Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 64
Found at i:4026374 original size:21 final size:21
Alignment explanation
Indices: 4026348--4026387 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4026338 CCCCCTTTGA
*
4026348 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4026369 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4026388 TAGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4026392 original size:20 final size:20
Alignment explanation
Indices: 4026307--4026392 Score: 57
Period size: 20 Copynumber: 4.1 Consensus size: 20
4026297 TTGGTGCAGA
* *
4026307 GGGAATCGATACCCCCAT-G
1 GGGAACCGATACCCCCCTAG
* *
4026326 AGGGAACCGATTCCCCCTTTGAAG
1 -GGGAACCGATACCCCC-CT--AG
* *
4026350 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATACCCCCC-TAG
*
4026371 GGGAATCGATACCCCCCTAG
1 GGGAACCGATACCCCCCTAG
4026391 GG
1 GG
4026393 TTCTAGATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 18 0.34
21 18 0.34
23 16 0.30
24 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.27, T:0.15
Consensus pattern (20 bp):
GGGAACCGATACCCCCCTAG
Found at i:4028379 original size:17 final size:17
Alignment explanation
Indices: 4028346--4028379 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4028336 TTGAATATTT
* *
4028346 TGGATTGTTTGATTTTG
1 TGGATTGTTAGACTTTG
4028363 TGGATTGTTAGACTTTG
1 TGGATTGTTAGACTTTG
4028380 GATTTGTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.29, T:0.53
Consensus pattern (17 bp):
TGGATTGTTAGACTTTG
Found at i:4036508 original size:2 final size:2
Alignment explanation
Indices: 4036501--4036548 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
4036491 AAGTCCATTA
4036501 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4036543 AT AT AT
1 AT AT AT
4036549 TGAGGCAGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4036833 original size:2 final size:2
Alignment explanation
Indices: 4036828--4036855 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4036818 ATTATCAATA
4036828 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4036856 GAAGTAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4037657 original size:18 final size:20
Alignment explanation
Indices: 4037621--4037657 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4037611 AGATCAACTT
*
4037621 TATATTTGAAATCTATGAAA
1 TATATTTGAAATATATGAAA
4037641 TATA-TTGAAATAT-TGAA
1 TATATTTGAAATATATGAA
4037658 GCTACAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 8 0.50
20 4 0.25
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.41
Consensus pattern (20 bp):
TATATTTGAAATATATGAAA
Found at i:4048400 original size:16 final size:16
Alignment explanation
Indices: 4048379--4048409 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4048369 ATGTATGTTA
*
4048379 ATTATTTTATTATTTC
1 ATTATTTTACTATTTC
4048395 ATTATTTTACTATTT
1 ATTATTTTACTATTT
4048410 TTTTTCATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTATTTTACTATTTC
Found at i:4048498 original size:16 final size:16
Alignment explanation
Indices: 4048475--4048518 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
4048465 AAAAGGTTGA
4048475 TTTATGTTTATGTT-T
1 TTTATGTTTATGTTAT
4048490 TTATATGTTTACTGTTAT
1 TT-TATGTTTA-TGTTAT
4048508 TTTAT-TTTATG
1 TTTATGTTTATG
4048519 AAGATTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.15
16 12 0.46
17 7 0.27
18 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.11, T:0.68
Consensus pattern (16 bp):
TTTATGTTTATGTTAT
Found at i:4049363 original size:20 final size:20
Alignment explanation
Indices: 4049335--4049373 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4049325 ATTTTAAGAA
* *
4049335 TTATCTTTAGGAATTATATC
1 TTATATTTAGAAATTATATC
4049355 TTATATTTAGAAATTATAT
1 TTATATTTAGAAATTATAT
4049374 TTTCCTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (20 bp):
TTATATTTAGAAATTATATC
Found at i:4050142 original size:23 final size:23
Alignment explanation
Indices: 4050108--4050161 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
4050098 AATTTATTTG
4050108 TTTA-TTTATTTTATCCTCATAT
1 TTTATTTTATTTTATCCTCATAT
* *
4050130 TTTATTTTATTTTATCCTTATCT
1 TTTATTTTATTTTATCCTCATAT
4050153 TTTATTTTA
1 TTTATTTTA
4050162 AAATAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTATTTTATTTTATCCTCATAT
Found at i:4051899 original size:19 final size:19
Alignment explanation
Indices: 4051865--4051909 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4051855 TTAGCATTGT
4051865 GAAAA-TAAAATAATGAAA
1 GAAAAGTAAAATAATGAAA
4051883 GAAAAGTAAAA-AGATGAAA
1 GAAAAGTAAAATA-ATGAAA
*
4051902 GAGAAGTA
1 GAAAAGTA
4051910 GAACTTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (19 bp):
GAAAAGTAAAATAATGAAA
Found at i:4052125 original size:41 final size:42
Alignment explanation
Indices: 4052067--4052150 Score: 143
Period size: 41 Copynumber: 2.0 Consensus size: 42
4052057 AACTAATTCC
*
4052067 TAAATAAAATAATAATAAAATAATTAAACTAAAAATCCTAAA
1 TAAATAAAATAATAATAAAATAATCAAACTAAAAATCCTAAA
*
4052109 TAAA-AAAATTATAATAAAATAATCAAACTAAAAATCCTAAA
1 TAAATAAAATAATAATAAAATAATCAAACTAAAAATCCTAAA
4052150 T
1 T
4052151 CTAAAAGGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 36 0.90
42 4 0.10
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.26
Consensus pattern (42 bp):
TAAATAAAATAATAATAAAATAATCAAACTAAAAATCCTAAA
Found at i:4052812 original size:8 final size:9
Alignment explanation
Indices: 4052787--4052811 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4052777 TTCTTATTCT
4052787 TTTTTTTTA
1 TTTTTTTTA
4052796 TTTTTTTTA
1 TTTTTTTTA
4052805 TTTTTTT
1 TTTTTTT
4052812 AAATCTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:4058675 original size:24 final size:24
Alignment explanation
Indices: 4058648--4058697 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4058638 TGTTGGTTGA
*
4058648 TTTAATGGT-TGTTTGAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
4058672 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
4058696 TT
1 TT
4058698 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:4063175 original size:16 final size:18
Alignment explanation
Indices: 4063156--4063192 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
4063146 AAAATTTAAG
*
4063156 TTTTTCTTT-ATTTT-TA
1 TTTTTATTTCATTTTGTA
4063172 TTTTTATTTCATTTTGTA
1 TTTTTATTTCATTTTGTA
4063190 TTT
1 TTT
4063193 AATTTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTATTTCATTTTGTA
Found at i:4070600 original size:16 final size:16
Alignment explanation
Indices: 4070581--4070617 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
4070571 AATAGTATTG
4070581 GTACCCTTGAGTATCA
1 GTACCCTTGAGTATCA
*
4070597 GTACCCTTGAGTATCG
1 GTACCCTTGAGTATCA
4070613 GTACC
1 GTACC
4070618 AATTTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (16 bp):
GTACCCTTGAGTATCA
Found at i:4075265 original size:89 final size:89
Alignment explanation
Indices: 4075104--4075275 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 89
4075094 TAATCCCGAA
* * * *
4075104 TATTTAATTTCAATTAATTAAATATATATTTAATTAATTTGAATAATAAAACCCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTGAATTAATTTGAATAATAAAACCCCTAATATGATT
4075169 AGGGTAACTTGGATATAAGAGGAT
66 AGGGTAACTTGGATATAAGAGGAT
4075193 TATTAAATTCCAATTAATTAAATATAGATTGAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTGAATTAATTTG-AATAATAAAACCCCTAATATGAT
*
4075257 TAGGGTAACTTGGCTATAA
65 TAGGGTAACTTGGATATAA
4075276 AAGGGTGTGT
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 67 0.87
90 10 0.13
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTGAATTAATTTGAATAATAAAACCCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:4076062 original size:2 final size:2
Alignment explanation
Indices: 4076055--4076115 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
4076045 TAACAACGTG
4076055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4076097 TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA T
4076116 GTTTGTTTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4083829 original size:20 final size:20
Alignment explanation
Indices: 4083749--4083819 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
4083739 TTGCGATTAC
*
4083749 GTAAATCGCAATGCGAATAT
1 GTAAATCGCAATGCGAATCT
4083769 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGCGAATCT
4083789 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGCGAATCT
4083809 GTAAATCGCAA
1 GTAAATCGCAA
4083820 CGAGATTCTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (20 bp):
GTAAATCGCAATGCGAATCT
Found at i:4083840 original size:40 final size:40
Alignment explanation
Indices: 4083749--4083829 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
4083739 TTGCGATTAC
* *
4083749 GTAAATCGCAATGCGAATATGTAAATCGCAATGCGAATCT
1 GTAAATCGCAATGCGAATATGTAAATCGCAACGAGAATCT
* *
4083789 GTAAATCGCAATGCGAATCTGTAAATCGCAACGAGATTCT
1 GTAAATCGCAATGCGAATATGTAAATCGCAACGAGAATCT
4083829 G
1 G
4083830 ACTATCGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.25
Consensus pattern (40 bp):
GTAAATCGCAATGCGAATATGTAAATCGCAACGAGAATCT
Found at i:4087161 original size:14 final size:14
Alignment explanation
Indices: 4087123--4087161 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
4087113 TCATTTGACT
*
4087123 ATCGCAACGCAGAA
1 ATCGCAACGCGGAA
4087137 ATCGCAACGCGGAA
1 ATCGCAACGCGGAA
4087151 ATCGCAACGCG
1 ATCGCAACGCG
4087162 AATATGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.36, C:0.31, G:0.26, T:0.08
Consensus pattern (14 bp):
ATCGCAACGCGGAA
Found at i:4087176 original size:20 final size:20
Alignment explanation
Indices: 4087151--4087239 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
4087141 CAACGCGGAA
4087151 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
4087171 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* * *
4087191 ATCGTAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
4087211 ATAGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
*
4087231 ATTGCAACG
1 ATCGCAACG
4087240 AGAGAATCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 55 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:4087271 original size:19 final size:19
Alignment explanation
Indices: 4087244--4087322 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
4087234 GCAACGAGAG
*
4087244 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4087263 AATCGCAATGCGAAATGAC
1 AATCGCAATGCGAAATGAA
* * *
4087282 TATCGTAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4087296 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4087315 AATCGCAA
1 AATCGCAA
4087323 CGAGAGAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
14 8 0.17
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 33 0.70
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4087283 original size:52 final size:52
Alignment explanation
Indices: 4087222--4087322 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
4087212 TAGCAACGCG
*
4087222 GAAATGACTATTGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAATGC
1 GAAATGACTATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAATGC
* *
4087274 GAAATGACTATCGTAACGAGAGAATCGCAATGCGAAATGAAAATCGCAA
1 GAAATGACTATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAA
4087323 CGAGAGAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (52 bp):
GAAATGACTATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAATGC
Found at i:4087305 original size:33 final size:33
Alignment explanation
Indices: 4087263--4087337 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
4087253 GCGAAATGAA
** *
4087263 AATCGCAATGCGAAATGACTATCGTAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
4087296 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
4087329 AATCGCAAT
1 AATCGCAAT
4087338 TAGTTTCGCG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:4087403 original size:33 final size:33
Alignment explanation
Indices: 4087346--4087441 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
4087336 ATTAGTTTCG
4087346 CGTTGCGATTTTCATTTTCGCATTGCGATTAACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTAACT
**
4087380 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTAACT
4087413 CGTTGCGATTTTCATTTCGCATTGCGATT
1 CGTTGCGATTTTCATTTCGCATTGCGATT
4087442 TTTATTTCGC
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.77
34 14 0.23
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTAACT
Found at i:4087449 original size:52 final size:51
Alignment explanation
Indices: 4087382--4087492 Score: 195
Period size: 52 Copynumber: 2.2 Consensus size: 51
4087372 GATTAACTCG
*
4087382 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTAT-ATTTCGCA
*
4087434 TTGCGATTTTTATTTCGCATTGCGATTCTCTCGTTGCGATTATATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTATATTTCGCA
4087485 TTGCGATT
1 TTGCGATT
4087493 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
51 16 0.28
52 41 0.72
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (51 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTATATTTCGCA
Found at i:4087483 original size:32 final size:33
Alignment explanation
Indices: 4087434--4087558 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 33
4087424 TCATTTCGCA
* *
4087434 TTGCGATTTTTATTTCGCATTGCGATTCTCTCG
1 TTGCGATTATCATTTCGCATTGCGATTCTCTCG
4087467 TTGCGATTAT-ATTTCGCATTGCGATTCTCTCG
1 TTGCGATTATCATTTCGCATTGCGATTCTCTCG
*
4087499 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTATCATTTCGCATTGCGATTCTCTCG
*
4087532 TTGCG-GTAGTCATTTTCGCATTGCGAT
1 TTGCGATTA-TCA-TTTCGCATTGCGAT
4087559 AGTCTGTTTT
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
32 32 0.38
33 39 0.46
34 14 0.16
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTATCATTTCGCATTGCGATTCTCTCG
Found at i:4087503 original size:84 final size:86
Alignment explanation
Indices: 4087341--4087525 Score: 311
Period size: 84 Copynumber: 2.2 Consensus size: 86
4087331 TCGCAATTAG
* *
4087341 TTTCGCGTTGCGATTTTCATTTTCGCATTGCGATTAACTCGTTGCGATTTTCATTTCGCATTGCG
1 TTTCGCATTGCGATTTTCATTTTCGCATTGCGATTAACTCGTTGCGATTATCATTTCGCATTGCG
4087406 ATTCTCTCGTTGCGATTTTCA
66 ATTCTCTCGTTGCGATTTTCA
* **
4087427 TTTCGCATTGCGATTTTTA-TTTCGCATTGCGATTCTCTCGTTGCGATTAT-ATTTCGCATTGCG
1 TTTCGCATTGCGATTTTCATTTTCGCATTGCGATTAACTCGTTGCGATTATCATTTCGCATTGCG
4087490 ATTCTCTCGTTGCGATTTTCA
66 ATTCTCTCGTTGCGATTTTCA
4087511 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
4087526 CTCTCGTTGC
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 49 0.52
85 28 0.30
86 17 0.18
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (86 bp):
TTTCGCATTGCGATTTTCATTTTCGCATTGCGATTAACTCGTTGCGATTATCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCA
Found at i:4087507 original size:65 final size:67
Alignment explanation
Indices: 4087434--4087558 Score: 202
Period size: 65 Copynumber: 1.9 Consensus size: 67
4087424 TCATTTCGCA
* *
4087434 TTGCGATTTTTATTTCGCATTGCGATTCTCTCGTTGC-G-A-TTATATTTCGCATTGCGATTCTC
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGGTAGTCAT-TTTCGCATTGCGATTCTC
4087496 TCG
65 TCG
4087499 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGGTAGTCATTTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGGTAGTCATTTTCGCATTGCGAT
4087559 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
65 36 0.65
66 1 0.02
67 15 0.27
68 3 0.05
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (67 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGGTAGTCATTTTCGCATTGCGATTCTCT
CG
Found at i:4087545 original size:33 final size:32
Alignment explanation
Indices: 4087445--4087558 Score: 167
Period size: 32 Copynumber: 3.5 Consensus size: 32
4087435 TGCGATTTTT
4087445 ATTTCGCATTGCGATTCTCTCGTTGCGATTAT-
1 ATTTCGCATTGCGATTCTCTCGTTGCGA-TATC
*
4087477 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGA-TATC
*
4087510 ATTTCGCATTGCGATTCTCTCGTTGCGGTAGTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATA-TC
4087543 ATTTTCGCATTGCGAT
1 A-TTTCGCATTGCGAT
4087559 AGTCTGTTTT
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
32 32 0.42
33 30 0.39
34 14 0.18
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATATC
Found at i:4089117 original size:21 final size:18
Alignment explanation
Indices: 4089093--4089137 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
4089083 GAACGGTGGG
4089093 AGGGGACTCTTGAGGGATGAT
1 AGGGGACTCTTGA---ATGAT
*
4089114 AGGGGCCTCTTGAATGAT
1 AGGGGACTCTTGAATGAT
4089132 AGGGGA
1 AGGGGA
4089138 GGCCTCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 10 0.45
21 12 0.55
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.22
Consensus pattern (18 bp):
AGGGGACTCTTGAATGAT
Found at i:4089154 original size:42 final size:42
Alignment explanation
Indices: 4089047--4089154 Score: 119
Period size: 42 Copynumber: 2.6 Consensus size: 42
4089037 TCTAGAATGT
* * * *
4089047 TGGGAGAGACCTCTTCAACGATGATAGTGGCCTCTTGAACGG
1 TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
* * ** *
4089089 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGA
1 TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
4089131 TAGGG-GAGGCCTCTTGAACGATGA
1 T-GGGAGAGGCCTCTTGAACGATGA
4089155 CAGGTGAGTC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 49 0.94
43 3 0.06
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:4089661 original size:20 final size:20
Alignment explanation
Indices: 4089646--4089746 Score: 175
Period size: 20 Copynumber: 5.0 Consensus size: 20
4089636 AAATCGTAAC
4089646 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
4089666 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
4089686 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
4089706 GCGAAAATGACTATCGCAAT
1 GCGAAAATGACTATCGCAAT
** *
4089726 GCGAATTTGACTATTGCAAT
1 GCGAAAATGACTATCGCAAT
4089746 G
1 G
4089747 AGAGAATCGC
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 78 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
GCGAAAATGACTATCGCAAT
Found at i:4089825 original size:14 final size:14
Alignment explanation
Indices: 4089808--4089837 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4089798 GCGATTTTCA
4089808 TCTCTCGTTGCGAT
1 TCTCTCGTTGCGAT
*
4089822 TCTCTCGTTTCGAT
1 TCTCTCGTTGCGAT
4089836 TC
1 TC
4089838 ATTTCGCGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.30, G:0.17, T:0.47
Consensus pattern (14 bp):
TCTCTCGTTGCGAT
Found at i:4090086 original size:94 final size:94
Alignment explanation
Indices: 4089940--4090307 Score: 537
Period size: 94 Copynumber: 4.1 Consensus size: 94
4089930 ATGGATTGCA
* * *
4089940 TTAC-TTCATCCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
4090004 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4090033 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAATTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
4090098 TTAGCAGAATTGGTAGCAACTGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4090127 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTTACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
4090192 TTAGCAGAATTGGAAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
4090221 TTAC-TTCAA-C------C---A-AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
4090274 TTAGCAGTATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
4090303 TTACT
1 TTACT
4090308 AAGCAATCTA
Statistics
Matches: 258, Mismatches: 15, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
82 70 0.27
83 1 0.00
86 1 0.00
92 1 0.00
93 9 0.03
94 176 0.68
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:4090247 original size:82 final size:82
Alignment explanation
Indices: 4090151--4090307 Score: 278
Period size: 82 Copynumber: 1.9 Consensus size: 82
4090141 AAGACAAAAC
* *
4090151 AAAGACAAATACTAACTTTACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGAAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGAAGCAACCGAA
4090216 TAAATTTACTTCAACCA
66 TAAATTTACTTCAACCA
* *
4090233 AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGTATTGGCAGCAACCGAA
1 AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGAAGCAACCGAA
4090298 TAAATTTACT
66 TAAATTTACT
4090308 AAGCAATCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (82 bp):
AAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGTTTAGCAGAATTGGAAGCAACCGAA
TAAATTTACTTCAACCA
Found at i:4092074 original size:19 final size:19
Alignment explanation
Indices: 4092003--4092115 Score: 74
Period size: 19 Copynumber: 6.1 Consensus size: 19
4091993 TCTTTTGGTT
* *
4092003 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
** * *
4092022 GAGAATGACTATCGAAATGC
1 GA-AATGAAAATCGCAACGC
**
4092042 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
*
4092062 GAAATTAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
4092079 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
4092095 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
4092114 GA
1 GA
4092116 TTTTGGTTTC
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 29 0.40
20 26 0.36
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:4092146 original size:14 final size:14
Alignment explanation
Indices: 4092127--4092183 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
4092117 TTTGGTTTCG
4092127 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
4092141 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
*
4092160 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
4092174 CGTTGCGATT
1 CGTTGCGATT
4092184 TTCATTTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 2 0.06
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:4092159 original size:33 final size:33
Alignment explanation
Indices: 4092111--4092191 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
4092101 AAAATCGCAA
**
4092111 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
4092144 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
4092177 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
4092192 TCTCGTTGCG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.10, C:0.21, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:4092194 original size:21 final size:20
Alignment explanation
Indices: 4092175--4092246 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
4092165 CGATTCTCTC
4092175 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
4092195 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
4092216 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
4092236 GTTGCGATTTT
1 GTTGCGATTTT
4092247 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:4092828 original size:20 final size:20
Alignment explanation
Indices: 4092803--4093016 Score: 178
Period size: 20 Copynumber: 10.6 Consensus size: 20
4092793 CTTTAAAAAT
4092803 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4092823 CGCGTTGCGATTTTACGTATT
1 CGCGTTGCGA-TTTACGGATA
** *
4092844 TTCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * ** *
4092864 CGCATTGTGATTTACATATT
1 CGCGTTGCGATTTACGGATA
* *
4092884 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
4092904 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
4092924 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
4092944 CACGTTGCAATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
4092964 TGTTGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
4092985 CGTGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
4093006 CTCGTTGCGAT
1 CGCGTTGCGAT
4093017 AGTCAGAATC
Statistics
Matches: 151, Mismatches: 38, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
20 103 0.68
21 48 0.32
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4092864 original size:41 final size:41
Alignment explanation
Indices: 4092805--4093016 Score: 284
Period size: 41 Copynumber: 5.2 Consensus size: 41
4092795 TTAAAAATCG
*
4092805 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTTT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
4092846 CATTGCGATTTACGGATACGCATTGTGA-TTTACATATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* *
4092886 CGTTGCGATTTACAGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * *
4092926 CGTTGCGATTTACGGATACACGTTGCAATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
* * * *
4092967 TGTTGCGATTTACGGATACGTGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
4093008 CGTTGCGAT
1 CGTTGCGAT
4093017 AGTCAGAATC
Statistics
Matches: 148, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 70 0.47
41 78 0.53
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTCT
Found at i:4093160 original size:20 final size:20
Alignment explanation
Indices: 4093045--4093160 Score: 65
Period size: 21 Copynumber: 5.7 Consensus size: 20
4093035 ATTTATATGT
4093045 TCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGATTCTGG-AAA
** * * *
4093066 TCGCAATGTGAATT-TGTACTA
1 TCGCGTTGCG-ATTCTGGA-AA
* **
4093087 TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGATTCTGGA-AA
*
4093108 TCGCGTTGCGATTCTGGGAA
1 TCGCGTTGCGATTCTGGAAA
**
4093128 -CTGATTTGCGATTCTGGAAA
1 TC-GCGTTGCGATTCTGGAAA
*
4093148 TCGCGTTGTGATT
1 TCGCGTTGCGATT
4093161 TTTACTTCGC
Statistics
Matches: 69, Mismatches: 21, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
19 1 0.01
20 29 0.42
21 36 0.52
22 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATTCTGGAAA
Found at i:4095831 original size:75 final size:75
Alignment explanation
Indices: 4095737--4095940 Score: 227
Period size: 75 Copynumber: 2.7 Consensus size: 75
4095727 CATAAATAAC
* * * * * * *
4095737 GTCAAATATCAAGACTCAAACAACAATATTAGGTTTAGAATAGTAAAATCCATAA-ACAAA-CTA
1 GTCAAATTTCAATACTCAAACCATAATATTAAGTCTAGAATAATAAAATCCATAATA-AAATC-A
4095800 TAA-TATTAAAAT
64 -AATTATTAAAAT
* *
4095812 GTCAAATTTCAATATTCAAACCATAATATTAACTCTAGAATAATAAAATCCATAATAAAATCAAA
1 GTCAAATTTCAATACTCAAACCATAATATTAAGTCTAGAATAATAAAATCCATAATAAAATCAAA
*
4095877 TTATTAAAGT
66 TTATTAAAAT
*
4095887 GTCAAATCTT-AATACTCAAACCATAATATTAAGTCTAGAAAAATATTAAATCCA
1 GTCAAAT-TTCAATACTCAAACCATAATATTAAGTCTAGAATAATA--AAATCCA
4095941 AATCAAACAT
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
74 2 0.02
75 97 0.88
76 4 0.04
77 7 0.06
ACGTcount: A:0.50, C:0.14, G:0.06, T:0.29
Consensus pattern (75 bp):
GTCAAATTTCAATACTCAAACCATAATATTAAGTCTAGAATAATAAAATCCATAATAAAATCAAA
TTATTAAAAT
Found at i:4097659 original size:11 final size:12
Alignment explanation
Indices: 4097643--4097671 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4097633 GACACTTTAA
4097643 TATTAT-GATTT
1 TATTATGGATTT
4097654 TATTATGGATTT
1 TATTATGGATTT
4097666 TATTAT
1 TATTAT
4097672 TCTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:4097740 original size:75 final size:75
Alignment explanation
Indices: 4097605--4097805 Score: 218
Period size: 75 Copynumber: 2.7 Consensus size: 75
4097595 TTTCTGGATA
* *
4097605 TAATATTATGGTTTGAGTCTT-AAGATTTGACACTTTAATATTATGATTTTATTATGGATTTTAT
1 TAATATTATGGTTTGAGTCTTGAA-ATTTGACACTTTAATATTATGATTTTATTATAGATTTTAC
* *
4097669 TATTCTAGAGT
65 TATTCTAAACT
* * * * *
4097680 TAATATTATGGTTTGAATATTGAAATTTGACAGTTTAATATTGTGGTTTGT-TTATAGATTTTAC
1 TAATATTATGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTT-TATTATAGATTTTAC
*
4097744 TGTTCTAAACT
65 TATTCTAAACT
* * *
4097755 TAATATTGTTGTTTGAGTCTTGATATTTG--ACTTT-AT-TTATGATTTT-TTATA
1 TAATATTATGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTTTATTATA
4097806 TATATTTATA
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
70 6 0.06
71 7 0.07
72 2 0.02
73 4 0.04
75 84 0.79
76 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.52
Consensus pattern (75 bp):
TAATATTATGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTTTATTATAGATTTTACT
ATTCTAAACT
Found at i:4098259 original size:41 final size:41
Alignment explanation
Indices: 4098192--4098345 Score: 200
Period size: 41 Copynumber: 3.7 Consensus size: 41
4098182 TAAACTTTTA
* * *
4098192 GCGTTTGTAAACACAAACGCCACTAAAGTATGAGTCTTTAGTG
1 GCGTTTGTATA-A-AAACGCCACTAAAGTACGAGTCTTTAGCG
* *
4098235 GCGTTTGTATAAAAATGCCACTAAAGTACGAGTCTATAGCG
1 GCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCG
* *
4098276 GCATTTGTATAAAAACACCACTAAAGTACGAGTCTTTAGCG
1 GCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCG
* * *
4098317 GCGTTTGTACATAAACGCCACTAATGTAC
1 GCGTTTGTATAAAAACGCCACTAAAGTAC
4098346 TGATAAATTG
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 86 0.89
42 1 0.01
43 10 0.10
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (41 bp):
GCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCG
Found at i:4099292 original size:29 final size:30
Alignment explanation
Indices: 4099256--4099340 Score: 91
Period size: 32 Copynumber: 2.8 Consensus size: 30
4099246 GTAGAACCCT
4099256 AATAATAA-ATTGAAAAAAATTAAACCCAA
1 AATAATAATATTGAAAAAAATTAAACCCAA
* * *
4099285 AATAATAAATATTGGATAAATATTAAACCCAT
1 AATAAT-AATATT-GAAAAAAATTAAACCCAA
* *
4099317 AATAAAAAGTATTAAAAAAAATTA
1 AATAATAA-TATTGAAAAAAATTA
4099341 GGTCAAGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 6 0.13
30 2 0.04
31 13 0.29
32 24 0.53
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (30 bp):
AATAATAATATTGAAAAAAATTAAACCCAA
Found at i:4100896 original size:13 final size:13
Alignment explanation
Indices: 4100878--4100907 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4100868 GTTATAACCC
4100878 GACCCGACCCGTT
1 GACCCGACCCGTT
4100891 GACCCGACCCGTT
1 GACCCGACCCGTT
4100904 GACC
1 GACC
4100908 GTTGACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4101052 original size:29 final size:28
Alignment explanation
Indices: 4100979--4101086 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 28
4100969 AAAAGGGTAC
* *
4100979 TATTTTTGTAATTTTTAAAAAAAAAAGA
1 TATTTTAGTAATTTTTTAAAAAAAAAGA
* * **
4101007 TAATTTCGTAATTTTTTAAAAAAAATTA
1 TATTTTAGTAATTTTTTAAAAAAAAAGA
* ***
4101035 TATTTTAGTAATTATTTTGAAAATGGAGA
1 TATTTTAGTAATT-TTTTAAAAAAAAAGA
* *
4101064 TATTTTGGTAATTGTTTTGAAAA
1 TATTTTAGTAATT-TTTTAAAAA
4101087 TGATGCTATT
Statistics
Matches: 64, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 34 0.53
29 30 0.47
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (28 bp):
TATTTTAGTAATTTTTTAAAAAAAAAGA
Found at i:4101096 original size:29 final size:29
Alignment explanation
Indices: 4100918--4101103 Score: 117
Period size: 29 Copynumber: 6.5 Consensus size: 29
4100908 GTTGACCATG
* * *
4100918 TGCTATTCTGGTAATTATTTGGAAAAAGG
1 TGCTATTTTGGTAATTATTTTGAAAAAGA
* * *
4100947 TGCTATTCTGGTAATTATTTTGAAAAGGG
1 TGCTATTTTGGTAATTATTTTGAAAAAGA
* * ** *
4100976 TACTATTTTTGTAATT-TTTAAAAAAAAA
1 TGCTATTTTGGTAATTATTTTGAAAAAGA
* * * * * *
4101004 AGATAATTTCGTAATT-TTTTAAAAAAAA
1 TGCTATTTTGGTAATTATTTTGAAAAAGA
** * *
4101032 TTATATTTTAGTAATTATTTTGAAAATGGA
1 TGCTATTTTGGTAATTATTTTGAAAA-AGA
* * *
4101062 -GATATTTTGGTAATTGTTTTGAAAATGA
1 TGCTATTTTGGTAATTATTTTGAAAAAGA
*
4101090 TGCTATTTTCGTAA
1 TGCTATTTTGGTAA
4101104 AATGGTTGTT
Statistics
Matches: 125, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
28 43 0.34
29 81 0.65
30 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (29 bp):
TGCTATTTTGGTAATTATTTTGAAAAAGA
Found at i:4108286 original size:29 final size:29
Alignment explanation
Indices: 4108251--4108320 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
4108241 ACCGTTGACC
4108251 GGGTGCTATTTTGGAAATTATTTTGAAAA
1 GGGTGCTATTTTGGAAATTATTTTGAAAA
* * *
4108280 GGGTGCTATTCTGGTAATTATTTTGAAAT
1 GGGTGCTATTTTGGAAATTATTTTGAAAA
*
4108309 GGGTGTTATTTT
1 GGGTGCTATTTT
4108321 CATAATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.04, G:0.26, T:0.46
Consensus pattern (29 bp):
GGGTGCTATTTTGGAAATTATTTTGAAAA
Found at i:4108369 original size:28 final size:25
Alignment explanation
Indices: 4108318--4108390 Score: 74
Period size: 28 Copynumber: 2.8 Consensus size: 25
4108308 TGGGTGTTAT
*
4108318 TTTCATAATTTTTTTAAAAAGATAA
1 TTTCGTAATTTTTTTAAAAAGATAA
*
4108343 TTTCGTAATTTGTTTTAAAAAATGATAT
1 TTTCGTAATTT-TTTT-AAAAA-GATAA
* * *
4108371 TTTAGTAATTATTTTGAAAA
1 TTTCGTAATTTTTTTAAAAA
4108391 TAGAGATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 10 0.25
26 8 0.20
27 9 0.22
28 13 0.32
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (25 bp):
TTTCGTAATTTTTTTAAAAAGATAA
Found at i:4108407 original size:29 final size:29
Alignment explanation
Indices: 4108257--4108421 Score: 85
Period size: 29 Copynumber: 5.8 Consensus size: 29
4108247 GACCGGGTGC
* ** * *
4108257 TATTTTGGAAATTATTTTGAAAAGGGTGC
1 TATTTTGGTAATTATTTTGAAAATAGAGA
* * * *
4108286 TATTCTGGTAATTATTTTG-AAATGGGTGT
1 TATTTTGGTAATTATTTTGAAAAT-AGAGA
** *
4108315 TATTTTCATAATT-TTTT-TAAA-A-AGA
1 TATTTTGGTAATTATTTTGAAAATAGAGA
* * *
4108340 TAATTTCGTAATT-TGTTTTAAAA-A-ATGA
1 TATTTTGGTAATTAT-TTTGAAAATAGA-GA
*
4108368 TATTTTAGTAATTATTTTGAAAATAGAGA
1 TATTTTGGTAATTATTTTGAAAATAGAGA
*
4108397 TATTTTGGTAATTGTTTTTGAAAAT
1 TATTTTGGTAATT-ATTTTGAAAAT
4108422 GATGTTATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
25 13 0.12
26 3 0.03
27 5 0.05
28 30 0.28
29 47 0.43
30 11 0.10
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (29 bp):
TATTTTGGTAATTATTTTGAAAATAGAGA
Found at i:4108619 original size:6 final size:6
Alignment explanation
Indices: 4108608--4108633 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4108598 TTAGTTAAAC
4108608 ACTTTG ACTTTG ACTTTG ACTTTG AC
1 ACTTTG ACTTTG ACTTTG ACTTTG AC
4108634 CAATAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTTTG
Found at i:4111189 original size:46 final size:46
Alignment explanation
Indices: 4111136--4111390 Score: 438
Period size: 46 Copynumber: 5.5 Consensus size: 46
4111126 AAAACGAATT
4111136 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
4111182 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATTC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* * * *
4111228 CATAACTAGAATTCATGAAAGGATGTATTAAGGCATGACAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
*
4111274 CATAACTAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGC
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
* *
4111320 CATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGT
1 CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
4111366 CATAACTAAAATGCATGAAAGGATG
1 CATAACTAAAATGCATGAAAGGATG
4111391 TCATAACTAA
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 194 1.00
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.22
Consensus pattern (46 bp):
CATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGC
Found at i:4111389 original size:118 final size:118
Alignment explanation
Indices: 4111260--4111507 Score: 388
Period size: 118 Copynumber: 2.1 Consensus size: 118
4111250 ATGTATTAAG
* * *
4111260 GCATGACAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGACATGAAAGGAGGCCATAA
* * * *
4111325 CTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAACTAAAAT
66 ATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTCATAAATAAAAT
* * **
4111378 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGTTATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGACATGAAAGGAGGCCATAA
*
4111443 ATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTTATAAATAAAAT
66 ATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTCATAAATAAAAT
4111496 GCATGAAAGGAT
1 GCATGAAAGGAT
4111508 ACATTAAGGC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (118 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGACATGAAAGGAGGCCATAA
ATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTCATAAATAAAAT
Found at i:4111424 original size:164 final size:165
Alignment explanation
Indices: 4111214--4111555 Score: 499
Period size: 164 Copynumber: 2.1 Consensus size: 165
4111204 ATGCATTAAG
* * * * * *
4111214 GCATGAAAGGAT-TCCATAACTAGAATTCATGAAAGGATGTATTAAGGCATGACAGGATGCCATA
1 GCATGAAAGGATGTCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGCCATA
* * * * *
4111278 ACTAAAATGCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAATGA
66 AATAAAATGCATGAAAGGATACATTAAGACATGAAAGGAGGCCATAAATAAAATGCATGAAAGGA
* *
4111343 TGCATTAAGGCATGAAAGGATGTCATAACTAAAAT
131 TACATTAAGGCATGAAAGGATGACATAACTAAAAT
**
4111378 GCATGAAAGGATGT-CATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGTTATA
1 GCATGAAAGGATGTCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGCCATA
* * **
4111442 AATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTTATAAATAAAATGCATGAAAGGA
66 AATAAAATGCATGAAAGGATACATTAAGACATGAAAGGAGGCCATAAATAAAATGCATGAAAGGA
4111507 TACATTAAGGCATGAAAGGATGACATAACTAAAAT
131 TACATTAAGGCATGAAAGGATGACATAACTAAAAT
4111542 GCATGAAAGGATGT
1 GCATGAAAGGATGT
4111556 ATTAAGGCAT
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
164 157 0.99
165 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (165 bp):
GCATGAAAGGATGTCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGCCATA
AATAAAATGCATGAAAGGATACATTAAGACATGAAAGGAGGCCATAAATAAAATGCATGAAAGGA
TACATTAAGGCATGAAAGGATGACATAACTAAAAT
Found at i:4111428 original size:46 final size:46
Alignment explanation
Indices: 4111378--4111587 Score: 294
Period size: 46 Copynumber: 4.6 Consensus size: 46
4111368 TAACTAAAAT
* *
4111378 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGAATGCATTAAG
1 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATACATTAAG
* * * *
4111424 GCATGAAAGGAGGTTATAAATAAAATGCATGAAATGATACATTAAG
1 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATACATTAAG
* * *
4111470 GCATGAAAGGAGGTTATAAATAAAATGCATGAAAGGATACATTAAG
1 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATACATTAAG
* **
4111516 GCATGAAAGGATGACATAACTAAAATGCATGAAAGGATGTATTAAG
1 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATACATTAAG
* *
4111562 GCATGAAAAGATGCCATAACTAAAAT
1 GCATGAAAGGATGTCATAACTAAAAT
4111588 TAAAGAATAA
Statistics
Matches: 149, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 149 1.00
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (46 bp):
GCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATACATTAAG
Found at i:4111428 original size:92 final size:89
Alignment explanation
Indices: 4111144--4111434 Score: 338
Period size: 92 Copynumber: 3.2 Consensus size: 89
4111134 TTCATAACTA
4111144 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCA
1 AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCA
* * *
4111209 TT-AAGGCATGAAAGGATTCCATAACT
66 TTAAAAGCATGAAA-GAATGCAT-A-T
* * *
4111235 AGAATTCATGAAAGGATGTATTAAGGCATGACAGGATGCCATAACTAAAATGCATGAAAGGATGC
1 A-AATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGC
* *
4111300 ATTAAGA-CATGAAAGGATGCCATAACT
65 ATTAAAAGCATGAAAGAATG-CAT-A-T
* *
4111327 AAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAAGGATGT
1 -AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-
4111392 CATAACTAAAATGCATGAAAGAATGCAT-T
64 CAT---TAAAA-GCATGAAAGAATGCATAT
*
4111421 -AAGGCATGAAAGGA
1 AAATGCATGAAAGGA
4111435 GGTTATAAAT
Statistics
Matches: 173, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
91 3 0.02
92 146 0.84
93 5 0.03
94 1 0.01
96 4 0.02
97 3 0.02
98 11 0.06
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (89 bp):
AAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCA
TTAAAAGCATGAAAGAATGCATAT
Found at i:4111428 original size:138 final size:135
Alignment explanation
Indices: 4111148--4111434 Score: 384
Period size: 138 Copynumber: 2.1 Consensus size: 135
4111138 TAACTAAAAT
*
4111148 GCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
1 GCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
* * * *
4111213 GGCATGAAAGGATTCCATAACTAGAATTCATGAAAGGATGTATTAAGGCATGACAGGATGCCATA
66 GGCATGAAAGGATTCCATAACTAAAATGCATGAAAGGATGTATTAAGGCATGAAAGAATGCCAT-
*
4111278 ACTAAAAT
130 A-T-AAAG
*
4111286 GCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAA
1 GCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
*
4111351 GGCATGAAAGGATGT-CATAACTAAAATGCATGAAAGGATGTCATAACTAAAATGCATGAAAGAA
66 GGCATGAAAGGAT-TCCATAACTAAAATGCATGAAAGGATGT-AT---T--AAGGCATGAAAGAA
4111415 TG-CAT-T-AAG
124 TGCCATATAAAG
4111424 GCATGAAAGGA
1 GCATGAAAGGA
4111435 GGTTATAAAT
Statistics
Matches: 134, Mismatches: 8, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
138 113 0.84
139 3 0.02
140 1 0.01
142 1 0.01
143 3 0.02
144 13 0.10
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (135 bp):
GCATGAAAGGATGCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAA
GGCATGAAAGGATTCCATAACTAAAATGCATGAAAGGATGTATTAAGGCATGAAAGAATGCCATA
TAAAG
Found at i:4111448 original size:72 final size:72
Alignment explanation
Indices: 4111168--4111587 Score: 323
Period size: 72 Copynumber: 6.0 Consensus size: 72
4111158 ATGCATTAAG
4111168 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGAT-TCCATA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGT-CATA
*
4111232 ACTAGAAT
65 ACTAAAAT
* * * * *
4111240 TCATGAAAGGATG---T-A-T-TAAGGCATGACAGGATGCCATAACTAAAATGCATGAAAGGATG
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
*
4111299 -CAT---TAAGA-
60 TCATAACTAAAAT
*
4111307 -CATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGTCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
4111371 CTAAAAT
66 CTAAAAT
* * * *
4111378 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGTTATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
*
4111443 ATAAAAT
66 CTAAAAT
* * * * * *
4111450 GCATGAAATGAT-ACAT---T--AAGGCATGAAAGGAGGTTATAAATAAAATGCATGAAAGGAT-
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATG-CAT---T--AAGGCATGAAAGGATG
* *
4111508 ACAT---T--AAG
60 TCATAACTAAAAT
* * * *
4111516 GCATGAAAGGATGACATAACTAAAATGCATGAAAGGATGTATTAAGGCATGAAAAGATGCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
4111581 CTAAAAT
66 CTAAAAT
4111588 TAAAGAATAA
Statistics
Matches: 274, Mismatches: 37, Indels: 74
0.71 0.10 0.19
Matches are distributed among these distances:
66 80 0.29
67 16 0.06
68 8 0.03
69 2 0.01
70 9 0.03
71 15 0.05
72 144 0.53
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (72 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGTCATAA
CTAAAAT
Found at i:4111536 original size:210 final size:209
Alignment explanation
Indices: 4111168--4111587 Score: 626
Period size: 210 Copynumber: 2.0 Consensus size: 209
4111158 ATGCATTAAG
*
4111168 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATTCCATAA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATT-CATAA
* * * ** * * *
4111233 CTAGAATTCATGAAAGGATGTATTAAGGCATGACAGGATGCCATAACTAAAATGCATGAAAGGAT
65 ATAAAATGCATGAAAGGATACATTAAGGCATGAAAGGAGGCCATAAATAAAATGCATGAAAGGAT
* * * *
4111298 GCATTAAGACATGAAAGGATGCCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGA
130 ACATTAAGACATGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGA
*
4111363 TGTCATAACTAAAAT
195 TGCCATAACTAAAAT
*
4111378 GCATGAAAGGATGTCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGAGGTT-ATA
1 GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGA--TTCATA
* **
4111442 AATAAAATGCATGAAATGATACATTAAGGCATGAAAGGAGGTTATAAATAAAATGCATGAAAGGA
64 AATAAAATGCATGAAAGGATACATTAAGGCATGAAAGGAGGCCATAAATAAAATGCATGAAAGGA
* *
4111507 TACATTAAGGCATGAAAGGATGACATAACTAAAATGCATGAAAGGATGTATTAAGGCATGAAAAG
129 TACATTAAGACATGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAG
4111572 ATGCCATAACTAAAAT
194 ATGCCATAACTAAAAT
4111588 TAAAGAATAA
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
210 186 0.99
212 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (209 bp):
GCATGAAAGGATGCCATAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATTCATAAA
TAAAATGCATGAAAGGATACATTAAGGCATGAAAGGAGGCCATAAATAAAATGCATGAAAGGATA
CATTAAGACATGAAAGGATGACATAACTAAAATGCATGAAAGGATGCATTAAGGCATGAAAAGAT
GCCATAACTAAAAT
Found at i:4116583 original size:29 final size:29
Alignment explanation
Indices: 4116541--4116609 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
4116531 CACCTTCCCT
4116541 ACTCACTAATATTAGTAAGGAGTAACTTG
1 ACTCACTAATATTAGTAAGGAGTAACTTG
*
4116570 ACTCACTAATATTAGTAAGGAGTTACTTG
1 ACTCACTAATATTAGTAAGGAGTAACTTG
4116599 ACTCACTAATA
1 ACTCACTAATA
4116610 AGCATCATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (29 bp):
ACTCACTAATATTAGTAAGGAGTAACTTG
Found at i:4128730 original size:23 final size:22
Alignment explanation
Indices: 4128666--4128737 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 22
4128656 GAAGTGCCAT
*
4128666 ATAGAATTTCTCGAAGGACCAC
1 ATAGAATTTCCCGAAGGACCAC
* * * *
4128688 ATA-TATGTCCCAAAGAACCAC
1 ATAGAATTTCCCGAAGGACCAC
4128709 ATAGAATTATCCCGAAGGACCAC
1 ATAGAATT-TCCCGAAGGACCAC
*
4128732 GTAGAA
1 ATAGAA
4128738 CCCTCGACTC
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
21 16 0.42
22 5 0.13
23 17 0.45
ACGTcount: A:0.40, C:0.24, G:0.17, T:0.19
Consensus pattern (22 bp):
ATAGAATTTCCCGAAGGACCAC
Found at i:4132915 original size:21 final size:22
Alignment explanation
Indices: 4132872--4132965 Score: 84
Period size: 23 Copynumber: 4.2 Consensus size: 22
4132862 AGAAAACGCA
4132872 CCGAAGTG-CCACATAGAATATC
1 CCGAAG-GACCACATAGAATATC
*
4132894 CCGAAGGACCACATA-TATATC
1 CCGAAGGACCACATAGAATATC
* ** *
4132915 CTGAAGGACTGCATAGAAATATA
1 CCGAAGGACCACATAG-AATATC
* *
4132938 CCGAATGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAA-TATC
4132961 CCGAA
1 CCGAA
4132966 AGACAGCGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
21 18 0.32
22 15 0.27
23 23 0.41
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATATC
Found at i:4133183 original size:44 final size:44
Alignment explanation
Indices: 4133080--4133183 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 44
4133070 ACATAGACCG
** * *
4133080 ATAATCATGTAGATTATGTCACATAGCTTATATTTTATGTTCAT
1 ATAATCACATAGATCATGTCACATAGCTTATATCTTATGTTCAT
* * * *
4133124 GTAATCACGTGGATCATGTCACATAGCTTATATCTTGT-TCTCAT
1 ATAATCACATAGATCATGTCACATAGCTTATATCTTATGT-TCAT
**
4133168 ATTTTCACATAGATCA
1 ATAATCACATAGATCA
4133184 CATAGCACAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 47 0.98
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (44 bp):
ATAATCACATAGATCATGTCACATAGCTTATATCTTATGTTCAT
Found at i:4141981 original size:55 final size:55
Alignment explanation
Indices: 4141914--4142370 Score: 551
Period size: 55 Copynumber: 8.3 Consensus size: 55
4141904 TTTATTAAGA
* * *
4141914 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATAATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * *
4141969 TGCACACATAGTGCCTGTACGGTTATTCATCAAGTCATGATTAATTCTGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
4142024 TGCACACATAGTGCATGTACGGTTATTGACCAACTCGTGGTGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
** *
4142079 TGCACACATAGTGTATGTACGGTTATTCATCAACTCATGATGAATTACGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * ** *
4142134 TGCACACATA-TGCCTCTACCGTTATTCATCAACTCATGATGAATTAAGTTGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * * *
4142188 TGCAAATATAGTG-CTAATACTGTTATTCATCAACTCATGATGAATTCTGCGGATT
1 TGCACACATAGTGCCT-GTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * * *
4142243 TGCACACATAGTGCTTGTACGATTATTCATTAACTCATGATGATTTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
4142298 TACACACATAGTACCTGTACGGTTATTCATAAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
4142353 TTCAAACATAGTGTCTGT
1 TGCACACATAGTGCCTGT
4142371 TTGGTAATCC
Statistics
Matches: 342, Mismatches: 56, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
54 48 0.14
55 291 0.85
56 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:4142319 original size:219 final size:219
Alignment explanation
Indices: 4141939--4142362 Score: 580
Period size: 219 Copynumber: 1.9 Consensus size: 219
4141929 TATACGGTAG
** * * *
4141939 TTCATCAACTCATAATGAATTCCGTGGATTTGCACACATAGTGCCTGTACGGTTATTCATCAAGT
1 TTCATCAACTCATAATGAATTAAGTGGATTTGCAAACATAGTGCCTATACGGTTATTCATCAACT
* * * * * *
4142004 CATGATTAATTCTGTGGATTTGCACACATAGTGCATGTACGGTTATTGACCAACTCGTGGTGAAT
66 CATGATGAATTCTGCGGATTTGCACACATAGTGCATGTACGATTATTCACCAACTCATGATGAAT
* ** *
4142069 TCCGTGGATTTGCACACATAGTGTATGTACGGTTATTCATCAACTCATGATGAATTACGTGGATT
131 TCCGTGGATTTACACACATAGTACATGTACGGTTATTCATAAACTCATGATGAATTACGTGGATT
*
4142134 TGCACACATATGCCTCTACCGTTA
196 TGCAAACATATGCCTCTACCGTTA
* * * *
4142158 TTCATCAACTCATGATGAATTAAGTTGATTTGCAAATATAGTG-CTAATACTGTTATTCATCAAC
1 TTCATCAACTCATAATGAATTAAGTGGATTTGCAAACATAGTGCCT-ATACGGTTATTCATCAAC
* ** *
4142222 TCATGATGAATTCTGCGGATTTGCACACATAGTGCTTGTACGATTATTCATTAACTCATGATGAT
65 TCATGATGAATTCTGCGGATTTGCACACATAGTGCATGTACGATTATTCACCAACTCATGATGAA
* * *
4142287 TTTCGTGGATTTACACACATAGTACCTGTACGGTTATTCATAAACTCATGATGAATTCCGTGGAT
130 TTCCGTGGATTTACACACATAGTACATGTACGGTTATTCATAAACTCATGATGAATTACGTGGAT
*
4142352 TTTCAAACATA
195 TTGCAAACATA
4142363 GTGTCTGTTT
Statistics
Matches: 176, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
218 2 0.01
219 174 0.99
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (219 bp):
TTCATCAACTCATAATGAATTAAGTGGATTTGCAAACATAGTGCCTATACGGTTATTCATCAACT
CATGATGAATTCTGCGGATTTGCACACATAGTGCATGTACGATTATTCACCAACTCATGATGAAT
TCCGTGGATTTACACACATAGTACATGTACGGTTATTCATAAACTCATGATGAATTACGTGGATT
TGCAAACATATGCCTCTACCGTTA
Found at i:4142815 original size:95 final size:95
Alignment explanation
Indices: 4142690--4142911 Score: 282
Period size: 95 Copynumber: 2.3 Consensus size: 95
4142680 TGACTTCATA
** * * * * *
4142690 GTATCGATACTACTACCCTGGTATCGATACTTCTACACTATGGAACCTATACCCCCTTATGGTAT
1 GTATCGATACCCCTACCATGATATCGATACTACTACACTATGGAACCGATACCCCCTTACGGTAT
* *
4142755 CGATACCAATTTTAGGTTCAATGTTGCCTG
66 CGATACCAATTTTAGCTTCAATGATGCCTG
* * * * * *
4142785 GTATCGATACCCTTACCATGATATCGATACTACTATACTATGGTACCGATACCCCTTTCCGGTGT
1 GTATCGATACCCCTACCATGATATCGATACTACTACACTATGGAACCGATACCCCCTTACGGTAT
* *
4142850 CGATACCAATTTTAGCTTCGATGATGCTTG
66 CGATACCAATTTTAGCTTCAATGATGCCTG
*
4142880 GTATCGATACCCCTACCATGGTATCGATACTA
1 GTATCGATACCCCTACCATGATATCGATACTA
4142912 TCTCGTCGGT
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
95 108 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (95 bp):
GTATCGATACCCCTACCATGATATCGATACTACTACACTATGGAACCGATACCCCCTTACGGTAT
CGATACCAATTTTAGCTTCAATGATGCCTG
Found at i:4143549 original size:15 final size:15
Alignment explanation
Indices: 4143529--4143558 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4143519 ACTTACTTTC
4143529 CCCTTTAAATTAAAT
1 CCCTTTAAATTAAAT
*
4143544 CCCTTTAATTTAAAT
1 CCCTTTAAATTAAAT
4143559 AGGTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (15 bp):
CCCTTTAAATTAAAT
Found at i:4145569 original size:55 final size:55
Alignment explanation
Indices: 4145510--4145772 Score: 395
Period size: 55 Copynumber: 4.8 Consensus size: 55
4145500 TATATGGTAG
* *
4145510 TTCATCAACTCATGATGAATTTCATGGATTTGCACACATAGTGTTTGTACGGTTA
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGTCTGTACGGTTA
* * *
4145565 TTCATCAACTCATGAT-AAATTCTGTAGATTTGCACACATAGTGTTTGTACGGTTA
1 TTCATCAACTCATGATGAATTTC-GTGGATTTGCACACATAGTGTCTGTACGGTTA
* *
4145620 TTCATCAACTTATGATGAATTTCGTGGATTTACACACATAGTGTCTGTACGGTTA
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGTCTGTACGGTTA
* * *
4145675 TTCATCAACTCATGAT-AAATTCTGTGGATTTGCACACATAGTGCCTGTACGGTAA
1 TTCATCAACTCATGATGAATTTC-GTGGATTTGCACACATAGTGTCTGTACGGTTA
*
4145730 TTCATCAACTCATGATGAATTCCGTGGATTTGCACACATAGTG
1 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTG
4145773 CCTCTTTGGT
Statistics
Matches: 189, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
54 10 0.05
55 170 0.90
56 9 0.05
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (55 bp):
TTCATCAACTCATGATGAATTTCGTGGATTTGCACACATAGTGTCTGTACGGTTA
Found at i:4145639 original size:110 final size:110
Alignment explanation
Indices: 4145485--4145772 Score: 450
Period size: 110 Copynumber: 2.6 Consensus size: 110
4145475 TTTATTAAGA
* * * * * *
4145485 TGCACACGTAGTTCCTATATGGTAGTTCATCAACTCATGATGAATTTCATGGATTTGCACACATA
1 TGCACACATAGTGCCTGTACGGTAATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
*
4145550 GTGTTTGTACGGTTATTCATCAACTCATGATAAATTCTGTAGATT
66 GTGTCTGTACGGTTATTCATCAACTCATGATAAATTCTGTAGATT
** * * *
4145595 TGCACACATAGTGTTTGTACGGTTATTCATCAACTTATGATGAATTTCGTGGATTTACACACATA
1 TGCACACATAGTGCCTGTACGGTAATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
*
4145660 GTGTCTGTACGGTTATTCATCAACTCATGATAAATTCTGTGGATT
66 GTGTCTGTACGGTTATTCATCAACTCATGATAAATTCTGTAGATT
*
4145705 TGCACACATAGTGCCTGTACGGTAATTCATCAACTCATGATGAATTCCGTGGATTTGCACACATA
1 TGCACACATAGTGCCTGTACGGTAATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
4145770 GTG
66 GTG
4145773 CCTCTTTGGT
Statistics
Matches: 159, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
110 159 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (110 bp):
TGCACACATAGTGCCTGTACGGTAATTCATCAACTCATGATGAATTTCGTGGATTTGCACACATA
GTGTCTGTACGGTTATTCATCAACTCATGATAAATTCTGTAGATT
Found at i:4146146 original size:22 final size:20
Alignment explanation
Indices: 4146097--4146148 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4146087 TGGCTCCATA
*
4146097 GTATCGATACTACTACCTTG
1 GTATCGATACTACTAACTTG
* *
4146117 GTACCGATACTTCTATACTATG
1 GTATCGATACTACTA-ACT-TG
4146139 GTATCGATAC
1 GTATCGATAC
4146149 CCCCTTACGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 13 0.50
21 2 0.08
22 11 0.42
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (20 bp):
GTATCGATACTACTAACTTG
Found at i:4146227 original size:17 final size:19
Alignment explanation
Indices: 4146185--4146221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4146175 AGTTTTGATG
4146185 TTACC-TGGTATCGATACCC
1 TTACCATGGTATCGATA-CC
4146204 TTACCATGGTATCGATAC
1 TTACCATGGTATCGATAC
4146222 TACCATACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.32
Consensus pattern (19 bp):
TTACCATGGTATCGATACC
Found at i:4146289 original size:94 final size:95
Alignment explanation
Indices: 4146097--4146335 Score: 283
Period size: 94 Copynumber: 2.5 Consensus size: 95
4146087 TGGCTCCATA
* * * * *
4146097 GTATCGATACTAC-TACCTTGGTACCGATACTTCTATACTATGGTATCGATACCCCCTTACGGTA
1 GTATCGATAC-CCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTACGGTA
* ** *
4146161 TCGATACCAATTTTAGTTTTGATGTTACCTG
65 TCGATACCAATTTTAGCTTCAATGTGACCTG
* * *
4146192 GTATCGATACCCTTACCATGGTATCGATACTACCATACTAT-GTATTGATA-CCCCTTTCTGGTG
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTAC-GGTA
*
4146255 TCGATACCAATTTTAGCTTCAATGATGA-TTG
65 TCGATACCAATTTTAGCTTCAATG-TGACCTG
*
4146286 GTATCGATACCCTTACCATGGTATCGATACTACC-T-CTTTGGTATCGATAC
1 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATAC
4146336 TGATTGAATC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
92 3 0.02
93 16 0.13
94 69 0.56
95 36 0.29
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (95 bp):
GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCCTTACGGTAT
CGATACCAATTTTAGCTTCAATGTGACCTG
Found at i:4156955 original size:15 final size:16
Alignment explanation
Indices: 4156935--4156964 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4156925 TGAATTATGA
4156935 TTTTGTTCA-TGTTTC
1 TTTTGTTCATTGTTTC
4156950 TTTTGTTCATTGTTT
1 TTTTGTTCATTGTTT
4156965 AAATATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.07, C:0.10, G:0.13, T:0.70
Consensus pattern (16 bp):
TTTTGTTCATTGTTTC
Found at i:4170970 original size:56 final size:56
Alignment explanation
Indices: 4170910--4171362 Score: 552
Period size: 56 Copynumber: 8.2 Consensus size: 56
4170900 TGCGCACATG
* * *
4170910 TAGTGTCGATACAGTCATTCATAAACATATTATGAATTCCT-TGGATTTTGCACACT
1 TAGTGTCGATACGGTCGTTCATAAACATATTATGAATT-CTGTGGGTTTTGCACACT
*
4170966 TAGTG-CTGATACGGTCGTTCATAAACATATTATGAATTATGTGGGTTTTGCACACT
1 TAGTGTC-GATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* *
4171022 TAGTGTCGATACTGTCGTTCATAAACATGTTATGAATTCTGTGGGTTTTGCACACT
1 TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* *
4171078 TA-T-TACTGATACGGTCGTTCATAAACATATTATGAATTCTATGGGTTTTGCACAAT
1 TAGTGT-C-GATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* * * *
4171134 TAGTG-CGATATGGTCATTCATAAACATATTATGAATTCTATGGGTTTTGCACAAT
1 TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* * ***
4171189 TAGTG-CGATATGGTCATTCATAAACATATTATGAATTCCACGGGTTTTGCACACT
1 TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* *
4171244 TAGTGTCAATACAGTCGTTCATAAACATATTATGAATTCTGTGGG--TTGCACACT
1 TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
* * * * *
4171298 TATTGTTGATACGGAT-GTTCATAAACATGTTATGAATT-TCGTCGG--TTGTACACT
1 TAGTGTCGATACGG-TCGTTCATAAACATATTATGAATTCT-GTGGGTTTTGCACACT
4171352 TAGTGTCGATA
1 TAGTGTCGATA
4171363 GTGCACATAG
Statistics
Matches: 355, Mismatches: 32, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.00
54 62 0.17
55 109 0.31
56 181 0.51
57 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (56 bp):
TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTTTGCACACT
Found at i:4172447 original size:19 final size:19
Alignment explanation
Indices: 4172419--4172468 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
4172409 TTCTTTTTTC
*
4172419 TTTT-TTCTCTTTTCCCCT
1 TTTTCTTCTCTTCTCCCCT
*
4172437 TTTTCTTCTCTTCTCCTCT
1 TTTTCTTCTCTTCTCCCCT
4172456 TTTTCTTACTCTT
1 TTTTCTT-CTCTT
4172469 AAAATACCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTCTTCTCTTCTCCCCT
Found at i:4173512 original size:18 final size:18
Alignment explanation
Indices: 4173489--4173528 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
4173479 ATGAAAAGTT
4173489 GTACTAAAATTCAATCGA
1 GTACTAAAATTCAATCGA
4173507 GTACTAAAATTCAATCGA
1 GTACTAAAATTCAATCGA
4173525 GTAC
1 GTAC
4173529 CCAATGCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (18 bp):
GTACTAAAATTCAATCGA
Found at i:4177946 original size:56 final size:56
Alignment explanation
Indices: 4177870--4178332 Score: 607
Period size: 56 Copynumber: 8.3 Consensus size: 56
4177860 TTCTTTGAGG
* *
4177870 TGCACA-TGTAGTGTCAATACGGTCGTTCATAAACATATTATGAATTCTGTGGATTT
1 TGCACACT-TAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
* * ** * *
4177926 TTCACACTTAGTGTTGATACGGTCAATCTTAAACATATTCTGAATTCTGTGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
* * * * * *
4177982 CGTACACTTAGTGCCGATACGGTCATTCATAAACATATTATGAATTATGTTGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
* *
4178038 TGCACACTTAGTGTCGATACAGAT-GTTCATAAACATATTATGAATTCTGAGGGTTT
1 TGCACACTTAGTGTCGATAC-GGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
* * *
4178094 TGCACACTTAGTGTCGATACAGACGTTCATAAACATATTATGAATTCTGAGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
*
4178150 TGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACT-TGGGTTT
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATT-CTGTGGGTTT
* * * *
4178206 TGCACACTTAGTGTTGATATGGTCGTTCCTAAACATATTATGAATTATGTGGG--T
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
* * *
4178260 TGCACACTTAGTATCGATACGGTCGTTCATAAACATATTATGAAGTCTGTGAG--T
1 TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
4178314 TGCACACTTAGTGTCGATA
1 TGCACACTTAGTGTCGATA
4178333 GTACACATAG
Statistics
Matches: 356, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
54 66 0.19
55 1 0.00
56 284 0.80
57 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.37
Consensus pattern (56 bp):
TGCACACTTAGTGTCGATACGGTCGTTCATAAACATATTATGAATTCTGTGGGTTT
Found at i:4192982 original size:31 final size:31
Alignment explanation
Indices: 4192944--4193068 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
4192934 CCCGAAGAAC
* * *
4192944 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
4192975 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4193006 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4193037 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4193068 C
1 C
4193069 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4193823 original size:20 final size:21
Alignment explanation
Indices: 4193798--4193845 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
4193788 TATGCACATT
*
4193798 TTCCCT-TTAGGGGGAATCGA
1 TTCCCTATAAGGGGGAATCGA
*
4193818 TTCCCTACTAAGGGGGTATCGA
1 TTCCCTA-TAAGGGGGAATCGA
4193840 TTCCCT
1 TTCCCT
4193846 CATGACATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
22 18 0.75
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCCCTATAAGGGGGAATCGA
Found at i:4196785 original size:31 final size:31
Alignment explanation
Indices: 4196747--4196871 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
4196737 CCCGAAGGAC
* * *
4196747 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
4196778 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4196809 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4196840 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
4196871 C
1 C
4196872 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:4197704 original size:21 final size:21
Alignment explanation
Indices: 4197674--4197718 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4197664 ATTTTGTCGT
* *
4197674 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
4197695 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
4197716 TTG
1 TTG
4197719 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:4198639 original size:81 final size:81
Alignment explanation
Indices: 4198459--4199075 Score: 828
Period size: 81 Copynumber: 7.6 Consensus size: 81
4198449 GCATTTACTT
** * * * * * * *
4198459 TTCATCTAACTTTCATGATTAACCCTTTTTTGTCAAATGCAAAGTTAGGCCATTTATCTTTTTAC
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATC-TTTTAC
4198524 TCAACGGTCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * *
4198541 TTCATCTAACAGACATAATTGACACTTTTCTGCCAAGTGCACAGCTAGGCCATTTATCTTTTATT
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
* * **
4198606 CAACAGCCTTTAACTA
66 CAACGGTCTTTAACCG
4198622 TTCATCTAACTGGCATAATTGACACATTTT-T-CCAAATGCACAGCTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACAC-TTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
*
4198685 TCAACAGTCTTTAACCG
65 TCAACGGTCTTTAACCG
* * *
4198702 TTCATCTAACT-TCATAATTGACA-TCTTTCTACCAAATGCACAACTAGGCCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACT-TTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTAC
4198765 TCAACGGTCTTTAACCG
65 TCAACGGTCTTTAACCG
* * * *
4198782 TTCATTTAACTGGCATAATTAACACATTTCTGCCAAATGCAAAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
4198847 CAACGGTCTTTAACCA
66 CAACGGTCTTTAACCG
* **
4198863 TTCATCTAACTGACATAATTGACACCCTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
4198928 CAACGGTCTTTAACTG
66 CAACGGTCTTTAACCG
* * * *
4198944 TTCATCTAACTAGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTTATCTTTAACT
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
*
4199009 CAATGGTCTTTAACCG
66 CAACGGTCTTTAACCG
* ** *
4199025 TTCATCTAACTGGCATAATTGACACCTTTCTGGAAAATGCACAGTTAGGCC
1 TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCC
4199076 TCAAAGGCAC
Statistics
Matches: 475, Mismatches: 54, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
77 1 0.00
78 3 0.01
79 12 0.03
80 112 0.24
81 296 0.62
82 51 0.11
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.35
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACTTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAACCG
Found at i:4199935 original size:20 final size:20
Alignment explanation
Indices: 4199907--4199998 Score: 98
Period size: 20 Copynumber: 4.5 Consensus size: 20
4199897 ACTCTATTAC
*
4199907 GGTACCGATACCATCCTCAT
1 GGTATCGATACCATCCTCAT
*
4199927 GGTATCGATACCATCCCCAT
1 GGTATCGATACCATCCTCAT
* *
4199947 GGTATCGATA-CACCCCTCTT
1 GGTATCGATACCA-TCCTCAT
*
4199967 GGTATCGATACCA-CCTGAGT
1 GGTATCGATACCATCCTCA-T
4199987 CGGTATCGATAC
1 -GGTATCGATAC
4199999 TACTCAACAG
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.08
20 43 0.70
21 13 0.21
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATCCTCAT
Found at i:4204200 original size:81 final size:81
Alignment explanation
Indices: 4204098--4204644 Score: 632
Period size: 81 Copynumber: 6.6 Consensus size: 81
4204088 GCATTTACTT
** * * ** * * *
4204098 TTCATCTAACTTACATGATTGAC-CCTTTTCTACCAAATGTATAGTTAGACCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACC-TTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTAC
* *
4204162 TCAACGGTCTTCAATTG
65 TCAACGGTCTTTAATCG
* **
4204179 TTCATCTAACAGGCATAATTGACATATTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
***
4204244 CAGTTGTCTTTAATCG
66 CAACGGTCTTTAATCG
*
4204260 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACATAGCTA-GCTCATTTATCTTTTAC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGC-CATTTATCTTTTAC
* *
4204324 TCAGCGGTTTTTAATCG
65 TCAACGGTCTTTAATCG
* * *
4204341 TTCATTTAACTGGCATAATTGACACCTTTATGCCAAATGCACAGCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
4204406 CAACGGTCTTTAAACGGTCTTTAACTG
66 CAACGGTCTTT-AA-------T--C-G
* *
4204433 TTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
*
4204498 CAACGATCTTTAA-CTG
66 CAACGGTCTTTAATC-G
* * * *
4204514 TTCATCTACCTGGCATAATTGACACCTTTTTGCCAAATTCACATCTAGGCCATTTATCTTTTACT
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
*
4204579 CAATGGTCTTTAATCG
66 CAACGGTCTTTAATCG
* * * *
4204595 TTCATCTAACTGGCATAATTGACACATTTCTTCCAAATGCACAGTTAGGC
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGC
4204645 TTTAAAGGCA
Statistics
Matches: 404, Mismatches: 47, Indels: 30
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.00
81 320 0.79
82 5 0.01
89 1 0.00
91 3 0.01
92 73 0.18
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTTATCTTTTACT
CAACGGTCTTTAATCG
Found at i:4204538 original size:173 final size:173
Alignment explanation
Indices: 4204249--4204591 Score: 530
Period size: 173 Copynumber: 2.0 Consensus size: 173
4204239 TTACTCAGTT
* * *
4204249 GTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACATAGCTAGCTCATT
1 GTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTAGCTCATT
* * * *
4204314 TATCTTTTACTCAGCGGTTTTTAATCGTTCATTTAACTGGCATAATTGACACCTTTATGCCAAAT
66 TATCTTTTACTCAACGATCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAAT
4204379 GCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACG
131 GCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACG
4204422 GTCTTTAA-CTGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTAGGC-CA
1 GTCTTTAATC-GTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTA-GCTCA
* *
4204485 TTTATCTTTTACTCAACGATCTTTAA-CTGTTCATCTACCTGGCATAATTGACACCTTTTTGCCA
64 TTTATCTTTTACTCAACGATCTTTAATC-GTTCATCTAACTGGCATAATTGACACCTTTATGCCA
* * *
4204549 AATTCACATCTAGGCCATTTATCTTTTACTCAATGGTCTTTAA
128 AATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAA
4204592 TCGTTCATCT
Statistics
Matches: 155, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
172 2 0.01
173 151 0.97
174 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (173 bp):
GTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTAGCTCATT
TATCTTTTACTCAACGATCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAAT
GCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAAACG
Found at i:4204570 original size:254 final size:254
Alignment explanation
Indices: 4204164--4204644 Score: 716
Period size: 254 Copynumber: 1.9 Consensus size: 254
4204154 TCTTTTACTC
* * * *
4204164 AACGGTCTTCAATTGTTCATCTAACAGGCATAATTGACATATTTCTGCCAAATACACAGCTAGGC
1 AACGGTCTTCAACTGTTCATCTAACAGGCATAATTGACACATTTATGCCAAATACACAACTAGGC
**
4204229 CATTTATCTTTTACTCAGTTGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
66 CATTTATCTTTTACTCAGACGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
* * * *
4204294 AAATACATAGCTAGCTCATTTATCTTTTACTCAGCGGTTTTTAATCGTTCATTTAACTGGCATAA
131 AAATACACAGCTAGCTCATTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCATAA
*
4204359 TTGACACCTTTATGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTA
196 TTGACACATTTATGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTA
* * *
4204418 AACGGTCTTTAACTGTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATACACAACTAGGC
1 AACGGTCTTCAACTGTTCATCTAACAGGCATAATTGACACATTTATGCCAAATACACAACTAGGC
* *
4204483 CATTTATCTTTTACTCA-ACGATCTTTAA-CTGTTCATCTACCTGGCATAATTGACACCTTTTTG
66 CATTTATCTTTTACTCAGACG-TCTTTAATC-GTTCATCTAACTGGCATAATTGACACCTTTCTG
* * *
4204546 CCAAATTCACATCTAGGC-CATTTATCTTTTACTCAATGGTCTTTAATCGTTCATCTAACTGGCA
129 CCAAATACACAGCTA-GCTCATTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCA
* * *
4204610 TAATTGACACATTTCTTCCAAATGCACAGTTAGGC
193 TAATTGACACATTTATGCCAAATGCACAGCTAGGC
4204645 TTTAAAGGCA
Statistics
Matches: 202, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
253 2 0.01
254 198 0.98
255 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (254 bp):
AACGGTCTTCAACTGTTCATCTAACAGGCATAATTGACACATTTATGCCAAATACACAACTAGGC
CATTTATCTTTTACTCAGACGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC
AAATACACAGCTAGCTCATTTATCTTTTACTCAACGGTCTTTAATCGTTCATCTAACTGGCATAA
TTGACACATTTATGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTA
Found at i:4204993 original size:54 final size:54
Alignment explanation
Indices: 4204925--4205067 Score: 173
Period size: 55 Copynumber: 2.6 Consensus size: 54
4204915 ACATATATTT
* * *
4204925 CCCATACGGAAATTCATACACTTATTAT-AGATTTATTAGTTCAT-ACACATAGTG
1 CCCATACGGAAATTCATACACTTAGTATGA-ATTTATCAGTT-ATCACACAAAGTG
* * * *
4204979 TCCATACGGAAATTCATACACGTAGTATGAATTTCTCAGTTTTGCACACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTATCAGTTAT-CACACAAAGTG
*
4205034 CCCATACGGAAATTTATACACTTAGTATGAATTT
1 CCCATACGGAAATTCATACACTTAGTATGAATTT
4205068 CTTAACTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 34 0.45
55 41 0.54
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (54 bp):
CCCATACGGAAATTCATACACTTAGTATGAATTTATCAGTTATCACACAAAGTG
Found at i:4205531 original size:20 final size:20
Alignment explanation
Indices: 4205506--4205561 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4205496 TCTGTGATCA
*
4205506 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
4205526 ATGGTATCGATACTC-CCCTC
1 ATGGTATCGATAC-CACCCTC
*
4205546 TTGGTATCGATACCAC
1 ATGGTATCGATACCAC
4205562 TTGAATCGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:4217074 original size:63 final size:63
Alignment explanation
Indices: 4217001--4217138 Score: 179
Period size: 63 Copynumber: 2.2 Consensus size: 63
4216991 CTTAATGTGT
* * * * *
4217001 GTATCGATACACTACCTATGTATCGGTACACAAATTACATTTGAACTTTT-CATTTAAAGGGGG
1 GTATCGATACACTACCTAGGTATCGATACACAAATTACACTCGAAATTTTCCATTTAAA-GGGG
* * * *
4217064 GTATCAATACACTGCCTAGGTATCGATACCCAAATTACACTCGAAATTTTCCATTTCAAGGGG
1 GTATCGATACACTACCTAGGTATCGATACACAAATTACACTCGAAATTTTCCATTTAAAGGGG
4217127 GTATCGATACAC
1 GTATCGATACAC
4217139 CCCTGAAGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 57 0.89
64 7 0.11
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (63 bp):
GTATCGATACACTACCTAGGTATCGATACACAAATTACACTCGAAATTTTCCATTTAAAGGGG
Found at i:4217942 original size:21 final size:21
Alignment explanation
Indices: 4217917--4217960 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4217907 GTTACAGATT
*
4217917 AATAATAAACAAATAAA-ATTA
1 AATAAAAAACAAA-AAATATTA
*
4217938 AATAAAAAATAAAAAATATTA
1 AATAAAAAACAAAAAATATTA
4217959 AA
1 AA
4217961 ATTTACGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
AATAAAAAACAAAAAATATTA
Found at i:4219573 original size:13 final size:13
Alignment explanation
Indices: 4219555--4219581 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4219545 ATATTTTGCT
4219555 GTTGTAAAAAACA
1 GTTGTAAAAAACA
4219568 GTTGTAAAAAACA
1 GTTGTAAAAAACA
4219581 G
1 G
4219582 GCTTATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (13 bp):
GTTGTAAAAAACA
Found at i:4220172 original size:31 final size:31
Alignment explanation
Indices: 4220134--4220211 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
4220124 TAAAATACAC
4220134 TTTTAGTACCTAAACTATCAATTTTATTTTA
1 TTTTAGTACCTAAACTATCAATTTTATTTTA
4220165 TTTTAGTACCTAAACTATCAATTTTATTTTA
1 TTTTAGTACCTAAACTATCAATTTTATTTTA
4220196 TTTTAGTACCTAAACT
1 TTTTAGTACCTAAACT
4220212 TTTATTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.50
Consensus pattern (31 bp):
TTTTAGTACCTAAACTATCAATTTTATTTTA
Found at i:4222298 original size:17 final size:19
Alignment explanation
Indices: 4222262--4222305 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
4222252 ATGATATTTT
*
4222262 AAAAATATTATTAAATATA
1 AAAAATAATATTAAATATA
4222281 AAAAATAAT-TTAAA-ATA
1 AAAAATAATATTAAATATA
*
4222298 AATAATAA
1 AAAAATAA
4222306 AAATAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATAATATTAAATATA
Found at i:4223432 original size:18 final size:18
Alignment explanation
Indices: 4223411--4223446 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4223401 TGTCTTTCTT
4223411 AAAGACGACCACCCTCTA
1 AAAGACGACCACCCTCTA
4223429 AAAGACGACCACCCTCTA
1 AAAGACGACCACCCTCTA
4223447 CACGTATCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.39, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAGACGACCACCCTCTA
Found at i:4225254 original size:64 final size:64
Alignment explanation
Indices: 4225100--4225258 Score: 225
Period size: 64 Copynumber: 2.5 Consensus size: 64
4225090 TACACTTGGG
* * *
4225100 GTGTATCGGTACACTAATTGCATTCGATGTTTTAATAAAGCCAGAGTGTATCGATGCATAGGAT
1 GTGTATCGGTACACAAAATGCATTTGATGTTTTAATAAAGCCAGAGTGTATCGATGCATAGGAT
* *
4225164 GTGTATTGGTACACAAAATGCATTTGATGTTTTAATAAAGCCAGGAGTGTATCGATGCAT-GGTT
1 GTGTATCGGTACACAAAATGCATTTGATGTTTTAATAAAGCCA-GAGTGTATCGATGCATAGGAT
4225228 GT-TCATCGGTACACAAAATAGC-TTTGATGTT
1 GTGT-ATCGGTACACAAAAT-GCATTTGATGTT
4225259 GGGTGTGCAT
Statistics
Matches: 86, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
63 1 0.01
64 67 0.78
65 18 0.21
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (64 bp):
GTGTATCGGTACACAAAATGCATTTGATGTTTTAATAAAGCCAGAGTGTATCGATGCATAGGAT
Found at i:4227954 original size:14 final size:14
Alignment explanation
Indices: 4227935--4227964 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4227925 ATAGCGAGGC
*
4227935 TGTATCGATATATA
1 TGTATCGATACATA
4227949 TGTATCGATACATA
1 TGTATCGATACATA
4227963 TG
1 TG
4227965 CATGAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (14 bp):
TGTATCGATACATA
Found at i:4230727 original size:22 final size:22
Alignment explanation
Indices: 4230703--4230745 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4230693 TCAGAGCCAA
4230703 CCCATTAAGGGGGGAATCGGTAC
1 CCCATT-AGGGGGGAATCGGTAC
* *
4230726 CCCCTTGGGGGGGAATCGGT
1 CCCATTAGGGGGGAATCGGT
4230746 TCCCTCTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.19, C:0.23, G:0.40, T:0.19
Consensus pattern (22 bp):
CCCATTAGGGGGGAATCGGTAC
Found at i:4231759 original size:18 final size:18
Alignment explanation
Indices: 4231736--4231776 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4231726 AGACATTTGA
* *
4231736 TCCTCTGTTCGTGCTTGT
1 TCCTCTGGTCGAGCTTGT
*
4231754 TCCTCTGGTGGAGCTTGT
1 TCCTCTGGTCGAGCTTGT
4231772 TCCTC
1 TCCTC
4231777 GTGCTGTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.29, G:0.24, T:0.44
Consensus pattern (18 bp):
TCCTCTGGTCGAGCTTGT
Found at i:4232554 original size:88 final size:88
Alignment explanation
Indices: 4232405--4232581 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
4232395 CATGTTTGGA
4232405 TCATCGAGATTAGGATTAGGAATTTGTTAGATAGGTGGAGGATTTGGAGGTGAGTTTGGAGGTTG
1 TCATCGAGATTAGGATTAGGAATTTGTTAGATAGGTGGAGGATTTGGAGGTGAGTTTGGAGGTTG
4232470 GCTAAAACGACTAGAGGAAGGTC
66 GCTAAAACGACTAGAGGAAGGTC
4232493 TCATCGAGATTAGGATTAGGAATTTGTTAGATAGGTGGAGGATTTGGAGGTGAGTTTGGAGGTTG
1 TCATCGAGATTAGGATTAGGAATTTGTTAGATAGGTGGAGGATTTGGAGGTGAGTTTGGAGGTTG
4232558 GCTAAAACGACTAGAGGAAGGTC
66 GCTAAAACGACTAGAGGAAGGTC
4232581 T
1 T
4232582 AGAACGTTTG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.28, C:0.07, G:0.36, T:0.29
Consensus pattern (88 bp):
TCATCGAGATTAGGATTAGGAATTTGTTAGATAGGTGGAGGATTTGGAGGTGAGTTTGGAGGTTG
GCTAAAACGACTAGAGGAAGGTC
Found at i:4233673 original size:90 final size:90
Alignment explanation
Indices: 4233517--4233694 Score: 284
Period size: 90 Copynumber: 2.0 Consensus size: 90
4233507 CCTAACACAC
* * *
4233517 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
4233582 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
* * *
4233607 CCTTTTATATCCAAGTTACCCTAATCATATCATGGATTTTATTATTTCAAATTAATTAAATGTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
4233672 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
4233695 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:4238576 original size:22 final size:21
Alignment explanation
Indices: 4238534--4238573 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4238524 GAGTTTATTT
*
4238534 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4238555 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4238574 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4241225 original size:210 final size:210
Alignment explanation
Indices: 4240847--4241228 Score: 518
Period size: 210 Copynumber: 1.8 Consensus size: 210
4240837 TAGGAGGAGC
* * *
4240847 GACCAAGGGAGAAGAAGTTCATATATGAGAGCTTGTTCAACCTCAGAATAACCTTTATGAAAGAA
1 GACCAAGGGAAAAGAAGTTCATATATAAGAGCTTGTTCAACCTAAGAATAACCTTTATGAAAGAA
* * * * * *
4240912 TATGGGCTTCATATAAGAGATCTCGTCTAATCTTTTCAGAGAGGAGGAAGCGACTAAGGGAGAAG
66 TATGAGCTTAATATAAGAGACCACG-CTAATCTTTTCAGAGAGGAAGAAGCGACCAAGGGAGAAG
* *
4240977 AAATTCATATATGAGAGCTTGTTCAACCTCAAAATGACCTTTATGTAAGATCTCACCTAATCTTT
130 AAATTCATATAGGAAAGCTTGTTCAACCTCAAAATGACCTTTATGTAAGATCTCACCTAATCTTT
4241042 CCAAAGACTAAGAAGT
195 CCAAAGACTAAGAAGT
*
4241058 GACCAAGGGAAAAGAAGTTCATATATAAGAGTTTGTTCAACCTAAGAATAACCTTTAT-AGAAGA
1 GACCAAGGGAAAAGAAGTTCATATATAAGAGCTTGTTCAACCTAAGAATAACCTTTATGA-AAGA
* ** * *
4241122 ATATATATTTTAATATGAGAGCCCACG-TAATC-TTTCAAGAGAGGAAGAAGCGACCAAGGGAGA
65 ATAT-GAGCTTAATATAAGAGACCACGCTAATCTTTTC-AGAGAGGAAGAAGCGACCAAGGGAGA
* * * *
4241185 AGAAGTTCATATAGGAAAGTTTGTTCAACCTTATAATGACCTTT
128 AGAAATTCATATAGGAAAGCTTGTTCAACCTCAAAATGACCTTT
4241229 GAAGAAGAAT
Statistics
Matches: 147, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
209 4 0.03
210 68 0.46
211 62 0.42
212 13 0.09
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (210 bp):
GACCAAGGGAAAAGAAGTTCATATATAAGAGCTTGTTCAACCTAAGAATAACCTTTATGAAAGAA
TATGAGCTTAATATAAGAGACCACGCTAATCTTTTCAGAGAGGAAGAAGCGACCAAGGGAGAAGA
AATTCATATAGGAAAGCTTGTTCAACCTCAAAATGACCTTTATGTAAGATCTCACCTAATCTTTC
CAAAGACTAAGAAGT
Found at i:4241236 original size:115 final size:115
Alignment explanation
Indices: 4241034--4241240 Score: 294
Period size: 115 Copynumber: 1.8 Consensus size: 115
4241024 AGATCTCACC
* * *
4241034 TAATCTTTCCAAAGACTAAGAAGTGACCAAGGGAAAAGAAGTTCATATATAAGAGTTTGTTCAAC
1 TAATCTTTCCAAAGACGAAGAAGCGACCAAGGGAAAAGAAGTTCATATAGAAGAGTTTGTTCAAC
4241099 CTAAGAATAACCTTTATAGAAGAATATATATTTTAATATGAGAGCCCACG
66 CTAAGAATAACCTTTATAGAAGAATATATATTTTAATATGAGAGCCCACG
* *
4241149 TAATCTTT-CAAGAGAGGAAGAAGCGACCAAGGGAGAAGAAGTTCATATAGGAA-AGTTTGTTCA
1 TAATCTTTCCAA-AGACGAAGAAGCGACCAAGGGAAAAGAAGTTCATATA-GAAGAGTTTGTTCA
* * *
4241212 ACCTTATAATGACCTTTGA-AGAAGAATAT
64 ACCTAAGAATAACCTTT-ATAGAAGAATAT
4241241 GAAGTTTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
114 3 0.04
115 75 0.93
116 3 0.04
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (115 bp):
TAATCTTTCCAAAGACGAAGAAGCGACCAAGGGAAAAGAAGTTCATATAGAAGAGTTTGTTCAAC
CTAAGAATAACCTTTATAGAAGAATATATATTTTAATATGAGAGCCCACG
Found at i:4243982 original size:22 final size:22
Alignment explanation
Indices: 4243940--4243982 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
4243930 AACTATTTAT
*
4243940 TATATAATGTTTATCATGAATA
1 TATATAATGTTTATCACGAATA
* *
4243962 TATATGATGTTTATTACGAAT
1 TATATAATGTTTATCACGAAT
4243983 GTTATTTCGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (22 bp):
TATATAATGTTTATCACGAATA
Found at i:4245400 original size:116 final size:115
Alignment explanation
Indices: 4245090--4245569 Score: 439
Period size: 116 Copynumber: 4.2 Consensus size: 115
4245080 TGGGTGTTAC
* * * * *
4245090 AATCTTTCTAGAGAGGATGAAGCGACCAAGGGAT-AAGAAGTTCATAT-AGTAGAGCTTGTTAAA
1 AATCTTTCCAAAGAGGAGGAAGCGAACAAGGG-TGAAGAAGTTCATATAAG-AGAGCTTGTTCAA
* * * *
4245153 CCT--TAATGAACTTTATGAAAGAATATGAAGTTCATATAGGAGAGCTTGTCT
64 CCTCAAAATGAACTTTATGGAAGAATAAGAAGTTCATATAGGAGAGCTCG-CT
* * * * * * * *
4245204 AATCTTTCTAGAGAGGAGGAAGAG-AC--CGATGGAGAAGTTCATATAAAAGAGATTGTTCAACC
1 AATCTTTCCAAAGAGGAGGAAGCGAACAAGGGTGAAGAAGTTCATATAAGAGAGCTTGTTCAACC
* * *
4245266 TCAAAATGACCTTTATGGAAGAATAA-AGAGTTCATATAGGAGGGTTCGCAT
66 TCAAAATGAACTTTATGGAAGAATAAGA-AGTTCATATAGGAGAGCTCGC-T
* *
4245317 AATCTTTCCAAAGAGGAGGAAGCGAACAAGGGTGAAGAAGTTTATATAGGAGAGCTTGTTCAACC
1 AATCTTTCCAAAGAGGAGGAAGCGAACAAGGGTGAAGAAGTTCATATAAGAGAGCTTGTTCAACC
* ** * *
4245382 TCAATATGGCCTTTATGGAAGAATATGAAGTTCATATAGGAGAGCTCATCT
66 TCAAAATGAACTTTATGGAAGAATAAGAAGTTCATATAGGAGAGCTC-GCT
* * *
4245433 AATC-TT-CAGAGAGAGAAGAAAGC-AACCAAGGGAGAAGAAGTTCATATAAGAGAGCTTGCTT-
1 AATCTTTCCA-A-AGAGGAGGAAGCGAA-CAAGGGTGAAGAAGTTCATATAAGAGAGCTTG-TTC
* * * * *
4245494 AACCTCAAAATGAACTTTATAGAAGAATATAG-AGTTTATATATGATAGCTCGTTT
62 AACCTCAAAATGAACTTTATGGAAGAATA-AGAAGTTCATATAGGAGAGCTCG-CT
4245549 AATCTTT-CAAAGAGGAGGAAG
1 AATCTTTCCAAAGAGGAGGAAG
4245570 AGACAGAGAA
Statistics
Matches: 299, Mismatches: 49, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
110 1 0.00
111 27 0.09
112 3 0.01
113 59 0.20
114 26 0.09
115 14 0.05
116 160 0.54
117 9 0.03
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (115 bp):
AATCTTTCCAAAGAGGAGGAAGCGAACAAGGGTGAAGAAGTTCATATAAGAGAGCTTGTTCAACC
TCAAAATGAACTTTATGGAAGAATAAGAAGTTCATATAGGAGAGCTCGCT
Found at i:4245842 original size:2 final size:2
Alignment explanation
Indices: 4245835--4245866 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4245825 TTCCCCTTTG
4245835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4245867 TTGAGGCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4251550 original size:35 final size:35
Alignment explanation
Indices: 4251504--4251648 Score: 136
Period size: 35 Copynumber: 4.2 Consensus size: 35
4251494 ATTCTAAATG
*
4251504 TTTACAGTTATCAGAT-A-TTTCATCGCTATAAGATA
1 TTTACAATTATCAGATGATTTTCA--GCTATAAGATA
* * *
4251539 TTTACAATTATCATATGATTTTCAGTTATTAGATA
1 TTTACAATTATCAGATGATTTTCAGCTATAAGATA
* * * *
4251574 TTTACAATTATCAGATGACTTACAGTTATCAGATA
1 TTTACAATTATCAGATGATTTTCAGCTATAAGATA
* * *
4251609 TTTACAGA-TATTAGATGA-TTACAGTTATAAGATA
1 TTTACA-ATTATCAGATGATTTTCAGCTATAAGATA
4251643 TTTACA
1 TTTACA
4251649 GATATTAGAT
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
34 21 0.22
35 69 0.71
36 2 0.02
37 5 0.05
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (35 bp):
TTTACAATTATCAGATGATTTTCAGCTATAAGATA
Found at i:4251649 original size:17 final size:17
Alignment explanation
Indices: 4251504--4251675 Score: 141
Period size: 17 Copynumber: 9.9 Consensus size: 17
4251494 ATTCTAAATG
4251504 TTTACAGTTATCAGATA
1 TTTACAGTTATCAGATA
* *
4251521 TTT-CATCGCTATAAGATA
1 TTTACA--GTTATCAGATA
* *
4251539 TTTACAATTATCATATGA
1 TTTACAGTTATCAGAT-A
* *
4251557 TTTTCAGTTATTAGATA
1 TTTACAGTTATCAGATA
*
4251574 TTTACAATTATCAGATGA
1 TTTACAGTTATCAGAT-A
*
4251592 CTTACAGTTATCAGATA
1 TTTACAGTTATCAGATA
* *
4251609 TTTACAGATATTAGATGA
1 TTTACAGTTATCAGAT-A
*
4251627 -TTACAGTTATAAGATA
1 TTTACAGTTATCAGATA
* * *
4251643 TTTACAGATATTAGATGT
1 TTTACAGTTATCAGAT-A
*
4251661 TTTATAGTTATCAGA
1 TTTACAGTTATCAGA
4251676 CTCATATTAA
Statistics
Matches: 121, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
16 3 0.02
17 63 0.52
18 53 0.44
19 2 0.02
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTACAGTTATCAGATA
Found at i:4251659 original size:69 final size:70
Alignment explanation
Indices: 4251534--4251675 Score: 173
Period size: 69 Copynumber: 2.0 Consensus size: 70
4251524 CATCGCTATA
* * *
4251534 AGATATTTACAATTATCATATGATTTTCAGTTATTAGATATTTACAATTATCAGATGACTTACAG
1 AGATATTTACAATTATCAGATGATTTACAGTTATAAGATATTTACAATTATCAGATGACTTACAG
4251599 TTATC
66 TTATC
* * ** *
4251604 AGATATTTACAGA-TATTAGATGA-TTACAGTTATAAGATATTTACAGA-TATTAGATGTTTTAT
1 AGATATTTACA-ATTATCAGATGATTTACAGTTATAAGATATTTACA-ATTATCAGATGACTTAC
4251666 AGTTATC
64 AGTTATC
4251673 AGA
1 AGA
4251676 CTCATATTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
69 41 0.66
70 20 0.32
71 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (70 bp):
AGATATTTACAATTATCAGATGATTTACAGTTATAAGATATTTACAATTATCAGATGACTTACAG
TTATC
Found at i:4255941 original size:20 final size:20
Alignment explanation
Indices: 4255903--4255955 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
4255893 GTGAGAACAT
4255903 TCTCATTTTCTTTCACTTTTTC
1 TCTCATTTT-TTTCAC-TTTTC
*
4255925 TCTCATTTTTTT-GCTTTTC
1 TCTCATTTTTTTCACTTTTC
* *
4255944 TCCCCTTTTTTT
1 TCTCATTTTTTT
4255956 TCGTATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 15 0.54
20 1 0.04
21 3 0.11
22 9 0.32
ACGTcount: A:0.06, C:0.26, G:0.02, T:0.66
Consensus pattern (20 bp):
TCTCATTTTTTTCACTTTTC
Found at i:4256989 original size:20 final size:19
Alignment explanation
Indices: 4256948--4256991 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
4256938 CGATTTGAAG
4256948 TTTTAATTTTTTATTTAAA
1 TTTTAATTTTTTATTTAAA
* * *
4256967 TTTTCATTTTATTGTTTATA
1 TTTTAATTTT-TTATTTAAA
4256987 TTTTA
1 TTTTA
4256992 TGGAATTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTTTATTTAAA
Found at i:4259684 original size:43 final size:43
Alignment explanation
Indices: 4259626--4259717 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
4259616 GTCTGACTAT
*
4259626 TTATTTGACTTAGTAGTTTAT-ATTAACTAGAATTCTTATCCTA
1 TTATTTGACTTAGTAGTTT-TGATTAACTAGAACTCTTATCCTA
* * *
4259669 TTATTTGACTTAGTAGTTTTGATTCACTATAACTCTTATCCTT
1 TTATTTGACTTAGTAGTTTTGATTAACTAGAACTCTTATCCTA
4259712 TTATTT
1 TTATTT
4259718 TCGTGAATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.52
Consensus pattern (43 bp):
TTATTTGACTTAGTAGTTTTGATTAACTAGAACTCTTATCCTA
Found at i:4261055 original size:67 final size:67
Alignment explanation
Indices: 4260947--4261079 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
4260937 CTTTTGTTAG
*
4260947 ATATAATTGAAAGGTGTAATAGAAACTCTATCTAGCATCTGGATAAGGGAGCTTGTCGTGGCAAT
1 ATATAATTGAAAGGTGTAATAGAAACTCTATCGAGCATCTGGATAAGGGAGCTTGTCGTGGCAAT
4261012 TC
66 TC
4261014 ATATAATTGAAAGGTGTAATAGAAACTCTATCGAGCATCTGGATAAGGGAGCTTGTCGTGGCAAT
1 ATATAATTGAAAGGTGTAATAGAAACTCTATCGAGCATCTGGATAAGGGAGCTTGTCGTGGCAAT
4261079 T
66 T
4261080 AATTACTGCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (67 bp):
ATATAATTGAAAGGTGTAATAGAAACTCTATCGAGCATCTGGATAAGGGAGCTTGTCGTGGCAAT
TC
Found at i:4264782 original size:20 final size:20
Alignment explanation
Indices: 4264749--4264786 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4264739 AGTCCTGAAT
4264749 ATTTAATTTCAATTAATTAA
1 ATTTAATTTCAATTAATTAA
4264769 ATTTAGATTT-AATTAATT
1 ATTTA-ATTTCAATTAATT
4264787 TGAAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (20 bp):
ATTTAATTTCAATTAATTAA
Found at i:4264870 original size:90 final size:89
Alignment explanation
Indices: 4264758--4264920 Score: 290
Period size: 90 Copynumber: 1.8 Consensus size: 89
4264748 TATTTAATTT
*
4264758 CAATTAATTAAATTTAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAGGGTAACT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAGGGTAACT
4264823 TGGATATAAGAGGATTATTAAAATC
65 TGGATATAAGAGGATTATTAAAATC
*
4264848 CAATTAATTAAATATAGATTTAATTAATTTGAAATTATAAAACCCTAATATGATTAGGGTAACTT
1 CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTT
*
4264913 GGTTATAA
66 GGATATAA
4264921 AAGGGTGTGT
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 30 0.43
90 40 0.57
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (89 bp):
CAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTT
GGATATAAGAGGATTATTAAAATC
Done.