Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_217 ID=scaffold_217-JGI_221_v2.0
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: 9431
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.30
Warning! 191 characters in sequence are not A, C, G, or T
Found at i:2833 original size:27 final size:27
Alignment explanation
Indices: 2803--2854 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
2793 TGATTCTTTC
*
2803 ATTCTTTTCGATTTTCTTCCAAATTTT
1 ATTCTTTTAGATTTTCTTCCAAATTTT
2830 ATTCTTTTAGATTTTCTTCCAAATT
1 ATTCTTTTAGATTTTCTTCCAAATT
2855 AATCTTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTCTTTTAGATTTTCTTCCAAATTTT
Found at i:3613 original size:8 final size:8
Alignment explanation
Indices: 3600--3654 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
3590 GTTCAAACTC
3600 AAAAAAAT
1 AAAAAAAT
3608 AAAAAAAT
1 AAAAAAAT
*
3616 -CAAAAAT
1 AAAAAAAT
3623 CAAAAAAAT
1 -AAAAAAAT
*
3632 TAAAAAA-
1 AAAAAAAT
**
3639 CCAAAAAT
1 AAAAAAAT
3647 AAAAAAAT
1 AAAAAAAT
3655 CAAAGAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
7 11 0.30
8 20 0.54
9 6 0.16
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:3626 original size:24 final size:24
Alignment explanation
Indices: 3598--3663 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 24
3588 GAGTTCAAAC
*
3598 TCAAAAAAATAAAAAAATCAAAAA
1 TCAAAAAAATAAAAAAACCAAAAA
*
3622 TCAAAAAAATTAAAAAACCAAAAA
1 TCAAAAAAATAAAAAAACCAAAAA
3646 T-AAAAAAATCAAAGAAAA
1 TCAAAAAAAT-AAA-AAAA
3664 ATAGGAGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 8 0.22
24 25 0.68
25 4 0.11
ACGTcount: A:0.77, C:0.09, G:0.02, T:0.12
Consensus pattern (24 bp):
TCAAAAAAATAAAAAAACCAAAAA
Found at i:4537 original size:6 final size:7
Alignment explanation
Indices: 4519--4570 Score: 61
Period size: 7 Copynumber: 7.0 Consensus size: 7
4509 TTTGAGTCAA
4519 AAAAATG
1 AAAAATG
4526 AAAAAATG
1 -AAAAATG
4534 AAAAATG
1 AAAAATG
4541 AAAAATG
1 AAAAATG
4548 AAAAAAATG
1 --AAAAATG
4557 AAAAA-G
1 AAAAATG
4563 TAAAAATG
1 -AAAAATG
4571 GAGAGGCTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 1 0.03
7 24 0.60
8 8 0.20
9 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:4537 original size:7 final size:8
Alignment explanation
Indices: 4518--4561 Score: 65
Period size: 7 Copynumber: 5.6 Consensus size: 8
4508 CTTTGAGTCA
4518 AAAAAATG
1 AAAAAATG
4526 AAAAAATG
1 AAAAAATG
4534 -AAAAATG
1 AAAAAATG
4541 -AAAAATG
1 AAAAAATG
4548 AAAAAAATG
1 -AAAAAATG
4557 AAAAA
1 AAAAA
4562 GTAAAAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 14 0.41
8 13 0.38
9 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:4552 original size:23 final size:22
Alignment explanation
Indices: 4519--4570 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 22
4509 TTTGAGTCAA
4519 AAAAATGAAAAAATGAAAAA-T
1 AAAAATGAAAAAATGAAAAAGT
4540 GAAAAATGAAAAAAATGAAAAAGT
1 -AAAAATG-AAAAAATGAAAAAGT
4564 AAAAATG
1 AAAAATG
4571 GAGAGGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.25
23 20 0.71
24 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (22 bp):
AAAAATGAAAAAATGAAAAAGT
Found at i:5881 original size:44 final size:43
Alignment explanation
Indices: 5814--6909 Score: 194
Period size: 46 Copynumber: 24.8 Consensus size: 43
5804 TGAATATTTC
* *
5814 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGACGCCA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * *
5857 GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAGGACA
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * * * ** *
5901 ATATCCTATCTCCCTGA-AGTTATAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA-CA
* * ** * * *
5944 AGGATCCTATCTCTCTGA-AGTTACAGCAGAGCAG-GTCAC-ATA
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGACA
* * * **
5986 A-AGCCTTATCTCCCTGA-AGTTACAGTGGGGCAGGTTGAATATGCA
1 AGA-TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA--CA
* * ** *
6031 AG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-A
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * * * * *
6072 TTTCAGATATTATCTCCCTGATATTACAGAGAAGCAGATCGAGGACA
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * * * ** *
6119 ATATCCTATCTCCCTGA-AGTTATAGTGGAGCGGATT-AAAATAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA-CA
* * ** * * *
6162 AGGATCCTATCTCTCTGA-AGTTACAGCAGAGCAG-GTCAC-ATA
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGACA
* * **
6204 A-AGCCTTATCTCCCTGA-AGTTACAGTAGG-GCAGGTTGAATATGCA
1 AGA-TCTTATCTCCCTGAGA-TTACAGT-GGAGCAGATTGACGA--CA
* * ** *
6249 AG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-A
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * * *
6290 TTTCAGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACA
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-A-CGACA
* * * * *
6339 A-ACCTTATCTCTCTGAGATTACAGAGGAGCAGATCGAAGCCACA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTG-A-CGACA
* * * **
6383 A-ACCTTATCTCCCTGA-AGTTACAGTGGGGCAGGTTGAATATGCA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA--CA
* * ** * *
6427 AG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGA-AAAA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* *
6468 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTG--GAGCT
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGA-CA
* * ** *
6514 AGTAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAA
1 AG--ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA-CA
* * * * * *
6559 AGGATCTCATCTCTCTGA-AGTTATAGTAGAGTAGATCG-C-ATC-
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGACGA-CA
* * * ** *
6601 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAACA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACG-ACA
* * * ** *
6645 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAACA
1 --AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACG-ACA
* * * *** *
6691 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGA-A
1 --AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * ** *
6735 TTGTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-A
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * ** *
6781 TTGTAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-A
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
* * ** ** *
6827 TTGCAGATCTTATCTCCTTGAGGTTACAGTGGATTAGACCGAAGA-A
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
6873 TTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAG
1 ----AGATCTTATCTCCCTGAGATTACAGTGGAGCAG
6910 GTCAAAGATG
Statistics
Matches: 832, Mismatches: 155, Indels: 128
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.00
41 78 0.09
42 19 0.02
43 72 0.09
44 305 0.37
45 15 0.02
46 337 0.41
47 2 0.00
48 1 0.00
49 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGACGACA
Found at i:6019 original size:41 final size:42
Alignment explanation
Indices: 5907--6455 Score: 139
Period size: 44 Copynumber: 12.6 Consensus size: 42
5897 GACAATATCC
* *
5907 TATCTCCCTGAAGTTATAGTGGAGC-GGATTAAAATA-AAGGATCC-
1 TATCTCCCTGAAGTTACAGTGGAGCAGG-TT-CAATACAA-G--CCT
* **
5951 TATCTCTCTGAAGTTACAGCAGAGCAGG-TCACATA-AAGCCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTCA-ATACAAGCCT
* * *
5992 TATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTCAATA--CAAGCCT
* * *** * **
6036 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGATAT
1 TATCTCCCTGAAGTTACAGTGGAGCAG---GTTCAA-TACAAG-CCT
* * * ** *
6082 TATCTCCCTGATA-TTACAGAGAAGCA-GATCGAGGACAATATCC-
1 TATCTCCCTGA-AGTTACAGTGGAGCAGGTTC-AATAC-A-AGCCT
* *
6125 TATCTCCCTGAAGTTATAGTGGAGC-GGATTAAAATA-AAGGATCC-
1 TATCTCCCTGAAGTTACAGTGGAGCAGG-TT-CAATACAA-G--CCT
* **
6169 TATCTCTCTGAAGTTACAGCAGAGCAGG-TCACATA-AAGCCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTCA-ATACAAGCCT
* *
6210 TATCTCCCTGAAGTTACAGTAGG-GCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAAGTTACAGT-GGAGCAGGTTCAATA--CAAGCCT
* * *** * **
6254 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC-AGATAT
1 TATCTCCCTGAAGTTACAGTGGAGCAG---GTTCAA-TACAAG-CCT
* * * *
6300 TATCTCCCTG-AGATTACAGAGGAGCA-GATCGAAGCCACAAACCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGGTTC-AA--TACAAGCCT
* * * * *
6344 TATCTCTCTG-AGATTACAGAGGAGCA-GATCGAAGCCACAAACCT
1 TATCTCCCTGAAG-TTACAGTGGAGCAGGTTC-AA--TACAAGCCT
* * *
6388 TATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGGTTCAATA--CAAGCCT
*
6432 TATCTCCCTGAGGTTACAGTGGAG
1 TATCTCCCTGAAGTTACAGTGGAG
6456 TAGACCGAAA
Statistics
Matches: 383, Mismatches: 76, Indels: 92
0.70 0.14 0.17
Matches are distributed among these distances:
40 4 0.01
41 54 0.14
42 17 0.04
43 38 0.10
44 197 0.51
45 15 0.04
46 48 0.13
47 8 0.02
48 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGGTTCAATACAAGCCT
Found at i:6193 original size:218 final size:218
Alignment explanation
Indices: 5858--6331 Score: 903
Period size: 218 Copynumber: 2.2 Consensus size: 218
5848 TTGACGCCAG
* *
5858 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAGGACAATATCCTATCTCCCTGAAGTTA
1 AGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAGGACAATATCCTATCTCCCTGAAGTTA
5923 TAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA
66 TAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA
*
5988 GCCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
131 GCCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
6053 AGTGGAGTAGACCGAAGAATTTC
196 AGTGGAGTAGACCGAAGAATTTC
* *
6076 AGATATTATCTCCCTGATATTACAGAGAAGCAGATCGAGGACAATATCCTATCTCCCTGAAGTTA
1 AGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAGGACAATATCCTATCTCCCTGAAGTTA
6141 TAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA
66 TAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA
6206 GCCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
131 GCCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
6271 AGTGGAGTAGACCGAAGAATTTC
196 AGTGGAGTAGACCGAAGAATTTC
6294 AGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGA
1 AGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGA
6332 AGCCACAAAC
Statistics
Matches: 249, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 249 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (218 bp):
AGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAGGACAATATCCTATCTCCCTGAAGTTA
TAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAAA
GCCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTAC
AGTGGAGTAGACCGAAGAATTTC
Found at i:6308 original size:46 final size:46
Alignment explanation
Indices: 6251--6906 Score: 575
Period size: 46 Copynumber: 14.6 Consensus size: 46
6241 AATATGCAAG
6251 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
* * * * * * *
6297 TATTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA---CAAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGA
* * * * * * * *
6341 CCTTATCTCTCTGAGATTACAGAGGAGCAGATCGAAGCCA---CAAA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAG-AATTTCAGA
* * * * ** *
6385 CCTTATCTCCCTGAAGTTACAGTGGGGCAG---GTTGAATATGCA-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGA
*
6428 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGA
1 -TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
* ** * * *
6475 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-CTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT-TTCAGA
* * ** ** **
6519 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-GA
* * * * * * * *
6563 TCTCATCTCTCTGAAGTTATAGTAGAGTAGATC---GCA--TCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
** *
6604 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAACATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
** *
6650 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAACATCAGG
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
*
6696 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTGT-AGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT-TCAGA
6742 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTGT-AGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATT-TCAGA
*
6788 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
* *
6834 TCTTATCTCCTTGAGGTTACAGTGGATTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
*
6880 TCTTATCTCCCTGAGATTACAGTGGAG
1 TCTTATCTCCCTGAGGTTACAGTGGAG
6907 CAGGTCAAAG
Statistics
Matches: 514, Mismatches: 72, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.00
41 30 0.06
42 2 0.00
43 4 0.01
44 153 0.30
45 2 0.00
46 315 0.61
47 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGA
Found at i:6406 original size:178 final size:177
Alignment explanation
Indices: 6207--6917 Score: 679
Period size: 178 Copynumber: 4.0 Consensus size: 177
6197 TCACATAAAG
6207 CCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
* * *
6272 GTGGAGTAGACCGAAGAATTTCAGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCA
* * * *
6337 -CAAACCTTATCTCTCTGAGATTACAGAGGAGCAGATCGAAGCCACAAA
131 GCAAACCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG--AAAAA
*
6385 CCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
* * * *
6450 GTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTA
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCA
* * * *
6515 GTAATCC-TATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAGGA
131 GCAAACCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGA-AAA--A
* * * * * * * * * *
6563 TCTCATCTCTCTGAAGTTATAGTAGAGTAGATCG--CAT-CAGGTCTTATCTCCCTGAGGTTACA
1 CCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
** * * * *
6625 GTGGAGTAGACCGAAGAACATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAC
66 GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-CC
* *** * * * *
6690 ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTGTAGA
130 AGCAAACCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAA----AAA
* * * ** *
6742 TCTTATCTCCCTGAGGTTACAGT-GGAGTAGACCGAAGAAT-TG-TAGATCTTATCTCCCTGAGG
1 CCTTATCTCCCTGAAGTTACAGTAGG-GCAG---GTTGAATATGCAAG-TCTTATCTCCCTGAGG
* * ** *
6804 TTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCTTGAGGTTACAGTGGATTAGACCGA
61 TTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGA
* * * * *
6869 AG-AATTTCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGGTCAAAGA
126 AGCCA--GCAAACCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA
6918 TGGTAGATCC
Statistics
Matches: 439, Mismatches: 71, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
175 79 0.18
176 7 0.02
177 29 0.07
178 176 0.40
179 28 0.06
181 1 0.00
182 2 0.00
183 2 0.00
184 115 0.26
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (177 bp):
CCTTATCTCCCTGAAGTTACAGTAGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACA
GTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGCCA
GCAAACCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAAAA
Found at i:6765 original size:138 final size:137
Alignment explanation
Indices: 6022--6909 Score: 579
Period size: 138 Copynumber: 6.6 Consensus size: 137
6012 GGGGCAGGTT
* * *
6022 GAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATATTATCT
1 GAATAT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT-AGATCTTATCT
** * * * * * * * *
6087 CCCTGATATTACAGAGAAGCAGATCG-AGGACA--ATATCCTATCTCCCTGAAGTTATAGTGGAG
64 CCCTGAGGTTACAGTGGAGCAGACCGAAGAACATCAGATCTTATCTCCCTGAGGTTACAGTGGAG
** **
6149 CGGA-TTAA
129 TAGACCGAA
* * * * ** * ** * * *
6157 -AATA-AAGGATCCTATCTCTCTGAAGTTACAGCAGAGCAGGTCACATAA---AG-CCTTATCTC
1 GAATATCAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTAGATCTTATCTC
* ** *
6216 CCTGAAGTTACAGTAGG-GCAG---GTTGAATATGCA-AGTCTTATCTCCCTGAGGTTACAGTGG
65 CCTGAGGTTACAGT-GGAGCAGACCGAAGAACAT-CAGA-TCTTATCTCCCTGAGGTTACAGTGG
6276 AGTAGACCGAA
127 AGTAGACCGAA
* * * * * * * * * * * *
6287 GAATTTCAGATATTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA--CAAACCTTATCTC
1 GAATATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAG-AATTTAGATCTTATCTC
* * * * * * * * * *
6350 TCTGAGATTACAGAGGAGCAGATCGAAG-CCA-CAAACCTTATCTCCCTGAAGTTACAGTGGGGC
65 CCTGAGGTTACAGTGGAGCAGACCGAAGAACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGT
**
6413 AG---GTT
130 AGACCGAA
*
6418 GAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAA-AATTTCAGATCTTATC
1 GAATAT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC-AAAGAATTT-AGATCTTATC
** * * *
6482 TCCCTGAGGTTACAGTGGAGCAGATTG--GAGC-T-AGTAATCCTATCTCCCTGAAGTTACAGTG
63 TCCCTGAGGTTACAGTGGAGCAGACCGAAGAACATCAG--ATCTTATCTCCCTGAGGTTACAGTG
** **
6543 GAGCGGA-TTAA
126 GAGTAGACCGAA
* * * * * * * * * *
6554 -AATA-AAGGATCTCATCTCTCTGAAGTTATAGTAGAGTAGATC---GCA-TCAGGTCTTATCTC
1 GAATATCAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTAGATCTTATCTC
* *
6613 CCTGAGGTTACAGTGGAGTAGACCGAAGAACATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGT
65 CCTGAGGTTACAGTGGAGCAGACCGAAGAACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGT
6678 AGACCGAA
130 AGACCGAA
*
6686 GAACATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTGTAGATCTTATCTC
1 GAATATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATT-TAGATCTTATCTC
* * *
6751 CCTGAGGTTACAGTGGAGTAGACCGAAGAA-TTGTAGATCTTATCTCCCTGAGGTTACAGTGGAG
65 CCTGAGGTTACAGTGGAGCAGACCGAAGAACAT-CAGATCTTATCTCCCTGAGGTTACAGTGGAG
6815 TAGACCGAA
129 TAGACCGAA
* * * *
6824 GAAT-TGCAGATCTTATCTCCTTGAGGTTACAGTGGATTAGACCGAAGAATTTCAGATCTTATCT
1 GAATAT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTT-AGATCTTATCT
*
6888 CCCTGAGATTACAGTGGAGCAG
64 CCCTGAGGTTACAGTGGAGCAG
6910 GTCAAAGATG
Statistics
Matches: 579, Mismatches: 128, Indels: 89
0.73 0.16 0.11
Matches are distributed among these distances:
125 1 0.00
126 3 0.01
128 23 0.04
129 63 0.11
130 3 0.01
131 67 0.12
132 40 0.07
133 68 0.12
134 143 0.25
135 5 0.01
136 3 0.01
137 6 0.01
138 154 0.27
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (137 bp):
GAATATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTAGATCTTATCTCC
CTGAGGTTACAGTGGAGCAGACCGAAGAACATCAGATCTTATCTCCCTGAGGTTACAGTGGAGTA
GACCGAA
Found at i:6962 original size:44 final size:44
Alignment explanation
Indices: 6877--7558 Score: 523
Period size: 44 Copynumber: 15.7 Consensus size: 44
6867 GAAGAATTTC
* * * *
6877 AGATCTTATCTCCCTGAG-ATTACAGTGGAGCAGGTCAAAGATGGT
1 AGATCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAAGATGGT
* *
6922 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* *
6966 AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAATGG-
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * ** *****
7009 CGAATCTTATTTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * *
7054 AG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* *
7097 AGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * * * * * *****
7140 CGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACC
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
** * *
7185 AG-TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * **
7228 AGATCTTATCTTCCTAAGCAGTAGTGGAGCGGATCG--CAT-CC
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * *
7269 AG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* *
7312 AGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* *
7355 CGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGG-
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * * * * * *****
7399 CGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACC
1 AG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
** * *
7444 AG-TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGT
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
* * * **
7487 AGATCTTATCTTCCTAAGCAGTAGTGGAGCGGATCG--CAT-CA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
*
7528 AG-TCTTATCTCCTTAAGCAGTAGTGGAGCAG
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
7559 GCAGAAGAAA
Statistics
Matches: 498, Mismatches: 125, Indels: 33
0.76 0.19 0.05
Matches are distributed among these distances:
40 54 0.11
41 4 0.01
42 5 0.01
43 95 0.19
44 319 0.64
45 19 0.04
46 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT
Found at i:7068 original size:131 final size:131
Alignment explanation
Indices: 6925--7522 Score: 778
Period size: 131 Copynumber: 4.6 Consensus size: 131
6915 AGATGGTAGA
6925 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
* * *
6990 TAGAGCAGATCGAAAATGGCGAATCTTAT-TTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC
66 TGGAGCAGATCGAAAATGGCGAATCTTATCTT-CCTAAGCAATAGTGAAGCAGATCTAAGCCACC
7054 AG
130 AG
* * *
7056 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
* * * *
7121 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCA
66 TGGAGCAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATCTAAGCCACCA
7186 G
131 G
* * *
7187 TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
* * * * * * * * * * * **
7252 TGGAGCGGATCG--CAT--CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG-AAGGT
66 TGGAGCAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATCTAAGCCA-CC
7312 AG
130 AG
** * * *
7314 ATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCTTATCTCCCTAAGCAGT
1 -TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-ATCTTATCTCCCTAAGCAGT
* *
7378 AGTGGAGCAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCAC
64 AGTGGAGCAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATCTAAGCCAC
7443 CAG
129 CAG
* * *
7446 TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
*
7511 TGGAGCGGATCG
66 TGGAGCAGATCG
7523 CATCAAGTCT
Statistics
Matches: 393, Mismatches: 64, Indels: 20
0.82 0.13 0.04
Matches are distributed among these distances:
126 1 0.00
127 33 0.08
128 66 0.17
129 1 0.00
130 2 0.01
131 254 0.65
132 35 0.09
133 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (131 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAG
TGGAGCAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGCAGATCTAAGCCACCA
G
Found at i:7111 original size:87 final size:88
Alignment explanation
Indices: 6900--7649 Score: 355
Period size: 87 Copynumber: 8.7 Consensus size: 88
6890 CTGAGATTAC
* * ***
6900 AGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGG
1 AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAC
* *
6965 TAGATCTTATCTCCCTAAGCAGT
66 CAGATCCTATCTCCCTAAGCAGT
* * * * * ** *
6988 AGTAGAGCAGATCGAAA-ATGG-CGAATCTTATTTCCCTAAGCAGTAGTGAAGCAGATTTAAGCC
1 AGTGGAGCAGGTC-AAAGATGGTAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
7051 ACCAG-TCCTATCTCCCTAAGCAGT
64 ACCAGATCCTATCTCCCTAAGCAGT
* * **
7075 AGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG
1 AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAC
* * *
7140 C-GAATCTTATCTTCCTAAGCAAT
66 CAG-ATCCTATCTCCCTAAGCAGT
* * * * * ***** ** * ***
7163 AGTGAAGTAGATCTAGGCCACCAG-TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTG
1 AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAC
* * *
7227 TAGATCTTATCTTCCTAAGCAGT
66 CAGATCCTATCTCCCTAAGCAGT
** * * *
7250 AGTGGAGC-GGATC---GCAT-CCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA-
1 AGTGGAGCAGG-TCAAAG-ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC
** **
7308 AGGTAGATATTATCTCCCTAAGCAGT
64 A-CCAGATCCTATCTCCCTAAGCAGT
* * * * * **
7334 AGTGGAGCAGATCGAAGACGG-CGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATG
1 AGTGGAGCAGGTCAAAGATGGTAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACA
* * * *
7398 GC-GAATCTTATCTTCCTAAGCAAT
65 CCAG-ATCCTATCTCCCTAAGCAGT
* * * * * ***** ** * ***
7422 AGTGAAGTAGATCTAGGCCACCAG-TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTG
1 AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAC
* * *
7486 TAGATCTTATCTTCCTAAGCAGT
66 CAGATCCTATCTCCCTAAGCAGT
** * *
7509 AGTGGAGC-GGATC---GCAT-CAAG-TCTTATCTCCTTAAGCAGTAGTGGAGCAG-GCAGAAGA
1 AGTGGAGCAGG-TCAAAG-ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGA
*
7567 AACCA-ATCCTATCTCCCTAA--AGTT
63 CACCAGATCCTATCTCCCTAAGCAG-T
* * **** * *
7591 ACAGTGGAGCAGATTAAA-ACCACAGATCTTATCTCCCTAAGCAGTAGTAGAGTAGATCG
1 --AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
7650 CATCAAGTCT
Statistics
Matches: 517, Mismatches: 111, Indels: 69
0.74 0.16 0.10
Matches are distributed among these distances:
81 2 0.00
82 1 0.00
83 14 0.03
84 117 0.23
85 3 0.01
86 10 0.02
87 219 0.42
88 147 0.28
89 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTCAAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAC
CAGATCCTATCTCCCTAAGCAGT
Found at i:7305 original size:215 final size:217
Alignment explanation
Indices: 6973--7390 Score: 657
Period size: 215 Copynumber: 1.9 Consensus size: 217
6963 GGTAGATCTT
*
6973 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAATGGCGAATCTTATTTCCCTAAGCAGTAGTGAA
1 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAATGGAGAATCTTATTTCCCTAAGCAGTAGTGAA
7038 GCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATAT
66 GCAGA-TTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATAT
*
7103 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAATAGTGA
130 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGTGA
*
7168 AGTAGATCTAGGCCACCAGTCCA
195 AGCAGATCTAGGCCACCAGTCCA
* * * *
7191 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAG-ATCTTATCTT-CCTAAGCAGTAGTG
1 ATCTCCCTAAGCAGTAGTAGAGCAGATCGAA-AATGGAGAATCTTAT-TTCCCTAAGCAGTAGTG
* * *
7254 GAGCGGA-T-CG-CATCCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGAT
64 AAGCAGATTAAGCCA-CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGAT
*
7316 ATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAGTAGT
128 ATTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGT
*
7381 GGAGCAGATC
193 GAAGCAGATC
7391 GAAAATGGCG
Statistics
Matches: 185, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
214 2 0.01
215 121 0.65
216 1 0.01
218 55 0.30
219 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (217 bp):
ATCTCCCTAAGCAGTAGTAGAGCAGATCGAAAATGGAGAATCTTATTTCCCTAAGCAGTAGTGAA
GCAGATTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATT
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGTGAA
GCAGATCTAGGCCACCAGTCCA
Found at i:7403 original size:259 final size:257
Alignment explanation
Indices: 6929--7649 Score: 959
Period size: 259 Copynumber: 2.8 Consensus size: 257
6919 GGTAGATCCT
* * *
6929 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGTAGTAGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
* * * * * ** * *
6994 GCAGATCGAAAATGGCGAA-TCTTATTTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
66 GCGGATCG--CAT--C-AAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAG-AACCAGTA
* *
7058 CTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCAGTAGTG
125 CTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAGGGAGATATTATCTCCCTAAGCAGTAGTG
*
7123 GAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAGT
190 GAGCAGATCGAAAACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAGT
7188 CCA
255 CCA
7191 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
* * ** *
7256 GCGGATCGCATCCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTAT
66 GCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAA-CCAG-TACTAT
* * *
7321 CTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTCCCTAAGCAGTAGTGGAG
129 CTCCCTAAGCAGTAGTGGAGCAGATCAAAGAAGG-GAGATATTATCTCCCTAAGCAGTAGTGGAG
*
7385 CAGATCGAAAATGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAGTCCA
193 CAGATCGAAAACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAGTCCA
7450 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
* * *
7515 GCGGATCGCATCAAGTCTTATCTCCTTAAGCAGTAGTGGAGCAGG-CAGAAGAAACCAATCCTAT
66 GCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCA-AAG-AACCAGTACTAT
* **** * *
7579 CTCCCTAA--AGTTACAGTGGAGCAGATTAAA-ACCACAGATCTTATCTCCCTAAGCAGTAGTAG
129 CTCCCTAAGCAG-T--AGTGGAGCAGATCAAAGAAGGGAGATATTATCTCCCTAAGCAGTAGTGG
*
7641 AGTAGATCG
191 AGCAGATCG
7650 CATCAAGTCT
Statistics
Matches: 410, Mismatches: 39, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
256 2 0.00
257 4 0.01
258 81 0.20
259 249 0.61
260 5 0.01
262 69 0.17
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (257 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGCAGTAGTGGA
GCGGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAACCAGTACTATCT
CCCTAAGCAGTAGTGGAGCAGATCAAAGAAGGGAGATATTATCTCCCTAAGCAGTAGTGGAGCAG
ATCGAAAACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAGTCCA
Found at i:7461 original size:215 final size:214
Alignment explanation
Indices: 7052--7472 Score: 569
Period size: 215 Copynumber: 2.0 Consensus size: 214
7042 ATTTAAGCCA
7052 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCA
* * *
7117 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCC
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCAAGGCC
* * * **** ** *
7182 ACCAGTCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTTCCTAAGC
131 A-CAGTCCAATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACACCAGATCCAATCTCCCTAAGC
7247 AGTAGTGGAGCGGATCGCAT
195 AGTAGTGGAGCGGATCGCAT
7267 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCA
1 CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCA
* *
7332 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAT
66 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGTGAAGCAGATC---AA-
* ** * * * * *
7397 GGCGA-A-TCTTATCTTCCTAAGCAATAGTGAAGTAGATCTAGGCCACCAG-TCCAATCTCCCTA
127 GGCCACAGTCCAATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACACCAGATCCAATCTCCCTA
7459 AGCAGTAGTGGAGC
192 AGCAGTAGTGGAGC
7473 AGGTCGAAGA
Statistics
Matches: 179, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
215 144 0.80
216 29 0.16
217 1 0.01
218 1 0.01
219 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (214 bp):
CCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGAAGGTAGATATTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCAAGGCC
ACAGTCCAATCTCCCTAAGCAATAGTGAAGCAGATCGAAGACACCAGATCCAATCTCCCTAAGCA
GTAGTGGAGCGGATCGCAT
Found at i:8455 original size:2 final size:2
Alignment explanation
Indices: 8448--8487 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8438 TTTTATCATG
8448 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8488 TATATATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Done.