Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001810.1 Hibiscus syriacus cultivar Beakdansim tig00003662_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: 127515
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Found at i:2343 original size:103 final size:104
Alignment explanation
Indices: 2161--2366 Score: 297
Period size: 103 Copynumber: 2.0 Consensus size: 104
2151 TTGTAATTTG
* * * *
2161 CCTTTATTAGGCTAGCTAAATCTTATCCATAATGTCGTGGTGTTTAACCAATTACTCTAGAGAGA
1 CCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGGTGATTAACCAATTACTCTAGAGAGA
** *
2226 CAACTCAAGTTTTATTGTATATATAT-ATATTATAATCA
66 CAACTCAAACTTTATTGTATACATATAATATTATAATCA
* * * *
2264 CCTTTATCAGGCTAGCTGAATCTTATCCTTAAAGTCGGGGTGATTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGGTGATTAACCAATTACTCTAGAGAGA
*
2329 CAGCTCAAACTTTATTGTATACATATAATATTATAATC
66 CAACTCAAACTTTATTGTATACATATAATATTATAATC
2367 TGGGTAAACG
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
103 79 0.88
104 11 0.12
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (104 bp):
CCTTTATCAGGCTAGCTAAATCTTATCCATAAAGTCGGGGTGATTAACCAATTACTCTAGAGAGA
CAACTCAAACTTTATTGTATACATATAATATTATAATCA
Found at i:7918 original size:21 final size:21
Alignment explanation
Indices: 7885--7950 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 21
7875 CCCTAAAAAG
7885 AAAAATAATAATAAATAATGAA
1 AAAAATAA-AATAAATAATGAA
*
7907 AAAAAGAAAATAAATAA--ATA
1 AAAAATAAAATAAATAATGA-A
*
7927 AAAAATAATATAAATAATGAA
1 AAAAATAAAATAAATAATGAA
7948 AAA
1 AAA
7951 CTATATTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.42
21 13 0.34
22 8 0.21
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATAAAATAAATAATGAA
Found at i:8034 original size:35 final size:36
Alignment explanation
Indices: 7989--8193 Score: 97
Period size: 35 Copynumber: 5.6 Consensus size: 36
7979 TCAAAACTCT
* *
7989 TATATTTTATATGTTTTCAAATACATTTT-AAAAAC
1 TATATATTATATGTTTTCAAAAACATTTTAAAAAAC
* * * * *
8024 TATTTATTATAAGTTTTTAAAAATATTTTAAAAAAT
1 TATATATTATATGTTTTCAAAAACATTTTAAAAAAC
*
8060 TATATATTATATATGCTTTT-AAAAA-ATGCTTT--CAAAC
1 TATATA-T-TATATG-TTTTCAAAAACAT--TTTAAAAAAC
* **
8097 TATATATTATATACATTTT-AAAAA-ATGTTTTCAAAAC
1 TATATATTATAT--GTTTTCAAAAACAT-TTTAAAAAAC
* ***
8134 TATAT-TATATACG-TTTCAAAAA-ATGTTTTCGAAAC
1 TATATAT-TATATGTTTTCAAAAACAT-TTTAAAAAAC
8169 TATATATTATATACGTTTTCAAAAA
1 TATATATTATAT--GTTTTCAAAAA
8194 TTTTATATTA
Statistics
Matches: 136, Mismatches: 18, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
34 3 0.02
35 57 0.42
36 24 0.18
37 26 0.19
38 19 0.14
39 7 0.05
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATATTATATGTTTTCAAAAACATTTTAAAAAAC
Found at i:8107 original size:37 final size:36
Alignment explanation
Indices: 7971--8194 Score: 188
Period size: 37 Copynumber: 6.1 Consensus size: 36
7961 TATATTTTCT
* * *
7971 AAATGTTTTCAAAACTCTTATATTTTATATGTTTTCAAA
1 AAATGTTTTC-AAACT-ATATATTATATACGTTTT-AAA
* ** * *
8010 TACAT-TTTAAAAACTATTTATTATA-A-GTTTTTAA
1 -AAATGTTTTCAAACTATATATTATATACGTTTTAAA
* * * *
8044 AAATATTTTAAAAAATTATATATTATATATGCTTTTAAA
1 AAATGTTTT--CAAACTATATATTATATACG-TTTTAAA
* *
8083 AAATGCTTTCAAACTATATATTATATACATTTTAAA
1 AAATGTTTTCAAACTATATATTATATACGTTTTAAA
*
8119 AAATGTTTTCAAA--ACTATATTATATACGTTTCAAA
1 AAATGTTTTCAAACTA-TATATTATATACGTTTTAAA
*
8154 AAATGTTTTCGAAACTATATATTATATACGTTTTCAA
1 AAATGTTTTC-AAACTATATATTATATACGTTTTAAA
8191 AAAT
1 AAAT
8195 TTTATATTAT
Statistics
Matches: 151, Mismatches: 23, Indels: 23
0.77 0.12 0.12
Matches are distributed among these distances:
33 3 0.02
34 6 0.04
35 33 0.22
36 37 0.25
37 46 0.30
38 7 0.05
39 16 0.11
40 3 0.02
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
AAATGTTTTCAAACTATATATTATATACGTTTTAAA
Found at i:8233 original size:64 final size:72
Alignment explanation
Indices: 8060--8320 Score: 235
Period size: 72 Copynumber: 3.7 Consensus size: 72
8050 TTTAAAAAAT
* *
8060 TATATAT-TATATATGCTTTTAAAAAATGCTTTC-AAACTATATATTATATACATTTT-AAAAA-
1 TATATATATATATATG-TTTTCAAAAATGTTTTCAAAACTATATATTATATACATTTTCAAAAAC
* *
8121 ATGTTTTCA
65 ATATTAT-A
* * * *
8130 -AAACTATATTATATACG-TTTCAAAAAATGTTTTCGAAACTATATATTATATACGTTTTC-AAA
1 TATA-TATA-TATATATGTTTTC-AAAAATGTTTTCAAAACTATATATTATATACATTTTCAAAA
8192 A-AT-TT-TA
63 ACATATTATA
* *
8199 TAT-TATATATAT-T-TTTTC-AAAATGTTTTCAAAACTATATATTATTCAAAATATTTTCAAAA
1 TATATATATATATATGTTTTCAAAAATGTTTTCAAAACTATATATTA-T--ATACATTTTCAAAA
8260 ACTATATTATA
63 AC-ATATTATA
* *
8271 TATATATATATATATGTTTTCAAAAATGTTCTCAAAATTATATATTATAT
1 TATATATATATATATGTTTTCAAAAATGTTTTCAAAACTATATATTATAT
8321 GTGTTATATG
Statistics
Matches: 157, Mismatches: 14, Indels: 37
0.75 0.07 0.18
Matches are distributed among these distances:
64 24 0.15
65 1 0.01
66 4 0.03
67 12 0.08
68 8 0.05
69 3 0.02
70 10 0.06
71 15 0.10
72 40 0.25
73 10 0.06
74 1 0.01
75 6 0.04
76 23 0.15
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (72 bp):
TATATATATATATATGTTTTCAAAAATGTTTTCAAAACTATATATTATATACATTTTCAAAAACA
TATTATA
Found at i:8236 original size:27 final size:28
Alignment explanation
Indices: 8206--8267 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
8196 TTATATTATA
* *
8206 TATATTTTTTCAAAATGTTTTC-AAAAC
1 TATATTTATTCAAAATATTTTCAAAAAC
8233 TATATATTATTCAAAATATTTTCAAAAAC
1 TATAT-TTATTCAAAATATTTTCAAAAAC
8262 TATATT
1 TATATT
8268 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 5 0.16
28 16 0.52
29 10 0.32
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (28 bp):
TATATTTATTCAAAATATTTTCAAAAAC
Found at i:8245 original size:28 final size:30
Alignment explanation
Indices: 8204--8266 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
8194 TTTTATATTA
* *
8204 TATATATTTTTTCAAAATGTTTTC-AAAAC
1 TATATATTTATTCAAAATATTTTCAAAAAC
8233 TATATA-TTATTCAAAATATTTTCAAAAAC
1 TATATATTTATTCAAAATATTTTCAAAAAC
8262 TATAT
1 TATAT
8267 TATATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.46
Consensus pattern (30 bp):
TATATATTTATTCAAAATATTTTCAAAAAC
Found at i:8967 original size:17 final size:17
Alignment explanation
Indices: 8945--8979 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8935 ATTTTTTTCC
8945 TATTCTTCTTATTGATT
1 TATTCTTCTTATTGATT
* *
8962 TATTCTTTTTATTTATT
1 TATTCTTCTTATTGATT
8979 T
1 T
8980 TGGAGAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TATTCTTCTTATTGATT
Found at i:10089 original size:23 final size:23
Alignment explanation
Indices: 10063--10106 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10053 TATGAAAAAT
*
10063 ATATTAATTTATATATAAATAAA
1 ATATTAATTTATATAGAAATAAA
* *
10086 ATATTTATTTATTTAGAAATA
1 ATATTAATTTATATAGAAATA
10107 TCATAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATTAATTTATATAGAAATAAA
Found at i:10192 original size:20 final size:19
Alignment explanation
Indices: 10153--10194 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
10143 TTTCTTCGAT
10153 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
10172 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
10192 ATT
1 ATT
10195 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:10302 original size:119 final size:119
Alignment explanation
Indices: 10086--10418 Score: 517
Period size: 119 Copynumber: 2.8 Consensus size: 119
10076 TATAAATAAA
* * ** * ** * *
10086 ATATTTATTTATTTAGAAATATCATAAAA-GGATTTCTAGGTGCCTTAAGACAGCTCTTTTCTTC
1 ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGTTTTAAGACTGC-CCTTTCTT-
*
10150 GATATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATTTATAAAATAGG
64 AATATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATTTATAAAATAGG
*
10206 ATATTTATTTATTTAAAAATATCAGAAAATTGACATCCAGGTGTTTTAAGACTGCCCTTTCTTAA
1 ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGTTTTAAGACTGCCCTTTCTTAA
10271 TATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATTTATAAAATAGG
66 TATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATTTATAAAATAGG
10325 ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGTTTTTAAGACTGCCCTTTCTTA
1 ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTG-TTTTAAGACTGCCCTTTCTTA
*
10390 ATATTGAAAAATAAATAAAT-ATTAAAACA
65 ATATTAAAAAATAAATAAATAATTAAAACA
10419 GGATTAAAAT
Statistics
Matches: 198, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
119 106 0.54
120 74 0.37
121 18 0.09
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (119 bp):
ATATTTATTTATTTAAAAATATCAGAAAATGGACATCCAGGTGTTTTAAGACTGCCCTTTCTTAA
TATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATTTATAAAATAGG
Found at i:10311 original size:20 final size:19
Alignment explanation
Indices: 10272--10313 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
10262 CTTTCTTAAT
10272 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
10291 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
10311 ATT
1 ATT
10314 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:10630 original size:18 final size:19
Alignment explanation
Indices: 10592--10630 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
10582 ACTATATATT
*
10592 AAAATAAATAAAACTTGTA
1 AAAATAAATAAAAATTGTA
10611 AAAATAAATAAAAATT-TA
1 AAAATAAATAAAAATTGTA
10629 AA
1 AA
10631 TTAGTGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAATAAATAAAAATTGTA
Found at i:12437 original size:113 final size:113
Alignment explanation
Indices: 12183--12857 Score: 937
Period size: 113 Copynumber: 6.0 Consensus size: 113
12173 ATAGAGTTAT
* * *
12183 GCAAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
** * * * * **
12248 ATTATGAACACT-TCTGGCAATGCTGATCCATCAAATGATGAATTCAA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * *
12295 ACAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
12360 ATTATGAACTTTCTCTGGAAATGCTGATCCATCAGGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * *
12408 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
12473 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
*
12521 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * * * **
12586 ATTATGAACTTT-T-TAGCAATA-TTGATCCATCAAATGATGAATTCAA
66 ATTATGAACTTTCTCT-GGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * *
12632 ACAAAAAGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCT
1 GCAAAAGGTTGAAC-AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
12696 CATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTGA
65 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
* * * *
12745 GTAAAAGGTTGAATAAGTTATTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
12810 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
12858 ATCTTTGCTA
Statistics
Matches: 505, Mismatches: 51, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
111 89 0.18
112 86 0.17
113 330 0.65
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGA
Found at i:12690 original size:337 final size:338
Alignment explanation
Indices: 12183--12857 Score: 1095
Period size: 337 Copynumber: 2.0 Consensus size: 338
12173 ATAGAGTTAT
* *
12183 GCAAAAGGTTGAACAAGTTCTTTTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
* * *
12248 ATTATGAACACTTCTGGCAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAAT
66 ATTATGAACACTTCTAGCAATACTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAAT
* * *
12313 TCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
12378 AAATGCTGATCCATC-AGGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAAC
196 AAAAGCTGATCCATCGA-GTGATGGATTTGAGCAAAAGGTTGAACAAGCTATTCTCATTATGAAC
*
12442 TTATTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
260 TTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
12507 AGTGATGGATTTGA
325 AGTGATGGATTTGA
* *
12521 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
* * *
12586 ATTATGAAC-TTTTTAGCAATATTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAAA
66 ATTATGAACACTTCTAGCAATACTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAAC-AAA
12650 TT-TTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * *
12714 GAAAAGTTGATCCATCGAGTGATGGATTTGAGTAAAAGGTTGAATAAGTTATTCTCATTATGAAC
195 GAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTATTCTCATTATGAAC
* * * *
12779 TTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATCCATCG
260 TTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCA
12844 AGTGATGGATTTGA
325 AGTGATGGATTTGA
12858 ATCTTTGCTA
Statistics
Matches: 311, Mismatches: 24, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
337 235 0.76
338 76 0.24
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (338 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
ATTATGAACACTTCTAGCAATACTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAAT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTATTCTCATTATGAACT
TATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAA
GTGATGGATTTGA
Found at i:12713 original size:224 final size:226
Alignment explanation
Indices: 12184--12830 Score: 888
Period size: 224 Copynumber: 2.9 Consensus size: 226
12174 TAGAGTTATG
* * * * *
12184 CAAAAGGTTGAAC-AAGTTCTTTTCATTATGAACTTCCTCTTCCTTATTCAGATGAGTTCTTCTC
1 CAAAAGGTTGAACAAAATT-TTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTC
** * * * * ** * *
12248 ATTATGAACACT-TCTGGCAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAA
65 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
* * *
12312 TTCTTCTTATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTA
* ** * ** *
12377 GAAATGCTGATCCATCAGGTGATGGATTTGAG
195 GAAATACTGATCCATCAAATGATGAATTCAAA
** * * *
12409 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCCTTCTTCATATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
*
12474 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGT
12539 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-T-TAG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
* *
12602 CAATATTGATCCATCAAATGATGAATTCAAA
196 AAATACTGATCCATCAAATGATGAATTCAAA
*
12633 CAAAAAGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
* * * *
12698 TTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGGATTTGAGTAAAAGGTTGAATAAGT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGT
* * *
12763 TATTCTCATTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
12828 AAA
196 AAA
12831 AGTTGATCCA
Statistics
Matches: 372, Mismatches: 46, Indels: 7
0.88 0.11 0.02
Matches are distributed among these distances:
224 200 0.54
225 65 0.17
226 107 0.29
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
CAAAAGGTTGAACAAAATTTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
AAATACTGATCCATCAAATGATGAATTCAAA
Found at i:14387 original size:7 final size:7
Alignment explanation
Indices: 14375--14410 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
14365 GACCCTCCTT
14375 TTTTTTC
1 TTTTTTC
14382 TTTTTTC
1 TTTTTTC
*
14389 TTTTCTTT
1 TTTT-TTC
14397 TTTTTTC
1 TTTTTTC
14404 TTTTTTC
1 TTTTTTC
14411 ATTTCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:14394 original size:12 final size:12
Alignment explanation
Indices: 14373--14424 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
14363 TTGACCCTCC
14373 TTTT-TTTTCTT
1 TTTTCTTTTCTT
14384 TTTTCTTTTC-T
1 TTTTCTTTTCTT
14395 TTTT-TTTTCTT
1 TTTTCTTTTCTT
* *
14406 TTTTCATTTCAT
1 TTTTCTTTTCTT
14418 TTTTCTT
1 TTTTCTT
14425 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 5 0.14
11 14 0.40
12 16 0.46
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:14398 original size:22 final size:22
Alignment explanation
Indices: 14373--14421 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
14363 TTGACCCTCC
* *
14373 TTTTTTTTCTTTTTTCTTTTCT
1 TTTTTTTTCTTTTTTCATTTCA
14395 TTTTTTTTCTTTTTTCATTTCA
1 TTTTTTTTCTTTTTTCATTTCA
14417 TTTTT
1 TTTTT
14422 CTTCAAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTTTCTTTTTTCATTTCA
Found at i:14400 original size:15 final size:16
Alignment explanation
Indices: 14372--14407 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
14362 CTTGACCCTC
*
14372 CTTTTTTTTCTTTTTT
1 CTTTTCTTTCTTTTTT
14388 CTTTTCTTT-TTTTTT
1 CTTTTCTTTCTTTTTT
14403 CTTTT
1 CTTTT
14408 TTCATTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
CTTTTCTTTCTTTTTT
Found at i:14408 original size:10 final size:10
Alignment explanation
Indices: 14373--14409 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
14363 TTGACCCTCC
14373 TTTTTTTTCTT
1 TTTTTTTTC-T
14384 TTTTCTTTTCT
1 TTTT-TTTTCT
14395 TTTTTTTTCT
1 TTTTTTTTCT
14405 TTTTT
1 TTTTT
14410 CATTTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 11 0.44
11 9 0.36
12 5 0.20
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:25109 original size:28 final size:28
Alignment explanation
Indices: 25047--25111 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
25037 TGCAAGTAAA
* *
25047 ATGAAATATTAATAAATATATATAAATACT
1 ATGAAA-A-TAATAAATATATATAAAAAAT
*
25077 ATGAAAATAATAAGTATATATAAAAAA-
1 ATGAAAATAATAAATATATATAAAAAAT
25104 ATTGAAAA
1 A-TGAAAA
25112 GAAAGAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 23 0.74
29 1 0.03
30 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (28 bp):
ATGAAAATAATAAATATATATAAAAAAT
Found at i:25631 original size:23 final size:25
Alignment explanation
Indices: 25594--25642 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
25584 ATAATTATGA
*
25594 AAAATATATTAATTTATATATAAAT
1 AAAATATATTAATTTATATAGAAAT
*
25619 AAAATAT-TT-ATTTATTTAGAAAT
1 AAAATATATTAATTTATATAGAAAT
25642 A
1 A
25643 TCAGAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 2 0.09
25 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATATTAATTTATATAGAAAT
Found at i:25728 original size:20 final size:19
Alignment explanation
Indices: 25689--25730 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
25679 TTTCTTCGAT
25689 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
25708 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
25728 ATT
1 ATT
25731 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:27262 original size:3 final size:3
Alignment explanation
Indices: 27254--27316 Score: 69
Period size: 3 Copynumber: 21.7 Consensus size: 3
27244 TAAAATTATT
* * *
27254 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TTA TAA TTA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
27301 TAA -AA T-A TAAA TAA TA
1 TAA TAA TAA T-AA TAA TA
27317 TTCAAATGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
2 6 0.12
3 42 0.84
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:29090 original size:21 final size:21
Alignment explanation
Indices: 29061--29138 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
29051 ATTCTGACTA
*
29061 TCGCATTGCGATTTTTCAAAT
1 TCGCGTTGCGATTTTTCAAAT
29082 TCGCGTTGCGATTTTTCAAAT
1 TCGCGTTGCGATTTTTCAAAT
29103 TCGCGTTGCGATTTTTCAAAT
1 TCGCGTTGCGATTTTTCAAAT
29124 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
29139 CCGACTATCG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (21 bp):
TCGCGTTGCGATTTTTCAAAT
Found at i:29221 original size:20 final size:20
Alignment explanation
Indices: 29145--29276 Score: 97
Period size: 20 Copynumber: 6.6 Consensus size: 20
29135 TTTTCCGACT
*
29145 ATCGCAATGCGAATAT-ATAA
1 ATCGCAATGCGAATATGA-CA
* *
29165 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGAATATGACA
* *
29185 ATCGCAACGCAAATATGTA-A
1 ATCGCAATGCGAATATG-ACA
* *
29205 ATCGCAATGCGATTATGACT
1 ATCGCAATGCGAATATGACA
* * *
29225 ATCGCAATGCGATTCTGACT
1 ATCGCAATGCGAATATGACA
* * * *
29245 ATCGCAACGCGATTCTGACT
1 ATCGCAATGCGAATATGACA
*
29265 GTCGCAATGCGA
1 ATCGCAATGCGA
29277 TTTTCAAAGC
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.01
20 91 0.97
21 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATATGACA
Found at i:29249 original size:40 final size:40
Alignment explanation
Indices: 29141--29278 Score: 161
Period size: 40 Copynumber: 3.5 Consensus size: 40
29131 GCGATTTTCC
* * *
29141 GACTATCGCAATGCGAATATATAAATCGCAATGCGAGTAT
1 GACTATCGCAATGCGATTATGTAAATCGCAATGCGATTAT
* * *
29181 GACTATCGCAACGCAAATATGTAAATCGCAATGCGATTAT
1 GACTATCGCAATGCGATTATGTAAATCGCAATGCGATTAT
* * * *
29221 GACTATCGCAATGCGATTCTG-ACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTATGTA-AATCGCAATGCGATTAT
*
29261 GACTGTCGCAATGCGATT
1 GACTATCGCAATGCGATT
29279 TTCAAAGCGC
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.01
40 84 0.99
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
GACTATCGCAATGCGATTATGTAAATCGCAATGCGATTAT
Found at i:29277 original size:20 final size:20
Alignment explanation
Indices: 29165--29278 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
29155 GAATATATAA
* *
29165 ATCGCAATGCGAGTATGACT
1 ATCGCAATGCGATTCTGACT
* * * * *
29185 ATCGCAACGCAAATATGTA-A
1 ATCGCAATGCGATTCTG-ACT
*
29205 ATCGCAATGCGATTATGACT
1 ATCGCAATGCGATTCTGACT
29225 ATCGCAATGCGATTCTGACT
1 ATCGCAATGCGATTCTGACT
*
29245 ATCGCAACGCGATTCTGACT
1 ATCGCAATGCGATTCTGACT
*
29265 GTCGCAATGCGATT
1 ATCGCAATGCGATT
29279 TTCAAAGCGC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 78 0.98
21 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATTCTGACT
Found at i:29478 original size:22 final size:22
Alignment explanation
Indices: 29453--29494 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
29443 GCGATATCCA
29453 TCCCCATCTCC-GACGAAATCAG
1 TCCCCATCTCCGGA-GAAATCAG
29475 TCCCCATCTCCGGAGAAATC
1 TCCCCATCTCCGGAGAAATC
29495 CGTCTATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.19
Consensus pattern (22 bp):
TCCCCATCTCCGGAGAAATCAG
Found at i:29939 original size:20 final size:20
Alignment explanation
Indices: 29869--29956 Score: 88
Period size: 20 Copynumber: 4.5 Consensus size: 20
29859 AGAATCGCAA
*
29869 TGCGATTTT-AGTTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** **
29888 TGCGATAGTCAAATTCGCGT
1 TGCGATTTTCATTTTCGCGT
** *
29908 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
29928 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
29948 TGCGATTTT
1 TGCGATTTT
29957 AAGTTTCAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 7 0.12
20 52 0.88
ACGTcount: A:0.15, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:29963 original size:20 final size:20
Alignment explanation
Indices: 29920--29963 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
29910 CGATAGTCAT
* *
29920 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
29940 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
29960 TTTC
1 TTTC
29964 AGAAACTATT
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:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:31895 original size:20 final size:20
Alignment explanation
Indices: 31870--31915 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
31860 TAGTTTACTT
31870 TCGCAACGCGGAA-ATGACTA
1 TCGCAACGC-GAATATGACTA
*
31890 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAATATGACTA
31910 TCGCAA
1 TCGCAA
31916 TGAAAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.20
Consensus pattern (20 bp):
TCGCAACGCGAATATGACTA
Found at i:31987 original size:20 final size:20
Alignment explanation
Indices: 31962--32026 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
31952 GATTCTCTCA
*
31962 TTGCGATAGTCAAATTCGTG
1 TTGCGATAGTCATATTCGTG
* **
31982 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATATTCGTG
32002 TTGCGATAGT--TATTCGTG
1 TTGCGATAGTCATATTCGTG
32020 TTGCGAT
1 TTGCGAT
32027 TTTAAGTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.32
20 26 0.68
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATATTCGTG
Found at i:32607 original size:21 final size:21
Alignment explanation
Indices: 32516--32614 Score: 92
Period size: 21 Copynumber: 4.7 Consensus size: 21
32506 AACTCACTTG
*
32516 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
32538 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
32558 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
32579 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
*
32600 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
32615 TCTCTCCCAA
Statistics
Matches: 60, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 3 0.05
21 56 0.93
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:32613 original size:42 final size:42
Alignment explanation
Indices: 32514--32623 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
32504 CCAACTCACT
* * *
32514 TGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCAC
* ** *
32556 TATCATCCCTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCAC
1 TGTCATCGTTCAAGAGGCCTCC-CCCACCGTTCAAGAGGCCAC
* * *
32598 TGTCATCGTTGAAGAGGTCTCTCCCA
1 TGTCATCGTTCAAGAGGCCTCCCCCA
32624 ACATTCTAGA
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
41 2 0.04
42 49 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
TGTCATCGTTCAAGAGGCCTCCCCCACCGTTCAAGAGGCCAC
Found at i:34087 original size:36 final size:30
Alignment explanation
Indices: 34007--34072 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
33997 ATAAGAGTTG
34007 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
34037 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
34067 ATTTGT
1 ATTTGT
34073 GCTTGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:34256 original size:20 final size:20
Alignment explanation
Indices: 34227--34559 Score: 148
Period size: 20 Copynumber: 17.6 Consensus size: 20
34217 TTTCTCATTA
*
34227 CGATAGTCAAATTC-CTGTTG
1 CGATAATCAAATTCGC-GTTG
34247 CGATAATCAAATTCGCGTTG
1 CGATAATCAAATTCGCGTTG
* *
34267 CGATAGTC-ATTTCGCGTTG
1 CGATAATCAAATTCGCGTTG
*
34286 CGAT--T---A-TCTCGTTG
1 CGATAATCAAATTCGCGTTG
* *
34300 TGATAGTCAAATTCGCGTTG
1 CGATAATCAAATTCGCGTTG
* *
34320 CGATAGTCAAATTCACGTTG
1 CGATAATCAAATTCGCGTTG
* * *
34340 AGATAGTCATATTCGCGTTG
1 CGATAATCAAATTCGCGTTG
** **
34360 CGATAGCCATTTTCGCGTTG
1 CGATAATCAAATTCGCGTTG
* **
34380 CGATAGTCATTTTCGCGTTG
1 CGATAATCAAATTCGCGTTG
* ** *
34400 CGATAGTCAGTTTCGCATTG
1 CGATAATCAAATTCGCGTTG
* *
34420 CGAT--T---A-TCCCATTG
1 CGATAATCAAATTCGCGTTG
*
34434 CGATAGTCAAATTCGCGTTG
1 CGATAATCAAATTCGCGTTG
* ** *
34454 CGATAGTCATTTTCGCATTG
1 CGATAATCAAATTCGCGTTG
* *
34474 AGAT--T---A-TCCCGTTG
1 CGATAATCAAATTCGCGTTG
* *
34488 CGATATTCAAATTCACGTTG
1 CGATAATCAAATTCGCGTTG
* * * *
34508 TGATAGTCATATTCGCATTG
1 CGATAATCAAATTCGCGTTG
* * *
34528 CGATAGTCATATTCGTGTTG
1 CGATAATCAAATTCGCGTTG
*
34548 CGATAGTCAAAT
1 CGATAATCAAAT
34560 GAATGTGTAA
Statistics
Matches: 254, Mismatches: 40, Indels: 38
0.77 0.12 0.11
Matches are distributed among these distances:
14 30 0.12
16 3 0.01
17 1 0.00
18 2 0.01
19 17 0.07
20 200 0.79
21 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CGATAATCAAATTCGCGTTG
Found at i:34310 original size:73 final size:73
Alignment explanation
Indices: 34178--34363 Score: 230
Period size: 73 Copynumber: 2.5 Consensus size: 73
34168 TTCAATCTGC
* * * * * *
34178 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCATTACGATAGTCAAATTC-C
1 ATCAAATTCGCGTTGCGATAGTC-ATTTCGCGTTGCGATTATCTCATTACGATAGTCAAATTCGC
34242 TGTTGCGATA
65 -GTTGCGATA
* **
34252 ATCAAATTCGCGTTGCGATAGTCATTTCGCGTTGCGATTATCTCGTTGTGATAGTCAAATTCGCG
1 ATCAAATTCGCGTTGCGATAGTCATTTCGCGTTGCGATTATCTCATTACGATAGTCAAATTCGCG
34317 TTGCGATA
66 TTGCGATA
* * *
34325 GTCAAATTCACGTTGAGATAGTCATATTCGCGTTGCGAT
1 ATCAAATTCGCGTTGCGATAGTCAT-TTCGCGTTGCGAT
34364 AGCCATTTTC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
73 62 0.63
74 36 0.37
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (73 bp):
ATCAAATTCGCGTTGCGATAGTCATTTCGCGTTGCGATTATCTCATTACGATAGTCAAATTCGCG
TTGCGATA
Found at i:34354 original size:40 final size:40
Alignment explanation
Indices: 34227--34559 Score: 274
Period size: 40 Copynumber: 8.8 Consensus size: 40
34217 TTTCTCATTA
* *
34227 CGATAGTCAAATTC-CTGTTGCGATAATCAAATTCGCGTTG
1 CGATAGTCATATTCGC-GTTGCGATAGTCAAATTCGCGTTG
*
34267 CGATAGTCAT-TTCGCGTTGCGAT--T---A-TCTCGTTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* * *
34300 TGATAGTCAAATTCGCGTTGCGATAGTCAAATTCACGTTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* * **
34340 AGATAGTCATATTCGCGTTGCGATAGCCATTTTCGCGTTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* ** *
34380 CGATAGTCATTTTCGCGTTGCGATAGTCAGTTTCGCATTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* *
34420 CG--A-T--TA-TCCCATTGCGATAGTCAAATTCGCGTTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* * * *
34454 CGATAGTCATTTTCGCATTGAGAT--T---A-TCCCGTTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
* * * * * *
34488 CGATATTCAAATTCACGTTGTGATAGTCATATTCGCATTG
1 CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
*
34528 CGATAGTCATATTCGTGTTGCGATAGTCAAAT
1 CGATAGTCATATTCGCGTTGCGATAGTCAAAT
34560 GAATGTGTAA
Statistics
Matches: 233, Mismatches: 40, Indels: 40
0.74 0.13 0.13
Matches are distributed among these distances:
33 15 0.06
34 64 0.27
35 2 0.01
36 3 0.01
37 3 0.01
38 2 0.01
39 14 0.06
40 130 0.56
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (40 bp):
CGATAGTCATATTCGCGTTGCGATAGTCAAATTCGCGTTG
Found at i:34459 original size:54 final size:53
Alignment explanation
Indices: 34377--34531 Score: 220
Period size: 54 Copynumber: 2.9 Consensus size: 53
34367 CATTTTCGCG
**
34377 TTGCGATAGTCATTTTCGCGTTGCGATAGTCAGTTTCGCATTGCGATTATCCCA
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCA-TTTCGCATTGCGATTATCCCA
* *
34431 TTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGAGATTATCCCG
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCA-TTTCGCATTGCGATTATCCCA
* * *
34485 TTGCGATATTCAAATTCACGTTGTGATAGTCATATTCGCATTGCGAT
1 TTGCGATAGTCAAATTCGCGTTGCGATAGTCAT-TTCGCATTGCGAT
34532 AGTCATATTC
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 90 0.99
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (53 bp):
TTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTCGCATTGCGATTATCCCA
Found at i:34461 original size:74 final size:73
Alignment explanation
Indices: 34357--34556 Score: 206
Period size: 74 Copynumber: 2.7 Consensus size: 73
34347 CATATTCGCG
* * *
34357 TTGCGATAGCCATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAGTTTCGCAT-TGC
1 TTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAGTTGCG-ATATGC
* * *
34421 GATTATCCCA
65 AAAT-TCACA
* * * * *
34431 TTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGAGATTA-TCCCGTTGCGATATT
1 TTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTGCGA-TAGT-CAGTTGCGATATG
*
34495 CAAATTCACG
64 CAAATTCACA
* * * *
34505 TTGTGATAGTCATATTCGCATTGCGATAGTCATATTCGTGTTGCGATAGTCA
1 TTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCA
34557 AATGAATGTG
Statistics
Matches: 102, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.03
74 87 0.85
75 12 0.12
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.36
Consensus pattern (73 bp):
TTGCGATAGTCATATTCGCGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAGTTGCGATATGCA
AATTCACA
Found at i:34758 original size:18 final size:18
Alignment explanation
Indices: 34735--34769 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34725 AAGCCGGTTG
*
34735 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
34753 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
34770 GCCTTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:37063 original size:24 final size:24
Alignment explanation
Indices: 37029--37082 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
37019 CTGAAACATC
37029 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
37053 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
37077 ATCAAA
1 ATCAAA
37083 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:37949 original size:20 final size:20
Alignment explanation
Indices: 37900--38014 Score: 92
Period size: 20 Copynumber: 5.8 Consensus size: 20
37890 TTGAAATTCA
* *
37900 GCATTGCGACAGTCAGAATC
1 GCATTGCGATAGTCATAATC
*
37920 GCGTTGCGATAGTCATAATC
1 GCATTGCGATAGTCATAATC
*
37940 GCATTGCGATTTA-T-ATATTC
1 GCATTGCGA--TAGTCATAATC
* * *
37960 ACGTTGCGATAGTCATACTC
1 GCATTGCGATAGTCATAATC
* * *
37980 GCATTGTGAT-TTACATATTC
1 GCATTGCGATAGT-CATAATC
38000 GCATTGCGATAGTCA
1 GCATTGCGATAGTCA
38015 GAAAATCGCA
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
18 2 0.03
19 2 0.03
20 66 0.89
21 2 0.03
22 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (20 bp):
GCATTGCGATAGTCATAATC
Found at i:37965 original size:40 final size:40
Alignment explanation
Indices: 37921--38014 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
37911 GTCAGAATCG
*
37921 CGTTGCGATAGTCATAATCGCATTGCGATTTATATATTCA
1 CGTTGCGATAGTCATAATCGCATTGCGATTTACATATTCA
* * *
37961 CGTTGCGATAGTCATACTCGCATTGTGATTTACATATTCG
1 CGTTGCGATAGTCATAATCGCATTGCGATTTACATATTCA
*
38001 CATTGCGATAGTCA
1 CGTTGCGATAGTCA
38015 GAAAATCGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (40 bp):
CGTTGCGATAGTCATAATCGCATTGCGATTTACATATTCA
Found at i:38600 original size:10 final size:10
Alignment explanation
Indices: 38581--38622 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
38571 TTCATCACAC
*
38581 CAAATCCTCT
1 CAAATTCTCT
38591 CAAATTCTCT
1 CAAATTCTCT
*
38601 CAAATACTCT
1 CAAATTCTCT
*
38611 TAAATTCTCT
1 CAAATTCTCT
38621 CA
1 CA
38623 TAGCTCGTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:38610 original size:20 final size:20
Alignment explanation
Indices: 38581--38622 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
38571 TTCATCACAC
*
38581 CAAATCCTCTCAAATTCTCT
1 CAAATACTCTCAAATTCTCT
*
38601 CAAATACTCTTAAATTCTCT
1 CAAATACTCTCAAATTCTCT
38621 CA
1 CA
38623 TAGCTCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (20 bp):
CAAATACTCTCAAATTCTCT
Found at i:38683 original size:28 final size:28
Alignment explanation
Indices: 38651--38729 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
38641 TTATAAGGTA
38651 TATTTTATTCTATTTAATATTTTGTTAG
1 TATTTTATTCTATTTAATATTTTGTTAG
*
38679 TATTTTATTCCT-TTCTCAA-ATTTTTTTAG
1 TATTTTATT-CTATT-T-AATATTTTGTTAG
* *
38708 TATTTTATT-TAATTAATTTTTT
1 TATTTTATTCTATTTAATATTTT
38730 TGCAGTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
26 2 0.05
27 6 0.14
28 12 0.28
29 21 0.49
30 2 0.05
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.66
Consensus pattern (28 bp):
TATTTTATTCTATTTAATATTTTGTTAG
Found at i:44512 original size:29 final size:30
Alignment explanation
Indices: 44474--44530 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
44464 GATATTTACG
* *
44474 GGTTGGGAGGATTATTGTTTG-ATGTTTTA
1 GGTTGAGAGGATTATTGTGTGAATGTTTTA
*
44503 GGTTGAGAGGATTGTTGTGTGAATGTTT
1 GGTTGAGAGGATTATTGTGTGAATGTTT
44531 ACGGGGTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.46
Consensus pattern (30 bp):
GGTTGAGAGGATTATTGTGTGAATGTTTTA
Found at i:45559 original size:2 final size:2
Alignment explanation
Indices: 45552--45581 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
45542 TAGTTTTTAT
45552 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
45582 ATGGATTATT
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):
TA
Found at i:51638 original size:27 final size:27
Alignment explanation
Indices: 51600--51659 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
51590 CTAAGATCCA
*
51600 TTCAACGATGATTTTGAAGGTGATTAG
1 TTCAACGATGATTCTGAAGGTGATTAG
51627 TTCAACGATGATTCTGAAGGTGATTAG
1 TTCAACGATGATTCTGAAGGTGATTAG
51654 TTCAAC
1 TTCAAC
51660 TAGAGCAATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (27 bp):
TTCAACGATGATTCTGAAGGTGATTAG
Found at i:52559 original size:20 final size:20
Alignment explanation
Indices: 52534--52587 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
52524 GGTTAAAGAC
52534 GGTATCGATACCATGAGTAT
1 GGTATCGATACCATGAGTAT
52554 GGTATCGATACCATGAGTAT
1 GGTATCGATACCATGAGTAT
52574 GGTATCGATACCAT
1 GGTATCGATACCAT
52588 TTTCAAGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (20 bp):
GGTATCGATACCATGAGTAT
Found at i:62016 original size:23 final size:23
Alignment explanation
Indices: 61980--62037 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
61970 TTGGGAAAAT
* *
61980 TATGTAGCACTTTGGTGCAAACC
1 TATGTGGCATTTTGGTGCAAACC
62003 TATGTGGCATTTTGGTGCAAACC
1 TATGTGGCATTTTGGTGCAAACC
62026 TATGTGGTCATT
1 TATGTGG-CATT
62038 CGGGACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 28 0.88
24 4 0.12
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.36
Consensus pattern (23 bp):
TATGTGGCATTTTGGTGCAAACC
Found at i:90397 original size:42 final size:42
Alignment explanation
Indices: 90310--90399 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
90300 TTTGTGCTCT
* * *
90310 AAGTGATGGTAGAGGCTCCAACCTTTAACCACTCCACGCTAA
1 AAGTTATGGTAAAGGCTCCAACCTTTAACCACTCCACACTAA
* * *
90352 AAGTTATGGTAAAGTCTCCAACCTTTAACCACTCCATACTGA
1 AAGTTATGGTAAAGGCTCCAACCTTTAACCACTCCACACTAA
90394 AAGTTA
1 AAGTTA
90400 GGTCCATCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
AAGTTATGGTAAAGGCTCCAACCTTTAACCACTCCACACTAA
Found at i:95344 original size:128 final size:130
Alignment explanation
Indices: 95092--95348 Score: 430
Period size: 128 Copynumber: 2.0 Consensus size: 130
95082 ATTGTTATAA
95092 AAACATTTTATAAAACGGAGCTCCATGACACAAGTTTAAATCAAAATATTACAAAATCTCTGAAT
1 AAACATTTTATAAAACGGAGCTCCATGACACAAGTTTAAATCAAAATATTACAAAATCTCTGAAT
*
95157 ACATTATAAGGGTCCTATGAATACATATGCCCATTAAAGCTAAAGTATAGTACTCTGAAGGGGGC
66 ACA-TATAAGGGTCCTATGAATACACATGCCCATTAAAGCTAAAGTATAGTACTCTGAAGGGGGC
95222 T
130 T
* * *
95223 AAACATTTTATAAAATGGATCTCCATGACACAAGTTTAAATCAAAATATTA-AAACTCTCTGAAT
1 AAACATTTTATAAAACGGAGCTCCATGACACAAGTTTAAATCAAAATATTACAAAATCTCTGAAT
*
95287 ACA-ATAAGGGTCCTATGAATACACATGCCCATTAAAGCTACAA-TATAGTACTTTGAAGGGGG
66 ACATATAAGGGTCCTATGAATACACATGCCCATTAAAGCTA-AAGTATAGTACTCTGAAGGGGG
95349 TTGTTGGAAG
Statistics
Matches: 120, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
128 54 0.45
129 2 0.02
130 15 0.12
131 49 0.41
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (130 bp):
AAACATTTTATAAAACGGAGCTCCATGACACAAGTTTAAATCAAAATATTACAAAATCTCTGAAT
ACATATAAGGGTCCTATGAATACACATGCCCATTAAAGCTAAAGTATAGTACTCTGAAGGGGGCT
Found at i:95837 original size:16 final size:16
Alignment explanation
Indices: 95816--95857 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
95806 ACTGGAAGGA
95816 AGTATCAGTATCATAT
1 AGTATCAGTATCATAT
95832 AGTATCAGTATCATAT
1 AGTATCAGTATCATAT
*
95848 AGCATCAGTA
1 AGTATCAGTA
95858 AAGTCCCCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (16 bp):
AGTATCAGTATCATAT
Found at i:98963 original size:85 final size:86
Alignment explanation
Indices: 98866--99079 Score: 231
Period size: 85 Copynumber: 2.5 Consensus size: 86
98856 AGAATTTTAT
* * * *
98866 GAAATTGAAAAAACTTAGAGGCTTTAATTATAAATGTATAAAATGAGGTTGAAAAA-ATAGGGGT
1 GAAATTGAAAAAACTTAGAGGCCTCAATTATAAA-GTATAAAATGAGATTGAAAAACATAAGGG-
* * *
98930 CTT-AGTTATAAAGGT-ATAATC
64 CTTCAATTATAAAGGTAAAAAGC
* * * * *
98951 GAGATTGAAAAAACTT-GGGAGCCTCAATTATAAAGGTAGAAATTGAGATTGAAAAACCTTAAGG
1 GAAATTGAAAAAACTTAGAG-GCCTCAATTATAAA-GTATAAAATGAGATTGAAAAA-CATAAGG
99015 GCTTCAATTATAAAGGTAAAAAGC
63 GCTTCAATTATAAAGGTAAAAAGC
*
99039 GAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGT-TAAAA
1 GAAATTGAAAAAACTTAGAGGCCTCAATTATAAAGTATAAAA
99080 AAAGTAGGAT
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
84 2 0.02
85 45 0.43
86 6 0.06
87 18 0.17
88 33 0.31
89 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (86 bp):
GAAATTGAAAAAACTTAGAGGCCTCAATTATAAAGTATAAAATGAGATTGAAAAACATAAGGGCT
TCAATTATAAAGGTAAAAAGC
Found at i:99080 original size:44 final size:44
Alignment explanation
Indices: 98866--99080 Score: 163
Period size: 44 Copynumber: 5.0 Consensus size: 44
98856 AGAATTTTAT
* * * *
98866 GAAATTGAAAAAACTT-AGAGGCTTTAATTATAAATGTATAAAA-T
1 GAAATTGAAAAAACTTAAG-GGCCTCAATTATAAAGGTA-AAAAGC
** * * * * * *
98910 GAGGTTGAAAAAA--TAGGGGTCTTAGTTATAAAGGT-ATAATC
1 GAAATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGC
* * * **
98951 GAGATTGAAAAAACTT-GGGAGCCTCAATTATAAAGGTAGAAATT
1 GAAATTGAAAAAACTTAAGG-GCCTCAATTATAAAGGTAAAAAGC
* * *
98995 GAGATTGAAAAACCTTAAGGGCTTCAATTATAAAGGTAAAAAGC
1 GAAATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGC
* *
99039 GAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTTAAAAA
1 GAAATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAA
99081 AAGTAGGATT
Statistics
Matches: 137, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
40 3 0.02
41 12 0.09
42 18 0.13
43 16 0.12
44 86 0.63
45 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.27
Consensus pattern (44 bp):
GAAATTGAAAAAACTTAAGGGCCTCAATTATAAAGGTAAAAAGC
Found at i:99105 original size:88 final size:85
Alignment explanation
Indices: 98866--99112 Score: 243
Period size: 88 Copynumber: 2.9 Consensus size: 85
98856 AGAATTTTAT
* * * *
98866 GAAATTGAAAAAACTTAGAGGCTTTAATTATAAA-TGTATAAAATGAGG-TTGAAAAAATAGGGG
1 GAAATTGAAAAAACTTAGAGGCCTCAATTATAAAGT-TAAAAAATGAGGATTGAAAAATTAGGGG
* * *
98929 TCTTAGTTATAAAGGTATAATC
65 -CTTAATTATAAAGGTAAAAGC
* * * * * *
98951 GAGATTGAAAAAACTT-GGGAGCCTCAATTATAAAGGTAGAAATTGA-GATTGAAAAACCTTAAG
1 GAAATTGAAAAAACTTAGAG-GCCTCAATTATAAAGTTAAAAAATGAGGATTGAAAAA--TTAGG
99014 GGCTTCAATTATAAAGGTAAAAAGC
63 GGCTT-AATTATAAAGGT-AAAAGC
* *
99039 GAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAAAGTAGGATT-ACAAAATTAGGG
1 GAAATTGAAAAAACTTAGAGGCCTCAATTATAAAGTTAAAAAATG-AGGATTGA-AAAATTAGGG
99103 GCTTAATTAT
64 GCTTAATTAT
99113 CCAAAAAAAA
Statistics
Matches: 131, Mismatches: 20, Indels: 20
0.77 0.12 0.12
Matches are distributed among these distances:
84 3 0.02
85 43 0.33
86 3 0.02
87 22 0.17
88 49 0.37
89 3 0.02
90 8 0.06
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (85 bp):
GAAATTGAAAAAACTTAGAGGCCTCAATTATAAAGTTAAAAAATGAGGATTGAAAAATTAGGGGC
TTAATTATAAAGGTAAAAGC
Found at i:99162 original size:158 final size:156
Alignment explanation
Indices: 98974--99268 Score: 420
Period size: 158 Copynumber: 1.9 Consensus size: 156
98964 CTTGGGAGCC
*
98974 TCAATTATAAAGGTAGAAATTGAGATTGAAAA-ACCTTAAGGGC-TTCAATT-ATAAAGGTAAAA
1 TCAAATATAAAGGTAGAAATTGAGATTGAAAACA-CTTAAGGGCATT-AATTGA-AAAGGTAAAA
99036 AGCGAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAAAGT-AGGATTACAAAATTA
63 AGCGAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTT--AAAAAGTGA-GATTA-AAAATTA
99100 GGGG-CTTAATTATCCAAAAAAAATTAGGGGCT
124 GGGGACTTAATTATCCAAAAAAAATTAGGGGCT
* * * *
99132 TCAAATATAAAGGTAGAAATTGAGATTGAAAACACTTAGGGGCATTAATTGAAAAGGTATATAGT
1 TCAAATATAAAGGTAGAAATTGAGATTGAAAACACTTAAGGGCATTAATTGAAAAGGTAAAAAGC
* * *
99197 GAGATTGAAAAAACTTAAGGGCCTCAATTATAAAGTTAAAATGTGAGATTAAAAATTAGGGGACT
66 GAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAATTAGGGGACT
99262 TAATTAT
131 TAATTAT
99269 AAAGATAAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
155 11 0.09
156 20 0.16
157 1 0.01
158 88 0.71
159 4 0.03
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (156 bp):
TCAAATATAAAGGTAGAAATTGAGATTGAAAACACTTAAGGGCATTAATTGAAAAGGTAAAAAGC
GAAATTGAAAAAACTTAAAGGCCTCAATTATAAAGTTAAAAAGTGAGATTAAAAATTAGGGGACT
TAATTATCCAAAAAAAATTAGGGGCT
Found at i:99270 original size:41 final size:41
Alignment explanation
Indices: 99118--99342 Score: 163
Period size: 44 Copynumber: 5.2 Consensus size: 41
99108 ATTATCCAAA
*
99118 AAAAATTAGGGGCTTCAAATATAAAGGTAGAAAT-TGAGATTG
1 AAAAATTAGGGGCTT-AATTATAAAGGTA-AAATGTGAGATTG
*
99160 AAAACACTTAGGGGCATTAATTGA-AAAGGT-ATATAGTGAGATTG
1 AAAA-A-TTAGGGGC-TTAATT-ATAAAGGTAAAAT-GTGAGATTG
* * *
99204 AAAAAACTTAAGGGCCTCAATTATAAAGTTAAAATGTGAGATT-
1 -AAAAA-TT-AGGGGCTTAATTATAAAGGTAAAATGTGAGATTG
* **
99247 AAAAATTAGGGGACTTAATTATAAAGATAAAAAAATG-GATTG
1 AAAAATTAGGGG-CTTAATTATAAAGGT-AAAATGTGAGATTG
* * * * *
99289 AAAAAATAGAGACTTCAATTATAAAGATAAAAAGTGAGATTG
1 AAAAATTAGGGGCTT-AATTATAAAGGTAAAATGTGAGATTG
99331 AATAAAATTAGG
1 -A-AAAATTAGG
99343 ACCTCAATTA
Statistics
Matches: 149, Mismatches: 17, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
40 4 0.03
41 29 0.19
42 44 0.30
43 3 0.02
44 54 0.36
45 15 0.10
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAATTAGGGGCTTAATTATAAAGGTAAAATGTGAGATTG
Found at i:99310 original size:42 final size:43
Alignment explanation
Indices: 99196--99352 Score: 141
Period size: 42 Copynumber: 3.7 Consensus size: 43
99186 AGGTATATAG
* * * **
99196 TGAGATTGAA-AAAACTTAAGGGCCTCAATTATAAAGTTAAAATG
1 TGAGATTGAATAAAA-TT-AGGACTTCAATTATAAAGATAAAAAA
99240 TGAGATT--A-AAAATTAGGGGACTT-AATTATAAAGATAAAAAAA
1 TGAGATTGAATAAAATTA--GGACTTCAATTATAAAGAT-AAAAAA
*
99282 TG-GATTGAA-AAAA-TAGAGACTTCAATTATAAAGATAAAAAG
1 TGAGATTGAATAAAATTAG-GACTTCAATTATAAAGATAAAAAA
*
99323 TGAGATTGAATAAAATTAGGACCTCAATTA
1 TGAGATTGAATAAAATTAGGACTTCAATTA
99353 CAAAAATTTA
Statistics
Matches: 96, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
40 2 0.02
41 29 0.30
42 36 0.38
43 19 0.20
44 10 0.10
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (43 bp):
TGAGATTGAATAAAATTAGGACTTCAATTATAAAGATAAAAAA
Found at i:99418 original size:28 final size:28
Alignment explanation
Indices: 99386--99441 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
99376 TAAAAAATTA
* *
99386 GGGG-CCAAATTATAAATATGAAGAAATG
1 GGGGCCCAAATTAAAAAGATGAA-AAATG
*
99414 GGGGCCCTAATTAAAAAGATGAAAAATG
1 GGGGCCCAAATTAAAAAGATGAAAAATG
99442 CTCAGGGCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.46, C:0.09, G:0.25, T:0.20
Consensus pattern (28 bp):
GGGGCCCAAATTAAAAAGATGAAAAATG
Found at i:100255 original size:21 final size:21
Alignment explanation
Indices: 100205--100256 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
100195 GTTATGATAT
* *
100205 TGACTTGGCATTTCACGATGT
1 TGACATGGCATTTCACGATGC
*
100226 TAACATGGCATTTCAC-AGTGC
1 TGACATGGCATTTCACGA-TGC
*
100247 TGACGTGGCA
1 TGACATGGCA
100257 ATCCAAGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 1 0.04
21 24 0.96
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TGACATGGCATTTCACGATGC
Found at i:108983 original size:30 final size:30
Alignment explanation
Indices: 108949--109007 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
108939 ATGAACGATC
108949 ATTTTGTAACAAAAAATAACGTTAGTGACT
1 ATTTTGTAACAAAAAATAACGTTAGTGACT
**
108979 ATTTTGTAACAAATGATAACGTTAGTGAC
1 ATTTTGTAACAAAAAATAACGTTAGTGAC
109008 CGATTTGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (30 bp):
ATTTTGTAACAAAAAATAACGTTAGTGACT
Found at i:109384 original size:70 final size:70
Alignment explanation
Indices: 109304--109434 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
109294 TTTATTGTGG
*
109304 TAATGATTTAGCACTTAAAATAAAGAATCATTGCAAAGAGTTTCATCATACATAATTTGATCAAG
1 TAATGATTTAGCACTTAAAATAAAGAATCATTGAAAAGAGTTTCATCATACATAATTTGATCAAG
109369 CCGAC
66 CCGAC
* *
109374 TAATGATTTAGCACTTAAAATAAATAATCATTGAAAAGAGTTTTATCATACATAATTTGAT
1 TAATGATTTAGCACTTAAAATAAAGAATCATTGAAAAGAGTTTCATCATACATAATTTGAT
109435 TTAGCACATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (70 bp):
TAATGATTTAGCACTTAAAATAAAGAATCATTGAAAAGAGTTTCATCATACATAATTTGATCAAG
CCGAC
Found at i:112830 original size:21 final size:23
Alignment explanation
Indices: 112786--112830 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
112776 CCCAAACCAC
*
112786 TTCTTTAACTTAAAATTCCAGCA
1 TTCTATAACTTAAAATTCCAGCA
112809 TTCTATAA-TTAAAATT-CAGCA
1 TTCTATAACTTAAAATTCCAGCA
112830 T
1 T
112831 CGTATACTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (23 bp):
TTCTATAACTTAAAATTCCAGCA
Found at i:114020 original size:29 final size:29
Alignment explanation
Indices: 113931--114020 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 29
113921 AGGCCAAAAT
* *
113931 ATTAAACTTTTAAAAATTGCATGTTTGGTC
1 ATTAAACTTTTAAAACTTACAT-TTTGGTC
* * * *
113961 CTTAAACTTTTCAAATCTTATACTTTGGTC
1 ATTAAACTTTT-AAAACTTACATTTTGGTC
* *
113991 ATTAAAATTTTAAAACTTACATTTTTGTC
1 ATTAAACTTTTAAAACTTACATTTTGGTC
114020 A
1 A
114021 CTACTAAAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
29 15 0.32
30 26 0.55
31 6 0.13
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (29 bp):
ATTAAACTTTTAAAACTTACATTTTGGTC
Found at i:115264 original size:16 final size:17
Alignment explanation
Indices: 115243--115274 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
115233 AATCACGATG
115243 ACCAAA-ATTTGATCAA
1 ACCAAATATTTGATCAA
115259 ACCAAATATTTGATCA
1 ACCAAATATTTGATCA
115275 CTCCAAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (17 bp):
ACCAAATATTTGATCAA
Found at i:117670 original size:2 final size:2
Alignment explanation
Indices: 117663--117687 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
117653 TCATGACATC
117663 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
117688 ATTTTACAAA
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:118650 original size:200 final size:199
Alignment explanation
Indices: 118186--119258 Score: 812
Period size: 200 Copynumber: 5.4 Consensus size: 199
118176 TTGAGAATAA
* * * * ***
118186 CTATATGTCAACCAAAGCTTTCAAGTTTGATTCCACTCAGCTCGAGAGCGCATTGAATGCATGGT
1 CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
* * * ** * * * * * *
118251 AACAACAAAGAGTTAC-TTCCAATCAAAATTCAAACCAAGGT-TCTTCAGCCACGAAGAAGACCT
66 AGCAGCAAGGAACTACATTTCAGTCAAAATTCAAATCGA-GTCT-TTAAGCCAAGAAGAAGACCT
* * * * **
118314 AGGTTGACTATGATTTGGCAATAAGGAACCACTTCCTAGCCAAATTTCAACATAGCTTAAGGTTA
129 AGGTTGACTGTGATTTGGCAATAAAGAACCACTTCCTAGTCAAATTTCGACATAGCTTAAGGCGA
118379 GAAGAG
194 GAAGAG
* * ** ** * * * **
118385 CTATCTGTCGACCAAAGCTTTTGAGTTTTATTATACTCAGTTCGAGAGCACATTGACTGCATGGT
1 CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
* * * *
118450 AGCAGCAAAGAACTACATTTCGGTCAAATTTCAAATCGAGAACTTTAAGCCAAGAAGAAGACAC-
66 AGCAGCAAGGAACTACATTTCAGTCAAAATTCAAATCGAG-TCTTTAAGCCAAGAAGAAGAC-CT
* * * * * **
118514 AGGTTAACTGTGATTTTGCAATAAAGGACCACTTCCTAGTCAGATATCGATGTAGCTTAAGGCGA
129 AGGTTGACTGTGATTTGGCAATAAAGAACCACTTCCTAGTCAAATTTCGACATAGCTTAAGGCGA
118579 GAAGAG
194 GAAGAG
* * *
118585 CTATGTGTCAACCAAAGCTTTCGAGTTCGATTCCGCTCAGCTCGAGAGCGCATCGACCACATGGT
1 CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
* ** * ** * * *
118650 AGTAGTGAGGAACTAAATTTTGGTTAAAATTCAAA-CTAAGGTCTTTAAGCCAAGAAGAATACCT
66 AGCAGCAAGGAACTACATTTCAGTCAAAATTCAAATC-GA-GTCTTTAAGCCAAGAAGAAGACCT
* * * * * ** * *
118714 CGGTTGGCTTTGATTTGGCAATAAAAAACCATTTTTTAGTCAAAATTT-GACATAGATTAAGGTG
129 AGGTTGACTGTGATTTGGCAATAAAGAACCACTTCCTAGTC-AAATTTCGACATAGCTTAAGGCG
118778 AGAAGAG
193 AGAAGAG
* * * * * * **
118785 C--TA----G-CCAAAGATTTCGAGTTTGATTCCACACAGCTTGAGAACACATCGACCGTATGGT
1 CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
* * * * * ** * * *
118843 ACCAGCGAGGAAATACCTTCCAGTCAAAATTCAAAAAGAGTTCTTTAATCCAAAAAGAAAACCTA
66 AGCAGCAAGGAACTACATTTCAGTCAAAATTCAAATCGAG-TCTTTAAGCCAAGAAGAAGACCTA
* * * * *
118908 GGTTGACTGTGATTTGGTAACAATGAACCACTTCCCAGTCAAATTTTGACGA-AGCTTAAGGCGA
130 GGTTGACTGTGATTTGGCAATAAAGAACCACTTCCTAGTCAAATTTCGAC-ATAGCTTAAGGCGA
* *
118972 GAAAAC
194 GAAGAG
* ** * * **
118978 CTATATGTTGACCAAAGCTTTTAAGTTCAATTCCACTCAACTTAAGAGCGCATCGACCACATGGT
1 CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
* * * * * *
119043 AGCAGTATGGAACTACCTTTCAGTCAAATTTTAAAAT-GATGTCTTTAAGACAAGAAGAAGACCT
66 AGCAGCAAGGAACTACATTTCAGTCAAA-ATTCAAATCGA-GTCTTTAAGCCAAGAAGAAGACCT
* * * **
119107 AGGTTGACTGCGATTTGGCGA-CAAGAAACCACTTCCTAGTCAAATTTCGACATAGCTTAAGGAA
129 AGGTTGACTGTGATTTGGCAATAAAG-AACCACTTCCTAGTCAAATTTCGACATAGCTTAAGGCG
*
119171 AGAAGAA
193 AGAAGAG
* * * * * * * * **
119178 TTATCTATCGACTAAAGCTTT-TATGTTCAATTTCACTTAGCTCGAGAG-GACATTAACCACATG
1 CTATATGTCGACCAAAGCTTTCGA-GTTCGATTCCACTCAGCTCGAGAGCG-CATCGACCACATG
119241 GTAGCAGCAAGGAACTAC
64 GTAGCAGCAAGGAACTAC
119259 CTTGCTGTTA
Statistics
Matches: 681, Mismatches: 168, Indels: 49
0.76 0.19 0.05
Matches are distributed among these distances:
192 7 0.01
193 139 0.20
194 1 0.00
195 2 0.00
198 1 0.00
199 76 0.11
200 442 0.65
201 13 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (199 bp):
CTATATGTCGACCAAAGCTTTCGAGTTCGATTCCACTCAGCTCGAGAGCGCATCGACCACATGGT
AGCAGCAAGGAACTACATTTCAGTCAAAATTCAAATCGAGTCTTTAAGCCAAGAAGAAGACCTAG
GTTGACTGTGATTTGGCAATAAAGAACCACTTCCTAGTCAAATTTCGACATAGCTTAAGGCGAGA
AGAG
Found at i:120160 original size:25 final size:25
Alignment explanation
Indices: 120130--120244 Score: 223
Period size: 25 Copynumber: 4.6 Consensus size: 25
120120 CCATCAACCC
120130 ATTTACAAGCAAGCCCCAAAGCCCA
1 ATTTACAAGCAAGCCCCAAAGCCCA
120155 ATTTACAAGCAAGCCCCAAAGCCCA
1 ATTTACAAGCAAGCCCCAAAGCCCA
120180 ATTTACAAGCAAGCCCCAAAGCCCA
1 ATTTACAAGCAAGCCCCAAAGCCCA
120205 ATTTACAAGCAAGCCCCAAAGCCCA
1 ATTTACAAGCAAGCCCCAAAGCCCA
120230 ATTTACAAGC-AGCCC
1 ATTTACAAGCAAGCCC
120245 ACGACATTAG
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
24 5 0.06
25 85 0.94
ACGTcount: A:0.39, C:0.36, G:0.12, T:0.13
Consensus pattern (25 bp):
ATTTACAAGCAAGCCCCAAAGCCCA
Found at i:121941 original size:41 final size:41
Alignment explanation
Indices: 121885--121979 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
121875 TTCTTTTGTT
* * * * * *
121885 AACGCTGCAACAGATTAGTACTTTAGCTGCACTTTTATACA
1 AACGCCGCAATAGATTAGAAATTTAGCGGCACTTTTAAACA
* **
121926 AACGCCTCAATAGATTAGAAATTTAGCGGCGTTTTTAAACA
1 AACGCCGCAATAGATTAGAAATTTAGCGGCACTTTTAAACA
*
121967 AAGGCCGCAATAG
1 AACGCCGCAATAG
121980 TATTTACCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (41 bp):
AACGCCGCAATAGATTAGAAATTTAGCGGCACTTTTAAACA
Found at i:126940 original size:45 final size:43
Alignment explanation
Indices: 126818--126979 Score: 138
Period size: 44 Copynumber: 3.8 Consensus size: 43
126808 TTTGTATCTC
* * * * *
126818 AAAATGCCGCTATAGAT-TTGATCTTTTGTGGGTTGT-TTC-A
1 AAAATGACGCTATAGATCTTGACCTTTTGCGCGTTTTGTTCAA
* * *
126858 AAAACGCCG-T-TAGATC-TGACCTTTTGCGGGTTTTGTTCTAA
1 AAAATGACGCTATAGATCTTGACCTTTTGCGCGTTTTGTTC-AA
* * * *
126899 AAAATGTCGCTATAGCTCTTGACCTTTTACGACGTTTTGTTCCA
1 AAAATGACGCTATAGATCTTGACCTTTTGCG-CGTTTTGTTCAA
*
126943 AAAATGACGCTATAGATCTCGACCTTTTGCGGCGTTT
1 AAAATGACGCTATAGATCTTGACCTTTTGC-GCGTTT
126980 GGCGTTTGTT
Statistics
Matches: 99, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
38 20 0.20
39 4 0.04
40 8 0.08
41 8 0.08
42 1 0.01
43 5 0.05
44 43 0.43
45 10 0.10
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (43 bp):
AAAATGACGCTATAGATCTTGACCTTTTGCGCGTTTTGTTCAA
Done.