Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold202
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: 2706578
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 5 of 16
Found at i:756456 original size:13 final size:13
Alignment explanation
Indices: 756438--756463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
756428 CTATTTATGA
756438 TGTATCGATACAC
1 TGTATCGATACAC
756451 TGTATCGATACAC
1 TGTATCGATACAC
756464 ATAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:756560 original size:16 final size:15
Alignment explanation
Indices: 756533--756563 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
756523 GTGATACGTG
756533 AACAGTATGAACAGT
1 AACAGTATGAACAGT
756548 AACAGTGATGAACAGT
1 AACAGT-ATGAACAGT
756564 GATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (15 bp):
AACAGTATGAACAGT
Found at i:757419 original size:21 final size:21
Alignment explanation
Indices: 757394--757445 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
757384 GCTCTCCCCC
757394 TTAATACAAACGTTCTTCCCT
1 TTAATACAAACGTTCTTCCCT
*
757415 TTAATACAAATGTTCTTCCCT
1 TTAATACAAACGTTCTTCCCT
757436 TTAATACAAA
1 TTAATACAAA
757446 ATTTATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAATACAAACGTTCTTCCCT
Found at i:758297 original size:13 final size:13
Alignment explanation
Indices: 758279--758303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
758269 ACTGAAGCAA
758279 TGTATCGATACAT
1 TGTATCGATACAT
758292 TGTATCGATACA
1 TGTATCGATACA
758304 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:759991 original size:84 final size:83
Alignment explanation
Indices: 759837--760004 Score: 196
Period size: 84 Copynumber: 2.0 Consensus size: 83
759827 ATTTTCCACT
* * * * *
759837 TGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAACT
1 TGCAACTCATTTATATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAACT
759902 CATTGATTTACTTTCATTC
66 CATTGATTTACTTTC-TTC
* * * *
759921 TGCAACTCTTTTATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTACA
1 TGCAACTCATTTATATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTAAA
* *
759984 CTTATTGATTTATTTTCTTC
64 CTCATTGATTTACTTTCTTC
760004 T
1 T
760005 TTGAGTTTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
82 6 0.08
83 9 0.13
84 56 0.79
ACGTcount: A:0.24, C:0.20, G:0.04, T:0.52
Consensus pattern (83 bp):
TGCAACTCATTTATATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAACT
CATTGATTTACTTTCTTC
Found at i:762177 original size:16 final size:15
Alignment explanation
Indices: 762156--762186 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
762146 TCGATACATC
762156 ACTGTTCATCACTGTT
1 ACTGTTCAT-ACTGTT
762172 ACTGTTCATACTGTT
1 ACTGTTCATACTGTT
762187 CACGTATCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (15 bp):
ACTGTTCATACTGTT
Found at i:762257 original size:18 final size:19
Alignment explanation
Indices: 762231--762268 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
762221 TGTTCATCAC
762231 TATTCA-TGTATCGATACA
1 TATTCAGTGTATCGATACA
*
762249 TATTTATGTGTATCGATACA
1 TATTCA-GTGTATCGATACA
762269 GTGTATCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (19 bp):
TATTCAGTGTATCGATACA
Found at i:762274 original size:13 final size:13
Alignment explanation
Indices: 762256--762281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
762246 ACATATTTAT
762256 GTGTATCGATACA
1 GTGTATCGATACA
762269 GTGTATCGATACA
1 GTGTATCGATACA
762282 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:767232 original size:17 final size:16
Alignment explanation
Indices: 767212--767256 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
767202 AAAAACCAAA
*
767212 AAAAATAAAACATAAAT
1 AAAAATAAAAAAT-AAT
*
767229 AAAAACAAAAAATAAT
1 AAAAATAAAAAATAAT
*
767245 AATAATAAAAAA
1 AAAAATAAAAAA
767257 AGGAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (16 bp):
AAAAATAAAAAATAAT
Found at i:767252 original size:26 final size:26
Alignment explanation
Indices: 767198--767266 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
767188 AATGTAGTGT
767198 TAAAAAAAACCAAAAAA-AATAAAACA
1 TAAAAAAAA-CAAAAAATAATAAAACA
*
767224 TAAATAAAAACAAAAAATAATAATA-A
1 TAAA-AAAAACAAAAAATAATAAAACA
**
767250 TAAAAAAAGGAAAAAAT
1 TAAAAAAAACAAAAAAT
767267 CGAATGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 11 0.29
26 16 0.42
27 11 0.29
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.13
Consensus pattern (26 bp):
TAAAAAAAACAAAAAATAATAAAACA
Found at i:776487 original size:23 final size:23
Alignment explanation
Indices: 776461--776505 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
776451 AGCTGCTGCC
*
776461 AGCAGTTGAAAGTGGTTGCTACT
1 AGCAGCTGAAAGTGGTTGCTACT
776484 AGCAGCTGAAAGTGGTTGCTAC
1 AGCAGCTGAAAGTGGTTGCTAC
776506 CATGGGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (23 bp):
AGCAGCTGAAAGTGGTTGCTACT
Found at i:779870 original size:20 final size:20
Alignment explanation
Indices: 779833--779886 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
779823 TTCTACAATT
*
779833 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
779854 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* *
779874 TGTGTTGATACAT
1 TGTATCGATACAT
779887 GCTTGAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:779997 original size:20 final size:20
Alignment explanation
Indices: 779943--779999 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
779933 TTTTGGAAAA
*
779943 ATTATATCGATACATGCTTGC
1 ATTATATCGATACAT-TTTGC
* * * *
779964 AATGTATTGATACATTTTTC
1 ATTATATCGATACATTTTGC
779984 ATTATATCGATACATT
1 ATTATATCGATACATT
780000 CTGGGGTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (20 bp):
ATTATATCGATACATTTTGC
Found at i:785149 original size:150 final size:148
Alignment explanation
Indices: 784800--785239 Score: 442
Period size: 150 Copynumber: 2.9 Consensus size: 148
784790 GAGAACTCGA
* * * * *
784800 AAAGGATAAAAACAAACCTACTCTTAATTCACATCTTCGGTGTAGAAGTGGGCTCAGTGATTTTA
1 AAAGGATAAAAACAAACCTACTCCTAATTCACATCTTCGGCGTAGAAGCGGACTC-GTAATTTTA
* * * * * *
784865 TAGGA-GTA-AGTTTCGGGGATGATGGTAAAATCTACTTAAGGGTTACTATCGACTTTA-AAATG
65 TAAGACG-AGA-TTTCAGGGATGATGATAAAATCTCCCTAAGGGTTAC-ATCGAC-TTAGAAGTG
* *
784927 CCAAGTGATCCTAGGGAACTCAG
126 CCTAGTGATCCTAGGAAACTCAG
* ** * *
784950 AAAGGATAAAAGCAAACCTACTCCTAATTTGCACCTTCGGCGTAAAAGCGGACTCGGTAATTTTA
1 AAAGGATAAAAACAAACCTACTCCTAATTCACATCTTCGGCGTAGAAGCGGACTC-GTAATTTTA
* ** *
785015 TAAGACGAGATTTCAAGGACAATGATAAAATCTCCCTAAGGGTTACCATCGGCTTAGAAGTGCCT
65 TAAGACGAGATTTCAGGGATGATGATAAAATCTCCCTAAGGGTTA-CATCGACTTAGAAGTGCCT
*
785080 ATTGATCCT-GGAAAACTCAG
129 AGTGATCCTAGG-AAACTCAG
* * * * *
785100 AAAGGATAAAAACAAACCTACTCCTAATTCATATCTTCAGCGTCGAAGCGAACCTCGTAGTTTTA
1 AAAGGATAAAAACAAACCTACTCCTAATTCACATCTTCGGCGTAGAAGCGGA-CTCGTAATTTTA
* * * * *
785165 T-AGTACTAGGTTTTAGGGATGATGTTAAAATCTCCCTAAAGGTTA-ATCGACTTAGAAGTGCCT
65 TAAG-ACGAGATTTCAGGGATGATGATAAAATCTCCCTAAGGGTTACATCGACTTAGAAGTGCCT
*
785228 GGTGATCCTAGG
129 AGTGATCCTAGG
785240 GGATTTTGGC
Statistics
Matches: 237, Mismatches: 45, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
148 24 0.10
149 9 0.04
150 198 0.84
151 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (148 bp):
AAAGGATAAAAACAAACCTACTCCTAATTCACATCTTCGGCGTAGAAGCGGACTCGTAATTTTAT
AAGACGAGATTTCAGGGATGATGATAAAATCTCCCTAAGGGTTACATCGACTTAGAAGTGCCTAG
TGATCCTAGGAAACTCAG
Found at i:785693 original size:142 final size:143
Alignment explanation
Indices: 785531--785898 Score: 548
Period size: 142 Copynumber: 2.6 Consensus size: 143
785521 AAGGAATATG
* *
785531 AAAAGTTTTGAAA-ATTTCTATACTTTTACGGAAAACTATAGGAATATTAGAAATCTTGAAAAAT
1 AAAAGTTTT-AAAGATTTCTATACTCTTACGGAAAACCATAGGAATATTAGAAATCTTGAAAAAT
* * *
785595 TAAGATAATTATTTTTATTTAATTTTTAATTTTCAAAA-AAATTCATTTCGTACCTTAGTGGAGA
65 TAAGATAATTATTTTTATTTAA-TTTTAATTTCCAAAACAAATTCATTTCGTACCTTAATAGAGA
785659 ACCGAAAAGATA-CA
129 ACCGAAAAGATATCA
* *
785673 AAAAGTTTTAAAGATTTCTATA-TCCCTACGAAAAACCATAGGAATATTAGAAATCTTGAAAAAT
1 AAAAGTTTTAAAGATTTCTATACT-CTTACGGAAAACCATAGGAATATTAGAAATCTTGAAAAAT
*
785737 TAAGATAATAATTTTTATTTAATTTTAATTTCCAAAACAAATTCATTTCGTACCTTAATAGAGAA
65 TAAGATAATTATTTTTATTTAATTTTAATTTCCAAAACAAATTCATTTCGTACCTTAATAGAGAA
* *
785802 TCGAAAAGATATGA
130 CCGAAAAGATATCA
* * * *
785816 AAAA-TTTTAAAGATTTCTATACCCTTACGGAAAACCGTAAGAATATTAGCAATCTTGAAAAATT
1 AAAAGTTTTAAAGATTTCTATACTCTTACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATT
785880 AAGATAATTATTTTTATTT
66 AAGATAATTATTTTTATTT
785899 TAGTGATAAA
Statistics
Matches: 204, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
141 18 0.09
142 181 0.89
143 5 0.02
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.36
Consensus pattern (143 bp):
AAAAGTTTTAAAGATTTCTATACTCTTACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATT
AAGATAATTATTTTTATTTAATTTTAATTTCCAAAACAAATTCATTTCGTACCTTAATAGAGAAC
CGAAAAGATATCA
Found at i:786779 original size:12 final size:12
Alignment explanation
Indices: 786753--786803 Score: 52
Period size: 11 Copynumber: 4.4 Consensus size: 12
786743 GTTTTTTCTA
*
786753 TTTTCTCTC-TT
1 TTTTCTTTCTTT
*
786764 TTTTCTTCCTTT
1 TTTTCTTTCTTT
786776 TTTT-TTTCTTT
1 TTTTCTTTCTTT
* *
786787 TTTCCTTTCTTG
1 TTTTCTTTCTTT
786799 TTTTC
1 TTTTC
786804 ACTTGCTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 16 0.50
12 16 0.50
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:788980 original size:43 final size:41
Alignment explanation
Indices: 788884--789040 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
788874 GACTGAGTCG
* * *
788884 ACAAGTAAACAAAGGATAAAGGAGTTAACCAGGATTGAACCA
1 ACAAGTAAACAAAGGATAAAGGA-TTTACCCGGATTAAACCA
* *
788926 ACAAGTTAACAAAGGATTAAAGGATTTACCCGGCATTAAACCC
1 ACAAGTAAACAAAGGA-TAAAGGATTTACCCGG-ATTAAACCA
* * * **
788969 ACAGGTAAACAAAGGATAAAGAATTTGA-CCGATATTAAACTG
1 ACAAGTAAACAAAGGATAAAGGATTT-ACCCG-GATTAAACCA
* *
789011 ACAAGTCAACAAAGGATAAAAAGATTTACC
1 ACAAGTAAACAAAGGAT-AAAGGATTTACC
789041 TGGAACTGAG
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
42 57 0.61
43 37 0.39
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (41 bp):
ACAAGTAAACAAAGGATAAAGGATTTACCCGGATTAAACCA
Found at i:789058 original size:85 final size:85
Alignment explanation
Indices: 788875--789121 Score: 241
Period size: 85 Copynumber: 2.9 Consensus size: 85
788865 GTTACCCAAG
* * * * ** *
788875 ACTGAGTCGACAAGTAAACAAAGGATAAAGGAGTTAACC-AGGATTGAACCAACAAGTTAACAAA
1 ACTGAGTCGACAGGTAAACAAAGGATAAAGAATTTGACCGA-GATTGAACTGACAAGTCAACAAA
* * *
788939 GGATTAAAGGATTTACCCGGC
65 GGATAAAAAGATTTACCCGGA
* * ** * * *
788960 ATTAAACCCACAGGTAAACAAAGGATAAAGAATTTGACCGATATTAAACTGACAAGTCAACAAAG
1 ACTGAGTCGACAGGTAAACAAAGGATAAAGAATTTGACCGAGATTGAACTGACAAGTCAACAAAG
*
789025 GATAAAAAGATTTACCTGGA
66 GATAAAAAGATTTACCCGGA
* * *
789045 ACTGAGTCGACAGGTAAACAAA--ATATTA-CATGTTGACCGGGATTGAACTGACAAGTCAACAA
1 ACTGAGTCGACAGGTAAACAAAGGATA-AAGAAT-TTGACCGAGATTGAACTGACAAGTCAACAA
*
789107 TGGATAAAAAGATTT
64 AGGATAAAAAGATTT
789122 GATAAGGTTA
Statistics
Matches: 130, Mismatches: 29, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
83 5 0.04
84 42 0.32
85 82 0.63
86 1 0.01
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (85 bp):
ACTGAGTCGACAGGTAAACAAAGGATAAAGAATTTGACCGAGATTGAACTGACAAGTCAACAAAG
GATAAAAAGATTTACCCGGA
Found at i:789242 original size:44 final size:44
Alignment explanation
Indices: 789157--789415 Score: 204
Period size: 44 Copynumber: 5.9 Consensus size: 44
789147 ACTAGGGCTA
** * ** *
789157 AACCATCACGTTGAAC-AAGATGAAAA-AGTTTGATTACGGCAG
1 AACCATCACGTCAAACGAGGATGAAAAGAGTTTGACCAAGGCAG
* * *
789199 AACCATCACGTCGAATGAGGATGAAAGGAGTTTGACCAAGGCAG
1 AACCATCACGTCAAACGAGGATGAAAAGAGTTTGACCAAGGCAG
* ** * * * *
789243 AACTATCACGTTGAACAAGGGTG-AAAGAAGTTTGACCAGGGTAG
1 AACCATCACGTCAAACGAGGATGAAAAG-AGTTTGACCAAGGCAG
* * * * * * *
789287 AATCGTCACGTCAAATGA-TAGTGAAAAGAGTTTAACCAGGGTAG
1 AACCATCACGTCAAACGAGGA-TGAAAAGAGTTTGACCAAGGCAG
* **
789331 AACCATCACATCAAACGATAATGAAATAG-GTTTGACCAAGGCAG
1 AACCATCACGTCAAACGAGGATGAAA-AGAGTTTGACCAAGGCAG
* *
789375 AACTATCACGTCAAACGAGGATGAAAAGAGTTTAACCAAGG
1 AACCATCACGTCAAACGAGGATGAAAAGAGTTTGACCAAGG
789416 TGATAATCGA
Statistics
Matches: 171, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
42 14 0.08
43 13 0.08
44 137 0.80
45 7 0.04
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (44 bp):
AACCATCACGTCAAACGAGGATGAAAAGAGTTTGACCAAGGCAG
Found at i:789312 original size:88 final size:86
Alignment explanation
Indices: 789157--789415 Score: 252
Period size: 88 Copynumber: 3.0 Consensus size: 86
789147 ACTAGGGCTA
** * *
789157 AACCATCACGTTGAACAAGATGAAAAAGTTTGATTACGGCAGAACCATCACGTCGAATGAGGATG
1 AACCATCACGTTGAACAAGATGAAAAAGTTTGACCACGGCAGAACCATCACGTCAAATGAAGATG
* *
789222 AAAGGAGTTTGACCAAGGCAG
66 AAAAGAGTTTAACCAAGGCAG
* * * * * *
789243 AACTATCACGTTGAACAAGGGTGAAAGAAGTTTGACCAGGGTAGAATCGTCACGTCAAATGATAG
1 AACCATCACGTTGAACAA-GATGAAA-AAGTTTGACCACGGCAGAACCATCACGTCAAATGA-AG
* *
789308 -TGAAAAGAGTTTAACCAGGGTAG
63 ATGAAAAGAGTTTAACCAAGGCAG
* ** * * * * *
789331 AACCATCACATCAAACGATA-ATGAAATAGGTTTGACCAAGGCAGAACTATCACGTCAAACGAGG
1 AACCATCACGTTGAAC-A-AGATGAAA-AAGTTTGACCACGGCAGAACCATCACGTCAAATGAAG
789395 ATGAAAAGAGTTTAACCAAGG
63 ATGAAAAGAGTTTAACCAAGG
789416 TGATAATCGA
Statistics
Matches: 138, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
86 17 0.12
87 7 0.05
88 111 0.80
89 2 0.01
90 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (86 bp):
AACCATCACGTTGAACAAGATGAAAAAGTTTGACCACGGCAGAACCATCACGTCAAATGAAGATG
AAAAGAGTTTAACCAAGGCAG
Found at i:789447 original size:46 final size:46
Alignment explanation
Indices: 789309--789685 Score: 202
Period size: 46 Copynumber: 8.3 Consensus size: 46
789299 AAATGATAGT
* * * * *
789309 GAAAAGAGTTTAACCAGGGTAG-AACC-ATCACA-TCAAACGATAAT
1 GAAAAGAGTTTGACCAAGGTGGTAACCGAT-ACAGTCAAACGAGAAC
** * * *
789353 GAAATAG-GTTTGACCAAGGCAG-AA-CTAT-CACGTCAAACGAGGAT
1 GAAA-AGAGTTTGACCAAGGTGGTAACCGATACA-GTCAAACGAGAAC
* * * *
789397 GAAAAGAGTTTAACCAAGGTGATAATCGATACAGTCAAATGAGAAC
1 GAAAAGAGTTTGACCAAGGTGGTAACCGATACAGTCAAACGAGAAC
* * * * * *
789443 GAAAAAAGTTTGACTAGGGTGGTAACCAATTCAGTCAAACAAGAAC
1 GAAAAGAGTTTGACCAAGGTGGTAACCGATACAGTCAAACGAGAAC
* ** ** * *
789489 AAAAAGAGTTCAATTAAGGTGGTAATCGATACAGTCAAACGATG-AT
1 GAAAAGAGTTTGACCAAGGTGGTAACCGATACAGTCAAACGA-GAAC
* *
789535 GAAAAGGGTTTGACC-AGAGTGGTAACCGATAC-GTCAAACGAGAAT
1 GAAAAGAGTTTGACCAAG-GTGGTAACCGATACAGTCAAACGAGAAC
* * * ** *
789580 GAAAA-AGGTTTGACC-AGAGTGGGAACTGCTATTGTCAAATGAGAAC
1 GAAAAGA-GTTTGACCAAG-GTGGTAACCGATACAGTCAAACGAGAAC
* * * * **
789626 GAAAAGGGTTTGACCAGGGTGATATAACCGATTCAGTCAAATAAGAAC
1 GAAAAGAGTTTGACCAAGGTG--GTAACCGATACAGTCAAACGAGAAC
* *
789674 AAAAAGGGTTTG
1 GAAAAGAGTTTG
789686 CTTGGTAAAG
Statistics
Matches: 257, Mismatches: 59, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
42 2 0.01
43 3 0.01
44 46 0.18
45 43 0.17
46 131 0.51
47 4 0.02
48 28 0.11
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
GAAAAGAGTTTGACCAAGGTGGTAACCGATACAGTCAAACGAGAAC
Found at i:789585 original size:92 final size:92
Alignment explanation
Indices: 789382--789586 Score: 236
Period size: 92 Copynumber: 2.2 Consensus size: 92
789372 CAGAACTATC
* * *
789382 ACGTCAAACGAGGATG-AAAAGAGTTTAACCAAGGTGATAATCGATACAGTCAAATGAGAACGAA
1 ACGTCAAACGAGAATGAAAAAGAGTTCAACCAAGGTGATAATCGATACAGTCAAACGAGAACGAA
* *
789446 AAAAGTTTGACTAGGGTGGTAACCAAT
66 AAAAGTTTGACCAGAGTGGTAACCAAT
* * * ** * *
789473 TCAGTCAAACAAGAA-CAAAAAGAGTTCAATTAAGGTGGTAATCGATACAGTCAAACGATG-ATG
1 AC-GTCAAACGAGAATGAAAAAGAGTTCAACCAAGGTGATAATCGATACAGTCAAACGA-GAACG
** *
789536 AAAAGGGTTTGACCAGAGTGGTAACCGAT
64 AAAAAAGTTTGACCAGAGTGGTAACCAAT
789565 ACGTCAAACGAGAATGAAAAAG
1 ACGTCAAACGAGAATGAAAAAG
789587 GTTTGACCAG
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
91 12 0.13
92 79 0.86
93 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (92 bp):
ACGTCAAACGAGAATGAAAAAGAGTTCAACCAAGGTGATAATCGATACAGTCAAACGAGAACGAA
AAAAGTTTGACCAGAGTGGTAACCAAT
Found at i:790568 original size:159 final size:158
Alignment explanation
Indices: 790320--790797 Score: 672
Period size: 159 Copynumber: 3.0 Consensus size: 158
790310 TTAACTGGTC
* * **
790320 ATTTTCCCTCCACTAGTTTGCAGGAAAAGTTGCTGGTAGCAATGGTGTTGTGCAGCAGACAATAG
1 ATTTTCCCTCCACTAGTTTGCAGGAAAAGTTGCTGGCAGCAATGGTGTTATGCAGCAGACAGCAG
* *
790385 AAGATTGGTTGGGTGAATTGCATGCTTATCAGACTTAAAGTGTGATGATGAAGAAAGGCAATGAT
66 AAGATTGGTTGGGTGAATTGCATGCTTATCAGAC-TAGAGTATGATGATGAAGAAAGGCAATGAT
*
790450 GAAAATATGACAATATATTCTTTGATTTG
130 GAAAATATGACAATATACTCTTTGATTTG
* * * *
790479 ATTTTCCCTCCACTAGTTTGCAGAAAAAGTTGCTGGCAGTAATGGTGTTATGTAGTAGACAGCAG
1 ATTTTCCCTCCACTAGTTTGCAGGAAAAGTTGCTGGCAGCAATGGTGTTATGCAGCAGACAGCAG
* * *
790544 AAGATTGGTTGGGTGAATTGCATGCTTATCAGCACTAGAGTATGATAATGGAGAAAGGAAATGAT
66 AAGATTGGTTGGGTGAATTGCATGCTTATCAG-ACTAGAGTATGATGATGAAGAAAGGCAATGAT
* *
790609 GAAAATGTGACAGTATACTCTTTGATTTGG
130 GAAAATATGACAATATACTCTTTGATTT-G
* ** * *
790639 A-TTTCCCTTCACTAGTTTGCAGGAAAAGTTAATAGCAGCAATGGTGTTATGCAGCAGATAGCAG
1 ATTTTCCCTCCACTAGTTTGCAGGAAAAGTTGCTGGCAGCAATGGTGTTATGCAGCAGACAGCAG
* *
790703 AAGGTTGGTTGGGTGAATTGCATGCTTATCA-ACCCTAGAGTATGATGATGAAGAGAAAGCAATG
66 AAGATTGGTTGGGTGAATTGCATGCTTATCAGA--CTAGAGTATGATGATGAAGA-AAGGCAATG
*
790767 ATGAAAATATGACAATATACCCTTTGATTTG
128 ATGAAAATATGACAATATACTCTTTGATTTG
790798 GACCTCACAT
Statistics
Matches: 281, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
157 1 0.00
159 242 0.86
160 38 0.14
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (158 bp):
ATTTTCCCTCCACTAGTTTGCAGGAAAAGTTGCTGGCAGCAATGGTGTTATGCAGCAGACAGCAG
AAGATTGGTTGGGTGAATTGCATGCTTATCAGACTAGAGTATGATGATGAAGAAAGGCAATGATG
AAAATATGACAATATACTCTTTGATTTG
Found at i:792489 original size:13 final size:13
Alignment explanation
Indices: 792471--792497 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
792461 ACGTTATGCT
792471 TTGTATCGATACA
1 TTGTATCGATACA
792484 TTGTATCGATACA
1 TTGTATCGATACA
792497 T
1 T
792498 GCTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:792506 original size:19 final size:19
Alignment explanation
Indices: 792482--792538 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
792472 TGTATCGATA
* *
792482 CATTGTATCGATACATGCT
1 CATTGTATCAATACATGAT
792501 CATTGTATCAATACATAGAT
1 CATTGTATCAATACAT-GAT
*
792521 AATTGTATCAATACATGA
1 CATTGTATCAATACATGA
792539 GATTTGCAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
CATTGTATCAATACATGAT
Found at i:792527 original size:20 final size:20
Alignment explanation
Indices: 792478--792541 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 20
792468 GCTTTGTATC
*
792478 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCAATACATA
* *
792498 GCTCATTGTATCAATACATA
1 GATAATTGTATCAATACATA
792518 GATAATTGTATCAATACATGA
1 GATAATTGTATCAATACAT-A
792539 GAT
1 GAT
792542 TTGCAGTAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 14 0.38
20 19 0.51
21 4 0.11
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
GATAATTGTATCAATACATA
Found at i:798187 original size:52 final size:51
Alignment explanation
Indices: 798117--798265 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 51
798107 CGAAATATGA
*
798117 AAATTTGCCTACATGTATCGATACATTGAATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATATGGGC
* * *
798169 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATATGGGC
**
798221 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
798266 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATATGGGC
Found at i:798272 original size:13 final size:13
Alignment explanation
Indices: 798254--798278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
798244 CAAAGATCAG
798254 TGTATCGATACAA
1 TGTATCGATACAA
798267 TGTATCGATACA
1 TGTATCGATACA
798279 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:798358 original size:13 final size:13
Alignment explanation
Indices: 798340--798364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
798330 ACAAAAAAAA
798340 TGTATCGATACAT
1 TGTATCGATACAT
798353 TGTATCGATACA
1 TGTATCGATACA
798365 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:802380 original size:13 final size:13
Alignment explanation
Indices: 802362--802387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
802352 ACATTCCTTG
802362 TATCGATACATTA
1 TATCGATACATTA
802375 TATCGATACATTA
1 TATCGATACATTA
802388 GGTACTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:804803 original size:20 final size:20
Alignment explanation
Indices: 804778--804829 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
804768 ATACTTCAAA
** **
804778 GTATCGATACATAGGTATTT
1 GTATCGATACATACCTAGAT
804798 GTATCGATACATACCTAGAT
1 GTATCGATACATACCTAGAT
804818 GTATCGATACAT
1 GTATCGATACAT
804830 TATATCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (20 bp):
GTATCGATACATACCTAGAT
Found at i:805010 original size:20 final size:20
Alignment explanation
Indices: 804985--805037 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
804975 TTCAAATCAA
804985 TGTATCGATACATTATGAAT
1 TGTATCGATACATTATGAAT
*
805005 TGTATCGATACGTTATGAAT
1 TGTATCGATACATTATGAAT
805025 TGTATCGATACAT
1 TGTATCGATACAT
805038 GGCTACGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGAAT
Found at i:805787 original size:24 final size:24
Alignment explanation
Indices: 805760--805815 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
805750 GATTGTCGTG
*
805760 TTGATTTAATGTTTAGCA-CAGCAT
1 TTGATTGAATGTTTAGCACCA-CAT
805784 TTGATTGAATGTTTAGCACCACAT
1 TTGATTGAATGTTTAGCACCACAT
805808 TTGATTGA
1 TTGATTGA
805816 TAGGATAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (24 bp):
TTGATTGAATGTTTAGCACCACAT
Found at i:806245 original size:5 final size:5
Alignment explanation
Indices: 806237--806290 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
806227 TATCTTGCAT
* *
806237 TTTTA TTTTG TCTTTA GTTTA -TTTA TTTTA -TTTA TTTTA -TTTA TTTTTA
1 TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
806286 TTTTA
1 TTTTA
806291 ATTGATAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
4 12 0.29
5 22 0.54
6 7 0.17
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:806266 original size:9 final size:9
Alignment explanation
Indices: 806249--806288 Score: 62
Period size: 9 Copynumber: 4.3 Consensus size: 9
806239 TTATTTTGTC
*
806249 TTTAGTTTA
1 TTTATTTTA
806258 TTTATTTTA
1 TTTATTTTA
806267 TTTATTTTA
1 TTTATTTTA
806276 TTTATTTTTA
1 TTTA-TTTTA
806286 TTT
1 TTT
806289 TAATTGATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (9 bp):
TTTATTTTA
Found at i:809015 original size:3 final size:3
Alignment explanation
Indices: 809007--809053 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
808997 TAGCTAAGTA
809007 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
809054 AAGTGAGTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:811834 original size:20 final size:20
Alignment explanation
Indices: 811809--811863 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
811799 CTGCCAAGGA
811809 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
811829 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
811849 TTTGTATCGATACAT
1 AATGTATCGATACAT
811864 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:816169 original size:33 final size:33
Alignment explanation
Indices: 816127--816191 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
816117 TCAGTTAAAA
*
816127 GAACTAAAGTTCTCATCCATGCGCTACGAAAGT
1 GAACTAAAGTGCTCATCCATGCGCTACGAAAGT
*
816160 GAACTAAAGTGCTCATCCATGCGCTGCGAAAG
1 GAACTAAAGTGCTCATCCATGCGCTACGAAAG
816192 GAAGTGATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (33 bp):
GAACTAAAGTGCTCATCCATGCGCTACGAAAGT
Found at i:819320 original size:13 final size:13
Alignment explanation
Indices: 819302--819327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
819292 CAATTTTTTG
819302 TGTATCGATACAT
1 TGTATCGATACAT
819315 TGTATCGATACAT
1 TGTATCGATACAT
819328 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:819392 original size:21 final size:21
Alignment explanation
Indices: 819366--819441 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
819356 CTGCCAAGAA
*
819366 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
819387 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
819407 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
819428 ATGTATCGATACAT
1 ATGTATCGATACAT
819442 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:819412 original size:20 final size:20
Alignment explanation
Indices: 819387--819459 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
819377 CATCTTTTTT
819387 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
819407 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
819428 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
819448 ATGTATCGATAC
1 ATGTATCGATAC
819460 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:819423 original size:41 final size:41
Alignment explanation
Indices: 819366--819459 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
819356 CTGCCAAGAA
*
819366 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
819407 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
819448 ATGTATCGATAC
1 ATGTATCGATAC
819460 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:821128 original size:13 final size:13
Alignment explanation
Indices: 821110--821134 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
821100 ACTGAAGTAA
821110 TGTATCGATACAT
1 TGTATCGATACAT
821123 TGTATCGATACA
1 TGTATCGATACA
821135 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:821728 original size:23 final size:24
Alignment explanation
Indices: 821683--821729 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
821673 CAAAGAATTG
*
821683 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
821707 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
821730 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:824784 original size:13 final size:13
Alignment explanation
Indices: 824766--824791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
824756 CAATTTTTTG
824766 TGTATCGATACAT
1 TGTATCGATACAT
824779 TGTATCGATACAT
1 TGTATCGATACAT
824792 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:824856 original size:21 final size:21
Alignment explanation
Indices: 824830--824905 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
824820 TTGCCAAGAA
*
824830 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
824851 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
824871 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
824892 ATGTATCGATACAT
1 ATGTATCGATACAT
824906 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:824876 original size:20 final size:20
Alignment explanation
Indices: 824851--824923 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
824841 CATCTTTTTT
824851 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
824871 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
824892 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
824912 ATGTATCGATAC
1 ATGTATCGATAC
824924 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:824879 original size:41 final size:41
Alignment explanation
Indices: 824830--824923 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
824820 TTGCCAAGAA
*
824830 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
824871 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
824912 ATGTATCGATAC
1 ATGTATCGATAC
824924 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:831799 original size:14 final size:15
Alignment explanation
Indices: 831782--831814 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
831772 TTATATATTT
831782 TTTATTTTTTAA-AA
1 TTTATTTTTTAATAA
831796 TTTATTTTTTAATAA
1 TTTATTTTTTAATAA
831811 TTTA
1 TTTA
831815 ATATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATTTTTTAATAA
Found at i:831814 original size:22 final size:24
Alignment explanation
Indices: 831788--831841 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 24
831778 ATTTTTTATT
*
831788 TTTTAAAATTTATTTTTTAAT-AA
1 TTTTAAAATTAATTTTTTAATAAA
* *
831811 -TTTAATA-TAATTTTTTATTAAA
1 TTTTAAAATTAATTTTTTAATAAA
831833 TTTTAAAAT
1 TTTTAAAAT
831842 ATACAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTAAAATTAATTTTTTAATAAA
Found at i:833360 original size:16 final size:15
Alignment explanation
Indices: 833314--833358 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
833304 TTTTAAGTAT
*
833314 AAATTTTATAAATTAAA
1 AAATTTTAT--ATTTAA
833331 AAATTTTATATTTAA
1 AAATTTTATATTTAA
833346 AAATTTTATATTT
1 AAATTTTATATTT
833359 TATAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 18 0.67
17 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
AAATTTTATATTTAA
Found at i:839777 original size:30 final size:31
Alignment explanation
Indices: 839717--839778 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
839707 AAGCAGGGAG
*
839717 CCTTACCAATAAGACAATCTAGTGTATGGAT
1 CCTTACCAATAAGACAATATAGTGTATGGAT
*
839748 CCTTACCAATAAGACAA-ATAGTTTATGGAT
1 CCTTACCAATAAGACAATATAGTGTATGGAT
839778 C
1 C
839779 TAGGTTATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (31 bp):
CCTTACCAATAAGACAATATAGTGTATGGAT
Found at i:840430 original size:83 final size:83
Alignment explanation
Indices: 840292--840460 Score: 227
Period size: 84 Copynumber: 2.0 Consensus size: 83
840282 GAAAAGCAGA
** * *
840292 AAATGTGTGGTAATAAAATGTAAAAAAAATAAAAATGGTCAAGATTCCCCTTTTGGTCA-TTTTA
1 AAATGTGTGGTAATAAAAAATAAAAAAAATAAAAATGGTCAAGATTCCCATTTTGGTCACTTTAA
840356 AAAGCATCCGAATAGCAT
66 AAAGCATCCGAATAGCAT
* *
840374 AAATGTGTGGTAATCAAAAAAATAAAAAAAA-AAATATTGTCAAGAATT-CCATTTTGGTCACTT
1 AAATGTGTGGTAAT--AAAAAATAAAAAAAATAAAAATGGTCAAG-ATTCCCATTTTGGTCACTT
*
840437 TAAAAAGCATCCTAATAGCAT
63 TAAAAAGCATCCGAATAGCAT
840458 AAA
1 AAA
840461 GGTATTGTAC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
82 14 0.18
83 22 0.29
84 40 0.53
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.28
Consensus pattern (83 bp):
AAATGTGTGGTAATAAAAAATAAAAAAAATAAAAATGGTCAAGATTCCCATTTTGGTCACTTTAA
AAAGCATCCGAATAGCAT
Found at i:844327 original size:3 final size:3
Alignment explanation
Indices: 844319--844343 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
844309 TGCAAAGCTT
844319 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
844344 ATGATGCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:846393 original size:2 final size:2
Alignment explanation
Indices: 846386--846413 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
846376 CAATTACGAA
846386 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
846414 GTTAATACGA
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:850924 original size:11 final size:10
Alignment explanation
Indices: 850898--850928 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
850888 AGAAGCAAGT
850898 TTAAAAAACA
1 TTAAAAAACA
850908 TTAAAAAACA
1 TTAAAAAACA
850918 TTAAAAAACA
1 TTAAAAAACA
850928 T
1 T
850929 GAAACTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (10 bp):
TTAAAAAACA
Found at i:859602 original size:13 final size:13
Alignment explanation
Indices: 859584--859623 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
859574 ACATGCTGCT
*
859584 TTGTATTGATACA
1 TTGTATCGATACA
859597 TTGTATCGATACA
1 TTGTATCGATACA
859610 TTGTATCGATACA
1 TTGTATCGATACA
859623 T
1 T
859624 GTTCATTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:862806 original size:52 final size:52
Alignment explanation
Indices: 862697--862812 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 52
862687 TTGTCTGCAT
* ***
862697 GTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTTATA
1 GTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGATA
* *
862749 ATGTATCGATACATTTAGGCAAATTTGCCTGCATGTATCGATACA-AAGATCA
1 GTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGAT-A
862801 GTGTATCGATAC
1 GTGTATCGATAC
862813 GATGTATCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
GTGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATACATAAGATA
Found at i:863791 original size:52 final size:52
Alignment explanation
Indices: 863723--863969 Score: 298
Period size: 52 Copynumber: 4.9 Consensus size: 52
863713 GTTAAAGATG
* *
863723 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * *
863775 AAGACGCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
863827 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---G--G---
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
* * * * *
863871 -AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGT-ACCA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-CA
*
863922 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
863970 AGACGCCACC
Statistics
Matches: 167, Mismatches: 17, Indels: 21
0.81 0.08 0.10
Matches are distributed among these distances:
43 37 0.22
46 1 0.01
47 1 0.01
49 1 0.01
52 124 0.74
53 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (52 bp):
AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACA
Found at i:863943 original size:95 final size:95
Alignment explanation
Indices: 863780--863963 Score: 282
Period size: 95 Copynumber: 1.9 Consensus size: 95
863770 TGACAAAGAC
*
863780 GCCAATATGCTGATCCAAGGCCAGCGATATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
1 GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
863845 TTCAAGGCCAGCGATATTGGACTTGGAGGT
66 TTCAAGGCCAGCGATATTGGACTTGGAGGT
* * * * *
863875 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGG-T-ACCAAAGGTGCCAATATGCT
1 GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTT-AAGGATGA-CAAAGGCGCCAATATGCT
863938 GATTCAAGGCCAGCGATATTGGACTT
64 GATTCAAGGCCAGCGATATTGGACTT
863964 AGAAGAAGAC
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 1 0.01
95 76 0.94
96 4 0.05
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (95 bp):
GCCAATATGCTGATCCAAGGCCAGCGACATAGGACTTAAGGATGACAAAGGCGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTGGAGGT
Found at i:864043 original size:28 final size:28
Alignment explanation
Indices: 864012--864142 Score: 167
Period size: 28 Copynumber: 4.7 Consensus size: 28
864002 GTTTGCATCA
*
864012 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
864040 ACTTGTGGGCTTTTAAAGATTGCCACTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
864068 ACTTGTGGGCTTTTAAAGGTTGCCATTG
1 ACTTGTGGGCTTTTGAAGGTTGCCACTG
* *
864096 ACTTGTGGGC-TTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
864125 ACTTGTGGGC-TTTGAAGG
1 ACTTGTGGGCTTTTGAAGG
864143 GTGGACTCTC
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
27 6 0.07
28 61 0.67
29 24 0.26
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (28 bp):
ACTTGTGGGCTTTTGAAGGTTGCCACTG
Found at i:864087 original size:56 final size:56
Alignment explanation
Indices: 864012--864137 Score: 191
Period size: 56 Copynumber: 2.2 Consensus size: 56
864002 GTTTGCATCA
* * *
864012 ACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTT-TAAAGATTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAAAAAGA-TGCCACTG
*
864068 ACTTGTGGGCTTTTAAAGGTTGCCATTGACTTGTGGGCTTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTT-AAAAAGATGCCACTG
864125 ACTTGTGGGCTTT
1 ACTTGTGGGCTTT
864138 GAAGGGTGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
56 38 0.59
57 21 0.33
58 5 0.08
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (56 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTGACTTGTGGGCTTTAAAAAGATGCCACTG
Found at i:865557 original size:5 final size:5
Alignment explanation
Indices: 865549--865600 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
865539 TTTTTTTGTT
*
865549 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTT TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
865599 TT
1 TT
865601 GTGGAGGACG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (5 bp):
TTTTG
Found at i:865557 original size:15 final size:15
Alignment explanation
Indices: 865538--865600 Score: 90
Period size: 15 Copynumber: 4.1 Consensus size: 15
865528 ATCCGGACCC
*
865538 TTTTTTTTGTTTTTTG
1 TTTTTTTT-TGTTTTG
*
865554 TTTTGTTTTGTTTTG
1 TTTTTTTTTGTTTTG
*
865569 TTTTGTTTTGTTTTG
1 TTTTTTTTTGTTTTG
865584 TTTTTTTTTGTTTTG
1 TTTTTTTTTGTTTTG
865599 TT
1 TT
865601 GTGGAGGACG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
15 37 0.84
16 7 0.16
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:879502 original size:52 final size:52
Alignment explanation
Indices: 879424--879572 Score: 208
Period size: 52 Copynumber: 2.9 Consensus size: 52
879414 CGAAATATGA
* *
879424 AAATTTGCCAGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
* * * *
879476 AAATTTGCCTGCATGTATAGATACATTTTATAATGTATCGATACATTTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
*** *
879528 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACA
879573 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 84 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:879579 original size:13 final size:13
Alignment explanation
Indices: 879561--879585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
879551 CAAAGATTAG
879561 TGTATCGATACAA
1 TGTATCGATACAA
879574 TGTATCGATACA
1 TGTATCGATACA
879586 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:879667 original size:13 final size:13
Alignment explanation
Indices: 879649--879673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
879639 AAAAAAAATA
879649 TGTATCGATACAT
1 TGTATCGATACAT
879662 TGTATCGATACA
1 TGTATCGATACA
879674 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:888086 original size:36 final size:38
Alignment explanation
Indices: 888041--888118 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
888031 AAGGGGGAGA
888041 AGATAATCGTTTAA-GGGAG-AGATTTTTTTTAAGAGG
1 AGATAATCGTTTAAGGGGAGAAGATTTTTTTTAAGAGG
* *
888077 AGATAATCGTTTAAGGGGGAGAATATTTTTTTTAAGGGG
1 AGATAATCGTTTAA-GGGGAGAAGATTTTTTTTAAGAGG
888116 AGA
1 AGA
888119 AAAACGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 14 0.38
38 5 0.14
39 18 0.49
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.35
Consensus pattern (38 bp):
AGATAATCGTTTAAGGGGAGAAGATTTTTTTTAAGAGG
Found at i:888097 original size:19 final size:19
Alignment explanation
Indices: 888041--888098 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
888031 AAGGGGGAGA
*
888041 AGATAATCGTTTAAGGGAG
1 AGATAATCGTTTAAGGGGG
* ** *
888060 AGAT-TTTTTTTAA-GAGG
1 AGATAATCGTTTAAGGGGG
888077 AGATAATCGTTTAAGGGGG
1 AGATAATCGTTTAAGGGGG
888096 AGA
1 AGA
888099 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
17 6 0.21
18 12 0.43
19 10 0.36
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.31
Consensus pattern (19 bp):
AGATAATCGTTTAAGGGGG
Found at i:888677 original size:13 final size:13
Alignment explanation
Indices: 888659--888685 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
888649 ACATGCTGCT
888659 TTGTATCGATACA
1 TTGTATCGATACA
888672 TTGTATCGATACA
1 TTGTATCGATACA
888685 T
1 T
888686 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:888682 original size:33 final size:32
Alignment explanation
Indices: 888640--888704 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
888630 CACACCCAGA
*
888640 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
888673 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
888705 GGCCAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:888716 original size:21 final size:19
Alignment explanation
Indices: 888670--888726 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
888660 TGTATCGATA
**
888670 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
888689 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
888708 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
888727 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:888797 original size:33 final size:32
Alignment explanation
Indices: 888755--888821 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
888745 CTATCACTAT
888755 TTGTATCGATACATG-GTACAATATATCGATACA
1 TTGTATCGATACATGAG-A-AATATATCGATACA
888788 TTGTATCGATACATGAAGAAATATATCGATACA
1 TTGTATCGATACATG-AGAAATATATCGATACA
888821 T
1 T
888822 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATATATCGATACA
Found at i:892387 original size:20 final size:20
Alignment explanation
Indices: 892362--892414 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
892352 CACAATATAT
*
892362 CGATACATTTCATCATGTAC
1 CGATACATTTCACCATGTAC
* *
892382 CGATACAATGTC-CCATGTAT
1 CGATAC-ATTTCACCATGTAC
892402 CGATACATTTCAC
1 CGATACATTTCAC
892415 TTAGGATAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 4 0.15
20 19 0.70
21 4 0.15
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (20 bp):
CGATACATTTCACCATGTAC
Found at i:892466 original size:20 final size:19
Alignment explanation
Indices: 892441--892490 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
892431 CAGTTTCATG
*
892441 TATCGATACAATTGAGTATC
1 TATCGATACAA-TGAGCATC
*
892461 TATCGATACAATGAGCATG
1 TATCGATACAATGAGCATC
892480 TATCGATACAA
1 TATCGATACAA
892491 AGCATAATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
TATCGATACAATGAGCATC
Found at i:895205 original size:50 final size:50
Alignment explanation
Indices: 895137--895245 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
895127 ACATTTGAGT
* *
895137 TTTTCCAGATGTATCGATACATTATTCAATGTATCGATACATTTTGAAAAA
1 TTTT-CAGATGTATCGATACATCATTCAATGTATCGATACATTCTGAAAAA
*
895188 TTTTCAGATGTATCGATACATCATTCAATGTATCTATACATTCTGAAAAA
1 TTTTCAGATGTATCGATACATCATTCAATGTATCGATACATTCTGAAAAA
*
895238 TTTGCAGA
1 TTTTCAGA
895246 AAAAAGTTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
50 50 0.93
51 4 0.07
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (50 bp):
TTTTCAGATGTATCGATACATCATTCAATGTATCGATACATTCTGAAAAA
Found at i:895220 original size:20 final size:21
Alignment explanation
Indices: 895190--895228 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
895180 TTGAAAAATT
895190 TTCAGATGTATCGATACATCA
1 TTCAGATGTATCGATACATCA
*
895211 TTCA-ATGTATCTATACAT
1 TTCAGATGTATCGATACAT
895229 TCTGAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (21 bp):
TTCAGATGTATCGATACATCA
Found at i:901340 original size:20 final size:20
Alignment explanation
Indices: 901315--901373 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
901305 GTTGGGCACA
*
901315 ATGTATCTATACATTTCACC
1 ATGTATCAATACATTTCACC
* *
901335 ATGTATCGATACAATGTC-CC
1 ATGTATCAATAC-ATTTCACC
901355 ATGTATCAATACATTTCAC
1 ATGTATCAATACATTTCAC
901374 TTAAGGTAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (20 bp):
ATGTATCAATACATTTCACC
Found at i:902450 original size:24 final size:25
Alignment explanation
Indices: 902414--902460 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
902404 AAAAAACTTA
* *
902414 GAGGAATACAAAAGTTTT-ATTTTC
1 GAGGAAAACAAAAATTTTGATTTTC
*
902438 GAGGAAAATAAAAATTTTGATTT
1 GAGGAAAACAAAAATTTTGATTT
902461 ACTTATTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (25 bp):
GAGGAAAACAAAAATTTTGATTTTC
Found at i:902854 original size:57 final size:58
Alignment explanation
Indices: 902804--902914 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
902794 AAATTTCGTG
* *
902804 AAAGTCCCTAAATTAT-GAAAATGACCAAAATGACATCAAAATACATGAAATTACACC
1 AAAGTCCCTAAATCATAGAAAATGACCAAAATGACATCAAAATACATGAAATTTCACC
* * * * * *
902861 AAAGTTCCTAGATCATAGAAAATGGCCTAACTGACATCAAAATACATAAAATTT
1 AAAGTCCCTAAATCATAGAAAATGACCAAAATGACATCAAAATACATGAAATTT
902915 GTATGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 13 0.29
58 32 0.71
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.23
Consensus pattern (58 bp):
AAAGTCCCTAAATCATAGAAAATGACCAAAATGACATCAAAATACATGAAATTTCACC
Found at i:903057 original size:58 final size:56
Alignment explanation
Indices: 902938--903289 Score: 169
Period size: 58 Copynumber: 6.1 Consensus size: 56
902928 TAGATCATAA
* * * * * * * *
902938 AAAAAAGACCTAAATAACCCCAGCACATATGAAA-TTACAAAAAAAATCCCCAAGTGA-
1 AAAAAA-ACCTAAATAA-CCCAACATACATGAAATTTAC-ATAAAAGTCCCTAAATCAT
* *
902995 AAAAAAATCCTAAATAACCTCAACATACATGCAATTTACATCAAAGTCCCTAAATCAT
1 AAAAAAA-CCTAAATAACC-CAACATACATGAAATTTACATAAAAGTCCCTAAATCAT
* * * * * ** * ** *
903053 AAAAATGACCTAAATGACTCTAGCATATACAAAATTTGCATGGAAGTCCCTAGATCAT
1 AAAAA-AACCTAAATAAC-CCAACATACATGAAATTTACATAAAAGTCCCTAAATCAT
* * * *
903111 AGAGAATAA-CTAAATTAATCCAACATATAT-AGAA-TTACATAAAAGTCCCTAAATTATT
1 A-A-AAAAACCTAAA-TAACCCAACATACATGA-AATTTACATAAAAGTCCCTAAATCA-T
* * * * * *
903169 GAAAATAACCTAAATGACCACAAAATACATCAAA-TTACATAAAAATCCCTAAATCAC
1 -AAAAAAACCTAAATAACC-CAACATACATGAAATTTACATAAAAGTCCCTAAATCAT
* * * ** *
903226 AAAAATATCCTAAATGAACCCAACAAACACGAAATTTGTATCAAAA-TCCCTAGATCAT
1 AAAAA-AACCTAAAT-AACCCAACATACATGAAATTTACAT-AAAAGTCCCTAAATCAT
903284 AAAAAA
1 AAAAAA
903290 TAACAAAATG
Statistics
Matches: 224, Mismatches: 52, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
56 7 0.03
57 82 0.37
58 121 0.54
59 12 0.05
60 2 0.01
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.22
Consensus pattern (56 bp):
AAAAAAACCTAAATAACCCAACATACATGAAATTTACATAAAAGTCCCTAAATCAT
Found at i:903222 original size:19 final size:19
Alignment explanation
Indices: 903143--903240 Score: 51
Period size: 19 Copynumber: 5.2 Consensus size: 19
903133 ACATATATAG
* *
903143 AATTACATAAAAGTCCCTA
1 AATTACATAAAAATACCTA
* *
903162 AATTA-TTGAAAATAACCTA
1 AATTACATAAAAAT-ACCTA
* * *
903181 AATGACCA-CAAAATACATCA
1 AATTA-CATAAAAATACCT-A
*
903201 AATTACATAAAAATCCCTA
1 AATTACATAAAAATACCTA
*
903220 AA-T-CACAAAAATATCCTA
1 AATTACATAAAAATA-CCTA
903238 AAT
1 AAT
903241 GAACCCAACA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
17 8 0.14
18 12 0.21
19 21 0.36
20 17 0.29
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.24
Consensus pattern (19 bp):
AATTACATAAAAATACCTA
Found at i:906741 original size:117 final size:115
Alignment explanation
Indices: 906508--906805 Score: 286
Period size: 116 Copynumber: 2.6 Consensus size: 115
906498 TATTGAACAC
* *
906508 TAAAAGTCCCTAAATCATAAAAAATAACCTAAATGACTCTAGC-ATATACA-AAATTTGCATGGA
1 TAAAAGTCCCTAAATCATAAAAAATAACCTAAATGAC-C-AGCAAAATACATAAA-TTGCAT-AA
* * * * * * *
906571 ACGTCCCTAGATCATAGAGAATAACTAAATTAATCCAACATATATAGAATTGCA
62 AAGTCCCTAAATCATAAAAAATAACTAAATAAACCCAACATACATAGAATTGCA
* * **
906625 TAAAAGCCCCTAAATTATTGAAAATAACCTAAATGACCA-CAAAATACATCAAATTGCATAAAAG
1 TAAAAGTCCCTAAATCATAAAAAATAACCTAAATGACCAGCAAAATACAT-AAATTGCATAAAAG
*
906689 TCCCTAAATCATAAAAAATATCCTAAATAAACCCAACATACAT-GAAATTTGCA
65 TCCCTAAATCATAAAAAATA-ACTAAATAAACCCAACATACATAG-AA-TTGCA
* * * * *
906742 TCAAAA-TCTCTAGATCATAAAAAATAA-CAAAATGA-CATCAAAATACATGAAATTGCATCAAA
1 T-AAAAGTCCCTAAATCATAAAAAATAACCTAAATGACCAGCAAAATACAT-AAATTGCATAAAA
906804 GT
64 GT
906806 ATTTAAGTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
114 1 0.01
115 30 0.20
116 58 0.39
117 57 0.38
118 4 0.03
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.24
Consensus pattern (115 bp):
TAAAAGTCCCTAAATCATAAAAAATAACCTAAATGACCAGCAAAATACATAAATTGCATAAAAGT
CCCTAAATCATAAAAAATAACTAAATAAACCCAACATACATAGAATTGCA
Found at i:906788 original size:58 final size:57
Alignment explanation
Indices: 906509--906803 Score: 208
Period size: 58 Copynumber: 5.1 Consensus size: 57
906499 ATTGAACACT
* * *
906509 AAAAGTCCCTAAATCATAAAAAATAACCTAAATGACTCTAGCATATACA--AAATTTGCATG
1 AAAAGTCCCTAAATCATAAAAAATAA-CTAAATGACAC-A--AAATACATGAAA-TTGCATC
* * * * * * * *
906569 GAACGTCCCTAGATCATAGAGAATAACTAAATTA-ATCCAACATATAT-AGAATTGCAT-
1 AAAAGTCCCTAAATCATAAAAAATAACTAAATGACA--CAAAATACATGA-AATTGCATC
* * ** *
906626 AAAAGCCCCTAAATTATTGAAAATAACCTAAATGACCACAAAATACATCAAATTGCAT-
1 AAAAGTCCCTAAATCATAAAAAATAA-CTAAATGA-CACAAAATACATGAAATTGCATC
* * * *
906684 AAAAGTCCCTAAATCATAAAAAATATCCTAAATAAACCCAACATACATGAAATTTGCATC
1 AAAAGTCCCTAAATCATAAAAAATA-ACTAAAT-GACACAAAATACATGAAA-TTGCATC
* * *
906744 AAAA-TCTCTAGATCATAAAAAATAACAAAATGACATCAAAATACATGAAATTGCATC
1 AAAAGTCCCTAAATCATAAAAAATAACTAAATGACA-CAAAATACATGAAATTGCATC
906801 AAA
1 AAA
906804 GTATTTAAGT
Statistics
Matches: 187, Mismatches: 35, Indels: 29
0.75 0.14 0.12
Matches are distributed among these distances:
57 36 0.19
58 88 0.47
59 36 0.19
60 27 0.14
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.24
Consensus pattern (57 bp):
AAAAGTCCCTAAATCATAAAAAATAACTAAATGACACAAAATACATGAAATTGCATC
Found at i:910169 original size:15 final size:15
Alignment explanation
Indices: 910149--910183 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
910139 AACCATCAAA
910149 GATGATGAAGATAAT
1 GATGATGAAGATAAT
*
910164 GATGATGATGATAAT
1 GATGATGAAGATAAT
910179 GATGA
1 GATGA
910184 AGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (15 bp):
GATGATGAAGATAAT
Found at i:914730 original size:13 final size:13
Alignment explanation
Indices: 914712--914737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
914702 AAAAACCCAG
914712 ATGTATCGATACA
1 ATGTATCGATACA
914725 ATGTATCGATACA
1 ATGTATCGATACA
914738 TAGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:916745 original size:19 final size:20
Alignment explanation
Indices: 916723--916772 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
916713 ACATTATGCT
**
916723 TTGTATCGATAAATGTTC-A
1 TTGTATCGATAAATGCACAA
*
916742 TTGTATCGATACATGCACAA
1 TTGTATCGATAAATGCACAA
916762 TTGTATCGATA
1 TTGTATCGATA
916773 CATGAAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (20 bp):
TTGTATCGATAAATGCACAA
Found at i:916766 original size:20 final size:19
Alignment explanation
Indices: 916723--916776 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
916713 ACATTATGCT
* **
916723 TTGTATCGATAAATGTTCA
1 TTGTATCGATACATGCACA
916742 TTGTATCGATACATGCACAA
1 TTGTATCGATACATGCAC-A
916762 TTGTATCGATACATG
1 TTGTATCGATACATG
916777 AAACTGGTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:916844 original size:13 final size:13
Alignment explanation
Indices: 916826--916850 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
916816 CATGGCATGT
916826 TGTATCGATACAA
1 TGTATCGATACAA
916839 TGTATCGATACA
1 TGTATCGATACA
916851 TGACGAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:916848 original size:33 final size:33
Alignment explanation
Indices: 916806--916870 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
916796 TACCACTATT
* *
916806 TGTATCGATACATGGC-ATGTTGTATCGATACAA
1 TGTATCGATACATGACGA-ATTGTATCGATACAA
916839 TGTATCGATACATGACGAATTGTATCGATACA
1 TGTATCGATACATGACGAATTGTATCGATACA
916871 TTGTCCCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.32
Consensus pattern (33 bp):
TGTATCGATACATGACGAATTGTATCGATACAA
Found at i:920132 original size:33 final size:32
Alignment explanation
Indices: 920079--920141 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 32
920069 TAAGACAATG
920079 TATCGATACAATTCTTCATGTA-TCGATACATTT
1 TATCGATACAATTC-TCATGTACT-GATACATTT
920112 TATCGATACAATATGC-CATGTACTGATACA
1 TATCGATACAAT-T-CTCATGTACTGATACA
920142 AACAGTGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
33 24 0.89
34 2 0.07
35 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (32 bp):
TATCGATACAATTCTCATGTACTGATACATTT
Found at i:920194 original size:19 final size:19
Alignment explanation
Indices: 920170--920206 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
920160 ACTGCTTGTT
920170 TCATGTATCGATACAATGA
1 TCATGTATCGATACAATGA
920189 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
920207 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:920209 original size:13 final size:13
Alignment explanation
Indices: 920191--920217 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
920181 TACAATGATC
920191 ATGTATCGATACA
1 ATGTATCGATACA
920204 ATGTATCGATACA
1 ATGTATCGATACA
920217 A
1 A
920218 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:922813 original size:33 final size:33
Alignment explanation
Indices: 922771--922834 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
922761 ATAGTAACCC
*
922771 ATGTATCGATACAAAGAACACTGTATCGATATA
1 ATGTATCGATACAAAGAACACTATATCGATATA
*
922804 ATGTATCGATACAAAGAACATTATATCGATA
1 ATGTATCGATACAAAGAACACTATATCGATA
922835 CATCTGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAACACTATATCGATATA
Found at i:929105 original size:13 final size:13
Alignment explanation
Indices: 929087--929113 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
929077 TACGATGATC
929087 ATGTATCGATACA
1 ATGTATCGATACA
929100 ATGTATCGATACA
1 ATGTATCGATACA
929113 A
1 A
929114 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:929129 original size:33 final size:32
Alignment explanation
Indices: 929068--929132 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
929058 GCAATTGTGT
* * *
929068 ATGTATCGATACGATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
929100 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
929133 TCTGGATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:931063 original size:13 final size:13
Alignment explanation
Indices: 931045--931071 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
931035 ACATGCTGTT
931045 TTGTATCGATACA
1 TTGTATCGATACA
931058 TTGTATCGATACA
1 TTGTATCGATACA
931071 T
1 T
931072 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:931068 original size:33 final size:32
Alignment explanation
Indices: 931026--931090 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
931016 CACACCCAGA
*
931026 TGTATCGATACATGCTGT-TTTGTATCGATACAT
1 TGTATCGATACATG-T-TCATTGTATCGATACAT
931059 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTTCATTGTATCGATACAT
931091 GGACAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 15 0.50
33 14 0.47
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATACAT
Found at i:931102 original size:21 final size:19
Alignment explanation
Indices: 931055--931112 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
931045 TTGTATCGAT
*
931055 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
931074 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
931093 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
931113 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:931178 original size:13 final size:13
Alignment explanation
Indices: 931157--931187 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
931147 CGATACATGG
*
931157 TACAATGTATCGA
1 TACATTGTATCGA
931170 TACATTGTATCGA
1 TACATTGTATCGA
931183 TACAT
1 TACAT
931188 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:931183 original size:33 final size:32
Alignment explanation
Indices: 931141--931207 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
931131 CTATCACTAT
931141 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
931174 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
931207 T
1 T
931208 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:931252 original size:42 final size:42
Alignment explanation
Indices: 931193--931291 Score: 198
Period size: 42 Copynumber: 2.4 Consensus size: 42
931183 TACATGAAGA
931193 AATGTATCGATACATAGCTTGTAACGGCTATAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAATTTCAAATC
931235 AATGTATCGATACATAGCTTGTAACGGCTATAATTTCAAATC
1 AATGTATCGATACATAGCTTGTAACGGCTATAATTTCAAATC
931277 AATGTATCGATACAT
1 AATGTATCGATACAT
931292 TATAAATTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (42 bp):
AATGTATCGATACATAGCTTGTAACGGCTATAATTTCAAATC
Found at i:939837 original size:20 final size:20
Alignment explanation
Indices: 939814--939866 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
939804 TACACCCAGA
*
939814 TGTATCAATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
939834 TGTATCGATACATGCTGCTT
1 TGTATCGATACATGCTGCTT
*
939854 TCTATCGATACAT
1 TGTATCGATACAT
939867 TGTATCGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATGCTGCTT
Found at i:941010 original size:51 final size:51
Alignment explanation
Indices: 940932--941049 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
940922 TGAAAATAAT
*
940932 GGGGTTGAAGTAT-CCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
940982 GGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
941033 GGGGTTGGAGTATCCCC
1 GGGGTTGAAGTATCCCC
941050 TCGAAAATAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 12 0.19
51 51 0.81
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:941066 original size:28 final size:27
Alignment explanation
Indices: 941032--941161 Score: 135
Period size: 28 Copynumber: 4.8 Consensus size: 27
941022 GAAATAAAGC
941032 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCCTCGAAAATAA
941060 CGGGGTTGGAGTATCCC-CGATGAAATAA
1 CGGGGTTGGAGTATCCCTCGA--AAATAA
*
941088 CGGGGTTGGAGTATCCCT--AGAATAA
1 CGGGGTTGGAGTATCCCTCGAAAATAA
*
941113 TGGGGTTGGAGTATCCC-CGATGAAATAA
1 CGGGGTTGGAGTATCCCTCGA--AAATAA
* *
941141 TCAGAGTTGGAGTAT-CCTCGA
1 -CGGGGTTGGAGTATCCCTCGA
941162 TTGTGGAGAA
Statistics
Matches: 87, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
25 21 0.24
26 4 0.05
27 4 0.05
28 44 0.51
29 14 0.16
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCTCGAAAATAA
Found at i:941073 original size:79 final size:80
Alignment explanation
Indices: 940981--941368 Score: 289
Period size: 79 Copynumber: 4.9 Consensus size: 80
940971 GAAATAAGGC
** * * *
940981 CGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
941046 CCCCTCGA-AAATAA
66 CCCCTCGAGAAATAA
* * * ** ** **
941060 CGGGGTTGGAGTATCCCCGA---TGA-AATAACGGGGTTGGAGTATCCCTAGAATAATGGGGTTG
1 CGGGGTTGGAGTATCCCCGATTGTGAGAA-ATCAGTGTTTTAG-A--AATA-AA-ACCGGGGTTG
941121 GAGTAT-CCC-CGATGAAATAA
60 GAGTATCCCCTCGA-GAAATAA
* * * ** * * *
941141 TCAGAGTTGGAGTATCCTCGATTGTG-GAGAATTGGTGTTTTAGAAATAAAATCAGGGTTAGAGT
1 -CGGGGTTGGAGTATCCCCGATTGTGAGA-AATCAGTGTTTTAGAAATAAAACCGGGGTTGGAGT
*
941205 ATCCCCTTG-GAAATAA
64 ATCCCCTCGAGAAATAA
* * * * * * *
941221 CGGGATTGGAGTATTCCCGATTATGAAAAAT-TGATGTTTTAGAAATAAAACCTGGGTTGGAGTG
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAG-TGTTTTAGAAATAAAACCGGGGTTGGAGTA
941285 TCCCCTC-AGAAATAA
65 TCCCCTCGAGAAATAA
* *
941300 CGGGGTTGGAGTATCCCCGATTGTGA-AAAGTCAGTGTTTT-GAAAATAAAATCGGAGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAA-TCAGTGTTTTAG-AAATAAAACCGGGGTTGGAGT
941363 ATCCCC
64 ATCCCC
941369 GATTATGGAA
Statistics
Matches: 237, Mismatches: 50, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
75 2 0.01
76 9 0.04
77 1 0.00
78 5 0.02
79 137 0.58
80 26 0.11
81 24 0.10
82 20 0.08
84 1 0.00
85 11 0.05
86 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAGAAATAA
Found at i:941125 original size:53 final size:55
Alignment explanation
Indices: 941032--941157 Score: 184
Period size: 53 Copynumber: 2.3 Consensus size: 55
941022 GAAATAAAGC
941032 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAA-
1 CGGGGTTGGAGTAT-CCCTC-AAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
* *
941088 CGGGGTTGGAGTATCCCT-AGAATAATGGGGTTGGAGTATCCCCGATGAAATAAT
1 CGGGGTTGGAGTATCCCTCAAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
* *
941142 CAGAGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
941158 TCGATTGTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
53 33 0.51
54 14 0.22
55 4 0.06
56 14 0.22
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (55 bp):
CGGGGTTGGAGTATCCCTCAAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
Found at i:941359 original size:51 final size:51
Alignment explanation
Indices: 941304--941424 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
941294 AAATAACGGG
*
941304 GTTGGAGTATCCCCGATTGT-GAAAAGTCAGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAA-TCAGTGTTTTAG-AAATAAAATCGGA
**
941355 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
941406 GTTGTG-GTATCCCCGATTA
1 GTTG-GAGTATCCCCGATTA
941425 AGAAAAACTG
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
51 57 0.89
52 7 0.11
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGGAAAATCAGTGTTTTAGAAATAAAATCGGA
Found at i:941447 original size:51 final size:51
Alignment explanation
Indices: 941342--941472 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
941332 AGTGTTTTGA
* * * *
941342 AAATAAAATCGGAGTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAG
1 AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAG
*
941393 AAATAAAATCGGAGTTGTG-GTATCCCCGATTAAGAAAAACT-GATGTCTTGG
1 AAATAAAATCGGAGTTG-GAGTATCCCCGATTAAGAAAAA-TGGATGTCTTAG
* * *
941444 AAATGAAACTGGGA-TTAGAGTATCCCCGA
1 AAAT-AAAATCGGAGTTGGAGTATCCCCGA
941473 GATGAAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
50 1 0.01
51 58 0.85
52 9 0.13
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGTCTTAG
Found at i:945676 original size:13 final size:13
Alignment explanation
Indices: 945658--945683 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
945648 CAATTTGGGA
945658 TGTATCGATACAT
1 TGTATCGATACAT
945671 TGTATCGATACAT
1 TGTATCGATACAT
945684 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:945680 original size:33 final size:32
Alignment explanation
Indices: 945638--945701 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
945628 TACAAGCTAA
945638 TGTATCGATACAAT-TTGGGATGTATCGATACAT
1 TGTATCGATAC-ATCTTGGG-TGTATCGATACAT
*
945671 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
945702 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:945840 original size:20 final size:19
Alignment explanation
Indices: 945817--945855 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
945807 CTGTGCATTA
* *
945817 TGTATCGATATATTTGAAGG
1 TGTATCAATACATTT-AAGG
945837 TGTATCAATACATTTAAGG
1 TGTATCAATACATTTAAGG
945856 GTTTTGACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (19 bp):
TGTATCAATACATTTAAGG
Found at i:946974 original size:240 final size:240
Alignment explanation
Indices: 946551--947027 Score: 954
Period size: 240 Copynumber: 2.0 Consensus size: 240
946541 GCTTTTCTAT
946551 GTGAATGGCTAGTGAGTAATGGTTCAGCTTATGGTTGGAGGGTATTTAAGTGTGAATGGTTCGTG
1 GTGAATGGCTAGTGAGTAATGGTTCAGCTTATGGTTGGAGGGTATTTAAGTGTGAATGGTTCGTG
946616 ACCTTTGCCAATCGAGGCGTGAGCAGAATTCCCTATACTTTTCCTGCCTTTTCGATATAATATCA
66 ACCTTTGCCAATCGAGGCGTGAGCAGAATTCCCTATACTTTTCCTGCCTTTTCGATATAATATCA
946681 AGATATCCTAATGCAGATTTTAATTAGTTATCAAACATTATCAGCTAAATGATAAATGTAAAGAT
131 AGATATCCTAATGCAGATTTTAATTAGTTATCAAACATTATCAGCTAAATGATAAATGTAAAGAT
946746 ATTTTATAAGGTATGGAGAGAGAAAAAAGTAGTATGATTTGGCTA
196 ATTTTATAAGGTATGGAGAGAGAAAAAAGTAGTATGATTTGGCTA
946791 GTGAATGGCTAGTGAGTAATGGTTCAGCTTATGGTTGGAGGGTATTTAAGTGTGAATGGTTCGTG
1 GTGAATGGCTAGTGAGTAATGGTTCAGCTTATGGTTGGAGGGTATTTAAGTGTGAATGGTTCGTG
946856 ACCTTTGCCAATCGAGGCGTGAGCAGAATTCCCTATACTTTTCCTGCCTTTTCGATATAATATCA
66 ACCTTTGCCAATCGAGGCGTGAGCAGAATTCCCTATACTTTTCCTGCCTTTTCGATATAATATCA
946921 AGATATCCTAATGCAGATTTTAATTAGTTATCAAACATTATCAGCTAAATGATAAATGTAAAGAT
131 AGATATCCTAATGCAGATTTTAATTAGTTATCAAACATTATCAGCTAAATGATAAATGTAAAGAT
946986 ATTTTATAAGGTATGGAGAGAGAAAAAAGTAGTATGATTTGG
196 ATTTTATAAGGTATGGAGAGAGAAAAAAGTAGTATGATTTGG
947028 TTCATTTTTG
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 237 1.00
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (240 bp):
GTGAATGGCTAGTGAGTAATGGTTCAGCTTATGGTTGGAGGGTATTTAAGTGTGAATGGTTCGTG
ACCTTTGCCAATCGAGGCGTGAGCAGAATTCCCTATACTTTTCCTGCCTTTTCGATATAATATCA
AGATATCCTAATGCAGATTTTAATTAGTTATCAAACATTATCAGCTAAATGATAAATGTAAAGAT
ATTTTATAAGGTATGGAGAGAGAAAAAAGTAGTATGATTTGGCTA
Found at i:948651 original size:61 final size:57
Alignment explanation
Indices: 948562--949150 Score: 646
Period size: 55 Copynumber: 10.3 Consensus size: 57
948552 AAGTGCATCA
* * * * * *
948562 TGCTCTTTAAGGACT-AAAAAGTGTCACCAACTCGTGTGGGCTTTGAAAAGGAAAAGTGTCA
1 TGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAA-G--AAGCGTCC
* ** * *
948623 TGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGAGAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AA-AG-AAGCGTCC
* *
948684 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT--AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
* *
948739 TGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTGAAAG--GCGTCT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
* * * *
948794 TGTTCTTTGTGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGTGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-G-AA-GCGTCC
* ** *
948855 TGCTCTTTGAGGACTTGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAA-G--AAGCGTCC
*
948916 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
*
948971 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG--GCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
* * *
949026 TGCTCTTTGAGGACTAGAAAATGCCATCAACTTGTGTGGGCTTT--AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
* * * *
949081 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA-AGGCGTCA
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
949136 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
949151 AAAGGGCGAA
Statistics
Matches: 461, Mismatches: 50, Indels: 40
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.01
55 258 0.56
56 7 0.02
57 9 0.02
58 2 0.00
61 172 0.37
62 9 0.02
63 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (57 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCGTCC
Found at i:948760 original size:55 final size:56
Alignment explanation
Indices: 948623--949150 Score: 663
Period size: 55 Copynumber: 9.3 Consensus size: 56
948613 AAAAGTGTCA
* ** * *
948623 TGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGAGAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AAGAG---GCGTCC
*
948684 TGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
* *
948739 TGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTGAA-AGGCGTCT
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
* * * *
948794 TGTTCTTTGTGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGGTGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AA-G--AGGCGTCC
* ** * *
948855 TGCTCTTTGAGGACTTGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGGAAAAGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AA-G--AGGCGTCC
948916 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
*
948971 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
* *
949026 TGCTCTTTGAGGACTAGAAAATGCCATCAACTTGTGTGGGCTTT-AAGAGGCGTCC
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
* * * *
949081 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGCGTCA
1 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
949136 TGCTCTTTGAGGACT
1 TGCTCTTTGAGGACT
949151 AAAGGGCGAA
Statistics
Matches: 418, Mismatches: 40, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
54 2 0.00
55 265 0.63
56 4 0.01
57 3 0.01
58 7 0.02
61 137 0.33
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (56 bp):
TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAGAGGCGTCC
Found at i:948992 original size:232 final size:231
Alignment explanation
Indices: 948551--949124 Score: 885
Period size: 232 Copynumber: 2.5 Consensus size: 231
948541 AAAGGAAAAT
* * * *
948551 AAAGTGCATCATGCTCTTTAAGGACTAAAAAGTGTCACCAACTCGTGTGGGCTTTGAAAAGGAAA
1 AAAG-GCATCCTGCTCTTTGAGGACTAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAAGGAAA
* * * *
948616 AGTGTCATGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTAGGCTTTGCAAAGAGAAAGCA
64 GGTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCA
948681 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
129 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
948746 TGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTG
194 TGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTG
* * * *
948784 AAAGGCGTCTTGTTCTTTGTGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG
1 AAAGGCATCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG
*
948849 GTGTCCTGCTCTTTGAGGACTTGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAG-GAAAAGCA
65 GTGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAG-AAAGCA
*
948913 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
129 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTT
*
948978 TGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG
194 TGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTTG
*
949016 AAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCATCAACTTGTGTGGGCTTT---AA-G--AG
1 AAAGGCATCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAG
*
949075 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT
65 GTGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTT
949125 AAAAGGCGTC
Statistics
Matches: 316, Mismatches: 21, Indels: 15
0.90 0.06 0.04
Matches are distributed among these distances:
226 46 0.15
227 3 0.01
228 1 0.00
229 2 0.01
231 2 0.01
232 253 0.80
233 9 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (231 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAGG
TGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAAGCATC
CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCTTTG
AGGACTGGAAAATACCACCAACTTGTGTGGGCTTTG
Found at i:949299 original size:155 final size:154
Alignment explanation
Indices: 949023--949595 Score: 888
Period size: 155 Copynumber: 3.7 Consensus size: 154
949013 TTGAAAGGCA
* * * *
949023 TCCTGCTCTTTGAGGACTAGAAAATGCCATCAACTTGTGTGGGCTTT--AA-G--AGGCGTCCTG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCCTG
*
949083 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCATGCTCTTTGAGG
66 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
* *
949148 ACTAAAGGGCGAAAGGAGAGAGTG
131 ACTAAAGGGTGAAAGGAGAGAGCG
949172 TCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGCATCC
* * * * *
949236 TGCTCTTTGAGGACTGAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTACTCTTTGA
64 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
*
949301 GGACTAAAGGGTGAAAGGAGAGGGCG
129 GGACTAAAGGGTGAAAGGAGAGAGCG
* * *
949327 TCCTGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCATCCT
* * *
949392 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACGTCCTGCTTTTTGAA
65 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAG
*
949457 GACTAAAGGGTGAAAGGAGAGAGCA
130 GACTAAAGGGTGAAAGGAGAGAGCG
949482 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGATAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAGGCATCCT
949547 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
65 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
949596 GAAAAAGGTG
Statistics
Matches: 384, Mismatches: 31, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
148 2 0.01
149 41 0.11
151 2 0.01
152 1 0.00
154 1 0.00
155 334 0.87
156 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (154 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCATCCTG
CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
ACTAAAGGGTGAAAGGAGAGAGCG
Found at i:949390 original size:61 final size:61
Alignment explanation
Indices: 949314--949439 Score: 216
Period size: 61 Copynumber: 2.1 Consensus size: 61
949304 CTAAAGGGTG
*
949314 AAAGGAGAGGGCGTCCTGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGAGCTTTA
1 AAAGGAGAAGGCGTCCTGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGAGCTTTA
* * *
949375 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAGAAGGCGTCCTGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGAGCTTTA
949436 AAAG
1 AAAG
949440 ACGTCCTGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (61 bp):
AAAGGAGAAGGCGTCCTGCTATTTGAGGACTAGGAAGTGCCACCAACTTGTGTGAGCTTTA
Found at i:949566 original size:61 final size:60
Alignment explanation
Indices: 949482--949802 Score: 402
Period size: 61 Copynumber: 5.3 Consensus size: 60
949472 GGAGAGAGCA
* * *
949482 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGATAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
949543 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GG-AAAAGGCG
* * *
949606 TCCTGCTCTTTGAAGACTAAAAGGTACCACCAACTTGTGTGGGCTTT------AAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
949661 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
* * *
949723 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGGAAAATGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCG
*
949784 TCCTGCTTTTTGAGGACTG
1 TCCTGCTCTTTGAGGACTG
949803 GAAGGGCTAA
Statistics
Matches: 229, Mismatches: 21, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
55 50 0.22
61 101 0.44
62 33 0.14
63 45 0.20
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
Found at i:949706 original size:118 final size:117
Alignment explanation
Indices: 949482--949775 Score: 403
Period size: 118 Copynumber: 2.5 Consensus size: 117
949472 GGAGAGAGCA
*
949482 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGATAAGGCATCCT
1 TCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTT--AA--A-AAGGCATCCT
* * * *
949547 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAAGGTG
60 GCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAA-AGAAAAAGGCG
* * *
949606 TCCTGCTCTTTGAAGACTAAAAGGTACCACCAACTTGTGTGGGCTTT-AAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCT
949670 TTGAGGACT-GAAAGGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCG
65 TTGAGGACTGGAAA-GTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCG
* *
949723 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGG
949776 AAAATGCGTC
Statistics
Matches: 156, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
116 22 0.14
117 39 0.25
118 50 0.32
119 1 0.01
121 1 0.01
123 2 0.01
124 41 0.26
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (117 bp):
TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCATCCTGCTCTT
TGAGGACTGGAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAGAAAAAGGCG
Done.