Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 273 of 344
Found at i:91380774 original size:30 final size:30
Alignment explanation
Indices: 91380740--91380800 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
91380730 TCCTTAACTA
91380740 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
91380770 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
91380800 A
1 A
91380801 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:91385303 original size:64 final size:64
Alignment explanation
Indices: 91385202--91385329 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
91385192 CATATAATAA
*
91385202 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* *
91385266 CACATCTAGTTAGGATCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
91385330 TGATACATGA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:91385516 original size:45 final size:44
Alignment explanation
Indices: 91385444--91385831 Score: 201
Period size: 45 Copynumber: 8.8 Consensus size: 44
91385434 AAGATTGTAG
* * * *
91385444 ATCTTGTCTCCCTGAAGTTACAATGGAGCAGATCGAAGACGGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGC-A
* * * * *
91385489 ATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAATTTAAG-CCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGCA
* * ** * * ** *
91385532 ATCTTATCTCCCT-AAGTTGTAGTGGAATAGGTTAAAAGATTGTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGACCGCA
* * * **
91385576 GATCTTGTCTCCCTAAAGTTGCAGTGGAGCAAATCGAAGATGGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGC-A
* * * *
91385622 ATATTGTCTCCCTGAAGTTGCAGTGGAGCAGATTTAAG-CCACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGCA
* * * * **
91385665 ATCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAG-CCATAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACC-GCA
* * * * * * ***
91385709 ATCTTATCCCCCTAAAGTTGCAGTGGGGCAGGTCGAA-ATTACA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGCA
* * ** **
91385752 AGTCTTATCTACCTGAAGTTGCAGTGGAGCAGCCTGAAGATAGCAA
1 A-TCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGC-A
* ** * *
91385798 ATCTTATCTTTCTGAAGTTGTAGTAGAGCAGATT
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATT
91385832 AAAGCTACAA
Statistics
Matches: 260, Mismatches: 73, Indels: 20
0.74 0.21 0.06
Matches are distributed among these distances:
42 16 0.06
43 51 0.20
44 63 0.24
45 113 0.43
46 17 0.07
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACCGCA
Found at i:91385615 original size:133 final size:132
Alignment explanation
Indices: 91385404--91385691 Score: 459
Period size: 133 Copynumber: 2.2 Consensus size: 132
91385394 TCACAAGCCC
* * *
91385404 TATCTCCCTAAATTGTAGTGGATTAGGCTAAAGATTGTAGATCTTGTCTCCCTGAAGTTACAATG
1 TATCTCCCTAAGTTGTAGTGGAATAGGCTAAAGATTGTAGATCTTGTCTCCCTAAAGTTACAATG
* * *
91385469 GAGCAGATCGAAGACGGCGAATCTTGTCTCCCTGAAGTTGTAGTGGAGCAAATTTAAGCCACCAT
66 GAGCAAATCGAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCAT
91385534 CT
131 CT
* * *
91385536 TATCTCCCTAAGTTGTAGTGGAATAGGTTAAAAGATTGTAGATCTTGTCTCCCTAAAGTTGCAGT
1 TATCTCCCTAAGTTGTAGTGGAATAGGCT-AAAGATTGTAGATCTTGTCTCCCTAAAGTTACAAT
* *
91385601 GGAGCAAATCGAAGATGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCCACCA
65 GGAGCAAATCGAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCA
91385666 TCT
130 TCT
91385669 TATCTCCCTAAAGTTGTAGTGGA
1 TATCTCCCT-AAGTTGTAGTGGA
91385692 GTAGATTGAA
Statistics
Matches: 143, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 26 0.18
133 104 0.73
134 13 0.09
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (132 bp):
TATCTCCCTAAGTTGTAGTGGAATAGGCTAAAGATTGTAGATCTTGTCTCCCTAAAGTTACAATG
GAGCAAATCGAAGACGGCGAATATTGTCTCCCTGAAGTTGCAGTGGAGCAAATTTAAGCCACCAT
CT
Found at i:91385727 original size:44 final size:43
Alignment explanation
Indices: 91385631--91385739 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
91385621 AATATTGTCT
* * ** *
91385631 CCCTGAAGTTGCAGTGGAGCAGATTTAAGCCACCATCTTATCT
1 CCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAAAATCTTATCC
* *
91385674 CCCTAAAGTTGTAGTGGAGTAGATTGAAGCCATAAATCTTATCC
1 CCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-AAATCTTATCC
*
91385718 CCCTAAAGTTGCAGTGGGGCAG
1 CCCTAAAGTTGCAGTGGAGCAG
91385740 GTCGAAATTA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 28 0.51
44 27 0.49
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (43 bp):
CCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAAAATCTTATCC
Found at i:91392135 original size:39 final size:39
Alignment explanation
Indices: 91392054--91392269 Score: 165
Period size: 39 Copynumber: 5.6 Consensus size: 39
91392044 TTGAATGCTG
* *
91392054 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGA-T-AATA-A
* * * *
91392093 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGATAATAA
* * *
91392132 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATAATAA
* * **
91392171 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATAAT-AA
* * * * *
91392211 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATAATAA
* *
91392249 ACCGGGCTATGT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
91392270 CTTGAACGAG
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
37 9 0.06
38 13 0.08
39 87 0.56
40 37 0.24
41 9 0.06
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGATAATAA
Found at i:91392188 original size:78 final size:77
Alignment explanation
Indices: 91392054--91392269 Score: 211
Period size: 78 Copynumber: 2.8 Consensus size: 77
91392044 TTGAATGCTG
* * * * * * * * *
91392054 TCCGGGCTAAGT-CCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AACCGGGCTAAG-TCCGAAGGCATTC
91392118 GTGCGAGATACT-AA
63 GTGCGAGATACTAAA
* * *
91392132 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAACCGGGCTAAGT-CCGAAGGCATTCG
* **
91392197 TGCGAGTTGTTAAA
64 TGCGAGATACTAAA
* * *
91392211 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAACCGGGCTATGTCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCGAAGGCA
91392270 CTTGAACGAG
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
77 10 0.09
78 61 0.53
79 41 0.35
80 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (77 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAACCGGGCTAAGTCCGAAGGCATTCGTG
CGAGATACTAAA
Found at i:91392225 original size:40 final size:40
Alignment explanation
Indices: 91392106--91392269 Score: 203
Period size: 39 Copynumber: 4.2 Consensus size: 40
91392096 GGACTAAGAT
* * * *
91392106 CCGAAGGCCTTTGTGCGAGATACT-AATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
91392145 CCGAAGGCATTCGTGCGAGTTATT-AATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
91392184 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * *
91392224 CCGAAGGCATT-GTGTGAGTTACTAAA-CCGGGCTATGT-
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
91392261 CCGAAGGCA
1 CCGAAGGCA
91392270 CTTGAACGAG
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
37 9 0.08
38 10 0.09
39 70 0.61
40 25 0.22
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:91400051 original size:79 final size:79
Alignment explanation
Indices: 91399944--91400108 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
91399934 GGACTAAGAT
* * * *
91399944 CCGAAGGCCTTTGTGCGAGATACTAAAT-CGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA-TCGTGCGAGTTACTA
* *
91400008 AAGCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* ** * * *
91400023 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAA
*
91400088 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
91400102 CCGAAGG
1 CCGAAGG
91400109 GATTTGAACG
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
79 54 0.75
80 18 0.25
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAA
AACCGGGCTAAGTC
Found at i:91400094 original size:39 final size:40
Alignment explanation
Indices: 91399944--91400108 Score: 181
Period size: 40 Copynumber: 4.2 Consensus size: 40
91399934 GGACTAAGAT
* * * *
91399944 CCGAAGGCCTTTGTGCGAGATACT-AAATCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
* * *
91399983 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
** * *
91400023 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
* * * *
91400063 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
91400102 CCGAAGG
1 CCGAAGG
91400109 GATTTGAACG
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 49 0.46
40 58 0.54
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGTTAAGTC
Found at i:91400132 original size:79 final size:80
Alignment explanation
Indices: 91399966--91400147 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
91399956 GTGCGAGATA
* * * *
91399966 CTAAAT-CGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
91400030 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
91400045 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
91400109 GATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
91400124 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
91400148 TACGTGATTT
Statistics
Matches: 83, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
78 14 0.17
79 51 0.61
80 18 0.22
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:91415381 original size:15 final size:14
Alignment explanation
Indices: 91415355--91415406 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
91415345 AATAAAGAAG
*
91415355 AATAAGAAATAAAT
1 AATAAAAAATAAAT
*
91415369 ATTAATAAAAT-AAT
1 AATAA-AAAATAAAT
91415383 AATAAAAACATAAAT
1 AATAAAAA-ATAAAT
91415398 AAATAAAAA
1 -AATAAAAA
91415407 TTAGGGAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 13 0.42
15 7 0.23
16 8 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAAAATAAAT
Found at i:91425198 original size:27 final size:27
Alignment explanation
Indices: 91425168--91425345 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
91425158 ATATTGAGCC
* *
91425168 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
91425195 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
91425222 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
91425250 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
91425277 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
91425304 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
91425331 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
91425346 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:91425307 original size:82 final size:81
Alignment explanation
Indices: 91425189--91425344 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
91425179 TGCTATATAA
* *
91425189 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
91425254 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
91425271 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
91425335 CACTTAGTGC
65 CACTTAGTGC
91425345 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:91430379 original size:21 final size:21
Alignment explanation
Indices: 91430309--91430379 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
91430299 CATATATATC
*
91430309 ATGAACTCAAACCACAACTCA
1 ATGAACTCAGACCACAACTCA
** * *
91430330 ATGAGTTCGGATGCCACATATATC-
1 ATGAACTCAGA--CCACA-A-CTCA
91430354 ATGAACTCAGACCACAACTCA
1 ATGAACTCAGACCACAACTCA
91430375 ATGAA
1 ATGAA
91430380 TTTAGATCAC
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
20 2 0.06
21 13 0.36
22 5 0.14
23 5 0.14
24 9 0.25
25 2 0.06
ACGTcount: A:0.41, C:0.27, G:0.13, T:0.20
Consensus pattern (21 bp):
ATGAACTCAGACCACAACTCA
Found at i:91432499 original size:28 final size:28
Alignment explanation
Indices: 91432459--91432515 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
91432449 CAATATAAGA
91432459 ACATAATTTGAAGTTTATGTGATTGTTG
1 ACATAATTTGAAGTTTATGTGATTGTTG
91432487 ACATAATTTGAAGTTTATGTGATTGTTG
1 ACATAATTTGAAGTTTATGTGATTGTTG
91432515 A
1 A
91432516 TGTTAACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (28 bp):
ACATAATTTGAAGTTTATGTGATTGTTG
Found at i:91432833 original size:19 final size:20
Alignment explanation
Indices: 91432811--91432848 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91432801 ATTAAAAAAG
91432811 ATAAAAAT-AACTTTTTTTT
1 ATAAAAATAAACTTTTTTTT
*
91432830 ATAAAATTAAACTTTTTTT
1 ATAAAAATAAACTTTTTTT
91432849 AAAAGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAAAAATAAACTTTTTTTT
Found at i:91450236 original size:45 final size:45
Alignment explanation
Indices: 91450172--91450302 Score: 167
Period size: 45 Copynumber: 3.0 Consensus size: 45
91450162 GTTGTACAGT
* *
91450172 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAAAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* * *
91450217 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* * * *
91450262 ATTTTTTGGGCC-TCGAGCCTAGCAGGC-AAAATGACGGTGAA
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
91450303 TAAATTCGGG
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 11 0.14
44 14 0.18
45 51 0.67
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:91456739 original size:163 final size:163
Alignment explanation
Indices: 91456469--91456803 Score: 670
Period size: 163 Copynumber: 2.1 Consensus size: 163
91456459 ATTCTAATGG
91456469 TATGATTTTAAATAATGTAAGAAATGGAATGTGAATAATGTTGATGCATAGGTGAAAACATTATG
1 TATGATTTTAAATAATGTAAGAAATGGAATGTGAATAATGTTGATGCATAGGTGAAAACATTATG
91456534 TTCAGCTATGATGGTATATTAATGTGTAATTAACCCATTTTGATAACATTATATAGAGTGATAAA
66 TTCAGCTATGATGGTATATTAATGTGTAATTAACCCATTTTGATAACATTATATAGAGTGATAAA
91456599 TAATAATGATTAGAAGTGTATTGGTTAAGTAAA
131 TAATAATGATTAGAAGTGTATTGGTTAAGTAAA
91456632 TATGATTTTAAATAATGTAAGAAATGGAATGTGAATAATGTTGATGCATAGGTGAAAACATTATG
1 TATGATTTTAAATAATGTAAGAAATGGAATGTGAATAATGTTGATGCATAGGTGAAAACATTATG
91456697 TTCAGCTATGATGGTATATTAATGTGTAATTAACCCATTTTGATAACATTATATAGAGTGATAAA
66 TTCAGCTATGATGGTATATTAATGTGTAATTAACCCATTTTGATAACATTATATAGAGTGATAAA
91456762 TAATAATGATTAGAAGTGTATTGGTTAAGTAAA
131 TAATAATGATTAGAAGTGTATTGGTTAAGTAAA
91456795 TATGATTTT
1 TATGATTTT
91456804 TATTTTATTA
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 172 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (163 bp):
TATGATTTTAAATAATGTAAGAAATGGAATGTGAATAATGTTGATGCATAGGTGAAAACATTATG
TTCAGCTATGATGGTATATTAATGTGTAATTAACCCATTTTGATAACATTATATAGAGTGATAAA
TAATAATGATTAGAAGTGTATTGGTTAAGTAAA
Found at i:91458119 original size:45 final size:45
Alignment explanation
Indices: 91458055--91458185 Score: 160
Period size: 45 Copynumber: 3.0 Consensus size: 45
91458045 GTTGTACAGT
* * *
91458055 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAAAC
1 ATTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* * * *
91458100 ATTATTTGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGAT
1 ATTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
*
91458145 ATT-TTTCGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGAA
1 ATTATTT-GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
91458186 TAAATTCGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
43 11 0.15
44 17 0.23
45 47 0.63
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (45 bp):
ATTATTTGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:91461123 original size:21 final size:21
Alignment explanation
Indices: 91461078--91461124 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
91461068 CAAAACTTGT
*
91461078 AAATCTATCAACAAGCATTCA
1 AAATCTATCAACAAGAATTCA
*
91461099 AAATCTATCAATAA-AATTCA
1 AAATCTATCAACAAGAATTCA
91461119 GAAATC
1 -AAATC
91461125 ACACATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (21 bp):
AAATCTATCAACAAGAATTCA
Found at i:91466512 original size:11 final size:11
Alignment explanation
Indices: 91466493--91466527 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
91466483 AATGGTAGAT
91466493 TGAAAATTAAG
1 TGAAAATTAAG
*
91466504 TGTAAATTAAG
1 TGAAAATTAAG
*
91466515 TGAAAATAAAG
1 TGAAAATTAAG
91466526 TG
1 TG
91466528 GTCATCTTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (11 bp):
TGAAAATTAAG
Found at i:91469495 original size:50 final size:50
Alignment explanation
Indices: 91469305--91469497 Score: 219
Period size: 50 Copynumber: 3.8 Consensus size: 50
91469295 ATTGTGAATA
* * * *
91469305 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGA-TGATTAGGT
* * * * * *
91469355 CTCATGTGTAGTACTAAGTGCAGGCTACTATGCATACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATGA-TTAGGT
* * *
91469406 CACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGATGATGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGATTAGGT
*
91469456 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
91469498 AGCTTCGGCT
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
49 2 0.02
50 76 0.64
51 40 0.34
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGATTAGGT
Found at i:91469504 original size:101 final size:101
Alignment explanation
Indices: 91469305--91469488 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
91469295 ATTGTGAATA
* * * *
91469305 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCTCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTGAAGTCACATGTGTAGTACT
91469370 AAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
66 AAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
* * *
91469406 CACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTATCAGA-TGATGAGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTG-TGAAGTCACATGTGTAGTAC
91469470 TAAGTGCAGGCTACTATGC
65 TAAGTGCAGGCTACTATGC
91469489 GTATCAGATA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 2 0.03
101 73 0.97
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGTGAAGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCATACTCAATGACTTCGAT
Found at i:91476786 original size:50 final size:50
Alignment explanation
Indices: 91476709--91476947 Score: 211
Period size: 50 Copynumber: 4.8 Consensus size: 50
91476699 ATTGTGAATA
* *
91476709 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAT-ACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATGACTGTTAA-T
* ** * *
91476759 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATCACT-TTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TC-ATGACTGTTAAT
* * * * *
91476810 CACGTGTGTAGTACTAATTGCAGACTACTATGTGTATCA-GA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATGACTG-TTA-AT
* * * **
91476860 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-C-TGGATTGTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAT-GACTGTTAAT
* *
91476909 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCA
91476948 GATAGCTTCG
Statistics
Matches: 152, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 36 0.24
50 71 0.47
51 35 0.23
52 5 0.03
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCATGACTGTTAAT
Found at i:91476949 original size:99 final size:98
Alignment explanation
Indices: 91476709--91476950 Score: 270
Period size: 101 Copynumber: 2.4 Consensus size: 98
91476699 ATTGTGAATA
* * * * *
91476709 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGTGAAGTCACATGTGTAGTACT
* *
91476774 AAGTGCAGGCTACTATGCATACTCAATCACTTTGAT
65 AAGTGCAGGCTACTACGCATACTCAAT--CTTCGAT
* * * * *
91476810 CACGTGTGTAGTACTAATTGCAGACTACTATGTGTATCAGATGATGAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATG-TGAAGTCACATGTGTAGTACT
** **
91476875 AAGTGCAGGCTACTACGTGTACTGGAT-TGTCGAT
65 AAGTGCAGGCTACTACGCATACTCAATCT-TCGAT
* *
91476909 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGAT
91476951 AGCTTCGGCT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
98 1 0.01
99 41 0.35
100 2 0.02
101 74 0.63
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (98 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGTGAAGTCACATGTGTAGTACTA
AGTGCAGGCTACTACGCATACTCAATCTTCGAT
Found at i:91479538 original size:99 final size:98
Alignment explanation
Indices: 91479363--91479543 Score: 220
Period size: 99 Copynumber: 1.8 Consensus size: 98
91479353 ATTATTGAAG
* * * * * **
91479363 GTTAAAAGGTTTAAATTTTTTTCTTGTAAAGTAATGCTCCTTAACCTTAATCTGGTGACAGAGAT
1 GTTAAAAAGTTTAAATTTTTTTATCGTAAAGTAATGCTCCGTAACCTTAATCCGACGACAGAGAT
*
91479428 GGGTTAGGGGTGTTACATTTATTGGTATCAAAT
66 GGGTTAAGGGTGTTACATTTATTGGTATCAAAT
** * **
91479461 GTTAAAAAGTTTAAATGTTTTTTATCGTATGGTAATGCTTCGTAACCTTAATCCGACGATGGAGA
1 GTTAAAAAGTTTAAAT-TTTTTTATCGTAAAGTAATGCTCCGTAACCTTAATCCGACGACAGAGA
91479526 CT-GGTTAAGGGTGTTACA
65 -TGGGTTAAGGGTGTTACA
91479544 CCATTCACAA
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
98 15 0.22
99 52 0.76
100 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (98 bp):
GTTAAAAAGTTTAAATTTTTTTATCGTAAAGTAATGCTCCGTAACCTTAATCCGACGACAGAGAT
GGGTTAAGGGTGTTACATTTATTGGTATCAAAT
Found at i:91487008 original size:13 final size:13
Alignment explanation
Indices: 91486987--91487020 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
91486977 CTATGTGAAG
*
91486987 CACATGGGAAGGT
1 CACACGGGAAGGT
91487000 CACACGGGAAGGT
1 CACACGGGAAGGT
91487013 CACACGGG
1 CACACGGG
91487021 CGTGTGTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.38, T:0.09
Consensus pattern (13 bp):
CACACGGGAAGGT
Found at i:91490886 original size:14 final size:14
Alignment explanation
Indices: 91490867--91490893 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
91490857 TAGGTTTTAT
91490867 AATTTTTATTTAAC
1 AATTTTTATTTAAC
91490881 AATTTTTATTTAA
1 AATTTTTATTTAA
91490894 AATCCATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTATTTAAC
Found at i:91491623 original size:28 final size:28
Alignment explanation
Indices: 91491580--91491684 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 28
91491570 GAAATCAGTG
*
91491580 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCCGTAGCCCATATCAATA
*
91491607 TTAATCTGGGCCGTAGCCCCT-TACAATAA
1 TTAATCTGGGCCGTAGCCCATAT-CAAT-A
** *
91491636 AGAGTATACTGGGCC-TAGCCCATATCAGTA
1 TTA--AT-CTGGGCCGTAGCCCATATCAATA
*
91491666 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCCGTAGCCC
91491685 TATACAAGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
27 12 0.19
28 26 0.42
29 2 0.03
30 2 0.03
31 12 0.19
32 8 0.13
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (28 bp):
TTAATCTGGGCCGTAGCCCATATCAATA
Found at i:91491662 original size:59 final size:59
Alignment explanation
Indices: 91491583--91491719 Score: 179
Period size: 59 Copynumber: 2.3 Consensus size: 59
91491573 ATCAGTGTTA
*
91491583 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCGTAGCCCCT-TACAA-TAAAGAGTAT
1 ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCGTAG-CCCTATACAAGTAAAGA-TAT
* **
91491643 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATACAAGTCGAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCGTAGCCCTATACAAGTAAAGATAT
* *
91491702 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
91491720 TAACATAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
58 4 0.06
59 53 0.77
60 12 0.17
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTGGGCCGTAGCCCTATACAAGTAAAGATAT
Found at i:91494704 original size:15 final size:17
Alignment explanation
Indices: 91494667--91494705 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
91494657 CTTATATCAT
91494667 TATTAGAATGAATTCTA
1 TATTAGAATGAATTCTA
91494684 TTATTAGAA-GAATTCTA
1 -TATTAGAATGAATTCTA
91494701 -ATTAG
1 TATTAG
91494706 TCTATAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (17 bp):
TATTAGAATGAATTCTA
Found at i:91494704 original size:18 final size:18
Alignment explanation
Indices: 91494665--91494700 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
91494655 TTCTTATATC
91494665 ATTATTAGAATGAATTCT
1 ATTATTAGAATGAATTCT
91494683 ATTATTAGAA-GAATTCT
1 ATTATTAGAATGAATTCT
91494700 A
1 A
91494701 ATTAGTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (18 bp):
ATTATTAGAATGAATTCT
Found at i:91505671 original size:27 final size:27
Alignment explanation
Indices: 91505641--91505700 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
91505631 TAAAGTGTTC
91505641 TTATATTTTTTATTAAAAATTAAGTTG
1 TTATATTTTTTATTAAAAATTAAGTTG
91505668 TTATATTTTTTATTAAAAATTAAGTTG
1 TTATATTTTTTATTAAAAATTAAGTTG
*
91505695 GTATAT
1 TTATAT
91505701 GTAAATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (27 bp):
TTATATTTTTTATTAAAAATTAAGTTG
Found at i:91507798 original size:6 final size:6
Alignment explanation
Indices: 91507787--91507824 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
91507777 TTGAGTCAAA
91507787 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AA
1 AATTTG AATTTG AATTTG AATTTG AATTTG AATTTG AA
91507825 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (6 bp):
AATTTG
Found at i:91512495 original size:17 final size:16
Alignment explanation
Indices: 91512469--91512500 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
91512459 TGTAAAAGTG
91512469 AAGTTCTATTAGCTAA
1 AAGTTCTATTAGCTAA
91512485 AAGTATCTATTAGCTA
1 AAGT-TCTATTAGCTA
91512501 TAGAACCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AAGTTCTATTAGCTAA
Found at i:91512918 original size:21 final size:20
Alignment explanation
Indices: 91512881--91512920 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91512871 TATGTATGAT
91512881 TTTTGATGATTGATGATAGA
1 TTTTGATGATTGATGATAGA
* *
91512901 TTTTGAATGGTTGTTGATAG
1 TTTTG-ATGATTGATGATAG
91512921 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (20 bp):
TTTTGATGATTGATGATAGA
Found at i:91531612 original size:24 final size:25
Alignment explanation
Indices: 91531576--91531623 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
91531566 AAAACCCTTT
91531576 CTTTTTTT-TTTTTCAATCTTAACC
1 CTTTTTTTATTTTTCAATCTTAACC
91531600 CTTTTTTTATTTTTCAATCTTAAC
1 CTTTTTTTATTTTTCAATCTTAAC
91531624 TATGTTTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (25 bp):
CTTTTTTTATTTTTCAATCTTAACC
Found at i:91531631 original size:25 final size:25
Alignment explanation
Indices: 91531578--91531631 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
91531568 AACCCTTTCT
* * *
91531578 TTTTTTTTTTTCAATCTTAACCCTT
1 TTTTTATTTTTCAATCTTAACCATG
*
91531603 TTTTTATTTTTCAATCTTAACTATG
1 TTTTTATTTTTCAATCTTAACCATG
91531628 TTTT
1 TTTT
91531632 GGAGTAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.15, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTTATTTTTCAATCTTAACCATG
Found at i:91532879 original size:17 final size:17
Alignment explanation
Indices: 91532838--91532880 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
91532828 TCAAAATTTT
*
91532838 TTACTTTC-TTTGAAAT
1 TTACTTTCATTTGAAAA
*
91532854 TTAATTTTCATTTGAAAA
1 TT-ACTTTCATTTGAAAA
91532872 TTACTTTCA
1 TTACTTTCA
91532881 CATAAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 11 0.50
18 9 0.41
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (17 bp):
TTACTTTCATTTGAAAA
Found at i:91534093 original size:20 final size:21
Alignment explanation
Indices: 91534070--91534143 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 21
91534060 AATCAAAACG
*
91534070 TTTATTAAAAATT-ATAAAAT
1 TTTATAAAAAATTCATAAAAT
91534090 TTTATAAAAAATTCATAAAAT
1 TTTATAAAAAATTCATAAAAT
* *
91534111 AAAATTATATAAAATT-ATAAAAT
1 ---TTTATAAAAAATTCATAAAAT
*
91534134 TATATAAAAA
1 TTTATAAAAA
91534144 TGTTAAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 19 0.43
21 7 0.16
23 7 0.16
24 11 0.25
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTATAAAAAATTCATAAAAT
Found at i:91534152 original size:18 final size:18
Alignment explanation
Indices: 91534109--91534144 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
91534099 AATTCATAAA
*
91534109 ATAAAATTATATAAAATT
1 ATAAAATTATATAAAAAT
91534127 ATAAAATTATATAAAAAT
1 ATAAAATTATATAAAAAT
91534145 GTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAATTATATAAAAAT
Found at i:91537178 original size:23 final size:23
Alignment explanation
Indices: 91537152--91537210 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
91537142 AGATTGGCTT
91537152 TGGCCCGTGTGGATCACACGGCC
1 TGGCCCGTGTGGATCACACGGCC
91537175 TGGCCCGTGTGGATCACACGGCC
1 TGGCCCGTGTGGATCACACGGCC
91537198 TGGCCCGTGTGGA
1 TGGCCCGTGTGGA
91537211 CTACCCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.12, C:0.32, G:0.37, T:0.19
Consensus pattern (23 bp):
TGGCCCGTGTGGATCACACGGCC
Found at i:91545864 original size:48 final size:47
Alignment explanation
Indices: 91545812--91546130 Score: 205
Period size: 49 Copynumber: 6.7 Consensus size: 47
91545802 ATGCGAGCCC
*
91545812 GTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAGACTAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-TAGAGCTA
* * *
91545860 GTGTAAGA-CATGTGTGGGACAT-GCATCGGCCTCGTGATG-TA-AGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT--TGA-GATAGAGCTA
* * *
91545906 GTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACT-AGAT-GTG-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATAGAGCT-A
* * * * *
91545950 ATGTAAGACCGTGTCTGGGACATGGCATCGGCACATATG-GA-GGTGTTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG--CAT-TGAGATAGAGCTA
* * * *
91545998 GTGTAAGACCATGTATGGGACATGGCATCGACACTGATATGGAGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT--AGAGCTA
** * ** *
91546047 GTGTAAGACCATGTCTGGGACATGGTGTTGGCCTCAATTTCGATAG-TC-A
1 GTGTAAGACCATGTCTGGGACATGGCATCGG---C-ATTGAGATAGAGCTA
*
91546096 GTGTAAGACCATGTCTGGGACATAGCATCGGCATT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATT
91546131 ATACCCTATG
Statistics
Matches: 212, Mismatches: 36, Indels: 49
0.71 0.12 0.16
Matches are distributed among these distances:
43 1 0.00
44 11 0.05
45 18 0.08
46 53 0.25
47 16 0.08
48 45 0.21
49 60 0.28
50 1 0.00
51 2 0.01
52 1 0.00
53 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (47 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATAGAGCTA
Found at i:91545909 original size:46 final size:46
Alignment explanation
Indices: 91545769--91545981 Score: 157
Period size: 46 Copynumber: 4.6 Consensus size: 46
91545759 TGTGCTAGTA
* * * * * ** *
91545769 TAAGACAAGCCTGGGACATGCATCGGCCACATTATGCGAGCCCGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
* * * * * *
91545815 TAAAACCATGTCTGGGACATGGCATCGGCATTGAGA-CTAGAGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCTCGTGATGTA-AGCCAGTG
*
91545863 TAAGACATGTGTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
* * *
91545909 TAAGACATGTTTGGGACATGCATCGG-CTAC-TAGATGT--GTCAATG
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGT-GATGTAAGCCAGTG
*
91545953 TAAGACCGTGTCTGGGACATGGCATCGGC
1 TAAGA-CATGTCTGGGACAT-GCATCGGC
91545982 ACATATGGAG
Statistics
Matches: 132, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 10 0.08
45 15 0.11
46 61 0.46
47 27 0.20
48 19 0.14
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGTGATGTAAGCCAGTG
Found at i:91551310 original size:21 final size:22
Alignment explanation
Indices: 91551284--91551334 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
91551274 TGCTATTTCT
*
91551284 AATCTCACT-GCTACAATATCC
1 AATCTCACTCGCTACAATAACC
* *
91551305 AATCTCA-TCGCTGCAATAACT
1 AATCTCACTCGCTACAATAACC
91551326 AATCTCACT
1 AATCTCACT
91551335 ACCACTGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.29
Consensus pattern (22 bp):
AATCTCACTCGCTACAATAACC
Found at i:91554126 original size:27 final size:27
Alignment explanation
Indices: 91554095--91554272 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
91554085 TAAATTGTAC
*
91554095 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
91554122 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
91554148 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
91554176 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
91554204 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
91554231 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
91554258 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91554273 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:91554209 original size:82 final size:81
Alignment explanation
Indices: 91554096--91554251 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
91554086 AAATTGTACA
* * *
91554096 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
91554160 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
91554177 GCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
91554242 TGCGAGTTGA
65 TGCGAATTGA
91554252 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:91554263 original size:82 final size:81
Alignment explanation
Indices: 91554092--91554272 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
91554082 GATTAAATTG
* * *
91554092 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
91554157 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
91554173 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
91554237 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
91554255 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
91554273 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:91567937 original size:40 final size:40
Alignment explanation
Indices: 91567882--91568105 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
91567872 TATTCGGATG
91567882 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
91567922 ATATCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
91567965 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
91568005 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
91568045 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
91568085 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
91568106 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:91568027 original size:83 final size:80
Alignment explanation
Indices: 91567886--91568105 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
91567876 CGGATGATAT
* **
91567886 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
91567951 TCCGAGTAGTTG-CTATAC
66 T--G-CTAG-TGACTATAC
* *
91567969 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
91568034 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
91568049 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
91568106 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 15 0.12
80 45 0.36
81 3 0.02
83 61 0.49
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:91576019 original size:40 final size:40
Alignment explanation
Indices: 91575958--91576181 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
91575948 TATTCGGATG
*
91575958 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
91575998 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
91576041 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
91576081 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
91576121 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
91576161 ATATCC-GGCTAACTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
91576182 ATACTTGGGT
Statistics
Matches: 162, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 13 0.08
40 112 0.69
41 1 0.01
43 36 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:91576101 original size:83 final size:80
Alignment explanation
Indices: 91575962--91576181 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
91575952 CGGATGATAT
* * * **
91575962 CCGGGCTAAGTCTCGAAGGCATTTGTGCAAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
91576027 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
91576045 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
91576110 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
91576125 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAACTCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
91576182 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.36
81 2 0.02
83 62 0.50
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:91590907 original size:13 final size:13
Alignment explanation
Indices: 91590891--91590915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91590881 GAAATAAGAA
91590891 TAATTAATAAATT
1 TAATTAATAAATT
91590904 TAATTAATAAAT
1 TAATTAATAAAT
91590916 AAACTTACAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTAATAAATT
Found at i:91591007 original size:21 final size:23
Alignment explanation
Indices: 91590967--91591009 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
91590957 AGCATAAATA
*
91590967 AAAATATAATATATAAACATATT
1 AAAATATAACATATAAACATATT
91590990 AAAATAT-ACATA-AAACATAT
1 AAAATATAACATATAAACATAT
91591010 CAATATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATATAACATATAAACATATT
Found at i:91591243 original size:22 final size:23
Alignment explanation
Indices: 91591218--91591265 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
91591208 GAAATGAAGG
*
91591218 TTTATATTTTCATTTT-T-ATTTT
1 TTTATATTTGC-TTTTATGATTTT
91591240 TTTATATTTGCTTTTATGATTTT
1 TTTATATTTGCTTTTATGATTTT
91591263 TTT
1 TTT
91591266 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 11 0.48
23 8 0.35
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (23 bp):
TTTATATTTGCTTTTATGATTTT
Found at i:91591816 original size:20 final size:20
Alignment explanation
Indices: 91591793--91591832 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
91591783 CTATTTAAAC
*
91591793 AATATTA-ATTGAATAGTTAT
1 AATATTAGA-TGAATAATTAT
91591813 AATATTAGATGAATAATTAT
1 AATATTAGATGAATAATTAT
91591833 GGGTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (20 bp):
AATATTAGATGAATAATTAT
Found at i:91609854 original size:18 final size:18
Alignment explanation
Indices: 91609831--91609872 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
91609821 CACTGTTTCA
*
91609831 TGTGTTTAATCACTGACT
1 TGTGTTTAATCACTAACT
91609849 TGTGTTTAATCACTAACT
1 TGTGTTTAATCACTAACT
91609867 TGTGTT
1 TGTGTT
91609873 GTTAATGGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (18 bp):
TGTGTTTAATCACTAACT
Found at i:91610700 original size:12 final size:12
Alignment explanation
Indices: 91610682--91610715 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
91610672 TTACATGGCA
91610682 CAGCACACGGCC
1 CAGCACACGGCC
* *
91610694 TAGCACACGACC
1 CAGCACACGGCC
91610706 CAGCACACGG
1 CAGCACACGG
91610716 GCGTGTGAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.44, G:0.24, T:0.03
Consensus pattern (12 bp):
CAGCACACGGCC
Found at i:91622274 original size:19 final size:19
Alignment explanation
Indices: 91622237--91622274 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
91622227 GGTTTCCAGT
*
91622237 GTCCAATTTTCGATCTCAA
1 GTCCAATTTTCAATCTCAA
*
91622256 GTCCAATTTTCAATTTCAA
1 GTCCAATTTTCAATCTCAA
91622275 TTACCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (19 bp):
GTCCAATTTTCAATCTCAA
Found at i:91624263 original size:17 final size:18
Alignment explanation
Indices: 91624241--91624276 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
91624231 TAGATGAGTT
91624241 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
91624258 AATTAGGATATAAATTGG
1 AATTAGGATATAAATTGG
91624276 A
1 A
91624277 TAGAAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:91628517 original size:37 final size:38
Alignment explanation
Indices: 91628467--91628547 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 38
91628457 CTTATTACGA
* *
91628467 AGTCTTACCCGGACATAATCT-CCACACGAAGTTATCG
1 AGTCTTACCCGGACAGAATCTCCCACACGAAGTCATCG
* *
91628504 AGTCTTACCCGGACAGAATTTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAGAATCTCCCACACGAAGTCATCG
*
91628542 GGTCTT
1 AGTCTT
91628548 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (38 bp):
AGTCTTACCCGGACAGAATCTCCCACACGAAGTCATCG
Found at i:91628739 original size:47 final size:47
Alignment explanation
Indices: 91628678--91629103 Score: 638
Period size: 47 Copynumber: 9.1 Consensus size: 47
91628668 TATCACATTT
* * * *
91628678 ATACAC-TTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
91628724 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
91628771 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
91628818 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
91628865 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
91628912 ATATGCATGTTCACATTCATCACATTGGCCATTCGGTCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
*
91628959 ATACACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
91629006 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
** *
91629053 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
91629101 ATA
1 ATA
91629104 TACACTTTCC
Statistics
Matches: 343, Mismatches: 35, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 6 0.02
47 330 0.96
48 7 0.02
ACGTcount: A:0.26, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:91637260 original size:13 final size:13
Alignment explanation
Indices: 91637238--91637323 Score: 50
Period size: 13 Copynumber: 6.2 Consensus size: 13
91637228 TTTAATAATA
*
91637238 TAATAAATTATTT
1 TAATATATTATTT
91637251 TAATATATTATTTAT
1 TAATATATTA-TT-T
*
91637266 TATTACTATTTATTT
1 TAATA-TA-TTATTT
* *
91637281 TTATATTAATTTTTT
1 TAATA-T-ATTATTT
*
91637296 TAA-ATAATAATTT
1 TAATAT-ATTATTT
91637309 TAA-ATATTATTT
1 TAATATATTATTT
91637321 TAA
1 TAA
91637324 AAATACCAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
12 9 0.16
13 21 0.36
14 3 0.05
15 17 0.29
16 5 0.09
17 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATATATTATTT
Found at i:91637490 original size:22 final size:22
Alignment explanation
Indices: 91637463--91637538 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
91637453 AATATTATTA
91637463 ATTTAATTAAATCAATATGAGT
1 ATTTAATTAAATCAATATGAGT
* * *
91637485 ATTTAAAT-AA--AATATTATT
1 ATTTAATTAAATCAATATGAGT
* *
91637504 AATTTAATTAAATCCATCTGAGT
1 -ATTTAATTAAATCAATATGAGT
*
91637527 ATTTATTTAAAT
1 ATTTAATTAAAT
91637539 ATTTTTTGCT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 4 0.10
22 18 0.44
23 5 0.12
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTAATTAAATCAATATGAGT
Found at i:91637508 original size:42 final size:42
Alignment explanation
Indices: 91637449--91637531 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
91637439 ACTTTATAGT
91637449 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
1 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
* *
91637491 ATAAAATATTATTAATTTAATTAAATCCATCTGAGTATTTA
1 ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTA
91637532 TTTAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (42 bp):
ATAAAATATTATTAATTTAATTAAATCAATATGAGTATTTAA
Found at i:91641308 original size:22 final size:22
Alignment explanation
Indices: 91641283--91641343 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
91641273 GAATTAAATT
91641283 GTATATTTTTATAATAGTAAAA
1 GTATATTTTTATAATAGTAAAA
* * ** *
91641305 GTATAATTTTATTATTTTAATA
1 GTATATTTTTATAATAGTAAAA
91641327 GCCTATATTTTTATAAT
1 G--TATATTTTTATAAT
91641344 TTTTATCATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 18 0.60
24 12 0.40
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (22 bp):
GTATATTTTTATAATAGTAAAA
Found at i:91641927 original size:22 final size:22
Alignment explanation
Indices: 91641902--91641944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
91641892 AAATAGAAAC
91641902 ACACAAATACAA-AAAAAAATTT
1 ACAC-AATACAATAAAAAAATTT
*
91641924 ACACAATTCAATAAAAAAATT
1 ACACAATACAATAAAAAAATT
91641945 CCAAAGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.21
Consensus pattern (22 bp):
ACACAATACAATAAAAAAATTT
Found at i:91645337 original size:19 final size:19
Alignment explanation
Indices: 91645313--91645349 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
91645303 GAACTGATAC
* *
91645313 ATAAAATTTTATAATATAG
1 ATAAAAATTTAAAATATAG
91645332 ATAAAAATTTAAAATATA
1 ATAAAAATTTAAAATATA
91645350 TGATGAGTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAAAATTTAAAATATAG
Found at i:91660776 original size:66 final size:66
Alignment explanation
Indices: 91660670--91660798 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
91660660 TTGCACACGA
* *
91660670 TGCATTTGGGGATTTTCAGAATGCTTCAAAACCGAGCACAACT-GCATTTCCTTCTAGCAGTTTC
1 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAA-TGGCATTTCCTTCTAGCAGTTTC
91660734 AG
65 AG
* *
91660736 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCGTTTCCTTCTAGCGGTTT
1 TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTT
91660799 TGGTTCAACT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (66 bp):
TGCATTTGAGGATTTTCAGAATGCTTCAAAACCAAGCACAATGGCATTTCCTTCTAGCAGTTTCA
G
Found at i:91665799 original size:15 final size:15
Alignment explanation
Indices: 91665779--91665812 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
91665769 CTCGGATAAA
**
91665779 CAAAAATGGTACATC
1 CAAAAATGAAACATC
91665794 CAAAAATGAAACATC
1 CAAAAATGAAACATC
91665809 CAAA
1 CAAA
91665813 CATCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.21, G:0.09, T:0.15
Consensus pattern (15 bp):
CAAAAATGAAACATC
Found at i:91666976 original size:16 final size:16
Alignment explanation
Indices: 91666951--91666985 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
91666941 CAAAAGATAG
*
91666951 ATATACGCATTCATAC
1 ATATACGCATTCACAC
*
91666967 ATATAGGCATTCACAC
1 ATATACGCATTCACAC
91666983 ATA
1 ATA
91666986 AAATGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (16 bp):
ATATACGCATTCACAC
Found at i:91669397 original size:18 final size:19
Alignment explanation
Indices: 91669367--91669402 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
91669357 TTCAGATGCC
91669367 TAGGGATTTAGGGGAAATT
1 TAGGGATTTAGGGGAAATT
91669386 TAGGGA-TTAGGGGAAAT
1 TAGGGATTTAGGGGAAAT
91669403 GTAGAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (19 bp):
TAGGGATTTAGGGGAAATT
Found at i:91669416 original size:18 final size:18
Alignment explanation
Indices: 91669374--91669418 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
91669364 GCCTAGGGAT
* *
91669374 TTAGGGGAAATTTAGGGA
1 TTAGGGGAAATGTAGGAA
91669392 TTAGGGGAAATGTAGAGAA
1 TTAGGGGAAATGTAG-GAA
91669411 TT-GGGGAA
1 TTAGGGGAA
91669419 TCTATTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (18 bp):
TTAGGGGAAATGTAGGAA
Found at i:91669459 original size:43 final size:41
Alignment explanation
Indices: 91669411--91669494 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 41
91669401 ATGTAGAGAA
*
91669411 TTGGGG-AATCTATTTTGGGGTTTTATTGAAAATGGCTAAGTGT
1 TTGGGGAAATCTATTTTAGGG--TT-TTGAAAATGGCTAAGTGT
* * *
91669454 TTGGGGAAATTTGTTTTAGGGTTTTGGAAATGGCTAAGTGT
1 TTGGGGAAATCTATTTTAGGGTTTTGAAAATGGCTAAGTGT
91669495 CGGGCATGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 17 0.47
42 2 0.06
43 6 0.17
44 11 0.31
ACGTcount: A:0.23, C:0.04, G:0.32, T:0.42
Consensus pattern (41 bp):
TTGGGGAAATCTATTTTAGGGTTTTGAAAATGGCTAAGTGT
Found at i:91669861 original size:7 final size:7
Alignment explanation
Indices: 91669849--91669910 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
91669839 ACTAATTAAT
91669849 CTAAACC
1 CTAAACC
91669856 CTAAACC
1 CTAAACC
*
91669863 TCTAACCC
1 -CTAAACC
91669871 CT--ACTC
1 CTAAAC-C
*
91669877 CTAAATC
1 CTAAACC
*
91669884 CTAAATC
1 CTAAACC
*
91669891 CTAAACT
1 CTAAACC
91669898 CTAAACC
1 CTAAACC
91669905 CTAAAC
1 CTAAAC
91669911 ACACAATCTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
5 1 0.02
6 3 0.07
7 34 0.76
8 7 0.16
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:91670071 original size:15 final size:15
Alignment explanation
Indices: 91670047--91670114 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
91670037 AAATTATAAA
* *
91670047 CCCC-TAACCCCTGT
1 CCCCTTAACCCATAT
91670061 CCCCTTAACCCATAT
1 CCCCTTAACCCATAT
91670076 CCCCTTAACCCATAT
1 CCCCTTAACCCATAT
* * *
91670091 TCCCTTAACCCTTAA
1 CCCCTTAACCCATAT
91670106 CCCC-TAACC
1 CCCCTTAACC
91670115 ACTAACCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 9 0.19
15 38 0.81
ACGTcount: A:0.24, C:0.50, G:0.01, T:0.25
Consensus pattern (15 bp):
CCCCTTAACCCATAT
Found at i:91670085 original size:30 final size:29
Alignment explanation
Indices: 91670045--91670114 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 29
91670035 ATAAATTATA
* *
91670045 AACCCCTAACCCCTGTCCCCTTAACCCAT
1 AACCCCTAACCCATATCCCCTTAACCCAT
* * *
91670074 ATCCCCTTAACCCATATTCCCTTAACCCTT
1 AACCCC-TAACCCATATCCCCTTAACCCAT
91670104 AACCCCTAACC
1 AACCCCTAACC
91670115 ACTAACCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.26, C:0.49, G:0.01, T:0.24
Consensus pattern (29 bp):
AACCCCTAACCCATATCCCCTTAACCCAT
Found at i:91670140 original size:14 final size:14
Alignment explanation
Indices: 91670063--91670154 Score: 62
Period size: 15 Copynumber: 6.4 Consensus size: 14
91670053 ACCCCTGTCC
**
91670063 CCTTAACCCATATCC
1 CCTTAACCCATA-AA
**
91670078 CCTTAACCCATATTC
1 CCTTAACCCATA-AA
* *
91670093 CCTTAACCCTTAAC
1 CCTTAACCCATAAA
*
91670107 CCCTAA-CCACT-AA
1 CCTTAACCCA-TAAA
91670120 CCATTAACCCATAAA
1 CC-TTAACCCATAAA
*
91670135 CCTTAAACCATAAA
1 CCTTAACCCATAAA
91670149 CCTTAA
1 CCTTAA
91670155 AACCTTAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
13 5 0.08
14 28 0.43
15 32 0.49
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (14 bp):
CCTTAACCCATAAA
Found at i:91670141 original size:7 final size:7
Alignment explanation
Indices: 91670131--91670185 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
91670121 CATTAACCCA
91670131 TAAACCT
1 TAAACCT
*
91670138 TAAACCA
1 TAAACCT
91670145 TAAACCT
1 TAAACCT
91670152 TAAAACCT
1 T-AAACCT
**
91670160 TAAATTT
1 TAAACCT
*
91670167 TAAAACCC
1 T-AAACCT
91670175 TAAACCT
1 TAAACCT
91670182 TAAA
1 TAAA
91670186 ATATTAACTC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 27 0.71
8 11 0.29
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAACCT
Found at i:91670143 original size:15 final size:15
Alignment explanation
Indices: 91670125--91670185 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
91670115 ACTAACCATT
91670125 AACCCATAAACCTTA
1 AACCCATAAACCTTA
91670140 AA-CCATAAACCTTA
1 AACCCATAAACCTTA
* * **
91670154 AAACCTTAAATTTTAA
1 AACCCATAAACCTT-A
91670170 AACCC-TAAACCTTA
1 AACCCATAAACCTTA
91670184 AA
1 AA
91670186 ATATTAACTC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 17 0.45
15 16 0.42
16 5 0.13
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (15 bp):
AACCCATAAACCTTA
Found at i:91670143 original size:22 final size:22
Alignment explanation
Indices: 91670118--91670163 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
91670108 CCTAACCACT
*
91670118 AACCATTAACCCAT-AAACCTTA
1 AACCA-TAAACCATAAAACCTTA
*
91670140 AACCATAAACCTTAAAACCTTA
1 AACCATAAACCATAAAACCTTA
91670162 AA
1 AA
91670164 TTTTAAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (22 bp):
AACCATAAACCATAAAACCTTA
Found at i:91670186 original size:15 final size:15
Alignment explanation
Indices: 91670125--91670186 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
91670115 ACTAACCATT
91670125 AACCCATAAACCTT-A
1 AACCC-TAAACCTTAA
*
91670140 AACCATAAACCTTAA
1 AACCCTAAACCTTAA
* **
91670155 AACCTTAAATTTTAA
1 AACCCTAAACCTTAA
91670170 AACCCTAAACCTTAA
1 AACCCTAAACCTTAA
91670185 AA
1 AA
91670187 TATTAACTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.21
15 31 0.79
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (15 bp):
AACCCTAAACCTTAA
Found at i:91670570 original size:40 final size:40
Alignment explanation
Indices: 91670525--91670617 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 40
91670515 ATTTTTTGTA
* * *
91670525 GCGTTTTTTAAAAAATGCTGCTAATGCTCGATCTATAGTT
1 GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
91670565 GCGTTTTTT-AAAAATGCCGCTAATGCTCAATCTATAGTG
1 GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
91670604 GCG-TTTTTAAAAAA
1 GCGTTTTTTAAAAAA
91670618 GCGCCACTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
38 5 0.10
39 35 0.71
40 9 0.18
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (40 bp):
GCGTTTTTTAAAAAATGCCGCTAATGCTCAATCTATAGTG
Found at i:91670831 original size:40 final size:40
Alignment explanation
Indices: 91670701--91670819 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
91670691 GACATTTTCC
* * * *
91670701 AAAAACGCCGCTAATGCTC-AACATATAGCAGCG-TTTTGG
1 AAAAGCGCCGCTAATGCTCGATC-TATAGCGGCGTTTTTAG
*
91670740 TAAAAGCGCCTCTAATGCTCGATCTATAGCGGCGTTTTTAG
1 -AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAG
* * *
91670781 AAAAGCGCCGCTAATGGTCGATTTATAGTGGCGTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTA
91670820 TTCAAACGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 61 0.90
41 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTAG
Found at i:91671351 original size:10 final size:10
Alignment explanation
Indices: 91671336--91671360 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91671326 AACTTGGATT
91671336 AATATACACA
1 AATATACACA
91671346 AATATACACA
1 AATATACACA
91671356 AATAT
1 AATAT
91671361 CAGTCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (10 bp):
AATATACACA
Found at i:91671372 original size:59 final size:59
Alignment explanation
Indices: 91671300--91671525 Score: 362
Period size: 59 Copynumber: 3.7 Consensus size: 59
91671290 TTTTATAAAA
91671300 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAT
1 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAT
91671359 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAT
1 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAT
91671418 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAGTTTTAT
1 ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACAC-AA-----AT
91671483 AAAAATCAGTCATAATGCATATGAAAAATAAACTTGGATTAAT
1 ----ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAAT
91671526 CCTTAGCTTG
Statistics
Matches: 157, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
59 114 0.73
60 2 0.01
65 2 0.01
69 39 0.25
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.28
Consensus pattern (59 bp):
ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATACACAAATATACACAAAT
Found at i:91671410 original size:10 final size:10
Alignment explanation
Indices: 91671395--91671419 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
91671385 AACTTGGATT
91671395 AATATACACA
1 AATATACACA
91671405 AATATACACA
1 AATATACACA
91671415 AATAT
1 AATAT
91671420 CAGTCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (10 bp):
AATATACACA
Found at i:91671472 original size:69 final size:68
Alignment explanation
Indices: 91671395--91671525 Score: 210
Period size: 69 Copynumber: 1.9 Consensus size: 68
91671385 AACTTGGATT
91671395 AATATACACAAA-TATACACAAATATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATAT
1 AATATACACAAAGTATACA-AAA-ATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATAT
91671459 ACACA
64 ACACA
* *
91671464 AATATACACAAAGTTTTATAAAAATCAGTCATAATGCATATGAAAAATAAACTTGGATTAAT
1 AATATACACAAAG-TATACAAAAATCAGTCATAATGCATATGAAAAATAAACTTGGATTAAT
91671526 CCTTAGCTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
69 51 0.88
70 3 0.05
71 4 0.07
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.28
Consensus pattern (68 bp):
AATATACACAAAGTATACAAAAATCAGTCATAATGCATATGAAAAATAAACTTGGATTAATATAC
ACA
Found at i:91671701 original size:4 final size:4
Alignment explanation
Indices: 91671692--91671716 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
91671682 TATTGATACA
91671692 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
91671717 TTTGCTTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:91673089 original size:25 final size:24
Alignment explanation
Indices: 91673057--91673112 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
91673047 GTTAATATCC
91673057 AAATAAAGTAATAAATAATAAAATA
1 AAATAAAGTAATAAATAA-AAAATA
*
91673082 AAATAAAGTAATAAATAAATAATA
1 AAATAAAGTAATAAATAAAAAATA
91673106 AAATAAA
1 AAATAAA
91673113 AATAAAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATAAAGTAATAAATAAAAAATA
Found at i:91673119 original size:11 final size:12
Alignment explanation
Indices: 91673057--91673119 Score: 69
Period size: 12 Copynumber: 5.2 Consensus size: 12
91673047 GTTAATATCC
91673057 AAATAAAGTAAT-
1 AAATAAA-TAATA
*
91673069 AAATAATAAAATA
1 AAATAA-ATAATA
91673082 AAATAAAGTAAT-
1 AAATAAA-TAATA
91673094 AAATAAATAATA
1 AAATAAATAATA
91673106 AAATAAA-AATA
1 AAATAAATAATA
91673117 AAA
1 AAA
91673120 ATTGAGTTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 11 0.24
12 24 0.53
13 10 0.22
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:91675309 original size:19 final size:20
Alignment explanation
Indices: 91675266--91675321 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
91675256 ATTGGGTCTT
91675266 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
91675286 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
91675305 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
91675322 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:91677785 original size:12 final size:12
Alignment explanation
Indices: 91677768--91677799 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
91677758 AACTAAAATA
91677768 ATAATAATAACC
1 ATAATAATAACC
91677780 ATAATAATAACC
1 ATAATAATAACC
91677792 ATAATAAT
1 ATAATAAT
91677800 GAAAATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (12 bp):
ATAATAATAACC
Found at i:91682090 original size:47 final size:45
Alignment explanation
Indices: 91682021--91682120 Score: 130
Period size: 47 Copynumber: 2.2 Consensus size: 45
91682011 TATCTTAATC
*
91682021 TAAGACACATTAAAAAGTTGTACTTATTATAACAT-ATTAATTAAACT
1 TAAGACACATTAAAAAGTTGTAC-TAAT-TAACATCATTAA-TAAACT
* *
91682068 TAAGACACATTAAAATGTTGTACTAATTAACATGCATTAATAGACT
1 TAAGACACATTAAAAAGTTGTACTAATTAACAT-CATTAATAAACT
91682114 TAAGACA
1 TAAGACA
91682121 TATTTAAGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 6 0.12
46 15 0.31
47 27 0.56
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
TAAGACACATTAAAAAGTTGTACTAATTAACATCATTAATAAACT
Found at i:91682500 original size:20 final size:20
Alignment explanation
Indices: 91682474--91682521 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
91682464 TAAATTCTAA
91682474 AAGATAAATACAA-ATAAATG
1 AAGATAAATA-AAGATAAATG
* *
91682494 AATATAATTAAAGATAAATG
1 AAGATAAATAAAGATAAATG
91682514 AAGATAAA
1 AAGATAAA
91682522 AGCTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (20 bp):
AAGATAAATAAAGATAAATG
Found at i:91687748 original size:46 final size:45
Alignment explanation
Indices: 91687695--91687870 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
91687685 TATTTGGGCA
91687695 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
91687741 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
91687788 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
91687834 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
91687871 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:91687850 original size:93 final size:93
Alignment explanation
Indices: 91687691--91687862 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
91687681 AGGATATTTG
* *
91687691 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
91687756 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
91687784 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
91687849 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
91687863 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:91693948 original size:19 final size:18
Alignment explanation
Indices: 91693903--91693951 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
91693893 GTCGATTAAA
*
91693903 TAAATTATTAAAAAAATT
1 TAAATTTTTAAAAAAATT
*
91693921 TAAAATTTTAAAAAAATAAT
1 TAAATTTTTAAAAAAAT--T
*
91693941 TAATTTTTTAA
1 TAAATTTTTAA
91693952 TTCAATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 15 0.60
20 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTTTTAAAAAAATT
Found at i:91695208 original size:37 final size:40
Alignment explanation
Indices: 91695120--91695202 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
91695110 TTAATTAATT
* * *
91695120 AATTAATTAATATTATGATGTATAGAAATATATAAACTCA
1 AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
* * *
91695160 GATTCATTAATATTATTATGTACA-AAATATACAAACTTA
1 AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
91695199 AATT
1 AATT
91695203 ATAATAATTG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 16 0.44
40 20 0.56
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (40 bp):
AATTCATTAATATTATGATGTACAGAAATATACAAACTCA
Found at i:91703350 original size:27 final size:25
Alignment explanation
Indices: 91703303--91703352 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
91703293 AAATATATTG
*
91703303 TTTATTTTTTATTTATTAAAAAATA
1 TTTATTTTTTATTTATAAAAAAATA
91703328 TTTATTTTATATATTTATAAAAAAA
1 TTTATTTT-T-TATTTATAAAAAAA
91703353 ATAAATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 1 0.05
27 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTTTTTATTTATAAAAAAATA
Found at i:91709886 original size:20 final size:22
Alignment explanation
Indices: 91709858--91709901 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
91709848 TTTTAATATT
*
91709858 AAAAGTTAAA-AAT-TTTTAAA
1 AAAAGTTAAAGAATATATTAAA
*
91709878 AAAATTTAAAGAATATATTAAA
1 AAAAGTTAAAGAATATATTAAA
91709900 AA
1 AA
91709902 GTTAAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 3 0.15
22 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAGTTAAAGAATATATTAAA
Found at i:91721402 original size:45 final size:45
Alignment explanation
Indices: 91721343--91721442 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
91721333 AAGTAAACCT
*
91721343 CCAATAGT-TTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
1 CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
*
91721387 CTAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
1 CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
91721432 CCAATAATATT
1 CCAATAATATT
91721443 CTTCGAAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 6 0.12
45 46 0.88
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (45 bp):
CCAATAATATTGTAACCACCTATTTTATCCCCTATCCCCTTTTTC
Found at i:91730699 original size:26 final size:25
Alignment explanation
Indices: 91730670--91730724 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
91730660 TTCCAAAAAT
91730670 AAAATCAAAATACTTTAAAAATAGAA
1 AAAATCAAAATA-TTTAAAAATAGAA
* * *
91730696 AAAATTATAATATTTAAAAATATAA
1 AAAATCAAAATATTTAAAAATAGAA
91730721 AAAA
1 AAAA
91730725 AAGTTCTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATCAAAATATTTAAAAATAGAA
Found at i:91734118 original size:23 final size:23
Alignment explanation
Indices: 91734092--91734138 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
91734082 TCATTCATAG
*
91734092 TAAGAATATGAGGTTAGAATTCT
1 TAAGAATATGAGGTCAGAATTCT
91734115 TAAGAATATGAGGTCAGAATTCT
1 TAAGAATATGAGGTCAGAATTCT
91734138 T
1 T
91734139 GTTCACTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.34
Consensus pattern (23 bp):
TAAGAATATGAGGTCAGAATTCT
Found at i:91736937 original size:41 final size:41
Alignment explanation
Indices: 91736892--91736975 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
91736882 TATTACTAGT
91736892 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
1 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
91736933 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
1 GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
91736974 GA
1 GA
91736976 GGTTAACTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.24
Consensus pattern (41 bp):
GAAAAGATATTCTTAAAAGAATCTCAAAATAGCCATTAAGG
Found at i:91745959 original size:81 final size:80
Alignment explanation
Indices: 91745857--91746054 Score: 324
Period size: 81 Copynumber: 2.5 Consensus size: 80
91745847 AGGACTATAT
* * *
91745857 CCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATTTCCGGGTTATGTCCCGAAGGCATTCG
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCA
*
91745922 TGCTGGTTGTTATTC
66 TGCTGGTTGCTATTC
*
91745937 CCGGGTTTAAGTTCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGG-TTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTC
*
91746002 ATGCTGGTTGCTATTT
65 ATGCTGGTTGCTATTC
*
91746018 CCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
91746055 CATCCGGGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
80 35 0.32
81 74 0.68
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATTTCCGGGTTAAGTCCCGAAGGCATTCA
TGCTGGTTGCTATTC
Found at i:91746076 original size:40 final size:40
Alignment explanation
Indices: 91745856--91746054 Score: 326
Period size: 40 Copynumber: 5.0 Consensus size: 40
91745846 GAGGACTATA
*
91745856 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
*
91745896 TCCGGGTTATGTCCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
* *
91745936 CCCGGGTTTAAGTTCCGAAGGCATTCGTGCTGGTTGTTATT
1 TCCGGG-TTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
* *
91745977 TCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTGCTATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
*
91746017 TCCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGTTA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTA
91746055 CATCCGGGCA
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 109 0.75
41 37 0.25
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.35
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATT
Found at i:91762476 original size:40 final size:39
Alignment explanation
Indices: 91762432--91762609 Score: 232
Period size: 39 Copynumber: 4.5 Consensus size: 39
91762422 CATATCTGGA
91762432 CTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* *
91762472 CTAAGCCCGAAGGCATTTGTACGAGATACTAATTCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* * *
91762511 CTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
* * *
91762550 TTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGG
1 CTAAGT-CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGG
*
91762590 CTATGTCCCGAAGGCATTTG
1 CTAAGT-CCGAAGGCATTTG
91762610 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 73 0.58
40 52 0.42
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGG
Found at i:91762486 original size:39 final size:40
Alignment explanation
Indices: 91762386--91762609 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
91762376 TTGAATGATG
* *
91762386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
91762425 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
91762466 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
91762505 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
91762544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
91762583 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
91762610 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
39 73 0.45
40 76 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:91762532 original size:78 final size:80
Alignment explanation
Indices: 91762386--91762609 Score: 253
Period size: 79 Copynumber: 2.8 Consensus size: 80
91762376 TTGAATGATG
* * * * * *
91762386 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCTGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
91762448 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGATACTAAA
*
91762466 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATT
*
91762528 TGTGCGAGTTACTAAA
65 TGTGCGAGATACTAAA
* * * *
91762544 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
91762609 G
66 G
91762610 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
78 36 0.29
79 54 0.43
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:91762631 original size:79 final size:79
Alignment explanation
Indices: 91762439--91762642 Score: 211
Period size: 79 Copynumber: 2.6 Consensus size: 79
91762429 GGACTAAGAT
** * *
91762439 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACT
*
91762502 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * *
91762517 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
*
91762581 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
91762597 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
91762643 TACGTGATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTACGAGATACTA
ATACCGGGCTAAGC
Found at i:91764975 original size:47 final size:45
Alignment explanation
Indices: 91764859--91765171 Score: 202
Period size: 47 Copynumber: 6.7 Consensus size: 45
91764849 CACTTGTGTG
** * *** *
91764859 AGCTAGTGTAAGACATGTCCAGGACATGCATCGGCCACATTAT-AA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTTGA-GATGAA
* * *
91764904 GAGCCAGTATAAGACCATGCCTGGGACATGGCATCGACATTGAGATGAA
1 -AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC-TTGAGATGAA
* ** * *
91764953 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATC-GACTTGAGATGAA
* * * * *
91764999 AGCCAGTGTAAGACATGTCTGGGAGATGCATCGGCTATGAAATGAT
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGACT-TGAGATGAA
* * **
91765045 AG-TCAGTGTAAGGCAATGTTTGGGACATGGCATCGACTTGAGATGTG
1 AGCT-AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACTTGAGATGAA
**
91765092 AG-TCAGTGTAAGACCATGTCTGGGACATGACA-CTGACTTGAGATGTG
1 AGCT-AGTGTAAGA-CATGTCTGGGACATG-CATC-GACTTGAGATGAA
* *
91765139 AGCCAGTGTAAGACAGTGTCTAGGACATAGCAT
1 AGCTAGTGTAAGACA-TGTCTGGGACAT-GCAT
91765172 TGGCACCATA
Statistics
Matches: 212, Mismatches: 39, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.01
46 70 0.33
47 106 0.50
48 30 0.14
49 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGACTTGAGATGAA
Found at i:91765165 original size:94 final size:91
Alignment explanation
Indices: 91764905--91765171 Score: 252
Period size: 94 Copynumber: 2.8 Consensus size: 91
91764895 ACATTATAAG
* * * *
91764905 AGCCAGTATAAGACCATGCCTGGGACATGGCATCGACATTGAGATGAAAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGATG-TAGCCAGTGTAAGACATG
*
91764970 TCTGGGACATGCATCGGCCTCAAGACGTA
63 TCTGGGACATGCATCGGACTCAAGACGTA
* * * * *
91764999 AGCCAGTGTAAGA-CATGTCTGGGAGATGCATCGGCTATGAAATGATAGTCAGTGTAAGGCAATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGATG-TAGCCAGTGTAAGAC-ATG
* ** * *
91765063 TTTGGGACATGGCATC-GACTTGAGATGTG
63 TCTGGGACAT-GCATCGGACTCAAGACGTA
*
91765092 AGTCAGTGTAAGACCATGTCTGGGACATGACA-CTGACTTGAGATGTGAGCCAGTGTAAGACAGT
1 AGCCAGTGTAAGACCATGTCTGGGACATG-CATC-GACTTGAGATGT-AGCCAGTGTAAGACA-T
*
91765156 GTCTAGGACATAGCAT
62 GTCTGGGACAT-GCAT
91765172 TGGCACCATA
Statistics
Matches: 141, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
91 1 0.01
92 25 0.18
93 46 0.33
94 64 0.45
95 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.23
Consensus pattern (91 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGATGTAGCCAGTGTAAGACATGTCT
GGGACATGCATCGGACTCAAGACGTA
Found at i:91766078 original size:84 final size:83
Alignment explanation
Indices: 91765895--91766111 Score: 274
Period size: 84 Copynumber: 2.6 Consensus size: 83
91765885 GTGTCTATGC
* * * **
91765895 CGTGTGTGACACACGGTCTGCCCCATGGGCATGTAGTTCACCCGTGTGTGACACACGTCTGCCCC
1 CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACAAATCTGCCCC
*
91765960 ATGGGCGTGTAGTTTGAT
66 ATGGGCGTGTAGTTTGAG
* * *
91765978 CGTGTGTGATACACGGTTTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACATAATCTGCCT
1 CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACA-AATCTGCCC
*
91766043 CATGGGCTTGTAGTTTG-G
65 CATGGGCGTGTAGTTTGAG
* * * * *
91766061 CGTTGTGTCACACACGGTCTACCCCATTGGTGTGTAGTTCGGCCGTGTGTC
1 CG-TGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTC
91766112 GCCTGCACGT
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
83 52 0.45
84 63 0.55
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (83 bp):
CGTGTGTGACACACGGTCTGCCCCATGGGCGTGTAGTTCAGCCGTGTGTCACACAAATCTGCCCC
ATGGGCGTGTAGTTTGAG
Found at i:91766111 original size:42 final size:42
Alignment explanation
Indices: 91765893--91766111 Score: 226
Period size: 42 Copynumber: 5.2 Consensus size: 42
91765883 GTGTGTCTAT
* * *
91765893 GCCGTGTGTGACACACGGTCTGCCCCATGGGCATGTAGTTCA
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
* * *
91765935 CCCGTGTGTGACACAC-GTCTGCCCCATGGGCGTGTAGTTTG
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
** * * * *
91765976 ATCGTGTGTGATACACGGTTTGCCCCATGGGCGTGTAGTTCA
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
*** * * *
91766018 GCCGTGTGTCACACATAATCTGCCTCATGGGCTTGTAGTTTG
1 GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
* * *
91766060 G-CGTTGTGTCACACACGGTCTACCCCATTGGTGTGTAGTTCG
1 GCCG-TGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
91766102 GCCGTGTGTC
1 GCCGTGTGTC
91766112 GCCTGCACGT
Statistics
Matches: 143, Mismatches: 31, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
41 37 0.26
42 104 0.73
43 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (42 bp):
GCCGTGTGTCACACACGGTCTGCCCCATGGGCGTGTAGTTCG
Found at i:91769630 original size:46 final size:46
Alignment explanation
Indices: 91769486--91769751 Score: 214
Period size: 47 Copynumber: 5.7 Consensus size: 46
91769476 TTATTTGGCT
* ** * * ** *
91769486 AGTGTAAGACATGTCTAAGACATGCATCAGCCACGTTATGAGAGCC
1 AGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAAACGAGAGCC
* * * * *
91769532 AGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGAGAGCT
1 AGTGTAAG-CCATGTCTGGGACAT-GCATCGGCCTCGAAACGAGAGCC
* *
91769580 AGTGTAAGGCATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAAACG-AGAGCC
* * * * * *
91769626 AGTGTAAGACATGCCTGGGACATGCATCGG-CTACCAAATGATAGTC
1 AGTGTAAGCCATGTCTGGGACATGCATCGGCCT-CGAAACGAGAGCC
* * * *
91769672 AGTGTAAGACCATGTCTGGGCCATGACATCGG-CTTGAAATGTGAGCC
1 AGTGTAAG-CCATGTCTGGGACATG-CATCGGCCTCGAAACGAGAGCC
91769719 AGTGTAAGGCCATGTCTGGGACATGACATCGGC
1 AGTGTAA-GCCATGTCTGGGACATG-CATCGGC
91769752 ACTTTACCCA
Statistics
Matches: 179, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
45 3 0.02
46 68 0.38
47 77 0.43
48 31 0.17
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAAACGAGAGCC
Found at i:91769719 original size:93 final size:94
Alignment explanation
Indices: 91769580--91769751 Score: 233
Period size: 93 Copynumber: 1.8 Consensus size: 94
91769570 GACGAGAGCT
* *
91769580 AGTGTAAGGCATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAA-GACATGCCTGG
1 AGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAAACGTAAGCCAGTGTAAGGACATGCCTGG
91769644 GACATG-CATCGGCTACCAAATGATAGTC
66 GACATGACATCGGCTACCAAATGATAGTC
* * * * * *
91769672 AGTGTAAGACCATGTCTGGGCCATGACATCGG-CTTGAAATGTGAGCCAGTGTAAGGCCATGTCT
1 AGTGTAAG-CCATGTCTGGGACATG-CATCGGCCTCGAAACGTAAGCCAGTGTAAGGACATGCCT
91769736 GGGACATGACATCGGC
64 GGGACATGACATCGGC
91769752 ACTTTACCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 8 0.12
93 32 0.47
94 21 0.31
95 7 0.10
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (94 bp):
AGTGTAAGCCATGTCTGGGACATGCATCGGCCTCGAAACGTAAGCCAGTGTAAGGACATGCCTGG
GACATGACATCGGCTACCAAATGATAGTC
Found at i:91769738 original size:140 final size:141
Alignment explanation
Indices: 91769486--91769751 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 141
91769476 TTATTTGGCT
* ***
91769486 AGTGTAAGACATGTCTAAGACATGCATCAGCCACGTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
** * *
91769551 GACATGGTATCGGCATTGAGACGAGAGCTAGTGTAAGGCATGTCTGGGACATG-CATCGGCCTCG
66 GACATGACATCGGCATTGAAACGAGAGCCAGTGTAAGGCATGTCTGGGACATGACATCGGCCTCG
91769615 AGACGTAAGCC
131 AGACGTAAGCC
** * * * *
91769626 AGTGTAAGACATGCCTGGGACATGCATCGGCTACCAAATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
91769691 GCCATGACATCGGC-TTGAAATGTGAGCCAGTGTAAGGCCATGTCTGGGACATGACATCGGC
66 GACATGACATCGGCATTGAAACGAGAGCCAGTGTAAGG-CATGTCTGGGACATGACATCGGC
91769752 ACTTTACCCA
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
139 19 0.18
140 81 0.76
141 7 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (141 bp):
AGTGTAAGACATGCCTAAGACATGCATCAGCCACCAAATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGACATCGGCATTGAAACGAGAGCCAGTGTAAGGCATGTCTGGGACATGACATCGGCCTCG
AGACGTAAGCC
Found at i:91772581 original size:12 final size:13
Alignment explanation
Indices: 91772564--91772601 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
91772554 ATCCTGGAAT
91772564 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
91772576 ATTAAGAACACATA
1 ATTAAGAACA-AGA
91772590 ATTAAGAACAAG
1 ATTAAGAACAAG
91772602 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Done.