Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006530.1 Hibiscus syriacus cultivar Beakdansim tig00015919_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: 612433
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 3 of 4
Found at i:401529 original size:21 final size:21
Alignment explanation
Indices: 401503--401573 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
401493 GAAATGGAAA
401503 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
401524 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
401544 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
401565 ATCGCAACG
1 ATCGCAACG
401574 CGAAAAGGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 3 0.08
20 12 0.31
21 21 0.54
22 3 0.08
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:401533 original size:41 final size:41
Alignment explanation
Indices: 401483--401621 Score: 219
Period size: 41 Copynumber: 3.4 Consensus size: 41
401473 AATTTGGAAA
401483 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
401524 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
* * *
401565 ATCGCAACGCGAAAAGGAAAATCGCAACG-CGATTTTCA-ACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGAC-ACTGT-AGACT
401606 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
401622 CAGCGCGAAT
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.01
41 90 0.98
42 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGACACTGTAGACT
Found at i:401655 original size:20 final size:20
Alignment explanation
Indices: 401632--401677 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
401622 CAGCGCGAAT
* *
401632 TTGCGATACTGGAGATCGCG
1 TTGCGATACTAGAGATCGCA
*
401652 TTGCGA-ATTAGAGATCGCA
1 TTGCGATACTAGAGATCGCA
401671 TTGCGAT
1 TTGCGAT
401678 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATACTAGAGATCGCA
Found at i:401922 original size:4 final size:4
Alignment explanation
Indices: 401913--401945 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
401903 ATTAATATAC
*
401913 ACAT ACAT ACAT ACAT ACAT TCAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
401946 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:415047 original size:5 final size:5
Alignment explanation
Indices: 415039--415187 Score: 298
Period size: 5 Copynumber: 29.8 Consensus size: 5
415029 AAAATAAGAA
415039 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
415089 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
415139 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAA
415188 AAAAGAAGAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 144 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:415203 original size:13 final size:12
Alignment explanation
Indices: 415185--415280 Score: 77
Period size: 13 Copynumber: 7.2 Consensus size: 12
415175 AAATGAAATG
415185 AAAAAAAGAAGAA
1 AAAAAAAGAA-AA
415198 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
415210 GAAAGAAAGAAAA
1 -AAAAAAAGAAAA
415223 GAAAGAAAAGAAAGA
1 -AAA-AAAAGAAA-A
*
415238 AAAAAATGAAAA
1 AAAAAAAGAAAA
415250 TGAAAAAAA-AAGTAA
1 --AAAAAAAGAA--AA
415265 AAGAAAAAGAAAA
1 AA-AAAAAGAAAA
415278 AAA
1 AAA
415281 TAAATAAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
12 4 0.06
13 40 0.57
14 21 0.30
15 5 0.07
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:415209 original size:9 final size:9
Alignment explanation
Indices: 415186--415280 Score: 66
Period size: 9 Copynumber: 9.8 Consensus size: 9
415176 AATGAAATGA
415186 AAAAAAGAAG
1 AAAAAA-AAG
415196 AAAAAAAAAG
1 -AAAAAAAAG
*
415206 AAAAGAAAG
1 AAAAAAAAG
*
415215 AAAGAAAAG
1 AAAAAAAAG
*
415224 AAAGAAAAG
1 AAAAAAAAG
415233 AAAGAAAAA-
1 AAA-AAAAAG
* *
415242 AATGAAAATG
1 AA-AAAAAAG
415252 AAAAAAAAAG
1 -AAAAAAAAG
415262 TAAAAGAAAAAG
1 --AAA-AAAAAG
415274 AAAAAAA
1 AAAAAAA
415281 TAAATAAAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
9 37 0.53
10 15 0.21
11 12 0.17
12 6 0.09
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:415211 original size:18 final size:18
Alignment explanation
Indices: 415188--415279 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 18
415178 TGAAATGAAA
415188 AAAAGAAGAAAAAAAAAG
1 AAAAGAAGAAAAAAAAAG
415206 AAAAGAAAGAAAGAAAAGAAAG
1 AAAAG-AAG-AA-AAAA-AAAG
*
415228 AAAAGAA-AGAAAAAAATG
1 AAAAGAAGA-AAAAAAAAG
*
415246 -AAA-ATGAAAAAAAAAG
1 AAAAGAAGAAAAAAAAAG
415262 TAAAAGAA-AAAGAAAAAA
1 -AAAAGAAGAAA-AAAAAA
415280 ATAAATAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
16 9 0.15
17 4 0.07
18 14 0.23
19 15 0.25
20 3 0.05
21 6 0.10
22 9 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (18 bp):
AAAAGAAGAAAAAAAAAG
Found at i:415266 original size:6 final size:5
Alignment explanation
Indices: 415037--415277 Score: 114
Period size: 5 Copynumber: 48.4 Consensus size: 5
415027 ATAAAATAAG
* * * * * * * * *
415037 AAGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* * * * * * * * * *
415087 ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* * * * * * * * * *
415137 ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA ATGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* *
415187 AAAAA GAAGAA AAAAA AAGAA AAG-A AAG-A AAGAA AAG-A AAGAA AAG-A
1 AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
* *
415234 AAGAA AA-AA ATGAA AATGAA AAAAA AAGTAA AAGAAA AAGAA AA
1 AAGAA AAGAA AAGAA AA-GAA AAGAA AAG-AA AAG-AA AAGAA AA
415278 AAATAAATAA
Statistics
Matches: 218, Mismatches: 11, Indels: 14
0.90 0.05 0.06
Matches are distributed among these distances:
4 19 0.09
5 180 0.83
6 19 0.09
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.13
Consensus pattern (5 bp):
AAGAA
Found at i:415276 original size:22 final size:21
Alignment explanation
Indices: 415184--415280 Score: 74
Period size: 23 Copynumber: 4.4 Consensus size: 21
415174 GAAATGAAAT
415184 GAAAAAAAGAAGAAAA-AAAAA
1 GAAAAAAA-AAGAAAAGAAAAA
415205 GAAAAGAAAGAAAGAAAAG--AAA
1 G-AAA-AAA-AAAGAAAAGAAAAA
* **
415227 GAAAAGAAAGAAAAAAATGAAAA
1 GAAAA-AAA-AAGAAAAGAAAAA
415250 TGAAAAAAAAAGTAAAAGAAAAA
1 -GAAAAAAAAAG-AAAAGAAAAA
415273 GAAAAAAA
1 GAAAAAAA
415281 TAAATAAAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
20 2 0.03
21 12 0.20
22 17 0.28
23 24 0.39
24 6 0.10
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (21 bp):
GAAAAAAAAAGAAAAGAAAAA
Found at i:415289 original size:22 final size:22
Alignment explanation
Indices: 415184--415289 Score: 85
Period size: 22 Copynumber: 4.8 Consensus size: 22
415174 GAAATGAAAT
415184 GAAAAAAAGAAGA-AAA-AAAAA
1 GAAAAAAAGAA-ATAAAGAAAAA
* *
415205 GAAAAGAAAGAAAGAAA-AGAAA
1 GAAAA-AAAGAAATAAAGAAAAA
* *
415227 GAAAAGAAAGAAAAAAATGAAAAT
1 GAAAA-AAAGAAATAAA-GAAAAA
*
415251 GAAAAAAA-AAGTAAAAGAAAAA
1 GAAAAAAAGAAAT-AAAGAAAAA
*
415273 GAAAAAAATAAATAAAG
1 GAAAAAAAGAAATAAAG
415290 GATGGTTCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.08
22 48 0.68
23 9 0.13
24 8 0.11
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (22 bp):
GAAAAAAAGAAATAAAGAAAAA
Found at i:416809 original size:134 final size:134
Alignment explanation
Indices: 416606--417218 Score: 841
Period size: 134 Copynumber: 4.6 Consensus size: 134
416596 TGATGGAGTA
* * * * * * * *
416606 AATCAAAATTTTCTTGAGTATGACCTCACCTAAAGAGTAGC-GAAGAAAATTATTTTTCTTTCAG
1 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAG-AGCAGATTCTTTTTCTTTCAG
* *
416670 GTTTGATCTTCCTGAAGAGCAGTGAAGTAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCA
65 ATTTGATCTTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCA
416735 AAGTG
130 AAGTG
*
416740 AATCAAAGTTTCCTCGAGTATGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
1 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
* * *
416805 TTTGATCTTCCTGAAGAGCAGTGAAGAAAATCACATTCGATTCAATCTTCCCTGAAGAGCAACGA
66 TTTGATCTTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCAA
416870 AGTG
131 AGTG
* *
416874 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAGGAGTAGCATAGCAGATTCTTTTTCTTTCAGA
1 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
* * * **
416939 TTTAATCTTCCTGAAGAGCAGTGAAGCAAATCACATTTGATTCAATATTCCCTGAAGAGCAGTGA
66 TTTGATCTTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCAA
417004 AGTG
131 AGTG
* * * *
417008 AATCAAAGTTTCCTTGAGTCTGATCTCCCCTAAAGAGTAGCAGAGCATATTCTTCTTCTTTCAGA
1 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
* * * *
417073 TTTGATCTTCTTGAAGAGCAGCGAAGCAAATCACAGTCCGATTCAATCTTCCATGAAGAGCAGCA
66 TTTGATCTTCCTGAAGAGCAGTGAAGCAAATCACA-TTCGATTCAATCTTCCCTGAAGAGCAGCA
*
417138 AAGTA
130 AAGTG
* * * ** * * * *
417143 AATCAAAATTTTCTCGAGTCTGACCTCCCTTAAAGAGTAGTGGAGCATATTATTCTTCTTTCAAA
1 AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
*
417208 TTTAATCTTCC
66 TTTGATCTTCC
417219 CAAAAAAGAC
Statistics
Matches: 430, Mismatches: 47, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
134 337 0.78
135 93 0.22
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (134 bp):
AATCAAAGTTTCCTCGAGTCTGACCTCCCCTAAAGAGTAGCAGAGCAGATTCTTTTTCTTTCAGA
TTTGATCTTCCTGAAGAGCAGTGAAGCAAATCACATTCGATTCAATCTTCCCTGAAGAGCAGCAA
AGTG
Found at i:420263 original size:12 final size:12
Alignment explanation
Indices: 420246--420286 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
420236 GTTTTTAGAG
420246 AGTCAGGACGAT
1 AGTCAGGACGAT
420258 AGTCAGGACGAT
1 AGTCAGGACGAT
420270 AGTCAGGACGAT
1 AGTCAGGACGAT
420282 AGTCA
1 AGTCA
420287 ATTAATTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.17
Consensus pattern (12 bp):
AGTCAGGACGAT
Found at i:422509 original size:2 final size:2
Alignment explanation
Indices: 422502--422532 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
422492 TTATTTCTAT
422502 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
422533 TGCCTAGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:423355 original size:216 final size:216
Alignment explanation
Indices: 422957--423713 Score: 1240
Period size: 216 Copynumber: 3.5 Consensus size: 216
422947 TGAATTGCGA
422957 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
1 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
423022 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATATAATTAAGTAATAAGTATGGATCAATTTCAT
66 TCATTTAAAAAGTTATGGGCCAATT-TAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
*
423087 ATGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAA
130 ATGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATA
423152 TTAAACAACACACATTGATGAG
195 TTAAACAACACACATTGATGAG
* * ** *
423174 GGGTCAAATCAAAATAATTTTAAATTGTGATATGGAAATTAATACAAAAAAGTACTAAATTATAC
1 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
423239 TCATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTTAGA
66 TCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
423304 TGCAAATAAAATTTGGAGGACTAAATTGAATAAATATGAAATTACAAATAAAAATTTAAATATAT
131 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATAT
423369 TAAACAACACACATTGATGAG
196 TAAACAACACACATTGATGAG
*
423390 GGATCAAATCGAAATAATTTTAAATTGTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
1 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
423455 CCATTTAAAAAGTTATGGGCCAATTTAAAAATAAAAATAAGTAATAAGTATGAGTCAATTTCAGG
66 TCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
*
423520 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATAG
131 TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATAT
423585 TAAACAACACA-A---A--AG
196 TAAACAACACACATTGATGAG
** * *
423600 GGATCAAATCGAAATTTTTTTAAATTTTGAGGTTGAAATTAATACAAAAATGTACTAAATTATAC
1 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
423665 TCATTTAAAAAGTTATGGGCCAA-TTAATAAATATAAATAAGTAATAAGT
66 TCATTTAAAAAGTTATGGGCCAATTTAA-AAATATAAATAAGTAATAAGT
423714 TGAGAAAAAA
Statistics
Matches: 508, Mismatches: 31, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
209 4 0.01
210 104 0.20
212 1 0.00
215 1 0.00
216 313 0.62
217 85 0.17
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (216 bp):
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
TCATTTAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAGA
TGCAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATAT
TAAACAACACACATTGATGAG
Found at i:423751 original size:2 final size:2
Alignment explanation
Indices: 423738--423828 Score: 60
Period size: 2 Copynumber: 44.0 Consensus size: 2
423728 AAAACAACTA
* * *
423738 AT AT AG AT AT AT AT AT AT AT A- AT AT AA ACT AT AT AGT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * * *
423781 AT AA AGT AT AT GT AT -T AT AT AT AT AA ACT AT AT AGT TT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
423823 AT AT AT
1 AT AT AT
423829 TATGTATAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
1 2 0.03
2 61 0.90
3 5 0.07
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:423772 original size:20 final size:20
Alignment explanation
Indices: 423747--423854 Score: 82
Period size: 20 Copynumber: 5.4 Consensus size: 20
423737 AATATAGATA
423747 TATATATATATAATATAAAC
1 TATATATATATAATATAAAC
* *
423767 TATATAGTTTAT-ATATAAAG
1 TATATA-TATATAATATAAAC
*
423787 TATATGTATTATATATATAAAC
1 TATATATA-TATA-ATATAAAC
* *
423809 TATATAGTTTAT-ATATATA-
1 TATATA-TATATAATATAAAC
*
423828 T-TATGTATA-AAGTATAAAC
1 TATATATATATAA-TATAAAC
423847 TATATATA
1 TATATATA
423855 CCATGTATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
17 4 0.06
18 8 0.12
19 3 0.04
20 32 0.48
21 4 0.06
22 15 0.22
23 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (20 bp):
TATATATATATAATATAAAC
Found at i:423804 original size:22 final size:22
Alignment explanation
Indices: 423745--423827 Score: 102
Period size: 22 Copynumber: 3.9 Consensus size: 22
423735 CTAATATAGA
*
423745 TATATA-TATATATAATATAAAC
1 TATATAGTTTATAT-ATATAAAC
*
423767 TATATAG-TT-TATATATAAAG
1 TATATAGTTTATATATATAAAC
423787 TATAT-GTATTATATATATAAAC
1 TATATAGT-TTATATATATAAAC
423809 TATATAGTTTATATATATA
1 TATATAGTTTATATATATA
423828 TTATGTATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.02
20 12 0.23
21 5 0.09
22 33 0.62
23 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (22 bp):
TATATAGTTTATATATATAAAC
Found at i:423805 original size:42 final size:41
Alignment explanation
Indices: 423738--423852 Score: 141
Period size: 42 Copynumber: 2.9 Consensus size: 41
423728 AAAACAACTA
* *
423738 ATATAGATATATATA-TATATAATATAAACTATATAGTTTAT
1 ATATAAATATATGTATTATAT-ATATAAACTATATAGTTTAT
423779 ATATAAAGTATATGTATTATATATATAAACTATATAGTTTAT
1 ATATAAA-TATATGTATTATATATATAAACTATATAGTTTAT
*
423821 ATATATAT-TATGTA-TA-A-AGTATAAACTATATA
1 ATATAAATATATGTATTATATA-TATAAACTATATA
423853 TACCATGTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
37 1 0.01
38 14 0.21
39 2 0.03
40 6 0.09
41 7 0.10
42 33 0.49
43 5 0.07
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (41 bp):
ATATAAATATATGTATTATATATATAAACTATATAGTTTAT
Found at i:423933 original size:9 final size:9
Alignment explanation
Indices: 423919--423944 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
423909 GAAACTACAT
423919 AGTTTATAA
1 AGTTTATAA
423928 AGTTTATAA
1 AGTTTATAA
423937 AGTTTATA
1 AGTTTATA
423945 TACTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (9 bp):
AGTTTATAA
Found at i:424230 original size:13 final size:13
Alignment explanation
Indices: 424212--424275 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 13
424202 ATTATGTATA
424212 ATATATATAAATT
1 ATATATATAAATT
424225 ATATATATAACATAT
1 ATATATATAA-AT-T
**
424240 ATATATATAAACC
1 ATATATATAAATT
*
424253 ATATAAAGTAAATT
1 ATATATA-TAAATT
*
424267 ATTTATATA
1 ATATATATA
424276 GTATATAGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
13 18 0.44
14 12 0.29
15 11 0.27
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (13 bp):
ATATATATAAATT
Found at i:424232 original size:15 final size:14
Alignment explanation
Indices: 424212--424250 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
424202 ATTATGTATA
424212 ATATATATAAAT-T
1 ATATATATAAATAT
424225 ATATATATAACATAT
1 ATATATATAA-ATAT
424240 ATATATATAAA
1 ATATATATAAA
424251 CCATATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 10 0.42
14 3 0.12
15 11 0.46
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATATATAAATAT
Found at i:425059 original size:21 final size:21
Alignment explanation
Indices: 425026--425079 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
425016 TCTGGGCAGA
425026 GTGCATC-ATGCACATTCATT
1 GTGCATCGATGCACATTCATT
425046 GTGCATCGATGCACATTCATT
1 GTGCATCGATGCACATTCATT
425067 GTGCATCGATGCA
1 GTGCATCGATGCA
425080 TCAAGGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (21 bp):
GTGCATCGATGCACATTCATT
Found at i:425187 original size:64 final size:64
Alignment explanation
Indices: 425111--425270 Score: 186
Period size: 63 Copynumber: 2.5 Consensus size: 64
425101 TTGTTTGAAG
***
425111 GTGCATCGATGCATAAGGTATGCATCGATGCACTCTTTTGAAATAA-A-AACATCGAATGCA-AT
1 GTGCATCGATGCATAAGGTATGCATCGATGCA-TC-CCAG-AATAATACAACATCGAATGCATAT
425173 TA
63 TA
* *
425175 GTGCATCGATGCATAAGGCATGCATCGATGCATCCCAGAATAATACAACATCGAATGCATTTTA
1 GTGCATCGATGCATAAGGTATGCATCGATGCATCCCAGAATAATACAACATCGAATGCATATTA
* *
425239 -TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGGTA-TGCATCGATGCAT
425271 ACCTTCATTG
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
61 5 0.06
62 4 0.05
63 41 0.49
64 34 0.40
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCATAAGGTATGCATCGATGCATCCCAGAATAATACAACATCGAATGCATATTA
Found at i:426229 original size:24 final size:24
Alignment explanation
Indices: 426166--426231 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
426156 AAATCTTATA
426166 TGGCACTACGGTGC-AATTCTACG
1 TGGCACTACGGTGCAAATTCTACG
* *
426189 CGGTC-CTTCGG-GACAAATTCTACG
1 TGG-CACTACGGTG-CAAATTCTACG
426213 TGGCACTACGGTGCAAATT
1 TGGCACTACGGTGCAAATT
426232 TATACGAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
22 1 0.03
23 9 0.26
24 23 0.68
25 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTCTACG
Found at i:426882 original size:11 final size:11
Alignment explanation
Indices: 426866--426896 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
426856 TTACGAAATC
426866 ACTGTAGCAGT
1 ACTGTAGCAGT
*
426877 ACTGTAGCGGT
1 ACTGTAGCAGT
426888 ACTGTAGCA
1 ACTGTAGCA
426897 TTGCATCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (11 bp):
ACTGTAGCAGT
Found at i:427178 original size:20 final size:20
Alignment explanation
Indices: 427153--427203 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
427143 ATAGAAAGCC
* *
427153 TAAACCATAAACCTAAACAT
1 TAAACCCTAAAACTAAACAT
427173 TAAACCCTAAAACTAAACAT
1 TAAACCCTAAAACTAAACAT
427193 TAAACCCTAAA
1 TAAACCCTAAA
427204 TCCAAAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAAACTAAACAT
Found at i:427327 original size:2 final size:2
Alignment explanation
Indices: 427315--427358 Score: 56
Period size: 2 Copynumber: 22.0 Consensus size: 2
427305 ATAAACTATG
427315 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA -A CT- TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
427357 TA
1 TA
427359 AACCACATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 2 0.05
2 34 0.89
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:428360 original size:2 final size:2
Alignment explanation
Indices: 428283--428341 Score: 75
Period size: 2 Copynumber: 29.5 Consensus size: 2
428273 TATGTTTAAT
* * *
428283 TA TA TA TA TA TA TA TA TA TA AA TT TA TG TA TA TA CT- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
428325 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
428342 TATTCAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
1 1 0.02
2 47 0.96
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:428378 original size:179 final size:172
Alignment explanation
Indices: 428174--428504 Score: 574
Period size: 179 Copynumber: 1.9 Consensus size: 172
428164 ATTTAGTCAT
428174 GTATATAATTATAATTTATTTTTAATTTTCCCTTCTTTCTTTAATGTGCATAATTATTAAATGTT
1 GTATATAATTATAATTTATTTTTAATTTTCCCTTCTTTCTTTAATGTGCATAATTATTAAATGTT
*
428239 AATGTTAATTTTAGAATCTTTTATTTTAGTCACTTATGTTTAATTATATATATATATATATATAA
66 AATATTAATTTTAGAATCTTTTATTTTAGTCACTTATG-----TT-TA-AT-TATATATATATAA
428304 ATTTATGTATATACTTATATATATATATATATATATATTATTCAAAGTGA
123 ATTTATGTATATACTTATATATATATATATATATATATTATTCAAAGTGA
428354 GTATATAATTATAA-TTATTTTTAATTTTCCCTTCTTTCTTTAATGTGCATAATTATTAAATGTT
1 GTATATAATTATAATTTATTTTTAATTTTCCCTTCTTTCTTTAATGTGCATAATTATTAAATGTT
428418 AATATTAATTTTAGAATCTTTTATTTTAGTCACTTATGTTTAATTATATATATATAAATTTATGT
66 AATATTAATTTTAGAATCTTTTATTTTAGTCACTTATGTTTAATTATATATATATAAATTTATGT
428483 ATATACTTATATATATATATAT
131 ATATACTTATATATATATATAT
428505 TATTCAAAGT
Statistics
Matches: 150, Mismatches: 1, Indels: 9
0.94 0.01 0.06
Matches are distributed among these distances:
171 43 0.29
172 2 0.01
173 2 0.01
174 2 0.01
179 87 0.58
180 14 0.09
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (172 bp):
GTATATAATTATAATTTATTTTTAATTTTCCCTTCTTTCTTTAATGTGCATAATTATTAAATGTT
AATATTAATTTTAGAATCTTTTATTTTAGTCACTTATGTTTAATTATATATATATAAATTTATGT
ATATACTTATATATATATATATATATATATTATTCAAAGTGA
Found at i:428610 original size:20 final size:19
Alignment explanation
Indices: 428581--428623 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
428571 GTTATTTAGG
*
428581 AATTTAGAGAGAAATTGGGA
1 AATTTAGAGA-AAATAGGGA
* *
428601 AATTTTGAGAATATAGGGA
1 AATTTAGAGAAAATAGGGA
428620 AATT
1 AATT
428624 GAGAATTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (19 bp):
AATTTAGAGAAAATAGGGA
Found at i:428627 original size:17 final size:18
Alignment explanation
Indices: 428605--428659 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
428595 TTGGGAAATT
*
428605 TTGAGAA-TATAGGGAAA
1 TTGAGAATTAGAGGGAAA
428622 TTGAGAATTTAGAGGGAAA
1 TTGAGAA-TTAGAGGGAAA
428641 TTGAGAAATTTAGAGGGAA
1 TTGAG-AA-TTAGAGGGAA
428660 TAAAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 7 0.21
19 14 0.41
20 13 0.38
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (18 bp):
TTGAGAATTAGAGGGAAA
Found at i:428637 original size:19 final size:20
Alignment explanation
Indices: 428615--428659 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
428605 TTGAGAATAT
428615 AGGGAAATTGAG-AATTTAG
1 AGGGAAATTGAGAAATTTAG
428634 AGGGAAATTGAGAAATTTAG
1 AGGGAAATTGAGAAATTTAG
428654 AGGGAA
1 AGGGAA
428660 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.22
Consensus pattern (20 bp):
AGGGAAATTGAGAAATTTAG
Found at i:428900 original size:15 final size:16
Alignment explanation
Indices: 428872--428909 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
428862 TTTAATTATA
428872 TATATATGTATATAAAC
1 TATATATG-ATATAAAC
428889 TATATATG-TATAAAC
1 TATATATGATATAAAC
428904 TATATA
1 TATATA
428910 AAATATATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 13 0.62
17 8 0.38
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
TATATATGATATAAAC
Found at i:429191 original size:49 final size:48
Alignment explanation
Indices: 429115--429215 Score: 150
Period size: 49 Copynumber: 2.1 Consensus size: 48
429105 ACCCCTGAAT
*
429115 TATATATGTAACTTATAGTACATGTATGTATAAACCATGTATAGTATA
1 TATATATATAACTTATAGTACATGTATGTATAAACCATGTATAGTATA
* *
429163 TATATATATAAACTATATA-TATATGTATGTATAAATCATGTATAGTATA
1 TATATATAT-AACT-TATAGTACATGTATGTATAAACCATGTATAGTATA
429212 TATA
1 TATA
429216 AACTATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
48 8 0.17
49 36 0.75
50 4 0.08
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.42
Consensus pattern (48 bp):
TATATATATAACTTATAGTACATGTATGTATAAACCATGTATAGTATA
Found at i:429258 original size:2 final size:2
Alignment explanation
Indices: 429154--429249 Score: 68
Period size: 2 Copynumber: 46.0 Consensus size: 2
429144 ATAAACCATG
* * * *
429154 TA TA GTA TA TA TA TA TA TA AA CTA TA TA TA TA TG TA TG TA TA AA
1 TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * **
429198 TCA TG TA TA GTA TA TA TA AA CTA TA TA TA TA TA -A CC TA TA TA
1 T-A TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
429240 TA TA TA TA TA
1 TA TA TA TA TA
429250 AACTATATAA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
1 1 0.01
2 64 0.88
3 8 0.11
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:429258 original size:15 final size:15
Alignment explanation
Indices: 429161--429245 Score: 77
Period size: 15 Copynumber: 5.8 Consensus size: 15
429151 ATGTATAGTA
429161 TATATATATATAAAC
1 TATATATATATAAAC
*
429176 TATATATATAT---G
1 TATATATATATAAAC
* * * **
429188 TATGTATAAATCATG
1 TATATATATATAAAC
429203 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
429219 TATATATATATAACC
1 TATATATATATAAAC
429234 TATATATATATA
1 TATATATATATA
429246 TATAAACTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
12 9 0.16
15 37 0.65
16 11 0.19
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.42
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:429347 original size:7 final size:7
Alignment explanation
Indices: 429337--429384 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
429327 TTATAGAAAT
429337 CCTAAAC
1 CCTAAAC
429344 CCTAAAC
1 CCTAAAC
**
429351 TTTAAAC
1 CCTAAAC
429358 CCTAAAC
1 CCTAAAC
429365 CCTAAAC
1 CCTAAAC
*
429372 ACTAAAC
1 CCTAAAC
429379 CCTAAA
1 CCTAAA
429385 TCACATTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:429363 original size:21 final size:21
Alignment explanation
Indices: 429337--429384 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
429327 TTATAGAAAT
**
429337 CCTAAACCCTAAACTTTAAAC
1 CCTAAACCCTAAACACTAAAC
429358 CCTAAACCCTAAACACTAAAC
1 CCTAAACCCTAAACACTAAAC
429379 CCTAAA
1 CCTAAA
429385 TCACATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (21 bp):
CCTAAACCCTAAACACTAAAC
Found at i:429427 original size:18 final size:18
Alignment explanation
Indices: 429404--429439 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
429394 TATATTTTGA
429404 TTTTAATCTTTAATAAGT
1 TTTTAATCTTTAATAAGT
429422 TTTTAATCTTTAATAAGT
1 TTTTAATCTTTAATAAGT
429440 CCATCATTTC
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:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTAATCTTTAATAAGT
Found at i:429884 original size:16 final size:16
Alignment explanation
Indices: 429865--429903 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
429855 TGAGTCAATT
*
429865 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
429881 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
429897 ACAGGTC
1 ACAGGTC
429904 GGGTAATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:433010 original size:19 final size:19
Alignment explanation
Indices: 432986--433023 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
432976 TTTGCTATAA
432986 CCCTTTTGTCAGCTCACTT
1 CCCTTTTGTCAGCTCACTT
433005 CCCTTTTGTCAGCTCACTT
1 CCCTTTTGTCAGCTCACTT
433024 ACAGGGACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.37, G:0.11, T:0.42
Consensus pattern (19 bp):
CCCTTTTGTCAGCTCACTT
Found at i:434087 original size:31 final size:33
Alignment explanation
Indices: 434051--434116 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
434041 AAACATGAAA
* *
434051 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
434082 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
434115 AA
1 AA
434117 CTTGCCAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 20 0.65
32 1 0.03
33 10 0.32
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATGAAATTTCC
Found at i:438795 original size:31 final size:33
Alignment explanation
Indices: 438759--438824 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 33
438749 AAACATGAAA
* *
438759 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
*
438790 AATAAGTTGGTCACCAACCAAGATGAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATGAAATTTCC
438823 AA
1 AA
438825 CTTGCCAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 19 0.63
32 1 0.03
33 10 0.33
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATGAAATTTCC
Found at i:440641 original size:3 final size:3
Alignment explanation
Indices: 440633--440728 Score: 176
Period size: 3 Copynumber: 32.0 Consensus size: 3
440623 CACTATGCTG
440633 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
440681 TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
440726 TAT
1 TAT
440729 CAGCATCATG
Statistics
Matches: 91, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.02
3 86 0.95
4 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:440983 original size:17 final size:17
Alignment explanation
Indices: 440961--440997 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
440951 TCAGACAGAC
440961 GGCGGTGGTGAATTTCA
1 GGCGGTGGTGAATTTCA
440978 GGCGGTGGTGAATTTCA
1 GGCGGTGGTGAATTTCA
440995 GGC
1 GGC
440998 TTTGGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.43, T:0.27
Consensus pattern (17 bp):
GGCGGTGGTGAATTTCA
Found at i:443880 original size:24 final size:24
Alignment explanation
Indices: 443853--443916 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
443843 CCTAAACCAA
* *
443853 GCCCAAACATAAAACCCGAAATAG
1 GCCCAAACATAAAACCCAAAACAG
443877 GCCCAAACATAAAACCCAAAACAG
1 GCCCAAACATAAAACCCAAAACAG
* *
443901 ACCCAAACTTAAAACC
1 GCCCAAACATAAAACC
443917 TAAATCGGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.52, C:0.33, G:0.08, T:0.08
Consensus pattern (24 bp):
GCCCAAACATAAAACCCAAAACAG
Found at i:443927 original size:24 final size:24
Alignment explanation
Indices: 443854--443927 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
443844 CTAAACCAAG
*
443854 CCCAAACATAAAACCCGAAATAGG-
1 CCCAAACATAAAACCC-AAATCGGA
* *
443878 CCCAAACATAAAACCCAAAACAGA
1 CCCAAACATAAAACCCAAATCGGA
* *
443902 CCCAAACTTAAAACCTAAATCGGA
1 CCCAAACATAAAACCCAAATCGGA
443926 CC
1 CC
443928 TCAAGTCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 4 0.10
24 38 0.90
ACGTcount: A:0.50, C:0.32, G:0.08, T:0.09
Consensus pattern (24 bp):
CCCAAACATAAAACCCAAATCGGA
Found at i:443972 original size:25 final size:23
Alignment explanation
Indices: 443934--443989 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 23
443924 GACCTCAAGT
443934 CAAACCAACCCCAAACATAAAACC
1 CAAACCAACCCCAAA-ATAAAACC
* *
443958 CAAACCAGACCCCAAATTTAAACC
1 CAAACCA-ACCCCAAAATAAAACC
443982 CAAACCAA
1 CAAACCAA
443990 AACCCGACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 1 0.03
24 20 0.69
25 8 0.28
ACGTcount: A:0.52, C:0.39, G:0.02, T:0.07
Consensus pattern (23 bp):
CAAACCAACCCCAAAATAAAACC
Found at i:444028 original size:12 final size:12
Alignment explanation
Indices: 444011--444060 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
444001 GAGCCCAAAG
*
444011 AGAACCCGACCT
1 AGAACCCGACCC
444023 AGAACCCGACCC
1 AGAACCCGACCC
* *
444035 AGAACCCAAACC
1 AGAACCCGACCC
444047 A-AACCCGACCC
1 AGAACCCGACCC
444058 AGA
1 AGA
444061 GCCTAACCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 9 0.28
12 23 0.72
ACGTcount: A:0.40, C:0.44, G:0.14, T:0.02
Consensus pattern (12 bp):
AGAACCCGACCC
Found at i:444052 original size:35 final size:35
Alignment explanation
Indices: 443990--444056 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
443980 CCCAAACCAA
* * *
443990 AACCCGACCCGGAGCCCAAAGAGAACCCGACCTAG
1 AACCCGACCCAGAACCCAAACAGAACCCGACCTAG
444025 AACCCGACCCAGAACCCAAACCA-AACCCGACC
1 AACCCGACCCAGAACCCAAA-CAGAACCCGACC
444057 CAGAGCCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.37, C:0.45, G:0.16, T:0.01
Consensus pattern (35 bp):
AACCCGACCCAGAACCCAAACAGAACCCGACCTAG
Found at i:446306 original size:41 final size:41
Alignment explanation
Indices: 446196--446317 Score: 113
Period size: 40 Copynumber: 3.0 Consensus size: 41
446186 AATTGCAAAC
* * * * * *
446196 TACGAGTCTTTAGCGGCATTTGTACAAAAACGCCCCTAAAG
1 TACGAGTATTTAACAGCGTTTGTTCAAAAACGCCACTAAAG
* * *
446237 TAC-AATATTTAACAGCGTTTATAT-AAAAATGCCACTAAAG
1 TACGAGTATTTAACAGCGTTTGT-TCAAAAACGCCACTAAAG
* *
446277 TACGAGTATTTACCAGCGTTTGTTCAAAAAACGCCGCTAAA
1 TACGAGTATTTAACAGCGTTTGTTC-AAAAACGCCACTAAA
446318 AATGCCGCTA
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
40 31 0.49
41 19 0.30
42 13 0.21
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (41 bp):
TACGAGTATTTAACAGCGTTTGTTCAAAAACGCCACTAAAG
Found at i:446330 original size:11 final size:12
Alignment explanation
Indices: 446303--446332 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
446293 CGTTTGTTCA
446303 AAAAACGCCGCT
1 AAAAACGCCGCT
*
446315 AAAAATGCCGCT
1 AAAAACGCCGCT
446327 AAAAAC
1 AAAAAC
446333 CCATTTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.27, G:0.13, T:0.10
Consensus pattern (12 bp):
AAAAACGCCGCT
Found at i:449206 original size:21 final size:21
Alignment explanation
Indices: 449182--449228 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
449172 AATTTCACAA
*
449182 GAAAAGCTGGTTACATCCAAG
1 GAAAAGCTAGTTACATCCAAG
*
449203 GAAAAGCTAGTTACATCCCAG
1 GAAAAGCTAGTTACATCCAAG
449224 GAAAA
1 GAAAA
449229 AATCCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (21 bp):
GAAAAGCTAGTTACATCCAAG
Found at i:450719 original size:18 final size:17
Alignment explanation
Indices: 450696--450760 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 17
450686 ATTATTTTTA
450696 TTTTTTGTTTGTTCAATT
1 TTTTTTGTTT-TTCAATT
*
450714 TTTTTT-ATTTTCAATT
1 TTTTTTGTTTTTCAATT
*
450730 TTTTTTGTTTTTTTAATT
1 TTTTTTG-TTTTTCAATT
*
450748 TTCTTTGATTTTT
1 TTTTTTG-TTTTT
450761 TAGGTACATC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 13 0.32
17 2 0.05
18 25 0.62
ACGTcount: A:0.12, C:0.05, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTTTGTTTTTCAATT
Found at i:450740 original size:16 final size:16
Alignment explanation
Indices: 450696--450740 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
450686 ATTATTTTTA
450696 TTTTTTGTTTGTTCAATT
1 TTTTTTG-TT-TTCAATT
*
450714 TTTTTTATTTTCAATT
1 TTTTTTGTTTTCAATT
450730 TTTTTTGTTTT
1 TTTTTTGTTTT
450741 TTTAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 17 0.68
17 2 0.08
18 6 0.24
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTTGTTTTCAATT
Found at i:450749 original size:16 final size:16
Alignment explanation
Indices: 450695--450749 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
450685 TATTATTTTT
*
450695 ATTTTTTGTTTGTTCA
1 ATTTTTTGTTTTTTCA
450711 ATTTTTT-TTATTTTCA
1 ATTTTTTGTT-TTTTCA
*
450727 ATTTTTTTTGTTTTTTTA
1 A--TTTTTTGTTTTTTCA
450745 ATTTT
1 ATTTT
450750 CTTTGATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 2 0.06
16 17 0.52
18 12 0.36
19 2 0.06
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (16 bp):
ATTTTTTGTTTTTTCA
Found at i:451106 original size:117 final size:116
Alignment explanation
Indices: 450945--451166 Score: 320
Period size: 117 Copynumber: 1.9 Consensus size: 116
450935 GGACAGTGTA
* * ** *
450945 GAAAAAAGACTTGGTTCAAACCGTGCAGAAAAGTTCGAATAGAACAGTGTAGAAAAAATTGATTT
1 GAAAAAAGACTTGGTTCAAACCGTACAGAAAAGTTCGAACAGAACAGTACAGAAAAAATAGATTT
*
451010 GGTTCGAACAGTGCAAAAAAATACATAACAGATTCGAACAATGCAGTGCAG
66 GGTTCGAACAGTGCAAAAAAATACACAACAGATTCGAACAATGCAGTGCAG
* * *
451061 GAAAAATAGA-TTGGGTTCGAACTGTACAGAAAAGTTCGAACAGAACAGTACATAAAAAATAGAT
1 GAAAAA-AGACTT-GGTTCAAACCGTACAGAAAAGTTCGAACAGAACAGTACAGAAAAAATAGAT
* *
451125 TTGGTTCGAACAGTGCAGAAAAATACACAGCAGATTCGAACA
64 TTGGTTCGAACAGTGCAAAAAAATACACAACAGATTCGAACA
451167 GTGTAATGTA
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 8 0.09
117 85 0.91
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (116 bp):
GAAAAAAGACTTGGTTCAAACCGTACAGAAAAGTTCGAACAGAACAGTACAGAAAAAATAGATTT
GGTTCGAACAGTGCAAAAAAATACACAACAGATTCGAACAATGCAGTGCAG
Found at i:451225 original size:25 final size:25
Alignment explanation
Indices: 451177--451226 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
451167 GTGTAATGTA
* * *
451177 AAAAAATAACAGCACAGTTTTGGTT
1 AAAAAATAACAACACAATTATGGTT
*
451202 AAAAAATAACAATACAATTATGGTT
1 AAAAAATAACAACACAATTATGGTT
451227 TGAACGGTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (25 bp):
AAAAAATAACAACACAATTATGGTT
Found at i:451251 original size:33 final size:34
Alignment explanation
Indices: 451198--451264 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
451188 GCACAGTTTT
* *
451198 GGTTAAAAAATAACAATACAATTATGGTTTGAAC
1 GGTTAAAAAACAACAATACAATTATGGTTCGAAC
*
451232 GGTT-AAAAACAACAGTACAATTATGGTTCGAAC
1 GGTTAAAAAACAACAATACAATTATGGTTCGAAC
451265 TGTGAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (34 bp):
GGTTAAAAAACAACAATACAATTATGGTTCGAAC
Found at i:452242 original size:14 final size:15
Alignment explanation
Indices: 452223--452260 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
452213 TTCAATTGCC
*
452223 TTTCATT-TATTCTT
1 TTTCATTGTATTATT
*
452237 TTTCATTGTTTTATT
1 TTTCATTGTATTATT
452252 TTTCATTGT
1 TTTCATTGT
452261 GCTTCATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.13, C:0.11, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTCATTGTATTATT
Found at i:453176 original size:20 final size:21
Alignment explanation
Indices: 453153--453204 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
453143 AGTATTTTAA
453153 TTAGGATTTATTT-CTT-TATT
1 TTAGGATTTATTTACTTGT-TT
453173 TTAGGATTATATTTACCTTGTTT
1 TTAGGATT-TATTTA-CTTGTTT
453196 TTAGGATTT
1 TTAGGATTT
453205 TGAAGGCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.29
21 5 0.18
22 1 0.04
23 13 0.46
24 1 0.04
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (21 bp):
TTAGGATTTATTTACTTGTTT
Found at i:457673 original size:21 final size:21
Alignment explanation
Indices: 457634--457674 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
457624 CCACGATAGG
* *
457634 GGGTATCGGTACCCCTTCATA
1 GGGTATCGATACCCATTCATA
*
457655 GGGTATCGATACTCATTCAT
1 GGGTATCGATACCCATTCAT
457675 CAAATTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
GGGTATCGATACCCATTCATA
Found at i:457753 original size:33 final size:34
Alignment explanation
Indices: 457707--457773 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 34
457697 TTGCAGTCAG
* *
457707 GGGGTATAGATACCCCT-GGGGGTATCGATACCC
1 GGGGTATAAATACCCCTGGGGGGTATAGATACCC
457740 GGGGTATAAATACCCCTGGGGGGTATAGATACCC
1 GGGGTATAAATACCCCTGGGGGGTATAGATACCC
457774 TCCGAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.52
34 15 0.48
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (34 bp):
GGGGTATAAATACCCCTGGGGGGTATAGATACCC
Found at i:457774 original size:18 final size:18
Alignment explanation
Indices: 457706--457773 Score: 88
Period size: 19 Copynumber: 3.9 Consensus size: 18
457696 GTTGCAGTCA
457706 GGGGGTATAGATACCCCT
1 GGGGGTATAGATACCCCT
*
457724 GGGGGTATCGATA-CCC-
1 GGGGGTATAGATACCCCT
*
457740 -GGGGTATAAATACCCCT
1 GGGGGTATAGATACCCCT
457757 GGGGGGTATAGATACCC
1 -GGGGGTATAGATACCC
457774 TCCGAGCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.24
16 3 0.07
17 3 0.07
18 12 0.29
19 14 0.33
ACGTcount: A:0.24, C:0.22, G:0.34, T:0.21
Consensus pattern (18 bp):
GGGGGTATAGATACCCCT
Found at i:457970 original size:30 final size:30
Alignment explanation
Indices: 457912--457971 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
457902 AACTTTTAAT
457912 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
457942 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
457972 CTTAAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAGTCCAAAAACATTTTGC
Found at i:458109 original size:20 final size:19
Alignment explanation
Indices: 458082--458139 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
458072 TGTTTAATGA
*
458082 AAAAGATACCAATTGTTAC
1 AAAAGATAACAATTGTTAC
*
458101 AAAAGGATAATAATTGTTA-
1 AAAA-GATAACAATTGTTAC
458120 AAAAGATAAACAATTGTTAC
1 AAAAGAT-AACAATTGTTAC
458140 CAATTGTTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 18 0.55
20 12 0.36
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAGATAACAATTGTTAC
Found at i:458491 original size:20 final size:20
Alignment explanation
Indices: 458466--458503 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
458456 ACTTTATGCA
*
458466 ATACCAATTGTTGAAATTTG
1 ATACCAATTGTTAAAATTTG
458486 ATACCAATTGTTAAAATT
1 ATACCAATTGTTAAAATT
458504 AAGTGCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (20 bp):
ATACCAATTGTTAAAATTTG
Found at i:461128 original size:21 final size:21
Alignment explanation
Indices: 461094--461133 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
461084 AGTCGTATAT
461094 AGCCGTTGGAGATG-TTTTGG
1 AGCCGTTGGAGATGATTTTGG
*
461114 AGCCGTTTGGGGATGATTTT
1 AGCCG-TTGGAGATGATTTT
461134 TCTACTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (21 bp):
AGCCGTTGGAGATGATTTTGG
Found at i:461201 original size:21 final size:21
Alignment explanation
Indices: 461162--461202 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
461152 CCACGATAGG
* *
461162 GGGTATCGGTACCCCTTCATA
1 GGGTATCGATACCCATTCATA
*
461183 GGGTATCGATACTCATTCAT
1 GGGTATCGATACCCATTCAT
461203 CAAATTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
GGGTATCGATACCCATTCATA
Found at i:461443 original size:30 final size:30
Alignment explanation
Indices: 461409--461468 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
461399 AACTTTGAAT
461409 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
461439 AAATTCAATTCAAGTCCAAAAACATTTTGC
1 AAATTCAATTCAAGTCCAAAAACATTTTGC
461469 TTTAAATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATTCAATTCAAGTCCAAAAACATTTTGC
Found at i:463437 original size:13 final size:12
Alignment explanation
Indices: 463419--463491 Score: 66
Period size: 12 Copynumber: 6.3 Consensus size: 12
463409 GAAAAACACA
463419 AAAAAAAGAAAG
1 AAAAAAAGAAAG
463431 CAAAAAAAG--AG
1 -AAAAAAAGAAAG
*
463442 -GAAAAAGAAAG
1 AAAAAAAGAAAG
463453 AAAAAAAGAAA-
1 AAAAAAAGAAAG
*
463464 AAAAAAGAGATA-
1 AAAAAA-AGAAAG
*
463476 AAAAAAATAAAG
1 AAAAAAAGAAAG
463488 AAAA
1 AAAA
463492 TCGATCAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 6 0.12
11 13 0.26
12 23 0.46
13 8 0.16
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:463456 original size:18 final size:18
Alignment explanation
Indices: 463420--463491 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 18
463410 AAAAACACAA
463420 AAAAAAGAAAGCAAAAAAAG
1 AAAAAA-AAAG-AAAAAAAG
463440 AGGAAAAAGAAAGAAAAAAAG
1 A--AAAAA-AAAGAAAAAAAG
* *
463461 AAAAAAAAAGAGATAAA-
1 AAAAAAAAAGAAAAAAAG
*
463478 AAAAATAAAGAAAA
1 AAAAAAAAAGAAAA
463492 TCGATCAATC
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 11 0.24
18 9 0.20
19 5 0.11
20 1 0.02
21 9 0.20
22 10 0.22
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAAG
Found at i:463471 original size:22 final size:21
Alignment explanation
Indices: 463408--463468 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 21
463398 GAAGAGATAT
* *
463408 AGAAAAACACAAAAAAAAGAA
1 AGAAAAAAAGAAAAAAAAGAA
**
463429 AGCAAAAAAAGAGGAAAAAGAA
1 AG-AAAAAAAGAAAAAAAAGAA
463451 AGAAAAAAAGAAAAAAAA
1 AGAAAAAAAGAAAAAAAA
463469 AGAGATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAGAAAAAAAAGAA
Found at i:463478 original size:21 final size:20
Alignment explanation
Indices: 463420--463480 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
463410 AAAAACACAA
463420 AAAAAAGAAAGCAAAAAAAGAGG
1 AAAAAA-AAAG-AAAAAAAGA-G
*
463443 AAAAAGAAAGAAAAAAAGA-
1 AAAAAAAAAGAAAAAAAGAG
463462 AAAAAAAAGAGATAAAAAA
1 AAAAAAAA-AGA-AAAAAA
463481 AATAAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 7 0.21
20 3 0.09
21 15 0.44
22 4 0.12
23 5 0.15
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAAAGAG
Found at i:463478 original size:22 final size:23
Alignment explanation
Indices: 463387--463481 Score: 61
Period size: 22 Copynumber: 4.1 Consensus size: 23
463377 TTGACAACAC
* * *
463387 AAAGAGAAAAAGAAGAGATATAGAA
1 AAAGACAAAAA-AA-AGAAATAAAA
* *
463412 AAACACAAAAAAAAGAAAGCAAAA
1 AAAGACAAAAAAAAGAAA-TAAAA
** *
463436 AAAG--AGGAAAAAGAAAGAAAA
1 AAAGACAAAAAAAAGAAATAAAA
*
463457 AAAGA-AAAAAAAAGAGATAAAA
1 AAAGACAAAAAAAAGAAATAAAA
463479 AAA
1 AAA
463482 ATAAAGAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
21 8 0.15
22 26 0.47
23 4 0.07
24 8 0.15
25 9 0.16
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (23 bp):
AAAGACAAAAAAAAGAAATAAAA
Found at i:463491 original size:22 final size:22
Alignment explanation
Indices: 463419--463491 Score: 51
Period size: 23 Copynumber: 3.2 Consensus size: 22
463409 GAAAAACACA
**
463419 AAAAAAAGAAAGCAAAA-AAAG
1 AAAAAAAGAAAAAAAAAGAAAG
*
463440 AGGAAAAAGAAAGAAAAAAAGAAA-
1 A-AAAAAAG-AA-AAAAAAAGAAAG
*
463464 AAAAAAGAGATAAAAAAAATAAAG
1 AAAAAA-AGA-AAAAAAAAGAAAG
463488 AAAA
1 AAAA
463492 TCGATCAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
21 1 0.03
22 6 0.15
23 17 0.43
24 13 0.32
25 3 0.08
ACGTcount: A:0.81, C:0.01, G:0.15, T:0.03
Consensus pattern (22 bp):
AAAAAAAGAAAAAAAAAGAAAG
Found at i:464160 original size:13 final size:13
Alignment explanation
Indices: 464142--464218 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
464132 CCTGAAACAC
*
464142 ATTATCTTCCCAA
1 ATTATCTTACCAA
* *
464155 ATTATCTTGAAACAC
1 ATTATCTT--ACCAA
*
464170 ATTATCTTTCCAA
1 ATTATCTTACCAA
* *
464183 ATTATCTTGAAGCAC
1 ATTATCTT--ACCAA
*
464198 ATTATCTTTCCAA
1 ATTATCTTACCAA
464211 ATTATCTT
1 ATTATCTT
464219 GAAACACATT
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
13 28 0.58
15 20 0.42
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (13 bp):
ATTATCTTACCAA
Found at i:464174 original size:28 final size:28
Alignment explanation
Indices: 464134--464234 Score: 175
Period size: 28 Copynumber: 3.6 Consensus size: 28
464124 GAAACCAACC
464134 TGAAACACATTATCTTCCCAAATTATCT
1 TGAAACACATTATCTTCCCAAATTATCT
*
464162 TGAAACACATTATCTTTCCAAATTATCT
1 TGAAACACATTATCTTCCCAAATTATCT
* *
464190 TGAAGCACATTATCTTTCCAAATTATCT
1 TGAAACACATTATCTTCCCAAATTATCT
464218 TGAAACACATTATCTTC
1 TGAAACACATTATCTTC
464235 TCAAGTTAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (28 bp):
TGAAACACATTATCTTCCCAAATTATCT
Found at i:464175 original size:15 final size:15
Alignment explanation
Indices: 464134--464233 Score: 68
Period size: 15 Copynumber: 7.1 Consensus size: 15
464124 GAAACCAACC
464134 TGAAACACATTATCT
1 TGAAACACATTATCT
** *
464149 T--CCCAAATTATCT
1 TGAAACACATTATCT
464162 TGAAACACATTATCT
1 TGAAACACATTATCT
** *
464177 T--TCCAAATTATCT
1 TGAAACACATTATCT
*
464190 TGAAGCACATTATCT
1 TGAAACACATTATCT
** *
464205 T--TCCAAATTATCT
1 TGAAACACATTATCT
464218 TGAAACACATTATCT
1 TGAAACACATTATCT
464233 T
1 T
464234 CTCAAGTTAA
Statistics
Matches: 61, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
13 30 0.49
15 31 0.51
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (15 bp):
TGAAACACATTATCT
Found at i:465382 original size:24 final size:24
Alignment explanation
Indices: 465350--465399 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
465340 ACACATGGAA
465350 GGTTATTCAACTAGGGGGGATTGT
1 GGTTATTCAACTAGGGGGGATTGT
*
465374 GGTTGTTCAACTAGGGGGGATTGT
1 GGTTATTCAACTAGGGGGGATTGT
465398 GG
1 GG
465400 GATGGCCTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.08, G:0.42, T:0.32
Consensus pattern (24 bp):
GGTTATTCAACTAGGGGGGATTGT
Found at i:467712 original size:35 final size:35
Alignment explanation
Indices: 467673--467751 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
467663 CTAACTTTTA
* *
467673 GCGGCGTTTATTAGTATAAAACGCCACTAACAGTT
1 GCGGCGTTTATTAGTAAAAAACGCCACTAACAGCT
*
467708 GCGGCGTTTATTAGTAAAAAACGCTACTAACAGCT
1 GCGGCGTTTATTAGTAAAAAACGCCACTAACAGCT
467743 GCGGCGTTT
1 GCGGCGTTT
467752 GTATTACCGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (35 bp):
GCGGCGTTTATTAGTAAAAAACGCCACTAACAGCT
Found at i:468892 original size:17 final size:17
Alignment explanation
Indices: 468870--468915 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
468860 TAGTGACCCA
468870 CCGATCCGACCTGTGAC
1 CCGATCCGACCTGTGAC
468887 CCGATCCGACCTGTGAC
1 CCGATCCGACCTGTGAC
*
468904 CCGATCCAACCT
1 CCGATCCGACCT
468916 AACCAGGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.17
Consensus pattern (17 bp):
CCGATCCGACCTGTGAC
Found at i:469132 original size:13 final size:13
Alignment explanation
Indices: 469105--469201 Score: 56
Period size: 13 Copynumber: 7.2 Consensus size: 13
469095 TTTAATTAGT
*
469105 TTTTATTTGTTTA
1 TTTTATTTCTTTA
469118 -TTTATTTTCTTTA
1 TTTTA-TTTCTTTA
*
469131 TTTTATTTCTTTT
1 TTTTATTTCTTTA
* * *
469144 TTTTCTCTCTTCAA
1 TTTTATTTCTT-TA
*
469158 TTTT-TTT-TTGA
1 TTTTATTTCTTTA
*
469169 TTTTATTTTGTTTTGA
1 TTTTA-TTT-CTTT-A
469185 TTTTATTTCTTTTA
1 TTTTATTTC-TTTA
469199 TTT
1 TTT
469202 CTTTTAATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
11 5 0.08
12 6 0.09
13 28 0.43
14 12 0.18
15 8 0.12
16 6 0.09
ACGTcount: A:0.12, C:0.07, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTTATTTCTTTA
Found at i:469143 original size:9 final size:9
Alignment explanation
Indices: 469105--469322 Score: 53
Period size: 9 Copynumber: 24.0 Consensus size: 9
469095 TTTAATTAGT
469105 TTTTATTT-
1 TTTTATTTA
*
469113 GTTTATTTA
1 TTTTATTTA
*
469122 TTTTCTTTA
1 TTTTATTTA
*
469131 TTTTATTTC
1 TTTTATTTA
* *
469140 TTTTTTTTC
1 TTTTATTTA
469149 TCTCTTCAATTT-
1 T-T-TT--ATTTA
*
469161 TTTT-TTGA
1 TTTTATTTA
469169 TTTTATTT-
1 TTTTATTTA
* *
469177 TGTT-TTGA
1 TTTTATTTA
*
469185 TTTTATTTC
1 TTTTATTTA
*
469194 TTTTATTTC
1 TTTTATTTA
*
469203 TTTTAATTA
1 TTTTATTTA
* *
469212 TATATATATA
1 T-TTTATTTA
*
469222 TATTATTTA
1 TTTTATTTA
469231 TTTCT-TTT-
1 TTT-TATTTA
*
469239 TTTCCCTTTTTA
1 TTT---TATTTA
*
469251 -TGTAGTTT-
1 TTTTA-TTTA
* *
469259 TTTAGATTTG
1 TTT-TATTTA
469269 TTATTATTTA
1 TT-TTATTTA
*
469279 TTTCATTTA
1 TTTTATTTA
469288 TTTTCATTTA
1 TTTT-ATTTA
*
469298 TTTT-TTGA
1 TTTTATTTA
*
469306 TTTTGTTT-
1 TTTTATTTA
469314 TTTTATTTA
1 TTTTATTTA
469323 GTCAACCTTT
Statistics
Matches: 153, Mismatches: 34, Indels: 45
0.66 0.15 0.19
Matches are distributed among these distances:
7 4 0.03
8 35 0.23
9 72 0.47
10 30 0.20
11 8 0.05
12 1 0.01
13 3 0.02
ACGTcount: A:0.17, C:0.06, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTATTTA
Found at i:469176 original size:16 final size:16
Alignment explanation
Indices: 469157--469197 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
469147 TCTCTCTTCA
469157 ATTTTTTTTTGATTTT
1 ATTTTTTTTTGATTTT
*
469173 ATTTTGTTTTGATTTT
1 ATTTTTTTTTGATTTT
469189 ATTTCTTTT
1 ATTT-TTTT
469198 ATTTCTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.78
Consensus pattern (16 bp):
ATTTTTTTTTGATTTT
Found at i:469437 original size:21 final size:23
Alignment explanation
Indices: 469411--469454 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
469401 CTCTTAATAT
469411 TTTTTTTG-TTATTTTATT-TTC
1 TTTTTTTGCTTATTTTATTATTC
469432 -TTTTTTGCTTATTTTATTATTC
1 TTTTTTTGCTTATTTTATTATTC
469454 T
1 T
469455 CTTCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 10 0.50
22 3 0.15
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTTTTGCTTATTTTATTATTC
Found at i:470387 original size:27 final size:27
Alignment explanation
Indices: 470357--470411 Score: 51
Period size: 26 Copynumber: 2.1 Consensus size: 27
470347 ACATTTTAAG
** * *
470357 AAAAAAATT-AAATTTTTTCAAATTTTA
1 AAAAAAATTCAAAACTTTT-AAAATTTT
470384 AAAA-AATTCAAAACTTTTAAAATTTT
1 AAAAAAATTCAAAACTTTTAAAATTTT
470410 AA
1 AA
470412 TTTATTCCCG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (27 bp):
AAAAAAATTCAAAACTTTTAAAATTTT
Found at i:477262 original size:55 final size:55
Alignment explanation
Indices: 477197--477999 Score: 722
Period size: 55 Copynumber: 14.6 Consensus size: 55
477187 AAAATATTCA
* *
477197 GAAAACGGGTCTGCTCCCTCTTCTTTCAAGGAGTATTGGACTCGAACAATCTTCG
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
*
477252 GAAAACGGGTCCGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTC-
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* * * *
477306 GACAAACGTGTCCGCTCCCTCTTCTTTCAGGGAGTGTAGGACTCGAACAATCTTCA
1 GA-AAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
** * * * * * **
477362 TCAAACGTGTCTGTTCCCTCTTTTTTCAGGGGAGTATAGGACTCGAACAATCTTTA
1 GAAAACGGGTCCGCTCCCTCTTCTTTCA-AGGAGTATAGGACTCGAACAATCTTCG
** * * * * * * *
477418 G-AAACATGTTCTCTCCCTATTCTTTCAGGGAGTACATGACTCGAACAGTCCTT-G
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAAT-CTTCG
* * * * * *
477472 GCAAACGGGTTCGCTCCCTCTTCTTTCAGGGAGTATAGAACTTGAAAAATCTTC-
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* * * * **
477526 GACAAACTGGTCCGTTTCTTCTTCTTTCAAGGAGTATAGGACTTAAACAATCTTC-
1 GA-AAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* * * * * *
477581 GAATAATGTGTCCGCTCCTTCTTCATTCAAGGAGTATAGGACTTGAACAATCTTTG
1 GAA-AACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
**
477637 TG-AAACGGGTCCGCTCCCTCTT-TTTTTAGAGAGTATAGGACTCGAACAATCTTCG
1 -GAAAACGGGTCCGCTCCCTCTTCTTTCAAG-GAGTATAGGACTCGAACAATCTTCG
* ** ** * * ** * *
477692 GCAAATAGGTCCGCTCTGTCTTCTTTCAAGAAGTATAGGATTTAAACAATATTTG
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* ** * * * * * *
477747 GAAAACGTGTCTTCTCACTCTTCTTTCAGGGAGTATAAGACTTGATA-AATATTCA
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGA-ACAATCTTCG
* * * **
477802 GAAAATGGGTCCGCTCCTTCTTCTATCAAGGAGTATAGGACTTAAACAATCTTCG
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
** * * *
477857 GAAAACATGTCCGCTCCCTCTTTTTTCAGGGAGTATAGGACTCGAACAATCTTCA
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* * ** * * *
477912 GAAAATGGGTCCACTCATTCTTCTTTCAAGGAGCATAGGACTTGAACAATCTTCA
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
* *
477967 GAAAACGAGTTCGCTCCCTCTTCTTTCAAGGAG
1 GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAG
478000 ATCAGACTCG
Statistics
Matches: 608, Mismatches: 125, Indels: 30
0.80 0.16 0.04
Matches are distributed among these distances:
54 33 0.05
55 542 0.89
56 32 0.05
57 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (55 bp):
GAAAACGGGTCCGCTCCCTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCG
Found at i:478704 original size:51 final size:51
Alignment explanation
Indices: 478624--478762 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 51
478614 CATTACAGAC
* * * * *
478624 AAGTTGACTCCTTTACACTAGAAAATCAAGTTGAGAAATGATACTATTGAA
1 AAGTTGACTACTCTCCACGAGAAAGTCAAGTTGAGAAATGATACTATTGAA
* * * * *
478675 AAGTT-ACCTTCTCTCCACGAGCAAGTCAAGTTAAAAAATGATATTATTGAA
1 AAGTTGA-CTACTCTCCACGAGAAAGTCAAGTTGAGAAATGATACTATTGAA
*
478726 AAGTTGACTACTCTCCGCGAGAAAGTCAAGTTGAGAA
1 AAGTTGACTACTCTCCACGAGAAAGTCAAGTTGAGAA
478763 TAATATCACT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
50 1 0.01
51 70 0.97
52 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (51 bp):
AAGTTGACTACTCTCCACGAGAAAGTCAAGTTGAGAAATGATACTATTGAA
Found at i:478837 original size:45 final size:45
Alignment explanation
Indices: 478769--478869 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 45
478759 AGAATAATAT
* * *
478769 CACTAAAAGTTTGACTTCCCTTTATGAGAAAATCAAGAATCG-CAA
1 CACTAAAAGATTGACATCCCTTTACGAGAAAATCAAGAAT-GACAA
* *
478814 CAC-AGAAAGATTGACATCTCTTTACGAGAAAGTCAAGAATGACAA
1 CACTA-AAAGATTGACATCCCTTTACGAGAAAATCAAGAATGACAA
478859 CACTAAAAGAT
1 CACTAAAAGAT
478870 CGAGTCTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
44 2 0.04
45 45 0.94
46 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (45 bp):
CACTAAAAGATTGACATCCCTTTACGAGAAAATCAAGAATGACAA
Found at i:480414 original size:39 final size:39
Alignment explanation
Indices: 480357--480453 Score: 176
Period size: 39 Copynumber: 2.5 Consensus size: 39
480347 GCTGAAATCG
*
480357 GCCTTCAATAGTGCCCCAATATTATTTTATACTGGTACGT
1 GCCTTCAA-AATGCCCCAATATTATTTTATACTGGTACGT
480397 GCCTTCAAAATGCCCCAATATTATTTTATACTGGTACGT
1 GCCTTCAAAATGCCCCAATATTATTTTATACTGGTACGT
480436 GCCTTCAAAATGCCCCAA
1 GCCTTCAAAATGCCCCAA
480454 CATTTCAAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
39 48 0.86
40 8 0.14
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (39 bp):
GCCTTCAAAATGCCCCAATATTATTTTATACTGGTACGT
Found at i:487084 original size:14 final size:15
Alignment explanation
Indices: 487065--487093 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
487055 AATATATTGA
487065 ATAATAA-AATATTT
1 ATAATAATAATATTT
487079 ATAATAATAATATTT
1 ATAATAATAATATTT
487094 TAAACCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATAATAATATTT
Found at i:487130 original size:19 final size:21
Alignment explanation
Indices: 487102--487143 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
487092 TTTAAACCTC
487102 AAAATGAAATAAAATAA-AAA
1 AAAATGAAATAAAATAATAAA
*
487122 AAAAT-AAATTAAATAATAAA
1 AAAATGAAATAAAATAATAAA
487142 AA
1 AA
487144 GACTGCCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAATGAAATAAAATAATAAA
Found at i:489303 original size:42 final size:41
Alignment explanation
Indices: 489190--489303 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
489180 GCCTGAAGGT
* * *
489190 CTTATGGATGGCCCGAAAGACTTATCATCATACTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTTATCATCATACTCAAAAGA
* * * * * *
489231 CTTATAGATGACGCGAAGGATTTAAGCATCATGCTCAAAATA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATACTCAAAAGA
489273 CTTACT-GATGGCCCGAAGGACTTACTCATCA
1 CTTA-TAGATGGCCCGAAGGACTTA-TCATCA
489304 AGAAAACCTT
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
41 19 0.33
42 37 0.65
43 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATACTCAAAAGA
Found at i:489379 original size:39 final size:39
Alignment explanation
Indices: 489335--489810 Score: 767
Period size: 39 Copynumber: 12.3 Consensus size: 39
489325 TTAGTTTCTT
* * * *
489335 ATAAAATTTTTTGTTTCGAGAGAAACTTTCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489374 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
* *
489413 ACAAAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489452 ACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489491 ACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489530 ACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489569 ACAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489608 ATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489647 AT--AATCTTCTGTTTCGAGGGAAACTATCTCAGGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
* * *
489684 ATAAAACCTTTTGTTTCGAGTGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
* *
489723 ATAAAATCTTCTGTTTCAAGTGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
*
489762 ATACAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
1 ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
489801 ATAAAATCTT
1 ATAAAATCTT
489811 ATTTTAAGAA
Statistics
Matches: 411, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
37 35 0.09
39 376 0.91
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (39 bp):
ATAAAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAG
Found at i:489893 original size:75 final size:76
Alignment explanation
Indices: 489790--490054 Score: 297
Period size: 76 Copynumber: 3.5 Consensus size: 76
489780 AGGGAAACTA
* * * *
489790 TCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTGAAAT-AAATCTTCTTATTT
1 TCTCAAGTGAGA-CAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATGAAAT-GTCTTATTT
489854 CGAGTAAAA-ATG
64 CGAGTAAAACATG
* * ** * *
489866 TCTCAAGTTAGACAAATCTTGTTTTAAGAAAAATAA-CATGTAGTGAAATGAAATGTCTTGTTTT
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAATC-TCAAGTGAAATGAAATGTCTTATTTC
* *
489930 GAATAAAACCTG
65 GAGTAAAACATG
* ** * * *
489942 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAATAATCTTGAGTCAAATGAAATGTCTTCTTTCA
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATGAAATGTCTTATTTCG
490007 AGTAAAACA-G
66 AGTAAAACATG
490017 TCTCAAGTGAGACAAAGTC-TGTTTTAAGAAAAACAATC
1 TCTCAAGTGAGACAAA-TCTTGTTTTAAGAAAAACAATC
490055 CCCAGTGAGA
Statistics
Matches: 162, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.01
75 79 0.49
76 81 0.50
77 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (76 bp):
TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAATCTCAAGTGAAATGAAATGTCTTATTTCG
AGTAAAACATG
Found at i:489965 original size:76 final size:73
Alignment explanation
Indices: 489784--490054 Score: 278
Period size: 75 Copynumber: 3.6 Consensus size: 73
489774 GTTTCGAGGG
* * * * * * *
489784 AAACTATCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTGAAAT-AAATCTTC
1 AAACTGTCTCAAGTGAGA-CAAATCTTGTTTTAAGAAAAATAATCT-GAGTGAAATGAAAT-GTC
* *
489848 TTATTTCGAGTA
63 TT-TTTTGAATA
* *
489860 AAAATGTCTCAAGTTAGACAAATCTTGTTTTAAGAAAAATAA-CATGTAGTGAAATGAAATGTCT
1 AAACTGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAATAATC-TG-AGTGAAATGAAATGTCT
489924 TGTTTTGAATA
64 T-TTTTGAATA
*
489935 AAACCTGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAATAATCTTGAGTCAAATGAAATGTCT
1 AAA-CTGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAATAATC-TGAGTGAAATGAAATGTCT
* *
490000 TCTTTCAAGTA
64 TTTTTGAA-TA
* *
490011 AAACAGTCTCAAGTGAGACAAAGTC-TGTTTTAAGAAAAACAATC
1 AAACTGTCTCAAGTGAGACAAA-TCTTGTTTTAAGAAAAATAATC
490055 CCCAGTGAGA
Statistics
Matches: 168, Mismatches: 20, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
74 1 0.01
75 85 0.51
76 79 0.47
77 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (73 bp):
AAACTGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAATAATCTGAGTGAAATGAAATGTCTTT
TTTGAATA
Found at i:490062 original size:151 final size:152
Alignment explanation
Indices: 489790--490062 Score: 340
Period size: 151 Copynumber: 1.8 Consensus size: 152
489780 AGGGAAACTA
* *
489790 TCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTGAAATAAATCTTCTTATTTC
1 TCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTCAAATAAATCGTCTTATTTC
* * * ***
489855 GAGTAAAAATGTCTCAAGTTAGACAAATCTTGTTTTAAGAAAAATAACATGTAGTGAAATGAAAT
66 AAGTAAAAATGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAACACCCAGTGAAATGAAAT
489920 GTCTTGTTTTGAATAAAACCTG
131 GTCTTGTTTTGAATAAAACCTG
* * * * ** *
489942 TCTCAAGTGAGA-CAAATCTTGTTTTAAGAAAAATAATCTTGAGTCAAATGAAAT-GTCTTCTTT
1 TCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTCAAAT-AAATCGTCTTATTT
490005 CAAGTAAAACA-GTCTCAAGTGAGACAAAGTC-TGTTTTAAGAAAAACAATC-CCCAGTGA
65 CAAGTAAAA-ATGTCTCAAGTGAGACAAA-TCTTGTTTTAAGAAAAACAA-CACCCAGTGA
490063 GATAAATCCT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
151 83 0.81
152 19 0.19
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (152 bp):
TCTCAAGCGAGATAAAATCTTATTTTAAGAAAAACAATCTCAAGTCAAATAAATCGTCTTATTTC
AAGTAAAAATGTCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAACACCCAGTGAAATGAAAT
GTCTTGTTTTGAATAAAACCTG
Found at i:495416 original size:14 final size:15
Alignment explanation
Indices: 495397--495425 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
495387 AATATATTGA
495397 ATAATAA-AATATTT
1 ATAATAATAATATTT
495411 ATAATAATAATATTT
1 ATAATAATAATATTT
495426 TAAACCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATAATAATATTT
Found at i:495469 original size:21 final size:22
Alignment explanation
Indices: 495435--495475 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
495425 TTAAACCTCG
495435 AAATGAAATAAAATAATAAACA
1 AAATGAAATAAAATAATAAACA
*
495457 AAAT-AAATTAAATAATAAA
1 AAATGAAATAAAATAATAAA
495476 AGACTGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAATGAAATAAAATAATAAACA
Found at i:495952 original size:33 final size:34
Alignment explanation
Indices: 495888--495952 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 34
495878 TAATGTGACT
*
495888 AAAATAAAAATATTAAAAATTAAACACTTAAAAC
1 AAAATAAAAATATTAAAAATTAAACAATTAAAAC
* * * *
495922 AAAATAAACATA-TAATAGTTAAAGAATTAAA
1 AAAATAAAAATATTAAAAATTAAACAATTAAA
495953 TTTAAAGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.25
Consensus pattern (34 bp):
AAAATAAAAATATTAAAAATTAAACAATTAAAAC
Found at i:496009 original size:14 final size:14
Alignment explanation
Indices: 495992--496027 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
495982 TAAAAATAGA
495992 AAATTAAAGTGA-TG
1 AAATTAAAG-GACTG
496006 AAATTAAAGGACTG
1 AAATTAAAGGACTG
496020 AAATTAAA
1 AAATTAAA
496028 TAAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.56, C:0.03, G:0.17, T:0.25
Consensus pattern (14 bp):
AAATTAAAGGACTG
Found at i:497735 original size:2 final size:2
Alignment explanation
Indices: 497728--497780 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
497718 TGAAAAATAA
* * *
497728 AT AT AT AT AT AT AT AA AT AT TT A- AC 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
497769 AT AT AT AT AT AT
1 AT AT AT AT AT AT
497781 TCATACACGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:498457 original size:2 final size:2
Alignment explanation
Indices: 498450--498485 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
498440 AGCATCTACA
498450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
498486 GGACAATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:498582 original size:2 final size:2
Alignment explanation
Indices: 498575--498617 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
498565 CTTTTAAATA
*
498575 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
498616 AT
1 AT
498618 TAAAAAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:500106 original size:3 final size:3
Alignment explanation
Indices: 500100--500134 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
500090 AATTATTATT
500100 TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
500135 TCGATATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 26 0.87
4 2 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:501247 original size:69 final size:69
Alignment explanation
Indices: 501170--501391 Score: 248
Period size: 69 Copynumber: 3.2 Consensus size: 69
501160 ATCCCTTGTG
* *
501170 AGTCACTCTAATCCTTC-GGAGCTCCCGTGCGAGTCAACCAAAATAATTACGATTAGGTGCACTC
1 AGTCACTCTAATCCTTCGGGA-CTCCCGTGCGAGTCACCCAAAATAATTACGATTAGGTGCACCC
501234 GTGCA
65 GTGCA
* * * ** * **
501239 AATCACTCTAATCTTTCGGGACTCCCATGTAAGTCACCCGAAATAATTACGATTAGGTGTTCCCG
1 AGTCACTCTAATCCTTCGGGACTCCCGTGCGAGTCACCCAAAATAATTACGATTAGGTGCACCCG
**
501304 TATA
66 TGCA
*** * * * *
501308 AGTCACTCTAATCCTTCGGGACTTTTGTGCGAGTCACCCAGAACAATCACGATTAGGTGCACCCT
1 AGTCACTCTAATCCTTCGGGACTCCCGTGCGAGTCACCCAAAATAATTACGATTAGGTGCACCCG
*
501373 TGCG
66 TGCA
501377 AGTCACTCTAATCCT
1 AGTCACTCTAATCCT
501392 ACGAGGTTCC
Statistics
Matches: 122, Mismatches: 30, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
69 119 0.98
70 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (69 bp):
AGTCACTCTAATCCTTCGGGACTCCCGTGCGAGTCACCCAAAATAATTACGATTAGGTGCACCCG
TGCA
Found at i:501724 original size:76 final size:75
Alignment explanation
Indices: 501600--502012 Score: 442
Period size: 76 Copynumber: 5.5 Consensus size: 75
501590 TCACAATTCT
* * ** *
501600 AGCAGTGAAACTTAACATTCACGT--ATGAGTGAAATGAATACGTAATTCTAGCATTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
*
501663 GACATGATTTC
66 CACAT-ATTTC
* * *
501674 AGCAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTGATTCTAGCACTTAACTTAA
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTT-A
501739 T-ACATGATTTC
65 TCACAT-ATTTC
*
501750 AGC---GAAACTTAACATTAACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
501812 CACATAATTTC
66 CACAT-ATTTC
* * * * **
501823 AGCAGTGAAACTTAACATTGACTTATACCAGTGAAATGAATATGTAATTCCAGCGCTAAAGATAT
1 AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
*
501888 CACATAATTC
66 CACATATTTC
* * ** * *
501898 TAGTAGTGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCAGCACTAAACATA
1 -AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTA
* *
501963 TCAAATAATTC
65 TCACATATTTC
* * * * * **
501974 CGATAATGAAATTTAACATTGACTCACAGTAGTGAAATG
1 AG-CAGTGAAACTTAACATTGACTTACACCAGTGAAATG
502013 TGTCGACACT
Statistics
Matches: 292, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
72 2 0.01
73 65 0.22
74 22 0.08
75 5 0.02
76 196 0.67
77 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (75 bp):
AGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTAT
CACATATTTC
Found at i:501807 original size:149 final size:150
Alignment explanation
Indices: 501627--502012 Score: 472
Period size: 149 Copynumber: 2.6 Consensus size: 150
501617 TTCACGTATG
* *
501627 AGTGAAATGAATACGTAATTCTAGCATTAAACTTATGACATGATTTCAGCAGTGAAACTTAACAT
1 AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACAT-ATTTCAGCAGTGAAACTTAACAT
* * * * *
501692 TGACTTACACTAGTGAAATGAATACGTGATTCTAGCACTTAACTTAAT-ACATGATT-T-CAGCG
65 TGACTTACACTAGTGAAATGAATACGTAATTCCAGCACTAAACAT-ATCACATAATTCTACAGCG
501754 AAACTTAACATTAACTTACACC
129 AAACTTAACATTAACTTACACC
501776 AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACATAATTTCAGCAGTGAAACTTAACAT
1 AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACAT-ATTTCAGCAGTGAAACTTAACAT
* * * * * * *
501841 TGACTTATACCAGTGAAATGAATATGTAATTCCAGCGCTAAAGATATCACATAATTCTAGTAGTG
65 TGACTTACACTAGTGAAATGAATACGTAATTCCAGCACTAAACATATCACATAATTCTA-CAGCG
501906 AAACTTAACATTAACTTACACC
129 AAACTTAACATTAACTTACACC
** * * * * * * * *
501928 AACGAAATGAATACGTAATTCCAGCACTAAACATATCAAATAATTCCGATAATGAAATTTAACAT
1 AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACATATTTCAG-CAGTGAAACTTAACAT
* *
501993 TGACTCACAGTAGTGAAATG
65 TGACTTACACTAGTGAAATG
502013 TGTCGACACT
Statistics
Matches: 203, Mismatches: 29, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
148 2 0.01
149 105 0.52
150 1 0.00
151 5 0.02
152 90 0.44
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.29
Consensus pattern (150 bp):
AGTGAAATGAATACGTAATTCTAGCACTAAACTTATCACATATTTCAGCAGTGAAACTTAACATT
GACTTACACTAGTGAAATGAATACGTAATTCCAGCACTAAACATATCACATAATTCTACAGCGAA
ACTTAACATTAACTTACACC
Found at i:503528 original size:2 final size:2
Alignment explanation
Indices: 503521--503553 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
503511 ACTTTTAAAG
*
503521 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
503554 AGTATTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:504434 original size:2 final size:2
Alignment explanation
Indices: 504429--504454 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
504419 CTATGAAATA
504429 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
504455 TAAAGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:505185 original size:3 final size:3
Alignment explanation
Indices: 505179--505238 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
505169 AAGTTTTTAC
505179 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
505227 ATT ATT ATT ATT
1 ATT ATT ATT ATT
505239 TGCTTTTGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:507979 original size:117 final size:119
Alignment explanation
Indices: 507793--508010 Score: 368
Period size: 117 Copynumber: 1.8 Consensus size: 119
507783 GAAAAAGAAA
* * **
507793 AAAATGTTGAGGTCGAGGGAGAAATAGATAGGATTATTGGGTCGACAATGATGAATTGAATTGT-
1 AAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGGTCGACAATGATGAATTGAAGAGTG
507857 TTTTTTTTGTTAC-AAAAGTTTAAGTCAGGAGTGAGGGTCCTGAGCAGAAGATC
66 TTTTTTTTGTTACAAAAAGTTTAAGTCAGGAGTGAGGGTCCTGAGCAGAAGATC
*
507910 AAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGGTCGACATTGATGAATTGAAGAGTG
1 AAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGGTCGACAATGATGAATTGAAGAGTG
507975 TTTTTTTTTGTTACAAAAAGTTTAAGTCAGGAGTGA
66 -TTTTTTTTGTTACAAAAAGTTTAAGTCAGGAGTGA
508011 TTCTCCCAGT
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
117 59 0.63
119 13 0.14
120 21 0.23
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (119 bp):
AAAATGTTGAGGTCGAGAGAGAAATAGATAAGATTATTGGGTCGACAATGATGAATTGAAGAGTG
TTTTTTTTGTTACAAAAAGTTTAAGTCAGGAGTGAGGGTCCTGAGCAGAAGATC
Found at i:509177 original size:312 final size:312
Alignment explanation
Indices: 508612--509235 Score: 1196
Period size: 312 Copynumber: 2.0 Consensus size: 312
508602 ATATTAATTA
508612 CATTCGCATGTGATTTTCATGCTTCTCTTTTTCTTTTTCGATAAGATAAGGCAGGCAATCCCCGT
1 CATTCGCATGTGATTTTCATGCTTCTCTTTTTCTTTTTCGATAAGATAAGGCAGGCAATCCCCGT
508677 TCCTACTTTCTACACGCATCAAAATAACTTGGATTATTACCACACCAGTGCAATTATTTATTTCG
66 TCCTACTTTCTACACGCATCAAAATAACTTGGATTATTACCACACCAGTGCAATTATTTATTTCG
*
508742 GATAACTTTTTATATATGAAAAAAAGGGTTAACACAAAAATAAGTACCCGAATAATGCATCGAAA
131 GATAACTTTTTATATATGAAAAAAAGGGTTAACACAAAAATAAGTACCCGAACAATGCATCGAAA
* *
508807 AATGTTTTAGAGCTTAAAGATTTTTTCGCACAAAATAAATGTCTAACGTTTTCTCCATTACCATT
196 AACGTTTTAGAGCTTAAAGAATTTTTCGCACAAAATAAATGTCTAACGTTTTCTCCATTACCATT
508872 TTAATTGCCCGAACATTAACCGCCATTAAAAATTTATGTTAAGTGACACATG
261 TTAATTGCCCGAACATTAACCGCCATTAAAAATTTATGTTAAGTGACACATG
508924 CATTCGCATGTGATTTTCATGCTTCTCTTTTTCTTTTTCGATAAGATAAGGCAGGCAATCCCCGT
1 CATTCGCATGTGATTTTCATGCTTCTCTTTTTCTTTTTCGATAAGATAAGGCAGGCAATCCCCGT
508989 TCCTACTTTCTACACGCATCAAAATAACTTGGATTATTACCACACCAGTGCAATTATTTATTTCG
66 TCCTACTTTCTACACGCATCAAAATAACTTGGATTATTACCACACCAGTGCAATTATTTATTTCG
509054 GATAACTTTTT-TAATATGAAAAAAAGGGTTAACACAAAAATAAGTACCCGAACAATGCATCGAA
131 GATAACTTTTTAT-ATATGAAAAAAAGGGTTAACACAAAAATAAGTACCCGAACAATGCATCGAA
*
509118 AAACGTTTTAGAGCTTAAAGAATTTTTCGCACAAAATAGATGTCTAACGTTTTCTCCATTACCAT
195 AAACGTTTTAGAGCTTAAAGAATTTTTCGCACAAAATAAATGTCTAACGTTTTCTCCATTACCAT
509183 TTTAATTGCCCGAACATTAACCGCCATTAAAAATTTATGTTAAGTGACACATG
260 TTTAATTGCCCGAACATTAACCGCCATTAAAAATTTATGTTAAGTGACACATG
509236 TCACGTTCTG
Statistics
Matches: 307, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
311 1 0.00
312 306 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.34
Consensus pattern (312 bp):
CATTCGCATGTGATTTTCATGCTTCTCTTTTTCTTTTTCGATAAGATAAGGCAGGCAATCCCCGT
TCCTACTTTCTACACGCATCAAAATAACTTGGATTATTACCACACCAGTGCAATTATTTATTTCG
GATAACTTTTTATATATGAAAAAAAGGGTTAACACAAAAATAAGTACCCGAACAATGCATCGAAA
AACGTTTTAGAGCTTAAAGAATTTTTCGCACAAAATAAATGTCTAACGTTTTCTCCATTACCATT
TTAATTGCCCGAACATTAACCGCCATTAAAAATTTATGTTAAGTGACACATG
Found at i:519689 original size:134 final size:132
Alignment explanation
Indices: 519520--520357 Score: 683
Period size: 134 Copynumber: 6.3 Consensus size: 132
519510 GCAAATCGAA
* * * * * * *
519520 CTCGATTCAATATTCCCTAAAGAATAGTGGAATGAATCAATATTCCTAAATCTGATTTTCCCACT
1 CTCGATTCAATCTTCCCT-GAGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCC-CT
* * * *
519585 AGAAGAAGAAGACCAAATCCCTCTCTTTCAATATTTGATCTTCCCTGAGTAATAGTGGAACAAGT
64 AGAAGAAGAAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGT
519650 CTGC
129 CTGC
* *
519654 CTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAG-AATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCC-CT
* * * * * * * *
519719 AGAAGAAG-CGAAACAAATCTCTCCCTTTTAAGATTTAATATTCCTTGAGTAATAGTGGAAAAAG
64 AGAAGAAGAAG-AACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
* *
519783 TATGT
128 TCTGC
* * * * * *
519788 CTCAATTCAATCTTCCCTAAAGAATAGTGGATTGAATCAACATCCCCAAATCTGATTTTCCCTTA
1 CTCGATTCAATCTTCCCT-GAGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCCT-
* * * * *
519853 AGAAGAAGATGAACAGATCACTCTATTTCAATATTTGAAATTCCCTGAGTAATAGTGGAACAAGT
64 AGAAGAAGAAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGT
519918 CTGC
129 CTGC
* * ** * *
519922 CTCGATTCAATCTTCGCTGAAGAACAGTGGAATGAATCAATGTCCCCAGATATAATTTTCCCTTA
1 CTCGATTCAATCTTCCCTG-AGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCCT-
* * * * * * * *
519987 AGAAGAAG-CGAAACAGGTCCCTCACTTTTAAGATTTGATAGTCCCTAAGGAAAAGTGGAACAAG
64 AGAAGAAGAAG-AACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
*
520051 TCTAC
128 TCTGC
* * * *
520056 CTCGATTCAATCTTCCTTGAAGAATAGTGGAATGAAT----AT-TCCAGATCTGATGTT-CCCTA
1 CTCGATTCAATCTTCCCTG-AGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCCTA
* * * * * *
520115 -AAAAAGTAGCAGAATAGATCCCT-TTTTTC-AGATTTGATTTTCCATGAGGAATAGTGGAACAA
65 GAAGAAG-A--AGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAA
*
520177 GTCTGT
127 GTCTGC
* * * * * ** * * *
520183 CTCAATTCAATCTCCCCTGAAGAACAGTGAAATGAATAAACATTTCCATATATGGTTTT-CCTTC
1 CTCGATTCAATCTTCCCTG-AGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCCT-
* ** * * * * *
520247 AGGAAGCAGTGGAATAGATCCCTCTCTTTCAAGACTTGATATTCCTTGAGTAATAGTAGAATAAG
64 A-GAAGAAGAAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAG
*
520312 TATGC
128 TCTGC
* * * *
520317 ATCGATTTAATCTTCCATAAAGAATAGTGGAATGAATCAAC
1 CTCGATTCAATCTTCCCT-GAGAATAGTGGAATGAATCAAC
520358 GTTGCTCGAT
Statistics
Matches: 561, Mismatches: 121, Indels: 44
0.77 0.17 0.06
Matches are distributed among these distances:
126 5 0.01
127 65 0.12
128 6 0.01
129 20 0.04
130 2 0.00
131 2 0.00
132 26 0.05
133 10 0.02
134 418 0.75
135 7 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (132 bp):
CTCGATTCAATCTTCCCTGAGAATAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCCTAG
AAGAAGAAGAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAACAAGTCT
GC
Found at i:520001 original size:268 final size:265
Alignment explanation
Indices: 519520--520357 Score: 929
Period size: 268 Copynumber: 3.2 Consensus size: 265
519510 GCAAATCGAA
* * * *
519520 CTCGATTCAATATTCCCTAAAGAATAGTGGAATGAATCAATATTCCTAAATCTGATTTTCCCACT
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACA-TCCCAAATCTGATTTTCCC-TT
* * * *
519585 -AGAAGAAGAAGACCAAATCCCTCTCTTTCAATATTTGATCTTCCCTGAGTAATAGTGGAACAAG
64 AAGAAGAAG-AGAACAGATCCCTCTATTTCAATATTTGATATTCCCTGAGTAATAGTGGAACAAG
519649 TCTGCCTCGATTCAATCTTCCCTG-AGTAACAGTGGAATGAATCAACATCCCCAGATATGATTTT
128 TCTGCCTCGATTCAATCTTCCCTGAAG-AACAGTGGAATGAATCAACATCCCCAGATATGATTTT
* * * * *
519713 CCCTCAAGAAGAAGCGAAACAAATCTCTCCCTTTTAAGATTTAATATTCCTTGAGTAATAGTGGA
192 CCCTTAAGAAGAAGCGAAACAGATCCCTCACTTTTAAGATTTGATATTCCTTGAGTAATAGTGGA
519778 AAAAGTATG
257 AAAAGTATG
* *
519787 TCTCAATTCAATCTTCCCTAAAGAATAGTGGATTGAATCAACATCCCCAAATCTGATTTTCCCTT
1 -CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACAT-CCCAAATCTGATTTTCCCTT
* *
519852 AAGAAGAAGATGAACAGATCACTCTATTTCAATATTTGAAATTCCCTGAGTAATAGTGGAACAAG
64 AAGAAGAAGA-GAACAGATCCCTCTATTTCAATATTTGATATTCCCTGAGTAATAGTGGAACAAG
* ** *
519917 TCTGCCTCGATTCAATCTTCGCTGAAGAACAGTGGAATGAATCAATGTCCCCAGATATAATTTTC
128 TCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATATGATTTTC
* * * * * *
519982 CCTTAAGAAGAAGCGAAACAGGTCCCTCACTTTTAAGATTTGATAGTCCCTAAGGAAAAGTGGAA
193 CCTTAAGAAGAAGCGAAACAGATCCCTCACTTTTAAGATTTGATATTCCTTGAGTAATAGTGGAA
* * *
520047 CAAGTCTAC
258 AAAGTAT-G
* * * * * *
520056 CTCGATTCAATCTTCCTTGAAGAATAGTGGAATGAAT----ATTCCAGATCTGATGTTCCCTAAA
1 CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACATCCCAAATCTGATTTTCCCTTAA
* * * * * * * *
520117 AAAGTAGCAGAATAGATCCCT-TTTTTC-AGATTTGATTTTCCATGAGGAATAGTGGAACAAGTC
66 GAAGAAG-AGAACAGATCCCTCTATTTCAATATTTGATATTCCCTGAGTAATAGTGGAACAAGTC
* * * * * ** * *
520180 TGTCTCAATTCAATCTCCCCTGAAGAACAGTGAAATGAATAAACATTTCCATATATGGTTTT-CC
130 TGCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATATGATTTTCCC
* * * * * * * * * *
520244 TTCAGGAAGCAGTGGAATAGATCCCTCTCTTTCAAGACTTGATATTCCTTGAGTAATAGTAGAAT
195 TT-AAGAAGAAGCGAAACAGATCCCTCACTTTTAAGATTTGATATTCCTTGAGTAATAGTGGAAA
520309 AAGTATG
259 AAGTATG
* *
520316 CATCGATTTAATCTTCCATAAAGAATAGTGGAATGAATCAAC
1 C-TCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAAC
520358 GTTGCTCGAT
Statistics
Matches: 476, Mismatches: 82, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
260 5 0.01
261 164 0.34
262 5 0.01
263 33 0.07
264 3 0.01
267 3 0.01
268 261 0.55
269 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (265 bp):
CTCGATTCAATCTTCCCTAAAGAATAGTGGAATGAATCAACATCCCAAATCTGATTTTCCCTTAA
GAAGAAGAGAACAGATCCCTCTATTTCAATATTTGATATTCCCTGAGTAATAGTGGAACAAGTCT
GCCTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCCCCAGATATGATTTTCCCT
TAAGAAGAAGCGAAACAGATCCCTCACTTTTAAGATTTGATATTCCTTGAGTAATAGTGGAAAAA
GTATG
Found at i:523123 original size:3 final size:3
Alignment explanation
Indices: 523117--523151 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
523107 AACTACTATT
**
523117 TAA TAA TAA TAA TAA GGA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
523152 TTGACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:523470 original size:82 final size:82
Alignment explanation
Indices: 523292--523963 Score: 897
Period size: 82 Copynumber: 8.2 Consensus size: 82
523282 ATACAATTTT
* * * **** * *
523292 AGGGTAGATCAGACTTGATATGTTCCTCTCTTTCGGGTAGTCAGATC--TGAAAGAAAACGAGTC
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTC
* *
523355 TGCTTCACTCTTCCTTC
66 TGCTCCACTCTTCTTTC
* * * * * *
523372 AGGGTATAGT-AGACTTGATTTGTTCCTCTTTTTCAGGTAGACATATCAATTTTGGAAGATGGGT
1 AGGGGAGA-TCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGT
*
523436 CTGCTCCACTCTTCTTTT
65 CTGCTCCACTCTTCTTTC
* * * *
523454 AGGGGAGATCAGACTTGACTTGTTCCTCTTTTTGGGGTAGTCAGATCAATTTTAGAAGATGGGTC
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTC
*
523519 TGCTCCACTTTTCTTTC
66 TGCTCCACTCTTCTTTC
* * *
523536 AGGAGAGATCAGACTTGATATGTTCCTCTTTTTCAGGTAGTCAGATCAATTTTTGGAAGACGGGT
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAA-TTTTGGAAGACGGGT
523601 CTGCTCCACTCTTCTTTC
65 CTGCTCCACTCTTCTTTC
* *
523619 AAGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAA-TTTGGAAGACAGGTC
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTC
523683 TGCTCCACTCTTCTTTC
66 TGCTCCACTCTTCTTTC
* * **
523700 AGGGGGGATCAGACTTGATATGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTTGGAAGACAAGT
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAA-TTTTGGAAGACGGGT
523765 CTGCTCCACTCTTCTTTC
65 CTGCTCCACTCTTCTTTC
* * * * * *
523783 AGGGTAGATCAAACTTGATATGTTCCTCTTTTTCGGTTAGTCAAATCAATTTTGGAAGACAGGTC
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTC
523848 TGCTCCACTCTTCTTTC
66 TGCTCCACTCTTCTTTC
*
523865 AGGGGAGATCAGATTTGATTTGTT-CTCTTTTTCGGGTAGTCAGATCAATTTTTGGAAGACGGGT
1 AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAA-TTTTGGAAGACGGGT
* *
523929 CTGCTCAACTTTTC-TTC
65 CTGCTCCACTCTTCTTTC
523946 AGGGGAGATCAGACTTGA
1 AGGGGAGATCAGACTTGA
523964 GAAATCTTTG
Statistics
Matches: 525, Mismatches: 59, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
80 39 0.07
81 121 0.23
82 215 0.41
83 150 0.29
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (82 bp):
AGGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAATTTTGGAAGACGGGTC
TGCTCCACTCTTCTTTC
Found at i:523726 original size:246 final size:246
Alignment explanation
Indices: 523292--523963 Score: 923
Period size: 247 Copynumber: 2.7 Consensus size: 246
523282 ATACAATTTT
* **** * *
523292 AGGGTAGATCAGACTTGATATGTTCCTCTCTTTCGGGTAGTCAGATC--TGAAAGAAAACGAGTC
1 AGGGTAGATCAGACTTGATATGTTCCTCTTTTTC-GGTAGTCAGATCAATTTTGGAAGACGGGTC
* * * * * *
523355 TGCTTCACTCTTCCTTC-AGGGTATAGT-AGACTTGATTTGTTCCTCTTTTTCAGGTAGACATAT
65 TGCTCCACTCTTCTTTCAAGGG-AGA-TCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGAT
* *
523418 CAATTTTGGAAGATGGGTCTGCTCCACTCTTCTTTTAGGGGAGATCAGACTTGACTTGTTCCTCT
128 CAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGGAGATCAGACTTGACTTGTTCCTCT
* *** *
523483 TTTTGGGGTAGTCAGATCAA-TTTTAGAAGATGGGTCTGCTCCACTTTTCTTTC
193 TTTTCGGGTAGTCAGATCAATTTTTAGAAGACAAGTCTGCTCCACTCTTCTTTC
523536 AGGAG-AGATCAGACTTGATATGTTCCTCTTTTTCAGGTAGTCAGATCAATTTTTGGAAGACGGG
1 AGG-GTAGATCAGACTTGATATGTTCCTCTTTTTC-GGTAGTCAGATCAA-TTTTGGAAGACGGG
523600 TCTGCTCCACTCTTCTTTCAAGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGAT
63 TCTGCTCCACTCTTCTTTCAAGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGAT
* *
523665 CAA-TTTGGAAGACAGGTCTGCTCCACTCTTCTTTCAGGGGGGATCAGACTTGA-TATGTTCCTC
128 CAATTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGGAGATCAGACTTGACT-TGTTCCTC
*
523728 TTTTTCGGGTAGTCAGATCAATTTTTGGAAGACAAGTCTGCTCCACTCTTCTTTC
192 TTTTTCGGGTAGTCAGATCAATTTTTAGAAGACAAGTCTGCTCCACTCTTCTTTC
* * *
523783 AGGGTAGATCAAACTTGATATGTTCCTCTTTTTCGGTTAGTCAAATCAATTTTGGAAGACAGGTC
1 AGGGTAGATCAGACTTGATATGTTCCTCTTTTTCGG-TAGTCAGATCAATTTTGGAAGACGGGTC
* *
523848 TGCTCCACTCTTCTTTCAGGGGAGATCAGATTTGATTTGTT-CTCTTTTTCGGGTAGTCAGATCA
65 TGCTCCACTCTTCTTTCAAGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCA
* *
523912 ATTTTTGGAAGACGGGTCTGCTCAACTTTTC-TTCAGGGGAGATCAGACTTGA
130 A-TTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGGAGATCAGACTTGA
523964 GAAATCTTTG
Statistics
Matches: 383, Mismatches: 33, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
244 43 0.11
245 26 0.07
246 152 0.40
247 158 0.41
248 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (246 bp):
AGGGTAGATCAGACTTGATATGTTCCTCTTTTTCGGTAGTCAGATCAATTTTGGAAGACGGGTCT
GCTCCACTCTTCTTTCAAGGGAGATCAGACTTGATTTGTTCCTCTTTTTCGGGTAGTCAGATCAA
TTTTGGAAGACGGGTCTGCTCCACTCTTCTTTCAGGGGAGATCAGACTTGACTTGTTCCTCTTTT
TCGGGTAGTCAGATCAATTTTTAGAAGACAAGTCTGCTCCACTCTTCTTTC
Done.