Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 114 of 284
Found at i:37605704 original size:52 final size:50
Alignment explanation
Indices: 37605529--37605712 Score: 235
Period size: 50 Copynumber: 3.6 Consensus size: 50
37605519 ATTTGGTACG
* *
37605529 CATAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
** * *
37605579 -AGTAGTAGCCTGCACTTAGTACTACACATGCCACCTAACTATCTGGTACA
1 CA-TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
* * *
37605629 CATAGTAGCTTGCACTTAGTACTACACATGTGACCTACAACCATCTTAAACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACCATCTGATACA
* *
37605681 CATAGTAGCCTGCACATAGTACTACAAATGTG
1 CATAGTAGCCTGCACTTAGTACTACACATGTG
37605713 TTCTCACAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 73 0.64
51 1 0.01
52 39 0.34
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACA
Found at i:37616750 original size:29 final size:30
Alignment explanation
Indices: 37616708--37616798 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 30
37616698 ACATGGCTTG
*
37616708 GAAT-TGATTCGGGCC-AGATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
37616736 GAATGTGATTTGGGCCTA-ATGGGCCATAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
** *
37616765 GAATAAGA-TTGGGCCTAG-TGGGCCACAT
1 GAATGTGATTTGGGCCTAGATGGGCCATAT
*
37616793 GCATGT
1 GAATGT
37616799 ATGTAGACTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 25 0.47
29 27 0.51
30 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (30 bp):
GAATGTGATTTGGGCCTAGATGGGCCATAT
Found at i:37617151 original size:27 final size:27
Alignment explanation
Indices: 37617092--37617186 Score: 102
Period size: 27 Copynumber: 3.5 Consensus size: 27
37617082 AAAATAAAGG
* **
37617092 AAAATTACCAAAATA-CCTCTAATTTGT
1 AAAATTACCGAAATACCCTC-AACCTGT
* *
37617119 GAAATTACCGAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTCAACCTGT
* * *
37617146 ACAATTACTGAAATACCCTCAACTTGT
1 AAAATTACCGAAATACCCTCAACCTGT
37617173 AAAATTACCGAAAT
1 AAAATTACCGAAAT
37617187 TCCCCTAAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 51 0.93
28 4 0.07
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCAACCTGT
Found at i:37631286 original size:40 final size:40
Alignment explanation
Indices: 37631242--37631465 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
37631232 AAGTGAATAT
* * * * **
37631242 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
37631282 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
37631322 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
37631362 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
37631402 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
37631441 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
37631466 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:37631340 original size:80 final size:80
Alignment explanation
Indices: 37631203--37631465 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
37631193 TTGAATGCTG
* * * * *
37631203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
37631265 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
37631283 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
37631348 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
37631363 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
37631427 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
37631442 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37631466 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:37631417 original size:120 final size:120
Alignment explanation
Indices: 37631203--37631465 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
37631193 TTGAATGCTG
* * *
37631203 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
37631267 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
37631323 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
37631385 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
37631442 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37631466 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37640308 original size:39 final size:39
Alignment explanation
Indices: 37640144--37640326 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
37640134 TTGAATGCTG
* * * * * * *
37640144 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
37640184 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
37640224 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
37640264 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
37640303 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
37640327 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37640346 original size:79 final size:80
Alignment explanation
Indices: 37640180--37640361 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
37640170 GCTAAGTGAA
* * * *
37640180 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
37640244 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
37640260 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
37640324 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
37640339 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
37640362 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:37644891 original size:27 final size:27
Alignment explanation
Indices: 37644861--37645038 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37644851 ATATTGAGCC
* * * *
37644861 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37644888 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
37644915 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
37644943 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37644970 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37644997 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37645024 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37645039 GTACAATTTA
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:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37645000 original size:82 final size:81
Alignment explanation
Indices: 37644882--37645037 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37644872 TGCTATATAA
* * *
37644882 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
37644947 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37644964 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37645028 CACTTAGTGC
65 CACTTAGTGC
37645038 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 49 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37653016 original size:49 final size:49
Alignment explanation
Indices: 37652922--37653016 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
37652912 TCTATTGTGA
* **
37652922 GGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAATT
* * *
37652971 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATA
37653017 GCTTTGGCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCAGATAATT
Found at i:37653261 original size:199 final size:199
Alignment explanation
Indices: 37652921--37653309 Score: 724
Period size: 199 Copynumber: 2.0 Consensus size: 199
37652911 ATCTATTGTG
* **
37652921 AGGTCACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAATCGCATGTGTAGT
37652986 ACTAAGTGCAGGCTACTATGCATACTAGATAGCTTTGGCTACAAGTGTTAAATATGTGCAGGCAA
66 ACTAAGTGCAGGCTACTATGCATACTAGATAGCTTTGGCTACAAGTGTTAAATATGTGCAGGCAA
37653051 CTGAGTATCAGTTATTATTCCGAAGAGTTCAACGGGAAAATCGATTAAGTAAAAATACATCAGAT
131 CTGAGTATCAGTTATTATTCCGAAGAGTTCAACGGGAAAATCGATTAAGTAAAAATACATCAGAT
37653116 GGCT
196 GGCT
* * *
37653120 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAATTGCATGTGTAGT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAATCGCATGTGTAGT
37653185 ACTAAGTGCAGGCTACTATGCATACTAGATAGCTTTGGCTACAAGTGTTAAATATGTGCAGGCAA
66 ACTAAGTGCAGGCTACTATGCATACTAGATAGCTTTGGCTACAAGTGTTAAATATGTGCAGGCAA
37653250 CTGAGTATCAGTTATTATTCCGAAGAGTTCAACGGGAAAATCGATTAAGTAAAAATACAT
131 CTGAGTATCAGTTATTATTCCGAAGAGTTCAACGGGAAAATCGATTAAGTAAAAATACAT
37653310 GTGAACATGA
Statistics
Matches: 184, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
199 184 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (199 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAATCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCATACTAGATAGCTTTGGCTACAAGTGTTAAATATGTGCAGGCAA
CTGAGTATCAGTTATTATTCCGAAGAGTTCAACGGGAAAATCGATTAAGTAAAAATACATCAGAT
GGCT
Found at i:37654935 original size:29 final size:29
Alignment explanation
Indices: 37654875--37654964 Score: 155
Period size: 29 Copynumber: 3.1 Consensus size: 29
37654865 ATATACATGA
* *
37654875 ATATGGCCCACTAGGCCC-AATCTCATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
37654903 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
37654932 ATATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCACATTC
37654961 ATAT
1 ATAT
37654965 ACATGCTTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
28 17 0.29
29 42 0.71
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATTC
Found at i:37665325 original size:51 final size:51
Alignment explanation
Indices: 37665204--37665351 Score: 201
Period size: 51 Copynumber: 2.9 Consensus size: 51
37665194 TATTGTGAGG
* * *
37665204 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTACCGGATAA--TTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTTGA
* * * * * *
37665253 TCGCATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCAGAAAACTTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTTGA
37665304 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTT
37665352 CGGCTACAAG
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 37 0.45
51 45 0.55
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (51 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTTGA
Found at i:37666926 original size:13 final size:13
Alignment explanation
Indices: 37666910--37666935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37666900 AAGTATGAAT
37666910 AAAATTTATGATA
1 AAAATTTATGATA
37666923 AAAATTTATGATA
1 AAAATTTATGATA
37666936 TATATAAAAG
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
AAAATTTATGATA
Found at i:37668387 original size:15 final size:15
Alignment explanation
Indices: 37668367--37668431 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
37668357 GTATCTTGGG
37668367 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
37668382 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
37668397 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
37668412 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
37668426 TTTCTT
1 TTTCTT
37668432 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37668399 original size:30 final size:31
Alignment explanation
Indices: 37668363--37668431 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
37668353 TATCGTATCT
37668363 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
37668393 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
37668423 -GGTTTTCTT
1 TGGGTTTCTT
37668432 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:37670992 original size:51 final size:49
Alignment explanation
Indices: 37670869--37671006 Score: 177
Period size: 49 Copynumber: 2.8 Consensus size: 49
37670859 TATTGTGAGG
* * * * *
37670869 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
* * *
37670918 TCGCATGTGTAGTACTAAGTGCAGGCGACTATGCGTACCCGAAAACTGTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA-T-TGA
*
37670969 TCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
37671007 TAGATAGCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 38 0.51
50 1 0.01
51 36 0.48
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAATTGA
Found at i:37672651 original size:27 final size:26
Alignment explanation
Indices: 37672614--37672703 Score: 126
Period size: 27 Copynumber: 3.4 Consensus size: 26
37672604 CCAAATTTGA
*
37672614 TAAATGACTATTTTGCCCTTATGTGC
1 TAAATGACTATTTTGCCCTTATGTGG
37672640 TAAAATGACTATTTTGCCCTTATGTGG
1 T-AAATGACTATTTTGCCCTTATGTGG
* * *
37672667 TTAAATGATTGTTTTGCCCTAATGTGG
1 -TAAATGACTATTTTGCCCTTATGTGG
37672694 TAAATGACTA
1 TAAATGACTA
37672704 AAATGCCCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.16
27 46 0.82
28 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (26 bp):
TAAATGACTATTTTGCCCTTATGTGG
Found at i:37673093 original size:18 final size:18
Alignment explanation
Indices: 37673070--37673104 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37673060 ACTTGTATAT
37673070 TGTTTACTGTTACTGCAC
1 TGTTTACTGTTACTGCAC
37673088 TGTTTACTGTTACTGCA
1 TGTTTACTGTTACTGCA
37673105 ATAGGCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (18 bp):
TGTTTACTGTTACTGCAC
Found at i:37674484 original size:12 final size:12
Alignment explanation
Indices: 37674467--37674499 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
37674457 AACAAATATG
*
37674467 TATATATGTTTA
1 TATATATATTTA
37674479 TATATATATTTA
1 TATATATATTTA
37674491 TATATATAT
1 TATATATAT
37674500 AGCCACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
TATATATATTTA
Found at i:37678704 original size:17 final size:17
Alignment explanation
Indices: 37678682--37678728 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
37678672 ATAAAAAAGT
37678682 TTGTTTTAATTAACTAA
1 TTGTTTTAATTAACTAA
* * *
37678699 TTGTTTAAACTAATTAA
1 TTGTTTTAATTAACTAA
*
37678716 TTGATTTAATTAA
1 TTGTTTTAATTAA
37678729 AGCAAAAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGTTTTAATTAACTAA
Found at i:37679026 original size:64 final size:63
Alignment explanation
Indices: 37678925--37679051 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 63
37678915 CAGTTGAATT
* *
37678925 AATCGAAATTTCTTTCTTAATTAAAACCTCTAGGGAAGTAGTAAATCACTCTATAGACTCCCA
1 AATCGAAATTTCTTTCTTAATTAAAACCCCTAGGGAAGCAGTAAATCACTCTATAGACTCCCA
* *
37678988 NAATCGAAATTTCTTTCTTAATTAAAACCCCTAGGGAAGCAGTAAATCACTTTATGGACTCCCA
1 -AATCGAAATTTCTTTCTTAATTAAAACCCCTAGGGAAGCAGTAAATCACTCTATAGACTCCCA
37679052 TATTAGGTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (63 bp):
AATCGAAATTTCTTTCTTAATTAAAACCCCTAGGGAAGCAGTAAATCACTCTATAGACTCCCA
Found at i:37685537 original size:45 final size:45
Alignment explanation
Indices: 37685478--37685603 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 45
37685468 AAATCAAATA
* * * * * **
37685478 CGATGCCGATGTCCCAGCCATGATCTTACACGTAACCACATATAT
1 CGATGCCAACGTCCCAGACATGATCTTACAAGAAAAAACATATAT
*
37685523 CGATGCCAACGTCCCAGACATGGTCTTACAAGAAAAAACATATAT
1 CGATGCCAACGTCCCAGACATGATCTTACAAGAAAAAACATATAT
* ** * *
37685568 CGATGCCAACATCCCAGATGTGGTCTTACACGAAAA
1 CGATGCCAACGTCCCAGACATGATCTTACAAGAAAA
37685604 CAAATGTTGG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (45 bp):
CGATGCCAACGTCCCAGACATGATCTTACAAGAAAAAACATATAT
Found at i:37692130 original size:40 final size:40
Alignment explanation
Indices: 37692023--37692222 Score: 243
Period size: 39 Copynumber: 5.1 Consensus size: 40
37692013 CGGATGATAA
* * *
37692023 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
*
37692063 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
37692102 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
37692142 CTGGGCTAAGTCCCG-AGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* *
37692181 CCGGGCTATGT--CGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
37692219 CCGG
1 CCGG
37692223 TTAAATTTCG
Statistics
Matches: 142, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
37 4 0.03
38 22 0.15
39 64 0.45
40 52 0.37
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:37692161 original size:79 final size:79
Alignment explanation
Indices: 37692019--37692222 Score: 265
Period size: 79 Copynumber: 2.6 Consensus size: 79
37692009 TATTCGGATG
* * *
37692019 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCCGGGCTAAGCCCGAAGGCA
*
37692083 ATTGTGCGAGTTATT
65 ATTGTGCGAGTTACT
* *
37692098 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCTGGGCTAAGTCCCG-AGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAG-CCCGAAGGCA
*
37692162 TTTGTGCGAGTTACT
65 ATTGTGCGAGTTACT
* *
37692177 ATAACCGGGCTATGT--CGAAGGCATTCGAGCGAG-TAGCTATATCCGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATATCCGG
37692223 TTAAATTTCG
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
76 2 0.02
77 26 0.23
79 78 0.70
80 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATATCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:37703443 original size:27 final size:27
Alignment explanation
Indices: 37703412--37703589 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37703402 TAAATTGTAC
37703412 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37703439 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37703465 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37703493 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37703521 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37703548 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37703575 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37703590 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37703526 original size:82 final size:81
Alignment explanation
Indices: 37703413--37703568 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37703403 AAATTGTACA
* *
37703413 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37703477 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37703494 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37703559 TGCGAGTTGA
65 TGCGAATTGA
37703569 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37703580 original size:82 final size:81
Alignment explanation
Indices: 37703409--37703589 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37703399 GATTAAATTG
* *
37703409 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37703474 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37703490 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37703554 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37703572 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37703590 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37711450 original size:39 final size:40
Alignment explanation
Indices: 37711355--37711577 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
37711345 TTGAATGATG
*
37711355 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37711393 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37711434 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37711473 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37711512 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37711551 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37711578 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37711541 original size:79 final size:81
Alignment explanation
Indices: 37711355--37711577 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
37711345 TTGAATGATG
* * *
37711355 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
37711416 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
37711434 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
37711496 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
37711512 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
37711576 TG
66 TG
37711578 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:37711599 original size:79 final size:79
Alignment explanation
Indices: 37711355--37711610 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
37711345 TTGAATGATG
* * * *
37711355 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
37711416 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
37711434 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
37711498 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
37711512 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
37711576 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
37711592 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
37711611 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:37716663 original size:27 final size:27
Alignment explanation
Indices: 37716607--37716665 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
37716597 TACATCTCAA
* **
37716607 AGGGGCATATCAGTCATTTTACCTTGT
1 AGGGGCATATCAGTCATTTCACAATGT
*
37716634 AGGGGCATTTCAGTCATTTCATCAAT-T
1 AGGGGCATATCAGTCATTTCA-CAATGT
37716661 AGGGG
1 AGGGG
37716666 TTCTAGATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (27 bp):
AGGGGCATATCAGTCATTTCACAATGT
Found at i:37717738 original size:16 final size:15
Alignment explanation
Indices: 37717713--37717742 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37717703 GAGGGTGAAG
37717713 GAAAAGGAAAGAATT
1 GAAAAGGAAAGAATT
37717728 GAAAGAGGAAAGAAT
1 GAAA-AGGAAAGAAT
37717743 AAGGAGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.00, G:0.30, T:0.10
Consensus pattern (15 bp):
GAAAAGGAAAGAATT
Found at i:37718314 original size:16 final size:16
Alignment explanation
Indices: 37718293--37718325 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37718283 TTCATTTAAA
37718293 AGCCTATTGACTAGAG
1 AGCCTATTGACTAGAG
37718309 AGCCTATTGACTAGAG
1 AGCCTATTGACTAGAG
37718325 A
1 A
37718326 CAAGAGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (16 bp):
AGCCTATTGACTAGAG
Found at i:37730478 original size:55 final size:54
Alignment explanation
Indices: 37730322--37730518 Score: 150
Period size: 53 Copynumber: 3.6 Consensus size: 54
37730312 TATCCTTTTG
* * * * * * * *
37730322 AAACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCC-TTGCTTTAT-
1 AAACTTACCAATACCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
* * * *
37730375 GAACTCACTAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 AAACTTACCAATACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
* * * *** *
37730429 CTAAA-TTATCAATACCATGTCTTGACATGGTCTTACATGATTTCC-TTGCCTTGTA
1 --AAACTTACCAATACCATGCCTTGGCATGGTCTTACATG-GGACCTTTGCCTTATA
*
37730484 AAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
1 AAACTTACCAATACCATGCCTTGGCATGGTCTTAC
37730519 TTGGTATCCT
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
52 2 0.02
53 43 0.38
54 27 0.24
55 37 0.33
56 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (54 bp):
AAACTTACCAATACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
Found at i:37733112 original size:24 final size:24
Alignment explanation
Indices: 37733067--37733112 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
37733057 TGTTGAGCTG
* * *
37733067 AAACGATAAGCTCTAACGAGCTAA
1 AAACAATAAACTCTAACAAGCTAA
*
37733091 AAACAATAAACTCTTACAAGCT
1 AAACAATAAACTCTAACAAGCT
37733113 GTGGTGAGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.20
Consensus pattern (24 bp):
AAACAATAAACTCTAACAAGCTAA
Found at i:37746027 original size:27 final size:27
Alignment explanation
Indices: 37745976--37746075 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
37745966 GTTGTTAAAA
* * ** *
37745976 CCCTGATTTGTAAAATTTCTGAAATAT
1 CCCTAATTTGTAAAATTACAAAAATAC
*
37746003 CTCTAATTTGTAAAATTACAAAAATAC
1 CCCTAATTTGTAAAATTACAAAAATAC
* * ***
37746030 CCCTGATTTGTAAATTTATTGAAATAC
1 CCCTAATTTGTAAAATTACAAAAATAC
*
37746057 CCTCAAATTT-TAAAATTAC
1 CC-CTAATTTGTAAAATTAC
37746076 CGTGTAATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
27 51 0.91
28 5 0.09
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTAATTTGTAAAATTACAAAAATAC
Found at i:37747420 original size:46 final size:45
Alignment explanation
Indices: 37747371--37747542 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 45
37747361 TTGAGCATCC
37747371 GAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGT-T
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCT
* *
37747416 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA-GATG-TAACTAGGCATCT
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TCT
* *
37747464 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTCT
*
37747510 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
37747543 GGCAGGTTAC
Statistics
Matches: 109, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.54
47 28 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTCT
Found at i:37747524 original size:93 final size:93
Alignment explanation
Indices: 37747365--37747536 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
37747355 GGATGGTTGA
* *
37747365 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
37747430 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
37747458 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTC-GAACTCGTTGAG
37747522 TTGAGTCCGAGTTCA
65 TTGAGTCCGAGTTCA
37747537 CTTAGGGGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:37753898 original size:28 final size:28
Alignment explanation
Indices: 37753846--37753937 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
37753836 ATCCATACTT
* *
37753846 ATTCATTTGGCCCCTTCAGGCCCAATCAC
1 ATTCATATGG-CCCATCAGGCCCAATCAC
*
37753875 ACTCATATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* * *
37753903 TTTCATATGGCCCGTCGGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
37753931 ATTCATA
1 ATTCATA
37753938 GTCATGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 47 0.85
29 8 0.15
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:37767072 original size:27 final size:27
Alignment explanation
Indices: 37767049--37767253 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
37767039 TTAGTTTACC
* *
37767049 AAATTACCAAAATATCTTTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
* * *
37767076 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCTTTGGTTTATA
* ** * *
37767103 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
* *
37767130 AAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCTTTGGTTTATA
** *
37767157 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
*
37767184 AAATTACTAAAATACCCTTT-GTTTATA
1 AAATTACCAAAATA-CCTTTGGTTTATA
* *
37767211 AAATTACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCTTTGGTTTATA
*
37767238 AAATTATCAAAATACC
1 AAATTACCAAAATACC
37767254 CAATACCTCT
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.03
27 142 0.95
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCTTTGGTTTATA
Found at i:37767114 original size:54 final size:54
Alignment explanation
Indices: 37767049--37767387 Score: 322
Period size: 54 Copynumber: 6.1 Consensus size: 54
37767039 TTAGTTTACC
* ** *
37767049 AAATTACCAAAATATCTTTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
37767103 AAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
37767157 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
37767211 AAATTACCAAAATACCTCTGGTTTGTAAAATTA-TCAAAATACCCAATACCTCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATA--C----CCT-TGGTTTATA
** * * ***
37767272 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
** ** * * *
37767326 AAATTATTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
37767380 GAATTACC
1 AAATTACC
37767388 GTTTTACCCT
Statistics
Matches: 233, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
53 5 0.02
54 179 0.77
55 3 0.01
56 1 0.00
59 1 0.00
60 3 0.01
61 40 0.17
62 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:37767186 original size:81 final size:80
Alignment explanation
Indices: 37767049--37767387 Score: 277
Period size: 81 Copynumber: 4.1 Consensus size: 80
37767039 TTAGTTTACC
* * * * * *
37767049 AAATTACCAAAATATCTTTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATA-CCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
37767114 ATACCCCTGATTTGTA
65 ATACCCCTGATTTGTA
** *
37767130 AAATTACCAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACC-TTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAA
* *
37767195 ATACCCTTTG-TTTATA
65 ATACCC-CTGATTTGTA
* * *
37767211 AAATTACCAAAATACCTCTGGTTTGTAAAATTATCAAAATACCCAATACCTCTGATTTGTGAAAT
1 AAATTACCAAAATACCT-TGGTTTGTAAAATTACCAAAATA--C----CC-CTGGTTTGTAAAAT
* *
37767276 TACCAAAATACCCCTAATTTGTG
58 TACCAAAATACCCCTGATTTGTA
* * *** * ** **
37767299 AAATTACTAAAATACCCTCGACCTATAAAATTATTAAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATA-CCTTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAA
* * *
37767363 AGTACCCTTGATTTATA
64 AATACCCCTGATTTGTA
*
37767380 GAATTACC
1 AAATTACC
37767388 GTTTTACCCT
Statistics
Matches: 208, Mismatches: 37, Indels: 26
0.77 0.14 0.10
Matches are distributed among these distances:
80 4 0.02
81 137 0.66
82 2 0.01
83 1 0.00
87 3 0.01
88 58 0.28
89 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (80 bp):
AAATTACCAAAATACCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAA
TACCCCTGATTTGTA
Found at i:37767259 original size:34 final size:34
Alignment explanation
Indices: 37767221--37767288 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
37767211 AAATTACCAA
* *
37767221 AATACCTCTGGTTTGTAAAATTATCAAAATACCC
1 AATACCTCTGATTTGTAAAATTACCAAAATACCC
*
37767255 AATACCTCTGATTTGTGAAATTACCAAAATACCC
1 AATACCTCTGATTTGTAAAATTACCAAAATACCC
37767289 CTAATTTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (34 bp):
AATACCTCTGATTTGTAAAATTACCAAAATACCC
Found at i:37767295 original size:27 final size:27
Alignment explanation
Indices: 37767255--37767315 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
37767245 CAAAATACCC
* *
37767255 AATACCTCTGATTTGTGAAATTACCAA
1 AATACCCCTAATTTGTGAAATTACCAA
*
37767282 AATACCCCTAATTTGTGAAATTACTAA
1 AATACCCCTAATTTGTGAAATTACCAA
37767309 AATACCC
1 AATACCC
37767316 TCGACCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AATACCCCTAATTTGTGAAATTACCAA
Found at i:37767326 original size:115 final size:115
Alignment explanation
Indices: 37767157--37767369 Score: 286
Period size: 115 Copynumber: 1.9 Consensus size: 115
37767147 TTGGTTTACA
** * **
37767157 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTCGCCTATAAAATTACCAAA
** *
37767222 ATA-CCTCTGGTTTGTAAAATTATCAAAATACCCAATACCTCTGATTTGTG
66 ATACCCTC-GACTTGTAAAATTACCAAAATACCCAATACCTCTGATTTGTG
* **
37767272 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCC-TCGACCTATAAAATTATTAA
1 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTCG-CCTATAAAATTACCAA
*
37767336 AATACCCTCGACTTGTAAAATTACCAAAGTACCC
65 AATACCCTCGACTTGTAAAATTACCAAAATACCC
37767370 TTGATTTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
114 2 0.02
115 78 0.93
116 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (115 bp):
AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTTCGCCTATAAAATTACCAAA
ATACCCTCGACTTGTAAAATTACCAAAATACCCAATACCTCTGATTTGTG
Found at i:37767422 original size:27 final size:27
Alignment explanation
Indices: 37767272--37767424 Score: 110
Period size: 27 Copynumber: 5.7 Consensus size: 27
37767262 CTGATTTGTG
* * * *
37767272 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GACTTATA
* *
37767299 AAATTACTAAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGACTTATA
** *
37767326 AAATTATTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTATA
* * *
37767353 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCTCGACTTATA
* **** * *
37767380 GAATTACCGTTTTACCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGACTTATA
*
37767407 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
37767425 TGTAGGGTAA
Statistics
Matches: 99, Mismatches: 26, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 98 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTATA
Found at i:37767436 original size:27 final size:27
Alignment explanation
Indices: 37767408--37767737 Score: 365
Period size: 27 Copynumber: 12.3 Consensus size: 27
37767398 CGATTTAAAA
* *
37767408 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37767435 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37767462 AAATACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37767489 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37767516 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
37767543 AATGACTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
37767570 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
37767597 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
37767624 AATCATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
37767651 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
37767678 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
37767705 AATTACGGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
37767731 AATTACC
1 AATTACC
37767738 ATTTTGCCCC
Statistics
Matches: 257, Mismatches: 46, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
26 15 0.06
27 242 0.94
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:37768197 original size:22 final size:22
Alignment explanation
Indices: 37768167--37768228 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
37768157 AAGCCTTCTG
* *
37768167 ATTATGGCTTTGTGTCAACCT-
1 ATTATGGCTCTGTGCCAACCTA
37768188 ATATATGGCTCTGTGCCAACCTA
1 AT-TATGGCTCTGTGCCAACCTA
*
37768211 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
37768229 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (22 bp):
ATTATGGCTCTGTGCCAACCTA
Found at i:37768488 original size:27 final size:26
Alignment explanation
Indices: 37768387--37768488 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
37768377 ATTCTGTTAA
* * *
37768387 GTGGCTTTGCCACATTATCTATTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
* *
37768414 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
37768441 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
37768468 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
37768489 ATAACTGAGT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.79
28 6 0.09
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:37771345 original size:97 final size:97
Alignment explanation
Indices: 37771179--37771372 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 97
37771169 TTGCTAAGCA
*
37771179 AGCTATTAAGGTGAAATGCAAATGTTAGTGTTTGATTTGGTAATAATCTTCTTGGGGACAGCAAC
1 AGCTATTAAGGTGAAATGCAAATGTTAGTATTTGATTTGGTAATAATCTTCTTGGGGACAGCAAC
37771244 AGTAAGGCGATTTTGGAAAATCGCCATAATTT
66 AGTAAGGCGATTTTGGAAAATCGCCATAATTT
*
37771276 AGCTATTAAGGTGAAATGCAAATGTTAGTATTTGATTTGGTAATAATCTTCTTGGGGACAGCAGC
1 AGCTATTAAGGTGAAATGCAAATGTTAGTATTTGATTTGGTAATAATCTTCTTGGGGACAGCAAC
37771341 AGTAAGGCGATTTTGGAAAATCGCCATAATTT
66 AGTAAGGCGATTTTGGAAAATCGCCATAATTT
37771373 GTAGGAGTTG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (97 bp):
AGCTATTAAGGTGAAATGCAAATGTTAGTATTTGATTTGGTAATAATCTTCTTGGGGACAGCAAC
AGTAAGGCGATTTTGGAAAATCGCCATAATTT
Found at i:37773236 original size:40 final size:40
Alignment explanation
Indices: 37772371--37773220 Score: 1691
Period size: 40 Copynumber: 21.2 Consensus size: 40
37772361 ATGTGCATGA
37772371 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772411 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772451 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772491 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772531 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772571 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772611 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772651 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772691 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772731 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772771 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772811 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772851 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772891 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772931 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37772971 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37773011 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37773051 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37773091 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37773131 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
*
37773171 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAGG
1 GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
37773211 GCATTTGTGC
1 GCATTTGTGC
37773221 TTGTGGTTAT
Statistics
Matches: 809, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 809 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
GCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAG
Found at i:37779507 original size:13 final size:13
Alignment explanation
Indices: 37779477--37779517 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
37779467 TTTCTTTTTC
*
37779477 TTATATTTTTATA
1 TTATGTTTTTATA
37779490 TTATGTTTTTATA
1 TTATGTTTTTATA
37779503 TTATGGTTTATTATA
1 TTAT-GTTT-TTATA
37779518 ACATATATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 16 0.64
14 4 0.16
15 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (13 bp):
TTATGTTTTTATA
Found at i:37780911 original size:29 final size:29
Alignment explanation
Indices: 37780869--37780928 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
37780859 ATGATTTTGA
37780869 GTTATGCCATTATTGATAATGTGAGCTTT
1 GTTATGCCATTATTGATAATGTGAGCTTT
37780898 GTTATGCCATTATTGATAATGTGAGCTTT
1 GTTATGCCATTATTGATAATGTGAGCTTT
37780927 GT
1 GT
37780929 GAAGTTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.22, T:0.45
Consensus pattern (29 bp):
GTTATGCCATTATTGATAATGTGAGCTTT
Found at i:37781701 original size:43 final size:42
Alignment explanation
Indices: 37781608--37781710 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 42
37781598 TGTAAGATAA
* *
37781608 TGTCTGGGACGTTTGCATCATATTTGATTTCATGTAGGACCC
1 TGTCTGGGACGTTGGCATCATATTTGATTACATGTAGGACCC
* * *
37781650 TATTTGGGACAG-TGGCATCGATATTTGATTACATGTATGACCAC
1 TGTCTGGGAC-GTTGGCATC-ATATTTGATTACATGTAGGACC-C
37781694 -GTCTGGGACGTTGGCAT
1 TGTCTGGGACGTTGGCAT
37781711 TGTACAAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
42 15 0.30
43 34 0.68
44 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
TGTCTGGGACGTTGGCATCATATTTGATTACATGTAGGACCC
Found at i:37789058 original size:42 final size:43
Alignment explanation
Indices: 37789011--37789122 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
37789001 TGTGTTATCG
* * * *
37789011 TGTAAGGCCACGTCTGGGACATTGGCATC-ATATTTGATTTCA
1 TGTAAGACCACGTCTAGGACATTGGCATCGATATATGATTACA
* *
37789053 TGTAAGACC-CTATCTAGGACAATGGCATCGATATATGATTACA
1 TGTAAGACCAC-GTCTAGGACATTGGCATCGATATATGATTACA
37789096 TGTAAGACCACGTCTAGGACATTGGCA
1 TGTAAGACCACGTCTAGGACATTGGCA
37789123 ATGTACGAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.39
43 34 0.58
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCGATATATGATTACA
Found at i:37795052 original size:73 final size:74
Alignment explanation
Indices: 37794952--37795099 Score: 253
Period size: 73 Copynumber: 2.0 Consensus size: 74
37794942 TATCGATAGA
37794952 CTGACTAAATCGATTCACGTCATCCTAGTACGTACCAAATTCTCACTTGATAAGTTAGTTGAATT
1 CTGACTAAATCGATT-ACGTCATCCTAGTACGTACCAAATTCTCACTTGATAAGTTAGTTGAATT
37795017 GTACATTAGT
65 GTACATTAGT
* * *
37795027 CTGACTAAATCGATT-CGTCATCCTAGTACGTATCGAGTTCTCACTTGATAAGTTAGTTGAATTG
1 CTGACTAAATCGATTACGTCATCCTAGTACGTACCAAATTCTCACTTGATAAGTTAGTTGAATTG
37795091 TACATTAGT
66 TACATTAGT
37795100 GAAATTGTGA
Statistics
Matches: 70, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 55 0.79
75 15 0.21
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (74 bp):
CTGACTAAATCGATTACGTCATCCTAGTACGTACCAAATTCTCACTTGATAAGTTAGTTGAATTG
TACATTAGT
Found at i:37799137 original size:174 final size:174
Alignment explanation
Indices: 37798842--37799169 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
37798832 AACTCAAGGT
* *
37798842 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
37798907 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCGCACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
37798972 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
37799016 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
37799081 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
37799146 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
37799170 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:37799161 original size:29 final size:30
Alignment explanation
Indices: 37799122--37799200 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
37799112 CTTAATAATC
37799122 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
37799152 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
37799181 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37799201 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:37800537 original size:103 final size:105
Alignment explanation
Indices: 37800343--37800550 Score: 393
Period size: 103 Copynumber: 2.0 Consensus size: 105
37800333 AAAGGATGAA
37800343 CAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGAGAAACAACCACTCATTTTT
1 CAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGAGAAACAACCACTCATTTTT
37800408 TTGTTTTCATTTCTTTATTACCCATACTCCTTATTTTATT
66 TTGTTTTCATTTCTTTATTACCCATACTCCTTATTTTATT
*
37800448 CAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAAT-GGGGGGG-GAAACAACTACTCATTTTT
1 CAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGAGAAACAACCACTCATTTTT
37800511 TTGTTTTCATTTCTTTATTACCCATACTCCTTATTTTATT
66 TTGTTTTCATTTCTTTATTACCCATACTCCTTATTTTATT
37800551 TTTTTCTAAC
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 58 0.57
104 7 0.07
105 37 0.36
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (105 bp):
CAAAATTTTTCTTTTCCTTTCTTTAGCTCACGGCAATGGGGGGGGAGAAACAACCACTCATTTTT
TTGTTTTCATTTCTTTATTACCCATACTCCTTATTTTATT
Found at i:37813285 original size:24 final size:23
Alignment explanation
Indices: 37813244--37813302 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
37813234 AGCCAAATAA
* * * *
37813244 CGGGAAGCTCACACAGAGCCCTTT
1 CGGGAAGCTTATAAAGAG-CCTAT
37813268 CGGGAAGCTTATAAAGAGCCTAT
1 CGGGAAGCTTATAAAGAGCCTAT
*
37813291 CAGGAAGCTTAT
1 CGGGAAGCTTAT
37813303 CCGGGCTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 15 0.50
24 15 0.50
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (23 bp):
CGGGAAGCTTATAAAGAGCCTAT
Found at i:37815284 original size:5 final size:6
Alignment explanation
Indices: 37815258--37815288 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
37815248 ATAAGCCCCC
37815258 TTTAAT TTTAAT TTTAAT TTT-AT TTTAAT TT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TT
37815289 GGGGACTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTAAT
Found at i:37815284 original size:11 final size:12
Alignment explanation
Indices: 37815258--37815288 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
37815248 ATAAGCCCCC
37815258 TTTAATTTTAAT
1 TTTAATTTTAAT
37815270 TTTAATTTT-AT
1 TTTAATTTTAAT
37815281 TTTAATTT
1 TTTAATTT
37815289 GGGGACTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTAATTTTAAT
Found at i:37822923 original size:57 final size:57
Alignment explanation
Indices: 37822835--37822950 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
37822825 ATGGTCGTAG
*
37822835 GTGTCGCACTCCGTCATGTTGGACTGAGTTGGGTGAGCGACGTGCTCTGGGTCCTAA
1 GTGTCGCACTCCGTCATGTTGGACTGAGTTGGGTGAGCGACATGCTCTGGGTCCTAA
37822892 GTGTCGCACTCCGTCATGTTGGACTGAGTTGGGTGAGCGACATGCTCTGGGTCCTAA
1 GTGTCGCACTCCGTCATGTTGGACTGAGTTGGGTGAGCGACATGCTCTGGGTCCTAA
37822949 GT
1 GT
37822951 TAGTATCTGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.15, C:0.22, G:0.34, T:0.28
Consensus pattern (57 bp):
GTGTCGCACTCCGTCATGTTGGACTGAGTTGGGTGAGCGACATGCTCTGGGTCCTAA
Found at i:37828398 original size:27 final size:27
Alignment explanation
Indices: 37828368--37828421 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
37828358 CGAATGACAA
37828368 TCCTGCCTTGCGTTGCACAACAAAATT
1 TCCTGCCTTGCGTTGCACAACAAAATT
*
37828395 TCCTTCCTTGCGTTGCACAACAAAATT
1 TCCTGCCTTGCGTTGCACAACAAAATT
37828422 GAATTCCCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (27 bp):
TCCTGCCTTGCGTTGCACAACAAAATT
Found at i:37828428 original size:27 final size:27
Alignment explanation
Indices: 37828373--37828428 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
37828363 GACAATCCTG
***
37828373 CCTTGCGTTGCACAACAAAATTTCCTT
1 CCTTGCGTTGCACAACAAAATTGAATT
37828400 CCTTGCGTTGCACAACAAAATTGAATT
1 CCTTGCGTTGCACAACAAAATTGAATT
37828427 CC
1 CC
37828429 CTTTTGTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (27 bp):
CCTTGCGTTGCACAACAAAATTGAATT
Found at i:37829154 original size:34 final size:33
Alignment explanation
Indices: 37829102--37829167 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
37829092 TTGTGTGCAT
* * *
37829102 ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
1 ACTGTACTAAAATAGGCTAAGGCCCAAACTGCC
37829135 ACTGTTACTAAAATAGGCTAAGGCCCAAACTGC
1 ACTG-TACTAAAATAGGCTAAGGCCCAAACTGC
37829168 TACTACTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (33 bp):
ACTGTACTAAAATAGGCTAAGGCCCAAACTGCC
Found at i:37831732 original size:20 final size:20
Alignment explanation
Indices: 37831709--37831766 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
37831699 AGGTACTGAA
*
37831709 GTGCAAACAGAGGCAC-GATT
1 GTGCAAACAGAGGCACTG-TG
**
37831729 GTGCAAGTAGAGGCACTGTG
1 GTGCAAACAGAGGCACTGTG
37831749 GTGCAAACA-AGGACACTG
1 GTGCAAACAGAGG-CACTG
37831767 AAGTGTATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 3 0.10
20 27 0.87
21 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.16
Consensus pattern (20 bp):
GTGCAAACAGAGGCACTGTG
Found at i:37835792 original size:40 final size:40
Alignment explanation
Indices: 37835744--37835935 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
37835734 ATAACAACTC
37835744 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* * *
37835784 GCATAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCGCTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
*
37835824 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAG-CAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTC-ACTA
* *
37835864 GCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
* *
37835904 GCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
37835936 CATTCGAATA
Statistics
Matches: 136, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 134 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
Found at i:37835831 original size:80 final size:80
Alignment explanation
Indices: 37835715--37835935 Score: 297
Period size: 80 Copynumber: 2.8 Consensus size: 80
37835705 ACCCAAGTAT
* *
37835715 CTTCGAGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CTTCG-GATCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
*
37835777 GTC-ACTAGCATAAATGC
64 G-CAACTAGCACAAATGC
* * *
37835794 CTTCGGGTCTTAGCCCGGATGTAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
*
37835859 AACTCGCACAAATGC
66 AACTAGCACAAATGC
* * *
37835874 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
37835936 CATTCGAATA
Statistics
Matches: 125, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 112 0.90
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:37853168 original size:43 final size:43
Alignment explanation
Indices: 37853107--37853219 Score: 190
Period size: 43 Copynumber: 2.6 Consensus size: 43
37853097 GCTGGTATTA
*
37853107 TATTCGGGCCTTCGTGCCTAGCATGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCATGCTTCGTGCCGGTGATGTG
*
37853150 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCATGCTTCGTGCCGGTGATGTG
* *
37853193 TATTCGGGCCTTTGAGCCTAGCATGCT
1 TATTCGGGCCTTCGTGCCTAGCATGCT
37853220 ATAATGCTAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.11, C:0.25, G:0.32, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCATGCTTCGTGCCGGTGATGTG
Found at i:37859172 original size:27 final size:27
Alignment explanation
Indices: 37859139--37859192 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
37859129 AAAAAGATTG
37859139 AAACATACTTTAAAATTCATGCAAAAT
1 AAACATACTTTAAAATTCATGCAAAAT
37859166 AAACATACTTTAAAATTCATGCAAAAT
1 AAACATACTTTAAAATTCATGCAAAAT
37859193 GCCTTACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (27 bp):
AAACATACTTTAAAATTCATGCAAAAT
Found at i:37862490 original size:49 final size:48
Alignment explanation
Indices: 37862338--37862506 Score: 195
Period size: 49 Copynumber: 3.6 Consensus size: 48
37862328 AGAGCCACTT
* * *
37862338 TAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGTGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCATCGAGATGA-TGCCAGTG
* * *
37862386 TAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAAATG-TGTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCATCGAGATGATGCCAGTG
* *
37862430 TAAGACCATGTCTGGGACATGGCATCGGCCATGGTGATGATAGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCATCGAGATGAT-GCCAGTG
* *
37862479 TAAGACTATGTCTAGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
37862507 TAACTTGCCC
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 20 0.20
47 19 0.19
48 6 0.06
49 32 0.31
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCATCGAGATGATGCCAGTG
Found at i:37863602 original size:21 final size:22
Alignment explanation
Indices: 37863576--37863618 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37863566 TTAAAATGGT
* *
37863576 CACACGGGCATGTTACC-CTTC
1 CACACGAGCATGTGACCTCTTC
37863597 CACACGAGCATGTGACCTCTTC
1 CACACGAGCATGTGACCTCTTC
37863619 AAGGATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (22 bp):
CACACGAGCATGTGACCTCTTC
Found at i:37867798 original size:6 final size:6
Alignment explanation
Indices: 37867780--37867894 Score: 101
Period size: 6 Copynumber: 18.8 Consensus size: 6
37867770 AAGAAACATT
* * * *
37867780 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATAAGA ATTAG- GTGACAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
37867829 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
37867878 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
37867895 GTAACAGAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
5 4 0.04
6 78 0.88
7 5 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:37867841 original size:43 final size:43
Alignment explanation
Indices: 37867789--37867894 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
37867779 TATCAGAACT
* *
37867789 AGAATCAGAATCAGAATCAGAATAAGAATTAGGTGACAAAATC
1 AGAATCAGAATCAGAATCAGAATAAGAATCAGGTAACAAAATC
* * *
37867832 AGAATCAGAATCAGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATAAGAATCAGGTAACAAAATC
* *
37867875 AAAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
37867895 GTAACAGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATAAGAATCAGGTAACAAAATC
Found at i:37867872 original size:31 final size:31
Alignment explanation
Indices: 37867837--37867917 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
37867827 AAATCAGAAT
*
37867837 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
37867868 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
*
37867899 CAGAATAAAAAATCAGAAT
1 CAGAAT-CAAAATCAGAAT
37867918 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
31 36 0.77
32 11 0.23
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:37868382 original size:27 final size:27
Alignment explanation
Indices: 37868325--37868654 Score: 421
Period size: 27 Copynumber: 12.3 Consensus size: 27
37868315 AGGGCAAAAT
* * * *
37868325 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37868351 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37868378 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37868405 GGTAATTCTACCTTATAGAGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37868431 TGGTAATTCTACCCTACAGGGGTATTTT
1 -GGTAATTCTACCCTACAGGGGTATTTC
37868459 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37868486 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
37868513 GATAATTCTACCCCACAGGGGCATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37868540 GGTAATTCTACTCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37868567 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37868594 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37868621 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37868648 GGTAATT
1 GGTAATT
37868655 TCACAAATCA
Statistics
Matches: 263, Mismatches: 38, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
26 17 0.06
27 244 0.93
28 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:37869033 original size:28 final size:27
Alignment explanation
Indices: 37868638--37869248 Score: 341
Period size: 27 Copynumber: 22.7 Consensus size: 27
37868628 CTACCCTACA
*
37868638 AGGGTATTTCGGTAATTTCACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
37868664 AGGGGTATTTTGGTAATTTTATAAAT-T
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ***
37868691 AGGGGTATTTTGGTAATTTTATTGATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * ** * *
37868719 AGGGTATTTTGATAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* **
37868746 AGGGTATTTCAGTAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * **
37868773 AGGGTAAAAT-GGTAATTCTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
*** * **
37868800 AGGGTAAGACGGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
37868827 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** * *
37868854 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** * * **
37868881 AGGGTAAAAT-GATAATTCTGTAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** * **
37868908 AGGGTAAAAT-GGTAATTCTATCTTAT--
1 AGGGT-ATTTCGGTAATTTTA-CAAATCG
*
37868934 AGGAGTATTTCAGTAATTTTACAAATCG
1 AGG-GTATTTCGGTAATTTTACAAATCG
* * *
37868962 AGGGTATTTCAGTAATTTTGCAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
37868989 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
37869016 AGAGATATTTGGGCAATTTTATAAATCG
1 AG-GGTATTTCGGTAATTTTACAAATCG
* * *
37869044 GGGGTACTTT-GGTAATTTTACAAGTCA
1 AGGGTA-TTTCGGTAATTTTACAAATCG
** *
37869071 AGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37869098 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
37869125 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37869152 AGGGTATTTCAGTAATTTTAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * * *
37869178 ACAGTATTTTGGTAATTTTATAAACCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37869205 GGGGTACTTT-GGTAATTTTACAACTCG
1 AGGGTA-TTTCGGTAATTTTACAAATCG
**
37869232 -GGGTATTTTAGTAATTT
1 AGGGTATTTCGGTAATTT
37869249 GGTAAACTAA
Statistics
Matches: 488, Mismatches: 78, Indels: 38
0.81 0.13 0.06
Matches are distributed among these distances:
25 3 0.01
26 47 0.10
27 399 0.82
28 39 0.08
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:37871402 original size:39 final size:39
Alignment explanation
Indices: 37871348--37871426 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
37871338 TAATTTGAAG
37871348 TAAGTTGTATATAAATAATACAACTACATTATTAATGTA
1 TAAGTTGTATATAAATAATACAACTACATTATTAATGTA
*
37871387 TAAGTTGTATATAAATAATACAACTACATTGTTAATGTA
1 TAAGTTGTATATAAATAATACAACTACATTATTAATGTA
37871426 T
1 T
37871427 GTACTGAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (39 bp):
TAAGTTGTATATAAATAATACAACTACATTATTAATGTA
Found at i:37871531 original size:29 final size:29
Alignment explanation
Indices: 37871489--37871546 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
37871479 TTGAGAAAGT
37871489 ATGATGATAATAGAGATAGCAGAGTTCCA
1 ATGATGATAATAGAGATAGCAGAGTTCCA
37871518 ATGATGATAATAGAGATAGCAGAGTTCCA
1 ATGATGATAATAGAGATAGCAGAGTTCCA
37871547 GTTTGAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (29 bp):
ATGATGATAATAGAGATAGCAGAGTTCCA
Found at i:37871751 original size:46 final size:47
Alignment explanation
Indices: 37871606--37871776 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 47
37871596 ATGGTGGGCT
* * * *
37871606 AGTGTAAGACATATCTGGGACATGCATCAGCCA--CAGTATGAG-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCATTGAG-ATCAGTAGCC
* * *
37871652 ACTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGATCAGTAGCC
* * *
37871700 AGTGTAAGACATGTCTGAGACATGCATCGG-ATTCGGGA-CATTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-GAGATCAGTAGCC
37871746 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
37871777 TACGAAATGT
Statistics
Matches: 105, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
45 5 0.05
46 49 0.47
47 29 0.28
48 20 0.19
49 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATCAGTAGCC
Found at i:37877054 original size:200 final size:201
Alignment explanation
Indices: 37876659--37877064 Score: 769
Period size: 201 Copynumber: 2.0 Consensus size: 201
37876649 ATAGGTTAAT
*
37876659 TTATACGGACCTATTAAAGCATGTAGTGAAAATAATGGCTTTGCATGTCAAATACTCCTTTTTTA
1 TTATAAGGACCTATTAAAGCATGTAGTGAAAATAATGGCTTTGCATGTCAAATACTCCTTTTTTA
37876724 TACATAGTGGCCGGCCATGATGGAGCATATATTAGAATATGTGGTAAATTTCCATGAAGTGGTCA
66 TACATAGTGGCCGGCCATGATGGAGCATATATTAGAATATGTGGTAAATTTCCATGAAGTGGTCA
37876789 TTATTTTATGTAAAGGAAAGGAAATAATAAAAGAAATACTAAGGATAATAAAAGAAGTAAAAAAA
131 TTATTTTATGTAAAGGAAAGGAAATAATAAAAGAAATACTAAGGATAATAAAAGAAGTAAAAAAA
37876854 A-GGGG
196 AGGGGG
* *
37876859 TTATAAGGACCTATTAAAGCATGTAGTGAGACTAATGGCTTTGCATGTCAAATACTCCTTCTTTT
1 TTATAAGGACCTATTAAAGCATGTAGTGAAAATAATGGCTTTGCATGTCAAATACTCCTT-TTTT
37876924 ATACATAGTGGCCGGCCATGATGGAGCATATATTAGAATATGTGGTAAATTTCCATGAAGTGGTC
65 ATACATAGTGGCCGGCCATGATGGAGCATATATTAGAATATGTGGTAAATTTCCATGAAGTGGTC
37876989 ATTATTTTATGTAAAGGAAAGGAAATAATAAAAGAAATACTAAGGATAATAAAAGAAGTAAAAAA
130 ATTATTTTATGTAAAGGAAAGGAAATAATAAAAGAAATACTAAGGATAATAAAAGAAGTAAAAAA
37877054 AAGGGGG
195 AAGGGGG
37877061 TTAT
1 TTAT
37877065 TACCTTGTTC
Statistics
Matches: 201, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
200 57 0.28
201 136 0.68
202 8 0.04
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (201 bp):
TTATAAGGACCTATTAAAGCATGTAGTGAAAATAATGGCTTTGCATGTCAAATACTCCTTTTTTA
TACATAGTGGCCGGCCATGATGGAGCATATATTAGAATATGTGGTAAATTTCCATGAAGTGGTCA
TTATTTTATGTAAAGGAAAGGAAATAATAAAAGAAATACTAAGGATAATAAAAGAAGTAAAAAAA
AGGGGG
Found at i:37878657 original size:28 final size:28
Alignment explanation
Indices: 37878592--37878742 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
37878582 GAGATTGGCG
* * * *
37878592 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
37878621 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37878649 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37878677 CTAAGTGTGCGCGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37878705 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
37878732 CTGAGTGTGCG
1 CTAAGTGTGCG
37878743 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.21
28 73 0.66
29 15 0.14
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:37886901 original size:28 final size:28
Alignment explanation
Indices: 37886830--37886903 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
37886820 ATAATAAGCC
* *
37886830 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
37886858 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
37886886 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
37886904 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:37887588 original size:54 final size:54
Alignment explanation
Indices: 37887528--37887636 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
37887518 TGATCGAATT
37887528 TTCCTAATCTAGCATATTTTCACATCTATTTGTAACATCATGTAAATCCACATA
1 TTCCTAATCTAGCATATTTTCACATCTATTTGTAACATCATGTAAATCCACATA
37887582 TTCCTAATCTAGCATATTTTCACATCTATTTGTAACATCATGTAAATCCACATA
1 TTCCTAATCTAGCATATTTTCACATCTATTTGTAACATCATGTAAATCCACATA
37887636 T
1 T
37887637 AACTACATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (54 bp):
TTCCTAATCTAGCATATTTTCACATCTATTTGTAACATCATGTAAATCCACATA
Found at i:37887634 original size:28 final size:28
Alignment explanation
Indices: 37887548--37887634 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
37887538 AGCATATTTT
37887548 CACATCTATTTGTAACATCATGTAAATC
1 CACATCTATTTGTAACATCATGTAAATC
** * ** *
37887576 CACA--TATTCCTAATCTAGCA--TATTTT
1 CACATCTATTTGTAA-C-ATCATGTAAATC
37887602 CACATCTATTTGTAACATCATGTAAATC
1 CACATCTATTTGTAACATCATGTAAATC
37887630 CACAT
1 CACAT
37887635 ATAACTACAT
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
26 17 0.41
27 2 0.05
28 22 0.54
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (28 bp):
CACATCTATTTGTAACATCATGTAAATC
Found at i:37894974 original size:16 final size:15
Alignment explanation
Indices: 37894955--37895006 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
37894945 GTAAATCGGT
37894955 AAAAGCTGAAATGCC
1 AAAAGCTGAAATGCC
* *
37894970 GAAAAGCAGAAATACC
1 -AAAAGCTGAAATGCC
37894986 AAAAAG-TCGAAATGCC
1 -AAAAGCT-GAAATGCC
37895002 AAAAG
1 AAAAG
37895007 TTTGGCTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 5 0.17
16 25 0.83
ACGTcount: A:0.54, C:0.17, G:0.19, T:0.10
Consensus pattern (15 bp):
AAAAGCTGAAATGCC
Found at i:37895317 original size:28 final size:28
Alignment explanation
Indices: 37895220--37895322 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 28
37895210 TAAATGTGAT
* **
37895220 TTGGACCTAAT-GGCCATTTGAATTTGA
1 TTGGACCTAATGGGCCATATGAATGAGA
* * * * * *
37895247 TTTGGGCCTAATAGACCACATAAATGTGA
1 -TTGGACCTAATGGGCCATATGAATGAGA
37895276 TTGGACCTAATGGGCCATATGAATGAGA
1 TTGGACCTAATGGGCCATATGAATGAGA
* *
37895304 TTGGGCCTAGTGGGCCATA
1 TTGGACCTAATGGGCCATA
37895323 AGCATGTATG
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 49 0.82
29 11 0.18
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (28 bp):
TTGGACCTAATGGGCCATATGAATGAGA
Found at i:37905417 original size:28 final size:28
Alignment explanation
Indices: 37905352--37905450 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
37905342 CATGAGATTG
* * *
37905352 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
37905381 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
37905409 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
37905437 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
37905451 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:37909457 original size:26 final size:26
Alignment explanation
Indices: 37909407--37909457 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
37909397 TTGATAATTT
* *
37909407 AATGTTATAATTACATGCTGTTATGA
1 AATGTTATAATTAAATGCTGCTATGA
37909433 AATGTTATAATTAAATTG-TGCTATG
1 AATGTTATAATTAAA-TGCTGCTATG
37909458 GCCGAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (26 bp):
AATGTTATAATTAAATGCTGCTATGA
Found at i:37912542 original size:28 final size:29
Alignment explanation
Indices: 37912505--37912600 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
37912495 AAGTCTACAT
* * * *
37912505 ACATGCATATGGCCCACTAGG-TCGAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
37912533 TCATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37912562 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
37912591 ACATTCATAT
1 ACATTCATAT
37912601 ACATGCTTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 17 0.30
29 40 0.70
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:37917305 original size:46 final size:46
Alignment explanation
Indices: 37917235--37917456 Score: 283
Period size: 46 Copynumber: 4.8 Consensus size: 46
37917225 TGTAACCCGC
* *
37917235 CCATAAGTGAACTCAGACTCAACTCAACGAGCTT-GGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCAT
* * *
37917281 CCATAAGTGAACTCGGACTTAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
37917331 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37917374 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37917420 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37917457 TGCTCAACCA
Statistics
Matches: 152, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 1 0.01
45 4 0.03
46 105 0.69
47 27 0.18
48 2 0.01
49 1 0.01
50 4 0.03
51 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37917915 original size:30 final size:30
Alignment explanation
Indices: 37917881--37917940 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
37917871 ATTTAATACG
37917881 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
37917911 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
37917941 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:37919406 original size:29 final size:29
Alignment explanation
Indices: 37919339--37919463 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 29
37919329 AAGTCTACAT
* *
37919339 ACATGCATATGGCCCACTAAGCCC-AATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
* *
37919367 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
** *
37919396 ACATTTGTATGGACCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
* * * *
37919425 ACATCCATATGTCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
37919454 ACATTCATAT
1 ACATTCATAT
37919464 ACATGCTTTC
Statistics
Matches: 79, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 20 0.25
29 59 0.75
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAAGCCCAAATC
Found at i:37919417 original size:57 final size:58
Alignment explanation
Indices: 37919346--37919458 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
37919336 CATACATGCA
* * *
37919346 TATGGCCCACTAAGCCC-AATCTCATTCATATGGCCCATTAGGCCCAAATCACATTTG
1 TATGGACCACTAAGCCCAAATCACATCCATATGGCCCATTAGGCCCAAATCACATTTG
* * *
37919403 TATGGACCATTAAGCCCAAATCACATCCATATGTCCCATTAGGCCTAAATCACATT
1 TATGGACCACTAAGCCCAAATCACATCCATATGGCCCATTAGGCCCAAATCACATT
37919459 CATATACATG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 15 0.31
58 34 0.69
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (58 bp):
TATGGACCACTAAGCCCAAATCACATCCATATGGCCCATTAGGCCCAAATCACATTTG
Found at i:37919543 original size:17 final size:18
Alignment explanation
Indices: 37919521--37919555 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37919511 TGCCTATTAT
37919521 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
37919538 GGGCCCACTTAGCCCATC
1 GGGCCCACATAGCCCATC
37919556 CTGACCTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.43, G:0.23, T:0.14
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:37922927 original size:8 final size:7
Alignment explanation
Indices: 37922888--37922997 Score: 157
Period size: 7 Copynumber: 14.9 Consensus size: 7
37922878 GTGATGCATC
37922888 ACCCTAA
1 ACCCTAA
37922895 ACCCTAA
1 ACCCTAA
37922902 ACCCTAA
1 ACCCTAA
37922909 ACCCTAA
1 ACCCTAA
37922916 ACCCTAAA
1 ACCCT-AA
37922924 ACCCTAAA
1 ACCCT-AA
37922932 ACCCTAAA
1 ACCCT-AA
37922940 ACCCTAA
1 ACCCTAA
37922947 ACCCTAAA
1 ACCCT-AA
37922955 ACCCTAAA
1 ACCCT-AA
37922963 ACCCTAA
1 ACCCTAA
37922970 ACCCTAAA
1 ACCCT-AA
*
37922978 ACCATAA
1 ACCCTAA
37922985 ACCCTAA
1 ACCCTAA
37922992 ACCCTA
1 ACCCTA
37922998 TGGTTTGGGC
Statistics
Matches: 98, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
7 54 0.55
8 44 0.45
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:37922927 original size:15 final size:14
Alignment explanation
Indices: 37922888--37922997 Score: 157
Period size: 15 Copynumber: 7.4 Consensus size: 14
37922878 GTGATGCATC
37922888 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
37922902 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
37922916 ACCCTAAAACCCTAAA
1 ACCCT-AAACCCT-AA
37922932 ACCCTAAAACCCTAA
1 ACCCT-AAACCCTAA
37922947 ACCCTAAAACCCTAAA
1 ACCCT-AAACCCT-AA
37922963 ACCCTAAACCCTAAA
1 ACCCTAAACCCT-AA
*
37922978 ACCATAAACCCTAA
1 ACCCTAAACCCTAA
37922992 ACCCTA
1 ACCCTA
37922998 TGGTTTGGGC
Statistics
Matches: 91, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
14 26 0.29
15 43 0.47
16 22 0.24
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (14 bp):
ACCCTAAACCCTAA
Found at i:37924400 original size:50 final size:49
Alignment explanation
Indices: 37924334--37924559 Score: 215
Period size: 50 Copynumber: 4.5 Consensus size: 49
37924324 TGAATACACG
* * *
37924334 TGTGTAGTACTGAGTGCAGGCTACTACGTGTACCATATTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT-AGTCACA
* * * *
37924384 TGTGTAGTACTAAGTGCAGGCTACTATGCGAACTCCATGACTTCG--A-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA--CCA-GA-TT-GTTAGTCACA
* * * *
37924435 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGCAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT-TAGTCACA
* ** * *
37924485 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACTGGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGTCACA
*
37924534 TGTGTAGTACTAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
37924560 TGCATATCAG
Statistics
Matches: 144, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 2 0.01
49 31 0.22
50 69 0.48
51 32 0.22
52 4 0.03
53 1 0.01
54 2 0.01
55 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGTCACA
Found at i:37924689 original size:27 final size:26
Alignment explanation
Indices: 37924659--37924710 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
37924649 GGGAAAATCG
37924659 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
37924686 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
37924711 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:37939086 original size:26 final size:26
Alignment explanation
Indices: 37939056--37939136 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
37939046 AATAGTCTGG
37939056 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
* *
37939082 TACAC--ACGT-GACCT-CAC-TATCTAA
1 TACACGTA-GTAG-CCTGCACTTA-GTAC
37939106 TACACGTAGTAGCCTGCACTTAGTAC
1 TACACGTAGTAGCCTGCACTTAGTAC
37939132 TACAC
1 TACAC
37939137 ACGTGATCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 16
0.68 0.06 0.25
Matches are distributed among these distances:
23 2 0.05
24 12 0.28
25 10 0.23
26 17 0.40
27 2 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACGTAGTAGCCTGCACTTAGTAC
Found at i:37939188 original size:51 final size:51
Alignment explanation
Indices: 37939005--37939438 Score: 449
Period size: 51 Copynumber: 8.7 Consensus size: 51
37938995 AAAGCTATCT
* * * * * ** *
37939005 GGTATGCATAGTAGCCTGGACTTAGTACTACACATGCGA-C-CAATAGTCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * * * * *
37939054 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCA-CTATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
** * *
37939104 AATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
37939155 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
* * * *
37939206 GGTACGCATAGTAGCCTGCACTTAGTACT--ACATGCGACCAACAG---TCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
* * * * *** *
37939253 GGTACACGTAGTAGGCTGCACTTAGTACTACACACGTG-TCCTCA-CCATCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGAT-CACAGTTTTCG
** * *
37939303 AATAC-AAGTAGTAGCCTGCACTTATTACTACACACGTGATCACAGTTTTCG
1 GGTACGCA-TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
37939354 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
37939405 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACA
37939439 TGCGACCTCA
Statistics
Matches: 325, Mismatches: 46, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
47 28 0.09
48 2 0.01
49 46 0.14
50 85 0.26
51 163 0.50
52 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (51 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:37939352 original size:199 final size:200
Alignment explanation
Indices: 37939005--37939445 Score: 785
Period size: 199 Copynumber: 2.2 Consensus size: 200
37938995 AAAGCTATCT
* * *
37939005 GGTATGCATAGTAGCCTGGACTTAGTACTACACATGCGACCAATAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTA-ACATGCGACCAACAGTCTGGTACACGTAGTAGCC
* *
37939070 TGCACTTAGTACTACACACGTGACCTCACTATCTAATACACGTAGTAGCCTGCACTTAGTACTAC
65 TGCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTAC
37939135 ACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
130 ACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAG
37939200 TTTTCG
195 TTTTCG
*
37939206 GGTACGCATAGTAGCCTGCACTTAGTACT-ACATGCGACCAACAGTCTGGTACACGTAGTAGGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTAACATGCGACCAACAGTCTGGTACACGTAGTAGCCT
* *
37939270 GCACTTAGTACTACACACGTGTCCTCACCATCTAATACAAGTAGTAGCCTGCACTTATTACTACA
66 GCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACA
37939335 CACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
131 CACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
37939400 TTTCG
196 TTTCG
37939405 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTA-ACATGCGACC
37939446 TCACAATAGA
Statistics
Matches: 230, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
199 193 0.84
201 37 0.16
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (200 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTAACATGCGACCAACAGTCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGACCTCACCATCTAATACAAGTAGTAGCCTGCACTTAGTACTACA
CACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
TTTCG
Found at i:37942783 original size:86 final size:86
Alignment explanation
Indices: 37942638--37942811 Score: 339
Period size: 86 Copynumber: 2.0 Consensus size: 86
37942628 TTAGGCCAAG
*
37942638 AGAAGAAAGGGAGAAAGTGGGAACAAGTTGTTTGACTTGAAGAACAAAAGATCTTAGGTTCGACC
1 AGAAGAAAGGGAGAAAGTGGGAACAAGTTGTTCGACTTGAAGAACAAAAGATCTTAGGTTCGACC
37942703 ACCATAGTGCAAAAGCAAAGA
66 ACCATAGTGCAAAAGCAAAGA
37942724 AGAAGAAAGGGAGAAAGTGGGAACAAGTTGTTCGACTTGAAGAACAAAAGATCTTAGGTTCGACC
1 AGAAGAAAGGGAGAAAGTGGGAACAAGTTGTTCGACTTGAAGAACAAAAGATCTTAGGTTCGACC
37942789 ACCATAGTGCAAAAGCAAAGA
66 ACCATAGTGCAAAAGCAAAGA
37942810 AG
1 AG
37942812 GTCAAAGGAA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.43, C:0.13, G:0.27, T:0.17
Consensus pattern (86 bp):
AGAAGAAAGGGAGAAAGTGGGAACAAGTTGTTCGACTTGAAGAACAAAAGATCTTAGGTTCGACC
ACCATAGTGCAAAAGCAAAGA
Found at i:37946403 original size:135 final size:136
Alignment explanation
Indices: 37946160--37946429 Score: 524
Period size: 135 Copynumber: 2.0 Consensus size: 136
37946150 AGAAAGGTCC
37946160 GAGACTAAACCGAGGACCTGAGAAAGTTCTTGAAAATTTTTTTTAAGTTAAGCCTTACAATCCCG
1 GAGACTAAACCGAGGACCTGAGAAAGTTCTTGAAAATTTTTTTTAAGTTAAGCCTTACAATCCCG
37946225 TGTCGAGGCAATGCACACGTCCGTGTGCTTTGGGACACGCCCATGTCCCCTACCCGTGTGAAATT
66 TGTCGAGGCAATGCACACGTCCGTGTGCTTTGGGACACGCCCATGTCCCCTACCCGTGTGAAATT
37946290 AATTGT
131 AATTGT
37946296 GAGACTAAACCGAGGACCTGAGAAAGTTCTTGAAAA-TTTTTTTAAGTTAAGCCTTACAATCCCG
1 GAGACTAAACCGAGGACCTGAGAAAGTTCTTGAAAATTTTTTTTAAGTTAAGCCTTACAATCCCG
*
37946360 TGTCGAGGCAATGCAGACGTCCGTGTGCTTTGGGACACGCCCATGTCCCCTACCCGTGTGAAATT
66 TGTCGAGGCAATGCACACGTCCGTGTGCTTTGGGACACGCCCATGTCCCCTACCCGTGTGAAATT
37946425 AATTG
131 AATTG
37946430 AATTTATTTT
Statistics
Matches: 133, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
135 97 0.73
136 36 0.27
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (136 bp):
GAGACTAAACCGAGGACCTGAGAAAGTTCTTGAAAATTTTTTTTAAGTTAAGCCTTACAATCCCG
TGTCGAGGCAATGCACACGTCCGTGTGCTTTGGGACACGCCCATGTCCCCTACCCGTGTGAAATT
AATTGT
Found at i:37947750 original size:125 final size:125
Alignment explanation
Indices: 37947550--37947798 Score: 480
Period size: 125 Copynumber: 2.0 Consensus size: 125
37947540 ACCATGTAAG
37947550 TTGTCTTAGATGAGCTCATCATCCAATGTTTTCATTTTTATATCCCATGTTAATCCCGTTGAGTT
1 TTGTCTTAGATGAGCTCATCATCCAATGTTTTCATTTTTATATCCCATGTTAATCCCGTTGAGTT
*
37947615 TCCTGGAAATTTTGATGGATTACCCATTTATCGTCAATTCATAGGAGCGATCATCTCATT
66 TCCTAGAAATTTTGATGGATTACCCATTTATCGTCAATTCATAGGAGCGATCATCTCATT
*
37947675 TTGTCTTAGATGAGCTCATCATCCAATTTTTTCATTTTTATATCCCATGTTAATCCCGTTGAGTT
1 TTGTCTTAGATGAGCTCATCATCCAATGTTTTCATTTTTATATCCCATGTTAATCCCGTTGAGTT
37947740 TCCTAGAAATTTTGATGGATTACCCATTTATCGTCAATTCATAGGAGCGATCATCTCAT
66 TCCTAGAAATTTTGATGGATTACCCATTTATCGTCAATTCATAGGAGCGATCATCTCAT
37947799 GTACACACTC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
125 122 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.41
Consensus pattern (125 bp):
TTGTCTTAGATGAGCTCATCATCCAATGTTTTCATTTTTATATCCCATGTTAATCCCGTTGAGTT
TCCTAGAAATTTTGATGGATTACCCATTTATCGTCAATTCATAGGAGCGATCATCTCATT
Found at i:37950944 original size:110 final size:110
Alignment explanation
Indices: 37950751--37950969 Score: 429
Period size: 110 Copynumber: 2.0 Consensus size: 110
37950741 TTTCCTGAAG
*
37950751 AAATGTCGGCCTAGCCCTTAGCTCTGCCAAGATTGAACCATCATCAAACAATGCGAAACGAGCGT
1 AAATGTCGGCCTAGCCCTTAGCTCTGCCAAGATTGAACCATCATCAAACAATGCCAAACGAGCGT
37950816 TCATGGCCCTCAATGCAAACAAAGATTTTCTACTTAATGTGTCAT
66 TCATGGCCCTCAATGCAAACAAAGATTTTCTACTTAATGTGTCAT
37950861 AAATGTCGGCCTAGCCCTTAGCTCTGCCAAGATTGAACCATCATCAAACAATGCCAAACGAGCGT
1 AAATGTCGGCCTAGCCCTTAGCTCTGCCAAGATTGAACCATCATCAAACAATGCCAAACGAGCGT
37950926 TCATGGCCCTCAATGCAAACAAAGATTTTCTACTTAATGTGTCA
66 TCATGGCCCTCAATGCAAACAAAGATTTTCTACTTAATGTGTCA
37950970 GGGAACACAT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (110 bp):
AAATGTCGGCCTAGCCCTTAGCTCTGCCAAGATTGAACCATCATCAAACAATGCCAAACGAGCGT
TCATGGCCCTCAATGCAAACAAAGATTTTCTACTTAATGTGTCAT
Found at i:37951716 original size:110 final size:110
Alignment explanation
Indices: 37951523--37951741 Score: 420
Period size: 110 Copynumber: 2.0 Consensus size: 110
37951513 GGTGGTTTCC
*
37951523 ATTCAATGATGGCAGAGATCTTACTTGGATCAACTCGGATGCCATCACCCAAAATAATATGACCC
1 ATTCAATGATGGCAGAGATCTTACTTGGATCAACTCGGATGCCATCACCCAAAACAATATGACCC
37951588 AAGAACCCTACTTCTTGGAGCCAAAATTCACTCTTGCTAACTCAT
66 AAGAACCCTACTTCTTGGAGCCAAAATTCACTCTTGCTAACTCAT
*
37951633 ATTCAATGATGGCAGAGATCTTACTTGGATCAACTGGGATGCCATCACCCAAAACAATATGACCC
1 ATTCAATGATGGCAGAGATCTTACTTGGATCAACTCGGATGCCATCACCCAAAACAATATGACCC
37951698 AAGAACCCTACTTCTTGGAGCCAAAATTCACTCTTGCTAACTCA
66 AAGAACCCTACTTCTTGGAGCCAAAATTCACTCTTGCTAACTCA
37951742 GCATACAATT
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (110 bp):
ATTCAATGATGGCAGAGATCTTACTTGGATCAACTCGGATGCCATCACCCAAAACAATATGACCC
AAGAACCCTACTTCTTGGAGCCAAAATTCACTCTTGCTAACTCAT
Found at i:37955901 original size:46 final size:46
Alignment explanation
Indices: 37955834--37956054 Score: 293
Period size: 46 Copynumber: 4.8 Consensus size: 46
37955824 AACTAGGCAT
*
37955834 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
37955880 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
37955926 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
37955971 ATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
37956019 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37956055 GCGGGTTACA
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.01
46 111 0.75
47 32 0.22
48 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:37956017 original size:139 final size:139
Alignment explanation
Indices: 37955786--37956054 Score: 538
Period size: 139 Copynumber: 1.9 Consensus size: 139
37955776 TGGTTGAGCA
37955786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
37955851 AGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66 AGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37955916 ATGCGAATG
131 ATGCGAATG
37955925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
37955990 AGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66 AGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37956055 GCGGGTTACA
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 130 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (139 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
AGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
ATGCGAATG
Found at i:37965676 original size:37 final size:37
Alignment explanation
Indices: 37965617--37965762 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
37965607 AGCTCAGACG
* *
37965617 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
37965654 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
37965691 TACTCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
37965728 TAATCTCCACACGTAGTCATCAGGTCTCACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
37965763 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:37966046 original size:47 final size:47
Alignment explanation
Indices: 37965967--37966254 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
37965957 TATATATATT
* * * * *
37965967 TCACATTGACCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
37966014 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
37966061 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
37966108 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
37966155 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
37966202 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
37966249 TCACAT
1 TCACAT
37966255 AAAATCCTAA
Statistics
Matches: 217, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 217 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:37966142 original size:141 final size:141
Alignment explanation
Indices: 37965967--37966255 Score: 506
Period size: 141 Copynumber: 2.0 Consensus size: 141
37965957 TATATATATT
* *
37965967 TCACATTGACCATTCAGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCAGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
* *
37966032 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
37966097 GTTCACATTCA
131 ATTCACATTCA
* * *
37966108 TCACATAGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATAGACCATTCAGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
37966173 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
66 CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
37966238 ATTCACATTCA
131 ATTCACATTCA
37966249 TCACATA
1 TCACATA
37966256 AAATCCTAAA
Statistics
Matches: 140, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 140 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (141 bp):
TCACATAGACCATTCAGCCTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
CTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
ATTCACATTCA
Found at i:37972989 original size:27 final size:26
Alignment explanation
Indices: 37972941--37972992 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
37972931 GCGAGGCTGC
*
37972941 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
37972967 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
37972993 TTGCAGCGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:37973665 original size:27 final size:27
Alignment explanation
Indices: 37973635--37973931 Score: 382
Period size: 27 Copynumber: 11.0 Consensus size: 27
37973625 TACCCCATGA
37973635 GGGTATCTT-AGTAATTCTACCCTACAG
1 GGGTAT-TTCAGTAATTCTACCCTACAG
* *
37973662 GGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* **
37973689 GGATATTTTGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
37973716 GGGTATTTCAGTAATTCTACCCTATAA
1 GGGTATTTCAGTAATTCTACCCTACAG
** ** *
37973743 GGGT-TTTTTGATAATTCTACTTTATAG
1 GGGTATTTCAG-TAATTCTACCCTACAG
37973770 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
37973797 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
37973824 GGGTATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
37973851 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* * *
37973878 GGGTATTTCGGCAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
37973905 GGGTATTTCAGTAATGCTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
37973932 ATATGTGATT
Statistics
Matches: 233, Mismatches: 34, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
26 6 0.03
27 223 0.96
28 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:37975957 original size:33 final size:32
Alignment explanation
Indices: 37975906--37975969 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
37975896 ACGAAGCCAC
* *
37975906 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
37975938 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
37975970 TTGCAACGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:37976681 original size:27 final size:27
Alignment explanation
Indices: 37976651--37976991 Score: 432
Period size: 27 Copynumber: 12.6 Consensus size: 27
37976641 CGGTAAAATA
* * *
37976651 GTAATTTTACCCCAC-GAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCG
*
37976678 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
37976705 GTATTTCTACCCTACAAGGATATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
37976732 GTAATTCTACCCTATAGGGGTATTTCAG
1 GTAATTCTACCCTACAGGGGTATTTC-G
*
37976760 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
37976787 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
37976814 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
37976841 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * * *
37976868 ATAATTCTACCTTACAGGGGTATTCCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* * **
37976895 GTAATTCTACCTTACAGAGGTATTTAA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
37976922 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
37976949 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
37976976 ATAATTCTAGCCTACA
1 GTAATTCTACCCTACA
37976992 AATATGTGAT
Statistics
Matches: 272, Mismatches: 40, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
27 245 0.90
28 27 0.10
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:37979142 original size:40 final size:40
Alignment explanation
Indices: 37979090--37979192 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 40
37979080 GAACATTATA
*
37979090 ATGCATTCAGGGGTACCAAAGTACAAATAGAAGCACGTAT
1 ATGCATTCAGGGGTATCAAAGTACAAATAGAAGCACGTAT
* * * **
37979130 ATGCATTTAGGGGTATCGAAGTATAAATAGGGGCACGTAT
1 ATGCATTCAGGGGTATCAAAGTACAAATAGAAGCACGTAT
*
37979170 GTGCATTCAGGGGTATCAAAGTA
1 ATGCATTCAGGGGTATCAAAGTA
37979193 AATTCACACA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (40 bp):
ATGCATTCAGGGGTATCAAAGTACAAATAGAAGCACGTAT
Done.