TTATATATT-TATATA-TTTATTTATT
7156286 TTTATAT
1 TTTATAT
7156293 TTTTGTTCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 13
0.70 0.11 0.18
Matches are distributed among these distances:
25 6 0.12
26 6 0.12
27 2 0.04
28 14 0.28
31 15 0.30
32 7 0.14
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTATATATTTATATATTTATTTATT
Found at i:7156342 original size:19 final size:19
Alignment explanation
Indices: 7156320--7156361 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
7156310 TAATTTTGAT
7156320 TTTTAATT-TATTTTTTCAA
1 TTTTAATTATATTTTTT-AA
7156339 TTTT-ATTATATTTTTTAA
1 TTTTAATTATATTTTTTAA
7156357 TTTTA
1 TTTTA
7156362 TACATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATTATATTTTTTAA
Found at i:7156347 original size:17 final size:18
Alignment explanation
Indices: 7156327--7156362 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7156317 GATTTTTAAT
7156327 TTAT-TTTTTCAATTTTA
1 TTATATTTTTCAATTTTA
*
7156344 TTATATTTTTTAATTTTA
1 TTATATTTTTCAATTTTA
7156362 T
1 T
7156363 ACATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTATATTTTTCAATTTTA
Found at i:7156368 original size:17 final size:19
Alignment explanation
Indices: 7156329--7156369 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
7156319 TTTTTAATTT
*
7156329 ATTTTTTCAATTTTATTAT
1 ATTTTTTCAATTTTATTAC
7156348 ATTTTTT-AATTTTA-TAC
1 ATTTTTTCAATTTTATTAC
7156365 ATTTT
1 ATTTT
7156370 AATTTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTCAATTTTATTAC
Found at i:7156689 original size:11 final size:10
Alignment explanation
Indices: 7156673--7156729 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
7156663 CCAAGGGGCA
7156673 TTTTTTTATTG
1 TTTTTTT-TTG
7156684 TTTTTTTTTTG
1 -TTTTTTTTTG
*
7156695 TTTGTTTTTG
1 TTTTTTTTTG
*
7156705 CTTTTTTTT-
1 TTTTTTTTTG
**
7156714 TTTAATTTTG
1 TTTTTTTTTG
7156724 TTTTTT
1 TTTTTT
7156730 AAAAAAGTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 6 0.17
10 20 0.56
11 3 0.08
12 7 0.19
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:7156702 original size:25 final size:24
Alignment explanation
Indices: 7156674--7156730 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
7156664 CAAGGGGCAT
7156674 TTTTTTATTGTTTTTTTTT-TGTTTG
1 TTTTTTATT-TTTTTTTTTAT-TTTG
**
7156699 TTTTTGCTTTTTTTTTTTAATTTTG
1 TTTTTTATTTTTTTTTTT-ATTTTG
7156724 TTTTTTA
1 TTTTTTA
7156731 AAAAAGTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 9 0.35
25 16 0.62
26 1 0.04
ACGTcount: A:0.07, C:0.02, G:0.09, T:0.82
Consensus pattern (24 bp):
TTTTTTATTTTTTTTTTTATTTTG
Found at i:7156722 original size:19 final size:19
Alignment explanation
Indices: 7156686--7156729 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7156676 TTTTATTGTT
**
7156686 TTTTTTTTGTTTGTTTTTG
1 TTTTTTTTGTTTAATTTTG
7156705 CTTTTTTTT-TTTAATTTTG
1 -TTTTTTTTGTTTAATTTTG
7156724 TTTTTT
1 TTTTTT
7156730 AAAAAAGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 8 0.36
20 8 0.36
ACGTcount: A:0.05, C:0.02, G:0.09, T:0.84
Consensus pattern (19 bp):
TTTTTTTTGTTTAATTTTG
Found at i:7158769 original size:20 final size:20
Alignment explanation
Indices: 7158731--7158768 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7158721 CCGCTTATTC
* *
7158731 TAAAAAATATATATATTTTA
1 TAAAAAATAAAAATATTTTA
7158751 TAAAAAATAAAAAT-TTTT
1 TAAAAAATAAAAATATTTT
7158769 TTATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAAAAATAAAAATATTTTA
Found at i:7161860 original size:2 final size:2
Alignment explanation
Indices: 7161853--7161898 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
7161843 CAAAGACTTC
7161853 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7161895 CT CT
1 CT CT
7161899 TTTCTCTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7173234 original size:69 final size:69
Alignment explanation
Indices: 7173123--7173260 Score: 213
Period size: 69 Copynumber: 2.0 Consensus size: 69
7173113 AACTGACTTC
* ** *
7173123 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTGTCACTTGTGTTTTAGTGTAC
1 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
7173188 ATGG
66 ATGG
* * *
7173192 CAATCCTTTGGACTAACTTGGAAAAGAAATGGAAGAGTTCTACTATCACCAGTGTTTTAGCGTAT
1 CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
7173257 ATGG
66 ATGG
7173261 TTAAGGCATT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (69 bp):
CAATCCTTTAGACTAACTTGGAAAAGAAATGGAAAAGTTCTACTATCACCAGTGTTTTAGCGTAC
ATGG
Found at i:7174044 original size:24 final size:23
Alignment explanation
Indices: 7173992--7174044 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
7173982 CTCAAAGTTA
**
7173992 AATTAAAT-AAATAAAAATATTTT
1 AATT-AATCAAATAAAAATATAGT
7174015 AATTAATCAAATAAATAATATAGT
1 AATTAATCAAATAAA-AATATAGT
*
7174039 ACTTAA
1 AATTAA
7174045 GCTTCAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 11 0.44
24 11 0.44
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (23 bp):
AATTAATCAAATAAAAATATAGT
Found at i:7175838 original size:7 final size:7
Alignment explanation
Indices: 7175826--7175865 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
7175816 CATTTTATTA
7175826 ATTTTTT
1 ATTTTTT
7175833 ATTTTTT
1 ATTTTTT
7175840 ATTTTTAT
1 ATTTTT-T
*
7175848 ATTTGTT
1 ATTTTTT
7175855 ATTTTATT
1 ATTTT-TT
7175863 ATT
1 ATT
7175866 ATTATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 18 0.62
8 11 0.38
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (7 bp):
ATTTTTT
Found at i:7175843 original size:23 final size:25
Alignment explanation
Indices: 7175817--7175871 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 25
7175807 TTAAAATCTC
*
7175817 ATTTTATTA-ATTTTTTATTTT-TT
1 ATTTTATTATATTTGTTATTTTATT
7175840 A-TTT-TTATATTTGTTATTTTATT
1 ATTTTATTATATTTGTTATTTTATT
7175863 ATTATTATT
1 ATT-TTATT
7175872 TTAATTACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 14 0.54
23 4 0.15
24 1 0.04
25 2 0.08
26 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (25 bp):
ATTTTATTATATTTGTTATTTTATT
Found at i:7175850 original size:15 final size:14
Alignment explanation
Indices: 7175826--7175865 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
7175816 CATTTTATTA
*
7175826 ATTTTTTATTTTTT
1 ATTTTTTATTTGTT
7175840 ATTTTTATATTTGTT
1 ATTTTT-TATTTGTT
7175855 ATTTTATTATT
1 ATTTT-TTATT
7175866 ATTATTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 16 0.70
16 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
ATTTTTTATTTGTT
Found at i:7176726 original size:3 final size:3
Alignment explanation
Indices: 7176698--7176757 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
7176688 TCCATATATG
* * * * *
7176698 TAT T-T TAT TAA TAT TGT TAG TAT TAT TAT TAC TAT TAT TAT TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7176745 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
7176758 TCATGAAGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:7176886 original size:34 final size:33
Alignment explanation
Indices: 7176799--7176903 Score: 115
Period size: 34 Copynumber: 3.2 Consensus size: 33
7176789 ACATTACATG
* *
7176799 AAAATAAACTAAGGCATGAAAGCTTAAATTGCAT
1 AAAATAAACTAAGGCATGAAAG-ATAAGTTGCAT
* *
7176833 AAAATCAA--AATGCATGAAAGATAAGTTGCATT
1 AAAATAAACTAAGGCATGAAAGATAAGTTGCA-T
* *
7176865 AAAATAAACTAAGGCTTGAAAGATTAGATTGCAT
1 AAAATAAACTAAGGCATGAAAGATAAG-TTGCAT
7176899 AAAAT
1 AAAAT
7176904 CAAAGTAATC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
31 8 0.14
32 19 0.32
34 27 0.46
35 5 0.08
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (33 bp):
AAAATAAACTAAGGCATGAAAGATAAGTTGCAT
Found at i:7177677 original size:24 final size:24
Alignment explanation
Indices: 7177655--7177705 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
7177645 TCTTTTTTTT
*
7177655 TGCTGCACCGTTTCTGTTCTTTTAC
1 TGCT-CACCGTTTCTATTCTTTTAC
*
7177680 TGCTCACTGTTTCTATTCTTTT-C
1 TGCTCACCGTTTCTATTCTTTTAC
7177703 TGC
1 TGC
7177706 GATTTTCCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.08, C:0.27, G:0.14, T:0.51
Consensus pattern (24 bp):
TGCTCACCGTTTCTATTCTTTTAC
Found at i:7177884 original size:28 final size:28
Alignment explanation
Indices: 7177852--7177906 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
7177842 CTGCTTGTTT
7177852 TCTTTTCTGGTTTCCCTTTTTTTTTTGC
1 TCTTTTCTGGTTTCCCTTTTTTTTTTGC
* ***
7177880 TCTTTTTTGGTTTTTGTTTTTTTTTTG
1 TCTTTTCTGGTTTCCCTTTTTTTTTTG
7177907 GTTTTACGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.75
Consensus pattern (28 bp):
TCTTTTCTGGTTTCCCTTTTTTTTTTGC
Found at i:7177893 original size:17 final size:18
Alignment explanation
Indices: 7177873--7177911 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7177863 TTCCCTTTTT
7177873 TTTTTG-CTCTTTTTTGG
1 TTTTTGTCTCTTTTTTGG
* *
7177890 TTTTTGTTTTTTTTTTGG
1 TTTTTGTCTCTTTTTTGG
7177908 TTTT
1 TTTT
7177912 ACGGCCCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.00, C:0.05, G:0.15, T:0.79
Consensus pattern (18 bp):
TTTTTGTCTCTTTTTTGG
Found at i:7178427 original size:10 final size:10
Alignment explanation
Indices: 7178414--7178438 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7178404 GTGTTGCATT
7178414 TATTTATTTA
1 TATTTATTTA
7178424 TATTTATTTA
1 TATTTATTTA
7178434 TATTT
1 TATTT
7178439 TATATGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTTATTTA
Found at i:7178450 original size:15 final size:15
Alignment explanation
Indices: 7178430--7178464 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7178420 TTTATATTTA
7178430 TTTATATTTTATATG
1 TTTATATTTTATATG
7178445 TTTATATGTTTATAT-
1 TTTATAT-TTTATATG
7178460 TTTAT
1 TTTAT
7178465 TTGTACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTATATTTTATATG
Found at i:7178460 original size:23 final size:23
Alignment explanation
Indices: 7178428--7178482 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
7178418 TATTTATATT
**
7178428 TATTTATATTTTATATGTTTATA
1 TATTTATATTTTATATGTACATA
* *
7178451 TGTTTATATTTTATTTGTACATA
1 TATTTATATTTTATATGTACATA
7178474 TATTTATAT
1 TATTTATAT
7178483 ATATTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTTATATTTTATATGTACATA
Found at i:7178484 original size:8 final size:8
Alignment explanation
Indices: 7178411--7178484 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
7178401 TTAGTGTTGC
*
7178411 ATTTATTT
1 ATTTATAT
7178419 ATTTATATTT
1 ATTTATA--T
7178429 ATTTATAT
1 ATTTATAT
7178437 -TTTATAT
1 ATTTATAT
*
7178444 GTTTATAT
1 ATTTATAT
*
7178452 GTTTATAT
1 ATTTATAT
*
7178460 -TTTATTT
1 ATTTATAT
* **
7178467 GTACATAT
1 ATTTATAT
7178475 ATTTATAT
1 ATTTATAT
7178483 AT
1 AT
7178485 ATTTTATTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
7 13 0.24
8 33 0.61
10 8 0.15
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (8 bp):
ATTTATAT
Found at i:7178502 original size:27 final size:25
Alignment explanation
Indices: 7178412--7178505 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 25
7178402 TAGTGTTGCA
*
7178412 TTTATTT-ATTTATATTTATTTATAT
1 TTTATTTGTTTTATATTTA-TTATAT
* *
7178437 TTTATATG-TTTATATGT-TTATAT
1 TTTATTTGTTTTATATTTATTATAT
**
7178460 TTTATTTGTACATATATTTATATATAT
1 TTTATTTGT-TTTATATTTAT-TATAT
7178487 TTTATTTGTTTTTATATTT
1 TTTATTTG-TTTTATATTT
7178506 TTGTTCTTCA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
23 13 0.24
25 20 0.36
26 1 0.02
27 20 0.36
28 1 0.02
ACGTcount: A:0.27, C:0.01, G:0.04, T:0.68
Consensus pattern (25 bp):
TTTATTTGTTTTATATTTATTATAT
Found at i:7178553 original size:19 final size:20
Alignment explanation
Indices: 7178531--7178573 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
7178521 TAATTTTGAT
*
7178531 TTTTAAT-TTATTTTTTCAA
1 TTTTAATATAATTTTTTCAA
*
7178550 TTTT-ATATAATTTTTTTAA
1 TTTTAATATAATTTTTTCAA
7178569 TTTTA
1 TTTTA
7178574 TACATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTAATATAATTTTTTCAA
Found at i:7178619 original size:12 final size:12
Alignment explanation
Indices: 7178602--7178629 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7178592 GTTTATATAT
7178602 TTATTATGATTA
1 TTATTATGATTA
7178614 TTATTATGATTA
1 TTATTATGATTA
7178626 TTAT
1 TTAT
7178630 GGTCATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (12 bp):
TTATTATGATTA
Found at i:7179405 original size:35 final size:35
Alignment explanation
Indices: 7179198--7179405 Score: 125
Period size: 35 Copynumber: 5.9 Consensus size: 35
7179188 GATCGGGACG
* *
7179198 AAATTGCAAGTTAAAAAATAAAGATGACTAAGACT-
1 AAATCGCAAGTCAAAAAATAAAGATGACTAAGA-TA
** ** * * * *
7179233 AAGCCTTAAGTTAGAAAATAAAAATGACTAGGATA
1 AAATCGCAAGTCAAAAAATAAAGATGACTAAGATA
* * * * *
7179268 AAA-CTGCTAGT-AAATAAATCAAGATGATTATGATG
1 AAATC-GCAAGTCAAA-AAATAAAGATGACTAAGATA
* * * ** *
7179303 AAATGGCAAGTTAAAAAATAACGATGACCGAGACA
1 AAATCGCAAGTCAAAAAATAAAGATGACTAAGATA
* * * *
7179338 AAATCGTAAGTCATAAAATAAAGATAATTAAGATA
1 AAATCGCAAGTCAAAAAATAAAGATGACTAAGATA
* *
7179373 AAATCACAAGTCAGAAAATAAAGATGACTAAGA
1 AAATCGCAAGTCAAAAAATAAAGATGACTAAGA
7179406 CTAAGCCATA
Statistics
Matches: 125, Mismatches: 43, Indels: 10
0.70 0.24 0.06
Matches are distributed among these distances:
34 4 0.03
35 118 0.94
36 3 0.02
ACGTcount: A:0.53, C:0.10, G:0.16, T:0.22
Consensus pattern (35 bp):
AAATCGCAAGTCAAAAAATAAAGATGACTAAGATA
Found at i:7179478 original size:35 final size:35
Alignment explanation
Indices: 7179345--7179479 Score: 110
Period size: 35 Copynumber: 3.9 Consensus size: 35
7179335 ACAAAATCGT
* * * * * *
7179345 AAGTCATAAAATAAAGATAATTAAGATAAAATCAC
1 AAGTCAGAAAATAAAAATAACTGAGATGAAGTCAC
* * * * *
7179380 AAGTCAGAAAATAAAGATGACTAAGACT-AAGCCAT
1 AAGTCAGAAAATAAAAATAACTGAGA-TGAAGTCAC
* * * *
7179415 AAGTCAAAAAATAAAATTAATTGGGATGAAGTCAC
1 AAGTCAGAAAATAAAAATAACTGAGATGAAGTCAC
*
7179450 AAGTCAGAAAATAAAAAAAACTGAGATGAA
1 AAGTCAGAAAATAAAAATAACTGAGATGAA
7179480 ATCTTAAGTA
Statistics
Matches: 78, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
34 1 0.01
35 76 0.97
36 1 0.01
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (35 bp):
AAGTCAGAAAATAAAAATAACTGAGATGAAGTCAC
Found at i:7179488 original size:70 final size:70
Alignment explanation
Indices: 7179333--7179504 Score: 177
Period size: 70 Copynumber: 2.5 Consensus size: 70
7179323 ACGATGACCG
* * * * *
7179333 AGACAAAATCGTAAGTCATAAAATAAAGATAATTAAGATAAAATCACAAGTCAGAAAATAAAGAT
1 AGACTAAATCATAAGTCAAAAAATAAAGATAATTAAGATAAAATCACAAGTCAGAAAATAAAAAA
*
7179398 GACTA
66 AACTA
** ** * *
7179403 AGACTAAGCCATAAGTCAAAAAATAAA-ATTAATTGGGATGAAGTCACAAGTCAGAAAATAAAAA
1 AGACTAAATCATAAGTCAAAAAATAAAGA-TAATTAAGATAAAATCACAAGTCAGAAAATAAAAA
*
7179467 AAACTG
65 AAACTA
* *
7179473 AGA-TGAAATCTTAAGTAAAAAAATAAAGATAA
1 AGACT-AAATCATAAGTCAAAAAATAAAGATAA
7179505 AATAAAAGAT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
69 2 0.02
70 79 0.96
71 1 0.01
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (70 bp):
AGACTAAATCATAAGTCAAAAAATAAAGATAATTAAGATAAAATCACAAGTCAGAAAATAAAAAA
AACTA
Found at i:7179726 original size:34 final size:34
Alignment explanation
Indices: 7179611--7179772 Score: 173
Period size: 35 Copynumber: 4.7 Consensus size: 34
7179601 AAGACAAAAT
*
7179611 TATAAGTTAGAAAACAAAGATGATTGAGATGAAAC
1 TATAAGTTAGAAAATAAAGATGATTG-GATGAAAC
** * *
7179646 TGCAAGTTAGAAAATAAAGATGACTAGGATGAAAT
1 TATAAGTTAGAAAATAAAGATGA-TTGGATGAAAC
* *
7179681 TGTAAGTTAGAAAATAAAAATGATTGGACT-AAAC
1 TATAAGTTAGAAAATAAAGATGATTGGA-TGAAAC
* *
7179715 CATAAGTTAGAAAATAAAGATGACTGGAATGAAAC
1 TATAAGTTAGAAAATAAAGATGATTGG-ATGAAAC
* * *
7179750 TACAAGTCAAAAAATAAAGATGA
1 TATAAGTTAGAAAATAAAGATGA
7179773 CCGGGATTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
34 31 0.29
35 73 0.69
36 2 0.02
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (34 bp):
TATAAGTTAGAAAATAAAGATGATTGGATGAAAC
Found at i:7179747 original size:69 final size:70
Alignment explanation
Indices: 7179607--7179748 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 70
7179597 ATCGAAGACA
* **
7179607 AAATTATAAGTTAGAAAACAAAGATGATTGAGATGAAACTGCAAGTTAGAAAATAAAGATGACTA
1 AAATTATAAGTTAGAAAACAAAAATGATTGAGATGAAACCACAAGTTAGAAAATAAAGATGACTA
7179672 GGATG
66 GGATG
* * *
7179677 AAATTGTAAGTTAGAAAATAAAAATGATTG-GACT-AAACCATAAGTTAGAAAATAAAGATGACT
1 AAATTATAAGTTAGAAAACAAAAATGATTGAGA-TGAAACCACAAGTTAGAAAATAAAGATGACT
7179740 -GGAATG
65 AGG-ATG
7179746 AAA
1 AAA
7179749 CTACAAGTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
68 2 0.03
69 34 0.53
70 28 0.44
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.23
Consensus pattern (70 bp):
AAATTATAAGTTAGAAAACAAAAATGATTGAGATGAAACCACAAGTTAGAAAATAAAGATGACTA
GGATG
Found at i:7180936 original size:22 final size:22
Alignment explanation
Indices: 7180910--7180952 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7180900 TTTTTTTTTT
7180910 TTCCTTT-TTTCCTTCGTTCTTC
1 TTCCTTTCTTT-CTTCGTTCTTC
*
7180932 TTCCTTTCTTTCTTCTTTCTT
1 TTCCTTTCTTTCTTCGTTCTT
7180953 TCATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.67
Consensus pattern (22 bp):
TTCCTTTCTTTCTTCGTTCTTC
Found at i:7180946 original size:15 final size:15
Alignment explanation
Indices: 7180926--7180972 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
7180916 TTTTCCTTCG
7180926 TTCTTCTTCCTTTCT
1 TTCTTCTTCCTTTCT
*
7180941 TTCTTCTTTCTTTCAT
1 TTCTTCTTCCTTTC-T
7180957 TT-TT-TTCCTTTACT
1 TTCTTCTTCCTTT-CT
7180971 TT
1 TT
7180973 TCCTTTTTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
14 9 0.32
15 16 0.57
16 3 0.11
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTTCTTCCTTTCT
Found at i:7181324 original size:10 final size:10
Alignment explanation
Indices: 7181309--7181357 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
7181299 AAAATTCTCC
7181309 TCTTTCTTTT
1 TCTTTCTTTT
7181319 TCTTTCTTTT
1 TCTTTCTTTT
* *
7181329 TGTCTCTTTT
1 TCTTTCTTTT
* *
7181339 TTTTTATTTT
1 TCTTTCTTTT
7181349 ATCTTTCTT
1 -TCTTTCTT
7181358 GACTTTTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 25 0.81
11 6 0.19
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:7181398 original size:14 final size:15
Alignment explanation
Indices: 7181361--7181393 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7181351 CTTTCTTGAC
*
7181361 TTTTCATTCT-GGCT
1 TTTTCATTTTGGGCT
7181375 TTTTCATTTTGGGCT
1 TTTTCATTTTGGGCT
7181390 TTTT
1 TTTT
7181394 TTTTTCTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (15 bp):
TTTTCATTTTGGGCT
Found at i:7186898 original size:22 final size:22
Alignment explanation
Indices: 7186858--7186900 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7186848 TTCAACTTGG
* *
7186858 AGGATTTATAAATTTTGCTTAA
1 AGGATTTAGAAATTATGCTTAA
*
7186880 AGGATTTAGAGATTATGCTTA
1 AGGATTTAGAAATTATGCTTA
7186901 GAAGTCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.42
Consensus pattern (22 bp):
AGGATTTAGAAATTATGCTTAA
Found at i:7187666 original size:74 final size:72
Alignment explanation
Indices: 7187577--7187804 Score: 258
Period size: 74 Copynumber: 3.1 Consensus size: 72
7187567 TAATTTGAGC
* * * * *
7187577 TTAAAGTGCCAACTAAACTGGGCTTAAAATTTGGGTGCCAACTAATCGAGACTTAGGTGCTAGCT
1 TTAAAGTGTCAACTAAATTGGGCTTAAAATTTGGGTGCCAGCTAATAGAGGCTTAGGTG-TAGCT
7187642 AATCTAGG
65 AATCTAGG
* * * * * *
7187650 TTTAAAGTGTCAACTAATTTGGACTTAAAATTTGAGTGCCAGCTAATATAGGTTTAAAGTGTCAG
1 -TTAAAGTGTCAACTAAATTGGGCTTAAAATTTGGGTGCCAGCTAATAGAGGCTT-AGGTGT-AG
7187715 CTAATCTGAGG
63 CTAATCT-AGG
* * *
7187726 TTAAAGTGTCAGCTAAATTGGGTTTAAAATTTGGGTGCCAGCTAATTGAGGCTTAGGTGTTAGCT
1 TTAAAGTGTCAACTAAATTGGGCTTAAAATTTGGGTGCCAGCTAATAGAGGCTTAGGTG-TAGCT
*
7187791 AATCTTGG
65 AATCTAGG
7187799 CTTAAA
1 -TTAAA
7187805 ATTTGGGTGC
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
73 2 0.02
74 63 0.49
75 60 0.47
76 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (72 bp):
TTAAAGTGTCAACTAAATTGGGCTTAAAATTTGGGTGCCAGCTAATAGAGGCTTAGGTGTAGCTA
ATCTAGG
Found at i:7187752 original size:23 final size:24
Alignment explanation
Indices: 7187684--7187753 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 24
7187674 TTAAAATTTG
* *
7187684 AGTGCCAGCTAATAT-AGGTTTAA
1 AGTGTCAGCTAATCTGAGGTTTAA
7187707 AGTGTCAGCTAATCTGAGG-TTAA
1 AGTGTCAGCTAATCTGAGGTTTAA
7187730 AGTGTCAGCTAAAT-TG-GGTTTAA
1 AGTGTCAGCT-AATCTGAGGTTTAA
7187753 A
1 A
7187754 ATTTGGGTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.05
23 34 0.81
24 6 0.14
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (24 bp):
AGTGTCAGCTAATCTGAGGTTTAA
Found at i:7187791 original size:51 final size:51
Alignment explanation
Indices: 7187712--7187832 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 51
7187702 TTTAAAGTGT
* *
7187712 CAGCTAATCTGAGG-TTAAAGTGTCAGCTAAAT-TGGGTTTAAAATTTGGGTGC
1 CAGCTAAT-TGAGGCTT-AGGTGTCAGCT-AATCTGGGCTTAAAATTTGGGTGC
* *
7187764 CAGCTAATTGAGGCTTAGGTGTTAGCTAATCTTGGCTTAAAATTTGGGTGC
1 CAGCTAATTGAGGCTTAGGTGTCAGCTAATCTGGGCTTAAAATTTGGGTGC
*
7187815 CAACTAATTTG-GGCTTAG
1 CAGCTAA-TTGAGGCTTAG
7187833 TTGCTTGCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
50 3 0.05
51 45 0.74
52 13 0.21
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (51 bp):
CAGCTAATTGAGGCTTAGGTGTCAGCTAATCTGGGCTTAAAATTTGGGTGC
Found at i:7193348 original size:109 final size:110
Alignment explanation
Indices: 7193156--7193384 Score: 388
Period size: 109 Copynumber: 2.1 Consensus size: 110
7193146 AAGTAACAGT
* * *
7193156 TTCTGGCCCACCTTTCATTCCATGCCATCCATACCTTACATATATACCCTACTATCCATCTACCA
1 TTCTGACCCACATTTCATTCCATGCCATCCATACCTTACATATACACCCTACTATCCATCTACCA
*
7193221 ACTAGATATCCCAAGTGCCATACCATACACACATATCAGCCCAAC
66 ACTAGATATCCCAAGTGCCATACCATACACACATATCAACCCAAC
* * *
7193266 TTCTGACCCACATTTCATTCCATGCCATCCA-ACCTTACATATACACCTTACTGTCCATTTACCA
1 TTCTGACCCACATTTCATTCCATGCCATCCATACCTTACATATACACCCTACTATCCATCTACCA
7193330 ACTAGATATCCCAAGTGCCATACCATACACACATATCAACCCAAC
66 ACTAGATATCCCAAGTGCCATACCATACACACATATCAACCCAAC
7193375 TTCTGACCCA
1 TTCTGACCCA
7193385 AAGTTCCCCA
Statistics
Matches: 112, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
109 83 0.74
110 29 0.26
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.27
Consensus pattern (110 bp):
TTCTGACCCACATTTCATTCCATGCCATCCATACCTTACATATACACCCTACTATCCATCTACCA
ACTAGATATCCCAAGTGCCATACCATACACACATATCAACCCAAC
Found at i:7199321 original size:10 final size:9
Alignment explanation
Indices: 7199299--7199365 Score: 59
Period size: 8 Copynumber: 7.7 Consensus size: 9
7199289 TATTATGCTT
7199299 AAAAAAAT-
1 AAAAAAATA
7199307 AAAAAAATA
1 AAAAAAATA
*
7199316 ACAAAAATA
1 AAAAAAATA
7199325 AATAAAAATA
1 AA-AAAAATA
*
7199335 AATAAAATA
1 AAAAAAATA
* *
7199344 ACAACAA-A
1 AAAAAAATA
*
7199352 AAAGAAA-A
1 AAAAAAATA
7199360 AAAAAA
1 AAAAAA
7199366 GAAAGAAGGA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
8 19 0.40
9 19 0.40
10 9 0.19
ACGTcount: A:0.84, C:0.04, G:0.01, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:7199331 original size:19 final size:17
Alignment explanation
Indices: 7199298--7199365 Score: 61
Period size: 19 Copynumber: 4.0 Consensus size: 17
7199288 ATATTATGCT
7199298 TAAAAAAAT-AAAAAAA
1 TAAAAAAATAAAAAAAA
7199314 TAACAAAAATAAATAAAAA
1 TAA-AAAAATAAA-AAAAA
* *
7199333 TAAATAAAATAACAACAA
1 TAAA-AAAATAAAAAAAA
*
7199351 -AAAAGAA-AAAAAAAA
1 TAAAAAAATAAAAAAAA
7199366 GAAAGAAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 6 0.14
16 6 0.14
17 9 0.21
18 7 0.16
19 15 0.35
ACGTcount: A:0.82, C:0.04, G:0.01, T:0.12
Consensus pattern (17 bp):
TAAAAAAATAAAAAAAA
Found at i:7199341 original size:28 final size:27
Alignment explanation
Indices: 7199301--7199365 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 27
7199291 TTATGCTTAA
*
7199301 AAAAATAAAAAAATAACAA-AAATAAAT
1 AAAAATAAAAAAATAACAACAAA-AAAG
7199328 AAAAATAAATAAAATAACAACAAAAAAG
1 AAAAATAAA-AAAATAACAACAAAAAAG
7199356 AAAAA-AAAAA
1 AAAAATAAAAA
7199366 GAAAGAAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 18 0.51
29 3 0.09
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.11
Consensus pattern (27 bp):
AAAAATAAAAAAATAACAACAAAAAAG
Found at i:7199363 original size:31 final size:27
Alignment explanation
Indices: 7199299--7199362 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
7199289 TATTATGCTT
*
7199299 AAAAAAATAAAAAAATAACAAAAATAA
1 AAAAAAATAAAAAAATAACAAAAAAAA
*
7199326 ATAAAAATAAATAAAATAACAACAAAAAA
1 AAAAAAATAAA-AAAATAACAA-AAAAAA
7199355 GAAAAAAA
1 -AAAAAAA
7199363 AAAGAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 10 0.32
29 5 0.16
30 6 0.19
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.11
Consensus pattern (27 bp):
AAAAAAATAAAAAAATAACAAAAAAAA
Found at i:7200056 original size:14 final size:14
Alignment explanation
Indices: 7200027--7200080 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
7200017 GACAGAAATA
7200027 AATG-ATGAATAT-G
1 AATGAATGAA-ATGG
7200040 AATGAATGAAATGG
1 AATGAATGAAATGG
7200054 AATGAAGTG-AATGGG
1 AATGAA-TGAAAT-GG
7200069 AA-GAATGAAATG
1 AATGAATGAAATG
7200081 ATGAAAGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (14 bp):
AATGAATGAAATGG
Found at i:7200215 original size:18 final size:18
Alignment explanation
Indices: 7200192--7200226 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7200182 GACAAACAAT
7200192 TTAAACTCTATAAAAAAG
1 TTAAACTCTATAAAAAAG
7200210 TTAAACTCTATAAAAAA
1 TTAAACTCTATAAAAAA
7200227 AAGAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
TTAAACTCTATAAAAAAG
Done.