Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 114 of 144
Found at i:35428258 original size:32 final size:32
Alignment explanation
Indices: 35428190--35428329 Score: 133
Period size: 32 Copynumber: 4.4 Consensus size: 32
35428180 GAATGGCTAC
* * * *
35428190 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* *
35428221 AAACCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * *
35428253 CAA-CCATCAGCAACAGTGAAATGACCGGCACA
1 -AAGCCATCAGTAACAGTGATATGATCGGCACA
* * *
35428285 AAGCCATCAATAACGGT-ACTATGATCGACACA
1 AAGCCATCAGTAACAGTGA-TATGATCGGCACA
35428317 AAGCCATCAGTAA
1 AAGCCATCAGTAA
35428330 GTTCACAGCA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
31 12 0.14
32 74 0.84
33 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTGATATGATCGGCACA
Found at i:35428503 original size:24 final size:23
Alignment explanation
Indices: 35428476--35428557 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 23
35428466 CCATGCTTAG
* *
35428476 AATCAGTCATTCAAATCATAGACA
1 AATCAATCATTCAAA-CACAGACA
*
35428500 AATCAATCATACCAAACACAGACA
1 AATCAATCAT-TCAAACACAGACA
* *
35428524 AATCAATCATTTAACCACAGACA
1 AATCAATCATTCAAACACAGACA
*
35428547 AAACAATCATT
1 AATCAATCATT
35428558 TGACCTCGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 20 0.40
24 26 0.52
25 4 0.08
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (23 bp):
AATCAATCATTCAAACACAGACA
Found at i:35428635 original size:27 final size:26
Alignment explanation
Indices: 35428593--35428803 Score: 131
Period size: 27 Copynumber: 7.8 Consensus size: 26
35428583 TTTACACACC
* *
35428593 AGGGCATTACGGTCATTTTACCTTACA
1 AGGGTATTAC-GTCATTTTACCCTACA
*
35428620 GGGGTATTACAGTCATTTTACCCTACA
1 AGGGTATTAC-GTCATTTTACCCTACA
* *
35428647 AGGGCATTACAGTCATTTTACCCTATA
1 AGGGTATTAC-GTCATTTTACCCTACA
* **
35428674 AGGGTACTACGATCATTTTACCCTATG
1 AGGGTATTACG-TCATTTTACCCTACA
* * * * *
35428701 GGGGTATTTCGAT-ATTCTACCTTACG
1 AGGGTATTACG-TCATTTTACCCTACA
* * * *
35428727 GGGGTATTTCGATCATTTTACCTTATA
1 AGGGTATTACG-TCATTTTACCCTACA
* *
35428754 AGGGCATTTTA-GTCATTTTACCC-ATCG
1 AGGG--TATTACGTCATTTTACCCTA-CA
*
35428781 AGGGTATTTCGATCATTTTACCC
1 AGGGTATTACG-TCATTTTACCC
35428804 ATCGATGCTA
Statistics
Matches: 150, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.02
26 26 0.17
27 117 0.78
28 1 0.01
29 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (26 bp):
AGGGTATTACGTCATTTTACCCTACA
Found at i:35428662 original size:54 final size:54
Alignment explanation
Indices: 35428593--35428803 Score: 189
Period size: 54 Copynumber: 3.9 Consensus size: 54
35428583 TTTACACACC
* *
35428593 AGGGCATTACGGTCATTTTACCTTACAGGGGTATTAC-AGTCATTTTACCCTACA
1 AGGGCATTACAGTCATTTTACCTTACAGGGGTATTACGA-TCATTTTACCCTATA
* * * * *
35428647 AGGGCATTACAGTCATTTTACCCTATAAGGGTACTACGATCATTTTACCCTATG
1 AGGGCATTACAGTCATTTTACCTTACAGGGGTATTACGATCATTTTACCCTATA
* * * * * * *
35428701 GGGGTATTTC-GAT-ATTCTACCTTACGGGGGTATTTCGATCATTTTACCTTATA
1 AGGGCATTACAG-TCATTTTACCTTACAGGGGTATTACGATCATTTTACCCTATA
** * *
35428754 AGGGCATTTTAGTCATTTTACC-CATC-GAGGGTATTTCGATCATTTTACCC
1 AGGGCATTACAGTCATTTTACCTTA-CAG-GGGTATTACGATCATTTTACCC
35428804 ATCGATGCTA
Statistics
Matches: 126, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
53 42 0.33
54 83 0.66
55 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
AGGGCATTACAGTCATTTTACCTTACAGGGGTATTACGATCATTTTACCCTATA
Found at i:35428729 original size:26 final size:27
Alignment explanation
Indices: 35428683--35428751 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 27
35428673 AAGGGTACTA
* * *
35428683 CGATCATTTTACCCTATGGGGGTATTT
1 CGATCATTCTACCTTACGGGGGTATTT
35428710 CGAT-ATTCTACCTTACGGGGGTATTT
1 CGATCATTCTACCTTACGGGGGTATTT
*
35428736 CGATCATTTTACCTTA
1 CGATCATTCTACCTTA
35428752 TAAGGGCATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 23 0.62
27 14 0.38
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
CGATCATTCTACCTTACGGGGGTATTT
Found at i:35428747 original size:107 final size:107
Alignment explanation
Indices: 35428611--35428803 Score: 273
Period size: 107 Copynumber: 1.8 Consensus size: 107
35428601 ACGGTCATTT
35428611 TACCTTACAGGGGTATTACAGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCTAT-AA
1 TACCTTACAGGGGTATTACAGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCC-ATCAA
35428675 GGGTACTACGATCATTTTACCCTATGGGGGTATTTCGATATTC
65 GGGTACTACGATCATTTTACCCTATGGGGGTATTTCGATATTC
* * * * ** *
35428718 TACCTTACGGGGGTATTTC-GATCATTTTACCTTATAAGGGCATTTTAGTCATTTTACCCATCGA
1 TACCTTACAGGGGTATTACAG-TCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCATCAA
* *
35428782 GGGTATTTCGATCATTTTACCC
65 GGGTACTACGATCATTTTACCC
35428804 ATCGATGCTA
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
106 3 0.04
107 72 0.96
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (107 bp):
TACCTTACAGGGGTATTACAGTCATTTTACCCTACAAGGGCATTACAGTCATTTTACCCATCAAG
GGTACTACGATCATTTTACCCTATGGGGGTATTTCGATATTC
Found at i:35440366 original size:20 final size:20
Alignment explanation
Indices: 35440343--35440383 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35440333 TGTTTTTACT
*
35440343 TAATCTTTCATGTATTTTTA
1 TAATCTTTCATATATTTTTA
* *
35440363 TAATTTTTTATATATTTTTA
1 TAATCTTTCATATATTTTTA
35440383 T
1 T
35440384 TGAAAATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TAATCTTTCATATATTTTTA
Found at i:35441354 original size:15 final size:15
Alignment explanation
Indices: 35441334--35441367 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35441324 AAATTAAAAA
35441334 TAAATTAAGA-TAAAT
1 TAAATTAA-ACTAAAT
35441349 TAAATTAAACTAAAT
1 TAAATTAAACTAAAT
35441364 TAAA
1 TAAA
35441368 AGTAATTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 1 0.06
15 17 0.94
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (15 bp):
TAAATTAAACTAAAT
Found at i:35443660 original size:40 final size:40
Alignment explanation
Indices: 35443583--35443695 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 40
35443573 GGTAAAGCAG
* *
35443583 TAGCGGCGTTTATGAT--AAACACCACAAAAGGTAAGTAA
1 TAGCGGCGTTTATGATAAAAACGCCACAAAAGGTTAGTAA
*
35443621 TAGCGGTGTTTATGATAAAAACGCCACAAAAGGTTAGTAA
1 TAGCGGCGTTTATGATAAAAACGCCACAAAAGGTTAGTAA
* * * *
35443661 TAGCTGCGTTTGTGGTAAAAACGCCGCAAAAGGTT
1 TAGCGGCGTTTATGATAAAAACGCCACAAAAGGTT
35443696 TTTTAACTGA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
38 15 0.23
40 50 0.77
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (40 bp):
TAGCGGCGTTTATGATAAAAACGCCACAAAAGGTTAGTAA
Found at i:35443800 original size:48 final size:48
Alignment explanation
Indices: 35443747--35443893 Score: 192
Period size: 48 Copynumber: 3.0 Consensus size: 48
35443737 AGACGAGTTA
* *
35443747 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCTAAAATCAT-TTCCC
1 TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCCAAAATC-TCGTCCC
* *
35443795 TTTTCTTT-TCTAGACTTTTCTTTCCTTGAAACCCCAAAATCTCGTCCC
1 TTTTCTTTCTC-AGTCTTTTCTTTGCTTGAAACCCCAAAATCTCGTCCC
*
35443843 TTTTCTTTCTCAGTCTTTT-TGTTGCTTGAAAACCCCAAAATCCCGTCCC
1 TTTTCTTTCTCAGTCTTTTCT-TTGCTTG-AAACCCCAAAATCTCGTCCC
35443892 TT
1 TT
35443894 GTGCTTTTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
47 4 0.05
48 60 0.69
49 23 0.26
ACGTcount: A:0.18, C:0.29, G:0.07, T:0.45
Consensus pattern (48 bp):
TTTTCTTTCTCAGTCTTTTCTTTGCTTGAAACCCCAAAATCTCGTCCC
Found at i:35444166 original size:8 final size:9
Alignment explanation
Indices: 35444149--35444174 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35444139 TTAGTTCTTC
35444149 TAATTTTTT
1 TAATTTTTT
35444158 TAATTTTTT
1 TAATTTTTT
35444167 TAATTTTT
1 TAATTTTT
35444175 ACCTACCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TAATTTTTT
Found at i:35446156 original size:13 final size:14
Alignment explanation
Indices: 35446138--35446166 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35446128 CATTAAATTG
35446138 TTATTAAT-AATGT
1 TTATTAATCAATGT
35446151 TTATTAATCAATGT
1 TTATTAATCAATGT
35446165 TT
1 TT
35446167 TAATTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATTAATCAATGT
Found at i:35447918 original size:13 final size:13
Alignment explanation
Indices: 35447902--35447927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35447892 ACTTAAAGGG
35447902 TTAAAATTTAAAA
1 TTAAAATTTAAAA
35447915 TTAAAATTTAAAA
1 TTAAAATTTAAAA
35447928 ATGATAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAATTTAAAA
Found at i:35447993 original size:9 final size:9
Alignment explanation
Indices: 35447979--35448077 Score: 78
Period size: 9 Copynumber: 11.0 Consensus size: 9
35447969 AACTTTGGAT
*
35447979 CATAACTTG
1 CATAACTTA
35447988 CATAACTTA
1 CATAACTTA
35447997 CATAACTTA
1 CATAACTTA
*
35448006 CATAA-ATA
1 CATAACTTA
* *
35448014 TAT-ATTATA
1 CATAACT-TA
35448023 TCATAACTTA
1 -CATAACTTA
35448033 CATAACTTA
1 CATAACTTA
*
35448042 CATAA-ATA
1 CATAACTTA
* * *
35448050 TATATCATA
1 CATAACTTA
35448059 TCATAACTTA
1 -CATAACTTA
35448069 CATAACTTA
1 CATAACTTA
35448078 TAAATAAACA
Statistics
Matches: 72, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
7 1 0.01
8 9 0.12
9 50 0.69
10 10 0.14
11 2 0.03
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:35448035 original size:36 final size:36
Alignment explanation
Indices: 35447988--35448077 Score: 171
Period size: 36 Copynumber: 2.5 Consensus size: 36
35447978 TCATAACTTG
*
35447988 CATAACTTACATAACTTACATAAATATATATTATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
35448024 CATAACTTACATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACTTACATAAATATATATCATAT
35448060 CATAACTTACATAACTTA
1 CATAACTTACATAACTTA
35448078 TAAATAAACA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (36 bp):
CATAACTTACATAACTTACATAAATATATATCATAT
Found at i:35452170 original size:19 final size:19
Alignment explanation
Indices: 35452146--35452194 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
35452136 TCAAGGATAT
*
35452146 GCAATCTTAGATATGAGAC
1 GCAATCTTAGATAAGAGAC
* *
35452165 GCAATCTTAGATAAGATAT
1 GCAATCTTAGATAAGAGAC
35452184 GCAATCTTAGA
1 GCAATCTTAGA
35452195 AGATAAGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (19 bp):
GCAATCTTAGATAAGAGAC
Found at i:35452201 original size:22 final size:23
Alignment explanation
Indices: 35452173--35452217 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
35452163 ACGCAATCTT
35452173 AGATAAGA-TATGCAATCTTAGA
1 AGATAAGATTATGCAATCTTAGA
* *
35452195 AGATAAGATTTTGTAATCTTAGA
1 AGATAAGATTATGCAATCTTAGA
35452218 GATTTAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (23 bp):
AGATAAGATTATGCAATCTTAGA
Found at i:35453177 original size:24 final size:23
Alignment explanation
Indices: 35453058--35453290 Score: 116
Period size: 24 Copynumber: 10.3 Consensus size: 23
35453048 TATTGTATAT
* **
35453058 TATTATTTTACATTTATCATCTTT
1 TATTATTTTAAATTTATCAT-TAA
* *
35453082 TATTATTTGT-AATTTATCAATAT
1 TATTATTT-TAAATTTATCATTAA
* **
35453105 TATTATTTTAAATTCATTGTTAA
1 TATTATTTTAAATTTATCATTAA
*
35453128 CATTATTTTAAATTTATCATGT-A
1 TATTATTTTAAATTTATCAT-TAA
*
35453151 TATCTATTTCAAATTTATCATTAA
1 TAT-TATTTTAAATTTATCATTAA
*
35453175 TA-T-TTTTAAATTTATTA-T-A
1 TATTATTTTAAATTTATCATTAA
**
35453194 TA-TATTTTGGATTTATCACTT-A
1 TATTATTTTAAATTTATCA-TTAA
* *
35453216 TGATTATTCTAGAA-TTATCATCAA
1 T-ATTATTTTA-AATTTATCATTAA
* *
35453240 -AAT-TTTTAAATTTCAT-ATGTAT
1 TATTATTTTAAATTT-ATCAT-TAA
* *
35453262 TATTATTTCAAATTTATTA-T-A
1 TATTATTTTAAATTTATCATTAA
35453283 TATTATTT
1 TATTATTT
35453291 ATTGTAAATT
Statistics
Matches: 161, Mismatches: 30, Indels: 39
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.02
20 14 0.09
21 28 0.17
22 11 0.07
23 44 0.27
24 58 0.36
25 2 0.01
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (23 bp):
TATTATTTTAAATTTATCATTAA
Found at i:35453198 original size:21 final size:20
Alignment explanation
Indices: 35453133--35453201 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 20
35453123 GTTAACATTA
35453133 TTTTAAATTTATCATGTATAT
1 TTTTAAATTTATCAT-TATAT
35453154 CTATTTCAAATTTATCATTAATAT
1 -T-TTT-AAATTTATCATT-ATAT
*
35453178 TTTTAAATTTATTATATATAT
1 TTTTAAATTTATCAT-TATAT
35453199 TTT
1 TTT
35453202 GGATTTATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 17 0.40
22 5 0.12
23 5 0.12
24 15 0.36
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTAAATTTATCATTATAT
Found at i:35453271 original size:17 final size:18
Alignment explanation
Indices: 35453249--35453286 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
35453239 AAATTTTTAA
*
35453249 ATTTCATATGTATTAT-T
1 ATTTCAAATGTATTATAT
*
35453266 ATTTCAAATTTATTATAT
1 ATTTCAAATGTATTATAT
35453284 ATT
1 ATT
35453287 ATTTATTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTCAAATGTATTATAT
Found at i:35455190 original size:44 final size:44
Alignment explanation
Indices: 35455138--35455576 Score: 259
Period size: 44 Copynumber: 9.7 Consensus size: 44
35455128 TCATTATTTT
*
35455138 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTC
* ** *
35455182 AATTTGCTCCACTGCAACTTCAAAGAGATAAGATT-GTTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAACTTC
* * *
35455226 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTT--TGA-TAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACT-TC
* * * * * *
35455267 GATCTGCTCTATTGCAACTTCAGAGAGATAATATCTGTAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTA-A-CTTC
* * * * *
35455318 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-AGTAACTTC
* * * *
35455363 AGTCTGCACCACTGCAACTTTAGGGAGATAAGACTTGCTATGGTAGA-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T--TA--GTA-ACTTC
* * * * * *** *
35455413 AATCTAAC-CTACTGCAACCTCAGAGG-TATAGGATTCA-TTGTTTT
1 AATCT-GCTCCACTGCAACTTCAG-GGAGATAAGATT-AGTAACTTC
* * *
35455457 AATTCT-CTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTC
1 AA-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTC
* * *
35455501 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTC
* *
35455545 AACCTGCTCCACTACAACTTCAGGGAGATAAG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG
35455577 GTTTGCTATA
Statistics
Matches: 304, Mismatches: 62, Indels: 58
0.72 0.15 0.14
Matches are distributed among these distances:
41 27 0.09
42 2 0.01
43 9 0.03
44 162 0.53
45 36 0.12
46 1 0.00
47 4 0.01
48 5 0.02
49 3 0.01
50 26 0.09
51 29 0.10
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTC
Found at i:35456476 original size:11 final size:11
Alignment explanation
Indices: 35456462--35456507 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
35456452 AGCCTCTCCT
35456462 TTTTATTTTTC
1 TTTTATTTTTC
*
35456473 TTTTATTTGT-
1 TTTTATTTTTC
*
35456483 TTTTCTTTTTC
1 TTTTATTTTTC
*
35456494 TTTT-CTTTTC
1 TTTTATTTTTC
35456504 TTTT
1 TTTT
35456508 TTTCTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:35456519 original size:20 final size:20
Alignment explanation
Indices: 35456494--35456537 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
35456484 TTTCTTTTTC
*
35456494 TTTTCTTTTCTTTTTTTCTT
1 TTTTCTTTTCATTTTTTCTT
35456514 TTTTCTTTTCATTTTTTCTT
1 TTTTCTTTTCATTTTTTCTT
35456534 TTTT
1 TTTT
35456538 AAAAAAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTCATTTTTTCTT
Found at i:35456530 original size:8 final size:7
Alignment explanation
Indices: 35456467--35456537 Score: 58
Period size: 7 Copynumber: 9.7 Consensus size: 7
35456457 CTCCTTTTTA
35456467 TTTTTCT
1 TTTTTCT
35456474 TTTATT-T
1 TTT-TTCT
35456481 GTTTTTCT
1 -TTTTTCT
*
35456489 TTTTCTTT
1 TTTT-TCT
35456497 TCTTTTCTT
1 T-TTTTC-T
35456506 TTTTTCT
1 TTTTTCT
35456513 TTTTTC-
1 TTTTTCT
35456519 -TTTTCAT
1 TTTTTC-T
35456526 TTTTTCT
1 TTTTTCT
35456533 TTTTT
1 TTTTT
35456538 AAAAAAAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 18
0.73 0.03 0.25
Matches are distributed among these distances:
5 5 0.09
7 23 0.43
8 20 0.38
9 5 0.09
ACGTcount: A:0.03, C:0.13, G:0.01, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:35456535 original size:5 final size:5
Alignment explanation
Indices: 35456468--35456528 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
35456458 TCCTTTTTAT
* *
35456468 TTTTC TTTTA TTTGT- TTTTC TTTTTC TTTTC TTTTC TTTT- TTTCTT
1 TTTTC TTTTC TTT-TC TTTTC -TTTTC TTTTC TTTTC TTTTC TTT-TC
35456514 TTTTC TTTTC ATTTT
1 TTTTC TTTTC -TTTT
35456529 TTCTTTTTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.08
5 31 0.65
6 13 0.27
ACGTcount: A:0.03, C:0.13, G:0.02, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:35462073 original size:51 final size:50
Alignment explanation
Indices: 35461949--35462083 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
35461939 AAGTTGCTAG
* * *
35461949 GTCACGTGTGTAGTACTATGTCCAGGCTACTACGTGTACCGGAATGATAA
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAA
* * * **
35461999 GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGG-ATAGCTTC
1 GTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAAT-GATAA
35462049 GATCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 G-TCACGTGTGTAGTACTATGTGCAGGCTACTATG
35462084 TGAACTGGGT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 2 0.03
50 40 0.55
51 31 0.42
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAATGATAA
Found at i:35469235 original size:37 final size:36
Alignment explanation
Indices: 35469154--35469241 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
35469144 TACATATTTC
*
35469154 TTTTGTTGGATTTGAAGTATCATTTAGTTAGCAGTT
1 TTTTGTTGGATTTGAAGTATAATTTAGTTAGCAGTT
* * *
35469190 TTTGGTTGGATTTGAAGTATAATTTATTTTTGCAGTT
1 TTTTGTTGGATTTGAAGTATAATTTA-GTTAGCAGTT
35469227 TTTTGTTGGATTTGA
1 TTTTGTTGGATTTGA
35469242 TGTTACAGGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 24 0.52
37 22 0.48
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.53
Consensus pattern (36 bp):
TTTTGTTGGATTTGAAGTATAATTTAGTTAGCAGTT
Found at i:35470071 original size:41 final size:41
Alignment explanation
Indices: 35470014--35470096 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
35470004 TGAAGGTGTT
35470014 TGGCAGTTTCTGCATGGTCCAGGTGTGATGATTGTTGAGTG
1 TGGCAGTTTCTGCATGGTCCAGGTGTGATGATTGTTGAGTG
35470055 TGGCAGTTTCTGCATGGTCCAGGTGTGATGATTGTTGAGTG
1 TGGCAGTTTCTGCATGGTCCAGGTGTGATGATTGTTGAGTG
35470096 T
1 T
35470097 TGCATCGTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.37
Consensus pattern (41 bp):
TGGCAGTTTCTGCATGGTCCAGGTGTGATGATTGTTGAGTG
Found at i:35477111 original size:22 final size:22
Alignment explanation
Indices: 35477084--35477126 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
35477074 AATTCACCAA
35477084 TCATTTAACATACTCGAAACAG
1 TCATTTAACATACTCGAAACAG
35477106 TCATTTAACATACTCGAAACA
1 TCATTTAACATACTCGAAACA
35477127 CGATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (22 bp):
TCATTTAACATACTCGAAACAG
Found at i:35480029 original size:36 final size:37
Alignment explanation
Indices: 35479959--35480030 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
35479949 CAATCCTTCA
35479959 TTAGGAACTCTCCATAGCGATCATTCACTTAGGACAG
1 TTAGGAACTCTCCATAGCGATCATTCACTTAGGACAG
*
35479996 TTAGGAAC-CATCCATAGCGA-CCTTCACTTAGGACA
1 TTAGGAACTC-TCCATAGCGATCATTCACTTAGGACA
35480031 ACCTACATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 15 0.45
37 18 0.55
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (37 bp):
TTAGGAACTCTCCATAGCGATCATTCACTTAGGACAG
Found at i:35483857 original size:10 final size:10
Alignment explanation
Indices: 35483842--35483867 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
35483832 ATTATCTAAT
35483842 AATATTATAA
1 AATATTATAA
35483852 AATATTATAA
1 AATATTATAA
35483862 AATATT
1 AATATT
35483868 TATTAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATTATAA
Found at i:35485509 original size:61 final size:58
Alignment explanation
Indices: 35485402--35485513 Score: 170
Period size: 61 Copynumber: 1.9 Consensus size: 58
35485392 ATCACTTTAA
* * *
35485402 TATTATATTAATATAATACTTAACAAGATAAATATTAGATTAAATTTAATAATAAATC
1 TATTAAATTAATAGAATACTTAACAAGATAAATATTAAATTAAATTTAATAATAAATC
35485460 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTAAATTTAATA
1 TATTAAATTAATAGAATACTTA---ACAAGATAAATATTAAATTAAATTTAATA
35485514 TTACAATAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
58 20 0.42
61 28 0.58
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTAACAAGATAAATATTAAATTAAATTTAATAATAAATC
Found at i:35485601 original size:68 final size:71
Alignment explanation
Indices: 35485460--35485604 Score: 179
Period size: 68 Copynumber: 2.1 Consensus size: 71
35485450 ATAATAAATC
* * *
35485460 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTAAATTTAATATTACAATAACC
1 TATTAAATTAATAAAATACTTATCTA-AAGATAAATATTAAATTAAATTTAATATTAAAACAACC
***
35485525 ACTTTAA
65 AAAATAA
* **
35485532 TATTAAATTAATAAAATAC-TAT-T-GAGATAAATATTAAATTAAATTTAATATTAAAACAATTA
1 TATTAAATTAATAAAATACTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAAACAACCA
35485594 AAATAA
66 AAATAA
35485600 TATTA
1 TATTA
35485605 TTTTTGGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
68 42 0.66
70 1 0.02
71 3 0.05
72 18 0.28
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTAAATTAATAAAATACTTATCTAAAGATAAATATTAAATTAAATTTAATATTAAAACAACCA
AAATAA
Found at i:35485805 original size:15 final size:15
Alignment explanation
Indices: 35485785--35485815 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35485775 GGCACCTCGA
35485785 GTCGGTTCAACTATT
1 GTCGGTTCAACTATT
35485800 GTCGGTTCAACTATT
1 GTCGGTTCAACTATT
35485815 G
1 G
35485816 CTGGCACCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (15 bp):
GTCGGTTCAACTATT
Found at i:35486032 original size:65 final size:65
Alignment explanation
Indices: 35485951--35486100 Score: 282
Period size: 65 Copynumber: 2.3 Consensus size: 65
35485941 GTCTGACTTG
*
35485951 AAAATTAATTTTCAAAAATATCATATTAATTTAAATTAATTTGATTAATTTAATTTTACTTAATC
1 AAAATTAATTTCCAAAAATATCATATTAATTTAAATTAATTTGATTAATTTAATTTTACTTAATC
35486016 AAAATTAATTTCCAAAAATATCATATTAATTTAAATTAATTTGATTAATTTAATTTTACTTAATC
1 AAAATTAATTTCCAAAAATATCATATTAATTTAAATTAATTTGATTAATTTAATTTTACTTAATC
35486081 AAAATTAATTTCCCAAAAAT
1 AAAATTAATTT-CCAAAAAT
35486101 CACATAGATT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
65 75 0.90
66 8 0.10
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (65 bp):
AAAATTAATTTCCAAAAATATCATATTAATTTAAATTAATTTGATTAATTTAATTTTACTTAATC
Found at i:35487447 original size:21 final size:23
Alignment explanation
Indices: 35487422--35487466 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
35487412 TAATTTGTTT
35487422 ATTTATAT-TAAATGAA-ATTTA
1 ATTTATATCTAAATGAATATTTA
* *
35487443 ATTTATTTCTAATTGAATATTTA
1 ATTTATATCTAAATGAATATTTA
35487466 A
1 A
35487467 AATCTTCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 7 0.35
23 6 0.30
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTTATATCTAAATGAATATTTA
Found at i:35487770 original size:16 final size:15
Alignment explanation
Indices: 35487713--35487779 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
35487703 TAGTGATTAT
*
35487713 GGTTTAAGGGTT-GG
1 GGTTAAAGGGTTAGG
* * *
35487727 GATTTAAGGTTTAGG
1 GGTTAAAGGGTTAGG
35487742 GGTTAAAGGGTTAGG
1 GGTTAAAGGGTTAGG
* *
35487757 GGTTAGACGTGTTAGG
1 GGTTA-AAGGGTTAGG
35487773 GGTTAAA
1 GGTTAAA
35487780 AGTTAGGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
14 10 0.23
15 20 0.47
16 13 0.30
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (15 bp):
GGTTAAAGGGTTAGG
Found at i:35488254 original size:21 final size:21
Alignment explanation
Indices: 35488229--35488301 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
35488219 TAGTGATTAT
35488229 GGTTTAAGGGTTGGGATTTAA
1 GGTTTAAGGGTTGGGATTTAA
* * *
35488250 GGTTTAGGGGTT-AGATGTTAG
1 GGTTTAAGGGTTGGGAT-TTAA
*
35488271 GGTTTAAGAGTTAGGGATTTAA
1 GGTTTAAGGGTT-GGGATTTAA
35488293 GGTTTAAGG
1 GGTTTAAGG
35488302 ATTCAGGGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 3 0.07
21 24 0.59
22 11 0.27
23 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.37
Consensus pattern (21 bp):
GGTTTAAGGGTTGGGATTTAA
Found at i:35490146 original size:12 final size:12
Alignment explanation
Indices: 35490125--35490163 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
35490115 TTTTGCTTAA
*
35490125 ACTGGATTGTAG
1 ACTGGTTTGTAG
35490137 ACTGGTTTGTAG
1 ACTGGTTTGTAG
35490149 ACTGGTTTGTAG
1 ACTGGTTTGTAG
35490161 ACT
1 ACT
35490164 CTTTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.21, C:0.10, G:0.31, T:0.38
Consensus pattern (12 bp):
ACTGGTTTGTAG
Found at i:35490851 original size:10 final size:10
Alignment explanation
Indices: 35490836--35490866 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
35490826 TGTGGTGGAC
*
35490836 TTGCTTGACT
1 TTGCTTAACT
35490846 TTGCTTAACT
1 TTGCTTAACT
35490856 TTGCTTAACT
1 TTGCTTAACT
35490866 T
1 T
35490867 ACATTATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.19, G:0.13, T:0.52
Consensus pattern (10 bp):
TTGCTTAACT
Found at i:35492814 original size:43 final size:43
Alignment explanation
Indices: 35492733--35492984 Score: 384
Period size: 43 Copynumber: 5.9 Consensus size: 43
35492723 GCGTTTTCAC
* **
35492733 AAAAGCGCCGCTAAAGGT-TT-ATTCTATAGCGGCGTTTGTATG
1 AAAAGCGCCGCTAAAGGTCTTGGTTCT-TAGCGGCGTTTGTGGG
* *
35492775 AAAAGTGCCACTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
*
35492818 AAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
*
35492861 AAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
*
35492904 AAAAGCGCCGCTAAAGGTCTTGGTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
*
35492947 AAAAGCGCCGCTAAAGGTCTTGG-TCTTTAGCAGCGTTT
1 AAAAGCGCCGCTAAAGGTCTTGGTTC-TTAGCGGCGTTT
35492985 ATTTATAAAA
Statistics
Matches: 197, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
42 17 0.09
43 176 0.89
44 4 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCTTGGTTCTTAGCGGCGTTTGTGGG
Found at i:35495795 original size:50 final size:50
Alignment explanation
Indices: 35495737--35495837 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
35495727 ATAGATTCAA
*
35495737 TATTATGCCAATGAAATCTCAAATTAAATTCCATGAAGTATTTAACATTT
1 TATTATGCCAATGAAATCTCAAATTAAATTCCATGAAATATTTAACATTT
*
35495787 TATTATGCCAATGAAATCTCAAATTAAATTTCATGAAATATTTAACATTT
1 TATTATGCCAATGAAATCTCAAATTAAATTCCATGAAATATTTAACATTT
35495837 T
1 T
35495838 CACATTTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.40
Consensus pattern (50 bp):
TATTATGCCAATGAAATCTCAAATTAAATTCCATGAAATATTTAACATTT
Found at i:35498300 original size:88 final size:88
Alignment explanation
Indices: 35498202--35498375 Score: 208
Period size: 88 Copynumber: 2.0 Consensus size: 88
35498192 TAATAATTTG
* * * *
35498202 ATAATCTGTTTCAGGATTTAATCCT-GTCGTTTAACAAATTTTATT-CTATTCTAATTTTGTTTC
1 ATAATCTGTTTCAGGATTTAAT-CTAGCCGTTCAACAAATTTTATTCCT-TTCTAATATTATTTC
35498265 CAAATGAGAAATAATTGAATAATGA
64 CAAATGAGAAATAATTGAATAATGA
* ** * * * * *
35498290 ATAATTTGTTTTGGGATTTAGTCTAGCCGTTCGACAGATTTTATTCCTTTTTGATATTATTTCCA
1 ATAATCTGTTTCAGGATTTAATCTAGCCGTTCAACAAATTTTATTCCTTTCTAATATTATTTCCA
35498355 AATGAGAAATAATTGAATAAT
66 AATGAGAAATAATTGAATAAT
35498376 CTGTTTCGAG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
87 2 0.03
88 68 0.94
89 2 0.03
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (88 bp):
ATAATCTGTTTCAGGATTTAATCTAGCCGTTCAACAAATTTTATTCCTTTCTAATATTATTTCCA
AATGAGAAATAATTGAATAATGA
Found at i:35498423 original size:81 final size:82
Alignment explanation
Indices: 35498282--35498506 Score: 242
Period size: 81 Copynumber: 2.8 Consensus size: 82
35498272 GAAATAATTG
* * * * ** ** ***
35498282 AATAA-TGAATAATTTGTTTTGGGATTTAGTCTAGCCGTTCGACAGATTTTATTCCTTTTTGATA
1 AATAATTGAATAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATA
35498346 TTATTTCCAAATG-AGA
66 TTATTTCCAAATGAAGA
*
35498362 AATAATTGAATAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATT
1 AATAATTGAATAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATA
35498427 TTATTTCCAAATGAAGA
66 TTATTTCCAAATGAAGA
* * * * *
35498444 ATTAATTAAATAATTCTGTTTC-AGGATTTATT-CCGTCATTTAACAAATTTTATTTTGATTTTG
1 AATAATTGAATAA-TCTGTTTCGA-GATTTATTCCCGCCGTTTAACAGATTTTA-TTTGATTTTG
35498507 TTTCGAAACA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
80 5 0.04
81 60 0.49
82 32 0.26
83 26 0.21
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.46
Consensus pattern (82 bp):
AATAATTGAATAATCTGTTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTTGATTTTGATA
TTATTTCCAAATGAAGA
Found at i:35498496 original size:82 final size:82
Alignment explanation
Indices: 35498338--35498506 Score: 236
Period size: 82 Copynumber: 2.1 Consensus size: 82
35498328 TTTTATTCCT
* *
35498338 TTTTGATATTATTTCCAAATGAGAAATAATTGAATAATCTGTTTCGAGATTTATTCCCGCCGTTT
1 TTTTGATATTATTTCCAAATGAGAAATAATTAAATAATCTGTTTCGAGATTTATTCCCGCCATTT
*
35498403 AACAGATTTTA-TTTGA
66 AACAAATTTTATTTTGA
* * *
35498419 TTTTGATTTTATTTCCAAATGAAGAATTAATTAAATAATTCTGTTTC-AGGATTTATT-CCGTCA
1 TTTTGATATTATTTCCAAATG-AGAAATAATTAAATAA-TCTGTTTCGA-GATTTATTCCCGCCA
35498482 TTTAACAAATTTTATTTTGA
63 TTTAACAAATTTTATTTTGA
35498502 TTTTG
1 TTTTG
35498507 TTTCGAAACA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
81 20 0.26
82 32 0.41
83 26 0.33
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (82 bp):
TTTTGATATTATTTCCAAATGAGAAATAATTAAATAATCTGTTTCGAGATTTATTCCCGCCATTT
AACAAATTTTATTTTGA
Found at i:35501346 original size:20 final size:20
Alignment explanation
Indices: 35501321--35501373 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
35501311 ATATATCCTG
*
35501321 ATTTTATTTGATTCCAATCA
1 ATTTTATTTGATTCCAATAA
35501341 ATTTTATTTGATTCCAATAA
1 ATTTTATTTGATTCCAATAA
*
35501361 ATTTGATTTGATT
1 ATTTTATTTGATT
35501374 TTAATCCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (20 bp):
ATTTTATTTGATTCCAATAA
Found at i:35502743 original size:26 final size:26
Alignment explanation
Indices: 35502714--35502766 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35502704 TAGGGTTTGT
35502714 ACTGGTCTCGTGCATATAATTGTTTA
1 ACTGGTCTCGTGCATATAATTGTTTA
35502740 ACTGGTCTCGTGCATATAATTGTTTA
1 ACTGGTCTCGTGCATATAATTGTTTA
35502766 A
1 A
35502767 GTATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (26 bp):
ACTGGTCTCGTGCATATAATTGTTTA
Found at i:35508829 original size:17 final size:17
Alignment explanation
Indices: 35508807--35508845 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
35508797 TCAGGGATGA
35508807 ACCTCGCCAAGTT-ATCT
1 ACCTCGCCAA-TTCATCT
35508824 ACCTCGCCAATTCATCT
1 ACCTCGCCAATTCATCT
35508841 ACCTC
1 ACCTC
35508846 TCCATTGCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.23, C:0.41, G:0.08, T:0.28
Consensus pattern (17 bp):
ACCTCGCCAATTCATCT
Found at i:35509563 original size:13 final size:13
Alignment explanation
Indices: 35509525--35509572 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
35509515 GGAGATCGCA
35509525 AAAACATAGCTTAT
1 AAAACATA-CTTAT
35509539 AAAACTATACTTAT
1 AAAAC-ATACTTAT
*
35509553 AAAACATACTT-G
1 AAAACATACTTAT
35509565 AAAACATA
1 AAAACATA
35509573 GGCTCGCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 8 0.25
13 6 0.19
14 15 0.47
15 3 0.09
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (13 bp):
AAAACATACTTAT
Found at i:35518656 original size:24 final size:24
Alignment explanation
Indices: 35518619--35518664 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
35518609 TTGTAAATAA
35518619 GAAATATATCTTCAGA-AATTTCT
1 GAAATATATCTTCAGAGAATTTCT
*
35518642 GAAATAATTTCTTCAGAGAATTT
1 GAAAT-ATATCTTCAGAGAATTT
35518665 TCTCTCTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 10 0.50
25 5 0.25
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (24 bp):
GAAATATATCTTCAGAGAATTTCT
Found at i:35518828 original size:20 final size:20
Alignment explanation
Indices: 35518757--35518828 Score: 58
Period size: 20 Copynumber: 3.5 Consensus size: 20
35518747 TTCAACTATG
*
35518757 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTATT
***
35518778 ATTAAATTAAT-AGAATATTT
1 ATTAAATTAATCACTTTA-TT
*
35518798 ATCAAGA-TAATCACTTTATT
1 ATTAA-ATTAATCACTTTATT
35518818 ATTAAATTAAT
1 ATTAAATTAAT
35518829 AAAATACTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
19 4 0.11
20 24 0.63
21 10 0.26
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (20 bp):
ATTAAATTAATCACTTTATT
Found at i:35519208 original size:20 final size:20
Alignment explanation
Indices: 35519157--35519210 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
35519147 CCAAGCCCAG
35519157 TTGGA-CCAATTTTTGGGTC
1 TTGGACCCAATTTTTGGGTC
* * * * *
35519176 TCGGTCTCGATTTTTGGTTC
1 TTGGACCCAATTTTTGGGTC
35519196 TTGGACCCAATTTTT
1 TTGGACCCAATTTTT
35519211 TATTTTAGGT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (20 bp):
TTGGACCCAATTTTTGGGTC
Found at i:35523567 original size:66 final size:66
Alignment explanation
Indices: 35523444--35523568 Score: 155
Period size: 66 Copynumber: 1.9 Consensus size: 66
35523434 TATTGAAATG
* **
35523444 TGAGAAATTGATTTGTACTATTTGTTGAGCATTACTCATCTACTGTGAGTTTTGATTGATAGGAA
1 TGAGAAATTGATTTGTACTATTTGTTGAGCATTACTCATCTACTGTGAGCTGCGATTGATAGGAA
35523509 A
66 A
* * **
35523510 TGAGAAATTGATTTGTAGTA-TTGTTTGAGCATTACTTA-CTTGTTGTGAGCTGCGATTGA
1 TGAGAAATTGATTTGTACTATTTG-TTGAGCATTACTCATC-TACTGTGAGCTGCGATTGA
35523569 CAAGAACTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
65 4 0.08
66 46 0.92
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (66 bp):
TGAGAAATTGATTTGTACTATTTGTTGAGCATTACTCATCTACTGTGAGCTGCGATTGATAGGAA
A
Found at i:35526879 original size:37 final size:37
Alignment explanation
Indices: 35526825--35526939 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
35526815 AACCAACCAA
* *
35526825 AACATGCCAAACACTCATGAGAGATAATCCAATCGAT
1 AACATGCCAAACGCTCATGAGAGCTAATCCAATCGAT
* *
35526862 AACATGCCAAATGCTCATGAGAGCTAATCCAACCGAT
1 AACATGCCAAACGCTCATGAGAGCTAATCCAATCGAT
* * * *
35526899 AACACGCCAAACGCTAAAGAGAGCTAATCCAATTGAT
1 AACATGCCAAACGCTCATGAGAGCTAATCCAATCGAT
35526936 AACA
1 AACA
35526940 CACCTCGACA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (37 bp):
AACATGCCAAACGCTCATGAGAGCTAATCCAATCGAT
Found at i:35534677 original size:15 final size:16
Alignment explanation
Indices: 35534657--35534689 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35534647 GATTTCTAGG
*
35534657 TTAAATTTTATTT-TA
1 TTAAATGTTATTTCTA
35534672 TTAAATGTTATTTCTA
1 TTAAATGTTATTTCTA
35534688 TT
1 TT
35534690 TTTTAATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TTAAATGTTATTTCTA
Found at i:35536518 original size:28 final size:28
Alignment explanation
Indices: 35536487--35536546 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
35536477 ATCTACGACC
35536487 ATACAAAGCTTCGTATGGTGCCATATTT
1 ATACAAAGCTTCGTATGGTGCCATATTT
* ** *
35536515 ATACAAATCTTTTTATGGTGCCATCTTT
1 ATACAAAGCTTCGTATGGTGCCATATTT
35536543 ATAC
1 ATAC
35536547 TTGACTGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (28 bp):
ATACAAAGCTTCGTATGGTGCCATATTT
Found at i:35540741 original size:24 final size:24
Alignment explanation
Indices: 35540706--35540754 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
35540696 TAATTATGTT
35540706 AATGTAGGGCACGAGTTACATTGC
1 AATGTAGGGCACGAGTTACATTGC
* *
35540730 AATGTAGTGCACGAGTTGCATTGC
1 AATGTAGGGCACGAGTTACATTGC
35540754 A
1 A
35540755 TGGTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (24 bp):
AATGTAGGGCACGAGTTACATTGC
Found at i:35544858 original size:21 final size:21
Alignment explanation
Indices: 35544834--35544873 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35544824 TATGGCTGCG
*
35544834 TTTGATTTTGGTGTGGATGCA
1 TTTGACTTTGGTGTGGATGCA
* *
35544855 TTTGGCTTTGTTGTGGATG
1 TTTGACTTTGGTGTGGATG
35544874 TATCTGAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.10, C:0.05, G:0.35, T:0.50
Consensus pattern (21 bp):
TTTGACTTTGGTGTGGATGCA
Found at i:35555814 original size:21 final size:21
Alignment explanation
Indices: 35555762--35555816 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
35555752 TTTTTAGATC
* * *
35555762 ATCTTCGGCTATACCATAGAA
1 ATCTTCAGCTGTACCACAGAA
35555783 ATCTTCAGCTGTACCACAGAA
1 ATCTTCAGCTGTACCACAGAA
35555804 ATCTTCAGCTGTA
1 ATCTTCAGCTGTA
35555817 TATTTTTAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (21 bp):
ATCTTCAGCTGTACCACAGAA
Found at i:35559125 original size:21 final size:21
Alignment explanation
Indices: 35559085--35559125 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35559075 ACACCAAAAC
* *
35559085 AGGCTTTTAGCGGTGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35559106 AGGCCTTTAGCGGCG-TTTTT
1 AGGCCTTTAGCGGCGCTTTTT
35559126 CAGCGCCGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.17, G:0.29, T:0.44
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGCTTTTT
Found at i:35559232 original size:43 final size:43
Alignment explanation
Indices: 35559184--35559359 Score: 113
Period size: 43 Copynumber: 4.1 Consensus size: 43
35559174 GCGTCGCTAA
* * * *
35559184 CTTTAGCGGCATTTTTAGAAAAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCACTATTACAAAAAACACCGCTAAAGACCAAGAC
* * * * *
35559227 CTTTAGCGGCGCTATTACCACAAACACCGCTAAAGGCCATGAC
1 CTTTAGCGGCACTATTACAAAAAACACCGCTAAAGACCAAGAC
* * * * * ** * **
35559270 CTTTAGCGGCGCT-TTCACCACAAACGCCACTAAAGGTCATGGT
1 CTTTAGCGGCACTATT-ACAAAAAACACCGCTAAAGACCAAGAC
* * * *
35559313 CTTTAGCGGCACT-TTCACCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCACTATT-ACAAAAAACACCGCTAAAGACCAAGAC
35559356 CTTT
1 CTTT
35559360 TGTGGCGTTT
Statistics
Matches: 112, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 2 0.02
43 110 0.98
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCACTATTACAAAAAACACCGCTAAAGACCAAGAC
Found at i:35559333 original size:86 final size:86
Alignment explanation
Indices: 35559227--35559470 Score: 296
Period size: 87 Copynumber: 2.8 Consensus size: 86
35559217 AGACCAAGAC
* * *
35559227 CTTTAGCGGCGCTATT-ACCACAAACACCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCACCAC
1 CTTTAGCGGCGCT-TTCACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTC-CCAC
35559291 AAACGCCACTAAAGGT-CATGGT
64 AAACGCCACTAAAGGTCCATGGT
* * *
35559313 CTTTAGCGGCACTTTCACCACAAACGCCGCTAAAGACCATGACCTTTTGTGGCGTTTTTCCCACA
1 CTTTAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCG-TTTTCCCACA
* **
35559378 AACACTGCTAAAGGTCCATGGT
65 AACGCCACTAAAGGTCCATGGT
* * * * *
35559400 CTTTAGCGGCGCTTGC-CAAACAAACGCCGCTAAAGACCCTGATCTTTAGCGGCATTTTTCCCAC
1 CTTTAGCGGCGCTTTCAC-CACAAACGCCGCTAAAGACCATGACCTTTAGCGGC-GTTTTCCCAC
35559464 AAACGCC
64 AAACGCC
35559471 GCAAAAGACC
Statistics
Matches: 134, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
85 2 0.01
86 64 0.48
87 68 0.51
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (86 bp):
CTTTAGCGGCGCTTTCACCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTCCCACAA
ACGCCACTAAAGGTCCATGGT
Found at i:35559377 original size:43 final size:42
Alignment explanation
Indices: 35559205--35559493 Score: 272
Period size: 43 Copynumber: 6.7 Consensus size: 42
35559195 TTTTTAGAAA
* *
35559205 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCT-TTCCCAC
* *
35559248 AAACACCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTC-CCAC
* ** ** *
35559291 AAACGCCACTAAAGGTCATGGTCTTTAGCGGCACTTTCACCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTC-CCAC
* * *
35559334 AAACGCCGCTAAAGACCATGACCTTTTGTGGCGTTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCG-CTTTCCCAC
* * * ** * *
35559377 AAACACTGCTAAAGGTCCATGGTCTTTAGCGGCGCTTGCCAAAC
1 AAACGCCGCTAAA-GACCATGACCTTTAGCGGCGCTTTCC-CAC
* * **
35559421 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCATTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGC-GCTTTCCCAC
* * *
35559464 AAACGCCGCAAAAGACCCTTACCTTTAGCG
1 AAACGCCGCTAAAGACCATGACCTTTAGCG
35559494 ACATTTTTTT
Statistics
Matches: 200, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
42 2 0.01
43 162 0.81
44 36 0.18
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTCCCAC
Found at i:35559501 original size:130 final size:129
Alignment explanation
Indices: 35559184--35559493 Score: 363
Period size: 130 Copynumber: 2.4 Consensus size: 129
35559174 GCGTCGCTAA
*** * * * *
35559184 CTTTAGCGGCATTTTTAGAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTATTACCACA
1 CTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTACCACA
* * ** *
35559249 AACACCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCACCACAAACGCCACTAAAGGTCATGGT
66 AACACCGCTAAAGGCCATGACCTTTAGCGGCGCTTCCACAACAAACGCCACTAAAGACCATGAT
* * * *
35559313 CTTTAGCGGCA-CTTTCACCACAAACGCCGCTAAAGACCATGACCTTTTGTGGCGTTTTTCCCAC
1 CTTTAGCGGCATTTTTC-CCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTACCAC
* ** * *
35559377 AAACACTGCTAAAGGTCCATGGTCTTTAGCGGCGCTTGCCA-AACAAACGCCGCTAAAGACCCTG
65 AAACACCGCTAAAGG-CCATGACCTTTAGCGGCGCTT-CCACAACAAACGCCACTAAAGACCATG
35559441 AT
128 AT
* * *
35559443 CTTTAGCGGCATTTTTCCCACAAACGCCGCAAAAGACCCTTACCTTTAGCG
1 CTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCG
35559494 ACATTTTTTT
Statistics
Matches: 150, Mismatches: 27, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
128 3 0.02
129 63 0.42
130 78 0.52
131 6 0.04
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (129 bp):
CTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGTTTTTACCACA
AACACCGCTAAAGGCCATGACCTTTAGCGGCGCTTCCACAACAAACGCCACTAAAGACCATGAT
Found at i:35559879 original size:21 final size:21
Alignment explanation
Indices: 35559837--35559880 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35559827 TTCTACGCTG
* * *
35559837 CTCTGCTTCCTTCGCTGTAGC
1 CTCTACTTCCCTCGCTGCAGC
*
35559858 CTCTACTTCCCTCGTTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
35559879 CT
1 CT
35559881 GTGCTTTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.41, G:0.16, T:0.36
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:35559970 original size:66 final size:66
Alignment explanation
Indices: 35559882--35560021 Score: 201
Period size: 66 Copynumber: 2.1 Consensus size: 66
35559872 TTGCAGCCTG
* *
35559882 TGCTTTAAGCTGTAGCTAGAGTTCTTCATA-CTTTCTTTGAGCCTCAGCTTCTCTCGCTGCTGCA
1 TGCTTTAAGCTGTAGCTAGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGCTGCA
35559946 TC
65 TC
* * * *
35559948 TGCTTTAAGTTTTAGCTCGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGCTGCCT
1 TGCTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGCTGCAT
35560013 C
66 C
*
35560014 CGCTTTAA
1 TGCTTTAA
35560022 TTTGTGTAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 62 0.94
67 4 0.06
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.41
Consensus pattern (66 bp):
TGCTTTAAGCTGTAGCTAGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGCTGCAT
C
Found at i:35563422 original size:120 final size:119
Alignment explanation
Indices: 35563283--35564002 Score: 603
Period size: 120 Copynumber: 6.0 Consensus size: 119
35563273 ATTATTAATC
* * * *
35563283 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
35563348 TTTTATTAAATTATATATATTT-TTTAAATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATAT-TTTAATTAAA-TATATTTAATAATAATTATGTTAAAT
* * *
35563403 TATATTTTATAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAG--
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAA
* * * * * *** * * * * ** ***
35563466 TTTTTTTCTAA-T-GATATGTGAAGTTTTTTTTTTTTTGAAACAAAAGAGAAT-TCCTATGG
66 TTTTATT-AAATTATATATTTTAA--TTAAATATATTT--AATAATA-ATTATGT--TAAAT
* * * ** * ** * * ** *
35563525 TACATTCTTATA-CATGATCCA-TAT--TCTTAAGTAAAAGCCTTTGTGAATTACATTAATGATT
1 TATATT-TTATAGTATCATATATTATGAT-TTGAGTAAATTCATATAAGAA-TA-TTTAAT-ATT
* * * * * * ** * *
35563586 ATG-CTTTTATT-CATAATATACCTGT--GGAAATATTTTTAATATTAATTAT-TTCAAAT
61 AAGAATTTTATTAAATTATATA-TTTTAATTAAATATATTTAATAATAATTATGTT-AAAT
* *
35563642 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAA
*
35563707 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTA-AATATATTTAATAATAATTATGTTAAAT
*
35563762 TATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTAATTATTAAGA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAA-TATTAAGA
* *
35563826 ATTTCATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAAT
65 ATTTTATTAAATTATATATTTTAATT-AAATATATTTAATAATAATTATGTT-AAAT
*
35563882 TATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA-TTAATTATTAAGA
1 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAA-TATTAAGA
35563946 ATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
65 ATTTTATTAAATTATATATTTTAATTA-AATATATTTAATAATAATTATG-TTAAAT
35564003 ATGATTAAAT
Statistics
Matches: 471, Mismatches: 94, Indels: 69
0.74 0.15 0.11
Matches are distributed among these distances:
116 12 0.03
117 27 0.06
118 28 0.06
119 29 0.06
120 315 0.67
121 21 0.04
122 20 0.04
123 10 0.02
124 9 0.02
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (119 bp):
TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTTAATATTAAGAA
TTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTAAAT
Found at i:35563745 original size:15 final size:15
Alignment explanation
Indices: 35563710--35563761 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
35563700 TTAAGAATTT
*
35563710 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35563724 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35563738 TATTTAATAATAAT-
1 TATTTAATTATAATA
35563752 TATGTTAATT
1 TAT-TTAATT
35563762 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35563980 original size:16 final size:16
Alignment explanation
Indices: 35563959--35564000 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35563949 TTATTAAATT
*
35563959 ATATATTTTAATTATA
1 ATATATTTTAATAATA
35563975 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
35563990 AT-TATGTTTAA
1 ATATAT-TTTAA
35564001 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:35563985 original size:15 final size:15
Alignment explanation
Indices: 35563950--35563991 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
35563940 TTAAGAATTT
*
35563950 TATTAAATTAT-ATA
1 TATTTAATTATAATA
35563964 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
35563978 TATTTAATAATAAT
1 TATTTAATTATAAT
35563992 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:35564096 original size:157 final size:156
Alignment explanation
Indices: 35563934--35564249 Score: 560
Period size: 157 Copynumber: 2.0 Consensus size: 156
35563924 ATAAGAATAT
* *
35563934 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
* *
35563999 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
35564064 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTA-CAAAACAAATTTATGC
35564091 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
35564156 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* *
35564221 TAATCATTTACTAAACAAATTTATGC
131 TAATAATTTACAAAACAAATTTATGC
35564247 TAA
1 TAA
35564250 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 17 0.11
157 135 0.89
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATAGATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACAAAACAAATTTATGC
Found at i:35564393 original size:16 final size:16
Alignment explanation
Indices: 35564372--35564423 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
35564362 GATTTGCTAT
35564372 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
35564388 TACACCTCCAATCCAA
1 TACACCTCTAATCCAA
35564404 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35564420 TACA
1 TACA
35564424 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35572835 original size:41 final size:41
Alignment explanation
Indices: 35572790--35572879 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 41
35572780 ATTATATAAG
* *
35572790 TTATGTAAGTTACATATTATGTAAGCTATGTAATTTGTATT
1 TTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTATA
* ** *
35572831 TTATGTTAGTTATTTATTATGTAAGCTATGTAAGTTGTGTA
1 TTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTATA
35572872 TTATGTAA
1 TTATGTAA
35572880 ACTATGTATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (41 bp):
TTATGTAAGTTACATATTATGTAAGCTATGTAAGTTGTATA
Found at i:35572860 original size:25 final size:25
Alignment explanation
Indices: 35572832--35572911 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
35572822 ATTTGTATTT
35572832 TATGTTAGTTATTTATTATGTAAGC
1 TATGTTAGTTATTTATTATGTAAGC
* * * *
35572857 TATGTAAGTTGTGTATTATGTAAAC
1 TATGTTAGTTATTTATTATGTAAGC
* *
35572882 TATG-TA-TTATGTTAGTTATGTCAGT
1 TATGTTAGTTAT-TTA-TTATGTAAGC
35572907 TATGT
1 TATGT
35572912 ATTATGTATG
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 36 0.86
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.50
Consensus pattern (25 bp):
TATGTTAGTTATTTATTATGTAAGC
Found at i:35572861 original size:66 final size:66
Alignment explanation
Indices: 35572774--35572919 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 66
35572764 GCCTGGAAAT
* * * *
35572774 TTATGTATTATATAAGTTATGTAAGTTACATATTATGTAAGCTATGTAATT-TG-TATTTTATGT
1 TTATGTATTATGTAAGCTATGTAAGTTACATATTATGTAAACTATGT-ATTATGTTA-GTTATGT
*
35572837 TAG
64 CAG
* ***
35572840 TTATTTATTATGTAAGCTATGTAAGTTGTGTATTATGTAAACTATGTATTATGTTAGTTATGTCA
1 TTATGTATTATGTAAGCTATGTAAGTTACATATTATGTAAACTATGTATTATGTTAGTTATGTCA
35572905 G
66 G
35572906 TTATGTATTATGTA
1 TTATGTATTATGTA
35572920 TGTTTTGTAA
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 3 0.04
66 63 0.93
67 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.50
Consensus pattern (66 bp):
TTATGTATTATGTAAGCTATGTAAGTTACATATTATGTAAACTATGTATTATGTTAGTTATGTCA
G
Found at i:35572878 original size:16 final size:16
Alignment explanation
Indices: 35572790--35572920 Score: 65
Period size: 16 Copynumber: 8.1 Consensus size: 16
35572780 ATTATATAAG
**
35572790 TTATGTAAGTTACATA
1 TTATGTAAGTTATGTA
*
35572806 TTATGTAAGCTATGTAA
1 TTATGTAAGTTATGT-A
**
35572823 TT-TGTATTTTATGTTA
1 TTATGTAAGTTATG-TA
*
35572839 GTTAT-TTA-TTATGTAA
1 -TTATGTAAGTTATGT-A
* *
35572855 GCTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
**
35572872 TTATGTAAACTATGTA
1 TTATGTAAGTTATGTA
*
35572888 TTATGTTAGTTATGTCA
1 TTATGTAAGTTATGT-A
35572905 GTTATGT-A-TTATGTA
1 -TTATGTAAGTTATGTA
35572920 T
1 T
35572921 GTTTTGTAAG
Statistics
Matches: 88, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
14 1 0.01
15 2 0.02
16 61 0.69
17 12 0.14
18 12 0.14
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:35572890 original size:41 final size:41
Alignment explanation
Indices: 35572804--35572919 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 41
35572794 GTAAGTTACA
* * * * ** *
35572804 TATTATGTAAGCTATGTAATTTGTATTTTATGTTAGTTATT
1 TATTATGTAAGCTATGTAAGTTGTGTATTATGTAAACTATG
35572845 TATTATGTAAGCTATGTAAGTTGTGTATTATGTAAACTATG
1 TATTATGTAAGCTATGTAAGTTGTGTATTATGTAAACTATG
* * * *
35572886 TATTATGTTAGTTATGTCAGTTATGTATTATGTA
1 TATTATGTAAGCTATGTAAGTTGTGTATTATGTA
35572920 TGTTTTGTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.51
Consensus pattern (41 bp):
TATTATGTAAGCTATGTAAGTTGTGTATTATGTAAACTATG
Found at i:35572998 original size:20 final size:21
Alignment explanation
Indices: 35572970--35573010 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35572960 GTTAGAAATT
35572970 TTATATTAAT-ATTATATAAG
1 TTATATTAATAATTATATAAG
*
35572990 TTATCTTAATAATTATATAAG
1 TTATATTAATAATTATATAAG
35573011 CTATGTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (21 bp):
TTATATTAATAATTATATAAG
Found at i:35573062 original size:25 final size:25
Alignment explanation
Indices: 35573002--35573067 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 25
35572992 ATCTTAATAA
* *
35573002 TTATATAAGCTATGTATTATGTTAG
1 TTATGTAAGTTATGTATTATGTTAG
**
35573027 TTATGCCAGTTATGTATTATG-TATG
1 TTATGTAAGTTATGTATTATGTTA-G
* *
35573052 TTTTGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
35573068 GAATGTCAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.26, C:0.05, G:0.20, T:0.50
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTTAG
Found at i:35573106 original size:20 final size:20
Alignment explanation
Indices: 35573081--35573541 Score: 168
Period size: 20 Copynumber: 22.8 Consensus size: 20
35573071 TGTCAGTTAC
*
35573081 TTATCTTAATATTACATAAG
1 TTATCTTAATATTATATAAG
35573101 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
35573122 TTAT-GT-A-ATTAGA-AA-
1 TTATCTTAATATTATATAAG
* *
35573137 TTGTCTTAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
35573157 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* *
35573177 TTATCTTAATTTTATGTAA-
1 TTATCTTAATATTATATAAG
** * * * * *
35573196 TTAGAAATTGATGTGTGGTTAGAAATT
1 TT--ATCTTAATAT-T--ATA-TAA-G
35573223 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* *
35573243 TTATCTTAATTTTATGTAA-
1 TTATCTTAATATTATATAAG
* * * * *
35573262 TTA-CAAATTGATGTGTGGTTAGAAATT
1 TTATC---TTAATAT-T--ATA-TAA-G
35573289 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
35573309 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
35573330 TTAT-GT-A-ATTAGA-AA-
1 TTATCTTAATATTATATAAG
* * *
35573345 TTGTCCTAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
35573365 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
* * *
35573385 TTATCTTAGTTTTATGTAA-
1 TTATCTTAATATTATATAAG
** * * * * *
35573404 TTAGAAATTGATGTGTGGTTAGAAATT
1 TT--ATCTTAATAT-T--ATA-TAA-G
35573431 TTATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
35573451 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
35573472 TTAT-GT-A-ATTAGA-AA-
1 TTATCTTAATATTATATAAG
* *
35573487 TTGTCTTAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
35573507 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
35573527 TTATCTTAATTTTAT
1 TTATCTTAATATTAT
35573542 GTAATTAGAA
Statistics
Matches: 318, Mismatches: 79, Indels: 88
0.66 0.16 0.18
Matches are distributed among these distances:
15 9 0.03
16 9 0.03
17 18 0.06
18 13 0.04
19 16 0.05
20 144 0.45
21 63 0.20
22 9 0.03
24 6 0.02
25 23 0.07
27 7 0.02
28 1 0.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:35573229 original size:66 final size:66
Alignment explanation
Indices: 35573159--35573318 Score: 311
Period size: 66 Copynumber: 2.4 Consensus size: 66
35573149 TATATAAGTA
*
35573159 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGTGTGGTTAGAAATTT
35573224 T
66 T
35573225 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGTGTGGTTAGAAATTT
35573290 T
66 T
35573291 ATCTTAATATTATATAAGTTATCTTAAT
1 ATCTTAATATTATATAAGTTATCTTAAT
35573319 AATTATATAA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 93 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (66 bp):
ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGTGTGGTTAGAAATTT
T
Found at i:35573312 original size:208 final size:208
Alignment explanation
Indices: 35573081--35573460 Score: 733
Period size: 208 Copynumber: 1.8 Consensus size: 208
35573071 TGTCAGTTAC
*
35573081 TTATCTTAATATTACATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAA
1 TTATCTTAATATTACATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
35573146 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
66 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
35573211 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGT
131 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGT
35573276 GTGGTTAGAAATT
196 GTGGTTAGAAATT
*
35573289 TTATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
1 TTATCTTAATATTACATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
*
35573354 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAGTTTTATGTAATTAGAAATTGATGTG
66 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
35573419 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAT
131 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAAT
35573461 AATTATATAA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 169 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (208 bp):
TTATCTTAATATTACATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGT
GTGGTTAGAAATT
Found at i:35573334 original size:142 final size:139
Alignment explanation
Indices: 35573225--35573596 Score: 645
Period size: 142 Copynumber: 2.6 Consensus size: 139
35573215 TAGAAATTTT
*
35573225 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
*
35573290 TATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAAT
66 TATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAAT
35573355 ACTATATAAGTA
131 A-TA-A-AAGTA
*
35573367 ATCTTAATATTATATAAGTTATCTTAGTTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
35573432 TATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAAT
66 TATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAAT
35573497 ACTATATAAGTA
131 A-TA-A-AAGTA
*
35573509 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTAGTTAGAAATTT
1 ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
*
35573574 TATCTTAATATTATAAAAGTTAT
66 TATCTTAATATTATATAAGTTAT
35573597 GAAGTGTCCT
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 224 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (139 bp):
ATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTGTGGTTAGAAATTT
TATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAAT
ATAAAAGTA
Found at i:35573555 original size:208 final size:205
Alignment explanation
Indices: 35573081--35573530 Score: 700
Period size: 208 Copynumber: 2.2 Consensus size: 205
35573071 TGTCAGTTAC
* * * *
35573081 TTATCTTAATATTACATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCTTAA
1 TTATCTTAATACTATATAAGTAATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
35573146 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
66 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
*
35573211 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTACAAATTGATGT
131 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAA-TTAATGTAATTACAAATTGA-GT
**
35573276 GTGGTTAGAAATT
194 GTAATTAGAAA-T
* *
35573289 TTATCTTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
1 TTATCTTAATACTATATAAGTAATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
*
35573354 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAGTTTTATGTAATTAGAAATTGATGTG
66 TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
* *
35573419 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAA-TAAT-T-A-TATAAGTT-A-TGT
131 TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTAATGTAATTACAAATTGAGTGT
35573478 AATTAGAAA-
196 AATTAGAAAT
*
35573487 TTGTCTTAATACTATATAAGTAATCTTAAT-ATTATATAAGTTAT
1 TTATCTTAATACTATATAAGTAATCTTAATAATTATATAAGTTAT
35573531 CTTAATTTTA
Statistics
Matches: 231, Mismatches: 11, Indels: 11
0.91 0.04 0.04
Matches are distributed among these distances:
197 14 0.06
198 27 0.12
200 10 0.04
202 1 0.00
203 6 0.03
204 1 0.00
205 1 0.00
206 3 0.01
208 168 0.73
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (205 bp):
TTATCTTAATACTATATAAGTAATCTTAATAATTATATAAGTTATGTAATTAGAAATTGTCCTAA
TACTATATAAGTAATCTTAATATTATATAAGTTATCTTAATTTTATGTAATTAGAAATTGATGTG
TGGTTAGAAATTTTATCTTAATATTATATAAGTTATCTTAATTAATGTAATTACAAATTGAGTGT
AATTAGAAAT
Found at i:35573876 original size:22 final size:21
Alignment explanation
Indices: 35573842--35573920 Score: 67
Period size: 22 Copynumber: 3.8 Consensus size: 21
35573832 GTTAATTTTA
* *
35573842 ACTTTAAAATAAATAAAAAAT
1 ACTTTGAATTAAATAAAAAAT
35573863 GACTTTGAATTAAAT--AAAAT
1 -ACTTTGAATTAAATAAAAAAT
*
35573883 A-TTT-AATTACATAAATGAAAT
1 ACTTTGAATTAAATAAA--AAAT
35573904 AACTTTGAATTAAATAA
1 -ACTTTGAATTAAATAA
35573921 CTTTGAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 7 0.15
18 3 0.07
19 2 0.04
20 5 0.11
21 4 0.09
22 13 0.28
23 3 0.07
24 9 0.20
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
ACTTTGAATTAAATAAAAAAT
Found at i:35573920 original size:15 final size:15
Alignment explanation
Indices: 35573900--35573930 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
35573890 TACATAAATG
35573900 AAATAACTTTGAATT
1 AAATAACTTTGAATT
35573915 AAATAACTTTGAATT
1 AAATAACTTTGAATT
35573930 A
1 A
35573931 TGTCGTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AAATAACTTTGAATT
Found at i:35576235 original size:15 final size:16
Alignment explanation
Indices: 35576205--35576240 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
35576195 ATTTTTTTAA
*
35576205 ATATTAATTTATATTT
1 ATATTAATTTACATTT
35576221 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
35576236 ATATT
1 ATATT
35576241 CTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:35576339 original size:16 final size:16
Alignment explanation
Indices: 35576318--35576350 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35576308 ATAAAATACA
35576318 ATTAATTGTATCTTTT
1 ATTAATTGTATCTTTT
35576334 ATTAATTGTATCTTTT
1 ATTAATTGTATCTTTT
35576350 A
1 A
35576351 ATTACTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTAATTGTATCTTTT
Found at i:35576470 original size:94 final size:94
Alignment explanation
Indices: 35576364--35576553 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
35576354 ACTAAGTATA
35576364 ATTAAAGTTTATCAATTCTTTTGACAATTTCAACACAATAATAATAAAAATTTATTAATTATTAA
1 ATTAAAGTTTATCAATTCTTTTGACAATTTCAACACAATAATAATAAAAATTTATTAATTATTAA
35576429 AACATTTGTACAATACTAAAAGTTTACTT
66 AACATTTGTACAATACTAAAAGTTTACTT
*
35576458 ATTAAAGTTTATCAATTCTTTTGACAATTTCAATACAATAATAATAAAAATTTATTAATTATTAA
1 ATTAAAGTTTATCAATTCTTTTGACAATTTCAACACAATAATAATAAAAATTTATTAATTATTAA
*
35576523 AACATTTGTACACTACTAAAAGTTTACTT
66 AACATTTGTACAATACTAAAAGTTTACTT
35576552 AT
1 AT
35576554 ATATACTTAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (94 bp):
ATTAAAGTTTATCAATTCTTTTGACAATTTCAACACAATAATAATAAAAATTTATTAATTATTAA
AACATTTGTACAATACTAAAAGTTTACTT
Found at i:35577136 original size:7 final size:7
Alignment explanation
Indices: 35577125--35577254 Score: 71
Period size: 7 Copynumber: 18.0 Consensus size: 7
35577115 AACACTAAAT
35577125 CCCTAAC
1 CCCTAAC
*
35577132 TCCTAAC
1 CCCTAAC
* *
35577139 TCCTAAAT
1 CCCT-AAC
*
35577147 CCCAAAC
1 CCCTAAC
*
35577154 CCCAAAC
1 CCCTAAC
35577161 CCCTAAC
1 CCCTAAC
*
35577168 CCTTAAC
1 CCCTAAC
*
35577175 CCCTAAAT
1 CCCT-AAC
35577183 CCCTAAC
1 CCCTAAC
*
35577190 ACCTAAC
1 CCCTAAC
35577197 CCCTAAAC
1 CCCT-AAC
** *
35577205 CAATAAA
1 CCCTAAC
*
35577212 CCTTAAAC
1 CCCT-AAC
*
35577220 TCCTAAC
1 CCCTAAC
***
35577227 TTTTAAC
1 CCCTAAC
*
35577234 CTCTAAC
1 CCCTAAC
35577241 CCCTAAC
1 CCCTAAC
35577248 CCCTAAC
1 CCCTAAC
35577255 GAATATTAAA
Statistics
Matches: 94, Mismatches: 25, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
7 75 0.80
8 19 0.20
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:35577165 original size:22 final size:22
Alignment explanation
Indices: 35577119--35577166 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
35577109 ACCCTAAACA
* * * *
35577119 CTAAATCCCTAACTCCTAACTC
1 CTAAATCCCAAACCCCAAACCC
35577141 CTAAATCCCAAACCCCAAACCC
1 CTAAATCCCAAACCCCAAACCC
35577163 CTAA
1 CTAA
35577167 CCCTTAACCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (22 bp):
CTAAATCCCAAACCCCAAACCC
Found at i:35577180 original size:36 final size:36
Alignment explanation
Indices: 35577114--35577202 Score: 108
Period size: 36 Copynumber: 2.5 Consensus size: 36
35577104 TTGACACCCT
* * *
35577114 AAACACTAAATCCCTAACTCCTAACTCCTAAATCCC
1 AAACACCAAACCCCTAACTCCTAACCCCTAAATCCC
*
35577150 AAACCCCAAACCCCTAAC-CCTTAACCCCTAAATCCC
1 AAACACCAAACCCCTAACTCC-TAACCCCTAAATCCC
* *
35577186 TAACACCTAACCCCTAA
1 AAACACCAAACCCCTAA
35577203 ACCAATAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.04
36 43 0.96
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (36 bp):
AAACACCAAACCCCTAACTCCTAACCCCTAAATCCC
Found at i:35577775 original size:41 final size:39
Alignment explanation
Indices: 35577726--35577914 Score: 189
Period size: 41 Copynumber: 4.6 Consensus size: 39
35577716 CTGCGGCGCT
35577726 TCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCAAA
1 TCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGC--A
* * * * *
35577767 TTTTCAAAAACACCGCTAAAGGCTCGAGCATTAGTGGCGC
1 TCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGC-A
* *
35577807 TCCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGTGGCG
1 T-CTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
* * * * *
35577847 TTTCTCTAAAAACACCGTTAAAGGACCGAGCTTTAGCGGCGCA
1 TCT-TC-AAAAACGCCGCTAAAGGCCCGAGCATTAGC-G-GCA
*
35577890 TCTTCAAAAATGCCGCTAAAGGCCC
1 TCTTCAAAAACGCCGCTAAAGGCCC
35577915 CAAAAAGTCA
Statistics
Matches: 121, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 4 0.03
41 109 0.90
42 3 0.02
43 4 0.03
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
TCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
Found at i:35577816 original size:82 final size:81
Alignment explanation
Indices: 35577718--35577914 Score: 265
Period size: 82 Copynumber: 2.4 Consensus size: 81
35577708 AAATGTTTCT
35577718 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCAAATTT-TC-AAAAACACC
1 GCGGCGC-TCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGC--ATTTCTCTAAAAACACC
35577781 GCTAAAGG-CTCGAGCATTA
63 GCTAAAGGAC-CGAGCATTA
* * * *
35577800 GTGGCGCTCCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGTGGCGTTTCTCTAAAAACACCGT
1 GCGGCGCT-CTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCATTTCTCTAAAAACACCGC
*
35577865 TAAAGGACCGAGCTTTA
65 TAAAGGACCGAGCATTA
*
35577882 GCGGCGCATCTTCAAAAATGCCGCTAAAGGCCC
1 GCGGCGC-TCTTCAAAAACGCCGCTAAAGGCCC
35577915 CAAAAAGTCA
Statistics
Matches: 103, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
80 3 0.03
81 3 0.03
82 95 0.92
83 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.19
Consensus pattern (81 bp):
GCGGCGCTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCATTTCTCTAAAAACACCGCT
AAAGGACCGAGCATTA
Found at i:35578074 original size:40 final size:39
Alignment explanation
Indices: 35577967--35578084 Score: 103
Period size: 40 Copynumber: 3.0 Consensus size: 39
35577957 GGCGCTTTCC
* * * *
35577967 AAAAAACGTCGCTAATGCTT-ATTTTTAGCGGCGTTTTCC
1 AAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTT-T
* * * * ** *
35578006 AACAATCGCCACTAATGCTCGACCTTTAGTAGCGTTTTT
1 AAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
*
35578045 AGAAAAGCGCCGCTAATGCTTGATTTTTAGTGGTGTTTTT
1 A-AAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
35578085 TGTCCAATTG
Statistics
Matches: 59, Mismatches: 18, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
39 16 0.27
40 43 0.73
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (39 bp):
AAAAAGCGCCGCTAATGCTTGATTTTTAGTGGCGTTTTT
Found at i:35579294 original size:137 final size:137
Alignment explanation
Indices: 35579048--35579294 Score: 316
Period size: 137 Copynumber: 1.8 Consensus size: 137
35579038 ATAGGGTTTT
* * * * * **
35579048 CATGTTTTGAGTGTTGGTCCTAAATGTTCTACCGATGGCTGAGGTTCGGCATATGTTGCGGGTAC
1 CATGTTTTGAGTGCTAGTCCTAAATGTCCTACCGATGGCTGAGGTTCGACATATCTTGCGAATAC
* *
35579113 TGGTCAGCTTGTGTGAGCGACATCATATAGCTACATTTCGACCGTCGGCTTGTGTGAGAAAACCC
66 TAGTCAGCTTGTGTGAACGACATCATATAGCTACATTTCGACCGTCGGCTTGTGTGAGAAAACCC
35579178 AGGTTAC
131 AGGTTAC
* * * * * *
35579185 CATGTTTTGGGTGCTAGTCCTGAATGTCCTACCGATGGTTGAGTTTTGACATTTCTTGCGAATAC
1 CATGTTTTGAGTGCTAGTCCTAAATGTCCTACCGATGGCTGAGGTTCGACATATCTTGCGAATAC
* * *
35579250 TAGTCAGCTTGTGTGAACGGCATCGTGTAGCTACA-TTCTGACCGT
66 TAGTCAGCTTGTGTGAACGACATCATATAGCTACATTTC-GACCGT
35579295 TAGCTAATGT
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
136 3 0.03
137 88 0.97
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (137 bp):
CATGTTTTGAGTGCTAGTCCTAAATGTCCTACCGATGGCTGAGGTTCGACATATCTTGCGAATAC
TAGTCAGCTTGTGTGAACGACATCATATAGCTACATTTCGACCGTCGGCTTGTGTGAGAAAACCC
AGGTTAC
Found at i:35582478 original size:736 final size:736
Alignment explanation
Indices: 35580886--35582561 Score: 2818
Period size: 736 Copynumber: 2.3 Consensus size: 736
35580876 TTGTGGTACC
35580886 TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
1 TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
*
35580951 ATGTTTTAAGAC-C--------ATGTGCAAG-CTAATTGTAGGTTCAATCTTGAATGGGTGAAAG
66 ATGTTTTAAG-CTCTTAATTATATGTGCAAGTC-AATTGTAGGTTCAAGCTTGAATGGGTGAAAG
* *
35581006 AAATGGCTTGAATTTTAGCCAATTTCTTGTGCACACGGCCTAAGACACGGGGG-GTGTCACAACC
129 AAATTGCTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGGGGGTGTGTCACAACC
*
35581070 GTGTGTGACACACAACCATGCGACACGACCGTGTATCCCCCGTAGGTTTTAAAGGTTACTTTTCA
194 GTGTGTGACACACAACCATGCGACACGACCGTATATCCCCCGTAGGTTTTAAAGGTTACTTTTCA
* *
35581135 AAAGTTACACGACCTGGCACACGGACGTGCAAGGTCATCTTGAATGTTGACCGTGTAATCCAAGT
259 AAAGTTACACGACCTGGCACACGGACGTGCAAGGTCATCTTGAAGGTTGACCGTGTAACCCAAGT
* * *
35581200 TAAAGAGTTACATGAGCACGGACACGGGCTGGGACACAGCTGTGTGTCCCTATTTCAAATTTTAC
324 CAAAGAGTTACATGAGCACGGACACGGGCTGGGACACAACTGTGTGTCCCTAGTTCAAATTTTAC
* *
35581265 ATGGCCTGAGACATGGGCGTGTTTCTCAATCGTGTGAGCCCTGCAGCTTAAATTTTTCTAACTTT
389 ATGGCCTGAGACATGGGCGTGTTTCTCAATCGTGTGACCCCTGCAGCTTAAATTCTTCTAACTTT
*
35581330 CTCCTTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTATTTCTAAAGTGGTTCTAGGGCCTG
454 CTCCTTAATGTTTTAAATATCCCCGATTTAGTCCCGAATTATTTCTAAAGTGGTTCTAGGGCCTG
*
35581395 GAAGGCTCGATTAAGCGACAATAAGCATGTGTATGTGTAGACTTTGCTATGCCTAATGAAATGTT
519 GAAGGCTCGATTAAGCGACAATAAGCATGTGTATGTGTAGACTTTGCTATGCATAATGAAATGTT
* * * *
35581460 TAGAAATGAATGTTGTGATGTTATGGTTTTACGGTAATGCTCCGTAACCCTATTCCAGTGATAGA
584 CAGAAATGAATGTTGTGATGTTATGGTTTTACAGTAATGCTCCGTAACCCTATTCCACTGACAGA
* *
35581525 TACAAGTTAAGGGTGTTAGAATTTTACTTAATCAAAATTAATTTTCCCAAAAATTACATAGATTT
649 TACAAGTTAAGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCAAAAATTACACAGATTT
35581590 TCCAAATTAATTTTTTAAGAAAA
714 TCCAAATTAATTTTTTAAGAAAA
35581613 TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
1 TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
* * * * * * *
35581678 ATGTTTTAAGGTCTTAATTATATTTGCAAGTTAATTGTATGCTCAAGCTTGAAAGGGGGAAAGAA
66 ATGTTTTAAGCTCTTAATTATATGTGCAAGTCAATTGTAGGTTCAAGCTTGAATGGGTGAAAGAA
35581743 ATTGCTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGGGGGTGTGTCACAACCGT
131 ATTGCTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGGGGGTGTGTCACAACCGT
* * * *
35581808 GTGTGACACACAACCATTCGACACGACCGTATGTCCCCTGTAGGTTTTAAAGGTTGCTTTTCAAA
196 GTGTGACACACAACCATGCGACACGACCGTATATCCCCCGTAGGTTTTAAAGGTTACTTTTCAAA
** *
35581873 AGTTACACGACCTGGCACACGGGTGTGCAAGGTCATCTTGAAGGTTGACTGTGTAACCCAAGTCA
261 AGTTACACGACCTGGCACACGGACGTGCAAGGTCATCTTGAAGGTTGACCGTGTAACCCAAGTCA
* *
35581938 GAGAGTTACATGAGCACGGACACGGGCTGGGACACAACTGTGTGTCCCTAGTTCAATTTTTACAT
326 AAGAGTTACATGAGCACGGACACGGGCTGGGACACAACTGTGTGTCCCTAGTTCAAATTTTACAT
* *
35582003 GGCCTGAGACATGGGCGTGTTTCTCAGTCGTGTGACCCCTGCAGTTTAAATTCTTCTAACTTTCT
391 GGCCTGAGACATGGGCGTGTTTCTCAATCGTGTGACCCCTGCAGCTTAAATTCTTCTAACTTTCT
*
35582068 CCTTAATGTTTTAAATATCCCCGATTTAGTCCCGAATTATTTCTAAAGTTGTTCTAGGGCCTGGA
456 CCTTAATGTTTTAAATATCCCCGATTTAGTCCCGAATTATTTCTAAAGTGGTTCTAGGGCCTGGA
* *
35582133 AGGCTCGATTAAGCGACAATAAGCATGTGTATGTGTGGACTTTGCTATGCATATTGAAATGTTCA
521 AGGCTCGATTAAGCGACAATAAGCATGTGTATGTGTAGACTTTGCTATGCATAATGAAATGTTCA
35582198 GAAATGAATGTTGTGATGTTATGGTTTTACAGTAATGCTCCGTAACCCTATTCCACTGACAGATA
586 GAAATGAATGTTGTGATGTTATGGTTTTACAGTAATGCTCCGTAACCCTATTCCACTGACAGATA
*
35582263 CAGGTTAAGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCAAAAATTACACAGATTTTC
651 CAAGTTAAGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCAAAAATTACACAGATTTTC
35582328 CAAATTAATTTTTTAAGAAAA
716 CAAATTAATTTTTTAAGAAAA
* *
35582349 TTATATGGTATATTAGTTTAATGGAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
1 TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
* *
35582414 ATGTTTTAAGCTCTTAATTATATGGGCAAGTCAATTGTAGGTTAAAGCTTGAATGGGTGAAAGAA
66 ATGTTTTAAGCTCTTAATTATATGTGCAAGTCAATTGTAGGTTCAAGCTTGAATGGGTGAAAGAA
* *
35582479 A-TGACTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGAGGGTGTGTCACGACCG
131 ATTG-CTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGGGGGTGTGTCACAACCG
35582543 TGTGTGACACACAACCATG
195 TGTGTGACACACAACCATG
35582562 AGACTGTTAA
Statistics
Matches: 882, Mismatches: 55, Indels: 15
0.93 0.06 0.02
Matches are distributed among these distances:
727 76 0.09
735 87 0.10
736 719 0.82
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (736 bp):
TTATATGGCATATTAGTTTAATGAAATTTGGTCATTTGAATTGGTCATATTATGTATGTTTAGGT
ATGTTTTAAGCTCTTAATTATATGTGCAAGTCAATTGTAGGTTCAAGCTTGAATGGGTGAAAGAA
ATTGCTTGAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACACGGGGGTGTGTCACAACCGT
GTGTGACACACAACCATGCGACACGACCGTATATCCCCCGTAGGTTTTAAAGGTTACTTTTCAAA
AGTTACACGACCTGGCACACGGACGTGCAAGGTCATCTTGAAGGTTGACCGTGTAACCCAAGTCA
AAGAGTTACATGAGCACGGACACGGGCTGGGACACAACTGTGTGTCCCTAGTTCAAATTTTACAT
GGCCTGAGACATGGGCGTGTTTCTCAATCGTGTGACCCCTGCAGCTTAAATTCTTCTAACTTTCT
CCTTAATGTTTTAAATATCCCCGATTTAGTCCCGAATTATTTCTAAAGTGGTTCTAGGGCCTGGA
AGGCTCGATTAAGCGACAATAAGCATGTGTATGTGTAGACTTTGCTATGCATAATGAAATGTTCA
GAAATGAATGTTGTGATGTTATGGTTTTACAGTAATGCTCCGTAACCCTATTCCACTGACAGATA
CAAGTTAAGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCAAAAATTACACAGATTTTC
CAAATTAATTTTTTAAGAAAA
Found at i:35595359 original size:734 final size:731
Alignment explanation
Indices: 35593181--35595405 Score: 3379
Period size: 732 Copynumber: 3.0 Consensus size: 731
35593171 TACTTAATCA
35593181 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
1 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
* *
35593246 CATATTATGTATGTTTAGGTATGTTTTAAGGTCTTAATTATATGGGCAAGTCAATTGTAGGTTCA
66 CATATTATGTATGTTTAGGTATGTTTTAAGGTCTTAATTATATGCGCAAGTTAATTGTAGGTTCA
* * * *
35593311 AGCTTGAATGGGTGAAAGAAATGACTTAAATTTTAGCCAATTTCTTGTCCACACGGCCTAAGACA
131 AGCTTGAATGGGTGAAAGAAATGGCTTGAATTTTAGCCAATTTCTTGTCCGCACTGCCTAAGACA
* * * * *
35593376 CATAGGTGTGTCACGACCGTGTGTGGCACACAACCATGCGACACGGCCGTGTGTCCCCTATACGT
196 C--GGGCGTGTCACAACCGTGTGTGACACACAACCATGCGACACGGCCGTGTGTCCCCTATAGGT
* * * *
35593441 TTTAAATGTGGCATTTCAAAAGTTACGCGACCTGGCACACAGGCATGTAAGGTGATTTTGAAGGT
259 TTTAAATGTTGCTTTTCAAAAGTTACACGACCTGGCACACGGGCATGTAAGGTGATTTTGAAGGT
* * * *
35593506 TGACCGTGTAACCCAGGTCAGAGAGTTACATGAGCAGGGACACGGGCTGGGACACAGCTGTGTGT
324 TGACCGTGTAACCCAAGTCAAAGAGTTACATGAGCACGGACACGGGTTGGGACACAGCTGTGTGT
* * *
35593571 CCCTATTTCAAATTTTACATGGCTTGAGAGATGGGCATGTTTCTCAGCCGTGTGACCCCTACAGC
389 CCCTATTTC-AATTTTACATGGCTTGAGACATGGGCGTGTTTCTCAGCCGTGTGACCCCTGCAGC
* *
35593636 TTAAATTTTTGTAACTTTCTCCTTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTGTTTCTA
453 TTAAATTTTTCT-ACTTTCTCATTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTGTTTCTA
* * * * * * *
35593701 AAGTGTTTCTGGGGCATGGAAGGCTCGATTAAGGGACAATAAGTATGTGTACGTATGGACTATCC
517 AAGTGTTTCTAGGGCCTGGAAGGCTCGATTAAGGGACAATAAGCATGTGTATGTGTGGACTTTGC
*
35593766 TATGCTTAATGAAATTCTTAGAAATGAATTTTGTGATGTTATGGTTTTACGGTAATGCTCCGTAA
582 TATGCTTAATGAAATT-TTAGAAATGAATGTTGTGATGTTATGGTTTTACGGTAATGCTCCGTAA
* * * *
35593831 CCCTATTTCGGTGACA-ATTATAGGTTAAGGG-GTTACAATTTTTCTTGATCAAAATTAATTTTC
646 CCCTATTTCGGTGACAGA-TACAGGTTAGGGGTGTTACAATTTTACTTAATCAAAATTAATTTTC
35593894 CCAAAAATTACATAGATTTTCC
710 CCAAAAATTACATAGATTTTCC
35593916 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
1 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
*
35593981 CGTATTAT-TGATGTTTAGGTATGTTTTAAGGTCTTAATTATATGCGCAAGTTAATTGTAGGTTC
66 CATATTATGT-ATGTTTAGGTATGTTTTAAGGTCTTAATTATATGCGCAAGTTAATTGTAGGTTC
*
35594045 AAGCTTGAATGGGTGAAAGAAATGGCTTGAATTTTAGCCAATTTCTTGT--GCACATG-GTAAGA
130 AAGCTTGAATGGGTGAAAGAAATGGCTTGAATTTTAGCCAATTTCTTGTCCGCAC-TGCCTAAGA
* *
35594107 CACGGGCGTGTGTCGCAACCGTGTGTGACACACAACCATGCGACACGGTCGTGTGTCCCCTATAG
194 CACGGGC--GTGTCACAACCGTGTGTGACACACAACCATGCGACACGGCCGTGTGTCCCCTATAG
* * *
35594172 GTTTTAAAGGTTTCTTTTCAAAAGTTACACGA-CTGGCACACGGGCATGTAAGGTCATTTTGAAG
257 GTTTTAAATGTTGCTTTTCAAAAGTTACACGACCTGGCACACGGGCATGTAAGGTGATTTTGAAG
* * * * * * * *
35594236 GTTCACCATGCAACCCAAGTCATAGAGTTACATGAGCATGGACACAGGTTGTGACACTGCTGTGT
322 GTTGACCGTGTAACCCAAGTCAAAGAGTTACATGAGCACGGACACGGGTTGGGACACAGCTGTGT
* * *
35594301 GTCCCTATTTCTAATTTTACATGGCTTGAGACACGGG-GTGTTTCCCAGCCATGTGACCCCTGCA
387 GTCCCTATTTC-AATTTTACATGGCTTGAGACATGGGCGTGTTTCTCAGCCGTGTGACCCCTGCA
* *
35594365 GCTTAAATTTTTCTATCTTTCTCTTTAATGTTTTAAATATTCCTGATTTAGTCCCGAATTGTTTC
451 GCTTAAATTTTTCTA-CTTTCTCATTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTGTTTC
*
35594430 TAAAGTGTTTCTAGGGCCTGGAAGGCTCGATTAAGGGGCAATAAGCATGTGTATGTGTGGACTTT
515 TAAAGTGTTTCTAGGGCCTGGAAGGCTCGATTAAGGGACAATAAGCATGTGTATGTGTGGACTTT
* * *
35594495 GCTATGCTTAATGAAATATTTAGAAATGAACGTTGTGATATTATGGTTTTACGGTAATGCTCCAT
580 GCTATGCTTAATGAAAT-TTTAGAAATGAATGTTGTGATGTTATGGTTTTACGGTAATGCTCCGT
* * *
35594560 AACCCTATTCCGGTGACAGATACAGGTTAGGGGTGTTAGAATTTTACGTAATCAAAATTAATTTT
644 AACCCTATTTCGGTGACAGATACAGGTTAGGGGTGTTACAATTTTACTTAATCAAAATTAATTTT
* *
35594625 CCCAAAAATTACTTAGATTTTCG
709 CCCAAAAATTACATAGATTTTCC
*
35594648 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATGTGGTCATTTGAATTGGT
1 AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
* * * *
35594713 CATATTATGTATGTTTAGGTATGTTTTAAGGTCTTAATGATATGTGCAATTTAATTTTAGGTTCA
66 CATATTATGTATGTTTAGGTATGTTTTAAGGTCTTAATTATATGCGCAAGTTAATTGTAGGTTCA
*
35594778 AGCTTGAATGGGTGAAAGAAATGGCATGAATTTTAGCCAATTTCTTGTCCGCACTGCCTAAGACA
131 AGCTTGAATGGGTGAAAGAAATGGCTTGAATTTTAGCCAATTTCTTGTCCGCACTGCCTAAGACA
* * *
35594843 CGGGCGTGTCACAACCGTGTGTGACACACAACCATGCGAGACGGCCGTGTGTCCCCTTTTGGTTT
196 CGGGCGTGTCACAACCGTGTGTGACACACAACCATGCGACACGGCCGTGTGTCCCCTATAGGTTT
* * * *
35594908 TAAATGTTGCTTTTTAAAAGTTACACGACCTGGTAGACGGGCGTGTAAGGTGATTTTGAAGGTTG
261 TAAATGTTGCTTTTCAAAAGTTACACGACCTGGCACACGGGCATGTAAGGTGATTTTGAAGGTTG
* * *
35594973 ACCGTGTAATCCAAGTTAAAGAGTTACATGAGCACGGAAACGGGTTGGGACACAGCTGTGTGTCC
326 ACCGTGTAACCCAAGTCAAAGAGTTACATGAGCACGGACACGGGTTGGGACACAGCTGTGTGTCC
* * * *
35595038 CTATTTCAGATTTTACATGGCCTAAGACATGGGCGTGTTTCTCAGCCGTGTTACCTCTGCAGCTT
391 CTATTTCA-ATTTTACATGGCTTGAGACATGGGCGTGTTTCTCAGCCGTGTGACCCCTGCAGCTT
*
35595103 AAATTTTTCTCACTTTCTCATTAATGTTTTAAATATTCCCGATTTAGTCCTGAATTGTTTCTAAA
455 AAATTTTTCT-ACTTTCTCATTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTGTTTCTAAA
* * * *
35595168 GTGTTTCTAGGGCCTGTAAGGCTCGATTAAGAGACAATAAACATGTGTATGTGTGGAATTTGCTA
519 GTGTTTCTAGGGCCTGGAAGGCTCGATTAAGGGACAATAAGCATGTGTATGTGTGGACTTTGCTA
* *
35595233 TGCTTAATGAAATGTTTAAAAATGAATGTTGTGATGTTATGGTTTTATGGTAATGCTCCGTAACC
584 TGCTTAATGAAAT-TTTAGAAATGAATGTTGTGATGTTATGGTTTTACGGTAATGCTCCGTAACC
* * *
35595298 TTATTTTGGTGACAGAAACAGGTTAGGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCA
648 CTATTTCGGTGACAGATACAGGTTAGGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCA
35595363 AAAATTACATAGA-TTTCC
713 AAAATTACATAGATTTTCC
35595381 TAAATTAATTTTTTAAGAAAATTAT
1 -AAATTAATTTTTTAAGAAAATTAT
35595406 TTAATCAAAT
Statistics
Matches: 1350, Mismatches: 123, Indels: 35
0.90 0.08 0.02
Matches are distributed among these distances:
730 1 0.00
731 229 0.17
732 419 0.31
733 210 0.16
734 319 0.24
735 172 0.13
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (731 bp):
AAATTAATTTTTTAAGAAAATTATATGGCATATTAGTTTAATGGAATTTGGTCATTTGAATTGGT
CATATTATGTATGTTTAGGTATGTTTTAAGGTCTTAATTATATGCGCAAGTTAATTGTAGGTTCA
AGCTTGAATGGGTGAAAGAAATGGCTTGAATTTTAGCCAATTTCTTGTCCGCACTGCCTAAGACA
CGGGCGTGTCACAACCGTGTGTGACACACAACCATGCGACACGGCCGTGTGTCCCCTATAGGTTT
TAAATGTTGCTTTTCAAAAGTTACACGACCTGGCACACGGGCATGTAAGGTGATTTTGAAGGTTG
ACCGTGTAACCCAAGTCAAAGAGTTACATGAGCACGGACACGGGTTGGGACACAGCTGTGTGTCC
CTATTTCAATTTTACATGGCTTGAGACATGGGCGTGTTTCTCAGCCGTGTGACCCCTGCAGCTTA
AATTTTTCTACTTTCTCATTAATGTTTTAAATATTCCCGATTTAGTCCCGAATTGTTTCTAAAGT
GTTTCTAGGGCCTGGAAGGCTCGATTAAGGGACAATAAGCATGTGTATGTGTGGACTTTGCTATG
CTTAATGAAATTTTAGAAATGAATGTTGTGATGTTATGGTTTTACGGTAATGCTCCGTAACCCTA
TTTCGGTGACAGATACAGGTTAGGGGTGTTACAATTTTACTTAATCAAAATTAATTTTCCCAAAA
ATTACATAGATTTTCC
Found at i:35597012 original size:29 final size:29
Alignment explanation
Indices: 35596977--35597032 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35596967 CTTTCAAACT
*
35596977 ATGAAAAATGACGGTGACGACCATCAACA
1 ATGAAAAAGGACGGTGACGACCATCAACA
* *
35597006 ATGAAAAGGGATGGTGACGACCATCAA
1 ATGAAAAAGGACGGTGACGACCATCAA
35597033 AATTATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (29 bp):
ATGAAAAAGGACGGTGACGACCATCAACA
Found at i:35597044 original size:31 final size:29
Alignment explanation
Indices: 35596989--35597048 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
35596979 GAAAAATGAC
*
35596989 GGTGACGACCATCAACAATGAAAAGGGAT
1 GGTGACGACCATCAAAAATGAAAAGGGAT
35597018 GGTGACGACCATCAAAATTATGAAAAGGGAT
1 GGTGACGACCATCAAAA--ATGAAAAGGGAT
35597049 CGCTTTGGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 16 0.57
31 12 0.43
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (29 bp):
GGTGACGACCATCAAAAATGAAAAGGGAT
Found at i:35597059 original size:120 final size:120
Alignment explanation
Indices: 35596827--35597043 Score: 317
Period size: 120 Copynumber: 1.8 Consensus size: 120
35596817 TCATTGAAAA
* * * * * * * *
35596827 ATGAAAAGGGATAGCTCTGGCTATCGAGCTATGAAAAGGGATGGTGATGACAATCAACAATGAAC
1 ATGAAAAGGGACAGCTCTGACTATCAAACTATGAAAAAGGACGGTGACGACAATCAACAATGAAA
*
35596892 AGGGATGGTGACTACCATCAAAATTATGAAAAAGGGTAGCCTCGGCTACCAAGTC
66 AGGGATGGTGACGACCATCAAAATTATGAAAAAGGGTAGCCTCGGCTACCAAGTC
* * * *
35596947 ATGAAAAGGGACAGCTCTTACTTTCAAACTATGAAAAATGACGGTGACGACCATCAACAATGAAA
1 ATGAAAAGGGACAGCTCTGACTATCAAACTATGAAAAAGGACGGTGACGACAATCAACAATGAAA
35597012 AGGGATGGTGACGACCATCAAAATTATGAAAA
66 AGGGATGGTGACGACCATCAAAATTATGAAAA
35597044 GGGATCGCTT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 84 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (120 bp):
ATGAAAAGGGACAGCTCTGACTATCAAACTATGAAAAAGGACGGTGACGACAATCAACAATGAAA
AGGGATGGTGACGACCATCAAAATTATGAAAAAGGGTAGCCTCGGCTACCAAGTC
Found at i:35598222 original size:20 final size:20
Alignment explanation
Indices: 35598197--35598244 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
35598187 AAGGGTACAC
35598197 GGCTTGGCACACGAATGTGT
1 GGCTTGGCACACGAATGTGT
35598217 GGCTTGGCACACGAATGTGT
1 GGCTTGGCACACGAATGTGT
35598237 GGCTTGGC
1 GGCTTGGC
35598245 CGTGTGACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.21, G:0.38, T:0.25
Consensus pattern (20 bp):
GGCTTGGCACACGAATGTGT
Found at i:35600937 original size:48 final size:48
Alignment explanation
Indices: 35600845--35601023 Score: 182
Period size: 48 Copynumber: 3.7 Consensus size: 48
35600835 AAAAGAGATT
* * * * * *
35600845 TCTCGGTGGCCTGCACATAGTCCGTACCACCTTTGTCTAATAACAGAT
1 TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAA
* * * *
35600893 TCTCGGTGACTTGCACATAGTCCGTGCCACCCTTGTATCTTAACAAGTAA
1 TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAAC-AG-AA
* * *
35600943 T-T-GGTGGCCTACACACAGTCCGTGCCACCCTTGTGTCACAACAGAA
1 TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAA
* * *
35600989 TATCGGTGGCCTCCACACAGTCTGTGCCACCCTTG
1 TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTG
35601024 CGCCATAACA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
46 3 0.03
47 3 0.03
48 99 0.90
49 3 0.03
50 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (48 bp):
TCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAA
Found at i:35601016 original size:96 final size:96
Alignment explanation
Indices: 35600849--35601023 Score: 224
Period size: 96 Copynumber: 1.8 Consensus size: 96
35600839 GAGATTTCTC
* * * * * * * * *
35600849 GGTGGCCTGCACATAGTCCGTACCACCTTTGTCTAATAACAGATTCTCGGTGACTTGCACATAGT
1 GGTGGCCTACACACAGTCCGTACCACCCTTGTCTAACAACAGAATATCGGTGACCTCCACACAGT
35600914 CCGTGCCACCCTTGTATCTTAACAAGTAATT
66 CCGTGCCACCCTTGTATCTTAACAAGTAATT
* * * *
35600945 GGTGGCCTACACACAGTCCGTGCCACCCTTGTGTCACAACAGAATATCGGTGGCCTCCACACAGT
1 GGTGGCCTACACACAGTCCGTACCACCCTTGTCTAACAACAGAATATCGGTGACCTCCACACAGT
*
35601010 CTGTGCCACCCTTG
66 CCGTGCCACCCTTG
35601024 CGCCATAACA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 65 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (96 bp):
GGTGGCCTACACACAGTCCGTACCACCCTTGTCTAACAACAGAATATCGGTGACCTCCACACAGT
CCGTGCCACCCTTGTATCTTAACAAGTAATT
Found at i:35601034 original size:48 final size:48
Alignment explanation
Indices: 35600945--35601043 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
35600935 ACAAGTAATT
* *
35600945 GGTGGCCTACACACAGTCCGTGCCACCCTTGTGTCACAACAGAATATC
1 GGTGGCCTACACACAGTCCGTGCCACCCTTGCGCCACAACAGAATATC
* * * *
35600993 GGTGGCCTCCACACAGTCTGTGCCACCCTTGCGCCATAACAGATTATC
1 GGTGGCCTACACACAGTCCGTGCCACCCTTGCGCCACAACAGAATATC
35601041 GGT
1 GGT
35601044 ATGCATAGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.22, T:0.22
Consensus pattern (48 bp):
GGTGGCCTACACACAGTCCGTGCCACCCTTGCGCCACAACAGAATATC
Found at i:35608320 original size:48 final size:48
Alignment explanation
Indices: 35608227--35608425 Score: 188
Period size: 48 Copynumber: 4.2 Consensus size: 48
35608217 AGAAAGAGAT
* * ** *
35608227 TTCTCGGTGGCCTGCACACAGTCCGTACCACCTTTGCCTAATAACAGA
1 TTCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA
* * * * *
35608275 TTCTCAGTGGCCTGTACATAGTCCGTGCCACCCTTGTATCTTAACAAGTA
1 TTCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAAC-AG-A
* * * *
35608325 AT-T-GGTGG-CTACACAAAGTCCGTGCCACCCTTGTGTCACAACAGA
1 TTCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA
* * * *
35608370 ATATCGGTGGCCTGTACACAGTCCATGCCACCCTTGTGTCATAACAGA
1 TTCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA
*
35608418 TTATCGGT
1 TTCTCGGT
35608426 ACGCATAGTA
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
45 3 0.02
46 3 0.02
47 33 0.27
48 79 0.64
49 3 0.02
50 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
TTCTCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAACAGA
Found at i:35615471 original size:11 final size:11
Alignment explanation
Indices: 35615455--35615485 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
35615445 TTCTTATGAA
35615455 ATTTTATTTTT
1 ATTTTATTTTT
35615466 ATTTTATTTTT
1 ATTTTATTTTT
35615477 ATTTCTATT
1 ATTT-TATT
35615486 CAAGTTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:35617759 original size:17 final size:17
Alignment explanation
Indices: 35617737--35617769 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35617727 GTTAGTGAAC
*
35617737 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
35617754 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
35617770 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:35624536 original size:29 final size:29
Alignment explanation
Indices: 35624492--35624547 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
35624482 CTATCGAGCT
*
35624492 ATGAAAAGGGACGGTGACGACCATCAACA
1 ATGAAAAAGGACGGTGACGACCATCAACA
*
35624521 ATGAAAAAGGATGGTGACGACCATCAA
1 ATGAAAAAGGACGGTGACGACCATCAA
35624548 AATCATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (29 bp):
ATGAAAAAGGACGGTGACGACCATCAACA
Found at i:35624559 original size:30 final size:28
Alignment explanation
Indices: 35624492--35624560 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
35624482 CTATCGAGCT
*
35624492 ATGAAAAGGGACGGTGACGACCATCAACA
1 ATGAAAA-GGACGGTGACGACCATCAAAA
*
35624521 ATGAAAAAGGATGGTGACGACCATCAAAA
1 ATG-AAAAGGACGGTGACGACCATCAAAA
35624550 TCATGAAAAGG
1 --ATGAAAAGG
35624561 GATAGCTTCG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 22 0.63
30 10 0.29
31 3 0.09
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (28 bp):
ATGAAAAGGACGGTGACGACCATCAAAA
Found at i:35628121 original size:20 final size:19
Alignment explanation
Indices: 35628071--35628121 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
35628061 ACACTTCAAT
*
35628071 TTTTTATATTTTTTTTGTA
1 TTTTCATATTTTTTTTGTA
*
35628090 TTTTCCTGATTTTTTTGTGT-
1 TTTTCAT-ATTTTTTT-TGTA
35628110 TTTTCAATATTT
1 TTTTC-ATATTT
35628122 CCCCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.19
20 17 0.65
21 4 0.15
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTCATATTTTTTTTGTA
Found at i:35631841 original size:17 final size:18
Alignment explanation
Indices: 35631821--35631860 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35631811 ATGTTTCTTG
35631821 AAAACTATTA-TTTCAGA
1 AAAACTATTATTTTCAGA
* *
35631838 AAAATTGTTATTTTCAGA
1 AAAACTATTATTTTCAGA
35631856 AAAAC
1 AAAAC
35631861 CGTTTTATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.35
Consensus pattern (18 bp):
AAAACTATTATTTTCAGA
Found at i:35634805 original size:59 final size:60
Alignment explanation
Indices: 35634727--35634850 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 60
35634717 AACAAGCTGG
* * * * * *
35634727 TGACCAAAAAAGATAAAATTGAATAGTTGGGTGATCGTTTTGTAACTTTTCATAGTTGAA
1 TGACCAAAAAAGACAAAATTAAATAGTAGAGTAATCATTTTGTAACTTTTCATAGTTGAA
35634787 TGACCAAAAAA-ACAAAATTAAATAGTAGAGTAATCATTTTGTAACTTTTCATAGTTGAA
1 TGACCAAAAAAGACAAAATTAAATAGTAGAGTAATCATTTTGTAACTTTTCATAGTTGAA
35634846 TGACC
1 TGACC
35634851 TCTACCGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 47 0.81
60 11 0.19
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.33
Consensus pattern (60 bp):
TGACCAAAAAAGACAAAATTAAATAGTAGAGTAATCATTTTGTAACTTTTCATAGTTGAA
Found at i:35636884 original size:17 final size:16
Alignment explanation
Indices: 35636831--35636925 Score: 59
Period size: 16 Copynumber: 5.9 Consensus size: 16
35636821 TAGTTTTACT
*
35636831 TTTTTTATAATTTTAA
1 TTTTTTATAATTTTTA
* ** *
35636847 TTTTTTTTAAAATATA
1 TTTTTTATAATTTTTA
*
35636863 GTTTTCTATAATTTTTA
1 -TTTTTTATAATTTTTA
*
35636880 TTTTTTAT-GTTTTTAAA
1 TTTTTTATAATTTTT--A
* * *
35636897 ATTTTAATAAATTTTA
1 TTTTTTATAATTTTTA
35636913 TTTTTTAT-ATTTT
1 TTTTTTATAATTTT
35636926 ATTAATATTT
Statistics
Matches: 56, Mismatches: 19, Indels: 9
0.67 0.23 0.11
Matches are distributed among these distances:
15 9 0.16
16 25 0.45
17 18 0.32
18 4 0.07
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:35636916 original size:24 final size:25
Alignment explanation
Indices: 35636889--35636935 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
35636879 ATTTTTTATG
35636889 TTTTTAAAATTTTAATAA-ATTTTA
1 TTTTTAAAATTTTAATAATATTTTA
* * *
35636913 TTTTTTATATTTTATTAATATTT
1 TTTTTAAAATTTTAATAATATTT
35636936 ATTGAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTTTAAAATTTTAATAATATTTTA
Found at i:35637817 original size:98 final size:98
Alignment explanation
Indices: 35637648--35637838 Score: 319
Period size: 98 Copynumber: 1.9 Consensus size: 98
35637638 TAAAATTTTT
*
35637648 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACGATTCCTCTA
1 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCCTCTA
*
35637713 GAATCCCAAACTCGGAACATTTCATTTACTTTA
66 AAATCCCAAACTCGGAACATTTCATTTACTTTA
* * *
35637746 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACTCAATACGTTAGGGCACAATTCCTTTA
1 AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCCTCTA
* *
35637811 AAATCCCAAACTCGGAATATTTCCTTTA
66 AAATCCCAAACTCGGAACATTTCATTTA
35637839 TTATTTTTAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
AAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACATTAGGGCACAATTCCTCTA
AAATCCCAAACTCGGAACATTTCATTTACTTTA
Found at i:35638733 original size:23 final size:22
Alignment explanation
Indices: 35638690--35638747 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35638680 AAAGGGTATC
* *
35638690 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35638711 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
35638734 TACATATCATATCT
1 TACAAATCATATCT
35638748 AAGATTGCAT
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:35638750 original size:19 final size:19
Alignment explanation
Indices: 35638703--35638819 Score: 117
Period size: 19 Copynumber: 5.8 Consensus size: 19
35638693 AAATTAAATC
*
35638703 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
35638723 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
35638745 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
35638766 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* * *
35638785 TCTAGGATTGCATAGCATA
1 TCTAAGATTACATATCATA
*
35638804 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
35638820 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
19 48 0.57
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:35638763 original size:21 final size:19
Alignment explanation
Indices: 35638726--35638819 Score: 143
Period size: 19 Copynumber: 4.8 Consensus size: 19
35638716 AATCATATCT
*
35638726 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
35638745 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
35638766 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
35638785 TCTAGGATTGCATAGCATA
1 TCTAAGATTGCATATCATA
35638804 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35638820 CTCAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 49 0.72
21 19 0.28
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35638774 original size:40 final size:38
Alignment explanation
Indices: 35638726--35638819 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 38
35638716 AATCATATCT
* *
35638726 TCTAAGATTACATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGC--ATAGCATA
*
35638766 TCTAAGATTGCATATCATATCTAGGATTGCATAGCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATAGCATA
35638804 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
35638820 CTCAAAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
38 23 0.45
40 28 0.55
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATAGCATA
Done.