Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 97 of 135
Found at i:36194696 original size:13 final size:13
Alignment explanation
Indices: 36194672--36194710 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
36194662 TTGAGTCAAA
*
36194672 AAAATAAAAAATG
1 AAAATGAAAAATG
*
36194685 AGAATGAAAAATG
1 AAAATGAAAAATG
36194698 AAAATGAAAAATG
1 AAAATGAAAAATG
36194711 GAGAGGCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:36195896 original size:44 final size:42
Alignment explanation
Indices: 36195821--36195925 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 42
36195811 GGACACTATC
* ** *
36195821 CTATCTCCCTGAAGTTATAGTGGAGAGGGTTAAAATAAAGGATT
1 CTATCTCCCTGAAGTTACAGCAGAGAGGGTT-AAATAAA-GACT
* * *
36195865 CTATCTCTCTGAAGTTACAGCAGAGCA-GGTTACATAAAGCCT
1 CTATCTCCCTGAAGTTACAGCAGAG-AGGGTTAAATAAAGACT
36195907 -TATCTCCCTGAAGTTACAG
1 CTATCTCCCTGAAGTTACAG
36195926 TGGGGCTGGT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 18 0.35
42 2 0.04
43 6 0.12
44 25 0.48
45 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (42 bp):
CTATCTCCCTGAAGTTACAGCAGAGAGGGTTAAATAAAGACT
Found at i:36196005 original size:46 final size:46
Alignment explanation
Indices: 36195948--36196329 Score: 181
Period size: 44 Copynumber: 8.6 Consensus size: 46
36195938 AATATGCAAG
36195948 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
* * * * ** *
36195994 TCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA---CAAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAA-AAATTTCAGA
* * * * * *** *
36196038 CCTTATCTTCCC-GAAGTTATAGTGG-G-ACA-GGTTGAATATGCA-A
1 TCTTATC-TCCCTGAGGTTACAGTGGAGTAGACCGAAAAAT-TTCAGA
*
36196081 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 -TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
* ** * ** *
36196128 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG-GAGCTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAAT-TTCAGA
* * ** ** **
36196172 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA--TTAAAA-TAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA-GA
* * * * * * * *
36196216 TCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAACA----AGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
* * * *
36196258 TCTTATC-CCCTGAGGTTATAGTAGAGTAAACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
36196303 TCTTATCTCCCTGAGGTTACAGTGGAG
1 TCTTATCTCCCTGAGGTTACAGTGGAG
36196330 CAGGTCGAAG
Statistics
Matches: 247, Mismatches: 65, Indels: 48
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.00
41 24 0.10
42 10 0.04
43 8 0.03
44 92 0.37
45 16 0.06
46 89 0.36
47 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
Found at i:36196071 original size:134 final size:134
Alignment explanation
Indices: 36195904--36196196 Score: 455
Period size: 134 Copynumber: 2.2 Consensus size: 134
36195894 TTACATAAAG
* *
36195904 CCTTATCTCCCTGAAGTTACAGTGGGGCTGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
36195969 GTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
36196034 CAAA
131 CAAA
*
36196038 CCTTATCTTCCC-GAAGTTATAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
1 CCTTATC-TCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
* * * * * *
36196102 AGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCT
65 AGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCC
* *
36196167 AGTAAT
130 A-CAAA
36196173 CC-TATCTCCCTGAAGTTACAGTGG
1 CCTTATCTCCCTGAAGTTACAGTGG
36196197 AGCGGATTAA
Statistics
Matches: 144, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
133 4 0.03
134 132 0.92
135 8 0.06
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (134 bp):
CCTTATCTCCCTGAAGTTACAGTGGGACAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
GTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
CAAA
Found at i:36196302 original size:175 final size:175
Alignment explanation
Indices: 36196081--36196440 Score: 598
Period size: 175 Copynumber: 2.1 Consensus size: 175
36196071 GAATATGCAA
* *
36196081 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTAGAGTAAACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* * * *
36196146 ACAGTGGAGCAGATTGGAGCTAG-TAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
66 ACAGTGGAGCAGATCGAAGAT-GTTAAGCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
36196210 AAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAACAAG
130 AAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAAC-AG
*
36196257 GTCTTATC-CCCTGAGGTTATAGTAGAGTAAACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTAGAGTAAACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* *
36196321 ACAGTGGAGCAGGTCGAAGATGTTTAGCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
66 ACAGTGGAGCAGATCGAAGATGTTAAGCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
*
36196386 AAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
131 AAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAACAG
36196431 GTCTTATCTC
1 GTCTTATCTC
36196441 NNNNNNNNNN
Statistics
Matches: 172, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
174 11 0.06
175 153 0.89
176 8 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (175 bp):
GTCTTATCTCCCTGAGGTTACAGTAGAGTAAACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
ACAGTGGAGCAGATCGAAGATGTTAAGCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
AAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCAACAG
Found at i:36197509 original size:43 final size:44
Alignment explanation
Indices: 36197418--36197521 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 44
36197408 NNNNNCAAAC
* * * *
36197418 CAGTAGTGAAGTAGATCAAAGACGACGAATCTTATCTTCCTAAG
1 CAGTAGTGAAGTAGATCAAAGACCACCAATCCTATCTCCCTAAG
** *
36197462 CAGTAGTGAAGTAGATTTAAG-CCACCAGTCCTATCTCCCTAAG
1 CAGTAGTGAAGTAGATCAAAGACCACCAATCCTATCTCCCTAAG
* *
36197505 CAGTAGTGGAGCAGATC
1 CAGTAGTGAAGTAGATC
36197522 GCATCAAGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 31 0.62
44 19 0.38
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (44 bp):
CAGTAGTGAAGTAGATCAAAGACCACCAATCCTATCTCCCTAAG
Found at i:36199076 original size:3 final size:3
Alignment explanation
Indices: 36199070--36199144 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
36199060 TTTGATGTTG
36199070 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
36199118 TTA TTA TTA TTA TATA TCA TTG TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TT
36199145 CTCATTATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:36199467 original size:17 final size:17
Alignment explanation
Indices: 36199428--36199467 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
36199418 TGCACATTTT
*
36199428 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
36199445 TATATATTTATATAATA
1 TTTATATGTATATAATA
36199462 TTTATA
1 TTTATA
36199468 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:36200279 original size:33 final size:33
Alignment explanation
Indices: 36200242--36200309 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
36200232 TTTAGGTGGA
* *
36200242 TTAATGTCTGT-CATTTTCTTTGTCTTGGGTTGC
1 TTAATGTCTGTCCA-TTTCTTTGTCCTAGGTTGC
36200275 TTAATGTCTGTCCATTTCTTTGTCCTAGGTTGC
1 TTAATGTCTGTCCATTTCTTTGTCCTAGGTTGC
36200308 TT
1 TT
36200310 CTCTGTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.10, C:0.18, G:0.19, T:0.53
Consensus pattern (33 bp):
TTAATGTCTGTCCATTTCTTTGTCCTAGGTTGC
Found at i:36208770 original size:51 final size:51
Alignment explanation
Indices: 36208692--36208911 Score: 359
Period size: 51 Copynumber: 4.3 Consensus size: 51
36208682 ACTTCTGATC
* * **
36208692 AGTGACAAGTGATAAGTGATAGTTTTAGCTACACTTATCTGATCAACGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
36208743 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
** *
36208794 AGTGACAAGTGATAAGTGGTAGCTAAAGCTACCATTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTA-CACTTATCTGATCAGTGACA
36208846 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
36208897 AGTGACAAGTAATAA
1 AGTGACAAGTGATAA
36208912 ATATGATCTG
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
51 109 0.69
52 48 0.31
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:36208870 original size:103 final size:102
Alignment explanation
Indices: 36208692--36208911 Score: 359
Period size: 103 Copynumber: 2.1 Consensus size: 102
36208682 ACTTCTGATC
* **
36208692 AGTGACAAGTGATAAGTGATAGTTTTAGCTACACTTATCTGATCAACGACAAGTGACAAGTGATA
1 AGTGACAAGTGATAAGTGATAGCTAAAGCTACACTTATCTGATCAACGACAAGTGACAAGTGATA
36208757 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * **
36208794 AGTGACAAGTGATAAGTGGTAGCTAAAGCTACCATTTATCTGATCAGTGACAAGTGACAAGTGAT
1 AGTGACAAGTGATAAGTGATAGCTAAAGCTA-CACTTATCTGATCAACGACAAGTGACAAGTGAT
36208859 AAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
65 AAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
36208897 AGTGACAAGTAATAA
1 AGTGACAAGTGATAA
36208912 ATATGATCTG
Statistics
Matches: 109, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 27 0.25
103 82 0.75
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (102 bp):
AGTGACAAGTGATAAGTGATAGCTAAAGCTACACTTATCTGATCAACGACAAGTGACAAGTGATA
AGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:36210683 original size:14 final size:14
Alignment explanation
Indices: 36210645--36210683 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
36210635 TACAATATAC
36210645 AAACAATAATAACA
1 AAACAATAATAACA
* *
36210659 AAATAATAATAGCA
1 AAACAATAATAACA
*
36210673 AAACAACAATA
1 AAACAATAATA
36210684 TTTTAATCGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.69, C:0.13, G:0.03, T:0.15
Consensus pattern (14 bp):
AAACAATAATAACA
Found at i:36213694 original size:22 final size:22
Alignment explanation
Indices: 36213668--36213710 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36213658 GAATGGCATG
*
36213668 ACCACTATGCTGCCATTAGTCC
1 ACCACTATGCTACCATTAGTCC
*
36213690 ACCACTATTCTACCATTAGTC
1 ACCACTATGCTACCATTAGTC
36213711 ACGCCAAATA
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:0.26, C:0.35, G:0.09, T:0.30
Consensus pattern (22 bp):
ACCACTATGCTACCATTAGTCC
Found at i:36214774 original size:21 final size:21
Alignment explanation
Indices: 36214744--36214791 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36214734 TTATATTTGA
*
36214744 AAATTT-TTTAATTAGGGTTT
1 AAATTTATTTAATTAGAGTTT
* *
36214764 TAATTTATTTATTTAGAGTTT
1 AAATTTATTTAATTAGAGTTT
36214785 AAATTTA
1 AAATTTA
36214792 GATTATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (21 bp):
AAATTTATTTAATTAGAGTTT
Found at i:36218663 original size:58 final size:58
Alignment explanation
Indices: 36218569--36218680 Score: 154
Period size: 58 Copynumber: 1.9 Consensus size: 58
36218559 AGAAAAAAAA
* *
36218569 TTTAATATAAAAAATTTATTAGTGCCTATCTAATAGGCGCCATTAAAAAAAATAATTT
1 TTTAATATAAAAAATTCATTAGCGCCTATCTAATAGGCGCCATTAAAAAAAATAATTT
* * * *
36218627 TTTAATATAAAATATTCATTGGCGCCTTTC-AGATAGGCTCCATTAAAAAAAATA
1 TTTAATATAAAAAATTCATTAGCGCCTATCTA-ATAGGCGCCATTAAAAAAAATA
36218681 TACTATTTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 46 0.98
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (58 bp):
TTTAATATAAAAAATTCATTAGCGCCTATCTAATAGGCGCCATTAAAAAAAATAATTT
Found at i:36220311 original size:20 final size:22
Alignment explanation
Indices: 36220267--36220313 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
36220257 AAGATAAAAT
36220267 AAATAAAACAAAACATAATTAA
1 AAATAAAACAAAACATAATTAA
* *
36220289 AAATAATAC-AAACATGA-TAA
1 AAATAAAACAAAACATAATTAA
36220309 AAATA
1 AAATA
36220314 TATTAACAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 8 0.35
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
AAATAAAACAAAACATAATTAA
Found at i:36221808 original size:35 final size:35
Alignment explanation
Indices: 36221762--36221834 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
36221752 AGTACACACG
* *
36221762 AGGTGTACAAAACAGTGATCCGTCAACTCATATTC
1 AGGTGTACAAAACAGTGATCCGTCAACACATAATC
36221797 AGGTGTACAAAACAGTGATCCGTCAACACATAATC
1 AGGTGTACAAAACAGTGATCCGTCAACACATAATC
36221832 AGG
1 AGG
36221835 AAGCACTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (35 bp):
AGGTGTACAAAACAGTGATCCGTCAACACATAATC
Found at i:36221960 original size:45 final size:47
Alignment explanation
Indices: 36221881--36221969 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 47
36221871 TCAGCCATGT
* * *
36221881 AATAGGAAGCTTATCTGGGCTATAACAGGAAACTCATAAGAGTTTAA
1 AATAGGAAGCTCATCTGAGCTATAACAGGAAACTCAGAAGAGTTTAA
* *
36221928 AATAGGAAGCTCA-CTGAGCT-TAACAGGTAACTCCGAAGAGTT
1 AATAGGAAGCTCATCTGAGCTATAACAGGAAACTCAGAAGAGTT
36221970 ATTACCAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 19 0.51
46 6 0.16
47 12 0.32
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (47 bp):
AATAGGAAGCTCATCTGAGCTATAACAGGAAACTCAGAAGAGTTTAA
Found at i:36222353 original size:171 final size:171
Alignment explanation
Indices: 36222068--36222441 Score: 700
Period size: 171 Copynumber: 2.2 Consensus size: 171
36222058 ATAAAGAGTT
36222068 GCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAACAGGACGCTCACAAAGAGCT
1 GCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAACAGGACGCTCACAAAGAGCT
36222133 GCGATAGTCCGCAACACATGCAAGACTACTACCGATCAGGATGCTCGTAGGAACCATATAACGGG
66 GCGATAGTCCGCAACACATGCAAGACTACTACCGATCAGGATGCTCGTAGGAACCATATAACGGG
36222198 AAGCTCGAGAGAACTTATAACAAGATGGTCGTAAGAGCTAC
131 AAGCTCGAGAGAACTTATAACAAGATGGTCGTAAGAGCTAC
36222239 GCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAACAGGACGCTCACAAAGAGCT
1 GCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAACAGGACGCTCACAAAGAGCT
36222304 GCGATAGTCCGCAACACATGCAAGACTACTACCGATCAGGATGCTCGTAGGAACCATATAACGGG
66 GCGATAGTCCGCAACACATGCAAGACTACTACCGATCAGGATGCTCGTAGGAACCATATAACGGG
36222369 AAGCTCGAGAGAACTTATAACAAGATGGTCGTAAGAGCTAC
131 AAGCTCGAGAGAACTTATAACAAGATGGTCGTAAGAGCTAC
* * *
36222410 G-G--TGTGTCCACAACATATGCAGGACCACAACC
1 GCGTTTGTGTCCGCAATATATGCAGGATCACAACC
36222442 AACATGAGAA
Statistics
Matches: 200, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
168 27 0.14
170 1 0.00
171 172 0.86
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (171 bp):
GCGTTTGTGTCCGCAATATATGCAGGATCACAACCGATCATATAACAGGACGCTCACAAAGAGCT
GCGATAGTCCGCAACACATGCAAGACTACTACCGATCAGGATGCTCGTAGGAACCATATAACGGG
AAGCTCGAGAGAACTTATAACAAGATGGTCGTAAGAGCTAC
Found at i:36224278 original size:29 final size:28
Alignment explanation
Indices: 36224224--36224280 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
36224214 TACTTGATAA
* *
36224224 AAAATTTTGGGTTTTGATTATTTAAATT
1 AAAATTTTGGGTTTTGATAATATAAATT
36224252 AAAATTTTAGGGTTTT-ATAAATATAAATT
1 AAAATTTT-GGGTTTTGAT-AATATAAATT
36224281 GATCTAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (28 bp):
AAAATTTTGGGTTTTGATAATATAAATT
Found at i:36252092 original size:30 final size:29
Alignment explanation
Indices: 36252030--36252093 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
36252020 AAGTCGTAAG
**
36252030 TTTAGTATATGTACTTTAATTTAGTCGTT
1 TTTAGTATATGTACTTTAATTTAGTCAAT
*
36252059 TTTAGTTTATGTACTTTTGAA-TTAGTCAAT
1 TTTAGTATATGTAC-TTT-AATTTAGTCAAT
36252089 TTTAG
1 TTTAG
36252094 CTCTTATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 15 0.50
31 2 0.07
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (29 bp):
TTTAGTATATGTACTTTAATTTAGTCAAT
Found at i:36256914 original size:20 final size:19
Alignment explanation
Indices: 36256898--36256953 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
36256888 CTAGAGCATT
36256898 GTAGTGCTAACAGGAGCAC
1 GTAGTGCTAACAGGAGCAC
* *
36256917 GAATGTGCTATCAGGAGCACC
1 GTA-GTGCTAACAGGAGCA-C
*
36256938 GTAGTGTTAACAGGAG
1 GTAGTGCTAACAGGAG
36256954 TACGAAAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.07
20 25 0.83
21 3 0.10
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (19 bp):
GTAGTGCTAACAGGAGCAC
Found at i:36256915 original size:40 final size:40
Alignment explanation
Indices: 36256853--36256953 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 40
36256843 TGCAGTCGGG
* * * * *
36256853 GCATTGTAATGCAAATAAGAGCATAAATATGCTATCTA-GA
1 GCATTGTAGTGCTAACAGGAGCACAAATATGCTATC-AGGA
* *
36256893 GCATTGTAGTGCTAACAGGAGCACGAATGTGCTATCAGGA
1 GCATTGTAGTGCTAACAGGAGCACAAATATGCTATCAGGA
** *
36256933 GCACCGTAGTGTTAACAGGAG
1 GCATTGTAGTGCTAACAGGAG
36256954 TACGAAAGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.02
40 49 0.98
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (40 bp):
GCATTGTAGTGCTAACAGGAGCACAAATATGCTATCAGGA
Found at i:36256959 original size:40 final size:40
Alignment explanation
Indices: 36256898--36256976 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
36256888 CTAGAGCATT
* *
36256898 GTAGTGCTAACAGGAGCACGAATGTGCTATCAGGAGCACC
1 GTAGTGCTAACAGGAGCACGAAAGTACTATCAGGAGCACC
* * *
36256938 GTAGTGTTAACAGGAGTACGAAAGTACTATTAGGAGCAC
1 GTAGTGCTAACAGGAGCACGAAAGTACTATCAGGAGCAC
36256977 TTATTCAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (40 bp):
GTAGTGCTAACAGGAGCACGAAAGTACTATCAGGAGCACC
Found at i:36262721 original size:2 final size:2
Alignment explanation
Indices: 36262714--36262738 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36262704 CATGGATGAT
36262714 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 T
36262739 TCATAATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36270985 original size:9 final size:9
Alignment explanation
Indices: 36270968--36271007 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
36270958 AAAATATTAT
*
36270968 AATAAAAAA
1 AATATAAAA
36270977 AATATAAAA
1 AATATAAAA
36270986 AATATCAAAA
1 AATAT-AAAA
36270996 TAATATAAAA
1 -AATATAAAA
36271006 AA
1 AA
36271008 AAGATTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.54
10 8 0.29
11 5 0.18
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
AATATAAAA
Found at i:36270985 original size:11 final size:11
Alignment explanation
Indices: 36270969--36271009 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
36270959 AAATATTATA
36270969 ATAAAAAAAAT
1 ATAAAAAAAAT
36270980 AT--AAAAAAT
1 ATAAAAAAAAT
* *
36270989 ATCAAAATAAT
1 ATAAAAAAAAT
36271000 ATAAAAAAAA
1 ATAAAAAAAA
36271010 GATTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (11 bp):
ATAAAAAAAAT
Found at i:36271121 original size:27 final size:27
Alignment explanation
Indices: 36271057--36271126 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
36271047 AATGGAGGGC
* * **
36271057 CTGCCACAGGCGGCACCTATGGTGCTT
1 CTGCCACAGGCGGCACCAATAGTGCCA
* * *
36271084 GTGGCAGAGGCGGCACCAATAGTGCCA
1 CTGCCACAGGCGGCACCAATAGTGCCA
36271111 CTGCCACAGGCGGCAC
1 CTGCCACAGGCGGCAC
36271127 TCCCCCTTTG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.14
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAATAGTGCCA
Found at i:36271409 original size:169 final size:169
Alignment explanation
Indices: 36271130--36271437 Score: 600
Period size: 169 Copynumber: 1.8 Consensus size: 169
36271120 GCGGCACTCC
36271130 CCCTTTGTTCGTATTTCAGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAATAT
1 CCCTTTGTTCGTATTTCAGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAATAT
36271195 AATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAG
66 AATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAG
36271260 TGTGTTTTTTAAATTAATTTTAAAAAAACTCTTTTTTGG
131 TGTGTTTTTTAAATTAATTTTAAAAAAACTCTTTTTTGG
36271299 CCCTTTGTTCGTATTTCAGCCATTTGTTCGTATTTTTTTC-CTGGATTTTATTACTTTTAAAATA
1 CCCTTTGTTCGTATTTCAGCCATTTGTTCGTATTTTTTTCTC-GGATTTTATTACTTTTAAAATA
36271363 TAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTA
65 TAATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTA
36271428 GTGTGTTTTT
130 GTGTGTTTTT
36271438 ATTGAAAGTA
Statistics
Matches: 138, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
168 1 0.01
169 137 0.99
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.55
Consensus pattern (169 bp):
CCCTTTGTTCGTATTTCAGCCATTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAATAT
AATATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGCTTGAAATGTATTCATTTAG
TGTGTTTTTTAAATTAATTTTAAAAAAACTCTTTTTTGG
Found at i:36271954 original size:21 final size:20
Alignment explanation
Indices: 36271928--36271982 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 20
36271918 AACAGCGGTG
36271928 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAG-TACTGTA
36271949 GCGGTGAGATTGAGTACTGTA
1 GCGGTGAGATT-AGTACTGTA
36271970 GCGGTGAGATTAG
1 GCGGTGAGATTAG
36271983 AAACAATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (20 bp):
GCGGTGAGATTAGTACTGTA
Found at i:36277930 original size:16 final size:16
Alignment explanation
Indices: 36277897--36277930 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36277887 TTGTGCTTTG
*
36277897 TTTTGTTTTTGATAGT
1 TTTTGTTTTTGAGAGT
*
36277913 TTTTGTTTTTGAGGGT
1 TTTTGTTTTTGAGAGT
36277929 TT
1 TT
36277931 GAGACATGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.09, C:0.00, G:0.24, T:0.68
Consensus pattern (16 bp):
TTTTGTTTTTGAGAGT
Found at i:36279454 original size:27 final size:25
Alignment explanation
Indices: 36279374--36279446 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 25
36279364 AACAAAGAGG
36279374 GGTGCCGCCTGTGACAGTGGCACCATT
1 GGTGCCGCCTGTGACA--GGCACCATT
* *
36279401 GGTGCCACCTCTGCCACAGGCACCATT
1 GGTGCCGCCTGTG--ACAGGCACCATT
36279428 GGTGCCGCCTGTGACAGGC
1 GGTGCCGCCTGTGACAGGC
36279447 CCTCCATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.15
27 31 0.77
29 3 0.08
ACGTcount: A:0.15, C:0.34, G:0.32, T:0.19
Consensus pattern (25 bp):
GGTGCCGCCTGTGACAGGCACCATT
Found at i:36282817 original size:310 final size:311
Alignment explanation
Indices: 36282244--36282865 Score: 1228
Period size: 310 Copynumber: 2.0 Consensus size: 311
36282234 AAGTATAATC
36282244 ACAATATAATTTTAAAATATAATAATATAATGTCTATATAATTTTTTACATCAAGTTCAGAGTTA
1 ACAATATAA-TTTAAAATATAATAATATAATGTCTATATAATTTTTTACATCAAGTTCAGAGTTA
36282309 GTGTCTTCTAATATATGCAAAGTTCAAATCTAAATAGAATTTTAAATATAATAGGGAAAAATATT
65 GTGTCTTCTAATATATGCAAAGTTCAAATCTAAATAGAATTTTAAATATAATAGGGAAAAATATT
36282374 AGAATTATATATAAATTTAATTCTATAAATATCATTTTTTGGTTAATTATATTTAATCAAATTGC
130 AGAATTATATATAAATTTAATTCTATAAATATCATTTTTTGGTTAATTATATTTAATCAAATTGC
36282439 ATATATAAAATTGTCTGGAAAATTGTTAGCATTAATAAATTATAATTATTTTAATAAAAAAAAGT
195 ATATATAAAATTGTCTGGAAAATTGTTAGCATTAATAAATTATAATTATTTTAATAAAAAAAAGT
36282504 GGAGCATTGAAGCAATAGTGGTTCGAATAGGTAATATCAAATCATATTCGAA
260 GGAGCATTGAAGCAATAGTGGTTCGAATAGGTAATATCAAATCATATTCGAA
36282556 ACAATATAA-TTAAAATATAATAATATAATGTCTATATAATTTTTTACATCAAGTTCAGAGTTAG
1 ACAATATAATTTAAAATATAATAATATAATGTCTATATAATTTTTTACATCAAGTTCAGAGTTAG
36282620 TGTCTTCTAATATATGCAAAGTTCAAATCTAAATAGAATTTTAAATATAATAGGGAAAAATATTA
66 TGTCTTCTAATATATGCAAAGTTCAAATCTAAATAGAATTTTAAATATAATAGGGAAAAATATTA
36282685 GAATTATATATAAATTTAATTCTATAAATATCATTTTTTGGTTAATTATATTTAATCAAATTGCA
131 GAATTATATATAAATTTAATTCTATAAATATCATTTTTTGGTTAATTATATTTAATCAAATTGCA
36282750 TATATAAAATTGTCTGGAAAATTGTTAGCATTAATAAATTATAATTATTTTAATAAAAAAAAGTG
196 TATATAAAATTGTCTGGAAAATTGTTAGCATTAATAAATTATAATTATTTTAATAAAAAAAAGTG
36282815 GAGCATTGAAGCAATAGTGGTTCGAATAGGTAATATCAAATCATATTCGAA
261 GAGCATTGAAGCAATAGTGGTTCGAATAGGTAATATCAAATCATATTCGAA
36282866 TAATAATGGT
Statistics
Matches: 310, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
310 301 0.97
312 9 0.03
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (311 bp):
ACAATATAATTTAAAATATAATAATATAATGTCTATATAATTTTTTACATCAAGTTCAGAGTTAG
TGTCTTCTAATATATGCAAAGTTCAAATCTAAATAGAATTTTAAATATAATAGGGAAAAATATTA
GAATTATATATAAATTTAATTCTATAAATATCATTTTTTGGTTAATTATATTTAATCAAATTGCA
TATATAAAATTGTCTGGAAAATTGTTAGCATTAATAAATTATAATTATTTTAATAAAAAAAAGTG
GAGCATTGAAGCAATAGTGGTTCGAATAGGTAATATCAAATCATATTCGAA
Found at i:36283573 original size:17 final size:18
Alignment explanation
Indices: 36283551--36283592 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
36283541 TAGTTCCAAA
*
36283551 TTTTTTATGCTTAAT-TT
1 TTTTTTATGCTAAATATT
36283568 TTTTTTA-GCTAAATATT
1 TTTTTTATGCTAAATATT
*
36283585 TATTTTAT
1 TTTTTTAT
36283593 TTATATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTTATGCTAAATATT
Found at i:36286940 original size:62 final size:59
Alignment explanation
Indices: 36286803--36286947 Score: 143
Period size: 62 Copynumber: 2.4 Consensus size: 59
36286793 CGTTTAAAGG
* ** *
36286803 CCCCCCAAAATTTTGGGAAATTAT-ATTTTTCCTTGAAATATTTAGAACATTTTAATTAGG
1 CCCCCCAAAATTTT-GGAAATT-TCATTTCTCCTTGAAATATTTAGAACAGCTTAATTAGA
* * *
36286863 CCTCCCAAAATTTTTGGAAAATTTCATTTCTCCTTTAAAGTTTTTAGAGA-AGCTTAATTAGA
1 CCCCCCAAAA-TTTTGG-AAATTTCATTTCTCCTTGAAA-TATTTAGA-ACAGCTTAATTAGA
36286925 CCCCCTCAAAATTTT-GAAATTTC
1 CCCCC-CAAAATTTTGGAAATTTC
36286948 TCATTATACC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
60 19 0.27
61 22 0.31
62 24 0.34
63 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (59 bp):
CCCCCCAAAATTTTGGAAATTTCATTTCTCCTTGAAATATTTAGAACAGCTTAATTAGA
Found at i:36293573 original size:25 final size:26
Alignment explanation
Indices: 36293527--36293586 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
36293517 TAAACATATG
36293527 AATTATAAAACATGAAAATATA-AAT
1 AATTATAAAACATGAAAATATATAAT
* **
36293552 AATTATAAAATATGAATGTATATAAT
1 AATTATAAAACATGAAAATATATAAT
36293578 -ATATATAAA
1 AAT-TATAAA
36293587 CTATATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
AATTATAAAACATGAAAATATATAAT
Found at i:36295245 original size:50 final size:49
Alignment explanation
Indices: 36295191--36295553 Score: 219
Period size: 50 Copynumber: 7.2 Consensus size: 49
36295181 CGCCATCGCA
* * *
36295191 GCTTCAATTTGTTCAACTGCACTGCTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATTT-TTCAACTGCACTGCTAGGGAAATAAGATCTGCCGTTGTG
* * * * **
36295241 GCTTCAATCTTTTTAATTGCGCTG-TCGGGGAAACCAGATCTGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCT-AGGGAAATAAGATCTGCCGTTGTG
* ** ** * *
36295291 ACTTCAATCTGCTCCGCTGCACTGCCAGGGAAATAAGATCCGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCTAGGGAAATAAGATCTGCCGTTGTG
* * * * **
36295341 GCTTCAATCTTTTTAATTACGCTG-TCAGGGAAACCAGATCTGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCT-AGGGAAATAAGATCTGCCGTTGTG
* ** ** * *
36295391 ACTTCAATCTGCTCTGCTGCACCGCCAGGGAAATAAGATCTGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCTAGGGAAATAAGATCTGCCGTTGTG
* * * **
36295441 GCTTCAATCTTTTTAATTGCGCTG-TCAGGGAAACCAGATCTGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCT-AGGGAAATAAGATCTGCCGTTGTG
* ** ** * * * *
36295491 ACTTCAATCTACTCCGCTGCACCGCCAGGGAAGTAAGATCGGCCGTTGTG
1 GCTTCAAT-TTTTCAACTGCACTGCTAGGGAAATAAGATCTGCCGTTGTG
36295541 GCTTCAATCTTTT
1 GCTTCAAT-TTTT
36295554 AATTGCGCTG
Statistics
Matches: 229, Mismatches: 77, Indels: 14
0.72 0.24 0.04
Matches are distributed among these distances:
49 1 0.00
50 226 0.99
51 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (49 bp):
GCTTCAATTTTTCAACTGCACTGCTAGGGAAATAAGATCTGCCGTTGTG
Found at i:36295336 original size:100 final size:100
Alignment explanation
Indices: 36295219--36295579 Score: 625
Period size: 100 Copynumber: 3.6 Consensus size: 100
36295209 GCACTGCTAA
* *
36295219 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACCAGATCTGC
1 GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCTGC
*
36295284 CGTTGTGACTTCAATCTGCTCCGCTGCACTGCCAG
66 CGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAG
*
36295319 GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTACGCTGTCAGGGAAACCAGATCTGC
1 GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCTGC
*
36295384 CGTTGTGACTTCAATCTGCTCTGCTGCACCGCCAG
66 CGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAG
*
36295419 GGAAATAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCTGC
1 GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCTGC
*
36295484 CGTTGTGACTTCAATCTACTCCGCTGCACCGCCAG
66 CGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAG
* * *
36295519 GGAAGTAAGATCGGCCGTTGTGGCTTCAATC-TTTTAATTGCGCTGTCGGGGAAACCAGATC
1 GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATC
36295580 CACCGACGTC
Statistics
Matches: 249, Mismatches: 12, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
99 29 0.12
100 220 0.88
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (100 bp):
GGAAATAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCAGGGAAACCAGATCTGC
CGTTGTGACTTCAATCTGCTCCGCTGCACCGCCAG
Found at i:36295790 original size:132 final size:132
Alignment explanation
Indices: 36295592--36296715 Score: 1422
Period size: 132 Copynumber: 8.6 Consensus size: 132
36295582 CCGACGTCAG
* * * ** *
36295592 TCTACTCCACTACTGCTTAAGGAGATAAGATCTGCTATTCTTTGATCGATTCCACTG-TCGACCA
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTG-AAATCTTCAATCTATTCCACTGCT-GACCA
*
36295656 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATAT
64 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
*
36295721 TCGA
129 TTGA
* * * * * *
36295725 TCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATGTTCAATCTATTCCACTGTTGCCCAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
* ** *
36295790 GAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
36295855 GA
131 GA
* * *
36295857 TCTACTCCACCACTGCTTAGAGAGACAAGATCTGAAATC-TC---C-A---CA--GCTG-CTCAG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGAC-CAG
* * *
36295911 GGAAATAGAATTACTGGCTTCAATATACTCCACTGTAA-CTACAGGGAGGTAAAAT-TCACCATC
65 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAATCT-GCCATC
36295974 TTTGA
128 TTTGA
* * * * * *
36295979 TCTGCTCCACTACTGCTTAGAGAGACAATATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
*
36296044 GA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAT-AAGGAGGTAAAATCTGCCATCT
66 GAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TCAGGGAGGTAAAATCTGCCATCT
36296107 TTGA
129 TTGA
* * * *
36296111 TCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCTG-CTCAG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGAC-CAG
* * *
36296175 GGA-AGTAGAATTACTGGCCTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCT
65 GGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCT
36296239 TTGA
129 TTGA
* * * * * ** *
36296243 TATGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCCAACTAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
36296308 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
36296373 GA
131 GA
* * * * *
36296375 TCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTTACCAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
*
36296440 GAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCGCAGGGAGGTAAAATCTGCCATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
36296504 GA
131 GA
* * * * * **
36296506 TCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGCCAACCAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
* * *
36296571 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCTTC
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
36296636 GA
131 GA
* * * * **
36296638 TCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAAATATTCAATCTATTCCACTGCCAACCAGG
1 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
36296703 GAGATAGAATTAC
66 GAGATAGAATTAC
36296716 NNNNNNNNNN
Statistics
Matches: 894, Mismatches: 73, Indels: 49
0.88 0.07 0.05
Matches are distributed among these distances:
121 3 0.00
122 101 0.11
123 2 0.00
124 2 0.00
126 1 0.00
127 2 0.00
128 1 0.00
130 1 0.00
131 131 0.15
132 612 0.68
133 37 0.04
134 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (132 bp):
TCTACTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTT
GA
Found at i:36295834 original size:44 final size:44
Alignment explanation
Indices: 36295654--36295843 Score: 144
Period size: 44 Copynumber: 4.3 Consensus size: 44
36295644 CACTGTCGAC
* *
36295654 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAAAATTACTGGCTTCAATCTACTCCACTGTAACCT
* * *
36295698 CAGGGAGGTAAAA-T-CTGCCATATTCGATCTACTCCAC--TAATGCCT
1 CAGGGAGATAAAATTACTGGC---TTCAATCTACTCCACTGTAA--CCT
* * * **
36295743 -AGGGAGATAAGATCTGTAAT-G-TTCAATCTATTCCACTGTTGCC-
1 CAGGGAGATAA-A-AT-TACTGGCTTCAATCTACTCCACTGTAACCT
*
36295786 CAGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCT
1 CAGGGAGATAAAATTACTGGCTTCAATCTACTCCACTGTAACCT
*
36295830 CAGGGAGGTAAAAT
1 CAGGGAGATAAAAT
36295844 CCACTATCTT
Statistics
Matches: 110, Mismatches: 20, Indels: 32
0.68 0.12 0.20
Matches are distributed among these distances:
41 3 0.03
42 6 0.05
43 23 0.21
44 58 0.53
45 17 0.15
46 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
CAGGGAGATAAAATTACTGGCTTCAATCTACTCCACTGTAACCT
Found at i:36296260 original size:386 final size:388
Alignment explanation
Indices: 36295592--36296675 Score: 1386
Period size: 386 Copynumber: 2.8 Consensus size: 388
36295582 CCGACGTCAG
* * * * * ** *
36295592 TCTACTCCACTACTGCTTAAGGAGATAAGATCTGCTATTCTTTGATCGATTCCACTG-TCGACCA
1 TCTACTCCACTAATGCCTAAGGAGACAAGATCTG-AAATCTTCAATCTATTCCACTGCT-GACCA
*
36295656 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATAT
64 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-AGGGAGGTAAAATCTGCCATCT
* * * * *
36295721 TCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATGTTCAATCTATTCCACTGTTGCC
128 TTGATCTACTCCACTAATGCCTAGAGAGATAAGATCTGAAATATTCAATCTATTCCACTGCTG-C
* * *
36295786 CAGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC-CACTA
192 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAAC-A
* * *
36295850 TCTTTGATCTACTCCACCACTGCTTAGAGAGACAAGATCTGAAATC-TCCA-CAGCTG-C-TC-A
256 TCTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCATCCATCA-CTGCCAACTA
36295910 GGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAA-CTACAGGGAGGTAAAAT-TCACCAT
320 GGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCT-CAGGGAGGTAAAATCT-ACCAT
36295973 CTTTGA
383 CTTTGA
* * * * * *
36295979 TCTGCTCCACTACTG-CTTAGAGAGACAATATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAG
1 TCTACTCCACTAATGCCTAAG-GAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAG
*
36296043 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAAGGAGGTAAAATCTGCCATCT
65 GGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TAGGGAGGTAAAATCTGCCATCT
* * * *
36296107 TTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCTGCT
128 TTGATCTACTCCACTAATGCCTAGAGAGATAAGATCTGAAATATTCAATCTATTCCACTGCTGC-
* **
36296172 CAGGGA-AGTAGAATTACTGGCCTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCA
192 CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAACA
* *
36296236 TCTTTGATATGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCC
256 TCTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTG-AA-A-TC-ATCCA-T-CACTGCC
* * *
36296301 AACTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
315 AACTAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTAC
36296366 CATCTTTGA
380 CATCTTTGA
* * *
36296375 TCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTTACCAGG
1 TCTACTCCACTAATGCCTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
*
36296440 GAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCGCAGGGAGGTAAAATCTGCCATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACC-TAGGGAGGTAAAATCTGCCATCTTT
* * * **
36296504 GATCTACTCTACTAATGCCTA-AGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGCCAACC
130 GATCTACTCCACTAATGCCTAGA-GAGATAAGATCTGAAATATTCAATCTATTCCACTG-CTGCC
*
36296568 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATC
193 AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAACATC
* * * * *
36296633 TTCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAAAT
258 TTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAAT
36296676 ATTCAATCTA
Statistics
Matches: 606, Mismatches: 66, Indels: 45
0.85 0.09 0.06
Matches are distributed among these distances:
385 3 0.00
386 229 0.38
387 30 0.05
388 1 0.00
389 2 0.00
391 3 0.00
392 1 0.00
393 4 0.01
394 6 0.01
395 192 0.32
396 127 0.21
397 8 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (388 bp):
TCTACTCCACTAATGCCTAAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTAGGGAGGTAAAATCTGCCATCTTTG
ATCTACTCCACTAATGCCTAGAGAGATAAGATCTGAAATATTCAATCTATTCCACTGCTGCCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAACATCTTT
GATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATCATCCATCACTGCCAACTAGGGAAA
TAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTACCATCTTTGA
Found at i:36296422 original size:44 final size:44
Alignment explanation
Indices: 36296374--36296558 Score: 103
Period size: 44 Copynumber: 4.2 Consensus size: 44
36296364 GCCATCTTTG
*
36296374 ATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
* ** * * ***
36296418 ATCTATTCCACTGCTTACC-AGGGAGAT-AGAAT-T-ACGGCTTCA
1 ATCTACTCCACT-AATGCCTAAGGAGATAAG-ATCTGAAATCTTCA
* * * * * ** **
36296460 ATGTACTCCACTGTAA--CCGCAGGGAGGTAAAATCTGCCATCTTTG
1 ATCTACTCCAC--TAATGCC-TAAGGAGATAAGATCTGAAATCTTCA
*
36296505 ATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
1 ATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
*
36296549 ATCTATTCCA
1 ATCTACTCCA
36296559 TTGCCAACCA
Statistics
Matches: 98, Mismatches: 32, Indels: 22
0.64 0.21 0.14
Matches are distributed among these distances:
41 2 0.02
42 15 0.15
43 15 0.15
44 48 0.49
45 18 0.18
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATCTTCA
Found at i:36296597 original size:395 final size:394
Alignment explanation
Indices: 36295592--36296715 Score: 1476
Period size: 395 Copynumber: 2.9 Consensus size: 394
36295582 CCGACGTCAG
* * * ** *
36295592 TCTACTCCACTACTGCTTAAGGAGATAAGATCTGCTATTCTTTGATCGATTCCACTG-TCGACCA
1 TCTACTCCACTACTGCCTAAGGAGATAAGATCTG-AAATCTTCAATCTATTCCACTGCT-GACCA
* *
36295656 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATAT
64 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * ***
36295721 TCGATCTACTCCACTAATGCCTAGGGAGATAAGATCTGTAATGTTCAATCTATTCCACTGTTGCC
129 TTGATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATATTCAATCTATTCCACTG-CAAC
* * *
36295786 CAGGGAGATAAAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATC-CACTA
193 CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAAC-A
* * *
36295850 TCTTTGATCTACTCCACCACTGCTTAGAGAGACAAGATCTG-AA-A-TC--TCCA---CAGCTG-
257 TCTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCA-CTGC
* *
36295906 C-TCAGGGAAATAGAATTACTGGCTTCAATATACTCCACTGTAACTACAGGGAGGTAAAATTCAC
321 CAACAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTACAGGGAGGTAAAATTCAC
36295970 CATCTTTGA
386 CATCTTTGA
* * * * * *
36295979 TCTGCTCCACTACTG-CTTAGAGAGACAATATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAG
1 TCTACTCCACTACTGCCTAAG-GAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAG
* *
36296043 GGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAAGGAGGTAAAATCTGCCATCT
65 GGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * **
36296107 TTGATCTGCTCCACTACTG-CTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCTGC
129 TTGATCTACTCCACTAATGCCTAAG-GAGATAAGATCTGAAATATTCAATCTATTCCACTGCAAC
* **
36296171 TCAGGGA-AGTAGAATTACTGGCCTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTC
193 -CAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAAC
*
36296235 ATCTTTGATATGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGC
256 ATCTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGC
*
36296300 CAACTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCT-CAGGGAGGTAAAA-TC
321 CAAC-AGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA-CTACAGGGAGGTAAAATTC
*
36296363 TGCCATCTTTGA
384 -ACCATCTTTGA
* * *
36296375 TCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTTACCAGG
1 TCTACTCCACTACTGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
*
36296440 GAGATAGAATTAC-GGCTTCAATGTACTCCACTGTAACCGCAGGGAGGTAAAATCTGCCATCTTT
66 GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTT
* * *
36296504 GATCTACTCTACTAATGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCATTGCCAACCA
131 GATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATATTCAATCTATTCCACTG-CAACCA
*
36296569 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTACCATCT
195 GGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAACATCT
* * * * *
36296634 TCGATCTGCTCCACTAATGCCTAGGGAGATAAGATCTGAAATATTCAATCTATTCCACTGCCAAC
260 TTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCCAA-
36296699 CAGGGAGATAGAATTAC
324 CAGGGAGATAGAATTAC
36296716 NNNNNNNNNN
Statistics
Matches: 641, Mismatches: 70, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
385 6 0.01
386 223 0.35
387 29 0.05
388 1 0.00
389 2 0.00
391 3 0.00
393 3 0.00
394 3 0.00
395 233 0.36
396 131 0.20
397 7 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (394 bp):
TCTACTCCACTACTGCCTAAGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGG
GAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTT
GATCTACTCCACTAATGCCTAAGGAGATAAGATCTGAAATATTCAATCTATTCCACTGCAACCAG
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTAACATCTT
TGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGAAATATTCAATCTATTCCACTGCCAACA
GGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTACAGGGAGGTAAAATTCACCATCT
TTGA
Found at i:36298017 original size:15 final size:15
Alignment explanation
Indices: 36297997--36298048 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
36297987 CCTTAGCCTC
36297997 TCCATTTTTACTTTT
1 TCCATTTTTACTTTT
36298012 TCCATTTTT-CATTTT
1 TCCATTTTTAC-TTTT
*
36298027 T-CATTTTCA-TTTT
1 TCCATTTTTACTTTT
*
36298040 TTCATTTTT
1 TCCATTTTT
36298049 TTTACGACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
13 5 0.16
14 13 0.41
15 14 0.44
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
TCCATTTTTACTTTT
Found at i:36298019 original size:8 final size:7
Alignment explanation
Indices: 36297999--36298048 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
36297989 TTAGCCTCTC
36297999 CATTTTT
1 CATTTTT
36298006 -ACTTTTT
1 CA-TTTTT
36298013 CCATTTTT
1 -CATTTTT
36298021 CATTTTT
1 CATTTTT
36298028 CA-TTTT
1 CATTTTT
36298034 CATTTTTT
1 CA-TTTTT
36298042 CATTTTT
1 CATTTTT
36298049 TTTACGACTC
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 11 0.29
9 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:36298968 original size:19 final size:17
Alignment explanation
Indices: 36298933--36298977 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
36298923 TTATTTTTTC
36298933 CATTTTTCATTTTCATT
1 CATTTTTCATTTTCATT
*
36298950 CATTTTTTAGTTTTC---
1 CATTTTTCA-TTTTCATT
36298965 CATTTTTCATTTT
1 CATTTTTCATTTT
36298978 TTCACTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.16
15 8 0.32
17 8 0.32
18 5 0.20
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (17 bp):
CATTTTTCATTTTCATT
Found at i:36299479 original size:6 final size:6
Alignment explanation
Indices: 36299468--36299501 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
36299458 CCCAGCGGGG
*
36299468 TTCTTT TTCTTT TTCTTT CTTTTTT TTCTTT TTC
1 TTCTTT TTCTTT TTCTTT -TTCTTT TTCTTT TTC
36299502 CCCTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:36299488 original size:10 final size:10
Alignment explanation
Indices: 36299473--36299501 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
36299463 CGGGGTTCTT
36299473 TTTCTTTTTC
1 TTTCTTTTTC
36299483 TTTCTTTTT-
1 TTTCTTTTTC
36299492 TTTCTTTTTC
1 TTTCTTTTTC
36299502 CCCTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:36314686 original size:15 final size:14
Alignment explanation
Indices: 36314666--36314695 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
36314656 AAATAAAAGA
36314666 AGTTCAATTTAGTTT
1 AGTTCAATTTA-TTT
36314681 AGTTCAATTTATTT
1 AGTTCAATTTATTT
36314695 A
1 A
36314696 TTTATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (14 bp):
AGTTCAATTTATTT
Found at i:36314913 original size:19 final size:19
Alignment explanation
Indices: 36314864--36314901 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
36314854 TATTTGTAGG
36314864 ATATTTG-AA-TTTATTAA
1 ATATTTGAAATTTTATTAA
36314881 ATATTTGAAATTTTATTAA
1 ATATTTGAAATTTTATTAA
36314900 AT
1 AT
36314902 TTTTATAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTTGAAATTTTATTAA
Found at i:36314957 original size:20 final size:19
Alignment explanation
Indices: 36314928--36314966 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
36314918 GTAATTTAAT
36314928 ATTTTCAATATATTTTTGTA
1 ATTTTCAATAT-TTTTTGTA
*
36314948 ATTTTTAATATTTTTTGTA
1 ATTTTCAATATTTTTTGTA
36314967 TTCTTTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTCAATATTTTTTGTA
Found at i:36314973 original size:20 final size:21
Alignment explanation
Indices: 36314924--36314966 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
36314914 TTTTGTAATT
36314924 TAATATTTTCAATATATTTTTG
1 TAAT-TTTTCAATATATTTTTG
36314946 TAATTTTT-AATAT-TTTTTG
1 TAATTTTTCAATATATTTTTG
36314965 TA
1 TA
36314967 TTCTTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 4 0.19
22 4 0.19
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
TAATTTTTCAATATATTTTTG
Found at i:36315105 original size:31 final size:29
Alignment explanation
Indices: 36315069--36315129 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
36315059 ATGTCCAAAA
36315069 ATTAAATCAGGAACGTCTAATAATGTTAGGG
1 ATTAAATC-GGAA-GTCTAATAATGTTAGGG
* * *
36315100 ATTAAATCGGGAGTGTGATAATGTTAGGG
1 ATTAAATCGGAAGTCTAATAATGTTAGGG
36315129 A
1 A
36315130 ATGAAGTGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 16 0.59
30 3 0.11
31 8 0.30
ACGTcount: A:0.36, C:0.07, G:0.28, T:0.30
Consensus pattern (29 bp):
ATTAAATCGGAAGTCTAATAATGTTAGGG
Found at i:36315392 original size:53 final size:54
Alignment explanation
Indices: 36315321--36315427 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 54
36315311 TTCATTTCAT
** * *
36315321 ATTTTACATGAATTATTATGGTAATTAAAT-AAAATTTTTTGATCAATTCGTAA
1 ATTTTACATGAATTATTATAATAATTAAATAAAAATTATTTAATCAATTCGTAA
* * *
36315374 ATTTTACATTATTTATTATAATAATTTAATAAAAATTATTTAATCAATTCGTAA
1 ATTTTACATGAATTATTATAATAATTAAATAAAAATTATTTAATCAATTCGTAA
36315428 GCATTTAAGG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 25 0.54
54 21 0.46
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (54 bp):
ATTTTACATGAATTATTATAATAATTAAATAAAAATTATTTAATCAATTCGTAA
Found at i:36320597 original size:42 final size:43
Alignment explanation
Indices: 36320537--36320651 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
36320527 TTTTTACAAG
* * * * *
36320537 CGCCGCTAAATACCATGTTCTTTAGCGGGGCTTAGGAAAAAAA
1 CGCCGCTAAAAAACATGTTCTTTAGCGGCGCCTAGAAAAAAAA
* * *
36320580 -GCCGCTAAAAAATATGTTCTTCAGAGGCGCCTAGAAAAAAAA
1 CGCCGCTAAAAAACATGTTCTTTAGCGGCGCCTAGAAAAAAAA
* * *
36320622 CGCCGCTAAAGACCATGGTCTTTAGCGGCG
1 CGCCGCTAAAAAACATGTTCTTTAGCGGCG
36320652 TTTTTGTTTG
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 34 0.60
43 23 0.40
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAAAACATGTTCTTTAGCGGCGCCTAGAAAAAAAA
Found at i:36320791 original size:22 final size:22
Alignment explanation
Indices: 36320748--36320791 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36320738 TAGTGGCGTT
* **
36320748 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAACCTA
*
36320770 AAAAAACGCTGCTAAAAACCTA
1 AAAAAACGCCGCTAAAAACCTA
36320792 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.11
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAACCTA
Found at i:36321742 original size:15 final size:16
Alignment explanation
Indices: 36321722--36321751 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36321712 ACATGTCTCG
36321722 GTTTTTATT-ATTTTA
1 GTTTTTATTAATTTTA
36321737 GTTTTTATTAATTTT
1 GTTTTTATTAATTTT
36321752 TCTCAAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (16 bp):
GTTTTTATTAATTTTA
Found at i:36331251 original size:6 final size:7
Alignment explanation
Indices: 36331236--36331262 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36331226 AATTTACCCT
36331236 AAAATAA
1 AAAATAA
36331243 AAAATAA
1 AAAATAA
36331250 AAAATAA
1 AAAATAA
36331257 AAAATA
1 AAAATA
36331263 TTTTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATAA
Found at i:36338447 original size:22 final size:21
Alignment explanation
Indices: 36338422--36338469 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
36338412 GAAGCAGAAG
36338422 AAAATGAAAAAAAAAAGAAAA
1 AAAATGAAAAAAAAAAGAAAA
* ***
36338443 TAAAAGGAAAGTTAAAAGAAAA
1 -AAAATGAAAAAAAAAAGAAAA
36338465 AAAAT
1 AAAAT
36338470 TAAATTACTC
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAATGAAAAAAAAAAGAAAA
Found at i:36339829 original size:17 final size:14
Alignment explanation
Indices: 36339792--36339850 Score: 55
Period size: 17 Copynumber: 3.7 Consensus size: 14
36339782 TATTCATTTC
36339792 AATTCAAATAATCAATA
1 AATTC-AATAAT--ATA
36339809 AATTCAATATATATA
1 AATTCAATA-ATATA
36339824 CCAATTCAATCAATATA
1 --AATTCAAT-AATATA
36339841 AATTCAATAA
1 AATTCAATAA
36339851 ATTCATCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.05
15 11 0.29
16 4 0.11
17 20 0.53
18 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (14 bp):
AATTCAATAATATA
Found at i:36343970 original size:19 final size:17
Alignment explanation
Indices: 36343946--36343989 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
36343936 CAATGCATCT
*
36343946 AATAATTATACAAATTACC
1 AATAATAATAC-AATTA-C
*
36343965 AATAATAATTCAATTAC
1 AATAATAATACAATTAC
36343982 AATAATAA
1 AATAATAA
36343990 AACACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 5 0.22
19 9 0.39
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAATAATACAATTAC
Found at i:36346003 original size:23 final size:23
Alignment explanation
Indices: 36345972--36346022 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
36345962 ACCTACTTTC
*
36345972 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
36345995 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
36346018 TTACA
1 TTACA
36346023 CATACCTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:36347993 original size:25 final size:24
Alignment explanation
Indices: 36347943--36348008 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
36347933 ATACATGTAT
* *
36347943 GCTCATATGAGCTGTAAACAGTAA
1 GCTCATATGAGCTGAAAACAGGAA
*
36347967 GCTCATGTGAGCTGAATAACAGGAA
1 GCTCATATGAGCTGAA-AACAGGAA
* *
36347992 GCTCATAAGAGTTGAAA
1 GCTCATATGAGCTGAAA
36348009 TCGGTGACCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 15 0.43
25 20 0.57
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (24 bp):
GCTCATATGAGCTGAAAACAGGAA
Found at i:36350333 original size:43 final size:44
Alignment explanation
Indices: 36350285--36350546 Score: 270
Period size: 43 Copynumber: 6.1 Consensus size: 44
36350275 GCATCGCTAA
* * * *
36350285 CTTTAGCGGCG-TTTCTAG-AAAAAATGCCGCTAAAGATCACAAC
1 CTTTAGCGGCGCTTT-TCGCAAAAAACGCCGCTAAAGAACACGAC
* * * *
36350328 CTTTAGCGGTGCTTTTC-CGACAAACGCCGCTAAAGACCACGAC
1 CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
* * *
36350371 CTTTAGCGGCGCTTTTCG--ACAAACGCCGCTATAGACCACGAC
1 CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
* * * * * *
36350413 CTTTAACGGCGCTTTT-GCCACAAACGCCGCTAAAGATCATGAT
1 CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
* *
36350456 CTTTAGCGGCGCTTCTCGCAAAAAACGCCGCTAAAGAACA-AAC
1 CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
* *
36350499 CTTTAGCGGCGCTTCTCGCAAAAAACGCCGCTAAA-AACACTAC
1 CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
36350542 CTTTA
1 CTTTA
36350547 AAAAAAATTA
Statistics
Matches: 190, Mismatches: 22, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
41 1 0.01
42 42 0.22
43 124 0.65
44 23 0.12
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (44 bp):
CTTTAGCGGCGCTTTTCGCAAAAAACGCCGCTAAAGAACACGAC
Found at i:36350427 original size:85 final size:85
Alignment explanation
Indices: 36350285--36350546 Score: 296
Period size: 85 Copynumber: 3.1 Consensus size: 85
36350275 GCATCGCTAA
* * * * *
36350285 CTTTAGCGGCGTTTCTAGAAAAAATGCCGCTAAAGATCACAACCTTTAGCGGTGCTTTTCCGACA
1 CTTTAGCGGCGCTTCTCGAAAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTTTCC-ACA
*
36350350 AACGCCGCTAAAGACCACGAC
65 AACGCCGCTAAAGAACACGAC
* * * * * *
36350371 CTTTAGCGGCGCTTTTCG-ACAAACGCCGCTATAGACCACGACCTTTAACGGCGCTTTTGCCACA
1 CTTTAGCGGCGCTTCTCGAAAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTTT-CCACA
* * *
36350435 AACGCCGCTAAAGATCATGAT
65 AACGCCGCTAAAGAACACGAC
*
36350456 CTTTAGCGGCGCTTCTCGCAAAAAACGCCGCTAAAGAACA-AACCTTTAGCGGCGCTTCTCGCAA
1 CTTTAGCGGCGCTTCTCG-AAAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTTTC-C-A
* *
36350520 AAAACGCCGCTAAA-AACACTAC
63 CAAACGCCGCTAAAGAACACGAC
36350542 CTTTA
1 CTTTA
36350547 AAAAAAATTA
Statistics
Matches: 146, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
85 72 0.49
86 43 0.29
87 31 0.21
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (85 bp):
CTTTAGCGGCGCTTCTCGAAAAAACGCCGCTAAAGAACACAACCTTTAGCGGCGCTTTTCCACAA
ACGCCGCTAAAGAACACGAC
Found at i:36350611 original size:74 final size:74
Alignment explanation
Indices: 36350499--36350642 Score: 238
Period size: 74 Copynumber: 1.9 Consensus size: 74
36350489 AAGAACAAAC
* *
36350499 CTTTAGCGGCGCTTCTCGCAAAAAACGCCGCTAAAAACACT-ACCTTTAAAAAAAATTATTTTAA
1 CTTTAGCGGCGCTTCTCACAAAAAACGCCACTAAAAACA-TAACCTTTAAAAAAAA-TATTTTAA
36350563 TCAAATAATAT
64 TCAAATAATAT
36350574 CTTTAGCGGCGCTTCTCAC-AAAAACGCCACTAAAAACATAACCTTTAAAAAAAATATTTTAATC
1 CTTTAGCGGCGCTTCTCACAAAAAACGCCACTAAAAACATAACCTTTAAAAAAAATATTTTAATC
36350638 AAATA
66 AAATA
36350643 TTATATTATA
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
73 16 0.24
74 32 0.48
75 18 0.27
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (74 bp):
CTTTAGCGGCGCTTCTCACAAAAAACGCCACTAAAAACATAACCTTTAAAAAAAATATTTTAATC
AAATAATAT
Found at i:36355196 original size:35 final size:33
Alignment explanation
Indices: 36355157--36355323 Score: 93
Period size: 35 Copynumber: 4.8 Consensus size: 33
36355147 CCTATCTTAA
36355157 AAACCCAAGACCCTAAACCTTAAACACCAACCCTT
1 AAACCCAA-ACCCTAAACCTTAAAC-CCAACCCTT
** * * *
36355192 AAACCCTAAACAATAACCCCTAAACCCCATCCCTT
1 AAACCC-AAACCCTAAACCTTAAA-CCCAACCCTT
* * * *
36355227 AACCCCTACCACCTAAACCTTAAACCCTAACCCCT
1 AAACCCAAAC-CCTAAACCTTAAACCC-AACCCTT
** *
36355262 AAACCCTAAACTATAAACCTTTAACCCCTAACACC-T
1 AAACCC-AAACCCTAAACC-TTAAACCC-AAC-CCTT
* * *
36355298 AAACCTTAAACCCCAACCCTTAAACC
1 AAACC-CAAACCCTAAACCTTAAACC
36355324 GTAAACCACA
Statistics
Matches: 98, Mismatches: 26, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
34 5 0.05
35 61 0.62
36 30 0.31
37 2 0.02
ACGTcount: A:0.40, C:0.42, G:0.01, T:0.17
Consensus pattern (33 bp):
AAACCCAAACCCTAAACCTTAAACCCAACCCTT
Found at i:36355198 original size:8 final size:7
Alignment explanation
Indices: 36355157--36355435 Score: 76
Period size: 7 Copynumber: 39.9 Consensus size: 7
36355147 CCTATCTTAA
36355157 AAACCC-
1 AAACCCT
36355163 AAGACCCT
1 AA-ACCCT
*
36355171 AAACCTT
1 AAACCCT
36355178 AAACACC-
1 AAAC-CCT
36355185 -AACCCTT
1 AAACCC-T
36355192 AAACCCT
1 AAACCCT
**
36355199 AAACAAT
1 AAACCCT
*
36355206 AACCCCT
1 AAACCCT
36355213 AAACCC-
1 AAACCCT
* *
36355219 CATCCCTT
1 AAACCC-T
*
36355227 AACCCCT
1 AAACCCT
*
36355234 -ACCACCT
1 AAAC-CCT
*
36355241 AAACCTT
1 AAACCCT
36355248 AAACCCT
1 AAACCCT
*
36355255 AACCCCT
1 AAACCCT
36355262 AAACCCT
1 AAACCCT
**
36355269 AAACTAT
1 AAACCCT
*
36355276 AAACCTTT
1 AAACC-CT
*
36355284 AACCCCT
1 AAACCCT
36355291 -AACACCT
1 AAAC-CCT
*
36355298 AAACCTT
1 AAACCCT
36355305 AAACCC-
1 AAACCCT
*
36355311 CAACCCTT
1 AAACCC-T
*
36355319 AAACCGT
1 AAACCCT
36355326 AAACCAC-
1 AAACC-CT
*
36355333 AAACCAT
1 AAACCCT
*
36355340 AATCCCT
1 AAACCCT
*
36355347 --CCCCT
1 AAACCCT
*
36355352 AAACCTT
1 AAACCCT
* * *
36355359 GAATCAT
1 AAACCCT
* *
36355366 AAAACAT
1 AAACCCT
**
36355373 AAACTAT
1 AAACCCT
**
36355380 AAACTAT
1 AAACCCT
36355387 AAACCCT
1 AAACCCT
36355394 AAACCCCT
1 AAA-CCCT
36355402 -AACCCT
1 AAACCCT
* *
36355408 TAACCTT
1 AAACCCT
*
36355415 CAACACCT
1 AAAC-CCT
*
36355423 AAACCTT
1 AAACCCT
36355430 AAACCC
1 AAACCC
36355436 CAACCCTTAC
Statistics
Matches: 200, Mismatches: 51, Indels: 43
0.68 0.17 0.15
Matches are distributed among these distances:
5 6 0.03
6 23 0.12
7 136 0.68
8 35 0.17
ACGTcount: A:0.41, C:0.39, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:36355290 original size:22 final size:22
Alignment explanation
Indices: 36355261--36355330 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
36355251 CCCTAACCCC
36355261 TAAA-CCCTAA-ACTATAAACCT
1 TAAACCCCTAACAC-ATAAACCT
* *
36355282 TTAACCCCTAACACCTAAACCT
1 TAAACCCCTAACACATAAACCT
* * *
36355304 TAAACCCC-AACCCTTAAACCG
1 TAAACCCCTAACACATAAACCT
36355325 TAAACC
1 TAAACC
36355331 ACAAACCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 19 0.46
22 20 0.49
23 2 0.05
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACACATAAACCT
Found at i:36355639 original size:153 final size:152
Alignment explanation
Indices: 36355444--36355718 Score: 442
Period size: 153 Copynumber: 1.8 Consensus size: 152
36355434 CCCAACCCTT
* * *
36355444 ACGCCGCAAAAGCCCATGCTTTAGCGACGCTTTTTAAAAAACGCCACTAAAGCCCCTAAAACTCA
1 ACGCCGCAAAAGCCCATGCATTAGCAACGCTTTTTAAAAAACGCCACTAAAGCCCCAAAAACTCA
* * *
36355509 AAAAATGGCGTAGTTGGGCTTAGGTTTTTTGCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTAA
66 AAAAACGACGTAGTTGGGCTTAGGTTTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCTAA
36355574 GCATTAGCGGCGCTTTTCAAAA
131 GCATTAGCGGCGCTTTTCAAAA
*
36355596 ACGCCGCTAAAGCCCCATGCATTAGCAACGCTTTTTAAAAAACGCCACTAAAGCCCCAAAAACTC
1 ACGCCGCAAAAG-CCCATGCATTAGCAACGCTTTTTAAAAAACGCCACTAAAGCCCCAAAAACTC
* * * *
36355661 AGAAAACGACGTCGTTGTGCTTAGGTTTTTTGTGGCGCTTTTTGAAAAACGCCGCTAA
65 AAAAAACGACGTAGTTGGGCTTAGGTTTTTTGCGGCGCTTTTTGAAAAACGCCGCTAA
36355719 TGCTCATTTT
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
152 11 0.10
153 100 0.90
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (152 bp):
ACGCCGCAAAAGCCCATGCATTAGCAACGCTTTTTAAAAAACGCCACTAAAGCCCCAAAAACTCA
AAAAACGACGTAGTTGGGCTTAGGTTTTTTGCGGCGCTTTTTGAAAAACGCCGCTAAAACCCTAA
GCATTAGCGGCGCTTTTCAAAA
Found at i:36355649 original size:41 final size:41
Alignment explanation
Indices: 36355543--36355654 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 41
36355533 TTTTTTGCGG
** * * **
36355543 CGCTTTTTGGAAAACGCCGCTAAAACCCTAAGCATTAGCGG
1 CGCTTTTTAAAAAACGCCGCTAAAGCCCCAAGCATTAGCAA
* *
36355584 CGC-TTTTCAAAAACGCCGCTAAAGCCCCATGCATTAGCAA
1 CGCTTTTTAAAAAACGCCGCTAAAGCCCCAAGCATTAGCAA
*
36355624 CGCTTTTTAAAAAACGCCACTAAAGCCCCAA
1 CGCTTTTTAAAAAACGCCGCTAAAGCCCCAA
36355655 AAACTCAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 33 0.55
41 27 0.45
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (41 bp):
CGCTTTTTAAAAAACGCCGCTAAAGCCCCAAGCATTAGCAA
Found at i:36355798 original size:40 final size:38
Alignment explanation
Indices: 36355710--36355822 Score: 120
Period size: 40 Copynumber: 2.9 Consensus size: 38
36355700 TTTTGAAAAA
* *
36355710 CGCCGCTAATGCTCATTTTTAGCAGCG-TTTTCCAAAG
1 CGCCGCTAATGCTCATTTTTAGCGGCGTTTTTTCAAAG
* * *
36355747 TACGCCACTAATGCTCAATCTTTAGTGGCGTTTTTTCAGAAG
1 --CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTTTCA-AAG
*
36355789 CGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTT
1 CGCCGCTAATGC-TCATTTTTAGCGGCGTTTTTT
36355823 ATCTAAACGC
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 13 0.21
40 38 0.62
41 7 0.11
42 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (38 bp):
CGCCGCTAATGCTCATTTTTAGCGGCGTTTTTTCAAAG
Found at i:36361303 original size:24 final size:23
Alignment explanation
Indices: 36361243--36361303 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
36361233 AACAAGTTAG
* *
36361243 AAATAATAATAATGAAAACGTGAAT
1 AAATAATAAAAAT--AAACGTGAAC
*
36361268 AAATAATCAAAATAAACGTGAAC
1 AAATAATAAAAATAAACGTGAAC
36361291 AAAGTAATAAAAA
1 AAA-TAATAAAAA
36361304 AAAAAACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 12 0.39
24 8 0.26
25 11 0.35
ACGTcount: A:0.64, C:0.07, G:0.10, T:0.20
Consensus pattern (23 bp):
AAATAATAAAAATAAACGTGAAC
Found at i:36362880 original size:111 final size:111
Alignment explanation
Indices: 36362686--36362900 Score: 430
Period size: 111 Copynumber: 1.9 Consensus size: 111
36362676 GGGCATACAT
36362686 TCTTCAGATAATTGGAGATTATTTGATGCCGAACTTGTCACGGAACCTCATACATCTAAGATAGC
1 TCTTCAGATAATTGGAGATTATTTGATGCCGAACTTGTCACGGAACCTCATACATCTAAGATAGC
36362751 TGCTGAAACTCGTTGATTTTAAAGCAGCTGGTGAATTGACAAGACA
66 TGCTGAAACTCGTTGATTTTAAAGCAGCTGGTGAATTGACAAGACA
36362797 TCTTCAGATAATTGGAGATTATTTGATGCCGAACTTGTCACGGAACCTCATACATCTAAGATAGC
1 TCTTCAGATAATTGGAGATTATTTGATGCCGAACTTGTCACGGAACCTCATACATCTAAGATAGC
36362862 TGCTGAAACTCGTTGATTTTAAAGCAGCTGGTGAATTGA
66 TGCTGAAACTCGTTGATTTTAAAGCAGCTGGTGAATTGA
36362901 GTTGGGGGTC
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 104 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (111 bp):
TCTTCAGATAATTGGAGATTATTTGATGCCGAACTTGTCACGGAACCTCATACATCTAAGATAGC
TGCTGAAACTCGTTGATTTTAAAGCAGCTGGTGAATTGACAAGACA
Found at i:36363341 original size:21 final size:22
Alignment explanation
Indices: 36363301--36363343 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36363291 CCCTAAAAAT
* *
36363301 CCTAAAAACCTTAAACCCTAAC
1 CCTAAAAACCTCAAAACCTAAC
36363323 CCTAAAAACC-CAAAACCTAAC
1 CCTAAAAACCTCAAAACCTAAC
36363344 GTGGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (22 bp):
CCTAAAAACCTCAAAACCTAAC
Found at i:36368674 original size:21 final size:21
Alignment explanation
Indices: 36368650--36368691 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
36368640 ATTCAAGAAG
36368650 TTACTTTTAAAAATAGAAAAT
1 TTACTTTTAAAAATAGAAAAT
36368671 TTACTTTTAAAAATAGAAAAT
1 TTACTTTTAAAAATAGAAAAT
36368692 CAACCACTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (21 bp):
TTACTTTTAAAAATAGAAAAT
Found at i:36376667 original size:6 final size:6
Alignment explanation
Indices: 36376656--36376684 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36376646 TCATGGTTGA
36376656 TTCCAC TTCCAC TTCCAC TTCCAC TTCCA
1 TTCCAC TTCCAC TTCCAC TTCCAC TTCCA
36376685 GTAACCAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.34
Consensus pattern (6 bp):
TTCCAC
Found at i:36380812 original size:25 final size:23
Alignment explanation
Indices: 36380771--36380817 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
36380761 AAATAAATTT
36380771 TATAATAAGATTATTCATATATA
1 TATAATAAGATTATTCATATATA
*
36380794 TATATATATGATTATTTCATATAT
1 TATA-ATAAGATTA-TTCATATAT
36380818 GTTAACGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 8 0.38
25 9 0.43
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (23 bp):
TATAATAAGATTATTCATATATA
Found at i:36380945 original size:14 final size:14
Alignment explanation
Indices: 36380921--36380954 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
36380911 AGAGTAAAAT
36380921 TATTATATTTATTTA
1 TATT-TATTTATTTA
36380936 TATTTATTTATTTA
1 TATTTATTTATTTA
36380950 T-TTTA
1 TATTTA
36380955 ACACTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 11 0.58
15 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTATTTATTTA
Found at i:36381426 original size:28 final size:28
Alignment explanation
Indices: 36381375--36381428 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
36381365 ATAATAAAAA
*
36381375 AATCAATTGAGTCCTAATCGAAAAGTAC
1 AATCAATTGACTCCTAATCGAAAAGTAC
*
36381403 AATCAATTGAACTCTTAATC-AAAAGT
1 AATCAATTG-ACTCCTAATCGAAAAGT
36381429 TAGCAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (28 bp):
AATCAATTGACTCCTAATCGAAAAGTAC
Found at i:36381702 original size:17 final size:17
Alignment explanation
Indices: 36381676--36381710 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36381666 TCATATAAGT
*
36381676 TTTTTATAATTTTTTAA
1 TTTTTATAATATTTTAA
*
36381693 TTTTTGTAATATTTTAA
1 TTTTTATAATATTTTAA
36381710 T
1 T
36381711 AATTTCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTTATAATATTTTAA
Found at i:36382002 original size:10 final size:10
Alignment explanation
Indices: 36381987--36382088 Score: 66
Period size: 10 Copynumber: 9.9 Consensus size: 10
36381977 AATAACAAAC
36381987 TTTTCTATAA
1 TTTTCTATAA
36381997 TTTTCTTATATA
1 TTTTC-TATA-A
36382009 TTTTCTTATAA
1 TTTTC-TATAA
*
36382020 TTTTTATTATAA
1 -TTTT-CTATAA
*
36382032 TTTTC-ATCA
1 TTTTCTATAA
* *
36382041 TTTT-AATTA
1 TTTTCTATAA
*
36382050 TTTTATATAA
1 TTTTCTATAA
*
36382060 TTTTTTAT-A
1 TTTTCTATAA
*
36382069 CTTTCATATAA
1 TTTTC-TATAA
36382080 TTTTCTATA
1 TTTTCTATA
36382089 TTTATAGGTT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
9 18 0.24
10 22 0.30
11 14 0.19
12 20 0.27
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTCTATAA
Found at i:36382013 original size:12 final size:11
Alignment explanation
Indices: 36381987--36382036 Score: 66
Period size: 12 Copynumber: 4.5 Consensus size: 11
36381977 AATAACAAAC
36381987 TTTTC-TATAA
1 TTTTCTTATAA
36381997 TTTTCTTATATA
1 TTTTCTTATA-A
36382009 TTTTCTTATAA
1 TTTTCTTATAA
*
36382020 TTTTTATTATAA
1 -TTTTCTTATAA
36382032 TTTTC
1 TTTTC
36382037 ATCATTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 5 0.14
11 9 0.26
12 21 0.60
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTCTTATAA
Found at i:36382020 original size:23 final size:22
Alignment explanation
Indices: 36381987--36382050 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
36381977 AATAACAAAC
*
36381987 TTTTCTATAA-TTTTCTTATATA
1 TTTTCTATAATTTTTATTATA-A
36382009 TTTTCTTATAATTTTTATTATAA
1 TTTTC-TATAATTTTTATTATAA
* *
36382032 TTTTC-ATCATTTTAATTAT
1 TTTTCTATAATTTTTATTAT
36382051 TTTATATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.32
22 5 0.14
23 11 0.30
24 9 0.24
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTCTATAATTTTTATTATAA
Found at i:36382067 original size:12 final size:12
Alignment explanation
Indices: 36381987--36382068 Score: 53
Period size: 12 Copynumber: 6.6 Consensus size: 12
36381977 AATAACAAAC
*
36381987 TTTTCTATAATT
1 TTTTATATAATT
36381999 TTCTTATAT-ATT
1 TT-TTATATAATT
*
36382011 TTCT-TATAA-T
1 TTTTATATAATT
36382021 TTTTATTATAATT
1 TTTTA-TATAATT
* *
36382034 TTCATCATTTTAATT
1 TT--TTA-TATAATT
36382049 ATTTTATATAATT
1 -TTTTATATAATT
36382062 TTTTATA
1 TTTTATA
36382069 CTTTCATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
10 7 0.13
11 2 0.04
12 19 0.35
13 14 0.25
14 2 0.04
15 9 0.16
16 2 0.04
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:36383338 original size:25 final size:25
Alignment explanation
Indices: 36383304--36383368 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
36383294 ATTATTTATT
36383304 ATTTATAAATAAATTAACAAAACATTA
1 ATTT-TAAATAAATTAA-AAAACATTA
*
36383331 A-TTTAAATAAAATAAAAAACATTA
1 ATTTTAAATAAATTAAAAAACATTA
36383355 ATTTTAAATAAATT
1 ATTTTAAATAAATT
36383369 TATTTATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.29
25 22 0.63
26 2 0.06
27 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTTAAATAAATTAAAAAACATTA
Found at i:36384458 original size:59 final size:59
Alignment explanation
Indices: 36384298--36384448 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 59
36384288 CTAATGTGTT
** *
36384298 TTTTTTTTGTCCAATTAGGTGCCTAAACTTGGCCTCAAGGTTCAATTTGATACTTAAAC
1 TTTTTTTTGTCCAATTAGGTATCTAAACTTAGCCTCAAGGTTCAATTTGATACTTAAAC
* * * * * *
36384357 TTTTTTTTATCCGATTGGGTATCTAAACTTAGCGTCAAGGTTCAATTTGATCCTTGAAC
1 TTTTTTTTGTCCAATTAGGTATCTAAACTTAGCCTCAAGGTTCAATTTGATACTTAAAC
*
36384416 TTTTTTTTGTCCAATTAAGTATCTAAACTTAGC
1 TTTTTTTTGTCCAATTAGGTATCTAAACTTAGC
36384449 TTTTTGGTTC
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (59 bp):
TTTTTTTTGTCCAATTAGGTATCTAAACTTAGCCTCAAGGTTCAATTTGATACTTAAAC
Found at i:36385422 original size:100 final size:101
Alignment explanation
Indices: 36385307--36385510 Score: 401
Period size: 100 Copynumber: 2.0 Consensus size: 101
36385297 AGATGATTCG
36385307 ATAAAAAATATAAGTTTAAAATTTTTTTGAAAAAAAAAATATTTTAAGATGATCCGATAAAATAA
1 ATAAAAAATATAAGTTTAAAATTTTTTTGAAAAAAAAAATATTTTAAGATGATCCGATAAAATAA
36385372 TTTTTTTTATAAAATTAAAAGGTTAAATAAGTAATT
66 TTTTTTTTATAAAATTAAAAGGTTAAATAAGTAATT
36385408 ATAAAAAATA-AAGTTTAAAATTTTTTTGAAAAAAAAAATATTTTAAGATGATCCGATAAAATAA
1 ATAAAAAATATAAGTTTAAAATTTTTTTGAAAAAAAAAATATTTTAAGATGATCCGATAAAATAA
36385472 TTTTTTTTATAAAATTAAAAGGTTAAATAAGTAATT
66 TTTTTTTTATAAAATTAAAAGGTTAAATAAGTAATT
36385508 ATA
1 ATA
36385511 CATGAAAAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
100 93 0.90
101 10 0.10
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (101 bp):
ATAAAAAATATAAGTTTAAAATTTTTTTGAAAAAAAAAATATTTTAAGATGATCCGATAAAATAA
TTTTTTTTATAAAATTAAAAGGTTAAATAAGTAATT
Found at i:36385500 original size:53 final size:53
Alignment explanation
Indices: 36385343--36385500 Score: 127
Period size: 53 Copynumber: 3.1 Consensus size: 53
36385333 TTGAAAAAAA
36385343 AAATATTTTAAGATGATCCGATAAAATAATTTTTTTTATAAAATTAAAAGGTT
1 AAATATTTTAAGATGATCCGATAAAATAATTTTTTTTATAAAATTAAAAGGTT
** * **** * ** *
36385396 AAATA-AGTAATTAT-AAAAAATAAAGTTTAAAATTTTTT-TGAAA--AAAA----
1 AAATATTTTAA-GATGATCCGATAAA--ATAATTTTTTTTATAAAATTAAAAGGTT
36385443 AAATATTTTAAGATGATCCGATAAAATAATTTTTTTTATAAAATTAAAAGGTT
1 AAATATTTTAAGATGATCCGATAAAATAATTTTTTTTATAAAATTAAAAGGTT
36385496 AAATA
1 AAATA
36385501 AGTAATTATA
Statistics
Matches: 71, Mismatches: 22, Indels: 24
0.61 0.19 0.21
Matches are distributed among these distances:
46 9 0.13
47 11 0.15
48 9 0.13
49 4 0.06
51 4 0.06
52 9 0.13
53 16 0.23
54 9 0.13
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.39
Consensus pattern (53 bp):
AAATATTTTAAGATGATCCGATAAAATAATTTTTTTTATAAAATTAAAAGGTT
Found at i:36385840 original size:15 final size:14
Alignment explanation
Indices: 36385812--36385861 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
36385802 TTTAATTTCC
36385812 TTATATCACTCCTCT
1 TTATATCAC-CCTCT
36385827 TTATCATCACCCTCT
1 TTAT-ATCACCCTCT
* *
36385842 TTTTATCCCCCTCT
1 TTATATCACCCTCT
36385856 TT-TATC
1 TTATATC
36385862 TTGACTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 4 0.12
14 11 0.34
15 12 0.38
16 5 0.16
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATATCACCCTCT
Found at i:36385855 original size:14 final size:14
Alignment explanation
Indices: 36385816--36385858 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
36385806 ATTTCCTTAT
36385816 ATCACTCCTCTTTATC
1 ATCAC-CCTCTTT-TC
*
36385832 ATCACCCTCTTTTT
1 ATCACCCTCTTTTC
*
36385846 ATCCCCCTCTTTT
1 ATCACCCTCTTTT
36385859 ATCTTGACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 7 0.28
16 5 0.20
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.47
Consensus pattern (14 bp):
ATCACCCTCTTTTC
Found at i:36414494 original size:23 final size:23
Alignment explanation
Indices: 36414448--36414494 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
36414438 AATTAATTAT
* *
36414448 TTTTTAAAAATATATAAAGTATA
1 TTTTTAAAAAAATATAAAGAATA
36414471 TTTTTAAAAAAAGTATAAA-AATA
1 TTTTTAAAAAAA-TATAAAGAATA
36414494 T
1 T
36414495 AGATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTTTAAAAAAATATAAAGAATA
Found at i:36416773 original size:465 final size:466
Alignment explanation
Indices: 36415889--36416821 Score: 1859
Period size: 465 Copynumber: 2.0 Consensus size: 466
36415879 AGTTAATAAT
36415889 TGAATAGAACTCTAAATATTTAATTATCAATTATTTAGTATTAGAGTTATATACTAATTAAAATT
1 TGAATAGAACTCTAAATATTTAATTATCAATTATTTAGTATTAGAGTTATATACTAATTAAAATT
36415954 TAACTTTAATTTTATAAATAAAATTAGGGAAATTAAAAAAAAAAAGAATTCTTCCTAAATTGTCT
66 TAACTTTAATTTTATAAATAAAATTAGGGAAATTAAAAAAAAAAAGAATTCTTCCTAAATTGTCT
36416019 ATTTTGATGAACCAGCTCTTACCAGAGTTACAAACGGACAATGAGGGACAAGGAATCCCCTTTGT
131 ATTTTGATGAACCAGCTCTTACCAGAGTTACAAACGGACAATGAGGGACAAGGAATCCCCTTTGT
36416084 TTTCTGTATTTGCTTGTTTGTATTTCTCTCCCTCTTTACTGTTTAAAGACAGAAAAAAAATCTTT
196 TTTCTGTATTTGCTTGTTTGTATTTCTCTCCCTCTTTACTGTTTAAAGACAGAAAAAAAATCTTT
36416149 TTTTAATTTAATTTAATAAGATCTTGCCTTAGTGTAGTCACATATTAGATACTTACCCCCTGTTT
261 TTTTAATTTAATTTAATAAGATCTTGCCTTAGTGTAGTCACATATTAGATACTTACCCCCTGTTT
36416214 TATTTGAATTTCATTTATGAAATACTTTATTGACTCATTTTATATCATGGATCAAAGAAGTTAAA
326 TATTTGAATTTCATTTATGAAATACTTTATTGACTCATTTTATATCATGGATCAAAGAAGTTAAA
36416279 TTCAAAATCGGCAGGGTATACCCTTTTTTCGAAACGAAATACGAAGAAAAGTTACCATAGAACTC
391 TTCAAAATCGGCAGGGTATACCCTTTTTTCGAAACGAAATACGAAGAAAAGTTACCATAGAACTC
36416344 TTTGGATCATC
456 TTTGGATCATC
36416355 TGAATAGAACTC-AAATATTTAATTATCAATTATTTAGTATTAGAGTTATATACTAATTAAAATT
1 TGAATAGAACTCTAAATATTTAATTATCAATTATTTAGTATTAGAGTTATATACTAATTAAAATT
36416419 TAACTTTAATTTTATAAATAAAATTAGGGAAATTAAAAAAAAAAAGAATTCTTCCTAAATTGTCT
66 TAACTTTAATTTTATAAATAAAATTAGGGAAATTAAAAAAAAAAAGAATTCTTCCTAAATTGTCT
36416484 ATTTTGATGAACCAGCTCTTACCAGAGTTACAAACGGACAATGAGGGACAAGGAATCCCCTTTGT
131 ATTTTGATGAACCAGCTCTTACCAGAGTTACAAACGGACAATGAGGGACAAGGAATCCCCTTTGT
36416549 TTTCTGTATTTGCTTGTTTGTATTTCTCTCCCTCTTTACTGTTTAAAGACAGAAAAAAAATCTTT
196 TTTCTGTATTTGCTTGTTTGTATTTCTCTCCCTCTTTACTGTTTAAAGACAGAAAAAAAATCTTT
36416614 TTTTAATTTAATTTAATAAGATCTTGCCTTAGTGTAGTCACATATTAGATACTTACCCCCTGTTT
261 TTTTAATTTAATTTAATAAGATCTTGCCTTAGTGTAGTCACATATTAGATACTTACCCCCTGTTT
36416679 TATTTGAATTTCATTTATGAAATACTTTATTGACTCATTTTATATCATGGATCAAAGAAGTTAAA
326 TATTTGAATTTCATTTATGAAATACTTTATTGACTCATTTTATATCATGGATCAAAGAAGTTAAA
36416744 TTCAAAATCGGCAGGGTATACCCTTTTTTCGAAACGAAATACGAAGAAAAGTTACCATAGAACTC
391 TTCAAAATCGGCAGGGTATACCCTTTTTTCGAAACGAAATACGAAGAAAAGTTACCATAGAACTC
36416809 TTTGGATCATC
456 TTTGGATCATC
36416820 TG
1 TG
36416822 TCAGTTGCTC
Statistics
Matches: 467, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
465 455 0.97
466 12 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (466 bp):
TGAATAGAACTCTAAATATTTAATTATCAATTATTTAGTATTAGAGTTATATACTAATTAAAATT
TAACTTTAATTTTATAAATAAAATTAGGGAAATTAAAAAAAAAAAGAATTCTTCCTAAATTGTCT
ATTTTGATGAACCAGCTCTTACCAGAGTTACAAACGGACAATGAGGGACAAGGAATCCCCTTTGT
TTTCTGTATTTGCTTGTTTGTATTTCTCTCCCTCTTTACTGTTTAAAGACAGAAAAAAAATCTTT
TTTTAATTTAATTTAATAAGATCTTGCCTTAGTGTAGTCACATATTAGATACTTACCCCCTGTTT
TATTTGAATTTCATTTATGAAATACTTTATTGACTCATTTTATATCATGGATCAAAGAAGTTAAA
TTCAAAATCGGCAGGGTATACCCTTTTTTCGAAACGAAATACGAAGAAAAGTTACCATAGAACTC
TTTGGATCATC
Found at i:36418275 original size:21 final size:22
Alignment explanation
Indices: 36418251--36418293 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36418241 CCATCGACAA
* *
36418251 TTAATACT-TTTTTTGAAAATT
1 TTAATAATATTTTTTAAAAATT
36418272 TTAATAATATTTTTTAAAAATT
1 TTAATAATATTTTTTAAAAATT
36418294 ATAGTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAATAATATTTTTTAAAAATT
Found at i:36419973 original size:33 final size:31
Alignment explanation
Indices: 36419905--36419974 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
36419895 TTAATTTTTT
* * *
36419905 TAAAATTTTTAAAAAATAAAATTAAAACCAT
1 TAAAATTTTTAAAAAATAAAAATAAAACAAA
* *
36419936 TAAAATTATTTAAAAGTATAAAAATAATACAAA
1 TAAAATT-TTTAAAA-AATAAAAATAAAACAAA
36419969 TAAAAT
1 TAAAAT
36419975 AAAGTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 7 0.22
32 7 0.22
33 18 0.56
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (31 bp):
TAAAATTTTTAAAAAATAAAAATAAAACAAA
Found at i:36420899 original size:18 final size:18
Alignment explanation
Indices: 36420876--36420910 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36420866 TAAATTTTTT
36420876 TAATTAGGTTGAGTTGGG
1 TAATTAGGTTGAGTTGGG
*
36420894 TAATTAGGTTGGGTTGG
1 TAATTAGGTTGAGTTGG
36420911 ATACTTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (18 bp):
TAATTAGGTTGAGTTGGG
Found at i:36422493 original size:26 final size:25
Alignment explanation
Indices: 36422454--36422505 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
36422444 TCTTGCCTCT
*
36422454 AATATTATATAAAAAAATATATTAAA
1 AATATTATAAAAAAAAAT-TATTAAA
*
36422480 AATATTATAAAAAAACATTATTAAA
1 AATATTATAAAAAAAAATTATTAAA
36422505 A
1 A
36422506 GAGTTTTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AATATTATAAAAAAAAATTATTAAA
Found at i:36427260 original size:92 final size:90
Alignment explanation
Indices: 36427089--36427261 Score: 238
Period size: 90 Copynumber: 1.9 Consensus size: 90
36427079 TGTTAGGTGG
* * * *
36427089 ATATATACGAGAGATCGTTTTATTATAGGGATCTGATTAAAATATATTTTACTATAAAATGGATA
1 ATATATACGAGAGATCGTTCTATTATAGGGATCTAATCAAAATAGATTTTACTATAAAATGGATA
**
36427154 ATACAATGGTTTATTTAACCTTCTA
66 ATACAATGACTTATTTAACCTTCTA
* * *
36427179 ATATATACGAGAGGTCGTTCTATTATAGGGATCTAATCAGAATAGATCTTCTACTATTAAATGGA
1 ATATATACGAGAGATCGTTCTATTATAGGGATCTAATCAAAATAGAT-TT-TACTATAAAATGGA
*
36427244 TAGTACAATGACTTATTT
64 TAATACAATGACTTATTT
36427262 GGCATTACAA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 41 0.58
91 2 0.03
92 28 0.39
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (90 bp):
ATATATACGAGAGATCGTTCTATTATAGGGATCTAATCAAAATAGATTTTACTATAAAATGGATA
ATACAATGACTTATTTAACCTTCTA
Found at i:36427505 original size:20 final size:18
Alignment explanation
Indices: 36427470--36427512 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
36427460 AAAAATTCAA
36427470 AAAAAATATAAATTATTT
1 AAAAAATATAAATTATTT
*
36427488 AAAAAGTATAAA--ATTT
1 AAAAAATATAAATTATTT
36427504 ATAAAAATA
1 A-AAAAATA
36427513 AATATTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 5 0.23
17 6 0.27
18 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAAATATAAATTATTT
Found at i:36427519 original size:16 final size:16
Alignment explanation
Indices: 36427471--36427519 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
36427461 AAAATTCAAA
36427471 AAAAATATAAATTATTT
1 AAAAATATAAA-TATTT
36427488 AAAAAGTATAAA-ATTT
1 AAAAA-TATAAATATTT
36427504 ATAAAA-ATAAATATTT
1 A-AAAATATAAATATTT
36427520 TTCAAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.17
16 9 0.31
17 9 0.31
18 6 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAAATATAAATATTT
Found at i:36429967 original size:21 final size:21
Alignment explanation
Indices: 36429943--36429988 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
36429933 AAAATCTTAT
*
36429943 AATATA-ATTATTTAATTAATA
1 AATATATATTACTTAA-TAATA
*
36429964 AATATATTTTACTTAATAATA
1 AATATATATTACTTAATAATA
36429985 AATA
1 AATA
36429989 ATAGATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATATATTACTTAATAATA
Found at i:36430030 original size:29 final size:27
Alignment explanation
Indices: 36429955--36430030 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 27
36429945 TATAATTATT
*
36429955 TAATTAATAAATATATTTTACTTAATAA
1 TAATTAATAAATATA-TTTACTTAAAAA
* *
36429983 TAAATAATAGATATCTATTTACTTAAAAA
1 TAATTAATA-A-ATATATTTACTTAAAAA
36430012 GTAATTAAATAAATATATT
1 -TAATT-AATAAATATATT
36430031 ACAAATGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 8 0.21
29 18 0.46
30 9 0.23
31 4 0.10
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (27 bp):
TAATTAATAAATATATTTACTTAAAAA
Found at i:36430586 original size:253 final size:253
Alignment explanation
Indices: 36430138--36430641 Score: 981
Period size: 253 Copynumber: 2.0 Consensus size: 253
36430128 AATTCACTTA
36430138 ATTAAAATCTAATTAAACACACTACTAGACTCATAAATATTTTTAATAATTATTTACAAACTTGG
1 ATTAAAATCTAATTAAACACACTACTAGACTCATAAATATTTTTAATAATTATTTACAAACTTGG
* *
36430203 TTTATTAAGACGGAGGCCCGATATTACACTTTTTCGATGCCCGTGAATTTTGGGTCATTACGTTT
66 TTTATTAAGACGGAGGCCCGATATTACACTTTTTCGATACCCGTGAATTTTGGGTCATTACATTT
36430268 TTAATAAACTGAATGAATTCATTTAATAATAATATCTTCCCAAATGCTTTTAACTTCATTGTTCT
131 TTAATAAACTGAATGAATTCATTTAATAATAATATCTTCCCAAATGCTTTTAACTTCATTGTTCT
36430333 CCCCACTTGTGAGATAGGGAGAGACCCCACCTTTTATGTCTCTCTCACCATTTTCAAG
196 CCCCACTTGTGAGATAGGGAGAGACCCCACCTTTTATGTCTCTCTCACCATTTTCAAG
36430391 ATTAAAATCTAATTAAACACACTACTAGACTCATAAATATTTTTAATAATTATTTACAAACTTGG
1 ATTAAAATCTAATTAAACACACTACTAGACTCATAAATATTTTTAATAATTATTTACAAACTTGG
36430456 TTTATTAAGACGGAGGCCCGATATTACACTTTTTCGATACCCGTGAATTTTGGGTCATTACATTT
66 TTTATTAAGACGGAGGCCCGATATTACACTTTTTCGATACCCGTGAATTTTGGGTCATTACATTT
36430521 TTAATAAACTGAATGAATTCATTTAATAATAATATCTTCCCAAATGCTTTTAACTTCATTGTTCT
131 TTAATAAACTGAATGAATTCATTTAATAATAATATCTTCCCAAATGCTTTTAACTTCATTGTTCT
*
36430586 CCCCACTTGTGAGATAGGGAGAGACCCCTCCTTTTATGTCTCTCTCACCATTTTCA
196 CCCCACTTGTGAGATAGGGAGAGACCCCACCTTTTATGTCTCTCTCACCATTTTCA
36430642 GGTTCGAAAG
Statistics
Matches: 248, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
253 248 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (253 bp):
ATTAAAATCTAATTAAACACACTACTAGACTCATAAATATTTTTAATAATTATTTACAAACTTGG
TTTATTAAGACGGAGGCCCGATATTACACTTTTTCGATACCCGTGAATTTTGGGTCATTACATTT
TTAATAAACTGAATGAATTCATTTAATAATAATATCTTCCCAAATGCTTTTAACTTCATTGTTCT
CCCCACTTGTGAGATAGGGAGAGACCCCACCTTTTATGTCTCTCTCACCATTTTCAAG
Found at i:36434919 original size:12 final size:12
Alignment explanation
Indices: 36434902--36434926 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36434892 ATTTATTGTA
36434902 TAAAAAATATTT
1 TAAAAAATATTT
36434914 TAAAAAATATTT
1 TAAAAAATATTT
36434926 T
1 T
36434927 TTAATTGTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAAATATTT
Found at i:36436133 original size:17 final size:19
Alignment explanation
Indices: 36436094--36436138 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
36436084 ATATTTTTTA
36436094 AAAAATATAATAAATAATTT
1 AAAAATATAATAAATAA-TT
36436114 AAAAATATAATAAA-AA-T
1 AAAAATATAATAAATAATT
36436131 AAAAATAT
1 AAAAATAT
36436139 TGTTAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.36
19 2 0.08
20 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATATAATAAATAATT
Found at i:36436166 original size:22 final size:22
Alignment explanation
Indices: 36436125--36436166 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36436115 AAAATATAAT
**
36436125 AAAAATAAAAATATTGTTAACA
1 AAAAATAAAAATATAATTAACA
*
36436147 AAAAATAATAATATAATTAA
1 AAAAATAAAAATATAATTAA
36436167 TATAAGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAAATAAAAATATAATTAACA
Found at i:36440781 original size:30 final size:30
Alignment explanation
Indices: 36440747--36440854 Score: 112
Period size: 30 Copynumber: 3.6 Consensus size: 30
36440737 TTTTTAATTT
*
36440747 TTTTGACCCCTAATCTTT-TCTAAAATTACC
1 TTTTGACCCCTAAACTTTCTC-AAAATTACC
*
36440777 TTTTGACCCCTAAACTTTCTCAAAATTACA
1 TTTTGACCCCTAAACTTTCTCAAAATTACC
** * * *
36440807 TTTCAATCTCTAAACTTTTTCAAAATTACAC
1 TTTTGACCCCTAAACTTTCTCAAAATTAC-C
*
36440838 TTTTG-CCCCAAAACTTT
1 TTTTGACCCCTAAACTTT
36440855 TGCTACATTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
30 58 0.92
31 5 0.08
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.41
Consensus pattern (30 bp):
TTTTGACCCCTAAACTTTCTCAAAATTACC
Found at i:36441344 original size:4 final size:4
Alignment explanation
Indices: 36441335--36441375 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
36441325 GCTGATCGGA
*
36441335 AAAG AAAG AAAG AAAG -AA- AAAG AGAAG AAAC AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AA
36441376 GAGGGAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 24 0.75
5 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:36441383 original size:19 final size:19
Alignment explanation
Indices: 36441334--36441392 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
36441324 GGCTGATCGG
*
36441334 AAAAGA-AAGAAAGAAAGA
1 AAAAGAGAAGAAACAAAGA
36441352 AAAAGAGAAGAAACAAAGA
1 AAAAGAGAAGAAACAAAGA
*
36441371 AAGAAGAG-GGAAACAAA-A
1 AA-AAGAGAAGAAACAAAGA
36441389 AAAA
1 AAAA
36441393 ATAACAGTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 2 0.05
18 9 0.24
19 21 0.57
20 5 0.14
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAGAGAAGAAACAAAGA
Found at i:36441511 original size:19 final size:20
Alignment explanation
Indices: 36441477--36441535 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
36441467 AGTCAAGCCC
* *
36441477 AAAGCAGCCCAAAAAAAA-AC
1 AAAGCAG-CAAAAAAAAAGAA
*
36441497 AAAGCAG-AAAAAAAAAGGA
1 AAAGCAGCAAAAAAAAAGAA
36441516 AAAGCAGCAAAAAAAAAGAA
1 AAAGCAGCAAAAAAAAAGAA
36441536 GCAGCCCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 18 0.55
ACGTcount: A:0.71, C:0.14, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAGCAGCAAAAAAAAAGAA
Found at i:36441545 original size:19 final size:18
Alignment explanation
Indices: 36441486--36441540 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 18
36441476 CAAAGCAGCC
*
36441486 CAAAAAAAAACAAAGCAG
1 CAAAAAAAAACGAAGCAG
*
36441504 -AAAAAAAAAGGAAAAGCAG
1 CAAAAAAAAACG--AAGCAG
36441523 CAAAAAAAAA-GAAGCAG
1 CAAAAAAAAACGAAGCAG
36441540 C
1 C
36441541 CCAAAGCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 16 0.50
19 7 0.22
20 9 0.28
ACGTcount: A:0.71, C:0.13, G:0.16, T:0.00
Consensus pattern (18 bp):
CAAAAAAAAACGAAGCAG
Found at i:36442205 original size:17 final size:17
Alignment explanation
Indices: 36442183--36442296 Score: 77
Period size: 17 Copynumber: 6.4 Consensus size: 17
36442173 ACAATTTTAA
*
36442183 AAAAATTGTCGTGTTTC
1 AAAAATTCTCGTGTTTC
* *
36442200 AAAAATT-TCGAGTTTA
1 AAAAATTCTCGTGTTTC
**** *
36442216 AAAAAAAAGCGAGTTTTC
1 AAAAATTCTCGTG-TTTC
*
36442234 AAAAAAATTTCTCATGTTTC
1 -A-AAAA-TTCTCGTGTTTC
*
36442254 AAAAATTTTCGTGTTTTC
1 AAAAATTCTCGTG-TTTC
36442272 AAAAAATTCTCGTGTTTC
1 -AAAAATTCTCGTGTTTC
36442290 AAAAATT
1 AAAAATT
36442297 TTCTTGTTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
16 12 0.16
17 24 0.32
18 15 0.20
19 14 0.19
20 8 0.11
21 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (17 bp):
AAAAATTCTCGTGTTTC
Found at i:36442257 original size:18 final size:18
Alignment explanation
Indices: 36442236--36442297 Score: 90
Period size: 18 Copynumber: 3.4 Consensus size: 18
36442226 GAGTTTTCAA
*
36442236 AAAAATTTCTCATGTTTC
1 AAAAATTTCTCGTGTTTC
36442254 AAAAATTT-TCGTGTTTTC
1 AAAAATTTCTCGTG-TTTC
*
36442272 AAAAAATTCTCGTGTTTC
1 AAAAATTTCTCGTGTTTC
36442290 AAAAATTT
1 AAAAATTT
36442298 TCTTGTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
17 4 0.10
18 30 0.77
19 5 0.13
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (18 bp):
AAAAATTTCTCGTGTTTC
Found at i:36442257 original size:19 final size:19
Alignment explanation
Indices: 36442230--36442314 Score: 86
Period size: 19 Copynumber: 4.5 Consensus size: 19
36442220 AAAAGCGAGT
*
36442230 TTTCAAAAAAATTTCTCATG
1 TTTC-AAAAAATTTCTCGTG
36442250 TTTC-AAAAATTT-TCGTG
1 TTTCAAAAAATTTCTCGTG
36442267 TTTTCAAAAAA-TTCTCGTG
1 -TTTCAAAAAATTTCTCGTG
* * *
36442286 TTTCAAAAATTTTCTTGTT
1 TTTCAAAAAATTTCTCGTG
*
36442305 TTTTAAAAAA
1 TTTCAAAAAA
36442315 ATCATATTTC
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
17 4 0.07
18 23 0.42
19 24 0.44
20 4 0.07
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (19 bp):
TTTCAAAAAATTTCTCGTG
Found at i:36442258 original size:36 final size:35
Alignment explanation
Indices: 36442217--36442295 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
36442207 TCGAGTTTAA
*
36442217 AAAAAAAGCGAGTTTTCAAAAAAATTTCTCATGTTTC
1 AAAAATAGCGAGTTTTC-AAAAAA-TTCTCATGTTTC
** * *
36442254 AAAAATTTTCGTGTTTTCAAAAAATTCTCGTGTTTC
1 AAAAA-TAGCGAGTTTTCAAAAAATTCTCATGTTTC
36442290 AAAAAT
1 AAAAAT
36442296 TTTCTTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 16 0.44
37 11 0.31
38 8 0.22
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (35 bp):
AAAAATAGCGAGTTTTCAAAAAATTCTCATGTTTC
Found at i:36442296 original size:36 final size:36
Alignment explanation
Indices: 36442228--36442348 Score: 140
Period size: 36 Copynumber: 3.4 Consensus size: 36
36442218 AAAAAAGCGA
36442228 GTTTTCAAAAAAATTTCTCATGTTTCAAAAATTTTCGT
1 GTTTTC-AAAAAA-TTCTCATGTTTCAAAAATTTTCGT
* *
36442266 GTTTTCAAAAAATTCTCGTGTTTCAAAAATTTTCTT
1 GTTTTCAAAAAATTCTCATGTTTCAAAAATTTTCGT
* * * *
36442302 GTTTTTTAAAAAA--ATCATATTTCAAAAATATTCGT
1 G-TTTTCAAAAAATTCTCATGTTTCAAAAATTTTCGT
36442337 GTTTT-AAAAAAT
1 GTTTTCAAAAAAT
36442349 AAAAAATAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
33 6 0.08
34 4 0.05
35 18 0.25
36 23 0.32
37 16 0.22
38 6 0.08
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (36 bp):
GTTTTCAAAAAATTCTCATGTTTCAAAAATTTTCGT
Found at i:36442304 original size:17 final size:17
Alignment explanation
Indices: 36442236--36442305 Score: 86
Period size: 17 Copynumber: 3.9 Consensus size: 17
36442226 GAGTTTTCAA
*
36442236 AAAAATTTCTCATGTTTC
1 AAAAATTT-TCGTGTTTC
36442254 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
36442272 AAAAAATTCTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
*
36442290 AAAAATTTTCTTGTTT
1 AAAAATTTTCGTGTTT
36442306 TTTAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
17 18 0.39
18 16 0.35
19 12 0.26
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:36442345 original size:17 final size:17
Alignment explanation
Indices: 36442248--36442346 Score: 67
Period size: 18 Copynumber: 5.6 Consensus size: 17
36442238 AAATTTCTCA
*
36442248 TGTTTCAAAAATTTTCG
1 TGTTTCAAAAATATTCG
36442265 TGTTTTCAAAAA-ATTCTCG
1 TG-TTTCAAAAATA-T-TCG
*
36442284 TGTTTCAAAAATTTTCTTG
1 TGTTTCAAAAATATTC--G
* * * *
36442303 TTTTTTAAAAA-AATCA
1 TGTTTCAAAAATATTCG
*
36442319 TATTTCAAAAATATTCG
1 TGTTTCAAAAATATTCG
*
36442336 TGTTTTAAAAA
1 TGTTTCAAAAA
36442347 ATAAAAAATA
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
16 9 0.15
17 16 0.26
18 22 0.35
19 15 0.24
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.45
Consensus pattern (17 bp):
TGTTTCAAAAATATTCG
Found at i:36442485 original size:53 final size:54
Alignment explanation
Indices: 36442417--36442532 Score: 143
Period size: 53 Copynumber: 2.2 Consensus size: 54
36442407 AACTTTCGTA
* *
36442417 TTTTCAAAAATTTCC-GTGCTTTCAAAAA-TCTTCGTGTTTTCA-AAAATCCTCATG
1 TTTTCAAAAATTTCCGGT-ATTTAAAAAATTC-TCGTGTTTTCAGAAAATCC-CATG
*
36442471 TTTTCAAAAA-TTCCGGTATTTAAAAAATTCTCGTGTTTTCAGAAATTCCCATG
1 TTTTCAAAAATTTCCGGTATTTAAAAAATTCTCGTGTTTTCAGAAAATCCCATG
36442524 TTTT-AAAAA
1 TTTTCAAAAA
36442533 CTTCTATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
52 5 0.09
53 31 0.55
54 20 0.36
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTTCAAAAATTTCCGGTATTTAAAAAATTCTCGTGTTTTCAGAAAATCCCATG
Found at i:36442516 original size:18 final size:18
Alignment explanation
Indices: 36442366--36442617 Score: 145
Period size: 18 Copynumber: 14.2 Consensus size: 18
36442356 AAAAATCCAT
*
36442366 TTTTC-AAAATCCTCGTG
1 TTTTCAAAAATTCTCGTG
*
36442383 TTTTC-AAAATTC-CAATG
1 TTTTCAAAAATTCTC-GTG
*
36442400 TTTT-AAAAACTT-TCGTA
1 TTTTCAAAAA-TTCTCGTG
36442417 TTTTCAAAAATT-TCCGTG
1 TTTTCAAAAATTCT-CGTG
*
36442435 CTTTCAAAAA-TCTTCGTG
1 TTTTCAAAAATTC-TCGTG
* *
36442453 TTTTCAAAAATCCTCATG
1 TTTTCAAAAATTCTCGTG
36442471 TTTTCAAAAATTC-CG-G
1 TTTTCAAAAATTCTCGTG
*
36442487 TATTTAAAAAATTCTCGTG
1 T-TTTCAAAAATTCTCGTG
* * *
36442506 TTTTCAGAAATTCCCATG
1 TTTTCAAAAATTCTCGTG
* *
36442524 TTTT-AAAAACTTCT-ATA
1 TTTTCAAAAA-TTCTCGTG
*
36442541 TTTTC-AAAATTTTCGTG
1 TTTTCAAAAATTCTCGTG
* * *
36442558 TTTTTTTAAGAATTTTCGTG
1 --TTTTCAAAAATTCTCGTG
* *
36442578 -TCTCTAAAATTCTCGTG
1 TTTTCAAAAATTCTCGTG
*
36442595 TTCTT-AAAAATTTTTCGTG
1 TT-TTCAAAAA-TTCTCGTG
36442614 TTTT
1 TTTT
36442618 TTTTTAAAAA
Statistics
Matches: 182, Mismatches: 32, Indels: 41
0.71 0.13 0.16
Matches are distributed among these distances:
16 6 0.03
17 69 0.38
18 78 0.43
19 18 0.10
20 11 0.06
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTCAAAAATTCTCGTG
Done.