Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006440.1 Hibiscus syriacus cultivar Beakdansim tig00015556_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: 287540
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:173039 original size:115 final size:114
Alignment explanation
Indices: 172858--173072 Score: 331
Period size: 115 Copynumber: 1.9 Consensus size: 114
172848 GATCATGCAG
* * * * *
172858 TTCATCTTTTAATTCCAATAATTGGTTTTGTGGTTCCTACCGAACCAGATCAAATAACTCAAAGA
1 TTCATCTTTCAAATCCAATAATTGGTTCTGTGGTTCATACCAAACCAGATCAAATAACTCAAAGA
*
172923 ACACTTCCAGAAGATACTATTGGGTCTCTTTATTTGTACTATGAGCACA
66 ACACTTCCAGAAGATACTATTGAGTCTCTTTATTTGTACTATGAGCACA
* *
172972 TTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATAATTGGTTCTGTGG-TTCATACCAAACCAGATCAAATAACTCAAAG
* *
173037 AACACTTCCAGAAGATGCTATTGAGTTTCTTTATTT
65 AACACTTCCAGAAGATACTATTGAGTCTCTTTATTT
173073 CAAATCCAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
114 29 0.32
115 61 0.68
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATAATTGGTTCTGTGGTTCATACCAAACCAGATCAAATAACTCAAAGA
ACACTTCCAGAAGATACTATTGAGTCTCTTTATTTGTACTATGAGCACA
Found at i:173089 original size:92 final size:92
Alignment explanation
Indices: 172970--173248 Score: 404
Period size: 92 Copynumber: 3.0 Consensus size: 92
172960 ACTATGAGCA
* * *
172970 CATTCATCTTTCAAATCCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGATAACTCAA
1 CATTCATATTTCAAATCCAATGATTGGTTTTGTGGGTTCATACCAAACCAGATCAGATAACTCAA
173035 AGAACACTTCCAGAAGATGCTATTGAG
66 AGAACACTTCCAGAAGATGCTATTGAG
* * *
173062 -TTTCTTTATTTCAAATCCAATGATTGGTTTTCG-GGGTTCATATCAAACCAGATCAGATAACTC
1 CATTC-ATATTTCAAATCCAATGATTGGTTTT-GTGGGTTCATACCAAACCAGATCAGATAACTC
173125 AAAGAACACTTCCAGAAGATGCTA-TGAG
64 AAAGAACACTTCCAGAAGATGCTATTGAG
* * *
173153 CACATTCATCTTTCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCAGATAACT
1 --CATTCATATTTCAAATCCAATGATTGGTTTTGT-GGGTTCATACCAAACCAGATCAGATAACT
173218 CAAAGAACACTTCCAGAAGATGCTA-TGAG
63 CAAAGAACACTTCCAGAAGATGCTATTGAG
173247 CA
1 CA
173249 CATGGCACTT
Statistics
Matches: 168, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
91 7 0.04
92 77 0.46
93 24 0.14
94 60 0.36
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (92 bp):
CATTCATATTTCAAATCCAATGATTGGTTTTGTGGGTTCATACCAAACCAGATCAGATAACTCAA
AGAACACTTCCAGAAGATGCTATTGAG
Found at i:173233 original size:94 final size:94
Alignment explanation
Indices: 172961--173251 Score: 448
Period size: 94 Copynumber: 3.1 Consensus size: 94
172951 TTTATTTGTA
* * *
172961 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTCTGT-GGTTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
173025 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
173054 CTATTGAG---TTTCTTTATTTCAAATCCAATGATTGG-TTTTCGGGGTTCATATCAAACCAGAT
1 CTA-TGAGCACATTC-ATCTTTCAAATCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGAT
173115 CAGATAACTCAAAGAACACTTCCAGAAGATG
64 CAGATAACTCAAAGAACACTTCCAGAAGATG
*
173146 CTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
173211 GATAACTCAAAGAACACTTCCAGAAGATG
66 GATAACTCAAAGAACACTTCCAGAAGATG
173240 CTATGAGCACAT
1 CTATGAGCACAT
173252 GGCACTTGTT
Statistics
Matches: 177, Mismatches: 14, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
91 9 0.05
92 72 0.41
93 22 0.12
94 74 0.42
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (94 bp):
CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTTGGGGTTCATACCAAACCAGATCA
GATAACTCAAAGAACACTTCCAGAAGATG
Found at i:174279 original size:12 final size:12
Alignment explanation
Indices: 174251--174305 Score: 69
Period size: 12 Copynumber: 4.6 Consensus size: 12
174241 TGACACCCTT
174251 TTTTCTTTTTTCTA
1 TTTTC-TTTTTC-A
174265 TTTTCTTTTTCA
1 TTTTCTTTTTCA
*
174277 TTTTTTTTTTCA
1 TTTTCTTTTTCA
174289 -TTT-TTTTTCA
1 TTTTCTTTTTCA
174299 TTTTCTT
1 TTTTCTT
174306 CAAGCATAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
10 7 0.18
11 6 0.16
12 14 0.37
13 6 0.16
14 5 0.13
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTTCA
Found at i:174292 original size:10 final size:11
Alignment explanation
Indices: 174256--174302 Score: 60
Period size: 10 Copynumber: 4.1 Consensus size: 11
174246 CCCTTTTTTC
174256 TTTTTTCTATTT
1 TTTTTTC-ATTT
174268 TCTTTTTCATTTT
1 T-TTTTTCA-TTT
174281 TTTTTTCA-TT
1 TTTTTTCATTT
174291 TTTTTTCATTT
1 TTTTTTCATTT
174302 T
1 T
174303 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 10 0.31
11 3 0.09
12 9 0.28
13 10 0.31
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:181673 original size:15 final size:15
Alignment explanation
Indices: 181650--181681 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
181640 TGAAATGAAT
181650 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
181665 AATGTATGTATGCAA
1 AATGAATGTATGCAA
181680 AA
1 AA
181682 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:185535 original size:25 final size:27
Alignment explanation
Indices: 185502--185554 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
185492 ATTTCGAAAT
185502 TATAATTAT-AA-AAAATATTAATTTA
1 TATAATTATAAATAAAATATTAATTTA
* *
185527 TATATTTATAAATAAAATATTTATTTA
1 TATAATTATAAATAAAATATTAATTTA
185554 T
1 T
185555 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 2 0.08
27 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATAATTATAAATAAAATATTAATTTA
Found at i:187169 original size:3 final size:3
Alignment explanation
Indices: 187163--187222 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
187153 TTTATTTAAT
* * *
187163 TAA TAA TAA TAA T-G TATA TAA TAA TTA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
187208 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
187223 AAATGGTAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 46 0.94
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:187185 original size:12 final size:12
Alignment explanation
Indices: 187159--187222 Score: 94
Period size: 12 Copynumber: 5.2 Consensus size: 12
187149 TTTATTTATT
187159 TAATTAATAATAA
1 TAATT-ATAATAA
187172 TAATGTAT-ATAA
1 TAAT-TATAATAA
187184 TAATTATAATAA
1 TAATTATAATAA
187196 TAATTATAATAA
1 TAATTATAATAA
*
187208 TAATAATAATAA
1 TAATTATAATAA
187220 TAA
1 TAA
187223 AAATGGTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
11 3 0.06
12 38 0.79
13 6 0.12
14 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TAATTATAATAA
Found at i:191185 original size:60 final size:60
Alignment explanation
Indices: 191081--191216 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 60
191071 AATAAATGGT
* * *
191081 AAAGTATAC-AAATGGT-CTTTGACTATACAATATTATTTTATTAAGTCCATCGATTATTA
1 AAAGT-TACAAAATGATCCTTTGACTATACAATATTACTTTATTAAGTCCATCGACTATTA
* * * * * * *
191140 AAAGTTATAAGATGATCCTTTGACTATAGATTGTTACTTTGTTAAGTCCTTCGACTATTA
1 AAAGTTACAAAATGATCCTTTGACTATACAATATTACTTTATTAAGTCCATCGACTATTA
191200 AAAGTTACAAAATGATC
1 AAAGTTACAAAATGATC
191217 ACCCAACTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 2 0.03
59 10 0.16
60 51 0.81
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (60 bp):
AAAGTTACAAAATGATCCTTTGACTATACAATATTACTTTATTAAGTCCATCGACTATTA
Found at i:206538 original size:16 final size:17
Alignment explanation
Indices: 206513--206547 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
206503 AAATTATAAA
206513 AAAAACCT-AAATCCCT
1 AAAAACCTAAAATCCCT
*
206529 AAAAATCTAAAATCCCT
1 AAAAACCTAAAATCCCT
206546 AA
1 AA
206548 CCTAACATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAACCTAAAATCCCT
Found at i:208087 original size:14 final size:14
Alignment explanation
Indices: 208068--208097 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
208058 TAGGGAACTC
208068 AAATATTCAACATA
1 AAATATTCAACATA
208082 AAATATTCAACATA
1 AAATATTCAACATA
208096 AA
1 AA
208098 GAAAAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATATTCAACATA
Found at i:210571 original size:29 final size:29
Alignment explanation
Indices: 210534--210620 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 29
210524 ATGGATTTGG
210534 TTAA-TGACCAAAATGCAAATTTTAAAAGT
1 TTAAGTGACCAAAATG-AAATTTTAAAAGT
210563 TT-AGTGACCAAAGTAT-AAATTTTGGAAAAGT
1 TTAAGTGACCAAA--ATGAAATTTT--AAAAGT
*
210594 TTAAG-GACAAAAATGATAATTTTAAAA
1 TTAAGTGACCAAAATGA-AATTTTAAAA
210621 TATTACATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
28 1 0.02
29 23 0.47
30 1 0.02
31 22 0.45
32 2 0.04
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (29 bp):
TTAAGTGACCAAAATGAAATTTTAAAAGT
Found at i:219074 original size:17 final size:17
Alignment explanation
Indices: 219054--219106 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
219044 TTAATGCACC
219054 TAGTTCATTGAATAAAT
1 TAGTTCATTGAATAAAT
* * * *
219071 TAGTTAATTGATTACAC
1 TAGTTCATTGAATAAAT
* *
219088 TAGTTCATTTAACAAAT
1 TAGTTCATTGAATAAAT
219105 TA
1 TA
219107 TCTTTTAATT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (17 bp):
TAGTTCATTGAATAAAT
Found at i:227082 original size:20 final size:20
Alignment explanation
Indices: 227057--227103 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
227047 ATTCATTTGA
227057 TTAGCTCATGTTCATTCATT
1 TTAGCTCATGTTCATTCATT
227077 TTAGCTCATGTTCATTCATT
1 TTAGCTCATGTTCATTCATT
227097 TTAGCTC
1 TTAGCTC
227104 TTAGACCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (20 bp):
TTAGCTCATGTTCATTCATT
Found at i:231712 original size:26 final size:26
Alignment explanation
Indices: 231676--231756 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
231666 AAATCACCAA
*
231676 AAAATGAACCCTCTTAGTGTAGATCT
1 AAAATGAACCCTCTTAGCGTAGATCT
231702 AAAATGAACCCTCTTAGCGTAGATCT
1 AAAATGAACCCTCTTAGCGTAGATCT
231728 AAAATGAACCCTCTTAGCGTAGATCT
1 AAAATGAACCCTCTTAGCGTAGATCT
231754 AAA
1 AAA
231757 TCGAAAGGTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (26 bp):
AAAATGAACCCTCTTAGCGTAGATCT
Found at i:232699 original size:22 final size:22
Alignment explanation
Indices: 232654--232714 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
232644 CTCAACAACG
* * *
232654 AAGGGATCCATTC-TTTTTGTA
1 AAGGGATCAATCCTTTTTTGAA
232675 AAGGGATCAATCCTTTTTTGAA
1 AAGGGATCAATCCTTTTTTGAA
*
232697 AA-GGATCGATCCTTTTTT
1 AAGGGATCAATCCTTTTTT
232715 TCGGGGGATC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 26 0.74
22 9 0.26
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (22 bp):
AAGGGATCAATCCTTTTTTGAA
Found at i:235194 original size:15 final size:16
Alignment explanation
Indices: 235157--235200 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
235147 GTTAGAAGAG
*
235157 AGAAAATGAAAAATAC
1 AGAAAATGAAAATTAC
235173 A-ATAAATGAAAATTA-
1 AGA-AAATGAAAATTAC
235188 AGAAAATGAAAAT
1 AGAAAATGAAAAT
235201 GAGATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.18
Consensus pattern (16 bp):
AGAAAATGAAAATTAC
Found at i:235523 original size:14 final size:12
Alignment explanation
Indices: 235496--235531 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
235486 TAATTCAAAA
235496 ACTGACCTAACT
1 ACTGACCTAACT
235508 ACTGACCTGAAACT
1 ACTGACCT--AACT
235522 ACTGACCTAA
1 ACTGACCTAA
235532 ATTTTGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
14 12 0.55
ACGTcount: A:0.36, C:0.31, G:0.11, T:0.22
Consensus pattern (12 bp):
ACTGACCTAACT
Found at i:236867 original size:23 final size:23
Alignment explanation
Indices: 236840--236883 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
236830 ATCGACAAAG
236840 GAACCCCATGCAACCGCACTAAA
1 GAACCCCATGCAACCGCACTAAA
236863 GAACCCCATGCAACCGCACTA
1 GAACCCCATGCAACCGCACTA
236884 TCTCTGCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.41, G:0.14, T:0.09
Consensus pattern (23 bp):
GAACCCCATGCAACCGCACTAAA
Found at i:244302 original size:13 final size:12
Alignment explanation
Indices: 244283--244316 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
244273 TGCTTAATCG
244283 AAAAAAAATAAA
1 AAAAAAAATAAA
*
244295 AGAAAAAATAAA
1 AAAAAAAATAAA
*
244307 AATAAAAATA
1 AAAAAAAATA
244317 TAACGGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAAAAAATAAA
Found at i:250114 original size:22 final size:22
Alignment explanation
Indices: 250079--250132 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
250069 CTCAATTTCA
**
250079 TCAAGAAAGCCTC-ATAATCAAC
1 TCAAGAAAATCTCAATAAT-AAC
250101 TCAAGAAAATCTCAATAATAAC
1 TCAAGAAAATCTCAATAATAAC
*
250123 TC-CGAAAATC
1 TCAAGAAAATC
250133 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.25
22 16 0.57
23 5 0.18
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.20
Consensus pattern (22 bp):
TCAAGAAAATCTCAATAATAAC
Found at i:251459 original size:14 final size:15
Alignment explanation
Indices: 251440--251472 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
251430 ACATGAAATA
251440 AATAAAAAAATAAG-
1 AATAAAAAAATAAGT
251454 AAT-AAAAAATAAGT
1 AATAAAAAAATAAGT
251468 AATAA
1 AATAA
251473 TATATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.59
14 6 0.35
15 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (15 bp):
AATAAAAAAATAAGT
Found at i:251517 original size:2 final size:2
Alignment explanation
Indices: 251512--251568 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
251502 CAATAAAACC
*
251512 AT AT AT AT -T AT A- AA AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
251551 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
251569 TTCAAAATTA
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
1 3 0.06
2 48 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:251608 original size:64 final size:62
Alignment explanation
Indices: 251530--251672 Score: 200
Period size: 64 Copynumber: 2.3 Consensus size: 62
251520 TATAAAATAT
* *
251530 AATAT-ATATATATATATATATATATATATATATATATATTTCAAAATTATATGTGATTTCAAAA
1 AATATAATATATATATATATATATAT-TA-AAATATATATTTCAAAACTATATGT--TTTCAAAA
251594 A
62 A
* *
251595 AATATAATATATATATATATATATATTAAAATATATATTTCAAAACTATATGTTTTGAAAAC
1 AATATAATATATATATATATATATATTAAAATATATATTTCAAAACTATATGTTTTCAAAAA
251657 AATAT-ATATATATATA
1 AATATAATATATATATA
251673 ATAAAAATCA
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
61 11 0.15
62 12 0.16
64 23 0.32
65 7 0.10
66 20 0.27
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (62 bp):
AATATAATATATATATATATATATATTAAAATATATATTTCAAAACTATATGTTTTCAAAAA
Found at i:253583 original size:22 final size:22
Alignment explanation
Indices: 253558--253628 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 22
253548 GGGATTTTAT
253558 TATTTCAAATTAATT-AAATCTA
1 TATTTCAAATTAATTAAAAT-TA
*
253580 TATTT--AATTAATTGAAATTA
1 TATTTCAAATTAATTAAAATTA
*
253600 AATATTCAAGATT-ATTAAAATATA
1 TAT-TTCAA-ATTAATTAAAAT-TA
253624 TATTT
1 TATTT
253629 AATTAACTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
20 12 0.30
21 6 0.15
22 5 0.12
23 10 0.25
24 7 0.17
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (22 bp):
TATTTCAAATTAATTAAAATTA
Found at i:253586 original size:90 final size:88
Alignment explanation
Indices: 253425--253600 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 88
253415 GACCTAACAC
*
253425 ATCCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTA
1 ATCCTCTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTA
*
253490 TATTTAATTAATTAGAATTTAATA
66 TATTTAATTAATT-GAAATTAATA
*
253514 ATCCTCTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCT
1 ATCCTCTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCT
253579 ATATTTAATTAATTGAAATTAA
65 ATATTTAATTAATTGAAATTAA
253601 ATATTCAAGA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 42 0.51
90 41 0.49
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (88 bp):
ATCCTCTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTA
TATTTAATTAATTGAAATTAATA
Found at i:254640 original size:18 final size:18
Alignment explanation
Indices: 254617--254652 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
254607 GAGACCCGCT
254617 CTGATACCAATTGTTAGC
1 CTGATACCAATTGTTAGC
254635 CTGATACCAATTGTTAGC
1 CTGATACCAATTGTTAGC
254653 TCTTACAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
CTGATACCAATTGTTAGC
Found at i:256522 original size:12 final size:13
Alignment explanation
Indices: 256500--256525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
256490 TTTCTTTGAA
256500 AATGAAAAAAAAT
1 AATGAAAAAAAAT
256513 AATGAAAAAAAAT
1 AATGAAAAAAAAT
256526 TAGGTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
AATGAAAAAAAAT
Found at i:257208 original size:29 final size:29
Alignment explanation
Indices: 257166--257232 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
257156 ATTTTATGTA
* *
257166 CTTTTAATTTCAACCTTTAAATTTCAA-C
1 CTTTAAATTTCAACATTTAAATTTCAATC
*
257194 CTTTAAATTTCCAACATTTATATTTCAATC
1 CTTTAAATTT-CAACATTTAAATTTCAATC
*
257224 CCTTAAATT
1 CTTTAAATT
257233 CTATTGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.27
29 15 0.45
30 9 0.27
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (29 bp):
CTTTAAATTTCAACATTTAAATTTCAATC
Found at i:257213 original size:15 final size:14
Alignment explanation
Indices: 257166--257232 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
257156 ATTTTATGTA
*
257166 CTTTTAATTTCAAC
1 CTTTAAATTTCAAC
257180 CTTTAAATTTCAAC
1 CTTTAAATTTCAAC
257194 CTTTAAATTTCCAAC
1 CTTTAAATTT-CAAC
* *
257209 ATTTATATTTCAATC
1 CTTTAAATTTCAA-C
*
257224 CCTTAAATT
1 CTTTAAATT
257233 CTATTGTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
14 26 0.58
15 19 0.42
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (14 bp):
CTTTAAATTTCAAC
Found at i:259269 original size:32 final size:32
Alignment explanation
Indices: 259233--259296 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
259223 ATTGATATCT
* *
259233 TATCATTTCCACCAACTGTGCCATTCATAATG
1 TATCAGTTCCACCAACGGTGCCATTCATAATG
*
259265 TATCAGTTGCACCAACGGTGCCATTCATAATG
1 TATCAGTTCCACCAACGGTGCCATTCATAATG
259297 GACACGAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (32 bp):
TATCAGTTCCACCAACGGTGCCATTCATAATG
Found at i:260664 original size:13 final size:13
Alignment explanation
Indices: 260646--260672 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
260636 GAGAATTTTC
260646 AATATTTTTCTTT
1 AATATTTTTCTTT
260659 AATATTTTTCTTT
1 AATATTTTTCTTT
260672 A
1 A
260673 TGGGTGAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
AATATTTTTCTTT
Found at i:265836 original size:29 final size:30
Alignment explanation
Indices: 265785--265852 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
265775 CAAAATATAT
*
265785 AACTTTTAAAAATTACATTTTTGTTCC-CTA
1 AACTTTTAAAAATTACATTTTTG-ACCACTA
**
265815 AACTTTTAAAAATTTTA-TTTTGACCACTA
1 AACTTTTAAAAATTACATTTTTGACCACTA
265844 AACTTTTAA
1 AACTTTTAA
265853 TACATACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 17 0.50
30 15 0.44
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.46
Consensus pattern (30 bp):
AACTTTTAAAAATTACATTTTTGACCACTA
Found at i:270518 original size:25 final size:25
Alignment explanation
Indices: 270489--270590 Score: 195
Period size: 25 Copynumber: 4.1 Consensus size: 25
270479 TACAAACTTA
*
270489 AGAATTTATTACAATTAACATGAAT
1 AGAATTGATTACAATTAACATGAAT
270514 AGAATTGATTACAATTAACATGAAT
1 AGAATTGATTACAATTAACATGAAT
270539 AGAATTGATTACAATTAACATGAAT
1 AGAATTGATTACAATTAACATGAAT
270564 AGAATTGATTACAATTAACATGAAT
1 AGAATTGATTACAATTAACATGAAT
270589 AG
1 AG
270591 TATATGCACT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (25 bp):
AGAATTGATTACAATTAACATGAAT
Found at i:270717 original size:23 final size:24
Alignment explanation
Indices: 270669--270725 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
270659 TATATGGCTT
* *
270669 TTGAAATCATAT-T-ATATAATTT
1 TTGAAAACATATATAATATAATTA
*
270691 TTGAAAATATATATAATATAA-TA
1 TTGAAAACATATATAATATAATTA
270714 TTGAAAACATAT
1 TTGAAAACATAT
270726 TATATGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 10 0.34
23 13 0.45
24 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.42
Consensus pattern (24 bp):
TTGAAAACATATATAATATAATTA
Found at i:270729 original size:24 final size:23
Alignment explanation
Indices: 270669--270729 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
270659 TATATGGCTT
* * *
270669 TTGAAATCATATTAT-ATAATTT
1 TTGAAAACATATTATAATAAATA
*
270691 TTGAAAATATA-TATAATATAATA
1 TTGAAAACATATTATAATA-AATA
270714 TTGAAAACATATTATA
1 TTGAAAACATATTATA
270730 TGTATTATCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 3 0.10
22 12 0.39
23 12 0.39
24 4 0.13
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (23 bp):
TTGAAAACATATTATAATAAATA
Found at i:276563 original size:17 final size:17
Alignment explanation
Indices: 276541--276573 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
276531 CGAAAAACAT
276541 AAAATATGACTTTTCGA
1 AAAATATGACTTTTCGA
276558 AAAATATGACTTTTCG
1 AAAATATGACTTTTCG
276574 GGTTAAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
AAAATATGACTTTTCGA
Found at i:276603 original size:16 final size:16
Alignment explanation
Indices: 276579--276618 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
276569 TTTCGGGTTA
*
276579 AAGTCAACTTTGGTCG
1 AAGTCAACTCTGGTCG
*
276595 AAGTTAACTCTGGTCG
1 AAGTCAACTCTGGTCG
276611 AAGTCAAC
1 AAGTCAAC
276619 GGGTCAGGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (16 bp):
AAGTCAACTCTGGTCG
Found at i:282250 original size:20 final size:21
Alignment explanation
Indices: 282227--282278 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
282217 GTATTATATT
282227 ATATACTATAATA-ATTTTTA
1 ATATACTATAATAGATTTTTA
*
282247 ATATACTAT-ATAGTTTTTTA
1 ATATACTATAATAGATTTTTA
*
282267 AAATA-TATAATA
1 ATATACTATAATA
282279 TAACTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
ATATACTATAATAGATTTTTA
Found at i:282296 original size:22 final size:21
Alignment explanation
Indices: 282261--282339 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
282251 ACTATATAGT
* *
282261 TTTTTAAAATATATAATATAA
1 TTTTGAAAACATATAATATAA
*
282282 CTTTTGAAAGCATAT-A-AT--
1 -TTTTGAAAACATATAATATAA
282300 TTTTGAAAACATATAATATAA
1 TTTTGAAAACATATAATATAA
*
282321 TTTTGAAAACATATTATAT
1 TTTTGAAAACATATAATAT
282340 GTATGATCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
17 13 0.27
18 1 0.02
19 2 0.04
20 2 0.04
21 19 0.40
22 11 0.23
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTTGAAAACATATAATATAA
Found at i:282297 original size:39 final size:38
Alignment explanation
Indices: 282254--282334 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 38
282244 TTAATATACT
* * * *
282254 ATATAGTTTTTTAAAATATATAATATAACTTTTGAAAGC
1 ATATAATTTTTGAAAACATATAATATAA-TTTTGAAAAC
282293 ATATAATTTTTGAAAACATATAATATAATTTTGAAAAC
1 ATATAATTTTTGAAAACATATAATATAATTTTGAAAAC
282331 ATAT
1 ATAT
282335 TATATGTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
38 13 0.34
39 25 0.66
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (38 bp):
ATATAATTTTTGAAAACATATAATATAATTTTGAAAAC
Found at i:282316 original size:17 final size:17
Alignment explanation
Indices: 282276--282316 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
282266 AAAATATATA
* *
282276 ATATAACTTTTGAAAGC
1 ATATAATTTTTGAAAAC
282293 ATATAATTTTTGAAAAC
1 ATATAATTTTTGAAAAC
282310 ATATAAT
1 ATATAAT
282317 ATAATTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (17 bp):
ATATAATTTTTGAAAAC
Found at i:284785 original size:44 final size:43
Alignment explanation
Indices: 284680--284847 Score: 203
Period size: 43 Copynumber: 3.9 Consensus size: 43
284670 TTTTTTAACA
* * * * *
284680 AAAAACGCCGCAATAAGTATTGATATTTAGCGGCATTTGT-GT
1 AAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCAT
* * * **
284722 GACAAACACCGCAATAGGTGTTTATATTTAGCGGTGTTTGTCAT
1 -AAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCAT
284766 AAAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCAT
1 -AAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCAT
* *
284810 AAAAACGCTGTAATAGGTGTTGATATTTAGCGGCATTT
1 AAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTT
284848 TTAGACAAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
43 69 0.64
44 39 0.36
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (43 bp):
AAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCAT
Found at i:284795 original size:87 final size:87
Alignment explanation
Indices: 284679--284842 Score: 222
Period size: 87 Copynumber: 1.9 Consensus size: 87
284669 ATTTTTTAAC
* * *
284679 AAAAAACGCCGCAATAAGTATTGATATTTAGCGGCATTTGT-GTGACAAACACCGCAATAGGTGT
1 AAAAAACACCGCAATAAGTATTGATATTTAGCGGCATTTGTCAT-AAAAACACCGCAATAGGTGT
*
284743 TTATATTTAGCGGTGTTTGTCAT
65 TGATATTTAGCGGTGTTTGTCAT
* * * * * *
284766 AAAAAACACCGTAATAGGTGTTGATATTTAGCGGCATTTGTCATAAAAACGCTGTAATAGGTGTT
1 AAAAAACACCGCAATAAGTATTGATATTTAGCGGCATTTGTCATAAAAACACCGCAATAGGTGTT
284831 GATATTTAGCGG
66 GATATTTAGCGG
284843 CATTTTTAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
87 65 0.98
88 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (87 bp):
AAAAAACACCGCAATAAGTATTGATATTTAGCGGCATTTGTCATAAAAACACCGCAATAGGTGTT
GATATTTAGCGGTGTTTGTCAT
Found at i:284919 original size:43 final size:42
Alignment explanation
Indices: 284872--285018 Score: 150
Period size: 43 Copynumber: 3.5 Consensus size: 42
284862 CAATATGTTA
* ** *
284872 TGATGTTTAGAGGTGATTTTCTCTTAAACGCCGCAGTAGGTGT
1 TGATGTTTTGAGG-GATTTTCTCACAAACGCCGTAGTAGGTGT
* * * *
284915 TGATGTTTTGTGGCATTTTCCCACAAACGTCGTAGTAGGTGT
1 TGATGTTTTGAGGGATTTTCTCACAAACGCCGTAGTAGGTGT
* * * *
284957 TGATGTTTTGCGGCGTTTTTCTCACAAACGCCGTAGTAGATAT
1 TGATGTTTTGAGG-GATTTTCTCACAAACGCCGTAGTAGGTGT
* *
285000 TGATGTTTTGTGGCATTTT
1 TGATGTTTTGAGGGATTTT
285019 TGCTAAAAAC
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 39 0.46
43 46 0.54
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (42 bp):
TGATGTTTTGAGGGATTTTCTCACAAACGCCGTAGTAGGTGT
Found at i:284941 original size:85 final size:85
Alignment explanation
Indices: 284778--285018 Score: 200
Period size: 85 Copynumber: 2.8 Consensus size: 85
284768 AAAACACCGT
* * * * * * * * *
284778 AATAGGTGTTGATATTTAGCGGC-ATTTGTCAT-AAAAACGCTGTAATAGGTGTTGATATTTAGC
1 AATAGGTGTTGATGTTTAGAGGCGATTT-TC-TCACAAACGCCGCAGTAGGTGTTGATGTTTTGT
* *
284841 GGCATTTTTAGACAAACGCCAC
64 GGCATTTTCACACAAACGCCAC
* * **
284863 AATATGT-TATGATGTTTAGAGGTGATTTTCTCTTAAACGCCGCAGTAGGTGTTGATGTTTTGTG
1 AATAGGTGT-TGATGTTTAGAGGCGATTTTCTCACAAACGCCGCAGTAGGTGTTGATGTTTTGTG
* * **
284927 GCATTTTCCCACAAACGTCGT
65 GCATTTTCACACAAACGCCAC
* * * * * * *
284948 AGTAGGTGTTGATGTTTTGCGGCGTTTTTCTCACAAACGCCGTAGTAGATATTGATGTTTTGTGG
1 AATAGGTGTTGATGTTTAGAGGCGATTTTCTCACAAACGCCGCAGTAGGTGTTGATGTTTTGTGG
285013 CATTTT
66 CATTTT
285019 TGCTAAAAAC
Statistics
Matches: 123, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
84 2 0.02
85 116 0.94
86 5 0.04
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (85 bp):
AATAGGTGTTGATGTTTAGAGGCGATTTTCTCACAAACGCCGCAGTAGGTGTTGATGTTTTGTGG
CATTTTCACACAAACGCCAC
Found at i:285019 original size:43 final size:43
Alignment explanation
Indices: 284888--285032 Score: 177
Period size: 43 Copynumber: 3.4 Consensus size: 43
284878 TTAGAGGTGA
** *
284888 TTTTCTCTTAAACGCCGCAGTAGGTGTTGATGTTTTGTGGCA-
1 TTTTCTCACAAACGCCGTAGTAGGTGTTGATGTTTTGTGGCAT
* * * *
284930 TTTTCCCACAAACGTCGTAGTAGGTGTTGATGTTTTGCGGCGT
1 TTTTCTCACAAACGCCGTAGTAGGTGTTGATGTTTTGTGGCAT
* *
284973 TTTTCTCACAAACGCCGTAGTAGATATTGATGTTTTGTGGCAT
1 TTTTCTCACAAACGCCGTAGTAGGTGTTGATGTTTTGTGGCAT
*
285016 TTTTGCT-AAAAACGCCG
1 TTTT-CTCACAAACGCCG
285033 GTAAAGGTCT
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 35 0.40
43 50 0.57
44 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (43 bp):
TTTTCTCACAAACGCCGTAGTAGGTGTTGATGTTTTGTGGCAT
Found at i:285069 original size:43 final size:42
Alignment explanation
Indices: 285009--285104 Score: 113
Period size: 43 Copynumber: 2.3 Consensus size: 42
284999 TTGATGTTTT
* * * *
285009 GTGGCATTTTTGCTAAAAACGCCGGTAAAGGTCT-GTATATA
1 GTGGCATTTTTGATAAAAAAGCCGCTAAAGGTATGGTATATA
* *
285050 GTGGCATTTTTAGGATAAAAAAGCCGCTAAATGTATGGTATATT
1 GTGGCATTTTT--GATAAAAAAGCCGCTAAAGGTATGGTATATA
285094 GTGGCATTTTT
1 GTGGCATTTTT
285105 TGTTACAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 11 0.24
43 18 0.39
44 17 0.37
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (42 bp):
GTGGCATTTTTGATAAAAAAGCCGCTAAAGGTATGGTATATA
Found at i:286394 original size:125 final size:127
Alignment explanation
Indices: 286167--286420 Score: 460
Period size: 125 Copynumber: 2.0 Consensus size: 127
286157 AATGATGATT
286167 TACAATTTGTTATAATTATTTCTTAAAAATACATCATACTTGTCTTTTTTATGAACTCTAAAATC
1 TACAATTTGTTATAATTATTTCTTAAAAATACATCATAC-T-TCTTTTTTATGAACTCTAAAATC
286232 TGACTGCATCTTCCCATTGGTACCTGAGCATTCCTGGTGGGACTGTTTGCAGCTTCTCTTCAAGG
64 TGACTGCATCTTCCCATTGGTACCTGAGCATTCCTGGTGGGACTG-TTGCAGCTTCTCTTCAAGG
286297 TACAATTTGTTATAATTATTTCTTAAAAATACATCATAC-TC-TTTTTATGAACTCT-AAATCTG
1 TACAATTTGTTATAATTATTTCTTAAAAATACATCATACTTCTTTTTTATGAACTCTAAAATCTG
286359 ACTGCATCTTCCCATTGGTACCTGAGCATTCCTGGTGGGACTGTTGCAGCTTCTCTTCAAGG
66 ACTGCATCTTCCCATTGGTACCTGAGCATTCCTGGTGGGACTGTTGCAGCTTCTCTTCAAGG
286421 CTGAGATCAT
Statistics
Matches: 124, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
124 19 0.15
125 50 0.40
126 14 0.11
127 2 0.02
130 39 0.31
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (127 bp):
TACAATTTGTTATAATTATTTCTTAAAAATACATCATACTTCTTTTTTATGAACTCTAAAATCTG
ACTGCATCTTCCCATTGGTACCTGAGCATTCCTGGTGGGACTGTTGCAGCTTCTCTTCAAGG
Done.