Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 51
Found at i:247589 original size:59 final size:59
Alignment explanation
Indices: 247526--247988 Score: 478
Period size: 59 Copynumber: 7.8 Consensus size: 59
247516 TTACCAAATG
* * **
247526 GCACTATATGTGCTAAAATGATAAGGAGATCATACTGAATGTATAAATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* *
247585 GCACTGAGTA--TGCTAAAATGATAAAGAAAACATACTGAGTGTATGGATTTCCATATGGA
1 GCACT-A-TATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* *
247644 GCACTATATGTTCTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
*
247703 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGA
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * * *
247762 GCACTGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGAT-AA
1 GCACT-ATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * * ***
247820 GACATTATATATGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAAAAAAA
1 G-CACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
* * * * * *
247880 GCACTA-AGGTTTCTACAAGGATAAGGAAATCATACTAACG-GTATGGATTTTCATATAGG-
1 GCACTATATG-TGCTAAAATGATAAGGAAATCATACTGA-GTGTATGGATTTCCATAT-GGA
* *
247939 GCACT-TCATGTGCTAAAAATGGTAAAGG-AATCATACT-AATGGTATGGATT
1 GCACTAT-ATGTGCT-AAAATGAT-AAGGAAATCATACTGAGT-GTATGGATT
247989 CTCGAATTGG
Statistics
Matches: 337, Mismatches: 50, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
57 2 0.01
58 5 0.01
59 293 0.87
60 31 0.09
61 6 0.02
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (59 bp):
GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGA
Found at i:247839 original size:177 final size:177
Alignment explanation
Indices: 247526--247873 Score: 527
Period size: 177 Copynumber: 2.0 Consensus size: 177
247516 TTACCAAATG
*
247526 GCACTATATGTGCTAAAATGATAAGGAGATCATACTGAATGTATAAATTTCCATATGGAGCACTG
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATAAATTTCCATATGGAGCACTG
* * * * * *
247591 AGTATGCTAAAATGATAAAGAAAACATACTGAGTGTATGGATTTCCATATGGAGCACTATATGTT
66 AGTATGCTAAAATGATAAAGAAAACATACTGAATATATGGATTTCCAGATAGAGCACTATATATG
247656 CTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTCCATATGGA
131 CTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTCCATATGGA
* *
247703 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACTG
1 GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATAAATTTCCATATGGAGCACTG
* * * * *
247768 AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATA-AGACATTATATAT
66 AGTATGCTAAAATGATAAAGAAAACATACTGAATATATGGATTTCCAGATAGAG-CACTATATAT
* **
247832 GCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCA
130 GCTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTCCA
247874 AAAAAAGCAC
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
176 2 0.01
177 151 0.99
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (177 bp):
GCACTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATAAATTTCCATATGGAGCACTG
AGTATGCTAAAATGATAAAGAAAACATACTGAATATATGGATTTCCAGATAGAGCACTATATATG
CTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTCCATATGGA
Found at i:247983 original size:60 final size:61
Alignment explanation
Indices: 247902--248016 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 61
247892 CTACAAGGAT
* *
247902 AAGGAAATCATACTAACGGTATGGATTTTC-ATATAGGGCACTTCATGTGCTAAAAATGGTA
1 AAGGAAATCATACTAACGGTATGGATTCTCGA-ATAGGCCACTTCATGTGCTAAAAATGGTA
* * *
247963 AAGG-AATCATACTAATGGTATGGATTCTCGAATTGGCCACTTCGTGTGCTAAAA
1 AAGGAAATCATACTAACGGTATGGATTCTCGAATAGGCCACTTCATGTGCTAAAA
248017 TGAGAATGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 43 0.90
61 5 0.10
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (61 bp):
AAGGAAATCATACTAACGGTATGGATTCTCGAATAGGCCACTTCATGTGCTAAAAATGGTA
Found at i:248232 original size:44 final size:44
Alignment explanation
Indices: 248169--248513 Score: 481
Period size: 44 Copynumber: 8.0 Consensus size: 44
248159 TCAGTGATGC
248169 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
248213 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* *
248257 AAATTATAGTAAGTATATTGGTAAAGTAAGCTTACGAACTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
*
248301 AAATTATTGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
248345 AAATTATAGTAAGTATATTGGT--AA-AA---TA--AGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
248381 AAATAATGGTATGTATATTGGTAAAATAAGCTTAGGAGCTTATG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * * *
248425 GAATAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTAGG
1 AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
* * * *
248469 GATTTAATGGTAAGTATATTGGTAAAATAAGTTTACGAGCTTATG
1 AAATT-ATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
248514 GATTAAATGG
Statistics
Matches: 273, Mismatches: 19, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
36 27 0.10
38 4 0.01
39 2 0.01
41 2 0.01
42 4 0.01
44 198 0.73
45 36 0.13
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (44 bp):
AAATTATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
Found at i:248384 original size:36 final size:36
Alignment explanation
Indices: 248337--248414 Score: 129
Period size: 36 Copynumber: 2.2 Consensus size: 36
248327 TAAGCTTACG
*
248337 AGCTTATGAAATTATAGTAAGTATATTGGTAAAATA
1 AGCTTATGAAATAATAGTAAGTATATTGGTAAAATA
* *
248373 AGCTTATGAAATAATGGTATGTATATTGGTAAAATA
1 AGCTTATGAAATAATAGTAAGTATATTGGTAAAATA
248409 AGCTTA
1 AGCTTA
248415 GGAGCTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (36 bp):
AGCTTATGAAATAATAGTAAGTATATTGGTAAAATA
Found at i:248400 original size:80 final size:80
Alignment explanation
Indices: 248293--248513 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 80
248283 TAAGCTTACG
* * *
248293 AACTTATGAAATTATTGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATTATAGTAAG
1 AACTTATGAAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATAATAGTAAG
248358 TATATTGGTAAAATA
66 TATATTGGTAAAATA
* * * * *
248373 AGCTTATGAAATAATGGTATGTATATTGGTAAAATAAGCTTAGGAGCTTATGGAATAATGGTAAG
1 AACTTATGAAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATAATAGTAAG
248438 TATATTGGTAAAATA
66 TATATTGGTAAAATA
* *
248453 AACTTACGAGCTTAGGGATTTAATGGTAAGTATATTGGTAAAATAAGTTTACGAGCTTATG
1 AACTTATGA----A---A--TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
248514 GATTAAATGG
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
80 79 0.66
84 1 0.01
87 1 0.01
89 38 0.32
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.35
Consensus pattern (80 bp):
AACTTATGAAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAATAATAGTAAG
TATATTGGTAAAATA
Found at i:248421 original size:132 final size:117
Alignment explanation
Indices: 248249--248499 Score: 259
Period size: 124 Copynumber: 2.0 Consensus size: 117
248239 TAAGCTTACG
* *
248249 AGCTTATGAAATTATAGTAAGTATATTGGTAAAGTAAGCTTACGAACTTATGAAATTATTGTAAG
1 AGCTTATGAAATAATAGTAAGTATATTGGTAAAGT-AG---A-G--CTTATGAAATTATAGTAAG
248314 TATATTGGTAAAATAAGCTTACGAGCTTATGAAATTATAGTAAGTATATTGGTAAAATA
59 TATATTGGTAAAATAAGCTTACGAGCTTATGAAATTATAGTAAGTATATTGGTAAAATA
* * * * *
248373 AGCTTATGAAATAATGGTATGTATATTGGTAAAATAAGCTTAGGAGCTTATGGAATAATGGTAAG
1 AGCTTATGAAATAATAGTAAGTATATTGGT---A-AAG--TA-GAGCTTATGAAATTATAGTAAG
* * * * *
248438 TATATTGGTAAAATAAACTTACGAGCTTAGGGATTTAATGGTAAGTATATTGGTAAAATA
59 TATATTGGTAAAATAAGCTTACGAGCTTATGAAATT-ATAGTAAGTATATTGGTAAAATA
248498 AG
1 AG
248500 TTTACGAGCT
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
124 75 0.69
125 24 0.22
126 1 0.01
127 2 0.02
128 3 0.03
129 1 0.01
130 2 0.02
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.34
Consensus pattern (117 bp):
AGCTTATGAAATAATAGTAAGTATATTGGTAAAGTAGAGCTTATGAAATTATAGTAAGTATATTG
GTAAAATAAGCTTACGAGCTTATGAAATTATAGTAAGTATATTGGTAAAATA
Found at i:248492 original size:45 final size:45
Alignment explanation
Indices: 248384--248534 Score: 223
Period size: 45 Copynumber: 3.4 Consensus size: 45
248374 GCTTATGAAA
* * *
248384 TAATGGTATGTATATTGGTAAAATAAGCTTAGGAGCTTATGGA-A
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATT
* *
248428 TAATGGTAAGTATATTGGTAAAATAAACTTACGAGCTTAGGGATT
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATT
*
248473 TAATGGTAAGTATATTGGTAAAATAAGTTTACGAGCTTATGGATT
1 TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATT
* *
248518 AAATGGTATGTATATTG
1 TAATGGTAAGTATATTG
248535 ATAAGAAATT
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 39 0.41
45 57 0.59
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.36
Consensus pattern (45 bp):
TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATT
Found at i:253958 original size:13 final size:13
Alignment explanation
Indices: 253942--253972 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
253932 TGACCTACTG
253942 ACCTGACCCGCTA
1 ACCTGACCCGCTA
253955 ACCTGACCCGCTA
1 ACCTGACCCGCTA
253968 ACCTG
1 ACCTG
253973 TGTCTGACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCTGACCCGCTA
Found at i:253958 original size:21 final size:21
Alignment explanation
Indices: 253918--253958 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
253908 ATGGGTCGAT
* *
253918 CTGACCCGACCCGTTGACCTA
1 CTGACCCGACCCGCTAACCTA
*
253939 CTGACCTGACCCGCTAACCT
1 CTGACCCGACCCGCTAACCT
253959 GACCCGCTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.20
Consensus pattern (21 bp):
CTGACCCGACCCGCTAACCTA
Found at i:254809 original size:2 final size:2
Alignment explanation
Indices: 254797--254830 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
254787 AGGTTTTCTG
*
254797 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
254831 GTTTATCGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:258049 original size:21 final size:21
Alignment explanation
Indices: 258019--258058 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
258009 TCAGAAAAAT
*
258019 TCAACGGCCGGTCAACGGTGA
1 TCAACGGCCGGACAACGGTGA
*
258040 TCAACTGCCGGACAACGGT
1 TCAACGGCCGGACAACGGT
258059 CAACACCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.30, G:0.30, T:0.15
Consensus pattern (21 bp):
TCAACGGCCGGACAACGGTGA
Found at i:263404 original size:2 final size:2
Alignment explanation
Indices: 263399--263460 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
263389 GTTTAAAACA
263399 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
263441 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
263461 CTTTCGTATC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:265030 original size:3 final size:3
Alignment explanation
Indices: 265022--265087 Score: 105
Period size: 3 Copynumber: 21.7 Consensus size: 3
265012 CCTGTAAATG
**
265022 TAA TAA TAA TAA TAA TAA TAA TAA TTT TAAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
265068 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
265088 TACTATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 57 0.98
4 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:265621 original size:129 final size:128
Alignment explanation
Indices: 265248--265653 Score: 329
Period size: 129 Copynumber: 3.1 Consensus size: 128
265238 GACGACACTA
** * * * * *
265248 CTCATACGTGATGAAGAGTT-TGGGTCGTCTAAGGGTGACAAAACTCCTACATAATGAGGAGATC
1 CTCATACGTGATGAAGAGTTCT-GGTTATC-AAGGTTGACACAGCTCCTACATAATGAGGAAAAC
* * * * * *
265312 TAGTTAGAG-GATGACACTGCTCATACGTGATAAAGAGTTCTTGGCCATCTTTAGGAATGGTAAT
64 TAG-TCGAGTGATGACACGGCTAATACGTGATGAAGAGTGC-TAGCCATC--TA--AA-GGTAAT
* *
265376 AACTCGA
122 AACACGG
* * * * * *
265383 TTCCTACGTGATGAGGACG-ACTGGTTATCTAGGTTGACATAGCTCCTACATAATGAGGAAAACT
1 CTCATACGTGATGAAGA-GTTCTGGTTATCAAGGTTGACACAGCTCCTACATAATGAGGAAAACT
* * *
265447 AGTCGGGTGATGACACGGCTAATACGTGATGAAGAGTTCTAGCCATCTAAAGGTGATAACACGG
65 AGTCGAGTGATGACACGGCTAATACGTGATGAAGAGTGCTAGCCATCTAAAGGTAATAACACGG
* * *
265511 CTCATACGTGATGAAGAGTTCTGGTTATCAAGGATTGACACGGCTCCTACATAATGAGGAGATC-
1 CTCATACGTGATGAAGAGTTCTGGTTATCAAGG-TTGACACAGCTCCTACATAATGAGGAAAACT
* ** * * *
265575 AGGTCGAGTGATGACACGGTTCCTACGTGATGAGGACG-GC-ATGCCATCTATAGGTAATAGCAC
65 A-GTCGAGTGATGACACGGCTAATACGTGATGAAGA-GTGCTA-GCCATCTAAAGGTAATAACAC
265638 GG
127 GG
* *
265640 TTCCTACGTGATGA
1 CTCATACGTGATGA
265654 GGACGACTGG
Statistics
Matches: 222, Mismatches: 41, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
127 1 0.00
128 38 0.17
129 90 0.41
130 1 0.00
131 2 0.01
133 10 0.05
134 59 0.27
135 19 0.09
136 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (128 bp):
CTCATACGTGATGAAGAGTTCTGGTTATCAAGGTTGACACAGCTCCTACATAATGAGGAAAACTA
GTCGAGTGATGACACGGCTAATACGTGATGAAGAGTGCTAGCCATCTAAAGGTAATAACACGG
Found at i:265669 original size:129 final size:128
Alignment explanation
Indices: 265291--265708 Score: 369
Period size: 129 Copynumber: 3.2 Consensus size: 128
265281 GGTGACAAAA
* * * * * * * *
265291 CTCCTACATAATGAGGAGATCTAGTTAGAG-GATGACACTGCTCATACGTGATAAAGAGTTCTTG
1 CTCCTACATAATGAGGAAATC-AGGTCGAGTGATGACACGGCTAATACGTGATGAAGAGTGC-TA
* * *
265355 GCCATCTTTAGGAATGGTAATAACTCGATTCCTACGTGATGAGGACGACTGGTTATCTAGGTTGA
64 GCCATC--TA--AA-GGTAATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAGGTTGA
*
265420 CATAG
124 CACAG
* * *
265425 CTCCTACATAATGAGGAAAACTA-GTCGGGTGATGACACGGCTAATACGTGATGAAGAGTTCTAG
1 CTCCTACATAATGAGGAAATC-AGGTCGAGTGATGACACGGCTAATACGTGATGAAGAGTGCTAG
* * * * * *
265489 CCATCTAAAGGTGATAACACGGCTCATACGTGATGAAGA-GTTCTGGTTATCAAGGATTGACACG
65 CCATCTAAAGGTAATAACACGGTTCCTACGTGATGAGGACG-ACTGGTTATCAAGG-TTGACACA
265553 G
128 G
* * ** *
265554 CTCCTACATAATGAGGAGATCAGGTCGAGTGATGACACGGTTCCTACGTGATGAGGACG-GC-AT
1 CTCCTACATAATGAGGAAATCAGGTCGAGTGATGACACGGCTAATACGTGATGAAGA-GTGCTA-
* * * * *
265617 GCCATCTATAGGTAATAGCACGGTTCCTACGTGATGAGGACGACTGGCTATCAGGGGTTGACACC
64 GCCATCTAAAGGTAATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCA-AGGTTGACACA
265682 G
128 G
* * * *
265683 TTCCTACGTGATGAAGAAATCAGGTC
1 CTCCTACATAATGAGGAAATCAGGTC
265709 AATGGATGAC
Statistics
Matches: 234, Mismatches: 42, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
127 1 0.00
128 38 0.16
129 130 0.56
130 4 0.02
131 2 0.01
133 10 0.04
134 49 0.21
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (128 bp):
CTCCTACATAATGAGGAAATCAGGTCGAGTGATGACACGGCTAATACGTGATGAAGAGTGCTAGC
CATCTAAAGGTAATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAGGTTGACACAG
Found at i:266001 original size:91 final size:91
Alignment explanation
Indices: 265846--266018 Score: 285
Period size: 91 Copynumber: 1.9 Consensus size: 91
265836 AAGTGTTAAA
* *
265846 TTGAACAAGTTCTACTCATTATGAACTTCTTCTCTCTTGTTGGATGAGTTCTTCTCATTATGAAC
1 TTGAACAAGTTCTACTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATGAAC
265911 TCTCCACTGGAAATGTTAATGCAAGG
66 TCTCCACTGGAAATGTTAATGCAAGG
* *
265937 TTGAACGAGTTCTTCTCATTATGAACTTCTTCT-TCCTCGTTAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTACTCATTATGAACTTCTTCTCT-CTCGTTAGATGAGTTCTTCTCATTATGAA
*
266001 CTCTTCACTGGAAATGTT
65 CTCTCCACTGGAAATGTT
266019 GATTCACCTC
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 1 0.01
91 75 0.99
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (91 bp):
TTGAACAAGTTCTACTCATTATGAACTTCTTCTCTCTCGTTAGATGAGTTCTTCTCATTATGAAC
TCTCCACTGGAAATGTTAATGCAAGG
Found at i:266138 original size:117 final size:117
Alignment explanation
Indices: 265932--266575 Score: 915
Period size: 117 Copynumber: 5.6 Consensus size: 117
265922 AATGTTAATG
* * *
265932 CAAGGTTGAACGAGTTCTTCTCATTATGAACTTCTTCTTCCTCGTTAGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * * *
265997 TGAACTCTT-CACTGGAAATGTTGATTCACCTCCTTCTGTGATGGAATCGAAC
66 TGAACT-TTCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
266049 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
*
266114 TGAACTTTCCACTGAAAATGTTGATCCACCTCTTTCTTTGATGGAATCAAAC
66 TGAACTTTCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
266166 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * * * *
266231 TGAACTCTCCACTGCAAATGTTGATACACCTCTTTATTTGATGGAATCAAAC
66 TGAACTTTCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
266283 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* *
266348 TGAA-TTCTCCAATGAAAATGTTGATCCACCTCTTTCTGTGATGTAATCAAAC
66 TGAACTT-TCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
266400 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
* * * * * * * **
266465 TGAACTCTT---CTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGACT-TGA-
66 TGAACT-TTCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
*
266513 -AA-G--GAACAAGTTCTTCTCATTATGAAC-T-TTC-TCCT--TTAGGATGAGTTCTTCTTATT
1 CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATT-GGATGAGTTCTTCTCATT
266569 ATGAACT
65 ATGAACT
266576 ATTCTAGAAA
Statistics
Matches: 491, Mismatches: 31, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
104 2 0.00
105 24 0.05
106 4 0.01
107 3 0.01
108 1 0.00
109 24 0.05
111 1 0.00
112 2 0.00
114 1 0.00
115 27 0.05
116 3 0.01
117 396 0.81
118 2 0.00
119 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (117 bp):
CAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCATTGGATGAGTTCTTCTCATTA
TGAACTTTCCACTGAAAATGTTGATCCACCTCTTTCTGTGATGGAATCAAAC
Found at i:266751 original size:136 final size:135
Alignment explanation
Indices: 266516--267040 Score: 708
Period size: 136 Copynumber: 3.9 Consensus size: 135
266506 GACTTGAAAG
* * * *
266516 GAACAAGTTCTTCTCATTATGAAC-T-TTCT-CC-TTTAGGATGAGTTCTTCTTATTATGAACTA
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTCGGATGAGTTCTTCTCATTATGAACTC
* ** * *
266577 TT--CTAGAAATGTTGATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCATGAATTGAGTGAT
66 TTAACTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGAT
*
266640 AGGTT
131 AGGTC
266645 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTT-TCGGATGAGTTCTTCTCATTATGAACT
* * ** * **
266710 CTTCACTGGAAATATTGATCCCTCAAGTGAGGTGTCACTGATTTGAAATGCTGTGAATCGAGTGA
65 CTTAACTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGA
266775 TAGGTC
130 TAGGTC
*
266781 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAG---TTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT-TTTCGGATGAGTTCTTCTCATTATGAACT
* *
266843 CTTAATTGGAAATGTCAATTCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGA
65 CTTAACTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGA
266908 TAGGTC
130 TAGGTC
* * * * *
266914 AAAAAAGCTCTTCTCGTTATGAACTTCGTCTCCCTCTTTCAGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCT-TTTCGGATGAGTTCTTCTCATTATGAACT
* * *
266979 CTTAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCAAAATGTCATGAATCGAG
65 CTTAACTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAG
267041 CAACGGAAAT
Statistics
Matches: 354, Mismatches: 31, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
129 23 0.06
130 1 0.00
131 4 0.01
132 2 0.01
133 120 0.34
134 27 0.08
136 176 0.50
137 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (135 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTTTTCGGATGAGTTCTTCTCATTATGAACTC
TTAACTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGAT
AGGTC
Found at i:266900 original size:269 final size:264
Alignment explanation
Indices: 266516--267021 Score: 721
Period size: 269 Copynumber: 1.9 Consensus size: 264
266506 GACTTGAAAG
*
266516 GAACAAGTTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTTATTATGAACTATTCT
1 GAACAAGCTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTC-TATTATGAACTATTCT
** * **
266581 AGAAATGTTGATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCATGAATTGAGTGATAGGTTG
65 AGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCATGAATCGAGTGATAGGTCA
* * *
266646 AACAAGCTCTTCTCATTATGAACTTCTTCTCCCT-TTGTCGGATGAGTTCTTCTCATTATGAACT
130 AAAAAGCTCTTCTCATTATGAACTTCGTCTCCCTCTT-TCAGATGAGTTCTTCTCATTATGAACT
* **
266710 CTTCACTGGAAATATTGATCCCTCAAGTGAGGTGTCACTGATTTGAAATGCTGTGAATCGAGTGA
194 CTTAACTGGAAATATCAATCCCTCAAGTGAGGTGTCACTGATTTGAAATGCTGTGAATCGAGTGA
266775 TAGGTC
259 TAGGTC
* *
266781 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTC-TC-ATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAAC-T-TTCT-CCT-T-TAGGATGAGTTCTTCTATTATGAACTA
* * * *
266844 TTAATTGGAAATGTCAATTCCTCAAGTGAGGTGTCACTGATTCGAAATGCCATGAATCGAGTGAT
61 TT--CTAGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCATGAATCGAGTGAT
*
266909 AGGTCAAAAAAGCTCTTCTCGTTATGAACTTCGTCTCCCTCTTTCAGATGAGTTCTTCTCATTAT
124 AGGTCAAAAAAGCTCTTCTCATTATGAACTTCGTCTCCCTCTTTCAGATGAGTTCTTCTCATTAT
* *
266974 GAACTCTTAATTGGAAATGTCAATCCCTCAAGTGAGGTGTCACTGATT
189 GAACTCTTAACTGGAAATATCAATCCCTCAAGTGAGGTGTCACTGATT
267022 CAAAATGTCA
Statistics
Matches: 212, Mismatches: 21, Indels: 12
0.87 0.09 0.05
Matches are distributed among these distances:
265 23 0.11
266 1 0.00
267 16 0.08
268 3 0.01
269 156 0.74
270 13 0.06
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (264 bp):
GAACAAGCTCTTCTCATTATGAACTTTCTCCTTTAGGATGAGTTCTTCTATTATGAACTATTCTA
GAAATGTCAATCCCTCAAGTGAGGTGTCACTGATTCGAAATACCATGAATCGAGTGATAGGTCAA
AAAAGCTCTTCTCATTATGAACTTCGTCTCCCTCTTTCAGATGAGTTCTTCTCATTATGAACTCT
TAACTGGAAATATCAATCCCTCAAGTGAGGTGTCACTGATTTGAAATGCTGTGAATCGAGTGATA
GGTC
Found at i:267138 original size:42 final size:41
Alignment explanation
Indices: 267068--267205 Score: 172
Period size: 42 Copynumber: 3.3 Consensus size: 41
267058 ACATCCATCA
* *
267068 CTGAAGG-TATTATCATCTTGCTCGAAAGACTTACAT-ATGAC
1 CTGAAGGAT-TTAACATCATGCTCGAAAGACTTAC-TGATGAC
*
267109 CTGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGAC
1 CTGAAGGATTTAA-CATCATGCTCGAAAGACTTACTGATGAC
** *
267151 CCAAAGGATTTACACATCATGCTTGAAAGACTTACTGATGAC
1 CTGAAGGATTTA-ACATCATGCTCGAAAGACTTACTGATGAC
267193 CTGAAGGATTTAA
1 CTGAAGGATTTAA
267206 AAATCAAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
41 12 0.14
42 71 0.85
43 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (41 bp):
CTGAAGGATTTAACATCATGCTCGAAAGACTTACTGATGAC
Found at i:267360 original size:90 final size:90
Alignment explanation
Indices: 267206--267371 Score: 269
Period size: 90 Copynumber: 1.8 Consensus size: 90
267196 AAGGATTTAA
* **
267206 AAATCAAGAAACCTCTGAAGGCTTAATTTATAAAATCTCATTTGAAAACATCCTGCACTAAAGGT
1 AAATCAAGAAACCCCCAAAGGCTTAATTTATAAAATCTCATTTGAAAACATCCTGCACTAAAGGT
*
267271 CTTATGTATGGACTAAAAGACTTAC
66 CTTATGGATGGACTAAAAGACTTAC
* * *
267296 AAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGT
1 AAATCAAGAAACCCCCAAAGGCTTAATTTATAAAATCTCATTTGAAAACATCCTGCACTAAAGGT
267361 CTTATGGATGG
66 CTTATGGATGG
267372 CCCGAATGAC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 69 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (90 bp):
AAATCAAGAAACCCCCAAAGGCTTAATTTATAAAATCTCATTTGAAAACATCCTGCACTAAAGGT
CTTATGGATGGACTAAAAGACTTAC
Found at i:274001 original size:9 final size:8
Alignment explanation
Indices: 273983--274033 Score: 52
Period size: 8 Copynumber: 6.2 Consensus size: 8
273973 GGGATTAAAA
273983 ATATATATT
1 ATAT-TATT
273992 ATATTGA-T
1 ATATT-ATT
274000 -TATTATT
1 ATATTATT
274007 ATTATTATT
1 A-TATTATT
*
274016 ATATTAAT
1 ATATTATT
274024 ATATTATT
1 ATATTATT
274032 AT
1 AT
274034 TAATATTACT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 1 0.03
7 5 0.14
8 17 0.47
9 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
ATATTATT
Found at i:274006 original size:3 final size:3
Alignment explanation
Indices: 273988--274041 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
273978 TAAAAATATA
*
273988 TAT TA- TAT TGAT TAT TAT TAT TAT TAT TA- TAT TAA TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
274031 TAT TAA TAT TA
1 TAT TAT TAT TA
274042 CTAATAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.14
3 35 0.80
4 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:274054 original size:28 final size:25
Alignment explanation
Indices: 273987--274058 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
273977 TTAAAAATAT
* *
273987 ATATTATATTGAT-TATTATTATTA
1 ATATTATAATAATATATTATTATTA
* *
274011 TTATTATATTAATATATTATTATTA
1 ATATTATAATAATATATTATTATTA
* *
274036 ATATTACTAATAATTTATAATTA
1 ATATTA-TAATAATATATTATTA
274059 CATATTTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.28
25 16 0.40
26 13 0.32
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (25 bp):
ATATTATAATAATATATTATTATTA
Found at i:278462 original size:2 final size:2
Alignment explanation
Indices: 278457--278494 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
278447 GTTTAAGACA
278457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
278495 CTTTCGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:280064 original size:3 final size:3
Alignment explanation
Indices: 280056--280118 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
280046 CCTGTAAATG
* * * **
280056 TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TTTT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
280105 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
280119 TACTATTTTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
3 48 0.98
4 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:280129 original size:25 final size:27
Alignment explanation
Indices: 280077--280131 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
280067 TTTATAATAA
280077 TAATAATAATAATAATAATATTAATTTT
1 TAATAATAATAATAATAATATT-ATTTT
* *
280105 TAATAATAATAAT-ATACTATTTTTTT
1 TAATAATAATAATAATAATATTATTTT
280131 T
1 T
280132 GTCCGGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.20
27 7 0.28
28 13 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATAATAATAATAATAATATTATTTT
Found at i:282991 original size:20 final size:19
Alignment explanation
Indices: 282964--283011 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
282954 GAATGGCTAA
282964 AAATATGTTAG-AATGCATT
1 AAATATGTT-GTAATGCATT
282983 AAATAATGTTGTAATGCATT
1 AAAT-ATGTTGTAATGCATT
*
283003 -TATATGTTG
1 AAATATGTTG
283012 CACAATGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 13 0.50
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (19 bp):
AAATATGTTGTAATGCATT
Found at i:283125 original size:2 final size:2
Alignment explanation
Indices: 283118--283147 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
283108 ATGAGAATCA
283118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
283148 CGTGATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:283556 original size:39 final size:39
Alignment explanation
Indices: 283512--283589 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
283502 CTATCACCCT
283512 CCATGATAATGTTCATGATTAAGAATGAGTGTGACCATG
1 CCATGATAATGTTCATGATTAAGAATGAGTGTGACCATG
283551 CCATGATAATGTTCATGATTAAGAATGAGTGTGACCATG
1 CCATGATAATGTTCATGATTAAGAATGAGTGTGACCATG
283590 TAGATTAGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (39 bp):
CCATGATAATGTTCATGATTAAGAATGAGTGTGACCATG
Found at i:284984 original size:16 final size:17
Alignment explanation
Indices: 284963--284996 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
284953 ATTATAAAAT
*
284963 AATATTATAA-TTTATA
1 AATATTAAAATTTTATA
284979 AATATTAAAATTTTATA
1 AATATTAAAATTTTATA
284996 A
1 A
284997 TTAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTAAAATTTTATA
Found at i:285004 original size:20 final size:18
Alignment explanation
Indices: 284943--285010 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
284933 TAAATATTAA
*
284943 AATATTAAAAATTATAAAAT
1 AATATT-AAAATT-TATAAT
*
284963 AATATTATAATTTAT-A-
1 AATATTAAAATTTATAAT
284979 AATATTAAAATTTTATAATT
1 AATATTAAAA-TTTATAA-T
284999 AATATTATAAAT
1 AATATTA-AAAT
285011 ATAACAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
16 9 0.22
17 6 0.15
18 3 0.08
19 5 0.12
20 14 0.35
21 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTAAAATTTATAAT
Found at i:285921 original size:32 final size:31
Alignment explanation
Indices: 285880--285940 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
285870 AGGGTTAATT
**
285880 TGATATTTCATCTAAATTTTAAGGATCAAAAA
1 TGATATTTCATCTAAACATTAA-GATCAAAAA
285912 TGATATTTCATCTAAACATTAAGATCAAA
1 TGATATTTCATCTAAACATTAAGATCAAA
285941 TTAATCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (31 bp):
TGATATTTCATCTAAACATTAAGATCAAAAA
Found at i:292229 original size:21 final size:21
Alignment explanation
Indices: 292200--292243 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
292190 TATGACCCGG
*
292200 CTGCGGTGCCATCTGATACTA
1 CTGCAGTGCCATCTGATACTA
292221 CTGCAGTGCCATCTGATACTA
1 CTGCAGTGCCATCTGATACTA
292242 CT
1 CT
292244 ACGGAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (21 bp):
CTGCAGTGCCATCTGATACTA
Found at i:292772 original size:2 final size:2
Alignment explanation
Indices: 292765--292789 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
292755 TGAAACTAAA
292765 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
292790 ATTCTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:293935 original size:15 final size:15
Alignment explanation
Indices: 293912--293955 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
293902 AAAAGTAATA
*
293912 AAAAATTAATACAAT
1 AAAAATTAATAAAAT
*
293927 AAAATTTAATAAAAT
1 AAAAATTAATAAAAT
*
293942 AATAAATTATTAAA
1 AA-AAATTAATAAA
293956 TAATTATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATTAATAAAAT
Found at i:294950 original size:9 final size:8
Alignment explanation
Indices: 294933--294957 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
294923 TAAAAGAGAT
294933 AATAAAAA
1 AATAAAAA
294941 AATAAAAA
1 AATAAAAA
294949 AATAAAAA
1 AATAAAAA
294957 A
1 A
294958 GAAGTGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:294968 original size:71 final size:68
Alignment explanation
Indices: 294819--294991 Score: 188
Period size: 70 Copynumber: 2.4 Consensus size: 68
294809 TCAAAGAATG
* * * *
294819 AAATATTAAATTTATAAAAATTATAAAAAAATGTTAAAAGAAATAAAATAAAATAAAATAAAATG
1 AAATATTAAATTTA-AAAAAATAAAAAAAAATGTTAAAAGAAATAAAAAAAAATAAAATAAAATA
*
294884 AAGA
65 AAAA
*
294888 AAATATTAAATTTTAGAAAAAATAAAAAAAAATGTTAAAAGAGATAATAAAAAAAT-AAA-AAAA
1 AAATATTAAA-TTTA-AAAAAATAAAAAAAAATGTTAAAAGAAATAA-AAAAAAATAAAATAAAA
294951 TAAAAA
63 TAAAAA
*
294957 AGAAGTGTTAAACTTTAAAGAAAATACAAAAAAAA
1 A-AA-TATTAAA-TTTAAA-AAAATA-AAAAAAAA
294992 GGGATCAAAT
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
69 19 0.21
70 39 0.44
71 23 0.26
72 8 0.09
ACGTcount: A:0.69, C:0.01, G:0.07, T:0.23
Consensus pattern (68 bp):
AAATATTAAATTTAAAAAAATAAAAAAAAATGTTAAAAGAAATAAAAAAAAATAAAATAAAATAA
AAA
Found at i:296096 original size:14 final size:14
Alignment explanation
Indices: 296055--296115 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
296045 AGAAAAAGTA
*
296055 AATA-AATAAATA-
1 AATATAATATATAT
296067 AATA-AATA-ATATT
1 AATATAATATATA-T
296080 AATATAATATATAT
1 AATATAATATATAT
*
296094 AATATAATGTA-AT
1 AATATAATATATAT
296107 ATATATAAT
1 A-ATATAAT
296116 GTAATGAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
11 3 0.07
12 8 0.19
13 7 0.16
14 22 0.51
15 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
AATATAATATATAT
Found at i:296101 original size:19 final size:19
Alignment explanation
Indices: 296056--296130 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
296046 GAAAAAGTAA
*
296056 ATAA-ATAA-ATAA-ATAA
1 ATAATATAATATAATATAT
296072 ATAATATTAATATAATATAT
1 ATAATA-TAATATAATATAT
*
296092 ATAATATAATGTAATATAT
1 ATAATATAATATAATATAT
*
296111 ATAATGTAATGA-AATATAT
1 ATAATATAAT-ATAATATAT
296130 A
1 A
296131 ACTATATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.08
17 1 0.02
18 3 0.06
19 33 0.66
20 9 0.18
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
ATAATATAATATAATATAT
Found at i:296116 original size:14 final size:15
Alignment explanation
Indices: 296073--296120 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
296063 AATAAATAAA
*
296073 TAATATTAATATAATA
1 TAATA-TAATATAATG
296089 T-ATATAATATAATG
1 TAATATAATATAATG
296103 TAATAT-ATATAATG
1 TAATATAATATAATG
296117 TAAT
1 TAAT
296121 GAAATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 22 0.73
15 7 0.23
16 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (15 bp):
TAATATAATATAATG
Found at i:296121 original size:5 final size:5
Alignment explanation
Indices: 296056--296120 Score: 61
Period size: 5 Copynumber: 14.0 Consensus size: 5
296046 GAAAAAGTAA
296056 ATAA- ATAA- ATAA- ATAA- ATAAT ATTAAT ATAAT AT-AT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT ATAAT
* *
296102 GTAAT AT-AT ATAAT GTAAT
1 ATAAT ATAAT ATAAT ATAAT
296121 GAAATATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.44
5 25 0.46
6 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:296213 original size:40 final size:40
Alignment explanation
Indices: 296149--296240 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 40
296139 ATATGCAAGC
296149 ATATAATA-ATATAATATGTTAAAAAAACATTTT-AAAACT
1 ATATAATATATATAATATGTT-AAAAAACATTTTCAAAACT
* ** *
296188 ATATAATATATAT-ATATTTTCAAAAATTATTTTCGAAACT
1 ATATAATATATATAATATGTT-AAAAAACATTTTCAAAACT
296228 ATATAATATATAT
1 ATATAATATATAT
296241 GTTTTTGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 24 0.52
40 22 0.48
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (40 bp):
ATATAATATATATAATATGTTAAAAAACATTTTCAAAACT
Found at i:296302 original size:34 final size:34
Alignment explanation
Indices: 296249--296378 Score: 143
Period size: 36 Copynumber: 3.6 Consensus size: 34
296239 ATGTTTTTGA
* **
296249 TTTTCAAAACCATATAATATATTTTCAAAAATTA
1 TTTTCAAAACTATATAATATATTTTCAAAAATCG
* *
296283 TTTCCAAACCTATATAATATATATATTTTCAAAAATCG
1 TTTTCAAAAC--TAT-ATA-ATATATTTTCAAAAATCG
* *
296321 TTTTCAAAACTGTATAATATATATTTTCAAAAATTG
1 TTTTCAAAACTATAT-A-ATATATTTTCAAAAATCG
296357 TTTTCAAAACTATATAATATAT
1 TTTTCAAAACTATATAATATAT
296379 ATATATTTTC
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
34 14 0.17
35 3 0.04
36 37 0.46
37 3 0.04
38 24 0.30
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (34 bp):
TTTTCAAAACTATATAATATATTTTCAAAAATCG
Found at i:296341 original size:36 final size:37
Alignment explanation
Indices: 296193--296474 Score: 264
Period size: 38 Copynumber: 7.6 Consensus size: 37
296183 AAACTATATA
*
296193 ATATATATATATTTTCAAAAATTATTTTCGAAACTAT
1 ATATATATATATTTTCAAAAATTATTTTCAAAACTAT
*
296230 ATA-ATATATATGTTT------TTGATTTTCAAAAC--C
1 ATATATATATAT-TTTCAAAAATT-ATTTTCAAAACTAT
* *
296260 ATATA-ATATATTTTCAAAAATTATTTCCAAACCTAT
1 ATATATATATATTTTCAAAAATTATTTTCAAAACTAT
** *
296296 ATAATATATATATTTTCAAAAATCGTTTTCAAAACTGT
1 AT-ATATATATATTTTCAAAAATTATTTTCAAAACTAT
*
296334 ATA-ATATATATTTTCAAAAATTGTTTTCAAAACTATAT
1 ATATATATATATTTTCAAAAATTATTTTCAAAAC--TAT
296372 AATATATATATATTTTCAAAAAATTATTTTCAAAACTCTAT
1 -ATATATATATATTTTC-AAAAATTATTTTCAAAA--CTAT
* *
296413 AATACATATATATATTTTCAAAAATCAATTT-AAAACTATAT
1 -AT--ATATATATATTTTCAAAAATTATTTTCAAAAC--TAT
296454 ATATATATATATTTTCAAAAA
1 ATATATATATATTTTCAAAAA
296475 CCTATTTTTT
Statistics
Matches: 206, Mismatches: 15, Indels: 47
0.77 0.06 0.18
Matches are distributed among these distances:
29 3 0.01
30 9 0.04
31 3 0.01
32 10 0.05
34 9 0.04
35 2 0.01
36 39 0.19
37 10 0.05
38 49 0.24
39 4 0.02
40 14 0.07
41 29 0.14
42 10 0.05
43 15 0.07
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (37 bp):
ATATATATATATTTTCAAAAATTATTTTCAAAACTAT
Found at i:296528 original size:38 final size:39
Alignment explanation
Indices: 296260--296542 Score: 139
Period size: 38 Copynumber: 7.2 Consensus size: 39
296250 TTTCAAAACC
* * *
296260 ATATAATATATTTTCAAAAA--T-TATTTC-CAAACCTAT
1 ATATTATATATTTTCAAAAACCTGT-TTTCTAAAAACTAT
* *
296296 ATAATATATATATTTTCAAAAATC-GTTTTC--AAAACTGT
1 AT-AT-TATATATTTTCAAAAACCTGTTTTCTAAAAACTAT
* *
296334 ATAATATATATTTTCAAAAA-TTGTTTTC--AAAACTATAT
1 ATATTATATATTTTCAAAAACCTGTTTTCTAAAAAC--TAT
** * *
296372 AATATATATATATTTTCAAAAAATTATTTTC-AAAACTCTAT
1 -ATAT-TATATATTTTCAAAAACCTGTTTTCTAAAA-ACTAT
***
296413 AATACATATATATATTTTCAAAAA--TCAATT-T-AAAACTATAT
1 -AT--AT-TATATATTTTCAAAAACCTGTTTTCTAAAAAC--TAT
* * *
296454 ATATATATATATTTTCAAAAACCTATTTTTTTTAAAAAGTAT
1 ATAT-TATATATTTTCAAAAACC--TGTTTTCTAAAAACTAT
*
296496 ATATTATATGTTTTCAAAAACC-GTTTTCTAAAAACTAT
1 ATATTATATATTTTCAAAAACCTGTTTTCTAAAAACTAT
296534 ATATTATAT
1 ATATTATAT
296543 TTAAAAAAAA
Statistics
Matches: 202, Mismatches: 21, Indels: 46
0.75 0.08 0.17
Matches are distributed among these distances:
36 29 0.14
37 3 0.01
38 66 0.33
39 8 0.04
40 22 0.11
41 36 0.18
42 13 0.06
43 21 0.10
44 4 0.02
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (39 bp):
ATATTATATATTTTCAAAAACCTGTTTTCTAAAAACTAT
Found at i:301020 original size:42 final size:43
Alignment explanation
Indices: 300974--301083 Score: 122
Period size: 42 Copynumber: 2.6 Consensus size: 43
300964 CATATACTTT
*
300974 TATACTATATAGTTTATAT-ATT-TA-TTTATATACATTATATTA
1 TATACT-TATAGTTTATATAATTATACTTTATATACA-TATATAA
*
301016 TATACTT-TAGTCTT-TATAATTATACTTTATATATATATATAA
1 TATACTTATAGT-TTATATAATTATACTTTATATACATATATAA
* *
301058 TATACTTATACTTTATATTATTATAC
1 TATACTTATAGTTTATATAATTATAC
301084 ATGTGTATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 11
0.79 0.05 0.15
Matches are distributed among these distances:
40 7 0.12
41 6 0.10
42 23 0.40
43 22 0.38
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (43 bp):
TATACTTATAGTTTATATAATTATACTTTATATACATATATAA
Found at i:301053 original size:40 final size:45
Alignment explanation
Indices: 301000--301098 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 45
300990 TATATTTATT
* *
301000 TATATACATTATATTATATACTT-TAGTCTTTATA-ATTATAC-T-T-
1 TATATATA-TATATAATATACTTATA--CTTTATATATTATACATGTG
301043 TATATATATATATAATATACTTATACTTTATATTATTATACATGTG
1 TATATATATATATAATATACTTATACTTTATA-TATTATACATGTG
301089 TATATATATA
1 TATATATATA
301099 ATCTATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
41 7 0.15
42 13 0.27
43 16 0.33
44 1 0.02
45 1 0.02
46 10 0.21
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (45 bp):
TATATATATATATAATATACTTATACTTTATATATTATACATGTG
Found at i:301066 original size:28 final size:26
Alignment explanation
Indices: 301030--301082 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 26
301020 CTTTAGTCTT
301030 TATAATTATACTTTATATATATATATAA
1 TATAATTATACTTTATAT-TAT-TATAA
*
301058 TATACTTATACTTTATATTATTATA
1 TATAATTATACTTTATATTATTATA
301083 CATGTGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 3 0.12
28 17 0.71
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (26 bp):
TATAATTATACTTTATATTATTATAA
Found at i:301116 original size:17 final size:17
Alignment explanation
Indices: 301090--301128 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
301080 ATACATGTGT
* *
301090 ATATATATAATCTATAA
1 ATATACATAATATATAA
*
301107 TTATACATAATATATAA
1 ATATACATAATATATAA
301124 ATATA
1 ATATA
301129 AGTTGTTTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATACATAATATATAA
Found at i:301178 original size:20 final size:20
Alignment explanation
Indices: 301155--301213 Score: 82
Period size: 22 Copynumber: 2.9 Consensus size: 20
301145 ATATAATTCA
301155 TATATAATTTATATATAAAC
1 TATATAATTTATATATAAAC
301175 TATATAATTTATATTAATAAAC
1 TATATAATTTATA-T-ATAAAC
* *
301197 TATTTAGTTTATATATA
1 TATATAATTTATATATA
301214 GTTCAATAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.46
21 2 0.06
22 17 0.49
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (20 bp):
TATATAATTTATATATAAAC
Found at i:302773 original size:17 final size:17
Alignment explanation
Indices: 302753--302822 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
302743 TAATAATTTG
*
302753 ACTAGTTTGATGAATGA
1 ACTAGTTTAATGAATGA
*
302770 ACTAGTTTAATTAATGA
1 ACTAGTTTAATGAATGA
* * *
302787 ACTAACTTTATTCAATGA
1 ACT-AGTTTAATGAATGA
* *
302805 ACTAGATGAATGAATGA
1 ACTAGTTTAATGAATGA
302822 A
1 A
302823 GTAGCTTACT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
17 28 0.67
18 14 0.33
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (17 bp):
ACTAGTTTAATGAATGA
Found at i:302803 original size:18 final size:18
Alignment explanation
Indices: 302765--302808 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
302755 TAGTTTGATG
*
302765 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
302782 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
302799 CAATGAACTA
1 -AATGAACTA
302809 GATGAATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:305512 original size:97 final size:97
Alignment explanation
Indices: 305297--305484 Score: 245
Period size: 97 Copynumber: 1.9 Consensus size: 97
305287 AACAGAAAAT
* *
305297 CATAGTTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTCCAGTGA
1 CATAATTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTCCAATGA
* **
305362 AAACAGGAAACCCGATAACACATTTCAGGTAC
66 AAACAGGAAACCAGATAACACATGCCAGGTAC
* **
305394 CATAATTCATAAACCAGTAAATTTCATGATTCCATAAATCATTAACAATTCATAGTTTT-CAATG
1 CATAATTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATA-TTTTCCAATG
* * **
305458 AAAAC-TGAAATCAGATATTACATGCCA
65 AAAACAGGAAACCAGATAACACATGCCA
305485 TGTTTCCATG
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 15 0.19
97 59 0.76
98 4 0.05
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (97 bp):
CATAATTCATAAACCAGTAAATTCCATGATTCCATAAATCAGGAACAATTCATATTTTCCAATGA
AAACAGGAAACCAGATAACACATGCCAGGTAC
Found at i:310648 original size:17 final size:17
Alignment explanation
Indices: 310628--310668 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
310618 TAGTCCAATA
*
310628 AATGAACTAGTTTGATG
1 AATGAACTAGTTTAATG
*
310645 AATGAACTAGTTTAATT
1 AATGAACTAGTTTAATG
310662 AATGAAC
1 AATGAAC
310669 AAACTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (17 bp):
AATGAACTAGTTTAATG
Found at i:310695 original size:20 final size:20
Alignment explanation
Indices: 310662--310710 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
310652 TAGTTTAATT
310662 AATGAAC-A-AACTTTATTC
1 AATGAACTAGAACTTTATTC
*
310680 AGTGAACTAGAACTTTATTC
1 AATGAACTAGAACTTTATTC
310700 AATGAACTAGA
1 AATGAACTAGA
310711 TGCATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 6 0.22
19 1 0.04
20 20 0.74
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (20 bp):
AATGAACTAGAACTTTATTC
Found at i:311109 original size:31 final size:30
Alignment explanation
Indices: 311067--311151 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 30
311057 AATATAAATA
* * *
311067 TATACTATATAGTTTTTATAGTTTATATACT
1 TATACTTTATAGTTTATATA-TATATATACT
311098 TATACTTTATAGTTTATATATATATATACT
1 TATACTTTATAGTTTATATATATATATACT
* *
311128 GATAC-TTATACTTTATAT-TATATA
1 TATACTTTATAGTTTATATATATATA
311152 CTAAATGTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 6 0.12
29 12 0.24
30 13 0.27
31 18 0.37
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (30 bp):
TATACTTTATAGTTTATATATATATATACT
Found at i:313682 original size:112 final size:112
Alignment explanation
Indices: 313485--313708 Score: 421
Period size: 112 Copynumber: 2.0 Consensus size: 112
313475 ATAGAACAGT
313485 ATAAGAAAACCCAACTTTTTTGTCTAGTAAAAAATGGAAACTGAAAAGTTAAATAATAATCCATT
1 ATAAGAAAACCCAACTTTTTTGTCTAGTAAAAAATGGAAACTGAAAAGTTAAATAATAATCCATT
*
313550 CTACATGTAGGTTTCTTTGATTTGGATCCAATAAAGCTGTTATTTTC
66 CTACATGTAGGTTTCTTTGATTTGGATCCAATAAAGCTCTTATTTTC
313597 ATAAGAAAACCCAACTTTTTTGTCTAGTAAAAAATGGAAACTGAAAAGTTAAATAATAATCCATT
1 ATAAGAAAACCCAACTTTTTTGTCTAGTAAAAAATGGAAACTGAAAAGTTAAATAATAATCCATT
* *
313662 CTACCTGTTGGTTTCTTTGATTTGGATCCAATAAAGCTCTTATTTTC
66 CTACATGTAGGTTTCTTTGATTTGGATCCAATAAAGCTCTTATTTTC
313709 TCATTGTATA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
112 109 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (112 bp):
ATAAGAAAACCCAACTTTTTTGTCTAGTAAAAAATGGAAACTGAAAAGTTAAATAATAATCCATT
CTACATGTAGGTTTCTTTGATTTGGATCCAATAAAGCTCTTATTTTC
Found at i:315082 original size:24 final size:23
Alignment explanation
Indices: 315024--315302 Score: 157
Period size: 22 Copynumber: 12.4 Consensus size: 23
315014 TTATGACCAA
*
315024 ATATATA-TATATATATATATAT
1 ATATATACTTTATATATATATAT
*
315046 ATATATA-TATATATATATATAT
1 ATATATACTTTATATATATATAT
315068 ATATATACTTT-TATACTATATAGT
1 ATATATACTTTATATA-TATATA-T
*
315092 -TAATATACTTTATAT-TATACACT
1 AT-ATATACTTTATATATATATA-T
315115 -T-TACTACTTTATATTATATATAT
1 ATATA-TACTTTATA-TATATATAT
* * *
315138 ATAGAAACTTTATA-GT-T-TAT
1 ATATATACTTTATATATATATAT
* * *
315158 ATATATAC-TTACACTTTATATGT
1 ATATATACTTTATA-TATATATAT
* *
315181 ACATATACTTT-TATGCTATATAGT
1 ATATATACTTTATAT-ATATATA-T
* *
315205 TTATATA-TTTATATACAT-TAT
1 ATATATACTTTATATATATATAT
*
315226 ATTATATACTTTAGTCT-T-TATA-
1 A-TATATACTTTA-TATATATATAT
315248 AT-TATACTTTATATATATA-AT
1 ATATATACTTTATATATATATAT
315269 ATACTTATACTTTATAT-TATAATAT
1 ATA--TATACTTTATATATAT-ATAT
*
315294 ATGTATACT
1 ATATATACT
315303 ATCTTGTATA
Statistics
Matches: 202, Mismatches: 25, Indels: 59
0.71 0.09 0.21
Matches are distributed among these distances:
19 6 0.03
20 20 0.10
21 10 0.05
22 55 0.27
23 53 0.26
24 50 0.25
25 8 0.04
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATATACTTTATATATATATAT
Found at i:315089 original size:2 final size:2
Alignment explanation
Indices: 315024--315074 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
315014 TTATGACCAA
315024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
315066 AT AT AT AT A
1 AT AT AT AT A
315075 CTTTTATACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:315236 original size:113 final size:107
Alignment explanation
Indices: 315061--315294 Score: 244
Period size: 113 Copynumber: 2.1 Consensus size: 107
315051 TATATATATA
* *
315061 TATATATATATATACTTTTATACTATATAGTTAATATACTTTATATTATACACTTTACTACTTTA
1 TATATATACATATACTTTTATACTATATAGTTAATATACTTTATATCATACACTTTACTACTTTA
*
315126 -TATTATATATATATAGAAACTTTATAGTTTATATATATACTTACACTT
66 GTATT-TATA-AT-T--AAACTTTATA-TATATA-ATATACTTACACTT
* * * *
315174 TATATGTACATATACTTTTATGCTATATAGTTTATATA-TTTATATACATTATA-TTATA-TACT
1 TATATATACATATACTTTTATACTATATAGTTAATATACTTTATAT-CA-TACACTT-TACTACT
* * *
315236 TTAGTCTTTATAATTATACTTTATATATATAATATACTTATACTT
63 TTAGTATTTATAATTAAACTTTATATATATAATATACTTACACTT
315281 TATATTATA-ATATA
1 TATA-TATACATATA
315295 TGTATACTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
107 22 0.21
108 8 0.08
109 9 0.09
111 1 0.01
112 9 0.09
113 48 0.46
114 8 0.08
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.51
Consensus pattern (107 bp):
TATATATACATATACTTTTATACTATATAGTTAATATACTTTATATCATACACTTTACTACTTTA
GTATTTATAATTAAACTTTATATATATAATATACTTACACTT
Found at i:315493 original size:20 final size:20
Alignment explanation
Indices: 315468--315511 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
315458 ATATAAACTC
**
315468 TATAGTTTATACATGGTATA
1 TATAGTTTATACATAATATA
315488 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
315508 TATA
1 TATA
315512 TAGTGATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:315647 original size:8 final size:8
Alignment explanation
Indices: 315625--315744 Score: 84
Period size: 8 Copynumber: 15.9 Consensus size: 8
315615 TATATGTACT
315625 TATACTTTA
1 TATAC-TTA
315634 TATACTTA
1 TATACTTA
*
315642 TTTACTT-
1 TATACTTA
315649 TATA-TTA
1 TATACTTA
315656 TATACTTA
1 TATACTTA
315664 TATACTT-
1 TATACTTA
315671 TAGT-CTT-
1 TA-TACTTA
*
315678 TATA-AT-
1 TATACTTA
315684 TATACTTTA
1 TATAC-TTA
315693 TATA-TATAA
1 TATACT-T-A
315702 TATAC-T-
1 TATACTTA
315708 TATACTTA
1 TATACTTA
315716 TATACTT-
1 TATACTTA
315723 TATA-TTA
1 TATACTTA
*
315730 TATCCTTA
1 TATACTTA
315738 TATACTT
1 TATACTT
315745 TTCCCTTATA
Statistics
Matches: 91, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
6 15 0.16
7 23 0.25
8 39 0.43
9 14 0.15
ACGTcount: A:0.34, C:0.11, G:0.01, T:0.54
Consensus pattern (8 bp):
TATACTTA
Found at i:315657 original size:22 final size:21
Alignment explanation
Indices: 315631--315834 Score: 86
Period size: 22 Copynumber: 10.2 Consensus size: 21
315621 TACTTATACT
315631 TTATATACTTATTTACTTTATA
1 TTATATACTTA-TTACTTTATA
*
315653 TTATATACTTATATACTTTAGTC
1 TTATATACTTAT-TACTTTA-TA
*
315676 TT-TATAATTA-TACTTTATA
1 TTATATACTTATTACTTTATA
*
315695 -TATATA-ATA-TAC-TTATA
1 TTATATACTTATTACTTTATA
*
315712 CTTATATACTT-TATA-TTATATCC
1 -TTATATACTTAT-TACTT-TAT-A
* *
315735 TTATATACTT-TTCCCTTATA
1 TTATATACTTATTACTTTATA
* *
315755 AT-TATAC-T-TTA-TATATA
1 TTATATACTTATTACTTTATA
315772 CTTATATACCTTATT-CTTTATA
1 -TTATATA-CTTATTACTTTATA
* *
315794 AT-TATAC-T-TTA-TATATA
1 TTATATACTTATTACTTTATA
* *
315811 TAATATACTTA-TACATTATA
1 TTATATACTTATTACTTTATA
315831 TTAT
1 TTAT
315835 TATATATGTG
Statistics
Matches: 137, Mismatches: 22, Indels: 48
0.66 0.11 0.23
Matches are distributed among these distances:
17 16 0.12
18 16 0.12
19 24 0.18
20 21 0.15
21 10 0.07
22 47 0.34
23 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATATACTTATTACTTTATA
Found at i:315712 original size:52 final size:51
Alignment explanation
Indices: 315656--315831 Score: 167
Period size: 52 Copynumber: 3.2 Consensus size: 51
315646 CTTTATATTA
315656 TATACTTATATACTTTAGTCTTTATAATTATACTTTATATATATAATATACT
1 TATACTTATATACTTTA-TCTTTATAATTATACTTTATATATATAATATACT
* ** *
315708 TATACTTATATACTTTATATTATATCCTTATATACTTT-TCCCT-TATAATTATACTTTAT
1 TATACTTATATACTTTATCTT-TAT-AAT-TATACTTTAT--ATATATAA-TATAC----T
*
315767 ATATACTTATATACCTTATTCTTTATAATTATACTTTATATATATAATATACT
1 -TATACTTATATACTTTA-TCTTTATAATTATACTTTATATATATAATATACT
315820 TATACATTATAT
1 TATAC-TTATAT
315832 TATTATATAT
Statistics
Matches: 100, Mismatches: 9, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
51 3 0.03
52 25 0.25
53 9 0.09
54 13 0.13
55 6 0.06
57 6 0.06
58 13 0.13
59 3 0.03
60 19 0.19
61 3 0.03
ACGTcount: A:0.35, C:0.12, G:0.01, T:0.52
Consensus pattern (51 bp):
TATACTTATATACTTTATCTTTATAATTATACTTTATATATATAATATACT
Found at i:315725 original size:74 final size:75
Alignment explanation
Indices: 315634--315793 Score: 229
Period size: 74 Copynumber: 2.2 Consensus size: 75
315624 TTATACTTTA
* *
315634 TATACTTATTTACTTTATATTATATACTTATATACTTTAGT-CTTTATAATTATACTTTATATAT
1 TATACTTATATACTTTATATTATATACTTATATACTTT--TCCCTTATAATTATACTTTATATAT
315698 A-TAATATA-CT
64 ACTAATATACCT
*
315708 TATACTTATATACTTTATATTATATCCTTATATACTTTTCCCTTATAATTATACTTTATATATAC
1 TATACTTATATACTTTATATTATATACTTATATACTTTTCCCTTATAATTATACTTTATATATAC
*
315773 TTATATACCT
66 TAATATACCT
*
315783 TATTCTT-TATA
1 TATACTTATATA
315794 ATTATACTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
72 1 0.01
73 23 0.29
74 46 0.59
75 8 0.10
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (75 bp):
TATACTTATATACTTTATATTATATACTTATATACTTTTCCCTTATAATTATACTTTATATATAC
TAATATACCT
Found at i:315802 original size:39 final size:39
Alignment explanation
Indices: 315716--315822 Score: 139
Period size: 39 Copynumber: 2.7 Consensus size: 39
315706 CTTATACTTA
315716 TATACTTTATATTATATCCTTATATACTT-TTCCCTTATAAT
1 TATACTTTATA-TATA--CTTATATACTTATTCCCTTATAAT
*
315757 TATACTTTATATATACTTATATACCTTATT-CTTTATAAT
1 TATACTTTATATATACTTATATA-CTTATTCCCTTATAAT
*
315796 TATACTTTATATATA-TAATATACTTAT
1 TATACTTTATATATACTTATATACTTAT
315823 ACATTATATT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
37 5 0.08
38 14 0.23
39 26 0.42
40 6 0.10
41 11 0.18
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (39 bp):
TATACTTTATATATACTTATATACTTATTCCCTTATAAT
Found at i:315830 original size:13 final size:12
Alignment explanation
Indices: 315640--315834 Score: 70
Period size: 13 Copynumber: 15.5 Consensus size: 12
315630 TTTATATACT
315640 TATT-TACTTTA
1 TATTATACTTTA
315651 TATTATATACTTATA
1 TA-T-TATACTT-TA
315666 TACTT-TAGTCTTTA
1 TA-TTATA--CTTTA
315680 TAATTATACTTTA
1 T-ATTATACTTTA
*
315693 TA-TATA-TAATA
1 TATTATACT-TTA
315704 TACTTATAC--T-
1 TA-TTATACTTTA
315714 TA-TATACTTTA
1 TATTATACTTTA
315725 TATTATATCCTTATA
1 TATTATA--CTT-TA
* * *
315740 TACTTTTCCCTTA
1 TA-TTATACTTTA
315753 TAATTATACTTTA
1 T-ATTATACTTTA
315766 TA-TATACTTATA
1 TATTATACTT-TA
*
315778 TACCTTATTCTTTA
1 TA--TTATACTTTA
315792 TAATTATACTTTA
1 T-ATTATACTTTA
*
315805 TA-TATA-TAATA
1 TATTATACT-TTA
*
315816 TACTTATACATTA
1 TA-TTATACTTTA
315829 TATTAT
1 TATTAT
315835 TATATATGTG
Statistics
Matches: 141, Mismatches: 13, Indels: 59
0.66 0.06 0.28
Matches are distributed among these distances:
8 5 0.04
10 5 0.04
11 28 0.20
12 16 0.11
13 42 0.30
14 20 0.14
15 22 0.16
16 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.01, T:0.53
Consensus pattern (12 bp):
TATTATACTTTA
Found at i:315838 original size:39 final size:39
Alignment explanation
Indices: 315750--315834 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
315740 TACTTTTCCC
* *
315750 TTATAATTATACTTTATATATACTTATATACCTTATTCT
1 TTATAATTATACTTTATATATACTAATATACCTTATACT
*
315789 TTATAATTATACTTTATATATA-TAATATA-CTTATACA
1 TTATAATTATACTTTATATATACTAATATACCTTATACT
315826 TTAT-ATTAT
1 TTATAATTAT
315835 TATATATGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 5 0.12
37 10 0.23
38 6 0.14
39 22 0.51
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (39 bp):
TTATAATTATACTTTATATATACTAATATACCTTATACT
Found at i:317351 original size:17 final size:17
Alignment explanation
Indices: 317331--317387 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
317321 TAATAAATTG
*
317331 ACTAGTTTGATGAATGA
1 ACTAGTTTAATGAATGA
*
317348 ACTAGTTTAATTAATGA
1 ACTAGTTTAATGAATGA
* * *
317365 ACTAACTTTATTCAATGA
1 ACT-AGTTTAATGAATGA
317383 ACTAG
1 ACTAG
317388 AACTTTATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 19 0.58
18 14 0.42
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (17 bp):
ACTAGTTTAATGAATGA
Found at i:317393 original size:20 final size:20
Alignment explanation
Indices: 317360--317408 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
317350 TAGTTTAATT
317360 AATGAACT--AACTTTATTC
1 AATGAACTAGAACTTTATTC
317378 AATGAACTAGAACTTTATTC
1 AATGAACTAGAACTTTATTC
*
317398 AATAAACTAGA
1 AATGAACTAGA
317409 TGCATGAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 8 0.29
20 20 0.71
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (20 bp):
AATGAACTAGAACTTTATTC
Found at i:323207 original size:24 final size:24
Alignment explanation
Indices: 323150--323255 Score: 88
Period size: 24 Copynumber: 4.4 Consensus size: 24
323140 AACGGAGATA
* * * *
323150 TCAGAAATCAAAATAGAATTTAGA
1 TCAGAAATCATAACAGAATTCAGG
* * *
323174 TTAGATATCATAACAGAATCCAGG
1 TCAGAAATCATAACAGAATTCAGG
*
323198 TCAGAAATCATAACATAATTCAGG
1 TCAGAAATCATAACAGAATTCAGG
* * * *
323222 TAATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCATAACAGAATTCAGG
323246 TCAGAAATCA
1 TCAGAAATCA
323256 CATAAAATAT
Statistics
Matches: 62, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 60 0.97
25 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (24 bp):
TCAGAAATCATAACAGAATTCAGG
Found at i:323625 original size:12 final size:12
Alignment explanation
Indices: 323608--323637 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
323598 TTGTCCACAG
323608 ATCATCGTCGAA
1 ATCATCGTCGAA
*
323620 ATCATCGTCGGA
1 ATCATCGTCGAA
323632 ATCATC
1 ATCATC
323638 ACTGAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (12 bp):
ATCATCGTCGAA
Found at i:325470 original size:16 final size:17
Alignment explanation
Indices: 325451--325483 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
325441 TCGAAAACAT
325451 AAAA-TATGACTTTTTG
1 AAAATTATGACTTTTTG
*
325467 AAAATTTTGACTTTTTG
1 AAAATTATGACTTTTTG
325484 GTCAAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
AAAATTATGACTTTTTG
Found at i:329837 original size:13 final size:13
Alignment explanation
Indices: 329819--329866 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
329809 TGCGTCATAA
*
329819 ATTTATGACGCGC
1 ATTTATGACACGC
**
329832 ATTTATGACATAC
1 ATTTATGACACGC
329845 ATTTATGACACGC
1 ATTTATGACACGC
329858 ATTTATGAC
1 ATTTATGAC
329867 GCTCATTGCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (13 bp):
ATTTATGACACGC
Found at i:329873 original size:13 final size:13
Alignment explanation
Indices: 329819--329873 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
329809 TGCGTCATAA
329819 ATTTATGACGCGC
1 ATTTATGACGCGC
***
329832 ATTTATGACATAC
1 ATTTATGACGCGC
*
329845 ATTTATGACACGC
1 ATTTATGACGCGC
*
329858 ATTTATGACGCTC
1 ATTTATGACGCGC
329871 ATT
1 ATT
329874 GCGCGTCATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:329873 original size:26 final size:26
Alignment explanation
Indices: 329814--329866 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
329804 AATTGTGCGT
* *
329814 CATAAATTTATGACGCGCATTTATGA
1 CATACATTTATGACACGCATTTATGA
329840 CATACATTTATGACACGCATTTATGA
1 CATACATTTATGACACGCATTTATGA
329866 C
1 C
329867 GCTCATTGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (26 bp):
CATACATTTATGACACGCATTTATGA
Found at i:331555 original size:20 final size:20
Alignment explanation
Indices: 331530--331572 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
331520 GTAGAGGGTA
331530 TATTTACTACATTCAATCTC
1 TATTTACTACATTCAATCTC
331550 TATTTACTACATTCAATCTC
1 TATTTACTACATTCAATCTC
331570 TAT
1 TAT
331573 GTGTGCAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTACTACATTCAATCTC
Found at i:336029 original size:17 final size:17
Alignment explanation
Indices: 335980--336030 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
335970 AGTTAAGATT
* *
335980 TAGTCTAATAAATGAAC
1 TAGTTTAATGAATGAAC
* *
335997 TAGTTTGATGATTGAAC
1 TAGTTTAATGAATGAAC
336014 TAGTTTAA-GTAATGAAC
1 TAGTTTAATG-AATGAAC
336031 AAACTTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
16 1 0.04
17 26 0.96
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:336057 original size:20 final size:20
Alignment explanation
Indices: 336024--336072 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
336014 TAGTTTAAGT
*
336024 AATGAAC-A-AACTTTATTT
1 AATGAACTAGAACTTTATTC
*
336042 AGTGAACTAGAACTTTATTC
1 AATGAACTAGAACTTTATTC
336062 AATGAACTAGA
1 AATGAACTAGA
336073 TGCATGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 6 0.23
19 1 0.04
20 19 0.73
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGAACTAGAACTTTATTC
Found at i:336441 original size:2 final size:2
Alignment explanation
Indices: 336415--336504 Score: 53
Period size: 2 Copynumber: 43.5 Consensus size: 2
336405 GGATCACATC
* *
336415 AT AT AGT AT AT A- AT A- AT AT AA AT AT AT ACT AT AT AGT TT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
* *
336456 AT ACT -T AT AT AT AT AT AT ACT -T AT ACT TT AT AGT TT AT AT AT
1 AT A-T AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT
336498 AT AT AT A
1 AT AT AT A
336505 CTTATACTTC
Statistics
Matches: 69, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
1 4 0.06
2 56 0.81
3 9 0.13
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:336456 original size:16 final size:15
Alignment explanation
Indices: 336437--336510 Score: 64
Period size: 16 Copynumber: 4.9 Consensus size: 15
336427 ATAATATAAA
336437 TATATACTATATAGTT
1 TATATACTATATA-TT
*
336453 TATATACTTATATATA
1 TATATAC-TATATATT
336469 TATATACT-TATACTT
1 TATATACTATATA-TT
* *
336484 TATAGT-TTATATATA
1 TATA-TACTATATATT
336499 TATATACT-TATA
1 TATATACTATATA
336511 CTTCATATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
14 9 0.19
15 13 0.27
16 20 0.42
17 6 0.12
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATACTATATATT
Found at i:336494 original size:30 final size:30
Alignment explanation
Indices: 336421--336518 Score: 117
Period size: 30 Copynumber: 3.2 Consensus size: 30
336411 CATCATATAG
* * *
336421 TATATAATAATATAAATATATACTATATAGTT
1 TATAT-ATTATATATATATATACT-TATACTT
336453 TATATACTTATATATATATATACTTATACTT
1 TATATA-TTATATATATATATACTTATACTT
336484 TATAGT-TTATATATATATATACTTATACTT
1 TATA-TATTATATATATATATACTTATACTT
*
336514 CATAT
1 TATAT
336519 TATATACTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 27 0.45
31 11 0.18
32 21 0.35
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (30 bp):
TATATATTATATATATATATACTTATACTT
Found at i:337069 original size:14 final size:14
Alignment explanation
Indices: 337050--337121 Score: 53
Period size: 14 Copynumber: 5.2 Consensus size: 14
337040 TATTATGACC
337050 ATATATATA--TAT
1 ATATATATACTTAT
*
337062 ATATATATACTTTT
1 ATATATATACTTAT
*
337076 ATACTATATAGTTTAT
1 ATA-TATATA-CTTAT
*
337092 ATACTTTATA-TTAT
1 ATA-TATATACTTAT
*
337106 ATATATACACTT-T
1 ATATATATACTTAT
337119 ATA
1 ATA
337122 GTTTATATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
12 9 0.18
13 8 0.16
14 14 0.29
15 6 0.12
16 12 0.24
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (14 bp):
ATATATATACTTAT
Found at i:337117 original size:20 final size:22
Alignment explanation
Indices: 337053--337293 Score: 89
Period size: 23 Copynumber: 10.9 Consensus size: 22
337043 TATGACCATA
337053 TATA-TATATATATATATACTTT
1 TATACTATATATATATATAC-TT
*
337075 TATACTATATAGTTTATATACTT
1 TATACTATATA-TATATATACTT
*
337098 TATA-T-TATATATATACACTT
1 TATACTATATATATATATACTT
*
337118 TATAGT-T-TATATA-A-AC-T
1 TATACTATATATATATATACTT
* * *
337135 TAAACTTTATATGTACATATACTTT
1 TATAC--TATATATATATATAC-TT
* *
337160 TATACTATATAGTTTAAATA-TT
1 TATACTATATA-TATATATACTT
* *
337182 TATA-TACATTAGATTATATACTT
1 TATACTATA-TATA-TATATACTT
* *
337205 ATATACTTTAGTCTTTATAATTATACTT
1 -TATAC--TA-TATATAT-A-TATACTT
337233 TATA-TATATATA-ATATAC-T
1 TATACTATATATATATATACTT
* *
337252 TATACTTTATATTATTATATA-TG
1 TATACTATATA-TA-TATATACTT
*
337275 TATA-TATATAATTTATATA
1 TATACTATAT-ATATATATA
337294 TAGTATATAT
Statistics
Matches: 165, Mismatches: 26, Indels: 57
0.67 0.10 0.23
Matches are distributed among these distances:
17 4 0.02
18 2 0.01
19 7 0.04
20 30 0.18
21 22 0.13
22 24 0.15
23 35 0.21
24 19 0.12
25 5 0.03
26 1 0.01
27 9 0.05
28 7 0.04
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (22 bp):
TATACTATATATATATATACTT
Found at i:337206 original size:22 final size:22
Alignment explanation
Indices: 337151--337215 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
337141 TTATATGTAC
* *
337151 ATATACTTTTATACTATATAGTTT
1 ATATACTTATATAC-AT-TAGATT
* *
337175 AAATATTTATATACATTAGATT
1 ATATACTTATATACATTAGATT
*
337197 ATATACTTATATACTTTAG
1 ATATACTTATATACATTAG
337216 TCTTTATAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 21 0.62
23 2 0.06
24 11 0.32
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (22 bp):
ATATACTTATATACATTAGATT
Found at i:337223 original size:22 final size:22
Alignment explanation
Indices: 337181--337229 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
337171 GTTTAAATAT
*
337181 TTATATACATTAGATTATATAC
1 TTATATACATTAGATTATATAA
* *
337203 TTATATACTTTAG-TCTTTATAA
1 TTATATACATTAGAT-TATATAA
337225 TTATA
1 TTATA
337230 CTTTATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
TTATATACATTAGATTATATAA
Found at i:337279 original size:93 final size:92
Alignment explanation
Indices: 337050--337295 Score: 224
Period size: 93 Copynumber: 2.7 Consensus size: 92
337040 TATTATGACC
* * *
337050 ATATATATATATATATATATACTTT-TATACTATATAGTTTATATACTTTATATTATATATATAC
1 ATATATATATATATAT-TATACTTTATATATTATATA-TTTATATACATTAGATTATATATATAC
337114 ACTTTATAGTTTATATAAACTTAAACTTT
64 ACTTTATAGTTTATATAAACTTAAACTTT
* * * * *
337143 ATATGTACATATACTTTTATACTATATAGT-TTAAATATTTATATACATTAGATTATATACTTAT
1 ATATATATATATA-TATTATACTTTATA-TATTATATATTTATATACATTAGATTATATA--TAT
* *
337207 ATAC-TT-TAGTCTT-TAT-AA-TTATACTTT
62 ACACTTTATAGT-TTATATAAACTTAAACTTT
* *
337234 ATATATATATAATATACTTATACTTTATATTATTATATATGTATATATA-TA-ATT-TATATATA
1 ATATATATAT-ATATA-TTATACTTTATA-TATTATATATTTATATACATTAGATTATATATATA
337296 GTATATATAA
Statistics
Matches: 126, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
88 4 0.03
90 4 0.03
91 20 0.16
92 19 0.15
93 59 0.47
94 13 0.10
95 7 0.06
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (92 bp):
ATATATATATATATATTATACTTTATATATTATATATTTATATACATTAGATTATATATATACAC
TTTATAGTTTATATAAACTTAAACTTT
Found at i:337303 original size:40 final size:39
Alignment explanation
Indices: 337235--337311 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
337225 TTATACTTTA
* *
337235 TATATATATAATATACTTATACTTTATATTATTATATATG
1 TATATATATAATATACTTATACTATATATAATT-TATATG
* *
337275 TATATATATAATTTA-TATATAGTATATATAATTTATA
1 TATATATATAATATACT-TATACTATATATAATTTATA
337312 ATTATACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (39 bp):
TATATATATAATATACTTATACTATATATAATTTATATG
Found at i:337363 original size:19 final size:21
Alignment explanation
Indices: 337322--337366 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
337312 ATTATACATA
*
337322 ATATATAAATATAAGTTGTAT
1 ATATATAAATATAAGTTGCAT
*
337343 ATATTTAAATATAA-TT-CAT
1 ATATATAAATATAAGTTGCAT
337362 ATATA
1 ATATA
337367 ATTTATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATATAAATATAAGTTGCAT
Found at i:337416 original size:2 final size:2
Alignment explanation
Indices: 337233--337397 Score: 63
Period size: 2 Copynumber: 87.0 Consensus size: 2
337223 AATTATACTT
*
337233 TA TA TA TA TA TA -A TA TA CT- TA TA CTT TA TA T- TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
337273 TG TA TA TA TA TA -A TT TA TA TA TA GTA TA TA TA -A TT TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
337313 T- TA TA CA TA -A TA TA TA AA TA TA -A GT- TG TA TA TA TT TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
337352 TA TA -A T- TCA TA TA TA -A TT TA TA TA TA AA CTA TA TA -A TT TA
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
337392 TA TA TA
1 TA TA TA
337398 GTTCAATTGT
Statistics
Matches: 119, Mismatches: 23, Indels: 42
0.65 0.12 0.23
Matches are distributed among these distances:
1 15 0.13
2 98 0.82
3 6 0.05
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:338423 original size:17 final size:16
Alignment explanation
Indices: 338397--338435 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
338387 TATAATAAAT
*
338397 TGAATAGTTTGATGAA
1 TGAATAGTTTAATGAA
*
338413 TGAACTAGTTTAATTAA
1 TGAA-TAGTTTAATGAA
338430 TGAATA
1 TGAATA
338436 AACTTTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (16 bp):
TGAATAGTTTAATGAA
Found at i:342559 original size:20 final size:20
Alignment explanation
Indices: 342534--342574 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
342524 TTAATAAACT
342534 AACTTTATTCAATGAACTAG
1 AACTTTATTCAATGAACTAG
*
342554 AACTTTATTCGATGAACTAG
1 AACTTTATTCAATGAACTAG
342574 A
1 A
342575 TACATGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (20 bp):
AACTTTATTCAATGAACTAG
Found at i:342655 original size:18 final size:17
Alignment explanation
Indices: 342632--342674 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
342622 ACTATTTCTC
342632 TAAATGAAATTG-ATGCTT
1 TAAATGAAA-TGCATGC-T
*
342650 TAAATGCAATGCATGCT
1 TAAATGAAATGCATGCT
342667 TAAATGAA
1 TAAATGAA
342675 CATCACACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (17 bp):
TAAATGAAATGCATGCT
Found at i:342942 original size:2 final size:2
Alignment explanation
Indices: 342916--343002 Score: 76
Period size: 2 Copynumber: 43.5 Consensus size: 2
342906 GGATCACATC
* *
342916 AT AT AGT AT AT A- AT A- AT AT AA AT AT AT ACT AT AT AGT TT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
342957 AT ACT -T AT AT AT AT AT AT ACT -T AT AT -T AT AT AT AT AT AT AT
1 AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
342998 AT AT A
1 AT AT A
343003 CTAAATGTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 20
0.75 0.04 0.21
Matches are distributed among these distances:
1 5 0.07
2 59 0.83
3 7 0.10
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:342986 original size:27 final size:25
Alignment explanation
Indices: 342931--343004 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 25
342921 GTATATAATA
* *
342931 ATATAAATATATACTATATAGTTTAT
1 ATATATATATATA-TATATACTTTAT
342957 ATACT-TATATATATATATACTTATATT
1 ATA-TATATATATATATATACTT-TA-T
342984 ATATATATATATATATATACT
1 ATATATATATATATATATACT
343005 AAATGTCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
25 8 0.19
26 13 0.31
27 21 0.50
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (25 bp):
ATATATATATATATATATACTTTAT
Found at i:343769 original size:13 final size:14
Alignment explanation
Indices: 343730--343779 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
343720 TCCACCTGAT
*
343730 CGAGTTGATCGAGC
1 CGAGTTGACCGAGC
343744 C--GTATGAACCGAGC
1 CGAGT-TG-ACCGAGC
343758 CGA-TTGACCGAGC
1 CGAGTTGACCGAGC
343771 CGAGTTGAC
1 CGAGTTGAC
343780 TAGTATTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
12 2 0.07
13 12 0.40
14 15 0.50
15 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.32, T:0.18
Consensus pattern (14 bp):
CGAGTTGACCGAGC
Found at i:346365 original size:70 final size:69
Alignment explanation
Indices: 346255--346436 Score: 190
Period size: 70 Copynumber: 2.6 Consensus size: 69
346245 AATAAATACT
* * * * *
346255 TATACTTATACTTTATATATAAATAAAGTTTATATATATATA-TATATATACTTATACTTTATAG
1 TATACTTATACTTTATATGTATATATA-CTTATATATATATAGTATATATACTTATACTTAATA-
*
346319 TTTATA
64 TGTATA
*
346325 TATACTTATACTTTATATGTATATATACTTATATACTATATAGTTTATATACTTATACTTAATAT
1 TATACTTATACTTTATATGTATATATACTTATATA-TATATAGTATATATACTTATACTTAATAT
346390 GTATA
65 GTATA
* * * *
346395 CATACTTTTA-TATTATATAGTTTTTATACTT-TATATTATATA
1 TATACTTATACT-TTATAT-GTATATATACTTATATA-TATATA
346437 CTTTATAGTT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
69 8 0.08
70 59 0.61
71 29 0.30
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (69 bp):
TATACTTATACTTTATATGTATATATACTTATATATATATAGTATATATACTTATACTTAATATG
TATA
Found at i:346374 original size:47 final size:46
Alignment explanation
Indices: 346291--346622 Score: 173
Period size: 47 Copynumber: 7.3 Consensus size: 46
346281 AGTTTATATA
* *
346291 TATATATATATATAC-TTATACTTTATAGTTTATATATACTTATACTT
1 TATATGTATATATACTTTATACTATATAG-TT-TATATACTTATACTT
346338 TATATGTATATATACTTATATACTATATAGTTTATATACTTATACTT
1 TATATGTATATATACTT-TATACTATATAGTTTATATACTTATACTT
* * * *
346385 AATATGTATACATACTTTTATATTATATAGTTTTTATACTT-TA-TAT
1 TATATGTATATATAC-TTTATACTATATAGTTTATATACTTATACT-T
* * * * * ** *
346431 TATA--TACTTTATAGTTTATA-TATATA-TATACACACACACACTT
1 TATATGTA-TATATACTTTATACTATATAGTTTATATACTTATACTT
*
346474 TATAT-TATATATA---TATACT-TATATTTTATATACTTATATACTT
1 TATATGTATATATACTTTATACTATATAGTTTATATAC-T-TATACTT
* *
346517 TAGTCTTTATAATTATACTTTATA-TATGTATA-TATGTAATATACTTATACTT
1 TA-TATGTAT-A-TATACTTTATACTA--TATAGT-T-T-ATATACTTATACTT
** * * *
346569 TATAT-TAT-TATA-AATGTA-TATATAG-TT-TATACTAAAACTT
1 TATATGTATATATACTTTATACTATATAGTTTATATACTTATACTT
*
346609 TATATATATATATA
1 TATATGTATATATA
346623 TAAAGTATAA
Statistics
Matches: 226, Mismatches: 31, Indels: 61
0.71 0.10 0.19
Matches are distributed among these distances:
40 24 0.11
41 10 0.04
42 10 0.04
43 25 0.11
44 17 0.08
45 8 0.04
46 12 0.05
47 71 0.31
48 5 0.02
49 12 0.05
50 7 0.03
51 3 0.01
52 14 0.06
53 2 0.01
54 6 0.03
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (46 bp):
TATATGTATATATACTTTATACTATATAGTTTATATACTTATACTT
Found at i:346450 original size:14 final size:13
Alignment explanation
Indices: 346295--346450 Score: 53
Period size: 13 Copynumber: 11.8 Consensus size: 13
346285 TATATATATA
*
346295 TATATATATAC-T
1 TATATTTATACTT
*
346307 TATACTTTATAGTT
1 TATA-TTTATACTT
346321 TATA--TATAC-T
1 TATATTTATACTT
*
346331 TATACTTTATA-TG
1 TATA-TTTATACTT
346344 TATA--TATACTT
1 TATATTTATACTT
* *
346355 ATATACTATATAGTT
1 -TATA-TTTATACTT
346370 TATATACTTATACTT
1 TATAT--TTATACTT
* * *
346385 AATATGTATAC-A
1 TATATTTATACTT
346397 TACT-TTTATA-TT
1 TA-TATTTATACTT
346409 ATATAGTTTTTATACTT
1 -TATA---TTTATACTT
346426 TATATTATATACTT
1 TATATT-TATACTT
346440 TATAGTTTATA
1 TATA-TTTATA
346451 TATATATATA
Statistics
Matches: 107, Mismatches: 14, Indels: 44
0.65 0.08 0.27
Matches are distributed among these distances:
10 9 0.08
11 5 0.05
12 15 0.14
13 24 0.22
14 24 0.22
15 18 0.17
16 10 0.09
17 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (13 bp):
TATATTTATACTT
Found at i:346565 original size:32 final size:33
Alignment explanation
Indices: 346537--346601 Score: 71
Period size: 32 Copynumber: 2.0 Consensus size: 33
346527 AATTATACTT
* *
346537 TATA-TATGTATATATGTA-ATATACTTATACTT
1 TATATTAT-TATAAATGTATATATAATTATACTT
*
346569 TATATTATTATAAATGTATATATAGTTTATACT
1 TATATTATTATAAATGTATATATA-ATTATACT
346602 AAAACTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 13 0.46
33 8 0.29
34 7 0.25
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.51
Consensus pattern (33 bp):
TATATTATTATAAATGTATATATAATTATACTT
Found at i:346573 original size:15 final size:14
Alignment explanation
Indices: 346478--346580 Score: 54
Period size: 15 Copynumber: 6.9 Consensus size: 14
346468 ACACTTTATA
346478 TTATATATATATAC-
1 TTATATAT-TATACT
*
346492 TTATATTTTATA-T
1 TTATATATTATACT
346505 ACTTATATACTT-TAGTCT
1 --TTATATA-TTATA--CT
346523 TTATA-ATTATACT
1 TTATATATTATACT
346536 TTATATATGTATA-T
1 TTATATAT-TATACT
346550 ATGTAATATACTTATACT
1 -T-T-ATATA-TTATACT
346568 TTATATTATTATA
1 TTATA-TATTATA
346581 AATGTATATA
Statistics
Matches: 71, Mismatches: 2, Indels: 31
0.68 0.02 0.30
Matches are distributed among these distances:
13 11 0.15
14 12 0.17
15 24 0.34
16 11 0.15
17 10 0.14
18 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (14 bp):
TTATATATTATACT
Found at i:346586 original size:40 final size:41
Alignment explanation
Indices: 346536--346631 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 41
346526 TAATTATACT
* * *
346536 TTATATATGTATATAT-GTAATATACTTATACTTTATAT-TA
1 TTATAAATGTATATATAGT-ATATACTAAAACTTTATATATA
*
346576 TTATAAATGTATATATAGTTTATACTAAAACTTTATATATA
1 TTATAAATGTATATATAGTATATACTAAAACTTTATATATA
*
346617 TATATATAAAGTATA
1 T-TATA-AATGTATA
346632 ATTATAAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 31 0.66
41 5 0.11
42 4 0.09
43 7 0.15
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (41 bp):
TTATAAATGTATATATAGTATATACTAAAACTTTATATATA
Found at i:346631 original size:15 final size:15
Alignment explanation
Indices: 346613--346727 Score: 53
Period size: 15 Copynumber: 7.7 Consensus size: 15
346603 AAACTTTATA
346613 TATATATATATAAAG
1 TATATATATATAAAG
346628 TATA-AT-TATAAAG
1 TATATATATATAAAG
*
346641 -ACTAAAGTATAT-AAG
1 TA-TATA-TATATAAAG
*
346656 TATATAAAGTAT-AAG
1 TATATATA-TATAAAG
346671 TATATATAAACTATAAAG
1 TATATAT--A-TATAAAG
* * * *
346689 TGTATATTTATATAC
1 TATATATATATAAAG
* *
346704 TTTATAT-TATATAG
1 TATATATATATAAAG
*
346718 TTTATATATA
1 TATATATATA
346728 GTTCAATAGT
Statistics
Matches: 80, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
12 1 0.01
13 9 0.11
14 17 0.21
15 36 0.45
16 4 0.05
17 4 0.05
18 9 0.11
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAG
Found at i:346715 original size:14 final size:14
Alignment explanation
Indices: 346691--346724 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
346681 CTATAAAGTG
346691 TATATTTATATACTT
1 TATA-TTATATACTT
*
346706 TATATTATATAGTT
1 TATATTATATACTT
346720 TATAT
1 TATAT
346725 ATAGTTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (14 bp):
TATATTATATACTT
Found at i:346775 original size:2 final size:2
Alignment explanation
Indices: 346768--347065 Score: 214
Period size: 2 Copynumber: 144.0 Consensus size: 2
346758 TTATACATGG
* *
346768 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
346810 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
346852 GTT TA TA TA GTA TA TA -A TA -A TA TA AA TT TA AA T- TA TA TA GTT
1 -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
346894 TT TA TA TA TA GTT TA TA TA CT- TA TA TA TA TA CT- TA TA CTT TA
1 TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA
* *
346936 TA GTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
346979 TA TA CTT TA TA TG TA TA TA TA CT- TT TA TA CTA TA AA GTT TA TA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA TA TA
* * *
347022 TA CTT TA TA TA GTT TA TA TA TA TA CTA TA TA GTT TA TA TA TA TA
1 TA -TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
347066 CACACACTTT
Statistics
Matches: 235, Mismatches: 37, Indels: 48
0.73 0.12 0.15
Matches are distributed among these distances:
1 7 0.03
2 209 0.89
3 19 0.08
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:346775 original size:20 final size:20
Alignment explanation
Indices: 346752--346858 Score: 98
Period size: 18 Copynumber: 5.5 Consensus size: 20
346742 ATATAAACTG
**
346752 TATAGTTTATACATGGTATA
1 TATAGTTTATACATAATATA
346772 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
* *
346792 TATA-TATATATAT-ATATA
1 TATAGTTTATACATAATATA
* *
346810 TATA-TATATATAT-ATATA
1 TATAGTTTATACATAATATA
* *
346828 TATA-TATATATATATATATA
1 TATAGTTTATACATA-ATATA
346848 TATAGTTTATA
1 TATAGTTTATA
346859 TAGTATATAA
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
18 36 0.46
19 7 0.09
20 31 0.39
21 5 0.06
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.49
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:347101 original size:27 final size:28
Alignment explanation
Indices: 347047--347107 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
347037 ATATATATAC
347047 TATATAGTTTATATATATACACACACTT
1 TATATAGTTTATATATATACACACACTT
** *
347075 T-TATAGTTTATATATATACTTATACTT
1 TATATAGTTTATATATATACACACACTT
347102 TATATA
1 TATATA
347108 TATACTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (28 bp):
TATATAGTTTATATATATACACACACTT
Found at i:347164 original size:17 final size:19
Alignment explanation
Indices: 347149--347222 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
347139 ACTTTGTATA
*
347149 TATATATACAAAGTATAAT
1 TATATATACAAAGTATAAG
* *
347168 TATAAAGACTAAAGTAT-A-
1 TATATATAC-AAAGTATAAG
*
347186 TA-AGTATATAAAGTATAAG
1 TATA-TATACAAAGTATAAG
* *
347205 TATATATATAAACTATAA
1 TATATATACAAAGTATAA
347223 AGTGTGTGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 8 0.18
18 5 0.11
19 23 0.52
20 8 0.18
ACGTcount: A:0.54, C:0.04, G:0.08, T:0.34
Consensus pattern (19 bp):
TATATATACAAAGTATAAG
Found at i:347314 original size:2 final size:2
Alignment explanation
Indices: 347307--347414 Score: 87
Period size: 2 Copynumber: 52.5 Consensus size: 2
347297 TTTATACATA
* * *
347307 AT AT AT AT AGT AT A- AT AT AT AA AT AT AA AT -T AT AT AGT TT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * *
347349 AT AT AT AGT TT AT AT ACT -T AT ACT TT AT AGT TT AT AT AT AT AT
1 AT AT AT A-T AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT AT AT
347392 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
347415 CTTTTACTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
1 3 0.04
2 75 0.88
3 7 0.08
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:347392 original size:22 final size:21
Alignment explanation
Indices: 347352--347931 Score: 141
Period size: 22 Copynumber: 26.9 Consensus size: 21
347342 AGTTTATATA
347352 TATAGTTTATATACT-TATACTT
1 TATA-TTTATATA-TATATACTT
347374 TATAGTTTATATATATATA-TAT
1 TATA-TTTATATATATATACT-T
*
347396 ATATATATATATATATATACTT
1 -TATATTTATATATATATACTT
* *
347418 T-TACTTATACT-T-TATA-TG
1 TATATTTATA-TATATATACTT
* *
347436 TATA--TATACT-TTTATACTA
1 TATATTTATA-TATATATACTT
*
347455 TATAGTTTATATATTTATATACAT
1 TATA-TTTATATA--TATATACTT
*
347479 TATA-TTATATACTTATAGACTT
1 TATATTTATATA--TATATACTT
*
347501 TAGTCTTTATA-AT-TATACTT
1 TA-TATTTATATATATATACTT
*
347521 TATATATATAATATACTTATACTT
1 TATATTTAT-ATATA--TATACTT
* * *
347545 TATA-TTATTATATATGTGC-A
1 TATATTTA-TATATATATACTT
347565 TATAGTTTATACTA-A-A-ACTT
1 TATA-TTTATA-TATATATACTT
* **
347585 TATATATATATATATATACACA
1 TATATTTATATATATATAC-TT
* *
347607 CACACTTTATAGTTTATATATA-TAT
1 TATA-TTTATA---TATATATACT-T
347632 ATATACTTTATAT-TATATA-TT
1 -TATA-TTTATATATATATACTT
* *
347653 TATGTTCT-TATATTTAATACTT
1 TATATT-TATATATAT-ATACTT
*
347675 ATATATTT-TATATTATATGCTT
1 -TATATTTATATA-TATATACTT
* *
347697 ATATACTTTGTAT-TATATGCTT
1 -TATA-TTTATATATATATACTT
*
347719 ATATACTTTAGTCTTTATAATTATACTT
1 -TATA-TTTA---TATAT-A-TATACTT
*
347747 TATATATATATA-ATATAC-T
1 TATATTTATATATATATACTT
*
347766 TATACTTTATAT-TAT-TA-TA
1 TATA-TTTATATATATATACTT
347785 TATACTTTATATACTAATATACTT
1 TATA-TTTATATA-T-ATATACTT
* *
347809 TATTCTTTATA-AT-TGTACTT
1 TA-TATTTATATATATATACTT
* *
347829 TATATATA-ATATGCTTATACTT
1 TATATTTATATAT--ATATACTT
*
347851 TATATTATTATATGTATATATGCTT
1 TATA-T-TTATA--TATATATACTT
*
347876 TATA--TATATATATATA-TA
1 TATATTTATATATATATACTT
* *
347894 TATATATATATATATATAATT
1 TATATTTATATATATATACTT
**
347915 TATACATAT-TATATATA
1 TATATTTATATATATATA
347932 ATATATAATT
Statistics
Matches: 430, Mismatches: 57, Indels: 144
0.68 0.09 0.23
Matches are distributed among these distances:
17 7 0.02
18 14 0.03
19 60 0.14
20 72 0.17
21 35 0.08
22 115 0.27
23 37 0.09
24 41 0.10
25 14 0.03
26 21 0.05
27 8 0.02
28 6 0.01
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.52
Consensus pattern (21 bp):
TATATTTATATATATATACTT
Found at i:347445 original size:17 final size:16
Alignment explanation
Indices: 347348--347489 Score: 85
Period size: 15 Copynumber: 9.4 Consensus size: 16
347338 ATATAGTTTA
*
347348 TATATATAGTTTATA-
1 TATATATACTTTATAT
347363 TACT-TATACTTTATAGT
1 TA-TATATACTTTATA-T
*
347380 T-TATATA-TATATA-
1 TATATATACTTTATAT
*
347393 TATATATA-TATATA-
1 TATATATACTTTATAT
347407 TATATATACTTT-TA-
1 TATATATACTTTATAT
*
347421 -CT-TATACTTTATAT
1 TATATATACTTTATAT
347435 GTATATATACTTT-TA-
1 -TATATATACTTTATAT
*
347450 TACTATATAGTTTATAT
1 TA-TATATACTTTATAT
* *
347467 ATTTATATACATTATAT
1 -TATATATACTTTATAT
347484 TATATA
1 TATATA
347490 CTTATAGACT
Statistics
Matches: 102, Mismatches: 10, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.08
13 4 0.04
14 24 0.24
15 29 0.28
16 15 0.15
17 21 0.21
18 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATATACTTTATAT
Found at i:347459 original size:81 final size:81
Alignment explanation
Indices: 347292--347489 Score: 212
Period size: 81 Copynumber: 2.5 Consensus size: 81
347282 ATATAAACTC
* * *
347292 TATAGTTTATACATA-ATATATATAGTATAATATATAAATATAAATTATATAGTTTATATATATA
1 TATAGTTTATATATATATATATATA-TAT-ATATATATATATAAATTATATACTTTATATATATA
* *
347356 GTTTATATACTTATACTT
64 GTATATATACTTATACTA
* *
347374 TATAGTTTATATATATATATATATATATATATATATATAT-ACTT-T-TAC-TTATACTTTATAT
1 TATAGTTTATATATATATATATATATATATATATATATATAAATTATATACTTTATA-TATATA-
347435 GTATATATACTTTTATACTA
64 GTATATATAC--TTATACTA
* *
347455 TATAGTTTATATATTTATATACAT-TATAT-TATATA
1 TATAGTTTATATATATATATATATATATATATATATA
347490 CTTATAGACT
Statistics
Matches: 102, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
77 5 0.05
78 7 0.07
79 16 0.16
80 8 0.08
81 40 0.39
82 17 0.17
83 9 0.09
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.51
Consensus pattern (81 bp):
TATAGTTTATATATATATATATATATATATATATATATATAAATTATATACTTTATATATATAGT
ATATATACTTATACTA
Found at i:347471 original size:8 final size:8
Alignment explanation
Indices: 347350--347475 Score: 59
Period size: 8 Copynumber: 15.8 Consensus size: 8
347340 ATAGTTTATA
347350 TATATAGTT
1 TATATA-TT
*
347359 TATATACT
1 TATATATT
*
347367 TATA-CTT
1 TATATATT
*
347374 TATA-GTT
1 TATATATT
347381 TATATA--
1 TATATATT
*
347387 TATATATA
1 TATATATT
*
347395 TATATATA
1 TATATATT
*
347403 TATATATA
1 TATATATT
347411 TATACT-TT
1 TATA-TATT
347419 TACTTATACTT
1 TA--TATA-TT
* *
347430 TATATGTA
1 TATATATT
347438 TATATACTT
1 TATATA-TT
*
347447 T-TATA-C
1 TATATATT
347453 TATATAGTT
1 TATATA-TT
347462 TATATATT
1 TATATATT
347470 TATATA
1 TATATA
347476 CATTATATTA
Statistics
Matches: 93, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
6 7 0.08
7 15 0.16
8 46 0.49
9 19 0.20
10 2 0.02
11 4 0.04
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (8 bp):
TATATATT
Found at i:347494 original size:8 final size:8
Alignment explanation
Indices: 347438--347500 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
347428 TTTATATGTA
347438 TATATACT
1 TATATACT
*
347446 TTTATAC-
1 TATATACT
*
347453 TATATAGTT
1 TATATA-CT
*
347462 TATATATT
1 TATATACT
*
347470 TATATACA
1 TATATACT
347478 T-TATA-T
1 TATATACT
347484 TATATACT
1 TATATACT
*
347492 TATAGACT
1 TATATACT
347500 T
1 T
347501 TAGTCTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
6 1 0.02
7 13 0.30
8 24 0.55
9 6 0.14
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (8 bp):
TATATACT
Found at i:347540 original size:24 final size:23
Alignment explanation
Indices: 347508--347558 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
347498 CTTTAGTCTT
347508 TATAATTATACTTTATATATATAA
1 TATAATTATACTTTATAT-TATAA
* *
347532 TATACTTATACTTTATATTATTA
1 TATAATTATACTTTATATTATAA
347555 TATA
1 TATA
347559 TGTGCATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (23 bp):
TATAATTATACTTTATATTATAA
Found at i:347643 original size:13 final size:13
Alignment explanation
Indices: 347612--347692 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 13
347602 ACACACACAC
347612 TTTATAGTT-TATA
1 TTTATA-TTATATA
*
347625 TATATA-TATATA
1 TTTATATTATATA
347637 CTTTATATTATATA
1 -TTTATATTATATA
* *
347651 TTTATGTTCTTATA
1 TTTATATT-ATATA
347665 TTTAATACTTATATA
1 TTT-ATA-TTATATA
347680 TTTTATATTATAT
1 -TTTATATTATAT
347693 GCTTATATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
11 1 0.02
12 4 0.07
13 17 0.31
14 19 0.35
15 9 0.16
16 5 0.09
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTATATTATATA
Found at i:347816 original size:82 final size:78
Alignment explanation
Indices: 347709--347863 Score: 229
Period size: 78 Copynumber: 1.9 Consensus size: 78
347699 ATACTTTGTA
* *
347709 TTATATGCTTATATACTTTAGTCTTTATAATTATACTTTATATATATATAATATACTTATACTTT
1 TTATATACTAATATACTTTAGTCTTTATAATTATAC--T-T-TATATATAATATACTTATACTTT
347774 ATATTATTATATATACT
62 ATATTATTATATATACT
* * *
347791 TTATATACTAATATACTTTATTCTTTATAATTGTACTTTATATATAATATGCTTATACTTTATAT
1 TTATATACTAATATACTTTAGTCTTTATAATTATACTTTATATATAATATACTTATACTTTATAT
347856 TATTATAT
66 TATTATAT
347864 GTATATATGC
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
78 34 0.50
79 1 0.01
80 1 0.01
82 32 0.47
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (78 bp):
TTATATACTAATATACTTTAGTCTTTATAATTATACTTTATATATAATATACTTATACTTTATAT
TATTATATATACT
Found at i:347881 original size:2 final size:2
Alignment explanation
Indices: 347876--347961 Score: 94
Period size: 2 Copynumber: 46.0 Consensus size: 2
347866 ATATATGCTT
*
347876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
347917 TA CA TA T- TA TA TA TA -A TA TA TA -A T- TA TA CA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
347954 TA AA TA TA
1 TA TA TA TA
347962 AGCTGTACAT
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
1 6 0.09
2 64 0.91
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Done.