Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 73 of 126
Found at i:21851865 original size:21 final size:20
Alignment explanation
Indices: 21851837--21851875 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
21851827 TGACCCATGC
*
21851837 TTTCAAAATTTTCAATTTTT
1 TTTCAAAACTTTCAATTTTT
*
21851857 TTTCTAAAACTTTCTATTT
1 TTTC-AAAACTTTCAATTT
21851876 ATTTCAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTCAAAACTTTCAATTTTT
Found at i:21859010 original size:16 final size:17
Alignment explanation
Indices: 21858977--21859028 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
21858967 TTTAAAATTT
* *
21858977 ATATATGAATTGTAAAA
1 ATATATAAATTATAAAA
21858994 ATATATAAATT-TAAAA
1 ATATATAAATTATAAAA
*
21859010 A-ATCTAAAATTATAAAA
1 ATATAT-AAATTATAAAA
21859027 AT
1 AT
21859029 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 3 0.10
16 11 0.37
17 16 0.53
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
ATATATAAATTATAAAA
Found at i:21859033 original size:15 final size:15
Alignment explanation
Indices: 21858984--21859034 Score: 50
Period size: 17 Copynumber: 3.2 Consensus size: 15
21858974 TTTATATATG
21858984 AATTGTAAAAATATATA
1 AATT-TAAAAATATA-A
*
21859001 AATTTAAAAAATCTAA
1 AATTT-AAAAATATAA
21859017 AATTATAAAAAT-TAA
1 AATT-TAAAAATATAA
21859032 AAT
1 AAT
21859035 AAAAAACAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
17 13 0.42
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (15 bp):
AATTTAAAAATATAA
Found at i:21861369 original size:20 final size:20
Alignment explanation
Indices: 21861346--21861392 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21861336 GGGTTAAGAT
*
21861346 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTAAGCTC-AAG
*
21861366 TGAGCTGACTTAAGCTCAAG
1 TGAGCTGAATTAAGCTCAAG
21861386 TGAGCTG
1 TGAGCTG
21861393 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCAAG
Found at i:21863295 original size:12 final size:12
Alignment explanation
Indices: 21863262--21863342 Score: 53
Period size: 12 Copynumber: 6.8 Consensus size: 12
21863252 TTTCCACTCG
21863262 ATTTC-TTTTCA
1 ATTTCTTTTTCA
** *
21863273 AGCTCTCTTTCA
1 ATTTCTTTTTCA
21863285 ATTTCTTTTTCCA
1 ATTTCTTTTT-CA
*
21863298 CTCTTTCTTTTTC-
1 --ATTTCTTTTTCA
*
21863311 --TTCTCTTTCA
1 ATTTCTTTTTCA
21863321 ATTTCTTTTTCA
1 ATTTCTTTTTCA
*
21863333 ATCTCTTTTT
1 ATTTCTTTTT
21863343 GCTTTTCACT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
9 8 0.15
11 3 0.06
12 30 0.57
13 2 0.04
14 1 0.02
15 9 0.17
ACGTcount: A:0.12, C:0.25, G:0.01, T:0.62
Consensus pattern (12 bp):
ATTTCTTTTTCA
Found at i:21863303 original size:21 final size:20
Alignment explanation
Indices: 21863277--21863332 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 20
21863267 TTTTCAAGCT
21863277 CTCTTTCAATTTCTTTTTCCA
1 CTCTTTCAATTTCTTTTT-CA
*
21863298 CTCTTTC--TTT-TTCTT--
1 CTCTTTCAATTTCTTTTTCA
21863313 CTCTTTCAATTTCTTTTTCA
1 CTCTTTCAATTTCTTTTTCA
21863333 ATCTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
15 7 0.25
17 3 0.11
18 8 0.29
19 3 0.11
21 7 0.25
ACGTcount: A:0.11, C:0.27, G:0.00, T:0.62
Consensus pattern (20 bp):
CTCTTTCAATTTCTTTTTCA
Found at i:21863403 original size:15 final size:16
Alignment explanation
Indices: 21863372--21863418 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
21863362 TTTTGAAATC
**
21863372 TCATTTTCACATT-TT
1 TCATTTTCATTTTCTT
*
21863387 TCTTTTTCA-TTTCTT
1 TCATTTTCATTTTCTT
21863402 TCATTTTCATTTTCTT
1 TCATTTTCATTTTCTT
21863418 T
1 T
21863419 ATTCTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.13, C:0.19, G:0.00, T:0.68
Consensus pattern (16 bp):
TCATTTTCATTTTCTT
Found at i:21863412 original size:28 final size:29
Alignment explanation
Indices: 21863372--21863428 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
21863362 TTTTGAAATC
21863372 TCATTTTCACATTTTTCTTT-TTCATTTCTT
1 TCATTTT-ACA-TTTTCTTTATTCATTTCTT
*
21863402 TCATTTT-CATTTTCTTTATTCTTTTCT
1 TCATTTTACATTTTCTTTATTCATTTCT
21863429 CGCTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 8 0.32
28 10 0.40
30 7 0.28
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.68
Consensus pattern (29 bp):
TCATTTTACATTTTCTTTATTCATTTCTT
Found at i:21865795 original size:20 final size:20
Alignment explanation
Indices: 21865772--21865818 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21865762 GGGTTAAGAT
*
21865772 TGAGCTGAATTGAGCTCGAA-
1 TGAGCTGAATTAAGCTC-AAG
*
21865792 TGAGCTGACTTAAGCTCAAG
1 TGAGCTGAATTAAGCTCAAG
21865812 TGAGCTG
1 TGAGCTG
21865819 GAAACGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (20 bp):
TGAGCTGAATTAAGCTCAAG
Found at i:21881219 original size:13 final size:14
Alignment explanation
Indices: 21881184--21881267 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 14
21881174 CTCACATTTT
21881184 TTTTCTTTT-TCATC
1 TTTTCTTTTCTCA-C
21881198 TTATTCTTTTCTCA-
1 TT-TTCTTTTCTCAC
*
21881212 TTTTCTTTTCACTTAC
1 TTTTCTTTT--CTCAC
*
21881228 TTTTACTATTTTTCA-
1 TTTT-CT-TTTCTCAC
*
21881243 -TTTCTTTTTCTCAT
1 TTTTC-TTTTCTCAC
21881257 TTTTCTTTTCT
1 TTTTCTTTTCT
21881268 TTTACATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
13 14 0.25
14 14 0.25
15 14 0.25
16 9 0.16
17 2 0.04
18 3 0.05
ACGTcount: A:0.11, C:0.20, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTTCTCAC
Found at i:21881230 original size:24 final size:27
Alignment explanation
Indices: 21881184--21881239 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 27
21881174 CTCACATTTT
21881184 TTTTCTTTTTCATCTTATTCTTTT-CTCA
1 TTTTCTTTTTCATCTTA-TCTTTTACT-A
21881212 TTTTC-TTTTCA-CTTA-CTTTTACTA
1 TTTTCTTTTTCATCTTATCTTTTACTA
21881236 TTTT
1 TTTT
21881240 TCATTTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 10 0.37
25 2 0.07
26 4 0.15
27 6 0.22
28 5 0.19
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTCTTTTTCATCTTATCTTTTACTA
Found at i:21881249 original size:19 final size:19
Alignment explanation
Indices: 21881217--21881277 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
21881207 TCTCATTTTC
*
21881217 TTTTCACTTACTTTTACTAT
1 TTTTCA-TTTCTTTTACTAT
*
21881237 TTTTCATTTCTTTTTCTCAT
1 TTTTCATTTCTTTTACT-AT
*
21881257 TTTTCTTTTCTTTTAC-AT
1 TTTTCATTTCTTTTACTAT
21881275 TTT
1 TTT
21881278 CACTCTGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.14
19 9 0.25
20 22 0.61
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTCATTTCTTTTACTAT
Found at i:21881292 original size:45 final size:44
Alignment explanation
Indices: 21881204--21881292 Score: 101
Period size: 45 Copynumber: 2.0 Consensus size: 44
21881194 CATCTTATTC
* *
21881204 TTTTCTCATTTTCTTTTCACTTACTTTTACTATTTTTCATTTCT
1 TTTTCTCATTTTCTTTTCACTTACTTTTACTACTGTTCATTTCT
**
21881248 TTTTCTCATTTTTCTTTTCTTTTACATTTTCACT-CTGTTC-TTTCT
1 TTTTCTCA-TTTTCTTTTCACTTAC-TTTT-ACTACTGTTCATTTCT
21881293 CTCTCATTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
44 8 0.21
45 19 0.50
46 8 0.21
47 3 0.08
ACGTcount: A:0.11, C:0.21, G:0.01, T:0.66
Consensus pattern (44 bp):
TTTTCTCATTTTCTTTTCACTTACTTTTACTACTGTTCATTTCT
Found at i:21886254 original size:23 final size:22
Alignment explanation
Indices: 21886211--21886268 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
21886201 AAAGGGTATC
* *
21886211 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
21886232 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
21886255 TACATATCATATCT
1 TACAAATCATATCT
21886269 AAGATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:21886262 original size:17 final size:17
Alignment explanation
Indices: 21886240--21886292 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 17
21886230 ATTACAAAAT
21886240 CATATCTTCTAAGATTA
1 CATATCTTCTAAGATTA
21886257 CATATCATATCTAAGATTA
1 CATATC-T-TCTAAGATTA
* *
21886276 CATATCCTCGAAGATTA
1 CATATCTTCTAAGATTA
21886293 TGTTTTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
19 16 0.50
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.36
Consensus pattern (17 bp):
CATATCTTCTAAGATTA
Found at i:21886271 original size:19 final size:20
Alignment explanation
Indices: 21886224--21886281 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 20
21886214 AAATTAAATC
*
21886224 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-ATATCATA--T
21886247 TCTAAGATTACATATCATA-
1 TCTAAGATTACATATCATAT
21886266 TCTAAGATTACATATC
1 TCTAAGATTACATATC
21886282 CTCGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 16 0.47
22 7 0.21
23 11 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (20 bp):
TCTAAGATTACATATCATAT
Found at i:21894015 original size:20 final size:20
Alignment explanation
Indices: 21893990--21894036 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21893980 AATAAGAAAG
21893990 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
21894010 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
21894030 ATATAAA
1 ATATAAA
21894037 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:21895152 original size:28 final size:28
Alignment explanation
Indices: 21895106--21895179 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
21895096 ATTCAAATAA
* *
21895106 CTTCGTTCCAGTCCACTGTGTCTTGTTG
1 CTTCGATCCACTCCACTGTGTCTTGTTG
*
21895134 CTTCGATCCACTCCTCTGTGTCTTGTTG
1 CTTCGATCCACTCCACTGTGTCTTGTTG
21895162 CTTCGATCCACTCCACTG
1 CTTCGATCCACTCCACTG
21895180 CACTTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.09, C:0.34, G:0.18, T:0.39
Consensus pattern (28 bp):
CTTCGATCCACTCCACTGTGTCTTGTTG
Found at i:21895474 original size:87 final size:86
Alignment explanation
Indices: 21895296--21895544 Score: 245
Period size: 87 Copynumber: 2.8 Consensus size: 86
21895286 ACTTGATACG
* * *
21895296 ATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTCGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTCAT--CTTTAATCTGCTCCACTACTGCTTAG
* * * **
21895360 GAAGATAAGATTCGCCGTCTTCG
64 GGAGATAAGACTCGCCGGCTTAA
* * *
21895383 ATCTGCTCCACTACTGCTTAGGGAAATAGGATCTAACATCTTTTACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAGGATCT--CATCTTTAATCTGCTCCACTACTGCTTAG
* **
21895448 GGAGATAGGACT-GGTGGCTTAA
64 GGAGATAAGACTCGCCGGCTTAA
* * *
21895470 ATCTGCTTCACTACTGCTTAGGGAGAT-GAGATTTGCCAT-TTTCGATCTGCTCCACTACTGCTT
1 ATCTGCTCCACTACTGCTTAGGGAGATAG-GATCT--CATCTTT-AATCTGCTCCACTACTGCTT
21895533 AGGGAGATAAGA
62 AGGGAGATAAGA
21895545 TCTACTATCT
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
86 4 0.03
87 96 0.71
88 33 0.24
90 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (86 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAGGATCTCATCTTTAATCTGCTCCACTACTGCTTAGGG
AGATAAGACTCGCCGGCTTAA
Found at i:21895487 original size:131 final size:131
Alignment explanation
Indices: 21895298--21895569 Score: 438
Period size: 131 Copynumber: 2.1 Consensus size: 131
21895288 TTGATACGAT
21895298 CTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * **
21895363 GATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAAATAGGATCTAAC-ATCTTTT
66 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCT-ACTATCTTCG
21895427 AC
130 AC
* *
21895429 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGGA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * * *
21895494 GATGAGATTTGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACTATCTTCGA
66 GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACTATCTTCGA
21895559 C
131 C
21895560 CTGCTCCACT
1 CTGCTCCACT
21895570 GTAACCTCAG
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
130 2 0.02
131 128 0.98
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACTATCTTCGA
C
Found at i:21895558 original size:44 final size:44
Alignment explanation
Indices: 21895257--21895569 Score: 241
Period size: 44 Copynumber: 7.2 Consensus size: 44
21895247 GTTTTTTCTG
* * *
21895257 TCTGCTCCGCTACTGCTTAAGGAGATAAGA-CT--TGA--TACGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCT-ATCTTCGA
* ** **
21895297 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CT-CGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-TATCTTCGA
* * **
21895340 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCTATCTTCGA
* * * **
21895384 TCTGCTCCACTACTGCTTAGGGAAATAGGATCTAAC-ATCTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-GCTATCTTCGA
* * * ** **
21895428 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCGA
* * * * *
21895471 TCTGCTTCACTACTGCTTAGGGAGATGAGATTTGCCATTTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCGA
*
21895515 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACTATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCGA
*
21895559 CCTGCTCCACT
1 TCTGCTCCACT
21895570 GTAACCTCAG
Statistics
Matches: 213, Mismatches: 50, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
40 29 0.14
42 1 0.00
43 62 0.29
44 118 0.55
45 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCGA
Found at i:21895794 original size:46 final size:46
Alignment explanation
Indices: 21895533--21895810 Score: 197
Period size: 46 Copynumber: 6.3 Consensus size: 46
21895523 ACTACTGCTT
* * *
21895533 AGGGAGATAAGATCT--ACTATCTTCGACCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* * * *
21895578 AGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCGCTGTAACCTT
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * *
21895624 AGGGAGATAAGATTTG----T-TGCGATCTACTCTACTGTAACTTG
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * ** * * *
21895665 AGAGAGATGAGATCCT-TTATT-TT-AATCCACTCCACTGTAACTTC
1 AGGGAGATAAGAT-CTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
21895709 AGGGAGATAGGAT-T-ACTAGTTC--CAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGA--AATTCTTCGATCTACTCCACTGTAACCTC
* *
21895753 AGGGAGATAAGATCTGAAATTCTTCGGTCCACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
21895799 AGGGAGATAAGA
1 AGGGAGATAAGA
21895811 CTTGCACCCA
Statistics
Matches: 180, Mismatches: 38, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
41 28 0.16
42 3 0.02
44 63 0.35
45 18 0.10
46 66 0.37
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
Found at i:21895884 original size:44 final size:44
Alignment explanation
Indices: 21895818--21896081 Score: 194
Period size: 44 Copynumber: 5.9 Consensus size: 44
21895808 AGACTTGCAC
*
21895818 CCACTGTAA-CTTCAGGGAGATAAGGTTTGTGGCTTCGATCTGCT
1 CCACTGTAATC-TCAGGGAGATAAGATTTGTGGCTTCGATCTGCT
* * * *
21895862 CCTCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCT
1 CCACTGTAATCTCAGGGAGATAAGATTTGTGGCTTCGATCTGCT
* * * * *
21895906 CCACTGTAACCTCAGGGAGATAAGAATTGAAAT-TCTTCGGTCTACT
1 CCACTGTAATCTCAGGGAGATAAGATTTG---TGGCTTCGATCTGCT
*** * * *
21895952 CCACTGTAATCTCAGGGAGATAAGACCTAAAAT-TCTTCGGTCTACT
1 CCACTGTAATCTCAGGGAGATAAGA--T-TTGTGGCTTCGATCTGCT
* * **** * * *
21895998 CCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCC
1 CCACTGTAATCTCAGGGAGATAAGATTTGTGGCTTCGATCTGCT
*
21896042 CCACTGTAA-CTTCAGGGAGATAAGGTTTGTGGCTTCGATC
1 CCACTGTAATC-TCAGGGAGATAAGATTTGTGGCTTCGATC
21896082 AACTCTTCTG
Statistics
Matches: 172, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 98 0.57
45 1 0.01
46 71 0.41
47 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (44 bp):
CCACTGTAATCTCAGGGAGATAAGATTTGTGGCTTCGATCTGCT
Found at i:21895928 original size:166 final size:171
Alignment explanation
Indices: 21895533--21895977 Score: 525
Period size: 166 Copynumber: 2.6 Consensus size: 171
21895523 ACTACTGCTT
* * *
21895533 AGGGAGATAAGATCTACTATCTTCGACCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* * * *
21895598 TCTTCGGTTTACTCCGCTGTAACCTTAGGGAGATAAGATTTGTTGCGATCTACTCTACTGTAACT
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA---CTTGCGATC-ACTCTACTGTAACT
* * * *
21895663 TGAGAGAGATGAGATCCTTTATTTTAATCCACTCCACTGTAACTTC
127 TCAGAGAGATAAGAT-CTTTACTTCAATCCACTCCACTGTAACTTC
*
21895709 AGGGAGATAGGAT-TACTAG-TTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
1 AGGGAGATAAGATCTACTAGCTT-CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
*
21895772 TTCTTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACTTGC-A-C-C-C-ACTGTAACTTCA
65 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCGATCACTCTACTGTAACTTCA
* * * * ** *
21895832 GGGAGATAAGGT-TTGTGGCTTCGATCTGCTCCTCTGTAA-TCTC
130 GAGAGATAAGATCTT-T-ACTTCAATCCACTCCACTGTAACT-TC
*
21895875 AGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAAT-TGAAA
1 AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG-ATCTGAAA
*
21895938 TTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGAC
65 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
21895978 CTAAAATTCT
Statistics
Matches: 238, Mismatches: 24, Indels: 24
0.83 0.08 0.08
Matches are distributed among these distances:
164 2 0.01
165 2 0.01
166 128 0.54
167 6 0.03
168 1 0.00
170 1 0.00
171 1 0.00
172 4 0.02
174 2 0.01
175 79 0.33
176 12 0.05
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (171 bp):
AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCGATCACTCTACTGTAACTTCAG
AGAGATAAGATCTTTACTTCAATCCACTCCACTGTAACTTC
Found at i:21896023 original size:46 final size:46
Alignment explanation
Indices: 21895904--21896023 Score: 204
Period size: 46 Copynumber: 2.6 Consensus size: 46
21895894 CTTCAATCTG
** *
21895904 CTCCACTGTAACCTCAGGGAGATAAGAATTGAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
*
21895950 CTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
21895996 CTCCACTGTAACCTCAGGGAGATAAGAC
1 CTCCACTGTAACCTCAGGGAGATAAGAC
21896024 TTGCATATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (46 bp):
CTCCACTGTAACCTCAGGGAGATAAGACCTAAAATTCTTCGGTCTA
Found at i:21897442 original size:7 final size:7
Alignment explanation
Indices: 21897430--21897481 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
21897420 GCCTCTCCAT
21897430 TTTTTCA
1 TTTTTCA
21897437 TTTTTCA
1 TTTTTCA
*
21897444 -TTTTCT
1 TTTTTCA
21897450 TTTTTCCA
1 TTTTT-CA
21897458 -TTTTCA
1 TTTTTCA
*
21897464 -TTCTCA
1 TTTTTCA
21897470 TTTTTCA
1 TTTTTCA
21897477 TTTTT
1 TTTTT
21897482 TCTGAGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
6 12 0.32
7 25 0.66
8 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:21897453 original size:13 final size:14
Alignment explanation
Indices: 21897431--21897465 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
21897421 CCTCTCCATT
21897431 TTTTCATTTTT-CA
1 TTTTCATTTTTCCA
*
21897444 TTTTCTTTTTTCCA
1 TTTTCATTTTTCCA
21897458 TTTTCATT
1 TTTTCATT
21897466 CTCATTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCATTTTTCCA
Found at i:21897454 original size:20 final size:20
Alignment explanation
Indices: 21897429--21897481 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
21897419 AGCCTCTCCA
*
21897429 TTTTTTCATTTTTCATTTTC
1 TTTTTTCATTTTTCATTCTC
21897449 TTTTTTCCA-TTTTCATTCTC
1 TTTTTT-CATTTTTCATTCTC
*
21897469 ATTTTTCATTTTT
1 TTTTTTCATTTTT
21897482 TCTGAGTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTCATTTTTCATTCTC
Found at i:21898479 original size:16 final size:16
Alignment explanation
Indices: 21898444--21898479 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21898434 GATTTTGATT
*
21898444 TTTTTCTTTTTTCTTC
1 TTTTTCTTTTTTCTTA
*
21898460 TTTTTCTTTTTTTTTA
1 TTTTTCTTTTTTCTTA
21898476 TTTT
1 TTTT
21898480 GATTTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTTCTTA
Found at i:21900544 original size:20 final size:20
Alignment explanation
Indices: 21900519--21900565 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21900509 AATAAGAAAG
21900519 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
21900539 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
21900559 ATATAAA
1 ATATAAA
21900566 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:21902539 original size:20 final size:20
Alignment explanation
Indices: 21902514--21902560 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21902504 AATAAGAAAG
21902514 ATATAAATAATA-TCAATAT-A
1 ATATAAAT-ATAGT-AATATCA
21902534 ATATAAATATAGTAATATCA
1 ATATAAATATAGTAATATCA
21902554 ATATAAA
1 ATATAAA
21902561 AACAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAAATATAGTAATATCA
Found at i:21922925 original size:17 final size:16
Alignment explanation
Indices: 21922903--21922945 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
21922893 AAGGTGGTCT
21922903 TTTTATTTTTCACTTCA
1 TTTTATTTTTCACTT-A
*
21922920 TTTTATTTATTTACTTA
1 TTTTATTT-TTCACTTA
21922937 -TTTATTTTT
1 TTTTATTTTT
21922946 TTAGAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 2 0.08
16 7 0.29
17 9 0.38
18 6 0.25
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTTTCACTTA
Found at i:21927255 original size:58 final size:59
Alignment explanation
Indices: 21927173--21927286 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 59
21927163 TTTAAAAAGG
* *
21927173 AAAAGATAAAAACAACATATATTAAATACTTT-ATTTTATTTATTTTTCAAATAAAACCC
1 AAAAGATAAAAACAACATATATTAAATA-TTTGATTTTATTTATTTTTAAAACAAAACCC
* *
21927232 AAAAGAT-AAAACATCATATATTAATTATTTGATTTTATTTATTTTTAAAACAAAA
1 AAAAGATAAAAACAACATATATTAAATATTTGATTTTATTTATTTTTAAAACAAAA
21927287 TTCATTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
57 3 0.06
58 40 0.80
59 7 0.14
ACGTcount: A:0.49, C:0.09, G:0.03, T:0.39
Consensus pattern (59 bp):
AAAAGATAAAAACAACATATATTAAATATTTGATTTTATTTATTTTTAAAACAAAACCC
Found at i:21927784 original size:18 final size:19
Alignment explanation
Indices: 21927761--21927798 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
21927751 TTTTAATATT
21927761 ATATATATTAAT-TTTTTA
1 ATATATATTAATATTTTTA
* *
21927779 ATATATTTTTATATTTTTA
1 ATATATATTAATATTTTTA
21927798 A
1 A
21927799 AAATTGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATATATTAATATTTTTA
Found at i:21930882 original size:22 final size:22
Alignment explanation
Indices: 21930839--21930882 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21930829 TAATCTCATG
* ** *
21930839 TAATACTATATTCTTTTCATTA
1 TAATACTATATTATCATAATTA
21930861 TAATACTATATTATCATAATTA
1 TAATACTATATTATCATAATTA
21930883 CATATAATAG
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:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (22 bp):
TAATACTATATTATCATAATTA
Found at i:21931382 original size:27 final size:29
Alignment explanation
Indices: 21931331--21931385 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
21931321 TATGTTATAA
21931331 TAATAGTTATATATGTAATAATATTTTAG
1 TAATAGTTATATATGTAATAATATTTTAG
*
21931360 TAATAGTTATATAT-T-ATATTATTTTA
1 TAATAGTTATATATGTAATAATATTTTA
21931386 TGTATTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 1 0.04
29 14 0.56
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (29 bp):
TAATAGTTATATATGTAATAATATTTTAG
Found at i:21932435 original size:161 final size:161
Alignment explanation
Indices: 21932166--21932496 Score: 637
Period size: 161 Copynumber: 2.1 Consensus size: 161
21932156 GTTCAAAACA
21932166 ATAT-AACTTACCTTAATTCCCACATTTACATAATAAAACAATTAACTAAACAATTTTCCCTATT
1 ATATGAACTTACCTTAATTCCCACATTTACATAATAAAACAATTAACTAAACAATTTTCCCTATT
21932230 ACCACAATTCATATCATCAGGTGAGTTCATCATATAAAAATTGTAAAACATTCCATTGACTGTCT
66 ACCACAATTCATATCATCAGGTGAGTTCATCATATAAAAATTGTAAAACATTCCATTGACTGTCT
21932295 CAATCAAAACTATATAAAAAAACCATTGAAT
131 CAATCAAAACTATATAAAAAAACCATTGAAT
*
21932326 ATATGAACTTACCTTAATTCCCACATTTACATAATAAAACAATTAACTAAACAATTTTTCCTATT
1 ATATGAACTTACCTTAATTCCCACATTTACATAATAAAACAATTAACTAAACAATTTTCCCTATT
*
21932391 ACCACAATTCATATCATCAGGTGAGTTCATCATATAAAAATTGTAAAACATTCCATTGATTGTCT
66 ACCACAATTCATATCATCAGGTGAGTTCATCATATAAAAATTGTAAAACATTCCATTGACTGTCT
21932456 CAATCAAAACTATATAAAAAAACCATTGAAT
131 CAATCAAAACTATATAAAAAAACCATTGAAT
21932487 ATATGAACTT
1 ATATGAACTT
21932497 TTACATTATA
Statistics
Matches: 168, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 4 0.02
161 164 0.98
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (161 bp):
ATATGAACTTACCTTAATTCCCACATTTACATAATAAAACAATTAACTAAACAATTTTCCCTATT
ACCACAATTCATATCATCAGGTGAGTTCATCATATAAAAATTGTAAAACATTCCATTGACTGTCT
CAATCAAAACTATATAAAAAAACCATTGAAT
Found at i:21932933 original size:131 final size:131
Alignment explanation
Indices: 21932699--21932963 Score: 449
Period size: 131 Copynumber: 2.0 Consensus size: 131
21932689 GGAGGCTACA
* *
21932699 CATCCTCCTCTAGAAACACACCTGAATCACTATAAAGATAGCTCGGTAATCCGCAACAAATGCTA
1 CATCCTCCCCTAGAAACACACCTGAATCACTATAAAGATAGCTCAGTAATCCGCAACAAATGCTA
* ** *
21932764 GATTCCAATAAGTTTAGTGAATAAATAGTACGTCATCATCTTGTCTTATATCAAACCCATACAAC
66 GATTCCAATAAGTTTAGTGAATAAACAACAAGTCATCATCTTGTCTTATATCAAACCCATACAAC
21932829 G
131 G
*
21932830 CATCCTCCCCTAGAAACACACCTGAATCACTATAAAGATAGCTCAGTAATCCGCAACAAATGCTG
1 CATCCTCCCCTAGAAACACACCTGAATCACTATAAAGATAGCTCAGTAATCCGCAACAAATGCTA
* *
21932895 GATTCCAATAAGTTTAGTGAATAAACAACAAGTCATCATCTTGTGTTATATCAAACCCGTACAAC
66 GATTCCAATAAGTTTAGTGAATAAACAACAAGTCATCATCTTGTCTTATATCAAACCCATACAAC
21932960 G
131 G
21932961 CAT
1 CAT
21932964 GAAATAACTC
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 125 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (131 bp):
CATCCTCCCCTAGAAACACACCTGAATCACTATAAAGATAGCTCAGTAATCCGCAACAAATGCTA
GATTCCAATAAGTTTAGTGAATAAACAACAAGTCATCATCTTGTCTTATATCAAACCCATACAAC
G
Found at i:21937012 original size:11 final size:11
Alignment explanation
Indices: 21936998--21937023 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21936988 TTGATAATTA
21936998 TTTTTTATATT
1 TTTTTTATATT
21937009 TTTTTTATATT
1 TTTTTTATATT
21937020 TTTT
1 TTTT
21937024 AATTGTTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:21944056 original size:19 final size:19
Alignment explanation
Indices: 21944034--21944098 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
21944024 AGTGTAACAT
21944034 AATTTAATAAAATCTAAAC
1 AATTTAATAAAATCTAAAC
* * *
21944053 AATTTAA-ATAAGTGTAACAT
1 AATTTAATA-AAATCTAA-AC
* *
21944073 AATCTAATAAAACCTAAAC
1 AATTTAATAAAATCTAAAC
21944092 AATTTAA
1 AATTTAA
21944099 ATTGATTAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
20 12 0.35
21 1 0.03
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (19 bp):
AATTTAATAAAATCTAAAC
Found at i:21944064 original size:39 final size:39
Alignment explanation
Indices: 21944021--21944100 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
21944011 CATCCACATC
* *
21944021 ATAAGTGTAACATAATTTAATAAAATCTAAACAATTTAA
1 ATAAGTGTAACATAATCTAATAAAACCTAAACAATTTAA
21944060 ATAAGTGTAACATAATCTAATAAAACCTAAACAATTTAA
1 ATAAGTGTAACATAATCTAATAAAACCTAAACAATTTAA
21944099 AT
1 AT
21944101 TGATTAAGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (39 bp):
ATAAGTGTAACATAATCTAATAAAACCTAAACAATTTAA
Found at i:21946937 original size:113 final size:114
Alignment explanation
Indices: 21946722--21947190 Score: 547
Period size: 113 Copynumber: 4.1 Consensus size: 114
21946712 TAAAGAAAGT
** * * * * ** *
21946722 ATTAGTGGCGCTTATTTAAAATCGCCACTAAAGCATAGAATTAGCGGCGAGTCGCAAAAAGCACC
1 ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
* * *
21946787 GCAATACATCTTAACGAAAACGCAGAGTTTGGTCTTGAGGTACACTAGC
66 GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
* *
21946836 ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGAATAGTATTGGCGGCGAGTAGTGAAAAGCG-C
1 ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
* * *
21946900 GCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGG
66 GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
* ** * *
21946949 ATTAGTGGCGCTTAT-CGGAAAACGCCGCTAAAGCATAGTATTAGCGGCGCTTATTGTAAAGCGC
1 ATTAGTGGCGCTTATAC-AAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGC
* *
21947013 CGCAA-A-ATATTAACCAAAACGCA-ACGCTTTGGTCTTGATGTATACTAGC
65 CGCAATATATCTTAACCAAAACGCAGA-G-TTTGGTCTTGAGGTATACTAGC
* * * * *
21947062 AGTAGTGACGCTTATATC-AAAACGCCGCTAAATCATAGTATTAGCGGTGAGTAGTGAAAAGTGC
1 ATTAGTGGCGCTTATA-CAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGC
* * * *
21947126 CGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGC
65 CGCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTA-GC
21947177 -TTAGTGGCGCTTAT
1 ATTAGTGGCGCTTAT
21947191 TGGAAAATGC
Statistics
Matches: 300, Mismatches: 45, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
111 1 0.00
112 17 0.06
113 175 0.58
114 87 0.29
115 19 0.06
116 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (114 bp):
ATTAGTGGCGCTTATACAAAAACGCCGCTAAAGCATAGTATTAGCGGCGAGTAGTGAAAAGCGCC
GCAATATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGC
Found at i:21947117 original size:226 final size:228
Alignment explanation
Indices: 21946779--21947208 Score: 636
Period size: 227 Copynumber: 1.9 Consensus size: 228
21946769 CGAGTCGCAA
* * * *
21946779 AAAGCACCGCAATACATCTTAACGAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCATTAGTGG
1 AAAGCACCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTGA
* *
21946844 CGCTTATACAAAAACGCCGCTAAAGAATAGTATTGGCGGCGAGTAGTGAAAAGCG-CGCAATATT
66 CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATT
21946908 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGGAAAACG
131 TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGGAAAACG
*
21946973 CCGCTAAAGCATAGTATTAGCGGCGCTTATTGT
196 CCGCAAAAGCATAGTATTAGCGGCGCTTATTGT
* * *
21947006 AAAGCGCCGCAA-A-ATATTAACCAAAACGCA-ACGCTTTGGTCTTGATGTATACTAGCAGTAGT
1 AAAGCACCGCAATACATATTAACCAAAACGCAGA-G-TTTGGTCTTGAGGTACACTAGCAGTAGT
** * *
21947068 GACGCTTATATC-AAAACGCCGCTAAATCATAGTATTAGCGGTGAGTAGTGAAAAGTGCCGCAAG
64 GACGCTTATA-CAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAG
* * *
21947132 ATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGCTTAGTGGCGCTTATTGGAAA
128 ATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGGAAA
*
21947197 ATGCCGCAAAAG
193 ACGCCGCAAAAG
21947209 ATTAACCAAA
Statistics
Matches: 181, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
224 1 0.01
225 16 0.09
226 75 0.41
227 89 0.49
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (228 bp):
AAAGCACCGCAATACATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCAGTAGTGA
CGCTTATACAAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGCGCCGCAAGATT
TCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATATTAGGATTAGTGGCGCTTATCGGAAAACG
CCGCAAAAGCATAGTATTAGCGGCGCTTATTGT
Found at i:21947318 original size:188 final size:186
Alignment explanation
Indices: 21946988--21947486 Score: 730
Period size: 188 Copynumber: 2.7 Consensus size: 186
21946978 AAAGCATAGT
* *
21946988 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAACGCTTTGGTCTTGATG
1 ATTAGTGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * * * *
21947053 TATACTAGCAGTAGTGACGCTTATATCAAAACGCCGCTAAATCATAGTATTAGCGGTGAGTAGTG
66 TATACTAGCATTAGTGGCGCTTATAT-AAAACGCCGCTAAAT-ATAGTATTAGCGGCGAGTACTA
* * *
21947118 AAAAGTGCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGG
129 AAAAGCGCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGG
* * ** * *
21947176 CTTAGTGGCGCTTATTGGAAAATGCCGCAAAAGATTAACCAAAACGCAGCGCTTTGATCTTGATG
1 ATTAGTGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* *
21947241 TATAGTAGCATTAGTGGCGCTTATACTAAAACGCCGTTAAAGTATAGTATTAGCGGCGAGTACTA
66 TATACTAGCATTAGTGGCGCTTATA-TAAAACGCCGCTAAA-TATAGTATTAGCGGCGAGTACTA
*
21947306 AAAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGG
129 AAAAGCGCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGG
21947364 ATTAGTGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGTGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * *
21947429 TATACTAGCAGTT-GTGGCGCTTATGGTAAAACGCCGCTAAAACATATTATTAGCGGCG
66 TATACTAGCA-TTAGTGGCGCTTAT-ATAAAACGCCGCT-AAATATAGTATTAGCGGCG
21947487 CGTTGTAGGA
Statistics
Matches: 276, Mismatches: 30, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
188 269 0.97
189 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (186 bp):
ATTAGTGGCGCTTATTGTAAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTAGCATTAGTGGCGCTTATATAAAACGCCGCTAAATATAGTATTAGCGGCGAGTACTAAA
AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGG
Found at i:21947446 original size:74 final size:73
Alignment explanation
Indices: 21947307--21947470 Score: 195
Period size: 74 Copynumber: 2.2 Consensus size: 73
21947297 CGAGTACTAA
* * * *
21947307 AAAGCGCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAAGCGCCGCAA-A-ATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCATTAGTGG
*
21947372 CGCTTATTGT
64 CGCTTATGGT
* * *
21947382 AAAGCGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTAGCAGTT-GTGG
1 AAAGCGCCGCAAAATATTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACACTAGCA-TTAGTGG
21947446 CGCTTATGGT
64 CGCTTATGGT
*
21947456 AAAACGCCGCTAAAA
1 AAAGCGCCGC-AAAA
21947471 CATATTATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
73 17 0.22
74 42 0.55
75 18 0.23
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (73 bp):
AAAGCGCCGCAAAATATTAACCAAAACGCAGAGTTTGGTCTTGAGGTACACTAGCATTAGTGGCG
CTTATGGT
Found at i:21947545 original size:17 final size:17
Alignment explanation
Indices: 21947509--21947553 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
21947499 CGCCACTAGA
21947509 TTATTATAT-ATTTAGT
1 TTATTATATAATTTAGT
21947525 TTATTATATAATTTA-T
1 TTATTATATAATTTAGT
21947541 GTTATTATATAAT
1 -TTATTATATAAT
21947554 GTAGGAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TTATTATATAATTTAGT
Found at i:21948299 original size:15 final size:16
Alignment explanation
Indices: 21948279--21948309 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21948269 TATTTATGTT
21948279 TATTAAAAATA-AAAA
1 TATTAAAAATATAAAA
21948294 TATTAAAAATATAAAA
1 TATTAAAAATATAAAA
21948310 AAATATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TATTAAAAATATAAAA
Found at i:21951130 original size:18 final size:18
Alignment explanation
Indices: 21951109--21951667 Score: 507
Period size: 18 Copynumber: 31.7 Consensus size: 18
21951099 CACAAATTAA
21951109 ATAACTTACATTAA-TTAC
1 ATAACTTACA-TAACTTAC
* * *
21951127 ATAACTTACAAAAATTAA
1 ATAACTTACATAACTTAC
21951145 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
* *
21951163 ATAAATTAAATAACTTAC
1 ATAACTTACATAACTTAC
* * *
21951181 ATAACTTACAAAAATTAA
1 ATAACTTACATAACTTAC
21951199 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
21951217 ATAAATTA-AGTAACTTAC
1 ATAACTTACA-TAACTTAC
* *
21951235 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
21951253 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
21951271 ATAAATTA-AGTAACTTAC
1 ATAACTTACA-TAACTTAC
* *
21951289 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
*
21951307 ATAACTTACGTAACTTAC
1 ATAACTTACATAACTTAC
*
21951325 ATAAATTA-AGTAACTTAC
1 ATAACTTACA-TAACTTAC
* *
21951343 ATAACTTACATAAATTAA
1 ATAACTTACATAACTTAC
21951361 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
*
21951379 ATAAATTA-AGTAACTTAC
1 ATAACTTACA-TAACTTAC
*
21951397 ATTAA-TTACATAAATTA-
1 A-TAACTTACATAACTTAC
21951414 AGTAACTTACATAACTTAC
1 A-TAACTTACATAACTTAC
*
21951433 ATAACTTACATAAATTA-
1 ATAACTTACATAACTTAC
* * *
21951450 AGTAACTTACAAAAATTAA
1 A-TAACTTACATAACTTAC
21951469 ATAACTTACATAACTTAC
1 ATAACTTACATAACTTAC
* *
21951487 ATAAATTAAATAACTTAC
1 ATAACTTACATAACTTAC
* * **
21951505 ATAAATTAAATAACTGGC
1 ATAACTTACATAACTTAC
*
21951523 ATAACTTACATTA--TAC
1 ATAACTTACATAACTTAC
* *
21951539 ATAACCTT-CTTAACTGAC
1 ATAA-CTTACATAACTTAC
* * *
21951557 ATTA--TACACAACTCAC
1 ATAACTTACATAACTTAC
*
21951573 ATAA-TTA-AT-ATTATAC
1 ATAACTTACATAACT-TAC
*
21951589 ACAACTTACATAA--TAC
1 ATAACTTACATAACTTAC
*
21951605 ATTACTTACATAACTTAC
1 ATAACTTACATAACTTAC
21951623 AGT-ACTTACATAA--TAC
1 A-TAACTTACATAACTTAC
21951639 ATAA--TACATAACTTAC
1 ATAACTTACATAACTTAC
21951655 ATAACTTACATAA
1 ATAACTTACATAA
21951668 TACATAAAAA
Statistics
Matches: 443, Mismatches: 67, Indels: 62
0.77 0.12 0.11
Matches are distributed among these distances:
14 7 0.02
15 4 0.01
16 50 0.11
17 18 0.04
18 353 0.80
19 11 0.02
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:21951161 original size:27 final size:27
Alignment explanation
Indices: 21951123--21951517 Score: 632
Period size: 27 Copynumber: 14.6 Consensus size: 27
21951113 CTTACATTAA
*
21951123 TTACATAACTTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
21951150 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
21951177 TTACATAACTTACAAAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
21951204 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
21951231 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
21951258 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
21951285 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
21951312 TTACGTAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
21951339 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
*
21951366 TTACATAACTTACATAAATTAAGTAAC
1 TTACATAACTTACATAAATTAAATAAC
*
21951393 TTACATTAA-TTACATAAATTAAGTAAC
1 TTACA-TAACTTACATAAATTAAATAAC
* * *
21951420 TTACATAACTTACATAACTTACATAAA
1 TTACATAACTTACATAAATTAAATAAC
*
21951447 TTA-AGTAACTTACAAAAATTAAATAAC
1 TTACA-TAACTTACATAAATTAAATAAC
21951474 TTACATAACTTACATAAATTAAATAAC
1 TTACATAACTTACATAAATTAAATAAC
* *
21951501 TTACATAAATTAAATAA
1 TTACATAACTTACATAA
21951518 CTGGCATAAC
Statistics
Matches: 341, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
26 4 0.01
27 333 0.98
28 4 0.01
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (27 bp):
TTACATAACTTACATAAATTAAATAAC
Found at i:21951614 original size:25 final size:25
Alignment explanation
Indices: 21951559--21951623 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
21951549 TAACTGACAT
* *
21951559 TATACACAACTCACATAATTAATAT
1 TATACACAACTTACATAATTAATAC
21951584 TATACACAACTTACATAA-TACATTAC
1 TATACACAACTTACATAATTA-A-TAC
*
21951610 T-TACATAACTTACA
1 TATACACAACTTACA
21951624 GTACTTACAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.06
25 30 0.86
26 3 0.09
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (25 bp):
TATACACAACTTACATAATTAATAC
Found at i:21951641 original size:7 final size:7
Alignment explanation
Indices: 21951629--21951674 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
21951619 TTACAGTACT
21951629 TACATAA
1 TACATAA
21951636 TACATAA
1 TACATAA
21951643 TACATAA
1 TACATAA
21951650 CTTACATAA
1 --TACATAA
21951659 CTTACATAA
1 --TACATAA
21951668 TACATAA
1 TACATAA
21951675 AAATATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.57
9 16 0.43
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.30
Consensus pattern (7 bp):
TACATAA
Found at i:21957038 original size:21 final size:21
Alignment explanation
Indices: 21957012--21957077 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
21957002 CAACTTAAAA
*
21957012 CAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCTGCAGCGAGAGAAG
*
21957033 CAGAGGCTACAGCGAGAGAAG
1 CAGAGGCTGCAGCGAGAGAAG
* * *
21957054 CAAAGGCCGTAGCGAGAGAAG
1 CAGAGGCTGCAGCGAGAGAAG
21957075 CAG
1 CAG
21957078 CGAGAGAAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.20, G:0.41, T:0.05
Consensus pattern (21 bp):
CAGAGGCTGCAGCGAGAGAAG
Found at i:21957081 original size:12 final size:12
Alignment explanation
Indices: 21957064--21957089 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21957054 CAAAGGCCGT
21957064 AGCGAGAGAAGC
1 AGCGAGAGAAGC
21957076 AGCGAGAGAAGC
1 AGCGAGAGAAGC
21957088 AG
1 AG
21957090 AGGTTCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.42, T:0.00
Consensus pattern (12 bp):
AGCGAGAGAAGC
Found at i:21957555 original size:43 final size:43
Alignment explanation
Indices: 21957508--21957596 Score: 110
Period size: 43 Copynumber: 2.1 Consensus size: 43
21957498 TCATATCATA
*
21957508 TAGTGGCATTTGTGAAAT-AAGCGCCG-TGAAAGAACACTACTTT
1 TAGTGGCATTTGT-AAATGAAGCACCGCT-AAAGAACACTACTTT
* * *
21957551 TAGTGGCGTTTGTAGATGAAGCACCGCTAAAGAACATTACTTT
1 TAGTGGCATTTGTAAATGAAGCACCGCTAAAGAACACTACTTT
21957594 TAG
1 TAG
21957597 CGGCGTTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
42 3 0.08
43 36 0.90
44 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
TAGTGGCATTTGTAAATGAAGCACCGCTAAAGAACACTACTTT
Found at i:21957632 original size:42 final size:42
Alignment explanation
Indices: 21957526--21957819 Score: 272
Period size: 42 Copynumber: 6.9 Consensus size: 42
21957516 TTTGTGAAAT
* ** **
21957526 AAGCGCCG-TGAAAGAACACT-ACTTTTAGTGGCGTTTGTAGATG
1 AAGCGCCGCT-AAAGAACA-TGACTTTTAGCGGCGTTT-TTTACC
* * *
21957569 AAGCACCGCTAAAGAACATTACTTTTAGCGGCGTTTTCTACC
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
* *
21957611 AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTACC
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
* * ** * *
21957653 AACCGCCACTATTGAACATTACTTTTAGCGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
* * *
21957695 TAAGCGCTGCTAAAGAACATGA-TCTTTAGCGGTGTTTTTTCCC
1 -AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTACC
* * * *
21957738 AAGCGCTGCTAAAGAACATGA-TCATTAACGGCGTTTTTTTCC
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTACC
* *
21957780 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCCTTTTTT
1 -AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTT
21957820 TCTGTAAGCG
Statistics
Matches: 215, Mismatches: 30, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
42 119 0.55
43 95 0.44
44 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTACC
Found at i:21957635 original size:85 final size:85
Alignment explanation
Indices: 21957525--21957817 Score: 234
Period size: 85 Copynumber: 3.4 Consensus size: 85
21957515 ATTTGTGAAA
* * ** * *
21957525 TAAGCGCCG-TGAAAGAACACTACTTTTAGTGGCGTTTGTAGATGAAGCACCGCTAAAGAACATT
1 TAAGCGCCGCT-AAAGAACATTACTTTTAGCGGCGTTT-TAGACCAACCACCACTAAAGAACATT
21957589 ACTTTTAGCGGCGTTTTCTACC
64 ACTTTTAGCGGCGTTTTCTACC
* ** * **
21957611 -AAGCGCCGCTATAGAACATTACTTTTAGCGGCGTTTTTTACCAACCGCCACTATTGAACATTAC
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTAGACCAACCACCACTAAAGAACATTAC
* *
21957675 TTTTAGCGGCGTTTTTTTCC
66 TTTTAGCGGCGTTTTCTACC
* * * *** * * ** *
21957695 TAAGCGCTGCTAAAGAACATGA-TCTTTAGCGGTGTTTTTTCCCAAGCGCTGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTAGACCAACCACCACTAAAGAACATTA
* * * *
21957759 -TCATTAACGGCGTTTTTTTCC
65 CT-TTTAGCGGCGTTTTCTACC
* * *
21957780 TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCCTTTT
1 TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT
21957818 TTTCTGTAAG
Statistics
Matches: 171, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
84 39 0.23
85 131 0.77
86 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (85 bp):
TAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTAGACCAACCACCACTAAAGAACATTAC
TTTTAGCGGCGTTTTCTACC
Found at i:21957818 original size:85 final size:85
Alignment explanation
Indices: 21957577--21957819 Score: 274
Period size: 85 Copynumber: 2.9 Consensus size: 85
21957567 TGAAGCACCG
* * * * * * * *
21957577 CTAAAGAACATTACTTTTAGCGGCGTTTTCTACC-AAGCGCCGCTATAGAACATTACTTTTAGCG
1 CTAAAGAACATGACTATTAACGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCG
21957641 GCGTTTTTTACCAACCGCCA
66 GCGTTTTTTACCAACCGCCA
** * * * * *
21957661 CTATTGAACATTACTTTTAGCGGCGTTTTTTTCCTAAGCGCTGCTAAAGAACATGATCTTTAGCG
1 CTAAAGAACATGACTATTAACGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCG
* * * **
21957726 GTGTTTTTTCCCAAGCGCTG
66 GCGTTTTTTACCAACCGCCA
21957746 CTAAAGAACATGA-TCATTAACGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGC
1 CTAAAGAACATGACT-ATTAACGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGC
*
21957810 GGCCTTTTTT
65 GGCGTTTTTT
21957820 TCTGTAAGCG
Statistics
Matches: 134, Mismatches: 23, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
84 31 0.23
85 103 0.77
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (85 bp):
CTAAAGAACATGACTATTAACGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGACCTTTAGCG
GCGTTTTTTACCAACCGCCA
Found at i:21958877 original size:436 final size:435
Alignment explanation
Indices: 21957967--21958984 Score: 1768
Period size: 436 Copynumber: 2.3 Consensus size: 435
21957957 TGGTGTAGTG
* *
21957967 GTTCCAGATGTTTACAGTCTTTGCGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCC
1 GTTCCAGATGTTAACAGTCTTTCCGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCC
*
21958032 TTGCACCCTATATACTTCTCCAAGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
66 TTGCACCCTATATAGTTCTCCAAGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
* *
21958097 CCATGTGGGTAGTAGACTTTCATTTCCCAGCAAATTTAAATCTTCAGTAATACACCACTTGTATC
131 CCATGTGGGTAGTAGATTTTCATTTCCCAGCAAATTTAAATCTTCAGTAAGACACCACTTGTATC
* *
21958162 CACTCTTCTACGTGTATTTGCTAGTATTGTCTCCTCGCCAGACCTAGTGTCTGGCTGCAAAGTTT
196 CACTCTTCTACGTGTATTTGCTAGTATTGTCTCCTCGCCAGACCTAGTGTCTGGCTACAAAGTGT
* *
21958227 TCCACAGAGGGATGGATCGAATCCTTTCTATTTGGTCTTCAGAAAAAAGATTTCTTAACCCATCT
261 TCCACAGAGGGATGGATCAAATCCTTTCTATTTGGTCTTCAGAAAAAAGATTTCTTAACACATCT
21958292 TCCTTCCAGGTATTTAAATTTGTTTAAATTAATTCTTCCACCATGGTATATCTCCTATCAATATT
326 TCCTTCCAGGTATTTAAATTTGTTTAAATTAATTCTTCCACCATGGTATATCTCCTATCAATATT
* *
21958357 CTAATTTTGTAGTTTTCCATTCCTAGGATATAGAAGCCATGTGTC
391 CTAATTTTGTAGTTTTCCATTCCCAGGATATAGAAGCCATGTGTA
* *
21958402 GTTCCAGATGTTAACAGTCTTTCTGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCT
1 GTTCCAGATGTTAACAGTCTTTCCGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCC
* *
21958467 TTGCACCCTATATAGTTCTCCATGTAAAAGAAGGGTGAGTTCCTAACTCGGCATTTAAAAAATCA
66 TTGCACCCTATATAGTTCTCCAAGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
*
21958532 CCACGTGGGTAGTAGATTTTCATTTCCCAGCAAATTTAAATCTTCAGTAAGACACCACTTGTATC
131 CCATGTGGGTAGTAGATTTTCATTTCCCAGCAAATTTAAATCTTCAGTAAGACACCACTTGTATC
*
21958597 CACTCTTCTCCGTGTATTTGCTAGTATTGTCTCCTCGCCAGACCTTAGTGTCTGGCTACAAAGTG
196 CACTCTTCTACGTGTATTTGCTAGTATTGTCTCCTCGCCAGACC-TAGTGTCTGGCTACAAAGTG
*
21958662 TTCCACAGAGGGATGGATCAAATCCTTTCTATTTGGTCTTCATAAAAAAGATTTCTTAACACATC
260 TTCCACAGAGGGATGGATCAAATCCTTTCTATTTGGTCTTCAGAAAAAAGATTTCTTAACACATC
* * * *
21958727 TTCTTTCCAGGTATTTAAATTT-TTATTAATTAATTCTTCTACCATGGTATATCTCCTATCCATA
325 TTCCTTCCAGGTATTTAAATTTGTT-TAAATTAATTCTTCCACCATGGTATATCTCCTATCAATA
*
21958791 TTCTAATTTTGTAGTTTTCCATTCCCAGGATATTGAAGCCATGTGTA
389 TTCTAATTTTGTAGTTTTCCATTCCCAGGATATAGAAGCCATGTGTA
* *
21958838 GTTCCAGATGTTAACAGTTTTTCCGTCGCCTATTCTTCAATCAACCCCTGATTCTAATAAGTCCC
1 GTTCCAGATGTTAACAGTCTTTCCGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCC
*
21958903 TTGCACCCTATATAGTTCTCCAGGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
66 TTGCACCCTATATAGTTCTCCAAGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
*
21958968 TCATGTGGGTAGTAGAT
131 CCATGTGGGTAGTAGAT
21958985 AGCTTTCATG
Statistics
Matches: 550, Mismatches: 31, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
435 230 0.42
436 320 0.58
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (435 bp):
GTTCCAGATGTTAACAGTCTTTCCGTCGCCTATTCTTCAACCAACCCCTGATTCTAATAAGTCCC
TTGCACCCTATATAGTTCTCCAAGTAAAAGAAGGGTGAGTTCCTAACTCAGCATTTAAAAAATCA
CCATGTGGGTAGTAGATTTTCATTTCCCAGCAAATTTAAATCTTCAGTAAGACACCACTTGTATC
CACTCTTCTACGTGTATTTGCTAGTATTGTCTCCTCGCCAGACCTAGTGTCTGGCTACAAAGTGT
TCCACAGAGGGATGGATCAAATCCTTTCTATTTGGTCTTCAGAAAAAAGATTTCTTAACACATCT
TCCTTCCAGGTATTTAAATTTGTTTAAATTAATTCTTCCACCATGGTATATCTCCTATCAATATT
CTAATTTTGTAGTTTTCCATTCCCAGGATATAGAAGCCATGTGTA
Found at i:21962824 original size:5 final size:6
Alignment explanation
Indices: 21962779--21962831 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
21962769 TTAGTTCATC
** * *
21962779 TTTATT TTTCCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
21962829 TTT
1 TTT
21962832 TTAATTTCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 32 0.84
7 2 0.05
8 4 0.11
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:21962866 original size:3 final size:3
Alignment explanation
Indices: 21962858--21962885 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
21962848 TTTTTAATCC
21962858 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
21962886 TCTCCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:21962989 original size:15 final size:14
Alignment explanation
Indices: 21962963--21962993 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
21962953 AATTTTGTAC
21962963 TTATTTTAATATAT
1 TTATTTTAATATAT
21962977 TTATTTATAATATAT
1 TTATTT-TAATATAT
21962992 TT
1 TT
21962994 TAATATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTTAATATAT
Found at i:21967821 original size:87 final size:87
Alignment explanation
Indices: 21967663--21968191 Score: 691
Period size: 87 Copynumber: 6.1 Consensus size: 87
21967653 ACTTGTAATC
* ** * * *
21967663 TTCGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTACTATCTTTAACCAGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
21967728 CCGATAGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* *
21967750 TTCAATCTGCTTCGCTGTTAACGCAGGAGGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * * *
21967815 CTGATAGATGCAAGGCATTGTT
66 CCGATGGAGGCAAGGCTTTGTT
** * * *
21967837 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTATTATCTTCAACCAACTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
21967902 CCGATGGAGACAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
** * * *
21967924 TTCGATCTTATTCGCTATTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
21967989 CCGATGGAGGCAAGGCTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
* * * *
21968011 TTCGATCTGCTTTGCTGTTAACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCATTGAAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
* * *
21968076 CCGATGAAGACAAGGCTTTATT
66 CCGATGGAGGCAAGGCTTTGTT
** * ** * * *
21968098 TTCGATCTGCTTCGCTGTTATTGTACAAAGGCAAAATTTGCT-TCTTTAGCCAGCTCCACTGCAA
1 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
*
21968162 CCGATGGAGGCAAGGTTTTGTT
66 CCGATGGAGGCAAGGCTTTGTT
21968184 TTCGATCT
1 TTCGATCT
21968192 TCACTGATCT
Statistics
Matches: 384, Mismatches: 58, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
86 45 0.12
87 339 0.88
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA
CCGATGGAGGCAAGGCTTTGTT
Found at i:21969893 original size:16 final size:17
Alignment explanation
Indices: 21969860--21969903 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
21969850 GATTTCTCTT
21969860 TTTTTCTTTTGACTTTTA
1 TTTTTCTTTT-ACTTTTA
21969878 TTTTTCTTTT-CTTTTA
1 TTTTTCTTTTACTTTTA
*
21969894 TTTTTGTTTT
1 TTTTTCTTTT
21969904 TGATTTTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.60
18 10 0.40
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTACTTTTA
Found at i:21977945 original size:17 final size:18
Alignment explanation
Indices: 21977923--21977956 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21977913 ATAATTGTAA
21977923 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
21977940 TTTAAATGTTTAATTAT
1 TTTAAATGTCTAATTAT
21977957 CACAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:21977964 original size:24 final size:24
Alignment explanation
Indices: 21977937--21978005 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 24
21977927 AATTCTAATT
21977937 ATTTTTAAATGTTTAATTATCACA
1 ATTTTTAAATGTTTAATTATCACA
* * * **
21977961 ATTTCT--A--TTAAATTATAATT
1 ATTTTTAAATGTTTAATTATCACA
*
21977981 ATTTTTAAATGTATAATTATCACA
1 ATTTTTAAATGTTTAATTATCACA
21978005 A
1 A
21978006 CTTTATTTTA
Statistics
Matches: 30, Mismatches: 11, Indels: 8
0.61 0.22 0.16
Matches are distributed among these distances:
20 14 0.47
22 2 0.07
24 14 0.47
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (24 bp):
ATTTTTAAATGTTTAATTATCACA
Found at i:21988219 original size:20 final size:20
Alignment explanation
Indices: 21988196--21988329 Score: 69
Period size: 20 Copynumber: 6.7 Consensus size: 20
21988186 ACTTCGGTAT
*
21988196 CCCTGATTGCACATATGTGC
1 CCCTGATTGCACATATGTAC
* *
21988216 CCCT-ATTTGTACCT-TGATAC
1 CCCTGA-TTGCACATATG-TAC
*
21988236 CCCTGATTGCACATACT-TTC
1 CCCTGATTGCACATA-TGTAC
* * * *
21988256 CCCTGTTTGTAC-TTTAGTAT
1 CCCTGATTGCACATAT-GTAC
* *
21988276 CCCTGATTGCACATACGTGC
1 CCCTGATTGCACATATGTAC
* * * **
21988296 CCCTGTTTGTACTTCGGTAC
1 CCCTGATTGCACATATGTAC
21988316 CCCTGATTGCACAT
1 CCCTGATTGCACAT
21988330 GTGTGCCTTT
Statistics
Matches: 80, Mismatches: 26, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
18 1 0.01
19 4 0.05
20 72 0.90
21 2 0.03
22 1 0.01
ACGTcount: A:0.18, C:0.31, G:0.16, T:0.36
Consensus pattern (20 bp):
CCCTGATTGCACATATGTAC
Found at i:21988240 original size:40 final size:40
Alignment explanation
Indices: 21988117--21988388 Score: 255
Period size: 40 Copynumber: 6.8 Consensus size: 40
21988107 AGATAATTAT
* * *
21988117 CCCTGATTGAACATACGTGCCCCTATTTGTATTTCGGTAC
1 CCCTGATTGCACATATGTGCCCCTATTTGTACTTCGGTAC
** * * ** * *
21988157 CATTAATTACACATACAT-CCCCTGTTTGTACTTCGGTAT
1 CCCTGATTGCACATATGTGCCCCTATTTGTACTTCGGTAC
*
21988196 CCCTGATTGCACATATGTGCCCCTATTTGTACCTT-GATAC
1 CCCTGATTGCACATATGTGCCCCTATTTGTA-CTTCGGTAC
* * ** *
21988236 CCCTGATTGCACATACT-TTCCCCTGTTTGTACTTTAGTAT
1 CCCTGATTGCACATA-TGTGCCCCTATTTGTACTTCGGTAC
* *
21988276 CCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
1 CCCTGATTGCACATATGTGCCCCTATTTGTACTTCGGTAC
* **
21988316 CCCTGATTGCACATGTGTGCCTTTATTTGTACTTCGGTAC
1 CCCTGATTGCACATATGTGCCCCTATTTGTACTTCGGTAC
* * * *
21988356 CCCTGAATGCA-ATTATATTCCCCTATTTATACT
1 CCCTGATTGCACA-TATGTGCCCCTATTTGTACT
21988389 CTAGTAACCC
Statistics
Matches: 186, Mismatches: 40, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
39 34 0.18
40 148 0.80
41 4 0.02
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (40 bp):
CCCTGATTGCACATATGTGCCCCTATTTGTACTTCGGTAC
Found at i:21988283 original size:80 final size:79
Alignment explanation
Indices: 21988114--21988329 Score: 299
Period size: 80 Copynumber: 2.7 Consensus size: 79
21988104 TATAGATAAT
* * ** * *
21988114 TATCCCTGATTGAACATACGTGCCCCTATTTGTATTTCGGTACCATTAATTACACATACATCCCC
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATACATCCCC
*
21988179 TGTTTGTACTTCGG
66 TGTTTGTACTTCAG
* * *
21988193 TATCCCTGATTGCACATATGTGCCCCTATTTGTACCTT-GATACCCCTGATTGCACATACTTTCC
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTA-CTTCGGTACCCCTGATTGCACATAC-ATCC
*
21988257 CCTGTTTGTACTTTAG
64 CCTGTTTGTACTTCAG
*
21988273 TATCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACAT
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACAT
21988330 GTGTGCCTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
79 51 0.43
80 69 0.57
ACGTcount: A:0.20, C:0.29, G:0.15, T:0.37
Consensus pattern (79 bp):
TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATACATCCCC
TGTTTGTACTTCAG
Found at i:21988329 original size:120 final size:119
Alignment explanation
Indices: 21988166--21988401 Score: 316
Period size: 120 Copynumber: 2.0 Consensus size: 119
21988156 CCATTAATTA
*
21988166 CACATACATCCCCTGTTTGTACTTCGGTATCCCTGATTGCACATATGTGCCCCTATTTGTACCTT
1 CACATACATCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTTGTA-CTT
* * * * *
21988231 -GATACCCCTGATTGCACA-TACT-TTCCCCTGTTTGTACTTTAGTATCCCTGATTG
65 CGATACCCCTGAATGCA-ATTA-TATTCCCCTATTTATACTCTAGTAACCCTGATTG
* * **
21988285 CACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATGTGTGCCTTTATTTGTACTT
1 CACATACAT-CCCCTGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTTGTACTT
*
21988350 CGGTACCCCTGAATGCAATTATATTCCCCTATTTATACTCTAGTAACCCTGA
65 CGATACCCCTGAATGCAATTATATTCCCCTATTTATACTCTAGTAACCCTGA
21988402 ATCAAACAGT
Statistics
Matches: 102, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
119 13 0.13
120 89 0.87
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (119 bp):
CACATACATCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATATGTGCCCCTATTTGTACTTC
GATACCCCTGAATGCAATTATATTCCCCTATTTATACTCTAGTAACCCTGATTG
Found at i:21988360 original size:80 final size:78
Alignment explanation
Indices: 21988114--21988366 Score: 283
Period size: 80 Copynumber: 3.2 Consensus size: 78
21988104 TATAGATAAT
* * ** * * *
21988114 TATCCCTGATTGAACATACGTGCCCCTATTTGTATTTCGGTACCATTAATTACACATACATCCCC
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATA-TTCCCC
21988179 TGTTTGTACTTCGG
65 TGTTTGTACTTCGG
* *
21988193 TATCCCTGATTGCACATATGTGCCCCTATTTGTACCTT-GATACCCCTGATTGCACATACTTTCC
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTA-CTTCGGTACCCCTGATTGCACATA--TTCC
**
21988257 CCTGTTTGTACTTTAG
63 CCTGTTTGTACTTCGG
* * *
21988273 TATCCCTGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATGTGTGCCT
1 TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATAT-T-CCC
* *
21988338 TTATTTGTACTTCGG
64 CTGTTTGTACTTCGG
* *
21988353 TACCCCTGAATGCA
1 TATCCCTGATTGCA
21988367 ATTATATTCC
Statistics
Matches: 146, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 51 0.35
80 94 0.64
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (78 bp):
TATCCCTGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACATATTCCCCT
GTTTGTACTTCGG
Found at i:22000294 original size:25 final size:26
Alignment explanation
Indices: 22000265--22000320 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
22000255 TTAATTAGTA
*
22000265 TAAAATATT-AATAATTCAAT-AAAT
1 TAAAATATTAAATAATTAAATAAAAT
22000289 TGAAAA-ATTAAATAATTAAATAAAAT
1 T-AAAATATTAAATAATTAAATAAAAT
22000315 TAAAAT
1 TAAAAT
22000321 TTAGGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 4 0.15
25 18 0.67
26 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAATAATTAAATAAAAT
Found at i:22001025 original size:22 final size:19
Alignment explanation
Indices: 22000986--22001027 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
22000976 TGCAAAGTTG
22000986 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
22001005 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
22001027 A
1 A
22001028 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:22001880 original size:16 final size:16
Alignment explanation
Indices: 22001859--22001976 Score: 209
Period size: 16 Copynumber: 7.4 Consensus size: 16
22001849 TTTGGTTAGC
22001859 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22001875 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22001891 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22001907 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22001923 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
22001939 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
*
22001955 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
22001971 CGTAAT
1 TGTAAT
22001977 AGGTAATTCT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 99 1.00
ACGTcount: A:0.37, C:0.02, G:0.36, T:0.25
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:22002045 original size:44 final size:46
Alignment explanation
Indices: 22001958--22002050 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
22001948 ATAGATGCGT
* *
22001958 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTTGAATGG
22002004 AATGGAATAGAGGCGTAAT-GGT-ATTCTTCTATTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTTGAATGG
22002048 AAT
1 AAT
22002051 AGCGGTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTTGAATGG
Found at i:22002046 original size:39 final size:44
Alignment explanation
Indices: 22001958--22002063 Score: 123
Period size: 46 Copynumber: 2.5 Consensus size: 44
22001948 ATAGATGCGT
* *
22001958 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTT--ATGG
22002004 AATGGAATAGAGGCGTAAT-GGT-ATTCTTCTATTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTTATGG
* *
22002043 AATGGAATAGCGGTGTAATAG
1 AATGGAATAGAGGCGTAATAG
22002064 CATAAGGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 18 0.33
40 2 0.04
43 1 0.02
44 12 0.22
45 3 0.05
46 19 0.35
ACGTcount: A:0.29, C:0.06, G:0.30, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTATTTGGTTATGG
Found at i:22002261 original size:18 final size:17
Alignment explanation
Indices: 22002209--22002261 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
22002199 TTATTATTAA
22002209 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
22002227 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
22002244 ATATGAATTTACTAAAAT
1 ATAT-AATTTAATAAAAT
22002262 CATAATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 9 0.27
18 24 0.73
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22011969 original size:26 final size:24
Alignment explanation
Indices: 22011932--22011981 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
22011922 TGTCGAGCCG
* *
22011932 AATTAATTAAAATGTGATATAAAATT
1 AATTAATCAAAA-GTAAT-TAAAATT
22011958 AATTAATCAAAAGTAATTAAAATT
1 AATTAATCAAAAGTAATTAAAATT
22011982 CAAAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
AATTAATCAAAAGTAATTAAAATT
Found at i:22011974 original size:14 final size:14
Alignment explanation
Indices: 22011952--22012001 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
22011942 AATGTGATAT
22011952 AAAATTAATTAATC
1 AAAATTAATTAATC
*
22011966 AAAAGTAATTAAAATTC
1 AAAATTAATT--AA-TC
*
22011983 AAAATTAATTAACC
1 AAAATTAATTAATC
22011997 AAAAT
1 AAAAT
22012002 AATCAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 15 0.50
15 2 0.07
16 2 0.07
17 11 0.37
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (14 bp):
AAAATTAATTAATC
Found at i:22011990 original size:31 final size:30
Alignment explanation
Indices: 22011952--22012011 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
22011942 AATGTGATAT
* *
22011952 AAAATTAATTAATCAAAAGTAATTAAAATTC
1 AAAATTAATTAACCAAAA-TAATCAAAATTC
22011983 AAAATTAATTAACCAAAATAATCAAAATT
1 AAAATTAATTAACCAAAATAATCAAAATT
22012012 TATCAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAATTAATTAACCAAAATAATCAAAATTC
Found at i:22014047 original size:39 final size:39
Alignment explanation
Indices: 22013951--22014049 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
22013941 ATTCACTTTT
* * * * * *
22013951 AAGCATGTATCACATTACACATATAATCACATAGCATTT
1 AAGCATATATCACAATACTCATATAACCACATAACATTC
* * *
22013990 AAGCATATATTACAATACTCATATTACCACATAACGTTC
1 AAGCATATATCACAATACTCATATAACCACATAACATTC
22014029 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
22014050 AAAACATGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAACCACATAACATTC
Found at i:22023741 original size:12 final size:13
Alignment explanation
Indices: 22023717--22023745 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22023707 GGGCTATAAC
22023717 TATTGCATTTATT
1 TATTGCATTTATT
22023730 TATTGC-TTTATT
1 TATTGCATTTATT
22023742 TATT
1 TATT
22023746 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:22031224 original size:48 final size:48
Alignment explanation
Indices: 22031051--22031228 Score: 259
Period size: 48 Copynumber: 3.7 Consensus size: 48
22031041 CTTTGTGTAA
* * *
22031051 TAACAG-ATTTTGGTAGCCTGCACATAGTCCGTGCCACCCTTGTGTCT
1 TAACAGAATATTGGTAGCCTGCACACAGTCCGTGCCACCCTTGTATCT
* * * *
22031098 TAACAGAATATTGGTGGTCTGCACACAATCCATGCCACCCTTGTATCT
1 TAACAGAATATTGGTAGCCTGCACACAGTCCGTGCCACCCTTGTATCT
* * *
22031146 TAACAGAAAATTGGTGGCCTGCACAAAGTCCGTGCCACCCTTGTATCT
1 TAACAGAATATTGGTAGCCTGCACACAGTCCGTGCCACCCTTGTATCT
22031194 TAACAGAATATTGGTAGCCTGCACACAGTCCGTGC
1 TAACAGAATATTGGTAGCCTGCACACAGTCCGTGC
22031229 TACATACGCG
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 6 0.05
48 109 0.95
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
TAACAGAATATTGGTAGCCTGCACACAGTCCGTGCCACCCTTGTATCT
Found at i:22034209 original size:18 final size:16
Alignment explanation
Indices: 22034184--22034260 Score: 59
Period size: 18 Copynumber: 4.5 Consensus size: 16
22034174 ACCTCAAACC
22034184 CCTAAACCTAGTAAAAA
1 CCTAAACCTA-TAAAAA
22034201 CCATAAACC-ATAAAAA
1 CC-TAAACCTATAAAAA
*
22034217 TTCCTAAACCCATAAAAA
1 --CCTAAACCTATAAAAA
22034235 CCCTCAAACCTA-AATAAA
1 -CCT-AAACCTATAA-AAA
*
22034253 CATAAACC
1 CCTAAACC
22034261 CTCAAGCCCT
Statistics
Matches: 51, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
16 11 0.22
17 16 0.31
18 24 0.47
ACGTcount: A:0.53, C:0.29, G:0.01, T:0.17
Consensus pattern (16 bp):
CCTAAACCTATAAAAA
Found at i:22035785 original size:23 final size:24
Alignment explanation
Indices: 22035759--22035807 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
22035749 AAAGAATGGC
* **
22035759 TAAAAT-ATTTAATTTTGAAAAAT
1 TAAAATGATTAAATTTAAAAAAAT
22035782 T-AAATGATTAAATTTAAAAAAAT
1 TAAAATGATTAAATTTAAAAAAAT
22035805 TAA
1 TAA
22035808 TAATTGAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.19
23 16 0.76
24 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (24 bp):
TAAAATGATTAAATTTAAAAAAAT
Found at i:22037284 original size:39 final size:39
Alignment explanation
Indices: 22037232--22037308 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 39
22037222 GCTAAGATAG
*
22037232 AGCAATAGTGGCGTTTTT-ATGAAAACATCGCAAAAAAGA
1 AGCAATAGCGGCGTTTTTCA-GAAAACATCGCAAAAAAGA
* *
22037271 AGCATTAGCGGCGTTTTTCGAGAAAACGTCGCAAAAAA
1 AGCAATAGCGGCGTTTTTC-AGAAAACATCGCAAAAAA
22037309 CCAAAACCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 16 0.48
40 16 0.48
41 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCAATAGCGGCGTTTTTCAGAAAACATCGCAAAAAAGA
Found at i:22037425 original size:41 final size:41
Alignment explanation
Indices: 22037366--22037572 Score: 236
Period size: 41 Copynumber: 5.0 Consensus size: 41
22037356 CGTTTATGAG
* * *
22037366 AAAGTGTCGGTAACGCTCTGGGTTTTAGCGGCGTTTTTTTA
1 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTTA
*
22037407 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTAA
1 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTTA
* * * *
22037448 AAAGTGTCGCTAATGCTCTAGGTTTTACCGGCGTTTTTTAA
1 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTTA
* * * * ***
22037489 AAAGCGCCGGTAATGGTCTGGGTTTTACCTATGTTTTTTT-
1 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTTA
* * *
22037529 AAAGCGCCGCTAATGGTCTTGGTTTTAGCGGCGTTTTTGTTA
1 AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTT-TTA
22037571 AA
1 AA
22037573 GCGCCGCAAA
Statistics
Matches: 142, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.23
41 108 0.76
42 2 0.01
ACGTcount: A:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (41 bp):
AAAGCGTCGCTAATGCTCTGGGTTTTAGCGGCGTTTTTTTA
Found at i:22037976 original size:14 final size:14
Alignment explanation
Indices: 22037957--22037984 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22037947 ATATGGATTA
22037957 ATTAGGGATTATGG
1 ATTAGGGATTATGG
22037971 ATTAGGGATTATGG
1 ATTAGGGATTATGG
22037985 TTTAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
ATTAGGGATTATGG
Found at i:22038021 original size:7 final size:7
Alignment explanation
Indices: 22038011--22038049 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
22038001 GATTTAATGT
22038011 TTAGGGG
1 TTAGGGG
22038018 TTAGGGG
1 TTAGGGG
22038025 TTTAGGGG
1 -TTAGGGG
**
22038033 TTAGACG
1 TTAGGGG
22038040 TTAGGGG
1 TTAGGGG
22038047 TTA
1 TTA
22038050 ATAGTTAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.18, C:0.03, G:0.46, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:22038029 original size:15 final size:15
Alignment explanation
Indices: 22038009--22038049 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
22037999 GGGATTTAAT
**
22038009 GTTTAGGGGTTAGGG
1 GTTTAGGGGTTAGAC
22038024 GTTTAGGGGTTAGAC
1 GTTTAGGGGTTAGAC
22038039 G-TTAGGGGTTA
1 GTTTAGGGGTTA
22038050 ATAGTTAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.17, C:0.02, G:0.46, T:0.34
Consensus pattern (15 bp):
GTTTAGGGGTTAGAC
Found at i:22038563 original size:326 final size:314
Alignment explanation
Indices: 22037859--22038793 Score: 1086
Period size: 326 Copynumber: 2.9 Consensus size: 314
22037849 TATCACTACA
** * *
22037859 GTTTAGGGTTTTT-A--A-TTTAGGGTATATGATTTTATTTAAAGATTTAAGGTCAGTTTAAGAG
1 GTTTAGGGTTTTTAATTAGTTTAGGGTATATGA-TAAATTT-AAGATTTAAGGCCAGTTTAGGAG
22037920 TTCATATTTTAAGGTTTTAGGGAGTATATATGGATTAATTAGGGATTATGGATTAGGGATTATGG
64 TTCATATTTTAAGG-TTTAGGGAGTATATATGGATTAATTAGGGATTATGGATTAGGGATTATGG
*
22037985 TTTAATTAAGGGTTGGGATTTAATGTTTAGGGGTTAGGGGTTTAGGGGTTAGACGTTAGGGGTTA
128 TTTAATTAAGGGTTGGGATTTAATGTTTAGGGGTTAGGGGTTTAGAGGTTAGACGTTAGGGGTTA
* **
22038050 ATAGTTAGGGATTTGGGGTTTATGAATTTAGGGGTCGGGTTAGGGTTTTGGGATTAGATTGTTTT
193 AGAGTTAGGGATTTGGGGTTTACAAATTTAGGGGTCGGGTTAGGGTTTTGGGATTAGATTGTTTT
*
22038115 TTATTTATATTTTAAATATGTTATTATATATGTAATTGTAATTTAACATAATAATAAAATT
258 TTATTTATATTTTAAATATG-T-TTATATATGTAATTGTAA--TAACATAATAATAAAAAT
*
22038176 GTTTAGGGTTTTTAGTTAGTTTAGGGTATATGATAAATTTAAGATTTAAGGCCAGTTTAGGAGTT
1 GTTTAGGGTTTTTAATTAGTTTAGGGTATATGATAAATTTAAGATTTAAGGCCAGTTTAGGAGTT
* * *
22038241 CATATTTTAAGGTTTAGGTAGTATATATGGATTTAGCTATAGGGATTGTGGATTAGGGATTATGG
66 CATATTTTAAGGTTTAGGGAGTATATATGGA-TTA-AT-TAGGGATTATGGATTAGGGATTATGG
22038306 TTTAAAATTTAAGGGTTGGGATTTAAGGTTTAGGTGTTAGGGGTTTAGGGGTTTAGAGGTTAGAC
128 TTT--AA-TTAAGGGTTGGGATTTAA----T--GT-TTAGGGG-TTAGGGGTTTAGAGGTTAGAC
* *
22038371 G-TAGGGGTTAAGAGTTAGGGATTTGGGGTTTACAAATTTAGGGGTCGTGTTAGGGTTTTGGGTT
182 GTTAGGGGTTAAGAGTTAGGGATTTGGGGTTTACAAATTTAGGGGTCGGGTTAGGGTTTTGGGAT
* * * *
22038435 TAGATTATTATTTTTCTTTATATTTTAAATATG-TTAT-TATGTAGTTGTAA-AAGATAATAATA
247 TAGATT-GT-TTTTTATTTATATTTTAAATATGTTTATATATGTAATTGTAATAACATAATAATA
22038497 AAAAT
310 AAAAT
*
22038502 GTTTAGGGTTTTTAATTAGTTTAGGGTATATGATAAATTTAAGATTTAAGGCCGGTTTAGGAGTT
1 GTTTAGGGTTTTTAATTAGTTTAGGGTATATGATAAATTTAAGATTTAAGGCCAGTTTAGGAGTT
*
22038567 CATATTTTAAGGTTTAGGGAGTACTATATATATATGGGGATTAATTAGGGATTATAGATTAGGGA
66 CATATTTTAAGGTTTAGGGAG-------TATATAT--GGATTAATTAGGGATTATGGATTAGGGA
* ** *
22038632 TTATGTTTTAATTAAGGGTT-GG-CCTGA--TTTA------A--GGTTTAGAGGTTAGACGTTAG
122 TTATGGTTTAATTAAGGGTTGGGATTTAATGTTTAGGGGTTAGGGGTTTAGAGGTTAGACGTTAG
* * * **** ** *
22038685 TGGTTAAGAGTTAGAGATTTAGGGTTTAGGGTTTTAAAGGTCGGGTTAGGGTTTTGGGTTTAGAT
187 GGGTTAAGAGTTAGGGATTTGGGGTTTACAAATTTAGGGGTCGGGTTAGGGTTTTGGGATTAGAT
* *
22038750 TAATTTTTTATTTATATTTTAAATATG-TTCT-TATGTAATTGTAA
252 T-GTTTTTTATTTATATTTTAAATATGTTTATATATGTAATTGTAA
22038794 AAGATGTATA
Statistics
Matches: 545, Mismatches: 43, Indels: 68
0.83 0.07 0.10
Matches are distributed among these distances:
309 54 0.10
310 61 0.11
311 1 0.00
317 13 0.02
318 21 0.04
319 39 0.07
320 7 0.01
321 42 0.08
323 2 0.00
324 18 0.03
326 98 0.18
327 2 0.00
328 3 0.01
329 21 0.04
330 8 0.01
331 71 0.13
332 48 0.09
333 30 0.06
334 3 0.01
335 3 0.01
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.43
Consensus pattern (314 bp):
GTTTAGGGTTTTTAATTAGTTTAGGGTATATGATAAATTTAAGATTTAAGGCCAGTTTAGGAGTT
CATATTTTAAGGTTTAGGGAGTATATATGGATTAATTAGGGATTATGGATTAGGGATTATGGTTT
AATTAAGGGTTGGGATTTAATGTTTAGGGGTTAGGGGTTTAGAGGTTAGACGTTAGGGGTTAAGA
GTTAGGGATTTGGGGTTTACAAATTTAGGGGTCGGGTTAGGGTTTTGGGATTAGATTGTTTTTTA
TTTATATTTTAAATATGTTTATATATGTAATTGTAATAACATAATAATAAAAAT
Found at i:22039115 original size:19 final size:18
Alignment explanation
Indices: 22039091--22039139 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
22039081 AAATTATACG
22039091 AAATAAAATTAAAATACAA
1 AAATAAAATTAAAATA-AA
* *
22039110 AAATAAAAATGAAATAAA
1 AAATAAAATTAAAATAAA
22039128 AACACTAAAATT
1 AA-A-TAAAATT
22039140 TTTAATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 15 0.60
20 6 0.24
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATAAAATTAAAATAAA
Found at i:22039124 original size:25 final size:25
Alignment explanation
Indices: 22039091--22039138 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
22039081 AAATTATACG
* *
22039091 AAATAAAATTAAAATACAAAAATAA
1 AAATAAAATAAAAACACAAAAATAA
* *
22039116 AAATGAAATAAAAACACTAAAAT
1 AAATAAAATAAAAACACAAAAAT
22039139 TTTTAATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.19
Consensus pattern (25 bp):
AAATAAAATAAAAACACAAAAATAA
Found at i:22039193 original size:47 final size:48
Alignment explanation
Indices: 22039124--22039222 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 48
22039114 AAAAATGAAA
** * *
22039124 TAAAAACACTAAAATTTTTAATTTTGTCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
22039172 TAAAAA-ACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
1 TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
22039219 TAAA
1 TAAA
22039223 CAAAAGTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (48 bp):
TAAAAACACTAAAATTGATAATTTTATCTAATTTTTATAAATATTACC
Found at i:22040943 original size:14 final size:14
Alignment explanation
Indices: 22040924--22040950 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22040914 TAAAAGGTTT
22040924 TTTAGTTAATCATC
1 TTTAGTTAATCATC
22040938 TTTAGTTAATCAT
1 TTTAGTTAATCAT
22040951 GTTGTTGTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:22041163 original size:22 final size:22
Alignment explanation
Indices: 22041137--22041213 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
22041127 CAAGTTGTAT
22041137 CCAATGCAAATTGTTGTTTTAG
1 CCAATGCAAATTGTTGTTTTAG
* *
22041159 CCAATTGAACAATTGTTG---TAT
1 CCAA-TGCA-AATTGTTGTTTTAG
22041180 CCAATGCAAATTGTTGTTTTAG
1 CCAATGCAAATTGTTGTTTTAG
**
22041202 TGAATGCAAATT
1 CCAATGCAAATT
22041214 TTATTATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 8 0.18
20 3 0.07
21 6 0.14
22 16 0.36
23 3 0.07
24 8 0.18
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (22 bp):
CCAATGCAAATTGTTGTTTTAG
Found at i:22041193 original size:19 final size:19
Alignment explanation
Indices: 22041130--22041196 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
22041120 ATTTATGCAA
22041130 GTTGTATCCAATGCAAATT
1 GTTGTATCCAATGCAAATT
* *
22041149 GTTGTTTTAGCCAATTGAACAATT
1 GTTG---TATCCAA-TGCA-AATT
22041173 GTTGTATCCAATGCAAATT
1 GTTGTATCCAATGCAAATT
22041192 GTTGT
1 GTTGT
22041197 TTTAGTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 13 0.33
20 3 0.08
21 6 0.15
22 6 0.15
23 3 0.08
24 8 0.21
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (19 bp):
GTTGTATCCAATGCAAATT
Found at i:22041530 original size:23 final size:24
Alignment explanation
Indices: 22041501--22041574 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 24
22041491 ATTATTAATG
22041501 TATAACATATA-TTAATATGTATA
1 TATAACATATATTTAATATGTATA
*
22041524 TATAACATATATTTAA-AT-T-TG
1 TATAACATATATTTAATATGTATA
22041545 TATAACATATATTTTTAATATGTATA
1 TATAACATATA--TTTAATATGTATA
22041571 TATA
1 TATA
22041575 TTTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
21 12 0.28
22 1 0.02
23 18 0.42
24 6 0.14
25 1 0.02
26 5 0.12
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (24 bp):
TATAACATATATTTAATATGTATA
Found at i:22041548 original size:21 final size:21
Alignment explanation
Indices: 22041499--22041591 Score: 82
Period size: 22 Copynumber: 4.3 Consensus size: 21
22041489 ATATTATTAA
22041499 TGTATAACATATA-TTAATATGT
1 TGTATAACATATATTTAA-AT-T
*
22041521 ATATATAACATATATTTAAATT
1 -TGTATAACATATATTTAAATT
* *
22041543 TGTATAACATATATTTTTAATA
1 TGTATAACATATA-TTTAAATT
* *
22041565 TGTATATATATTTATTTAAATT
1 TGTATA-ACATATATTTAAATT
22041587 T-TATA
1 TGTATA
22041592 TATTTTTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
21 16 0.27
22 20 0.34
23 19 0.32
24 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (21 bp):
TGTATAACATATATTTAAATT
Found at i:22041573 original size:19 final size:17
Alignment explanation
Indices: 22041551--22041598 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
22041541 TTTGTATAAC
22041551 ATATATTTTTAATATGTAT
1 ATATATTTTTAA-AT-TAT
*
22041570 ATATATTTATTTAAATTTT
1 ATATA-TT-TTTAAATTAT
22041589 ATATATTTTT
1 ATATATTTTT
22041599 TCAAAACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.12
18 2 0.08
19 12 0.46
20 4 0.15
21 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATATTTTTAAATTAT
Found at i:22041581 original size:44 final size:42
Alignment explanation
Indices: 22041499--22041591 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 42
22041489 ATATTATTAA
22041499 TGTATAACATATATTAATATGTATATATAACATATATTTAAATT
1 TGTATAACATATATTAATATGTATATAT-A-ATATATTTAAATT
*
22041543 TGTATAACATATATTTTTAATATGTATATAT-ATTTATTTAAATT
1 TGTATAACATATA---TTAATATGTATATATAATATATTTAAATT
22041587 T-TATA
1 TGTATA
22041592 TATTTTTTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
43 4 0.09
44 26 0.58
47 15 0.33
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (42 bp):
TGTATAACATATATTAATATGTATATATAATATATTTAAATT
Found at i:22041592 original size:21 final size:22
Alignment explanation
Indices: 22041533--22041594 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
22041523 ATATAACATA
*
22041533 TATTTAAATTTGTATAACATATAT
1 TATTTAAATTT-TAT-ATATATAT
*
22041557 T-TTT-AATATGTATATATAT-T
1 TATTTAAAT-TTTATATATATAT
22041577 TATTTAAATTTTATATAT
1 TATTTAAATTTTATATAT
22041595 TTTTTCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 2 0.06
21 16 0.50
22 9 0.28
23 4 0.12
24 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTTAAATTTTATATATATAT
Found at i:22041609 original size:19 final size:19
Alignment explanation
Indices: 22041569--22041610 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22041559 TTAATATGTA
**
22041569 TATATATTTATTTAAATTT
1 TATATATTTATTTAAAACT
22041588 TATATATTT-TTTCAAAACT
1 TATATATTTATTT-AAAACT
22041607 TATA
1 TATA
22041611 AATCATATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATATTTATTTAAAACT
Found at i:22041738 original size:12 final size:12
Alignment explanation
Indices: 22041721--22041745 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22041711 TACATAATAC
22041721 ATAACTTACATA
1 ATAACTTACATA
22041733 ATAACTTACATA
1 ATAACTTACATA
22041745 A
1 A
22041746 CTTCTGTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:22041786 original size:9 final size:9
Alignment explanation
Indices: 22041768--22041983 Score: 113
Period size: 9 Copynumber: 25.3 Consensus size: 9
22041758 CTTATATATA
*
22041768 AACTTGCAT
1 AACTTACAT
22041777 AACTTACAT
1 AACTTACAT
*
22041786 AACAATATA-AC
1 AAC--T-TACAT
*
22041797 AACTTAGAT
1 AACTTACAT
22041806 AA--TACAT
1 AACTTACAT
* *
22041813 AGCCTACAT
1 AACTTACAT
*
22041822 AACTTAGAT
1 AACTTACAT
22041831 AACTTACAT
1 AACTTACAT
*
22041840 AA--TACAC
1 AACTTACAT
*
22041847 CACTTACAT
1 AACTTACAT
* *
22041856 AAATAAC-T
1 AACTTACAT
** *
22041864 TGCATA-AT
1 AACTTACAT
22041872 AACTTACAT
1 AACTTACAT
*
22041881 AA--TACAC
1 AACTTACAT
*
22041888 CACTTACAT
1 AACTTACAT
*
22041897 AACTTAAAT
1 AACTTACAT
22041906 AACTTACAT
1 AACTTACAT
22041915 AA--TACAT
1 AACTTACAT
22041922 AACTTACAT
1 AACTTACAT
22041931 AACTTACAT
1 AACTTACAT
22041940 AA--TACAT
1 AACTTACAT
* *
22041947 TACCTACAT
1 AACTTACAT
22041956 AACTTAC--
1 AACTTACAT
*
22041963 -ACTATACAC
1 AACT-TACAT
22041972 AACTTACAT
1 AACTTACAT
22041981 AAC
1 AAC
22041984 ATAATTAATA
Statistics
Matches: 154, Mismatches: 33, Indels: 40
0.68 0.15 0.18
Matches are distributed among these distances:
6 3 0.02
7 31 0.20
8 8 0.05
9 102 0.66
10 3 0.02
11 5 0.03
12 2 0.01
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:22041842 original size:34 final size:33
Alignment explanation
Indices: 22041797--22041963 Score: 121
Period size: 34 Copynumber: 5.0 Consensus size: 33
22041787 ACAATATAAC
* *
22041797 AACTTAGATAATACATAGCCTACATAACTTAGAT
1 AACTTACATAATACATA-CCTACATAACTTACAT
* * *
22041831 AACTTACATAATAC--ACC-AC-TTACATAAAT
1 AACTTACATAATACATACCTACATAACTTACAT
* * *
22041860 AACTTGCATAATAACTTACATA-ATACACCACTTACAT
1 AACTTACATAAT-ACATACCTACAT--A--ACTTACAT
* *
22041897 AACTTAAATAACTTACATA-ATACATAACTTACAT
1 AACTTACATAA--TACATACCTACATAACTTACAT
22041931 AACTTACATAATACATTACCTACATAACTTACA
1 AACTTACATAATACA-TACCTACATAACTTACA
22041964 CTATACACAA
Statistics
Matches: 105, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
29 18 0.17
30 4 0.04
31 2 0.02
32 7 0.07
33 4 0.04
34 44 0.42
36 1 0.01
37 18 0.17
38 6 0.06
39 1 0.01
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (33 bp):
AACTTACATAATACATACCTACATAACTTACAT
Found at i:22041845 original size:25 final size:25
Alignment explanation
Indices: 22041817--22041983 Score: 153
Period size: 25 Copynumber: 6.7 Consensus size: 25
22041807 ATACATAGCC
*
22041817 TACATAACTTAGATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
** * * * *
22041842 TACACCACTTACATAAATAACTTGCA
1 TACATAACTTACATAACTTACAT-AA
* *
22041868 TA-ATAACTTACATAA--TACACCACT
1 TACATAACTTACATAACTTACA-TA-A
*
22041892 TACATAACTTAAATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
22041917 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
* *
22041942 TACATTACCTACATAACTTACACT-A
1 TACATAACTTACATAACTTACA-TAA
*
22041967 TACACAACTTACATAAC
1 TACATAACTTACATAAC
22041984 ATAATTAATA
Statistics
Matches: 112, Mismatches: 23, Indels: 14
0.75 0.15 0.09
Matches are distributed among these distances:
23 2 0.02
24 2 0.02
25 99 0.88
26 5 0.04
27 4 0.04
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:22041853 original size:16 final size:14
Alignment explanation
Indices: 22041831--22041932 Score: 66
Period size: 16 Copynumber: 6.8 Consensus size: 14
22041821 TAACTTAGAT
22041831 AACTTACATAATAC
1 AACTTACATAATAC
*
22041845 ACCACTTACATAA-AT
1 A--ACTTACATAATAC
*
22041860 AACTTGCATAAT--
1 AACTTACATAATAC
22041872 AACTTACATAATAC
1 AACTTACATAATAC
*
22041886 ACCACTTACATAACTTAAAT
1 A--ACTTACATAA--T--AC
22041906 AACTTACATAATAC
1 AACTTACATAATAC
22041920 ATAACTTACATAA
1 --AACTTACATAA
22041933 CTTACATAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
12 11 0.16
13 9 0.13
14 3 0.04
15 2 0.03
16 32 0.46
18 11 0.16
20 2 0.03
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.29
Consensus pattern (14 bp):
AACTTACATAATAC
Found at i:22041874 original size:12 final size:12
Alignment explanation
Indices: 22041829--22041963 Score: 75
Period size: 12 Copynumber: 10.8 Consensus size: 12
22041819 CATAACTTAG
22041829 ATAACTTACATA
1 ATAACTTACATA
22041841 ATACACCACTTACATAA
1 AT--A--ACTTACAT-A
*
22041858 ATAACTTGCATA
1 ATAACTTACATA
22041870 ATAACTTACATA
1 ATAACTTACATA
* *
22041882 ATACAC-CACTTA
1 ATA-ACTTACATA
22041894 CATAACTT--A-A
1 -ATAACTTACATA
22041904 ATAACTTACATA
1 ATAACTTACATA
* *
22041916 AT-ACATAACTTA
1 ATAAC-TTACATA
22041928 CATAACTTACATA
1 -ATAACTTACATA
*
22041941 AT-ACATTACCTA
1 ATAAC-TTACATA
22041953 CATAACTTACA
1 -ATAACTTACA
22041964 CTATACACAA
Statistics
Matches: 94, Mismatches: 12, Indels: 33
0.68 0.09 0.24
Matches are distributed among these distances:
9 7 0.07
10 1 0.01
11 5 0.05
12 39 0.41
13 25 0.27
14 5 0.05
15 1 0.01
16 8 0.09
17 3 0.03
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:22041876 original size:41 final size:38
Alignment explanation
Indices: 22041820--22041932 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 38
22041810 CATAGCCTAC
*
22041820 ATAACTTAGATAACTTACATAATACACCACTTACATAA
1 ATAACTTAAATAACTTACATAATACACCACTTACATAA
22041858 ATAACTTGCATAATAACTTACATAATACACCACTTAC----
1 ATAACTT--A-AATAACTTACATAATACACCACTTACATAA
**
22041895 ATAACTTAAATAACTTACATAATACATAACTTACATAA
1 ATAACTTAAATAACTTACATAATACACCACTTACATAA
22041933 CTTACATAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
34 24 0.37
35 1 0.02
37 7 0.11
38 7 0.11
40 1 0.02
41 25 0.38
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (38 bp):
ATAACTTAAATAACTTACATAATACACCACTTACATAA
Found at i:22041883 original size:75 final size:75
Alignment explanation
Indices: 22041792--22041932 Score: 203
Period size: 75 Copynumber: 1.9 Consensus size: 75
22041782 ACATAACAAT
* * * *
22041792 ATAACAACTTAGATAATACA-TAGCCTACATAACTTAGATAACTTACATAATACACCACTTACAT
1 ATAACAACTTACATAATACACCA-CCTACATAACTTAAATAACTTACATAATACACAACTTACAT
22041856 AAATAACTTGC
65 AAATAACTTGC
* * *
22041867 ATAATAACTTACATAATACACCACTTACATAACTTAAATAACTTACATAATACATAACTTACATA
1 ATAACAACTTACATAATACACCACCTACATAACTTAAATAACTTACATAATACACAACTTACATA
22041932 A
66 A
22041933 CTTACATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
75 57 0.98
76 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.29
Consensus pattern (75 bp):
ATAACAACTTACATAATACACCACCTACATAACTTAAATAACTTACATAATACACAACTTACATA
AATAACTTGC
Found at i:22041955 original size:75 final size:75
Alignment explanation
Indices: 22041817--22041957 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
22041807 ATACATAGCC
* * * * *
22041817 TACATAACTTAGATAACTTACATAATACACCACTTACATAAATAACTTGCATAATAACTTACATA
1 TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATAATAACCTACATA
22041882 ATACACCACT
66 ATACACCACT
* * * *
22041892 TACATAACTTAAATAACTTACATAATACATAACTTACATAACTTACAT-AATACATTACCTACAT
1 TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATA-ATAACCTACAT
22041956 AA
65 AA
22041958 CTTACACTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 3 0.05
75 53 0.95
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.30
Consensus pattern (75 bp):
TACATAACTTAAATAACTTACATAATACACAACTTACATAAATAACATGAATAATAACCTACATA
ATACACCACT
Found at i:22041986 original size:30 final size:29
Alignment explanation
Indices: 22041860--22042056 Score: 112
Period size: 30 Copynumber: 6.8 Consensus size: 29
22041850 TTACATAAAT
* *
22041860 AACTTGCATA-ATAACTTACATAATACAC
1 AACTTACATACATAACTTACATTATACAC
* * *
22041888 CACTTACATAACTTAAATAACTTACATAATACAT
1 AACTTACAT-AC----ATAACTTACATTATACAC
*
22041922 AAC-T---TACATAACTTACA-TA-ATAC
1 AACTTACATACATAACTTACATTATACAC
* *
22041945 -A-TTACCTACATAACTTACACTATACAC
1 AACTTACATACATAACTTACATTATACAC
*
22041972 AACTTACATAACATAA-TTAATATTATACAC
1 AACTTACAT-ACATAACTT-ACATTATACAC
*
22042002 AACTTACAGCCTATATAACTTACATTATACAC
1 AACTTACA---TACATAACTTACATTATACAC
*
22042034 AACTTA-ATTACATAATTTA-ATTA
1 AACTTACA-TACATAACTTACATTA
22042057 AAACTTTACA
Statistics
Matches: 133, Mismatches: 16, Indels: 40
0.70 0.08 0.21
Matches are distributed among these distances:
22 2 0.02
23 2 0.02
24 1 0.01
25 23 0.17
26 2 0.02
27 3 0.02
28 12 0.09
29 19 0.14
30 24 0.18
31 1 0.01
32 21 0.16
33 4 0.03
34 19 0.14
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (29 bp):
AACTTACATACATAACTTACATTATACAC
Found at i:22042086 original size:66 final size:62
Alignment explanation
Indices: 22041951--22042110 Score: 164
Period size: 66 Copynumber: 2.5 Consensus size: 62
22041941 ATACATTACC
* **
22041951 TACATAACTTACACTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGCC
1 TACATAACTTACATTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGAA
* * *
22042013 TATATAACTTACATTATACACAACTTA-ATTACATAATTTAATTAAAACTT-TACATAACTTACA
1 TACATAACTTACATTATACACAACTTACATAACATAA-TTAA-T---A-TTATACACAACTTACA
*
22042076 TAA
60 GAA
*
22042079 TACATAACTTTA-ATAATACACAACTTACATAA
1 TACATAAC-TTACATTATACACAACTTACATAA
22042111 TTACATTGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
61 8 0.10
62 29 0.36
63 1 0.01
66 34 0.43
67 8 0.10
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (62 bp):
TACATAACTTACATTATACACAACTTACATAACATAATTAATATTATACACAACTTACAGAA
Found at i:22044004 original size:66 final size:66
Alignment explanation
Indices: 22043864--22044009 Score: 188
Period size: 66 Copynumber: 2.2 Consensus size: 66
22043854 AGCCAGCATC
* *
22043864 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAG
1 GAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAA
22043929 T
66 T
* * * *
22043930 GAGAGAAGTTGAGGTTCAAAGGAAG-TATGAAGAACTCCAGCTGCAGCTTAAAGTAGCAT-CAGC
1 GAGAGAAGTTGAGGTTCAAA-AAAGATATGAAGAACTCCAGCTACAACTTAAAGTAG-ATGCACC
22043993 AAT
64 AAT
* *
22043996 GAGGGAAGTAGAGG
1 GAGAGAAGTTGAGG
22044010 CAGTAGCGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
66 65 0.93
67 5 0.07
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (66 bp):
GAGAGAAGTTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGTAGATGCACCAA
T
Found at i:22044515 original size:150 final size:150
Alignment explanation
Indices: 22044243--22044531 Score: 533
Period size: 150 Copynumber: 1.9 Consensus size: 150
22044233 TAGATTATTG
*
22044243 CTTTCGGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGAAAA
1 CTTTCAGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGAAAA
*
22044308 AATTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGTTAAAAGTCACGG
66 AATTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCACGG
22044373 CCTTTAGCGAAAGTCATGGC
131 CCTTTAGCGAAAGTCATGGC
*
22044393 CTTTCAGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGGAAA
1 CTTTCAGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGAAAA
* *
22044458 ATTTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCATGG
66 AATTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCACGG
22044523 CCTTTAGCG
131 CCTTTAGCG
22044532 GTGTTTTTGG
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 134 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (150 bp):
CTTTCAGTTGGTTTAGATTTGGTTTCTTTTGATTTGTTGTTACAGGAGGGCTGAAAATATGAAAA
AATTTCTTTTACAAATCTGCCAAAATTAGTGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTCACGG
CCTTTAGCGAAAGTCATGGC
Found at i:22044589 original size:45 final size:43
Alignment explanation
Indices: 22044500--22044753 Score: 312
Period size: 43 Copynumber: 5.9 Consensus size: 43
22044490 CGTTTTTTAA
* * * * * *
22044500 AAAAGTGCCGCTAAAAGTCATGGCCTTTAGCGGTGTTTTTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
* * *
22044543 AAAAGCGCCACTAAAGGTCATGGTATATATAGCGGTGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGG--TCTATAGCGGCGTTTGTGGG
* * *
22044588 AAAAGCGCTGCTAAAGGTCAAGGTCTATAGCGGCGATTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
*
22044631 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
*
22044674 AAAAGCACCGCTAAAGGTCATGGTCTATAGCGGCGTTTGT-GG
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
* * ** *
22044716 AGAAGCGCCTCTAAAGGTCATGACCTTTAGCGGCGTTT
1 AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTT
22044754 ATTTCTAAAA
Statistics
Matches: 184, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
42 33 0.18
43 115 0.62
45 36 0.20
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTATAGCGGCGTTTGTGGG
Found at i:22046071 original size:17 final size:17
Alignment explanation
Indices: 22046013--22046073 Score: 50
Period size: 19 Copynumber: 3.3 Consensus size: 17
22046003 GCTCTCCTAC
*
22046013 TATATTAAATAATGTTATA
1 TATATT-AATAGT-TTATA
* *
22046032 TCATATCATATAGTATATAA
1 T-ATATTA-ATAGTTTAT-A
22046052 TATATTAATAGTTTATA
1 TATATTAATAGTTTATA
22046069 TATAT
1 TATAT
22046074 GTATCAATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 10 0.29
20 10 0.29
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (17 bp):
TATATTAATAGTTTATA
Found at i:22046376 original size:232 final size:233
Alignment explanation
Indices: 22045934--22046376 Score: 611
Period size: 232 Copynumber: 1.9 Consensus size: 233
22045924 ATATTATTGT
* * * * *
22045934 TTATTATTATATATTATATTGGTTGAAATATGTTATAAATCCCTATATTTTTCATATATTTGAAA
1 TTATTATTATATATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAAA
*
22045999 GTTAGCTCTCCTACTATATTAAATAATGTTATATCATATCATATAGTATATAATATATTAATAGT
66 GTTAGCCCTCCTACTATATTAAATAATGTTATATCATATC----A--ATATAATATATTAATAGT
* ** * * *
22046064 TTATATATATGTATCAATGATTAAACATTATAATATCATGTAATATTATATAATTTATTATAATC
125 TTACATATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAATA
22046129 TATATTATAATAATAGTACATTATATATTACTTATTATCATATA
190 TATATTATAATAATAGTACATTATATATTACTTATTATCATATA
* * * *
22046173 TTATTATT-TATTATTATACTAGTTGAAATATGATCTAATTCTCTATACTTTTCGTACATTTGAA
1 TTATTATTATA-TATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAA
* * *
22046237 AGTTAGCCCTCCTATTATATTATATAATGTTGTATCATATC-ATATAATATATTAATAGTTTACA
65 AGTTAGCCCTCCTACTATATTAAATAATGTTATATCATATCAATATAATATATTAATAGTTTACA
* **
22046301 TATATACATCAATGATTAAATATTATAATATCATGTAATACTATATCTTTTATGATAATATATAT
130 TATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAATATATAT
22046366 TATAATAATAG
195 TATAATAATAG
22046377 GTATATATGT
Statistics
Matches: 181, Mismatches: 22, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
232 90 0.50
238 2 0.01
239 89 0.49
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (233 bp):
TTATTATTATATATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAAA
GTTAGCCCTCCTACTATATTAAATAATGTTATATCATATCAATATAATATATTAATAGTTTACAT
ATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAATATATATT
ATAATAATAGTACATTATATATTACTTATTATCATATA
Found at i:22046425 original size:239 final size:234
Alignment explanation
Indices: 22045934--22046426 Score: 589
Period size: 232 Copynumber: 2.1 Consensus size: 234
22045924 ATATTATTGT
* * * * * *
22045934 TTATTATTATA-TATTATATTGGTTGAAATATGTTATAAATCCCTATATTTTTCATATATTTGAA
1 TTATTATTTTATTATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAA
*
22045998 AGTTAGCTCTCCTACTATATTAAATAATGTTATATCATATCATATAGTATATAATATATTAATAG
66 AGTTAGCCCTCCTACTATATTAAATAATGTTATATCATATC----A--ATATAATATATTAATAG
* ** * *
22046063 TTTATATATATGTATCAATGATTAAACATTATAATATCATGTAATATTATATAATTTATTATAAT
125 TTTACATATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAAT
* * *
22046128 CTATATTATAATAATAGTACATTATATATTACTTATTATCATATA
190 ATATATTATAATAATAGTACATTATATATTAATTATTATAATATA
* * * *
22046173 TTATTA-TTTATTATTATACTAGTTGAAATATGATCTAATTCTCTATACTTTTCGTACATTTGAA
1 TTATTATTTTATTATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAA
* * *
22046237 AGTTAGCCCTCCTATTATATTATATAATGTTGTATCATATC-ATATAATATATTAATAGTTTACA
66 AGTTAGCCCTCCTACTATATTAAATAATGTTATATCATATCAATATAATATATTAATAGTTTACA
* **
22046301 TATATACATCAATGATTAAATATTATAATATCATGTAATACTATATCTTTTATGATAATATATAT
131 TATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAATATATAT
* * *
22046366 TATAATAATAGGTATA-TATGTATTAATATTTTTAGTAATATTTA
196 TATAATAATA-GTACATTATATATT-A-ATTATTA-TAATA--TA
22046410 TATATTATTTTATTATT
1 T-TATTATTTTATTATT
22046427 TTATGTATTA
Statistics
Matches: 217, Mismatches: 28, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
232 96 0.44
233 5 0.02
234 5 0.02
235 4 0.02
237 3 0.01
238 8 0.04
239 96 0.44
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (234 bp):
TTATTATTTTATTATTATACTAGTTGAAATATGATATAAATCCCTATACTTTTCATACATTTGAA
AGTTAGCCCTCCTACTATATTAAATAATGTTATATCATATCAATATAATATATTAATAGTTTACA
TATATACATCAATGATTAAACATTATAATATCATGTAATACTATATAATTTATGATAATATATAT
TATAATAATAGTACATTATATATTAATTATTATAATATA
Found at i:22053727 original size:17 final size:17
Alignment explanation
Indices: 22053702--22053738 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22053692 AATTTAAAAT
*
22053702 AACTATTATTCAAGAAC
1 AACTATTATCCAAGAAC
*
22053719 AACTGTTATCCAAGAAC
1 AACTATTATCCAAGAAC
22053736 AAC
1 AAC
22053739 CATCGTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (17 bp):
AACTATTATCCAAGAAC
Done.