Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001847.1 Hibiscus syriacus cultivar Beakdansim tig00003742_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: 155853
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:168 original size:13 final size:15
Alignment explanation
Indices: 132--162 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
122 GAAATTCTAA
*
132 TATTTAAATAAAAAT
1 TATTTATATAAAAAT
147 TATTTATATAAAAAT
1 TATTTATATAAAAAT
162 T
1 T
163 TTATATGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTATATAAAAAT
Found at i:1226 original size:17 final size:17
Alignment explanation
Indices: 1204--1236 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1194 AAATGATCAG
*
1204 TGAATCATTTGTCATTA
1 TGAATCAATTGTCATTA
1221 TGAATCAATTGTCATT
1 TGAATCAATTGTCATT
1237 CTTTTAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TGAATCAATTGTCATTA
Found at i:2539 original size:19 final size:19
Alignment explanation
Indices: 2515--2556 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
2505 AATTCACAAG
2515 ATAATTTCAACTTTAGAGT
1 ATAATTTCAACTTTAGAGT
*
2534 ATAATTTTAACTTTAGAGT
1 ATAATTTCAACTTTAGAGT
2553 ATAA
1 ATAA
2557 GATCAAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (19 bp):
ATAATTTCAACTTTAGAGT
Found at i:3601 original size:2 final size:2
Alignment explanation
Indices: 3590--3622 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3580 TTACTGTTTT
3590 TA TA -A 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
3623 AGGACATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18229 original size:38 final size:38
Alignment explanation
Indices: 18187--18272 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
18177 AGGAATCCAA
18187 CATTTCATTCAAGGAAAAAACACATACGAGTTCAGTAC
1 CATTTCATTCAAGGAAAAAACACATACGAGTTCAGTAC
*
18225 CATTTCATTCAAGGACAAAACACATACGAGTTCAGTAC
1 CATTTCATTCAAGGAAAAAACACATACGAGTTCAGTAC
18263 CATTTCATTC
1 CATTTCATTC
18273 GTGAAAAGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (38 bp):
CATTTCATTCAAGGAAAAAACACATACGAGTTCAGTAC
Found at i:22449 original size:20 final size:20
Alignment explanation
Indices: 22419--22472 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
22409 GTCAAACCAG
* *
22419 TTCGGGTTGACTCGGTTC-A
1 TTCGAGTTGACTCGGCTCGA
*
22438 TTACGAGTTGACTCAGCTCGA
1 TT-CGAGTTGACTCGGCTCGA
22459 TTCGAGTTGACTCG
1 TTCGAGTTGACTCG
22473 AACCAGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
TTCGAGTTGACTCGGCTCGA
Found at i:24838 original size:89 final size:88
Alignment explanation
Indices: 24738--24914 Score: 318
Period size: 89 Copynumber: 2.0 Consensus size: 88
24728 TATCATCCGT
*
24738 TGGTGGTGCTAGAAGTGTAGACGATATTTCGTTGAACCTCGTAAATTTGACGTGTTCTCTCTATC
1 TGGTGGTGCTAGAAGTGTAGACGATATTTCGTTGAACCTCGTAAA-TTGACGTGTTATCTCTATC
24803 ATTTATATTATATGTTCATTATTA
65 ATTTATATTATATGTTCATTATTA
* *
24827 TGGTGGTGCTAGAGGTGTAGACGATATTTCGTTGAACCTCGTAAATTGACGTGTTATCTCTATTA
1 TGGTGGTGCTAGAAGTGTAGACGATATTTCGTTGAACCTCGTAAATTGACGTGTTATCTCTATCA
24892 TTTATATTATATGTTCATTATTA
66 TTTATATTATATGTTCATTATTA
24915 GACTTTTTCT
Statistics
Matches: 85, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 41 0.48
89 44 0.52
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (88 bp):
TGGTGGTGCTAGAAGTGTAGACGATATTTCGTTGAACCTCGTAAATTGACGTGTTATCTCTATCA
TTTATATTATATGTTCATTATTA
Found at i:31401 original size:11 final size:12
Alignment explanation
Indices: 31374--31398 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31364 CATCAGGATA
31374 TTAAAAACATTT
1 TTAAAAACATTT
31386 TTAAAAACATTT
1 TTAAAAACATTT
31398 T
1 T
31399 AAACCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAACATTT
Found at i:31594 original size:17 final size:17
Alignment explanation
Indices: 31574--31606 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31564 TTTTTTATTA
31574 AAAAATATAATTATTTT
1 AAAAATATAATTATTTT
*
31591 AAAAATATATTTATTT
1 AAAAATATAATTATTT
31607 ATTTAGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AAAAATATAATTATTTT
Found at i:31607 original size:16 final size:16
Alignment explanation
Indices: 31567--31607 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
31557 AAGTATGTTT
*
31567 TTTATTAAAAAATATA
1 TTTATTTAAAAATATA
*
31583 ATTATTTTAAAAATATA
1 TTTA-TTTAAAAATATA
31600 TTTATTTA
1 TTTATTTA
31608 TTTAGAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTATTTAAAAATATA
Found at i:49295 original size:16 final size:16
Alignment explanation
Indices: 49270--49301 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49260 TATTTAGATC
*
49270 TAAATTAAAAGAAAAT
1 TAAATAAAAAGAAAAT
49286 TAAATAAAAAGAAAAT
1 TAAATAAAAAGAAAAT
49302 CTCTCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (16 bp):
TAAATAAAAAGAAAAT
Found at i:49327 original size:13 final size:15
Alignment explanation
Indices: 49301--49334 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
49291 AAAAAGAAAA
49301 TCTCTCTCTCAGTTT
1 TCTCTCTCTCAGTTT
49316 TCTCT-TCT-AGTTT
1 TCTCTCTCTCAGTTT
49329 TCTCTC
1 TCTCTC
49335 ATTGTAAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.56
Consensus pattern (15 bp):
TCTCTCTCTCAGTTT
Found at i:52111 original size:137 final size:135
Alignment explanation
Indices: 51890--52235 Score: 471
Period size: 136 Copynumber: 2.5 Consensus size: 135
51880 ATTTAGATAA
* * ** * * *
51890 ATTTTTAATTTGATCATCGCTTTTGCTCGACATTCCATTTTAATTATTTGAATCAATAAGTG-GT
1 ATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATT
* * * *
51954 TAAAATTGAATAGATTAATATTTAGAGCCTTTATTTTAGGTTTACTTTCGAACTTAGTCTTTAA-
66 TAAAATTGAATAGATTAATATTTAGAGCCTTCATTTTAGGTTTAATTT-GAAATTAATCTTTAAT
52018 TTAGGGGG
130 TTA--GGG
* *
52026 ATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCGTTTTAATTATTCGAATAAATAATTGATT
1 ATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATT
52091 TAAAATTGAATAGATTAATATTTAGAGCCTTCATTTTAGGTTTAATTTGAAATTAATCTTTAATT
66 TAAAATTGAATAGATTAATATTTAGAGCCTTCATTTTAGGTTTAATTTGAAATTAATCTTTAATT
52156 TAGGG
131 TAGGG
* * * * * *
52161 ATTTTTTAATTTGGTCCTCACTTTTTCTTGAGGTTCCAATTTAATTATTCAAATCAACAATTGAT
1 A-TTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGAT
52226 TTAAAATTGA
65 TTAAAATTGA
52236 TTCATATTAT
Statistics
Matches: 186, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
135 4 0.02
136 132 0.71
137 50 0.27
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (135 bp):
ATTTTTAATTTGGTCCTCGCTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATAATTGATT
TAAAATTGAATAGATTAATATTTAGAGCCTTCATTTTAGGTTTAATTTGAAATTAATCTTTAATT
TAGGG
Found at i:56089 original size:2 final size:2
Alignment explanation
Indices: 56082--56110 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56072 TCACTCCATA
56082 AT AT 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 AT AT A
56111 ATCATTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:67415 original size:14 final size:13
Alignment explanation
Indices: 67393--67422 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
67383 TAAATCAGAT
67393 ATAATAATATTAC
1 ATAATAATATTAC
67406 ATAATCAATATTAC
1 ATAAT-AATATTAC
67420 ATA
1 ATA
67423 TTCTGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATAATATTAC
Found at i:71003 original size:21 final size:20
Alignment explanation
Indices: 70978--71046 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
70968 CGATTTACAT
70978 ATTCGCATTGCGATAGTCCAA
1 ATTCGC-TTGCGATAGTCCAA
* *
70999 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGC-TTGCGA--TAGTCCAA
71022 ATTCG-TTGCGATAGTCCAA
1 ATTCGCTTGCGATAGTCCAA
*
71041 AATCGC
1 ATTCGC
71047 AACGACTGGT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 11 0.28
21 17 0.44
23 11 0.28
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
ATTCGCTTGCGATAGTCCAA
Found at i:72010 original size:63 final size:61
Alignment explanation
Indices: 71866--72116 Score: 358
Period size: 63 Copynumber: 4.0 Consensus size: 61
71856 GATTTTAGAT
* *
71866 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAATAAATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAA--CGAACTTGGAC
71931 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAC
* *
71994 TCTCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAC
* * * *
72055 TATCGCAACACAAACTTGAAATAAATCGCAACGCGAAATTCGACTATCGCAACGAACTTGGA
1 TATCGC-A-ACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGA
72117 ATAAATCACA
Statistics
Matches: 174, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
61 15 0.09
62 1 0.01
63 117 0.67
65 41 0.24
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (61 bp):
TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAC
Found at i:72053 original size:105 final size:103
Alignment explanation
Indices: 71888--72295 Score: 548
Period size: 105 Copynumber: 3.9 Consensus size: 103
71878 TTTGGAATAA
* *
71888 ATCGCAACGCGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT--
71953 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
62 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
* * * *
71995 CTCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACTATCG
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATATCG
* * * * *
72060 CAACACAAACTT-GAAATAAATCGCAACGCGAAATTCGACT
66 CAACGCGAACTTCG-ACT--ATCGCAACGCGAACTTGGACT
* *
72100 ATCGCAACGAACTTGGAATAAATCACAACGCGAACTTCGACTATCGCAACAAACTTGGAATAAAT
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT--AT
*
72165 CGCAACGCGAACTTCGACTATAGCAACGCGAACTTGGACT
64 CGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
* * * * *
72205 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGATTATCGCAACGAATTTGGACTATCG
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATATCG
*
72270 CAACGCGAACTTGGACTATCGCAACG
66 CAACGCGAACTTCGACTATCGCAACG
72296 AATTTGGAAT
Statistics
Matches: 263, Mismatches: 32, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
102 1 0.00
103 44 0.17
105 196 0.75
107 21 0.08
108 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (103 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATATCG
CAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT
Found at i:72146 original size:63 final size:62
Alignment explanation
Indices: 71888--72337 Score: 291
Period size: 63 Copynumber: 7.1 Consensus size: 62
71878 TTTGGAATAA
* * * * * *
71888 ATCGCAACGCGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT--ATCGCAAC-CGAACTTGGAATATCACAACGCGAACTTGGACT
* * * *
71951 AAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTCTCACAA--CGAATTTGGAAT
1 --ATCGCAACGCGAACTTCGACTATCGCAAC-CGAACTTGGAATATCACAACGCGAACTTGGACT
* * * * * *
72014 AAATCGCAACGCGAACTTCGACTATCGCAA-CGAACTTGGACTATCGCAACACAAACTTGAAAT
1 --ATCGCAACGCGAACTTCGACTATCGCAACCGAACTTGGAATATCACAACGCGAACTTGGACT
* *
72077 AAATCGCAACGCGAAATTCGACTATCGCAA-CGAACTTGGAATAAATCACAACGCGAACTTCGAC
1 --ATCGCAACGCGAACTTCGACTATCGCAACCGAACTTGGAAT--ATCACAACGCGAACTTGGAC
72141 T
62 T
* * * * *
72142 ATCGCAA--CAAACTTGGAATAAATCGCAACGCGAACTTCGACTAT-AGCAACGCGAACTTGGAC
1 ATCGCAACGCGAACTTCGACT--ATCGCAAC-CGAACTTGGAATATCA-CAACGCGAACTTGGAC
72204 T
62 T
* * * * * * *
72205 ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTTGATTATCGCAA--CGAATTTGGACT
1 ATCGCAACGCGAACTTCGACT--ATCGCAAC-CGAACTTGGAATATCACAACGCGAACTTGGACT
* * *
72266 ATCGCAACGCGAACTTGGACTATCGCAA-CGAATTTGGAATAAATCGA-AAAGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACTATCGCAACCGAACTTGGAAT--ATC-ACAACGCGAACTTGGACT
*
72329 ATCACAACG
1 ATCGCAACG
72338 AATTTGGAAA
Statistics
Matches: 330, Mismatches: 38, Indels: 36
0.82 0.09 0.09
Matches are distributed among these distances:
59 9 0.03
61 55 0.17
62 1 0.00
63 221 0.67
65 44 0.13
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.20
Consensus pattern (62 bp):
ATCGCAACGCGAACTTCGACTATCGCAACCGAACTTGGAATATCACAACGCGAACTTGGACT
Found at i:72209 original size:42 final size:43
Alignment explanation
Indices: 71888--72295 Score: 368
Period size: 42 Copynumber: 9.7 Consensus size: 43
71878 TTTGGAATAA
71888 ATCGCAACGCGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGCGAACTTGGACT
* *
71932 ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGCGAACTTGGACT
* * * * *
71974 ATCGCAACGCGAACTTGGACT-CTCACAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGAATAATCGCAACGCGAACTTGGACT
* *
72014 AAATCGCAACGCGAACTTCGACT-ATCGCAA--CGAACTTGGACT
1 --ATCGCAACGCGAACTTGGAATAATCGCAACGCGAACTTGGACT
* * * * *
72056 ATCGCAACACAAACTTGAAATAAATCGCAACGCGAAATTCGACT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGCGAACTTGGACT
* *
72100 ATCGCAA--CGAACTTGGAATAAATCACAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGCGAACTTGGACT
* *
72142 ATCGCAA--CAAACTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGAAT-AATCGCAACGCGAACTTGGACT
* * * *
72184 ATAGCAACGCGAACTTGGACT-ATCGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTGGAATAATCGCAACGCGAACTTGGACT
* * *
72224 AAATCGCAACGCGAACTTTG-ATTATCGCAA--CGAATTTGGACT
1 --ATCGCAACGCGAACTTGGAATAATCGCAACGCGAACTTGGACT
*
72266 ATCGCAACGCGAACTTGGACT-ATCGCAACG
1 ATCGCAACGCGAACTTGGAATAATCGCAACG
72296 AATTTGGAAT
Statistics
Matches: 309, Mismatches: 39, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
40 58 0.19
41 2 0.01
42 205 0.66
44 44 0.14
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (43 bp):
ATCGCAACGCGAACTTGGAATAATCGCAACGCGAACTTGGACT
Found at i:72337 original size:42 final size:42
Alignment explanation
Indices: 71866--72346 Score: 309
Period size: 42 Copynumber: 11.5 Consensus size: 42
71856 GATTTTAGAT
*
71866 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAA
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * * *
71908 TAAATCGCAACGCGAACTTGGACT--ATCGCAA--CGAATTTGGAA
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * *
71950 TAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTGGAC
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * *
71994 TCTCACAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * * * * *
72036 TATCGCAACGAACTTGGACT--ATCGCAACACAAACTTGAAA
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * * *
72076 TAAATCGCAACGCGAAATTCGACT--ATCGCAA--CGAACTTGGAA
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * * * * *
72118 TAAATCACAACGCGAACTTCGACT--ATCGCAA--CAAACTTGGAA
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* * * *
72160 TAAATCGCAACGCGAACTTCGACT--ATAGCAACGCGAACTTGGAC
1 T--ATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* *
72204 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGAT
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
*
72246 TATCGCAACGAATTTGGACT--ATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
* *
72286 TATCGCAACGAATTTGGAATAAATCGAAAAGCGAACTTGGAC
1 TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
*
72328 TATCACAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
72347 AATCGTATTG
Statistics
Matches: 376, Mismatches: 45, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
40 71 0.19
42 244 0.65
44 51 0.14
46 10 0.03
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
TATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTGGAC
Found at i:72380 original size:21 final size:21
Alignment explanation
Indices: 72354--72401 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
72344 GAAAATCGTA
72354 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
*
72375 TTGCGATAGTCGATGTTCGCG
1 TTGCGATAGTCGAAGTTCGCG
72396 TTGCGA
1 TTGCGA
72402 ATCTGGAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGCGATAGTCGAAGTTCGCG
Found at i:76724 original size:18 final size:16
Alignment explanation
Indices: 76687--76728 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
76677 TCTTTAAAAG
76687 TTTTAAATTTTTATTA
1 TTTTAAATTTTTATTA
76703 TTTTAAATAATTTTA-TA
1 TTTTAAAT--TTTTATTA
*
76720 TTTTTAATT
1 TTTTAAATT
76729 AAAAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 1 0.04
16 8 0.35
17 9 0.39
18 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAAATTTTTATTA
Found at i:77061 original size:43 final size:43
Alignment explanation
Indices: 77000--77089 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
76990 CATGATTCTA
* * **
77000 ACATTGTGATGATTGAAATACATACGGACTGTAGTGTTCATGT
1 ACATTCTGATGATTGAAATACATAAGGAAGGTAGTGTTCATGT
* *
77043 ACATTCTGATGATTGAAATACATAATGAAGGTAGTGTTCATTT
1 ACATTCTGATGATTGAAATACATAAGGAAGGTAGTGTTCATGT
77086 ACAT
1 ACAT
77090 GTATACTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (43 bp):
ACATTCTGATGATTGAAATACATAAGGAAGGTAGTGTTCATGT
Found at i:84082 original size:52 final size:53
Alignment explanation
Indices: 84017--84123 Score: 171
Period size: 52 Copynumber: 2.0 Consensus size: 53
84007 CACAAGATGG
* *
84017 GGCACATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAA
1 GGCACATA-AAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
*
84071 GGCACAT-AAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
1 GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
84123 G
1 G
84124 AATATTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 43 0.86
54 7 0.14
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.20
Consensus pattern (53 bp):
GGCACATAAAATAGGAAACTAGCCTAGAGTTAGGGAATTACAACTAATCACAA
Found at i:88491 original size:557 final size:557
Alignment explanation
Indices: 87436--88551 Score: 2223
Period size: 557 Copynumber: 2.0 Consensus size: 557
87426 TGAGTTTTCC
87436 ATTGATTAAGAGTGGATATATATACACAAGATGGGGAACATAGAAATAGGAAACTAACCTAGAGT
1 ATTGATTAAGAGTGGATATATATACACAAGATGGGGAACATAGAAATAGGAAACTAACCTAGAGT
87501 TAGGATTACAACTAATTACAAGGCACATAAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACT
66 TAGGATTACAACTAATTACAAGGCACATAAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACT
87566 AATCACCAGAATATTATAATTGATTACAATAATTTAAAATTTAAATAAAATTTGTTATAATTAAT
131 AATCACCAGAATATTATAATTGATTACAATAATTTAAAATTTAAATAAAATTTGTTATAATTAAT
87631 TCTCTAATATATCGTAGCTAGGATTTGACATGCAAATATACCATACATTTAGAAATTAACCTTTC
196 TCTCTAATATATCGTAGCTAGGATTTGACATGCAAATATACCATACATTTAGAAATTAACCTTTC
87696 CCCACGCTCAACAACAGCTTCCTTTAACCTCTCTGAAAACCTAATTTTCTCTATTTGTGGTGCGC
261 CCCACGCTCAACAACAGCTTCCTTTAACCTCTCTGAAAACCTAATTTTCTCTATTTGTGGTGCGC
87761 CCTTCGCCCCTTTATTTTTATTTATTTTTTATCGTTGACAACGTCAACTCTAGACATAAACACTA
326 CCTTCGCCCCTTTATTTTTATTTATTTTTTATCGTTGACAACGTCAACTCTAGACATAAACACTA
87826 AACAATATGATCAACACAACGTAGCAGCACAAACATCAATGTGGTTGGTGCTGAGAATATGATCA
391 AACAATATGATCAACACAACGTAGCAGCACAAACATCAATGTGGTTGGTGCTGAGAATATGATCA
87891 ACACTAGACATAAAAGCATACTAAAGTACACTGCACCAACTCGTTTAAGTATGTTTAATTCCTAT
456 ACACTAGACATAAAAGCATACTAAAGTACACTGCACCAACTCGTTTAAGTATGTTTAATTCCTAT
87956 AAAGGCATAAGCAAGCATGCCACAAGAAATTGCATAA
521 AAAGGCATAAGCAAGCATGCCACAAGAAATTGCATAA
87993 ATTGATTAAGAGTGGATATATATACACAAGATGGGGAACATAGAAATAGGAAACTAACCTAGAGT
1 ATTGATTAAGAGTGGATATATATACACAAGATGGGGAACATAGAAATAGGAAACTAACCTAGAGT
88058 TAGGATTACAACTAATTACAAGGCACATAAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACT
66 TAGGATTACAACTAATTACAAGGCACATAAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACT
88123 AATCACCAGAATATTATAATTGATTACAATAATTTAAAATTTAAATAAAATTTGTTATAATTAAT
131 AATCACCAGAATATTATAATTGATTACAATAATTTAAAATTTAAATAAAATTTGTTATAATTAAT
88188 TCTCTAATATATCGTAGCTAGGATTTGACATGCAAATATACCATACATTTAGAAATTAACCTTTC
196 TCTCTAATATATCGTAGCTAGGATTTGACATGCAAATATACCATACATTTAGAAATTAACCTTTC
88253 CCCACGCTCAACAACAGCTTCCTTTAACCTCTCTGAAAACCTAATTTTCTCTATTTGTGGTGCGC
261 CCCACGCTCAACAACAGCTTCCTTTAACCTCTCTGAAAACCTAATTTTCTCTATTTGTGGTGCGC
88318 CCTTCGCCCCTTTATTTTTATTTATTTTTTATCGTTGACAACGTCAACTCTAGACATAAACACTA
326 CCTTCGCCCCTTTATTTTTATTTATTTTTTATCGTTGACAACGTCAACTCTAGACATAAACACTA
*
88383 AACAATATGATCAACACAACGTAGCAGTACAAACATCAATGTGGTTGGTGCTGAGAATATGATCA
391 AACAATATGATCAACACAACGTAGCAGCACAAACATCAATGTGGTTGGTGCTGAGAATATGATCA
88448 ACACTAGACATAAAAGCATACTAAAGTACACTGCACCAACTCGTTTAAGTATGTTTAATTCCTAT
456 ACACTAGACATAAAAGCATACTAAAGTACACTGCACCAACTCGTTTAAGTATGTTTAATTCCTAT
88513 AAAGGCATAAGCAAGCATGCCACAAGAAATTGCATAA
521 AAAGGCATAAGCAAGCATGCCACAAGAAATTGCATAA
88550 AT
1 AT
88552 GTAATATGTA
Statistics
Matches: 558, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
557 558 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (557 bp):
ATTGATTAAGAGTGGATATATATACACAAGATGGGGAACATAGAAATAGGAAACTAACCTAGAGT
TAGGATTACAACTAATTACAAGGCACATAAATAGGAGACTAGCCTAGAGTTAGGGAATTACAACT
AATCACCAGAATATTATAATTGATTACAATAATTTAAAATTTAAATAAAATTTGTTATAATTAAT
TCTCTAATATATCGTAGCTAGGATTTGACATGCAAATATACCATACATTTAGAAATTAACCTTTC
CCCACGCTCAACAACAGCTTCCTTTAACCTCTCTGAAAACCTAATTTTCTCTATTTGTGGTGCGC
CCTTCGCCCCTTTATTTTTATTTATTTTTTATCGTTGACAACGTCAACTCTAGACATAAACACTA
AACAATATGATCAACACAACGTAGCAGCACAAACATCAATGTGGTTGGTGCTGAGAATATGATCA
ACACTAGACATAAAAGCATACTAAAGTACACTGCACCAACTCGTTTAAGTATGTTTAATTCCTAT
AAAGGCATAAGCAAGCATGCCACAAGAAATTGCATAA
Found at i:91661 original size:29 final size:29
Alignment explanation
Indices: 91619--91674 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
91609 ATCAAAATTA
*
91619 ATTATGTTATATCATAATTATATATTAAT
1 ATTATGTTATATCATAATCATATATTAAT
91648 ATTATTGTTA-ATCATAATCATATATTA
1 ATTA-TGTTATATCATAATCATATATTA
91675 CTTATATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (29 bp):
ATTATGTTATATCATAATCATATATTAAT
Found at i:95389 original size:21 final size:20
Alignment explanation
Indices: 95340--95390 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
95330 ATGTAGTAAT
*
95340 AAAAT-TTATAATTTTTTAA
1 AAAATATTATAATTTTTAAA
*
95359 AACATAATTATAATATTTTAAA
1 AAAAT-ATTATAAT-TTTTAAA
95381 AAAATATTAT
1 AAAATATTAT
95391 TTTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
21 12 0.46
22 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
AAAATATTATAATTTTTAAA
Found at i:97889 original size:35 final size:35
Alignment explanation
Indices: 97816--97890 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
97806 CGTCACTAAC
**
97816 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
97851 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
97886 AGTAA
1 AGTAA
97891 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:98028 original size:23 final size:23
Alignment explanation
Indices: 97968--98042 Score: 105
Period size: 24 Copynumber: 3.2 Consensus size: 23
97958 CATAATTCAA
*
97968 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCAGATCAGAATCCAG
* *
97992 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCAGATCAGAATCCAG
98016 GTCAATATCAGATCAGAATCCAG
1 GTCAATATCAGATCAGAATCCAG
98039 GTCA
1 GTCA
98043 GGATCATAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.47
24 24 0.53
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (23 bp):
GTCAATATCAGATCAGAATCCAG
Found at i:98048 original size:23 final size:23
Alignment explanation
Indices: 97972--98057 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 23
97962 ATTCAAGTCA
*
97972 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
97995 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
98019 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* * *
98042 AGGATCATAACAGAAT
1 AGTATCAGATCAGAAT
98058 TCAAGTCGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
23 33 0.61
24 21 0.39
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:98075 original size:47 final size:47
Alignment explanation
Indices: 97951--98064 Score: 131
Period size: 47 Copynumber: 2.4 Consensus size: 47
97941 TATATCAAAA
* * * * *
97951 ATCAAAACATAATTCAAGTCAAGTATCATATCAGAATCCAGGTCATGT
1 ATCAGAACAGAATCCAAGTCAA-TATCAGATCAGAATCCAGGTCATGG
* *
97999 ATCAGATCAGAATCCATGTCAATATCAGATCAGAATCCAGGTCA-GG
1 ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
* *
98045 ATCATAACAGAATTCAAGTC
1 ATCAGAACAGAATCCAAGTC
98065 GGAAATCAGA
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 17 0.31
47 21 0.38
48 17 0.31
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (47 bp):
ATCAGAACAGAATCCAAGTCAATATCAGATCAGAATCCAGGTCATGG
Found at i:100553 original size:15 final size:15
Alignment explanation
Indices: 100533--100572 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
100523 TGGTCAACGT
100533 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
100548 GGGTCAACGGTCAAC
1 GGGTCAACGGTCAAC
100563 GGGTCAACGG
1 GGGTCAACGG
100573 GTCAGGTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (15 bp):
GGGTCAACGGTCAAC
Found at i:100554 original size:8 final size:8
Alignment explanation
Indices: 100514--100589 Score: 81
Period size: 8 Copynumber: 9.6 Consensus size: 8
100504 TCAAAGTTTT
100514 GGTCAACAG
1 GGTCAAC-G
100523 TGGTCAACGTG
1 -GGTCAAC--G
100534 GGTCAAC-
1 GGTCAACG
100541 GGTCAACG
1 GGTCAACG
100549 GGTCAAC-
1 GGTCAACG
100556 GGTCAACG
1 GGTCAACG
100564 GGTCAACG
1 GGTCAACG
100572 GGTC-A--
1 GGTCAACG
100577 GGTCAACG
1 GGTCAACG
100585 GGTCA
1 GGTCA
100590 GGTCGGGTCA
Statistics
Matches: 59, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
5 4 0.07
6 1 0.02
7 15 0.25
8 24 0.41
10 14 0.24
11 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.36, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:100582 original size:13 final size:13
Alignment explanation
Indices: 100564--100593 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
100554 ACGGTCAACG
100564 GGTCAACGGGTCA
1 GGTCAACGGGTCA
100577 GGTCAACGGGTCA
1 GGTCAACGGGTCA
100590 GGTC
1 GGTC
100594 GGGTCAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.40, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCA
Found at i:100597 original size:31 final size:31
Alignment explanation
Indices: 100562--100628 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
100552 CAACGGTCAA
*
100562 CGGGTCAACGGGTCAGGTCAACGGGTCAGGT
1 CGGGTCAACGGGTCAGGTAAACGGGTCAGGT
* * *
100593 CGGGTCAACTGGTCGGGTAAACGGGTCGGGT
1 CGGGTCAACGGGTCAGGTAAACGGGTCAGGT
100624 CGGGT
1 CGGGT
100629 TATGACCGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.21, G:0.45, T:0.18
Consensus pattern (31 bp):
CGGGTCAACGGGTCAGGTAAACGGGTCAGGT
Found at i:100598 original size:23 final size:22
Alignment explanation
Indices: 100534--100589 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
100524 GGTCAACGTG
100534 GGTCAAC-GGTCAACGGGTCAAC
1 GGTCAACGGGTCAACGGGTC-AC
100556 GGTCAACGGGTCAACGGGTCA-
1 GGTCAACGGGTCAACGGGTCAC
100577 GGTCAACGGGTCA
1 GGTCAACGGGTCA
100590 GGTCGGGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (22 bp):
GGTCAACGGGTCAACGGGTCAC
Found at i:100606 original size:13 final size:13
Alignment explanation
Indices: 100562--100624 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
100552 CAACGGTCAA
100562 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
100575 CAGGTCAACGGGTCAGGT
1 CGGGTCAAC--G---GGT
*
100593 CGGGTCAACTGGT
1 CGGGTCAACGGGT
*
100606 CGGGTAAACGGGT
1 CGGGTCAACGGGT
100619 CGGGTC
1 CGGGTC
100625 GGGTTATGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 27 0.69
15 1 0.03
18 11 0.28
ACGTcount: A:0.17, C:0.22, G:0.43, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:104365 original size:95 final size:95
Alignment explanation
Indices: 104202--104390 Score: 342
Period size: 95 Copynumber: 2.0 Consensus size: 95
104192 CACTTGTCTT
*
104202 CAATTTTATCTGTACTATCTGTTGATTCACATTAGTGATAGGACTGCAAGTTATAATAACTAGAA
1 CAATTTTATCTGTACCATCTGTTGATTCACATTAGTGATAGGACTGCAAGTTATAATAACTAGAA
104267 GTATCTGCGGTTATCATGTTTGAAATGAAA
66 GTATCTGCGGTTATCATGTTTGAAATGAAA
* **
104297 CAATTTTATCTGTACCATCTGTTGCTTCACATTAGTGATAGGTTTGCAAGTTATAATAACTAGAA
1 CAATTTTATCTGTACCATCTGTTGATTCACATTAGTGATAGGACTGCAAGTTATAATAACTAGAA
104362 GTATCTGCGGTTATCATGTTTGAAATGAA
66 GTATCTGCGGTTATCATGTTTGAAATGAA
104391 TACGGAGTCA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (95 bp):
CAATTTTATCTGTACCATCTGTTGATTCACATTAGTGATAGGACTGCAAGTTATAATAACTAGAA
GTATCTGCGGTTATCATGTTTGAAATGAAA
Found at i:107961 original size:2 final size:2
Alignment explanation
Indices: 107954--107987 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
107944 TATTATTCAA
107954 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
107988 TGTCATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115240 original size:32 final size:33
Alignment explanation
Indices: 115204--115281 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
115194 TTTAAATAGT
* *
115204 TATTATTTTTTA-TATTAAT-ATATTTATGTAAA
1 TATTATTTTTTATTA-AAATAATATTTATATAAA
*
115236 TATTATTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTATTAAAATAATATTTATATAAA
115269 TATTATTTATTTA
1 TATTATTT-TTTA
115282 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
32 15 0.38
33 21 0.52
34 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (33 bp):
TATTATTTTTTATTAAAATAATATTTATATAAA
Found at i:117030 original size:21 final size:21
Alignment explanation
Indices: 117000--117047 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
116990 GCAGGGGTAC
* *
117000 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
117021 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
117042 ATGCCA
1 ATGCCA
117048 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:117077 original size:21 final size:21
Alignment explanation
Indices: 117051--117144 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
117041 TATGCCATCT
* *
117051 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
117072 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
117093 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
117114 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
117135 CCGCAGGGTT
1 CCGCAGGGTT
117145 TTATACCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 2 0.03
21 65 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.35, G:0.27, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:117724 original size:33 final size:34
Alignment explanation
Indices: 117665--117761 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
117655 AAATGTTTTT
*
117665 AAAATACAAATTATATTATTCGAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* * *
117699 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
117732 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCGAAATTTAA
117762 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 28 0.51
34 27 0.49
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:117768 original size:34 final size:33
Alignment explanation
Indices: 117663--117768 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
117653 ATAAATGTTT
*
117663 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTT-AAA
* *
117697 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAA
* *
117729 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTCGAAATTTAA-A
117764 TTAAA
1 TTAAA
117769 TTTCAACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
32 3 0.05
33 25 0.40
34 33 0.53
35 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (33 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAA
Found at i:118375 original size:126 final size:126
Alignment explanation
Indices: 118148--118502 Score: 674
Period size: 126 Copynumber: 2.8 Consensus size: 126
118138 TTTAAGTTAT
118148 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAG
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGAT-A-ATATTCTCTGACGAAATAATGGAAG
118213 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
64 GCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
118276 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
*
118341 GCGCCCCTGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
*
118402 TCCCCGAGGGACATGAATGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
1 TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
118467 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
66 GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAA
118503 CCGATTATAG
Statistics
Matches: 224, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
126 186 0.83
127 1 0.00
128 37 0.17
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (126 bp):
TCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGC
GCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTG
Found at i:118584 original size:8 final size:8
Alignment explanation
Indices: 118571--118611 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
118561 TCACAATCTT
118571 TCAAATTC
1 TCAAATTC
118579 TCAAATTC
1 TCAAATTC
* *
118587 CCAAACTC
1 TCAAATTC
118595 T-AAATTC
1 TCAAATTC
118602 TCAAATTC
1 TCAAATTC
118610 TC
1 TC
118612 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:121622 original size:13 final size:13
Alignment explanation
Indices: 121604--121640 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
121594 CATAAATATA
121604 TTAATATAATTAT
1 TTAATATAATTAT
121617 TTAATATAA-TAT
1 TTAATATAATTAT
*
121629 TTAATATTATTA
1 TTAATATAATTA
121641 GTTATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAATATAATTAT
Found at i:121629 original size:12 final size:12
Alignment explanation
Indices: 121598--121635 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
121588 TAAATACATA
121598 AATATATTAATAT
1 AATAT-TTAATAT
121611 AATTATTTAATAT
1 AA-TATTTAATAT
121624 AATATTTAATAT
1 AATATTTAATAT
121636 TATTAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 11 0.46
14 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTAATAT
Found at i:124966 original size:15 final size:15
Alignment explanation
Indices: 124933--124966 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
124923 TATATTTATT
* *
124933 TATTATTGTTATTAT
1 TATTATTGTTAATAA
124948 TATTATTGTTAATAA
1 TATTATTGTTAATAA
124963 TATT
1 TATT
124967 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTGTTAATAA
Found at i:128336 original size:26 final size:26
Alignment explanation
Indices: 128305--128362 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
128295 AGACATGTTG
*
128305 TGCATTTTG-TTACTTTTCTTTACAT
1 TGCATTATGATTACTTTTCTTTACAT
* * *
128330 TCGCATTATGATTCCTTTTTTTTTCAT
1 T-GCATTATGATTACTTTTCTTTACAT
128357 TGCATT
1 TGCATT
128363 CTCATGTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 12 0.44
27 14 0.52
ACGTcount: A:0.16, C:0.17, G:0.09, T:0.59
Consensus pattern (26 bp):
TGCATTATGATTACTTTTCTTTACAT
Found at i:130488 original size:106 final size:105
Alignment explanation
Indices: 130243--131113 Score: 1467
Period size: 105 Copynumber: 8.3 Consensus size: 105
130233 CTCGAGAGTA
* * * *
130243 AATTTCAACTTCTCAACGAAGGATCTT-GACTCTAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
130307 GACCGCTGGTTGTCAATAA-ACATTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACA-ACTTCCCAATTTCAGAGCC
* *
130347 AATTTCAACTTCACAACGAAGGGTATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
130412 GACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCC
66 GACCGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGCC
130453 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
130518 GACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-CAACTTCCCAATTTCAGAGCC
* *
130559 AATTTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
130624 GACCGCTGGTTGTCAATAACCAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-CAACTTCCCAATTTCAGAGCC
* *
130665 AAGTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGAAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
130730 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
* * *
130770 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGTAAGTTCAACTTCACGGCGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
*
130835 GACCACTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
*
130875 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
130940 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
* *
130980 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGTAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
131045 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
131085 AATTTCAACTTCACAGCGAAGGATATTGG
1 AATTTCAACTTCACAGCGAAGGATATTGG
131114 CCTCGAAACA
Statistics
Matches: 734, Mismatches: 29, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
104 24 0.03
105 409 0.56
106 300 0.41
107 1 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGCC
Found at i:131286 original size:37 final size:38
Alignment explanation
Indices: 131236--131341 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 38
131226 GTGCTCACCA
* ** *
131236 TTGTCTCCCTTGAGACAGTTTCTTTTTG-AACCAAATT
1 TTGTCTCTCTTGAGACAGTTTCTACTTGAAACAAAATT
131273 TTGTCTCTCTTGAGACAGTTTC-ACTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCTACTTGAAACAAAATT
* *
131310 TTGCCTCTCTGGAGACAGTTTCT-CTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCTACTTGAAACA
131342 CAAAAATCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 3 0.05
37 58 0.95
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (38 bp):
TTGTCTCTCTTGAGACAGTTTCTACTTGAAACAAAATT
Found at i:131368 original size:33 final size:33
Alignment explanation
Indices: 131327--131444 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 33
131317 TCTGGAGACA
* *
131327 GTTTCTCTTGAAACACAAAAATCCTTTGAAGTC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
131360 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
131393 GTTTCTCTTG------AAAAAACCTTTGAAAAT-
1 GTTTCTCTTGAAACACAAAAAACCTTTG-AAATC
*
131420 ATTTCTCTTGAAACAC-AAAAACCTT
1 GTTTCTCTTGAAACACAAAAAACCTT
131445 CGAGTTCGAC
Statistics
Matches: 75, Mismatches: 3, Indels: 15
0.81 0.03 0.16
Matches are distributed among these distances:
27 21 0.28
28 4 0.05
32 9 0.12
33 41 0.55
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.33
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATC
Found at i:131414 original size:27 final size:27
Alignment explanation
Indices: 131376--131432 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
131366 CTTGAAACAC
*
131376 AAAAAACCTTTG-AAATCGTTTCTCTTG
1 AAAAAACCTTTGAAAAT-ATTTCTCTTG
131403 AAAAAACCTTTGAAAATATTTCTCTTG
1 AAAAAACCTTTGAAAATATTTCTCTTG
131430 AAA
1 AAA
131433 CACAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (27 bp):
AAAAAACCTTTGAAAATATTTCTCTTG
Found at i:131587 original size:83 final size:83
Alignment explanation
Indices: 131434--131704 Score: 371
Period size: 83 Copynumber: 3.2 Consensus size: 83
131424 CTCTTGAAAC
* *
131434 ACAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTCATAGCATAACTCAAGGC
1 ACAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGC
131499 TAGAAGGGTTATCTGCCA
66 TAGAAGGGTTATCTGCCA
* * * * * * *
131517 ACAAAAACCTTCGAGTTCGACAACGCTCAGCTCAAACGCACATCATTTGCAGCATAGCTTAAGTC
1 ACAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGC
* **
131582 GAGAAGGGCAATCTGCCA
66 TAGAAGGGTTATCTGCCA
* *
131600 ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACTCAAGGC
1 ACAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGC
*
131665 TAGAAGGGTTATCTGTCA
66 TAGAAGGGTTATCTGCCA
* *
131683 ACTAAAGACCTGACGAGTTCGA
1 AC-AAAAACCT-TCGAGTTCGA
131705 TTTCATTCAG
Statistics
Matches: 160, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
83 143 0.89
84 8 0.05
85 9 0.06
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (83 bp):
ACAAAAACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGC
TAGAAGGGTTATCTGCCA
Found at i:131986 original size:15 final size:15
Alignment explanation
Indices: 131953--131986 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
131943 TATATTTATT
* *
131953 TATTATTGTTATTAT
1 TATTATTGTTAATAA
131968 TATTATTGTTAATAA
1 TATTATTGTTAATAA
131983 TATT
1 TATT
131987 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTGTTAATAA
Found at i:135885 original size:17 final size:17
Alignment explanation
Indices: 135848--135896 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
135838 GTTCGCTAAG
* *
135848 GGAATTGAAATCTGTTCA
1 GGAATTGGAATCT-ATCA
135866 GGAATTGGAATCTATCA
1 GGAATTGGAATCTATCA
135883 GGAATTGGAATCTA
1 GGAATTGGAATCTA
135897 ATTCCATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (17 bp):
GGAATTGGAATCTATCA
Found at i:154547 original size:14 final size:14
Alignment explanation
Indices: 154524--154554 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
154514 AAAAAGAGTG
*
154524 AAAATGAAAAAAAA
1 AAAATAAAAAAAAA
154538 AAAATAAAAAAAAA
1 AAAATAAAAAAAAA
154552 AAA
1 AAA
154555 TGAAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAATAAAAAAAAA
Found at i:154554 original size:21 final size:21
Alignment explanation
Indices: 154530--154575 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
154520 AGTGAAAATG
154530 AAAAAAAAAAAATAAAAAAAA
1 AAAAAAAAAAAATAAAAAAAA
** **
154551 AAAATGAAAAAATGGAAAAAA
1 AAAAAAAAAAAATAAAAAAAA
154572 AAAA
1 AAAA
154576 GAAGAAGGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.87, C:0.00, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAAAAAAAATAAAAAAAA
Found at i:154560 original size:14 final size:14
Alignment explanation
Indices: 154524--154562 Score: 71
Period size: 13 Copynumber: 2.9 Consensus size: 14
154514 AAAAAGAGTG
154524 AAAATGAAAAAAAA
1 AAAATGAAAAAAAA
154538 AAAAT-AAAAAAAA
1 AAAATGAAAAAAAA
154551 AAAATGAAAAAA
1 AAAATGAAAAAA
154563 TGGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (14 bp):
AAAATGAAAAAAAA
Found at i:154560 original size:22 final size:21
Alignment explanation
Indices: 154536--154575 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
154526 AATGAAAAAA
154536 AAAAAATAAAAAAAAAAAATG
1 AAAAAATAAAAAAAAAAAATG
**
154557 AAAAAATGGAAAAAAAAAA
1 AAAAAATAAAAAAAAAAAA
154576 GAAGAAGGTT
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:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (21 bp):
AAAAAATAAAAAAAAAAAATG
Found at i:155663 original size:54 final size:55
Alignment explanation
Indices: 155490--155725 Score: 256
Period size: 54 Copynumber: 4.4 Consensus size: 55
155480 AGATTTCCCA
* *
155490 ACAATTATTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGAC
* * * * *
155545 GCAA-TGATGAAGA-TG-TGGGGTCTTATA--CTCTGAAGAAATAGGGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGAC
* * * * *
155595 GCAATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGATATAGGGGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATA-GGGGGCAGAC
* *
155649 ACAATCGTTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATA-GGGGCAGAC
1 ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGAC
* *
155703 ACGATTGTTGAAGA-TATTCGAGT
1 ACAATTGTTGAAGATTGTTCGAGT
155726 TCTATTCTCC
Statistics
Matches: 155, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
50 26 0.17
51 19 0.12
52 12 0.08
53 21 0.14
54 51 0.33
55 4 0.03
56 22 0.14
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (55 bp):
ACAATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGGGCAGAC
Done.