Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005129.1 Hibiscus syriacus cultivar Beakdansim tig00011547_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: 545926
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 2 of 3
Found at i:211252 original size:19 final size:20
Alignment explanation
Indices: 211230--211276 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
211220 GGTCGGGTCG
* *
211230 GGTCAGACCGGTTC-AGACC
1 GGTCAAACCGGTTCAAAACC
211249 GGTCAAACCGGTTCAAAACC
1 GGTCAAACCGGTTCAAAACC
211269 GGTCAAAC
1 GGTCAAAC
211277 TAGTTTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (20 bp):
GGTCAAACCGGTTCAAAACC
Found at i:219983 original size:31 final size:31
Alignment explanation
Indices: 219940--220004 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
219930 AAGGGGAATG
* * *
219940 GTCCCTAACATTATTGATCCGTTTGATTTTA
1 GTCCATAACATTATCGATCCGTTCGATTTTA
219971 GTCCATAACATTATCGATCCGTTCGATTTTA
1 GTCCATAACATTATCGATCCGTTCGATTTTA
220002 GTC
1 GTC
220005 TCTCAGTCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (31 bp):
GTCCATAACATTATCGATCCGTTCGATTTTA
Found at i:221655 original size:56 final size:56
Alignment explanation
Indices: 221586--221785 Score: 256
Period size: 56 Copynumber: 3.6 Consensus size: 56
221576 ATTTATTTTT
* * * *
221586 TAGATATATTCGATTTCAGGACCCTTATTTTTATACTTCTTAATGGCAATAACTGA
1 TAGATATACTCGATTTCAGGACCCCTATTTTTATGCTTATTAATGGCAATAACTGA
* * * * *
221642 TAGATATACTCGATTTCGGGGCCCCTATTTTTATGTTTTTTAATTGCAATAACTGA
1 TAGATATACTCGATTTCAGGACCCCTATTTTTATGCTTATTAATGGCAATAACTGA
* *
221698 TAGATATACTCGATTTCAGGACCTCTATTTTTATGCTTATTAATGGCAACAACTGA
1 TAGATATACTCGATTTCAGGACCCCTATTTTTATGCTTATTAATGGCAATAACTGA
* * * * *
221754 TAAATATAATCAATTTCGGGGCCCCTATTTTT
1 TAGATATACTCGATTTCAGGACCCCTATTTTT
221786 GGGGCCTGCG
Statistics
Matches: 123, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 123 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (56 bp):
TAGATATACTCGATTTCAGGACCCCTATTTTTATGCTTATTAATGGCAATAACTGA
Found at i:234862 original size:14 final size:14
Alignment explanation
Indices: 234828--234881 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
234818 CCTAAAGGGC
*
234828 AATGTTTTGAAAA-
1 AATGTTTGGAAAAT
*
234841 ACTGTTTGGAAAAT
1 AATGTTTGGAAAAT
*
234855 AATGTTTGAAAAAT
1 AATGTTTGGAAAAT
234869 AATGTTT-GAAAAT
1 AATGTTTGGAAAAT
234882 CATAATACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
13 16 0.46
14 19 0.54
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (14 bp):
AATGTTTGGAAAAT
Found at i:235407 original size:22 final size:23
Alignment explanation
Indices: 235362--235408 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
235352 TTCCCTACAT
235362 GGGGGAATCAGTTCCCATTCAAA
1 GGGGGAATCAGTTCCCATTCAAA
*
235385 GGGGGAATCAGTTCCCCTT-AAA
1 GGGGGAATCAGTTCCCATTCAAA
235407 GG
1 GG
235409 TGGTATCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (23 bp):
GGGGGAATCAGTTCCCATTCAAA
Found at i:242541 original size:23 final size:23
Alignment explanation
Indices: 242510--242578 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
242500 CACCACAGCT
*
242510 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCTAAGTGCCA
* * *
242533 CGTAGAATTGCACC-AGAGTGTCG
1 CATAGAATTGCACCTA-AGTGCCA
242556 CATAGAATTGCACCGT-AGTGCCA
1 CATAGAATTGCACC-TAAGTGCCA
242579 TATAATAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCTAAGTGCCA
Found at i:242719 original size:103 final size:103
Alignment explanation
Indices: 242594--242811 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
242584 TAATGTCCAT
*
242594 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
242659 GACTTCATACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
242697 AAGGACCACATATCATTCCTTAAGAATCATATATATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
242762 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
242800 AAGGACCACATA
1 AAGGACCACATA
242812 GACCCTCTAA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:243367 original size:21 final size:21
Alignment explanation
Indices: 243343--243385 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
243333 TTCATATTCG
* *
243343 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
243364 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
243385 T
1 T
243386 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:246145 original size:19 final size:20
Alignment explanation
Indices: 246108--246145 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
246098 TTTTTCATTA
*
246108 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
246128 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
246146 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:251409 original size:20 final size:20
Alignment explanation
Indices: 251363--251415 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
251353 TTTAACCCTT
* *
251363 TAATTTATTATATATATTTT
1 TAATTTATTTTATATATTTC
** *
251383 TTCTTTATTTTGTATATTTC
1 TAATTTATTTTATATATTTC
251403 TAATTTAGTTTTA
1 TAATTTA-TTTTA
251416 GACACTTGAT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (20 bp):
TAATTTATTTTATATATTTC
Found at i:251495 original size:48 final size:48
Alignment explanation
Indices: 251440--251545 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
251430 GATTAAATCC
* *
251440 TTAGATTTAGATTTCTTTTAATGTAGGACATGTGAGAATAGTTAGAGT
1 TTAGATTTAGATTTCCTTTAATCTAGGACATGTGAGAATAGTTAGAGT
* *
251488 TTAGATTTATATTTCCTTTAATCTAGGTCATGTGAGAATAGTTAGAGT
1 TTAGATTTAGATTTCCTTTAATCTAGGACATGTGAGAATAGTTAGAGT
251536 TTAGATTTAG
1 TTAGATTTAG
251546 TCTTTGAACT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (48 bp):
TTAGATTTAGATTTCCTTTAATCTAGGACATGTGAGAATAGTTAGAGT
Found at i:256908 original size:18 final size:18
Alignment explanation
Indices: 256885--256954 Score: 113
Period size: 18 Copynumber: 3.9 Consensus size: 18
256875 GGGTTTACGC
256885 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
256903 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
** *
256921 GGTCCTTTTGTACATAGT
1 GGTCCTTCGGGACATAGT
256939 GGTCCTTCGGGACATA
1 GGTCCTTCGGGACATA
256955 TGTGTTATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.31
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:258444 original size:35 final size:35
Alignment explanation
Indices: 258395--258467 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
258385 TCACGAACAA
*
258395 TAAGGCCCTCAGCACAAAGCCGAGGAGCCTGCAAG
1 TAAGGCCCTCAGCACAAAGCCGAGGAGCCTCCAAG
* *
258430 TAAGGCCCTGAGCACAAAGCCGATGAGCCTCCAAG
1 TAAGGCCCTCAGCACAAAGCCGAGGAGCCTCCAAG
258465 TAA
1 TAA
258468 TCTTCCTCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.30, G:0.26, T:0.11
Consensus pattern (35 bp):
TAAGGCCCTCAGCACAAAGCCGAGGAGCCTCCAAG
Found at i:258570 original size:24 final size:24
Alignment explanation
Indices: 258543--258633 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
258533 AACAAATTCA
*
258543 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
258567 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
*
258591 GTCAA-CATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
258614 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
258634 TCAAATTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:258604 original size:23 final size:24
Alignment explanation
Indices: 258550--258617 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
258540 TCAGTCAAGT
* **
258550 ATCATATCAGAATCCAGGTCATGT
1 ATCAGATCAGAATCCAGGTCATAC
*
258574 ATCAGATCAGAATCCATGTCA-AC
1 ATCAGATCAGAATCCAGGTCATAC
258597 ATCAGATCAGAATCCAGGTCA
1 ATCAGATCAGAATCCAGGTCA
258618 GGTATCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAGATCAGAATCCAGGTCATAC
Found at i:263341 original size:35 final size:35
Alignment explanation
Indices: 263290--263364 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
263280 CGTCACGAAC
*
263290 AGTAAGGCCCTAAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTAAGCACAAAGCCGAGGAGCCTCCA
*
263325 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
1 AGTAAGGCCCTAAGCACAAAGCCGAGGAGCCTCCA
263360 AGTAA
1 AGTAA
263365 TCTTCCTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.35, C:0.28, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTAAGCACAAAGCCGAGGAGCCTCCA
Found at i:268126 original size:35 final size:35
Alignment explanation
Indices: 268080--268154 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
268070 TGTCACGAAC
*
268080 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
*
268115 AGTAAGGCCCTGAGCACAAAGCCGATGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
268150 AGTAA
1 AGTAA
268155 TCTTCCTCCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
Found at i:268260 original size:24 final size:24
Alignment explanation
Indices: 268233--268323 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
268223 CATAATTCAA
*
268233 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* *
268257 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAG
*
268281 GTCAA-CATCAGATCAGAATCCAG
1 GTCAAGTATCAGATCAGAATCCAG
* * *
268304 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAAT
268324 TCAAATTTGA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAG
Found at i:268294 original size:23 final size:24
Alignment explanation
Indices: 268240--268307 Score: 93
Period size: 23 Copynumber: 2.9 Consensus size: 24
268230 CAAGTCAAGT
* **
268240 ATCATATCAGAATCCAGGTCATGT
1 ATCAGATCAGAATCCAGGTCATAC
*
268264 ATCAGATCAGAATCCATGTCA-AC
1 ATCAGATCAGAATCCAGGTCATAC
268287 ATCAGATCAGAATCCAGGTCA
1 ATCAGATCAGAATCCAGGTCA
268308 GGTATCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (24 bp):
ATCAGATCAGAATCCAGGTCATAC
Found at i:276344 original size:32 final size:31
Alignment explanation
Indices: 276308--276384 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
276298 CGGGGCCGTG
*
276308 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** ** *
276340 GGGCCTACCCGAGAATGATCTCAGGGTCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
276371 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
276385 GTCACATTAG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:277272 original size:13 final size:13
Alignment explanation
Indices: 277254--277302 Score: 98
Period size: 13 Copynumber: 3.8 Consensus size: 13
277244 GTCAAAGAAA
277254 GTCAACGGTCACG
1 GTCAACGGTCACG
277267 GTCAACGGTCACG
1 GTCAACGGTCACG
277280 GTCAACGGTCACG
1 GTCAACGGTCACG
277293 GTCAACGGTC
1 GTCAACGGTC
277303 GGGTCGGGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (13 bp):
GTCAACGGTCACG
Found at i:277314 original size:17 final size:17
Alignment explanation
Indices: 277292--277349 Score: 116
Period size: 17 Copynumber: 3.4 Consensus size: 17
277282 CAACGGTCAC
277292 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
277309 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
277326 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
277343 GGTCAAC
1 GGTCAAC
277350 CCGGTTCAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:277319 original size:7 final size:7
Alignment explanation
Indices: 277254--277302 Score: 77
Period size: 7 Copynumber: 7.4 Consensus size: 7
277244 GTCAAAGAAA
277254 GTCAACG
1 GTCAACG
277261 GTC-ACG
1 GTCAACG
277267 GTCAACG
1 GTCAACG
277274 GTC-ACG
1 GTCAACG
277280 GTCAACG
1 GTCAACG
277287 GTC-ACG
1 GTCAACG
277293 GTCAACG
1 GTCAACG
277300 GTC
1 GTC
277303 GGGTCGGGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 18 0.46
7 21 0.54
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:277363 original size:10 final size:10
Alignment explanation
Indices: 277345--277413 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
277335 TCGGGTCGGG
*
277345 TCAACCCGGT
1 TCAAACCGGT
*
277355 TCAGACCGG-
1 TCAAACCGGT
277364 TCAAACCGGT
1 TCAAACCGGT
*
277374 TCGAACCGG-
1 TCAAACCGGT
277383 TCAAACCGGT
1 TCAAACCGGT
*
277393 TCAAAACTGG-
1 TC-AAACCGGT
277403 TCAAACCGGT
1 TCAAACCGGT
277413 T
1 T
277414 TTCCAGCAGC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 22 0.46
10 20 0.42
11 6 0.12
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:277365 original size:19 final size:20
Alignment explanation
Indices: 277343--277413 Score: 101
Period size: 19 Copynumber: 3.6 Consensus size: 20
277333 GGTCGGGTCG
*
277343 GGTCAACCCGGTTCAG-ACC
1 GGTCAAACCGGTTCAGAACC
277362 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAGAACC
* *
277381 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCAGAACC
277401 GGTCAAACCGGTT
1 GGTCAAACCGGTT
277414 TTCCAGCAGC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
18 1 0.02
19 30 0.64
20 16 0.34
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.18
Consensus pattern (20 bp):
GGTCAAACCGGTTCAGAACC
Found at i:283700 original size:32 final size:31
Alignment explanation
Indices: 283664--283740 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
283654 CGGGGCCGTT
*
283664 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
283696 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
283727 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
283741 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:283723 original size:63 final size:63
Alignment explanation
Indices: 283617--283740 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
283607 CCCTAAGGGA
* * ** *
283617 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTTGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
283680 ACATCTTAGGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
283741 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 2 0.04
63 50 0.96
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:284629 original size:13 final size:13
Alignment explanation
Indices: 284611--284646 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
284601 GTCAAAGAAA
284611 GTCAACGGTCACG
1 GTCAACGGTCACG
284624 GTCAACGGTCACG
1 GTCAACGGTCACG
284637 GTCAACGGTC
1 GTCAACGGTC
284647 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.17
Consensus pattern (13 bp):
GTCAACGGTCACG
Found at i:284658 original size:17 final size:17
Alignment explanation
Indices: 284636--284710 Score: 141
Period size: 17 Copynumber: 4.4 Consensus size: 17
284626 CAACGGTCAC
284636 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
284653 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
284670 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
284687 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
284704 GGTCAAC
1 GGTCAAC
284711 CCGGTTCAGA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:284663 original size:7 final size:7
Alignment explanation
Indices: 284611--284646 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
284601 GTCAAAGAAA
284611 GTCAACG
1 GTCAACG
284618 GTC-ACG
1 GTCAACG
284624 GTCAACG
1 GTCAACG
284631 GTC-ACG
1 GTCAACG
284637 GTCAACG
1 GTCAACG
284644 GTC
1 GTC
284647 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.22, C:0.31, G:0.31, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:284738 original size:10 final size:10
Alignment explanation
Indices: 284706--284755 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
284696 TCGGGTCGGG
*
284706 TCAACCCGGT
1 TCAAACCGGT
*
284716 TCAGACCGG-
1 TCAAACCGGT
284725 TCAAACCGGT
1 TCAAACCGGT
*
284735 TCAAAACTGG-
1 TC-AAACCGGT
284745 TCAAACCGGT
1 TCAAACCGGT
284755 T
1 T
284756 TTCCAGCAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 14 0.44
10 12 0.38
11 6 0.19
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:284746 original size:20 final size:19
Alignment explanation
Indices: 284704--284755 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
284694 AGTCGGGTCG
* *
284704 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAAACC
*
284723 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AAACC
284743 GGTCAAACCGGTT
1 GGTCAAACCGGTT
284756 TTCCAGCAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.27, C:0.29, G:0.25, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAAACC
Found at i:286111 original size:24 final size:24
Alignment explanation
Indices: 286079--286125 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
286069 TCTTCCTGAA
*
286079 GATGTATAAAACATCTATGTACAT
1 GATGTATAAAACAACTATGTACAT
286103 GATGTATAAAACAACTATGTACA
1 GATGTATAAAACAACTATGTACA
286126 ATGTCATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACAACTATGTACAT
Found at i:286646 original size:30 final size:30
Alignment explanation
Indices: 286590--286656 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
286580 AACCATTAAC
* *
286590 AACTTTTCCAAAAGTGTCAAATTGGTCCCCT
1 AACTTTTCCAAAAATGTCAAAATGGT-CCCT
286621 AACTTTT-CAAAAAT-TACAAAATGGTCCCT
1 AACTTTTCCAAAAATGT-CAAAATGGTCCCT
*
286650 AAATTTT
1 AACTTTT
286657 TCTAAGCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.34
30 14 0.44
31 7 0.22
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (30 bp):
AACTTTTCCAAAAATGTCAAAATGGTCCCT
Found at i:290067 original size:36 final size:36
Alignment explanation
Indices: 290027--290103 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
290017 TCATCCTTCA
290027 ATTTTTTGTAAAATTCCAGTTCGATCCGATTATCTG
1 ATTTTTTGTAAAATTCCAGTTCGATCCGATTATCTG
290063 ATTTTTTGTAAAATTCCAGTTCGATCCGATTATCTG
1 ATTTTTTGTAAAATTCCAGTTCGATCCGATTATCTG
290099 ATTTT
1 ATTTT
290104 CTTTTAGACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.47
Consensus pattern (36 bp):
ATTTTTTGTAAAATTCCAGTTCGATCCGATTATCTG
Found at i:300612 original size:17 final size:17
Alignment explanation
Indices: 300590--300625 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
300580 TGAGAAGAAG
300590 TTTATACAATGGAGCTA
1 TTTATACAATGGAGCTA
*
300607 TTTATACAATGGAGTTA
1 TTTATACAATGGAGCTA
300624 TT
1 TT
300626 CTGAGCAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (17 bp):
TTTATACAATGGAGCTA
Found at i:301569 original size:42 final size:43
Alignment explanation
Indices: 301522--301610 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 43
301512 TTTTTTTTTG
301522 ACAAAGCCAATAAAGCCCTTGTTAAAAACTTCTTCTAAA-CTA
1 ACAAAGCCAATAAAGCCCTTGTTAAAAACTTCTTCTAAACCTA
*
301564 ACAAAGCCGATAAAGCCCTTGTTAAAAACTTCTTCTAAACCTA
1 ACAAAGCCAATAAAGCCCTTGTTAAAAACTTCTTCTAAACCTA
301607 ACAA
1 ACAA
301611 GGGGAAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 38 0.84
43 7 0.16
ACGTcount: A:0.43, C:0.25, G:0.08, T:0.25
Consensus pattern (43 bp):
ACAAAGCCAATAAAGCCCTTGTTAAAAACTTCTTCTAAACCTA
Found at i:304967 original size:19 final size:19
Alignment explanation
Indices: 304935--304981 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
304925 TTTAAAATAG
*
304935 TCAAAGTCTCGTTTTCAATT
1 TCAAAGT-TCGTTTACAATT
304955 TCAAAGTTCGTTTACAATT
1 TCAAAGTTCGTTTACAATT
304974 TCAAAGTT
1 TCAAAGTT
304982 AAAGTTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (19 bp):
TCAAAGTTCGTTTACAATT
Found at i:308294 original size:19 final size:19
Alignment explanation
Indices: 308272--308318 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
308262 AAATATTTCA
*
308272 AATTACAATAAAGATTTAT
1 AATTACAATAAAGATTTAC
308291 AATTACAATAAAGATTTAC
1 AATTACAATAAAGATTTAC
*
308310 AATCACAAT
1 AATTACAAT
308319 CGTAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (19 bp):
AATTACAATAAAGATTTAC
Found at i:311610 original size:23 final size:22
Alignment explanation
Indices: 311580--311623 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
311570 ATCAGATTGT
311580 CTAGGGGGTACAGATTCTCCCCC
1 CTAGGGGGTACAGATTC-CCCCC
*
311603 CTAGGGGGTACCGATTCCCCC
1 CTAGGGGGTACAGATTCCCCC
311624 TGTCTAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.16, C:0.36, G:0.27, T:0.20
Consensus pattern (22 bp):
CTAGGGGGTACAGATTCCCCCC
Found at i:315052 original size:20 final size:19
Alignment explanation
Indices: 315028--315086 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 19
315018 AATTGTCCAG
*
315028 GGGGTACAGATTCCCCCCA
1 GGGGTACCGATTCCCCCCA
315047 GAGGGTACCGATTCCCCCCCCA
1 G-GGGTACCGATT--CCCCCCA
315069 GGGGTACCGATTCCCCCC
1 GGGGTACCGATTCCCCCC
315087 TGTCTAACGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.19
20 10 0.28
21 11 0.31
22 8 0.22
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (19 bp):
GGGGTACCGATTCCCCCCA
Found at i:315066 original size:21 final size:20
Alignment explanation
Indices: 315028--315086 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 20
315018 AATTGTCCAG
*
315028 GGGGTACAGATT-CCCCCCA
1 GGGGTACCGATTCCCCCCCA
315047 GAGGGTACCGATTCCCCCCCCA
1 G-GGGTACCGATT-CCCCCCCA
315069 GGGGTACCGATTCCCCCC
1 GGGGTACCGATTCCCCCC
315087 TGTCTAACGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
21 11 0.31
22 8 0.22
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (20 bp):
GGGGTACCGATTCCCCCCCA
Found at i:324130 original size:37 final size:37
Alignment explanation
Indices: 324089--324160 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
324079 ACGAATAGTA
324089 ACTTTACAACAGCTGCAAAACGAGGACGACAAGACAG
1 ACTTTACAACAGCTGCAAAACGAGGACGACAAGACAG
*
324126 ACTTTACAACCGCTGCAAAACGAGGACGACAAGAC
1 ACTTTACAACAGCTGCAAAACGAGGACGACAAGAC
324161 TGTCTTTCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.11
Consensus pattern (37 bp):
ACTTTACAACAGCTGCAAAACGAGGACGACAAGACAG
Found at i:325664 original size:24 final size:24
Alignment explanation
Indices: 325633--325687 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
325623 TCCCACCTGG
**
325633 AAAAAAATTATCTTTTTTTTTTTA
1 AAAAAAATTATCTTTTTTTTTAAA
325657 AAAAAAATTATCTTTTTTTTTAAA
1 AAAAAAATTATCTTTTTTTTTAAA
325681 AAAAAAA
1 AAAAAAA
325688 CTAGCACCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAAAAATTATCTTTTTTTTTAAA
Found at i:330562 original size:2 final size:2
Alignment explanation
Indices: 330551--330591 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
330541 TTAATTTAAA
330551 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
330592 GTGAGTGCGC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:331034 original size:13 final size:13
Alignment explanation
Indices: 331016--331040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331006 CTAATTATTA
331016 TTATTATTTTTAG
1 TTATTATTTTTAG
331029 TTATTATTTTTA
1 TTATTATTTTTA
331041 TATTAACTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:341127 original size:21 final size:21
Alignment explanation
Indices: 341101--341237 Score: 135
Period size: 21 Copynumber: 6.8 Consensus size: 21
341091 CGTTAAAAAG
341101 ATTAACATTTTAGGTAACGAA
1 ATTAACATTTTAGGTAACGAA
341122 ATTAACATTTTAGGTAACGAA
1 ATTAACATTTTAGGTAACGAA
*
341143 ATTAACATTTTAGGTAGCGCAA
1 ATTAACATTTTAGGTAACG-AA
*** **
341165 CCGAA-ACGTTA---AA--AA
1 ATTAACATTTTAGGTAACGAA
*
341180 GATTAACATTATAGGTAACGAA
1 -ATTAACATTTTAGGTAACGAA
341202 ATTAACATTTTAGGTAAC-AA
1 ATTAACATTTTAGGTAACGAA
*
341222 AATAACATTTTAGGTA
1 ATTAACATTTTAGGTA
341238 GTGTCTACCA
Statistics
Matches: 93, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
15 2 0.02
16 2 0.02
17 3 0.03
18 1 0.01
20 19 0.20
21 60 0.65
22 6 0.06
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (21 bp):
ATTAACATTTTAGGTAACGAA
Found at i:341229 original size:20 final size:21
Alignment explanation
Indices: 341183--341237 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
341173 TTAAAAAGAT
* *
341183 TAACATTATAGGTAACGAAAT
1 TAACATTTTAGGTAACGAAAA
341204 TAACATTTTAGGTAAC-AAAA
1 TAACATTTTAGGTAACGAAAA
341224 TAACATTTTAGGTA
1 TAACATTTTAGGTA
341238 GTGTCTACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (21 bp):
TAACATTTTAGGTAACGAAAA
Found at i:342715 original size:36 final size:35
Alignment explanation
Indices: 342669--342781 Score: 145
Period size: 35 Copynumber: 3.2 Consensus size: 35
342659 AAAATAGTCC
* * *
342669 TCAATTTCATTTTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTTTAAACCCCAAATTCTAAAATAAT
* *
342704 TCAATTTTCATTCTAAACCCTAAATTCTAAAATAAT
1 TCAA-TTTCATTTTAAACCCCAAATTCTAAAATAAT
** *
342740 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTCATTTTAAACCCCAAATTCTAAAATAAT
342775 TCAATTT
1 TCAATTT
342782 AAGGTTTAGA
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
35 36 0.55
36 30 0.45
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTTTAAACCCCAAATTCTAAAATAAT
Found at i:349760 original size:19 final size:19
Alignment explanation
Indices: 349719--349760 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
349709 CCCATATAAT
* *
349719 TTTAGTTCGTCCCTTAGAT
1 TTTAGTTCATCCCTTAGAG
349738 TTTAGTTCATCACCTTA-AG
1 TTTAGTTCATC-CCTTAGAG
349757 TTTA
1 TTTA
349761 AGTTTGCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (19 bp):
TTTAGTTCATCCCTTAGAG
Found at i:350699 original size:3 final size:3
Alignment explanation
Indices: 350620--350686 Score: 66
Period size: 3 Copynumber: 22.7 Consensus size: 3
350610 TTCATTTAAA
* * * * *
350620 TAT TAT T-T ATAT TAT TAT AAT AAT AAT AAT AAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
350665 TAT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
350687 ATAAATATTA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 3 0.05
3 55 0.93
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:351050 original size:20 final size:20
Alignment explanation
Indices: 350996--351037 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
350986 AAGCTCTGCT
350996 GCCTGGCAACGGTGGTCGGA
1 GCCTGGCAACGGTGGTCGGA
351016 GCCTGGCAACGGTGGTCGGA
1 GCCTGGCAACGGTGGTCGGA
351036 GC
1 GC
351038 TCGGAAGCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.45, T:0.14
Consensus pattern (20 bp):
GCCTGGCAACGGTGGTCGGA
Found at i:352602 original size:18 final size:18
Alignment explanation
Indices: 352575--352621 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
352565 TTTCTTTCAA
352575 ATTTTTTATTACTTA-TT
1 ATTTTTTATTACTTATTT
*
352592 ATTTTTATATTATTTATTT
1 ATTTTT-TATTACTTATTT
352611 ATTTATTTATT
1 ATTT-TTTATT
352622 TTATTCAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 10 0.38
20 2 0.08
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTTATTACTTATTT
Found at i:352618 original size:12 final size:13
Alignment explanation
Indices: 352595--352626 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
352585 ACTTATTATT
352595 TTTATATTATTTA
1 TTTATATTATTTA
352608 TTTAT-TTATTTA
1 TTTATATTATTTA
352620 TTT-TATT
1 TTTATATT
352627 CAAGTATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 12 0.67
13 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTATATTATTTA
Found at i:356610 original size:71 final size:71
Alignment explanation
Indices: 356530--356674 Score: 290
Period size: 71 Copynumber: 2.0 Consensus size: 71
356520 AAGGAGTCAA
356530 ATTTTAATCTTGAGATTATTGAGTATCAAGTAGATTAAATATTCTTTTAATTTTTCAAGAGTTAT
1 ATTTTAATCTTGAGATTATTGAGTATCAAGTAGATTAAATATTCTTTTAATTTTTCAAGAGTTAT
356595 AGATCT
66 AGATCT
356601 ATTTTAATCTTGAGATTATTGAGTATCAAGTAGATTAAATATTCTTTTAATTTTTCAAGAGTTAT
1 ATTTTAATCTTGAGATTATTGAGTATCAAGTAGATTAAATATTCTTTTAATTTTTCAAGAGTTAT
356666 AGATCT
66 AGATCT
356672 ATT
1 ATT
356675 GGCAAGTGGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (71 bp):
ATTTTAATCTTGAGATTATTGAGTATCAAGTAGATTAAATATTCTTTTAATTTTTCAAGAGTTAT
AGATCT
Found at i:356925 original size:18 final size:18
Alignment explanation
Indices: 356902--356939 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
356892 TTTCAAACAC
356902 AAAACCATC-ATAAACCAA
1 AAAACC-TCAATAAACCAA
356920 AAAACCTCAAATAAACCAA
1 AAAACCTC-AATAAACCAA
356939 A
1 A
356940 CTTCCAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 6 0.33
19 10 0.56
ACGTcount: A:0.63, C:0.26, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAACCTCAATAAACCAA
Found at i:357899 original size:17 final size:16
Alignment explanation
Indices: 357879--357917 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
357869 AAGAAAGAAA
*
357879 AAAAAAGATGAAAAAGG
1 AAAAAAGAGGAAAAA-G
*
357896 AAAAATGAGGAAAAAG
1 AAAAAAGAGGAAAAAG
357912 AAAAAA
1 AAAAAA
357918 AAAAGGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (16 bp):
AAAAAAGAGGAAAAAG
Found at i:362484 original size:40 final size:40
Alignment explanation
Indices: 362429--362508 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
362419 TGAGCAGAAG
362429 CCACAGAAAAGGATGAATATGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATATGTTGTCAAGTGTTTTACATC
* *
362469 CCACAGAAAATGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATATGTTGTCAAGTGTTTTACATC
362509 TGAGCTGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATATGTTGTCAAGTGTTTTACATC
Found at i:362942 original size:22 final size:22
Alignment explanation
Indices: 362911--362965 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
362901 ATCTACACTC
*
362911 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
362933 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
362955 TTCAAAGATGA
1 TTCAAAGATGA
362966 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:363563 original size:113 final size:113
Alignment explanation
Indices: 363403--364268 Score: 1423
Period size: 113 Copynumber: 7.6 Consensus size: 113
363393 TACCAGGTCG
*
363403 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
363468 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* *
363516 AGTTCATAATGAGAAGAACTCATCTGAAGAATGAATAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
363581 AAACCTTTTGCTTACATTCATCACTTAATGGATCAATTTTTCCATAGAA
66 -AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
363630 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * *
363695 AACCTTTTGCTTAAATTCATCACTTGATGGATTAACATTACCAG-GTCA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAG-AA
363743 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
363808 AACCTTTTGCTTACATTCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* *
363856 AGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTCCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
363921 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
*
363969 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * **
364034 AACCTTTTTGCTTAAATTCATCA-TTCAATGGATCAGCATTGCCAG-GTCG
66 AACC-TTTTGCTTAAATTCATCACTT-GATGGATCAACTTTTCCAGAG-AA
364083 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
*
364148 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAAAGAA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* ** *
364196 AGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
364261 AACCTTTT
66 AACCTTTT
364269 CTAGATTACA
Statistics
Matches: 697, Mismatches: 48, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
112 1 0.00
113 485 0.70
114 211 0.30
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
Found at i:364045 original size:340 final size:339
Alignment explanation
Indices: 363365--364268 Score: 1576
Period size: 340 Copynumber: 2.7 Consensus size: 339
363355 TTAGCAAAGT
363365 TTAAATTCATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATTCATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGA
*
363430 AAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGA
* *
363495 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAATGAATAAGAAGTT
131 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
* *
363560 CATAATGAGAAGAATTTGTTCAAACCTTTTGCTTACATTCATCACTTAATGGATCAATTTTTCCA
196 CATAATGAGAAGAATTTGTTC-AACCTTTTGCTTAAATTCATCACTTAATGGATCAACTTTTCCA
* *
363625 TAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATT
260 GAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATT
363690 TGTTCAACCTTTTGC
325 TGTTCAACCTTTTGC
* * *
363705 TTAAATTCATCACTT-GATGGATTAACATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTG
1 TTAAATTCATCA-TTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTG
*
363769 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTACATTCATCACTTG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTG
*
363834 ATGGATCAACTTTTCCAGAGAAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
130 ATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* *
363899 CCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCA
195 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTAATGGATCAACTTTTCCA
*
363964 GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATT
260 GAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATT
364029 TGTTCAACCTTTTTGC
325 TGTTCAACC-TTTTGC
* *
364045 TTAAATTCATCATTCAATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGA
1 TTAAATTCATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGA
364110 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGA
* *
364175 TGGATCAACTTTTCCAAAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTT
131 TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
** *
364240 CATAATGAGAAGAGCTTATTCAACCTTTT
196 CATAATGAGAAGAATTTGTTCAACCTTTT
364269 CTAGATTACA
Statistics
Matches: 533, Mismatches: 28, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
339 113 0.21
340 418 0.78
341 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (339 bp):
TTAAATTCATCATTCAATGGATCAACATTACCAGGTCGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGA
TGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTT
CATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTAATGGATCAACTTTTCCAG
AGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTT
GTTCAACCTTTTGC
Found at i:364215 original size:453 final size:452
Alignment explanation
Indices: 363403--364268 Score: 1452
Period size: 453 Copynumber: 1.9 Consensus size: 452
363393 TACCAGGTCG
*
363403 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTCCATAATGAGAAGAATTTGTTC
363468 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
* * * *
363533 ACTCATCTGAAGAATGAATAAGAAGTTCATAATGAGAAGAATTTGTTCAAACCTTTTGCTTACAT
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAAACCTTTTGCTTAAAT
** *
363598 TCATCACTTAATGGATCAATTTTTCCATAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGG
196 TCATCACTTAATGGATCAACATTGCCATAG-AAGTTCATAATGAGAAGAACTCATATGAAGAAGG
*
363663 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATT
260 AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATC
* * *
363728 AACATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
325 AACATTACCAAGTAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAAT
* *
363793 GAGAAGAATTTGTTCAACCTTTTGCTTACATTCATCACTTGATGGATCAACTTTTCCAGAGAA
390 GAGAAGAACTTATTCAACCTTTTGCTTACATTCATCACTTGATGGATCAACTTTTCCAGAGAA
* *
363856 AGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTCCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTCCATAATGAGAAGAATTTGTTC
363921 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
363986 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC-AACCTTTTTGCTTAAA
131 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAAACC-TTTTGCTTAAA
* * *
364050 TTCATCA-TTCAATGGATCAGCATTGCCAGGTCG-AGTTCATAATGAGAAGAACTCATCTGAAGA
195 TTCATCACTT-AATGGATCAACATTGCCA--TAGAAGTTCATAATGAGAAGAACTCATATGAAGA
364113 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGG
257 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGG
* *
364178 ATCAACTTTTCCAAAG-AAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCA
322 ATCAACATTACC-AAGTAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCA
*
364242 TAATGAGAAGAGCTTATTCAACCTTTT
386 TAATGAGAAGAACTTATTCAACCTTTT
364269 CTAGATTACA
Statistics
Matches: 386, Mismatches: 22, Indels: 10
0.92 0.05 0.02
Matches are distributed among these distances:
452 6 0.02
453 376 0.97
454 2 0.01
455 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (452 bp):
AGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTCCATAATGAGAAGAATTTGTTC
AACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAAACCTTTTGCTTAAAT
TCATCACTTAATGGATCAACATTGCCATAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTAAATTCATCACTTGATGGATCA
ACATTACCAAGTAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATAATG
AGAAGAACTTATTCAACCTTTTGCTTACATTCATCACTTGATGGATCAACTTTTCCAGAGAA
Found at i:364529 original size:29 final size:29
Alignment explanation
Indices: 364486--364556 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
364476 TTTTCATTTA
364486 AATATTATT-TATATTATTATTATTATAAT
1 AATATTATTAT-TATTATTATTATTATAAT
*
364515 AATATTATTATTATTATTATTATTATTAT
1 AATATTATTATTATTATTATTATTATAAT
* *
364544 TATTTTATTATTA
1 AATATTATTATTA
364557 ATAAATATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 37 0.97
30 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
AATATTATTATTATTATTATTATTATAAT
Found at i:364569 original size:3 final size:3
Alignment explanation
Indices: 364488--364556 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
364478 TTCATTTAAA
* *
364488 TAT TAT T-T ATAT TAT TAT TAT TA- TAA TAA TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
364532 TAT TAT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
364557 ATAAATATTA
Statistics
Matches: 61, Mismatches: 1, Indels: 8
0.87 0.01 0.11
Matches are distributed among these distances:
2 5 0.08
3 55 0.90
4 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:372746 original size:12 final size:11
Alignment explanation
Indices: 372716--372750 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
372706 CATCATCAAA
372716 AAAATATTTTT
1 AAAATATTTTT
*
372727 AAACTATTTTT
1 AAAATATTTTT
372738 AAATATATTTTT
1 AAA-ATATTTTT
372750 A
1 A
372751 TAATTGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:383424 original size:30 final size:30
Alignment explanation
Indices: 383388--383480 Score: 109
Period size: 30 Copynumber: 3.0 Consensus size: 30
383378 CCCGAAGGAC
383388 CTGTCCATATGTTCC-AAAGAACATAGGTAA
1 CTGTCCATATGTTCCGAAAG-ACATAGGTAA
* *
383418 CTGTCCATATGTCCCGAATGACATAGGTAA
1 CTGTCCATATGTTCCGAAAGACATAGGTAA
*
383448 TCCTGTCCATATG-TCCTGAAGGACATAGGTAA
1 --CTGTCCATATGTTCC-GAAAGACATAGGTAA
383480 C
1 C
383481 CCTCGAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
30 25 0.45
31 5 0.09
32 25 0.45
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (30 bp):
CTGTCCATATGTTCCGAAAGACATAGGTAA
Found at i:383459 original size:32 final size:31
Alignment explanation
Indices: 383386--383481 Score: 124
Period size: 32 Copynumber: 3.1 Consensus size: 31
383376 GTCCCGAAGG
*
383386 ACCTGTCCATATGTTCC-AAAGAACATAGGTA
1 ACCTGTCCATATGTCCCGAAAG-ACATAGGTA
*
383417 A-CTGTCCATATGTCCCGAATGACATAGGTA
1 ACCTGTCCATATGTCCCGAAAGACATAGGTA
* *
383447 ATCCTGTCCATATGTCCTGAAGGACATAGGTA
1 A-CCTGTCCATATGTCCCGAAAGACATAGGTA
383479 ACC
1 ACC
383482 CTCGAATCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
30 24 0.41
31 6 0.10
32 28 0.48
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAAGACATAGGTA
Found at i:384358 original size:21 final size:21
Alignment explanation
Indices: 384331--384429 Score: 96
Period size: 22 Copynumber: 4.6 Consensus size: 21
384321 GAAGTTCCCC
384331 TGGTATCGATACACTC-T-ATA
1 TGGTATCGATAC-CTCTTCATA
384351 TAGGTATCGATACCTCTTCCATA
1 T-GGTATCGATACCTCTT-CATA
384374 TGGTATCGATACCTCTTCCATA
1 TGGTATCGATACCTCTT-CATA
* * *
384396 TGGTATCAATA-TTGTTCATA
1 TGGTATCGATACCTCTTCATA
*
384416 CAGGTATCGATACC
1 -TGGTATCGATACC
384430 CCATGCATCA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.12
21 24 0.36
22 31 0.46
23 4 0.06
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCTCTTCATA
Found at i:384381 original size:22 final size:22
Alignment explanation
Indices: 384331--384402 Score: 105
Period size: 22 Copynumber: 3.3 Consensus size: 22
384321 GAAGTTCCCC
384331 TGGTATCGATACACTC-T--ATA
1 TGGTATCGATAC-CTCTTCCATA
384351 TAGGTATCGATACCTCTTCCATA
1 T-GGTATCGATACCTCTTCCATA
384374 TGGTATCGATACCTCTTCCATA
1 TGGTATCGATACCTCTTCCATA
384396 TGGTATC
1 TGGTATC
384403 AATATTGTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 28 0.58
23 4 0.08
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (22 bp):
TGGTATCGATACCTCTTCCATA
Found at i:389255 original size:18 final size:18
Alignment explanation
Indices: 389232--389277 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
389222 AAGGGATTAT
389232 CAGTGGTCCTTCAGGACA
1 CAGTGGTCCTTCAGGACA
*
389250 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCAGGACA
*
389268 CAGTAGTCCT
1 CAGTGGTCCT
389278 ACGAGACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (18 bp):
CAGTGGTCCTTCAGGACA
Found at i:389285 original size:18 final size:18
Alignment explanation
Indices: 389246--389285 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
389236 GGTCCTTCAG
* * *
389246 GACACAGTGGTCCTTCGG
1 GACACAGTAGTCCTACGA
389264 GACACAGTAGTCCTACGA
1 GACACAGTAGTCCTACGA
389282 GACA
1 GACA
389286 AATTCTATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (18 bp):
GACACAGTAGTCCTACGA
Found at i:391709 original size:19 final size:19
Alignment explanation
Indices: 391685--391738 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
391675 AAGCTACTTT
*
391685 GTGCATCGATGCACCCATA
1 GTGCATCGATACACCCATA
391704 GTGCATCGATACACCCATA
1 GTGCATCGATACACCCATA
*
391723 GTGCATCGATATACCC
1 GTGCATCGATACACCC
391739 CTTAAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (19 bp):
GTGCATCGATACACCCATA
Found at i:392722 original size:18 final size:18
Alignment explanation
Indices: 392651--392714 Score: 110
Period size: 18 Copynumber: 3.6 Consensus size: 18
392641 GAGGGATTAT
*
392651 CAGTGGTCATTCGGGACA
1 CAGTGGTCCTTCGGGACA
392669 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
392687 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
*
392705 TAGTGGTCCT
1 CAGTGGTCCT
392715 ACGAGACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:394642 original size:18 final size:18
Alignment explanation
Indices: 394616--394747 Score: 156
Period size: 18 Copynumber: 7.3 Consensus size: 18
394606 GATTATCAGG
* *
394616 GGTCATTCGGGACCCAGT
1 GGTCCTTCGGGACACAGT
*
394634 GGTCCTTCGAGACACAGT
1 GGTCCTTCGGGACACAGT
* *
394652 GGTCCTTCGAGACACAAT
1 GGTCCTTCGGGACACAGT
*
394670 GGTCCTTCGAGACACAGT
1 GGTCCTTCGGGACACAGT
* *
394688 GGTCATTTGGGACACAGT
1 GGTCCTTCGGGACACAGT
* *
394706 GGTTCTTCAGGACACAGT
1 GGTCCTTCGGGACACAGT
* *
394724 GGTCATTCGGGACATAGT
1 GGTCCTTCGGGACACAGT
394742 GGTCCT
1 GGTCCT
394748 ACGAGATAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 97 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (18 bp):
GGTCCTTCGGGACACAGT
Found at i:394673 original size:36 final size:36
Alignment explanation
Indices: 394616--394753 Score: 188
Period size: 36 Copynumber: 3.8 Consensus size: 36
394606 GATTATCAGG
*
394616 GGTCATTCGGGACCCAGTGGTCCTTCGAGACACAGT
1 GGTCATTCGGGACACAGTGGTCCTTCGAGACACAGT
* * *
394652 GGTCCTTCGAGACACAATGGTCCTTCGAGACACAGT
1 GGTCATTCGGGACACAGTGGTCCTTCGAGACACAGT
* *
394688 GGTCATTTGGGACACAGTGGTTCTTC-AGGACACAGT
1 GGTCATTCGGGACACAGTGGTCCTTCGA-GACACAGT
* *
394724 GGTCATTCGGGACATAGTGGTCCTACGAGA
1 GGTCATTCGGGACACAGTGGTCCTTCGAGA
394754 TAAATTTTAT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
35 1 0.01
36 85 0.98
37 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (36 bp):
GGTCATTCGGGACACAGTGGTCCTTCGAGACACAGT
Found at i:397915 original size:19 final size:19
Alignment explanation
Indices: 397891--397927 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
397881 TGAAGTTACT
*
397891 TTGTGCATCGATGCACCCA
1 TTGTGCATCGATACACCCA
397910 TTGTGCATCGATACACCC
1 TTGTGCATCGATACACCC
397928 CTAAAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (19 bp):
TTGTGCATCGATACACCCA
Found at i:398864 original size:18 final size:18
Alignment explanation
Indices: 398842--398912 Score: 108
Period size: 18 Copynumber: 3.9 Consensus size: 18
398832 AGGGATTATT
* *
398842 AGTGGTCTTTCGGGACAT
1 AGTGGTCCTTCGGGACAC
398860 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
398878 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
398896 AGTGGT-CTTACGGGACA
1 AGTGGTCCTT-CGGGACA
398913 AATTCTACGC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
17 3 0.06
18 47 0.94
ACGTcount: A:0.18, C:0.23, G:0.34, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:404339 original size:30 final size:30
Alignment explanation
Indices: 404283--404340 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
404273 AGTGCTCCAT
* *
404283 AGGTTGTCGTGTGCTCCTGAATACCTATGG
1 AGGTCGTCGTGTGCTCCTGAAGACCTATGG
404313 AGGTCGTCGTGTGCTCCTTG-AGACCTAT
1 AGGTCGTCGTGTGCTCC-TGAAGACCTAT
404341 AGTGGTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (30 bp):
AGGTCGTCGTGTGCTCCTGAAGACCTATGG
Found at i:404435 original size:25 final size:25
Alignment explanation
Indices: 404407--404460 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
404397 GAATTTTTTT
404407 CATTGCACTATTCAACCATTTTTAC
1 CATTGCACTATTCAACCATTTTTAC
*
404432 CATTGCATTATTCAACCATTTTTAC
1 CATTGCACTATTCAACCATTTTTAC
404457 CATT
1 CATT
404461 TTATCACGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.04, T:0.43
Consensus pattern (25 bp):
CATTGCACTATTCAACCATTTTTAC
Found at i:408432 original size:8 final size:8
Alignment explanation
Indices: 408419--408459 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
408409 CTCATTTTCA
408419 GAGAATTT
1 GAGAATTT
408427 GAGAATTT
1 GAGAATTT
*
408435 -AGAGTTT
1 GAGAATTT
*
408442 GGGAATTT
1 GAGAATTT
408450 GAGAATTT
1 GAGAATTT
408458 GA
1 GA
408460 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:408768 original size:128 final size:128
Alignment explanation
Indices: 408540--409011 Score: 823
Period size: 128 Copynumber: 3.7 Consensus size: 128
408530 ACTATTCACA
*
408540 TGAAGGCACGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
408605 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCATGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
408668 TGAAGGCGCGTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
408733 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
408796 TGAAGGCGCGTTCTCGGGGGCGCGCCTTCC---A---T-TCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* *
408854 TTATGTCACTCATGTCCCTCGGTGACACTATTCATATCAGTACTTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
408917 TGAAGGCGCGTTCCCGAGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
408982 TTATGTCACTCATGTCCCTCGAGGACACTA
66 TTATGTCACTCATGTCCCTCGGGGACACTA
409012 GATGGATTGT
Statistics
Matches: 326, Mismatches: 11, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
121 115 0.35
122 1 0.00
124 1 0.00
125 1 0.00
127 1 0.00
128 207 0.63
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:409124 original size:34 final size:34
Alignment explanation
Indices: 409086--409186 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
409076 AAATTGAATG
*
409086 TTAAATTTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
409120 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
*
409154 TTAAATTTTGAATAATATAATTTGTATTTTAAA
1 TTAAATTTTGAATAATATAATTTATATTTTAAA
409187 AACATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:409736 original size:21 final size:21
Alignment explanation
Indices: 409712--409814 Score: 120
Period size: 21 Copynumber: 4.9 Consensus size: 21
409702 ATAAAACCAT
* *
409712 GCGGGCTAGGCATATAACCTG
1 GCGGGCTAGGAATGTAACCTG
409733 GCGGGCTAGGAATGTAACCCT-
1 GCGGGCTAGGAATGTAA-CCTG
*
409754 GCGGGCTCGGAATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
409775 GCGGGCTAGGAATGTAATCCTG
1 GCGGGCTAGGAATGTAA-CCTG
* * *
409797 G-GAGATCGGAATGTAACC
1 GCGGGCTAGGAATGTAACC
409815 CTACGGATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.07
21 59 0.82
22 8 0.11
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.19
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:409772 original size:42 final size:42
Alignment explanation
Indices: 409706--409814 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
409696 TATGGTATAA
* * * *
409706 AACCATGCGGGCTAGGCATATAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
409748 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
* *
409790 AATCCTG-GGAGATCGGAATGTAACC
1 AACCCTGCGG-GCTCGGAATGTAACC
409815 CTACGGATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 2 0.03
42 58 0.97
ACGTcount: A:0.26, C:0.22, G:0.33, T:0.19
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
Found at i:409870 original size:21 final size:21
Alignment explanation
Indices: 409825--409871 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
409815 CTACGGATAT
* *
409825 GGCATATGAACTGGTGAGCTT
1 GGCATATGAACTGGAGAGCTG
* *
409846 GGCATATGAAGTGGAGGGCTG
1 GGCATATGAACTGGAGAGCTG
409867 GGCAT
1 GGCAT
409872 GTACCCCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.40, T:0.23
Consensus pattern (21 bp):
GGCATATGAACTGGAGAGCTG
Found at i:411674 original size:32 final size:32
Alignment explanation
Indices: 411598--411685 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 32
411588 ATAATAATTC
411598 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAATAATTATATAAATATTA-TTTAA
*
411632 TAAAAAATAATATTTATATAAATA-TA-TTAA
1 TAAAAAATAATAATTATATAAATATTATTTAA
* *
411662 TATAAAATATAATAACTATTTAAA
1 TA-AAAA-ATAATAATTATATAAA
411686 AAAATACTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 6 0.12
31 4 0.08
32 15 0.31
33 19 0.40
34 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
TAAAAAATAATAATTATATAAATATTATTTAA
Found at i:411817 original size:20 final size:20
Alignment explanation
Indices: 411772--411809 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
411762 TATAAGATAG
411772 GAGAATATGATTTTGGTGAC
1 GAGAATATGATTTTGGTGAC
411792 GAGAATATGATTTTGGTG
1 GAGAATATGATTTTGGTG
411810 TGAAGAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.37
Consensus pattern (20 bp):
GAGAATATGATTTTGGTGAC
Found at i:413237 original size:24 final size:24
Alignment explanation
Indices: 413187--413241 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
413177 ATTAAGGTTA
413187 AAATAAAGTAATTAAAATAAAAAAT
1 AAAT-AAGTAATTAAAATAAAAAAT
* *
413212 AAATAAGT-ATTAAATATATAAGAT
1 AAATAAGTAATTAAA-ATAAAAAAT
413236 AAATAA
1 AAATAA
413242 AAGGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 6 0.22
24 17 0.63
25 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.27
Consensus pattern (24 bp):
AAATAAGTAATTAAAATAAAAAAT
Found at i:414335 original size:19 final size:18
Alignment explanation
Indices: 414311--414360 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
414301 CAACTAGATA
414311 AATAAATAATATATATAAT
1 AATAAATAATATATA-AAT
*
414330 AATAAATAACATA-AAAT
1 AATAAATAATATATAAAT
* *
414347 AATATATATTATAT
1 AATAAATAATATAT
414361 TATTTCCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 13 0.50
18 1 0.04
19 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAAATAATATATAAAT
Found at i:414592 original size:73 final size:72
Alignment explanation
Indices: 414468--414602 Score: 164
Period size: 73 Copynumber: 1.9 Consensus size: 72
414458 TTTTCAAAAT
* * * *
414468 TATATTATACGTTTTCCAAAATGTTTTCAAAACTATTTACTATACATTTTCAAAATTGTTTTTTA
1 TATATTATACATTTTCCAAAATGTTTTCAAAACTATATACTAGACAGTTTCAAAATT-TTTTTTA
414533 AAAAATCA
65 AAAAATCA
* * * * *
414541 TATATTATACATTTTCGAAACTGTTTTTTAAAACTATATATTAGAC-GTTTCAACATTTTTTT
1 TATATTATACATTTTCCAAAATG-TTTTCAAAACTATATACTAGACAGTTTCAAAATTTTTTT
414603 AACTAGATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
72 5 0.10
73 29 0.56
74 18 0.35
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (72 bp):
TATATTATACATTTTCCAAAATGTTTTCAAAACTATATACTAGACAGTTTCAAAATTTTTTTTAA
AAAATCA
Found at i:414700 original size:36 final size:38
Alignment explanation
Indices: 414626--414704 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 38
414616 GTTTTCAAAA
**
414626 AAAAATACGTTCTCAAAAACTATATTATATATGTTTTC
1 AAAAATACGTTCTCAAAAACTATATTATATATACTTTC
*
414664 AAAAATACGTTTTC-AAAAC-ATA-TACTATATACTTTC
1 AAAAATACGTTCTCAAAAACTATATTA-TATATACTTTC
414700 AAAAA
1 AAAAA
414705 ATTATGTTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 2 0.05
36 17 0.46
37 5 0.14
38 13 0.35
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (38 bp):
AAAAATACGTTCTCAAAAACTATATTATATATACTTTC
Found at i:414983 original size:21 final size:20
Alignment explanation
Indices: 414959--415000 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
414949 TATTGTGCTA
414959 TTATTGTTTTATATTTTATAT
1 TTATTGTTTTATATTTT-TAT
*
414980 TTATTTTTTTATATTTTTAT
1 TTATTGTTTTATATTTTTAT
415000 T
1 T
415001 AATAATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTGTTTTATATTTTTAT
Found at i:415924 original size:15 final size:15
Alignment explanation
Indices: 415904--415933 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
415894 ATTATTCTTA
415904 TTTTTCAAAAAATAT
1 TTTTTCAAAAAATAT
415919 TTTTTCAAAAAATAT
1 TTTTTCAAAAAATAT
415934 ATACATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTTTCAAAAAATAT
Found at i:416139 original size:18 final size:18
Alignment explanation
Indices: 416107--416153 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
416097 ATCTACCCTT
* *
416107 ATAAAAATATTCAACAATA
1 ATAAAAATA-ACAACAACA
416126 ATAAAAATAACAACAACA
1 ATAAAAATAACAACAACA
*
416144 ATAATAATAA
1 ATAAAAATAA
416154 TAATTGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAAAATAACAACAACA
Found at i:421901 original size:16 final size:17
Alignment explanation
Indices: 421882--421918 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
421872 TTAACTATAT
421882 AAAATTTTAAA-AAAAA
1 AAAATTTTAAAGAAAAA
421898 AAAA-TTTAAAGAAAAA
1 AAAATTTTAAAGAAAAA
*
421914 TAAAT
1 AAAAT
421919 GTATTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATTTTAAAGAAAAA
Found at i:424836 original size:273 final size:273
Alignment explanation
Indices: 424349--424894 Score: 1092
Period size: 273 Copynumber: 2.0 Consensus size: 273
424339 TTGGCATTTC
424349 GCTTTAGTTTTCTTGATTTCGGCATTTCACTTAGGTCTGGCAATGTTTGATTTGAGGGATATTTC
1 GCTTTAGTTTTCTTGATTTCGGCATTTCACTTAGGTCTGGCAATGTTTGATTTGAGGGATATTTC
424414 ATTCATTTTGAAATATTTGCACTTTATCTTGCTTCACAATTATTTTAGTATTTGGTGGTTTCAAG
66 ATTCATTTTGAAATATTTGCACTTTATCTTGCTTCACAATTATTTTAGTATTTGGTGGTTTCAAG
424479 ACAGTGTTAGAACTTGATCATTGTTTTCTAATGTCTTAGAATTTATAATTATTACCCTAATTCCC
131 ACAGTGTTAGAACTTGATCATTGTTTTCTAATGTCTTAGAATTTATAATTATTACCCTAATTCCC
424544 CCTTTTGGAACATATTTATGCTCACTGGGTGTCACTCAGAATCGGGTGTAACCCTAAGATATGTG
196 CCTTTTGGAACATATTTATGCTCACTGGGTGTCACTCAGAATCGGGTGTAACCCTAAGATATGTG
424609 TATCTGATATGGG
261 TATCTGATATGGG
424622 GCTTTAGTTTTCTTGATTTCGGCATTTCACTTAGGTCTGGCAATGTTTGATTTGAGGGATATTTC
1 GCTTTAGTTTTCTTGATTTCGGCATTTCACTTAGGTCTGGCAATGTTTGATTTGAGGGATATTTC
424687 ATTCATTTTGAAATATTTGCACTTTATCTTGCTTCACAATTATTTTAGTATTTGGTGGTTTCAAG
66 ATTCATTTTGAAATATTTGCACTTTATCTTGCTTCACAATTATTTTAGTATTTGGTGGTTTCAAG
424752 ACAGTGTTAGAACTTGATCATTGTTTTCTAATGTCTTAGAATTTATAATTATTACCCTAATTCCC
131 ACAGTGTTAGAACTTGATCATTGTTTTCTAATGTCTTAGAATTTATAATTATTACCCTAATTCCC
424817 CCTTTTGGAACATATTTATGCTCACTGGGTGTCACTCAGAATCGGGTGTAACCCTAAGATATGTG
196 CCTTTTGGAACATATTTATGCTCACTGGGTGTCACTCAGAATCGGGTGTAACCCTAAGATATGTG
424882 TATCTGATATGGG
261 TATCTGATATGGG
424895 TATTTTCAAC
Statistics
Matches: 273, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
273 273 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.42
Consensus pattern (273 bp):
GCTTTAGTTTTCTTGATTTCGGCATTTCACTTAGGTCTGGCAATGTTTGATTTGAGGGATATTTC
ATTCATTTTGAAATATTTGCACTTTATCTTGCTTCACAATTATTTTAGTATTTGGTGGTTTCAAG
ACAGTGTTAGAACTTGATCATTGTTTTCTAATGTCTTAGAATTTATAATTATTACCCTAATTCCC
CCTTTTGGAACATATTTATGCTCACTGGGTGTCACTCAGAATCGGGTGTAACCCTAAGATATGTG
TATCTGATATGGG
Found at i:427375 original size:21 final size:22
Alignment explanation
Indices: 427332--427375 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
427322 CCTATTCAAT
*
427332 AATTCTCTTCATGAAAATATTA
1 AATTCTCTTCATGAAAAGATTA
*
427354 AATTCT-TTCATGAAAAGGTTA
1 AATTCTCTTCATGAAAAGATTA
427375 A
1 A
427376 GCACTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (22 bp):
AATTCTCTTCATGAAAAGATTA
Found at i:429393 original size:30 final size:30
Alignment explanation
Indices: 429307--429395 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
429297 AGATCTGAGG
* *
429307 GTTACCTATG-TCTTTCGAGACATATGGATA
1 GTTACCTATGTTCTTTGGA-ACATATGGACA
* * * * *
429337 GTTTACATACGTCCTTCGGGACATATGGACA
1 G-TTACCTATGTTCTTTGGAACATATGGACA
429368 GTTACCTATGTTCTTTGGAACATATGGA
1 GTTACCTATGTTCTTTGGAACATATGGA
429396 TAGGTCATTC
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
30 23 0.51
31 18 0.40
32 4 0.09
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (30 bp):
GTTACCTATGTTCTTTGGAACATATGGACA
Found at i:429595 original size:2 final size:2
Alignment explanation
Indices: 429588--429651 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
429578 ATAGTGCTTC
429588 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
429630 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
429652 CGTATAACTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:430246 original size:21 final size:21
Alignment explanation
Indices: 430212--430267 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
430202 ATAAGAGTAA
430212 AGAG-TATGTTGTTTTGCTGAT
1 AGAGATAT-TTGTTTTGCTGAT
*
430233 AGATATATTTGTTTTGCTGAT
1 AGAGATATTTGTTTTGCTGAT
430254 AGAGATATTTGTTT
1 AGAGATATTTGTTT
430268 ATATCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (21 bp):
AGAGATATTTGTTTTGCTGAT
Found at i:434556 original size:31 final size:30
Alignment explanation
Indices: 434515--434597 Score: 98
Period size: 31 Copynumber: 2.8 Consensus size: 30
434505 GAGTCGATGG
*
434515 TTACCTATGTCTTTCGAGACATATGGACAGT
1 TTACCTATGTCCTTCGAGACATATGGACA-T
* * *
434546 TTACCCATGTCCTTCGGGATATATGGACAT
1 TTACCTATGTCCTTCGAGACATATGGACAT
*
434576 TTACCTATGTTCTTC-AGA-ATAT
1 TTACCTATGTCCTTCGAGACATAT
434598 ATGGATAGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 4 0.09
29 2 0.04
30 14 0.31
31 25 0.56
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (30 bp):
TTACCTATGTCCTTCGAGACATATGGACAT
Found at i:434598 original size:30 final size:31
Alignment explanation
Indices: 434535--434602 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
434525 CTTTCGAGAC
* *
434535 ATATGGACAGTTTACCCATGTCCTTCGGGAT
1 ATATGGACAGTTTACCCATGTCCTTCAGAAT
* *
434566 ATATGGACA-TTTACCTATGTTCTTCAGAAT
1 ATATGGACAGTTTACCCATGTCCTTCAGAAT
434596 ATATGGA
1 ATATGGA
434603 TAGGTCCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (31 bp):
ATATGGACAGTTTACCCATGTCCTTCAGAAT
Found at i:434797 original size:2 final size:2
Alignment explanation
Indices: 434790--434827 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
434780 TTTATAATGC
434790 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
434828 CGTATGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:436518 original size:20 final size:20
Alignment explanation
Indices: 436489--436526 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
436479 TTTCAAAGGG
436489 ATGCACCGATGAACCAATCC
1 ATGCACCGATGAACCAATCC
* *
436509 ATGCATCGATGCACCAAT
1 ATGCACCGATGAACCAAT
436527 GAATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.32, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGAACCAATCC
Found at i:436612 original size:65 final size:64
Alignment explanation
Indices: 436537--436690 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 64
436527 GAATAAATTG
* * *
436537 AACATCGAATGCATTTTATGCATCGAAGCACATA-CCATGCATCGATGCACTGAGGGT-TTTATG
1 AACATCGAATGCATTTCATGCATCGAAGCACA-AGCCATGCATCGATGCACTCAGGCTATTT-TG
436600 AA
64 -A
* * * *
436602 AACATCGAATGCATTTGATACATCGATGCACAAGCCATGCATCGATTCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGAAGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGA
* *
436666 AACATTGAATGCACTTCATGCATCG
1 AACATCGAATGCATTTCATGCATCG
436691 GTGCACTCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 23 0.30
65 51 0.66
66 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGAAGCACAAGCCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:436714 original size:19 final size:18
Alignment explanation
Indices: 436692--436732 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
436682 CATGCATCGG
436692 TGCACTCTTAGTGCACCGA
1 TGCACTC-TAGTGCACCGA
436711 TGCA--CTAGTGCACCGA
1 TGCACTCTAGTGCACCGA
*
436727 TTCACT
1 TGCACT
436733 AAGGGTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
16 14 0.74
17 1 0.05
19 4 0.21
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (18 bp):
TGCACTCTAGTGCACCGA
Found at i:436721 original size:16 final size:16
Alignment explanation
Indices: 436700--436733 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
436690 GGTGCACTCT
436700 TAGTGCACCGATGCAC
1 TAGTGCACCGATGCAC
*
436716 TAGTGCACCGATTCAC
1 TAGTGCACCGATGCAC
436732 TA
1 TA
436734 AGGGTCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (16 bp):
TAGTGCACCGATGCAC
Found at i:442508 original size:21 final size:20
Alignment explanation
Indices: 442441--442513 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
442431 ATTGTGCTTA
*
442441 ATGCATCGATACACCT-AAC
1 ATGCATCGATACACCTGAAG
* *
442460 AGTGCATCGATGCGTCCTTGAATG
1 A-TGCATCGATAC-ACC-TGAA-G
442484 -TGCATCGATACACCATGAAG
1 ATGCATCGATACACC-TGAAG
442504 ATGCATCGAT
1 ATGCATCGAT
442514 GTATCCGTCG
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 1 0.02
20 11 0.26
21 17 0.40
22 11 0.26
23 2 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (20 bp):
ATGCATCGATACACCTGAAG
Found at i:444642 original size:8 final size:8
Alignment explanation
Indices: 444631--444659 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
444621 GTAAAAGTGT
444631 AAAAGGGG
1 AAAAGGGG
444639 AAAAGGGG
1 AAAAGGGG
444647 AAAAGGGG
1 AAAAGGGG
444655 AAAAG
1 AAAAG
444660 TGTTAGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (8 bp):
AAAAGGGG
Found at i:445124 original size:65 final size:64
Alignment explanation
Indices: 445047--445206 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 64
445037 GAATAAATTG
* * * *
445047 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTGAGGGT-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-AGCCATGCATCAATGCACTCAGGCTATTT-TG
445110 AA
64 -A
* *
445112 AACATCGAATGCATTTGATGCATCGATGCATAAGCCATGCATCAATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCAATGCACTCAGGCTATTTTGA
*
445176 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
445207 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 30 0.35
65 52 0.61
66 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCAATGCACTCAGGCTATTTTGA
Found at i:445224 original size:64 final size:65
Alignment explanation
Indices: 445047--445226 Score: 169
Period size: 65 Copynumber: 2.8 Consensus size: 65
445037 GAATAAATTG
* * * *
445047 AACATCGAATGCATTTTATGCATCGATGCACATAC-CA-TGCATCGATGCACTGAGGGTTTTATG
1 AACATCGAATGCATTTCATGCATCGATGCAC-T-CTAAGTGCATCGATGCACTCAGGCTTTTATG
445110 AA
64 AA
* *
445112 AACATCGAATGCATTTGATGCATCGATGCA---TAAGCCATGCATCAATGCACTCAGGCTATTT-
1 AACATCGAATGCATTTCATGCATCGATGCACTCTAAG---TGCATCGATGCACTCAGGCT-TTTA
445173 TG-A
62 TGAA
* *
445176 AACATCGAATGCACTTCATGCATCGATGCACTCTTAGTGCA-CTGATGCACT
1 AACATCGAATGCATTTCATGCATCGATGCACTCTAAGTGCATC-GATGCACT
445227 AAGGGTCCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
61 1 0.01
63 1 0.01
64 40 0.42
65 48 0.50
66 3 0.03
67 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACTCTAAGTGCATCGATGCACTCAGGCTTTTATGAA
Found at i:446481 original size:22 final size:22
Alignment explanation
Indices: 446453--446494 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
446443 GATTGCAAAT
446453 AGGGAACCGATTCCCCTGCTAC
1 AGGGAACCGATTCCCCTGCTAC
446475 AGGGAACCGATTCCCCTGCT
1 AGGGAACCGATTCCCCTGCT
446495 TCAGTACTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (22 bp):
AGGGAACCGATTCCCCTGCTAC
Found at i:450198 original size:16 final size:16
Alignment explanation
Indices: 450177--450209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
450167 TAATAAATAA
450177 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
450193 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
450209 A
1 A
450210 AATTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:450315 original size:23 final size:23
Alignment explanation
Indices: 450284--450339 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
450274 TAAACGAACG
* *
450284 TAAACGAACGCAAACGAACATAA
1 TAAACGAACACAAACGAACACAA
* *
450307 TAAATGAACATAAACGAACACAA
1 TAAACGAACACAAACGAACACAA
450330 TAAACGAACA
1 TAAACGAACA
450340 ACACAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.59, C:0.20, G:0.11, T:0.11
Consensus pattern (23 bp):
TAAACGAACACAAACGAACACAA
Found at i:450332 original size:13 final size:13
Alignment explanation
Indices: 450295--450339 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
450285 AAACGAACGC
*
450295 AAACGAACATAAT
1 AAACGAACACAAT
*
450308 AAATG-A-AC-AT
1 AAACGAACACAAT
450318 AAACGAACACAAT
1 AAACGAACACAAT
450331 AAACGAACA
1 AAACGAACA
450340 ACACAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
10 6 0.23
11 2 0.08
12 3 0.12
13 15 0.58
ACGTcount: A:0.62, C:0.18, G:0.09, T:0.11
Consensus pattern (13 bp):
AAACGAACACAAT
Found at i:450623 original size:24 final size:24
Alignment explanation
Indices: 450594--450682 Score: 142
Period size: 24 Copynumber: 3.7 Consensus size: 24
450584 CCCTCTGTTC
*
450594 AAACATAAATGAATATAAATGAAA
1 AAACATAAATGAACATAAATGAAA
450618 AAACATAAATGAACATAAATGAAA
1 AAACATAAATGAACATAAATGAAA
*
450642 AAACATAAATGAACATAAATGAAC
1 AAACATAAATGAACATAAATGAAA
* *
450666 GAACATAAACGAACATA
1 AAACATAAATGAACATA
450683 TAATTGAACG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.64, C:0.10, G:0.09, T:0.17
Consensus pattern (24 bp):
AAACATAAATGAACATAAATGAAA
Found at i:450627 original size:14 final size:14
Alignment explanation
Indices: 450608--450654 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
450598 ATAAATGAAT
450608 ATAAATGAAAAAAC
1 ATAAATGAAAAAAC
450622 ATAAATG----AAC
1 ATAAATGAAAAAAC
450632 ATAAATGAAAAAAC
1 ATAAATGAAAAAAC
450646 ATAAATGAA
1 ATAAATGAA
450655 CATAAATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 10 0.34
14 19 0.66
ACGTcount: A:0.68, C:0.06, G:0.09, T:0.17
Consensus pattern (14 bp):
ATAAATGAAAAAAC
Found at i:450632 original size:10 final size:10
Alignment explanation
Indices: 450595--450665 Score: 61
Period size: 10 Copynumber: 6.3 Consensus size: 10
450585 CCTCTGTTCA
450595 AACATAAATG
1 AACATAAATG
*
450605 AATATAAATG
1 AACATAAATG
450615 AAAAAACATAAATG
1 ----AACATAAATG
450629 AACATAAATG
1 AACATAAATG
450639 AAAAAACATAAATG
1 ----AACATAAATG
450653 AACATAAATG
1 AACATAAATG
450663 AAC
1 AAC
450666 GAACATAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
10 32 0.63
14 19 0.37
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.18
Consensus pattern (10 bp):
AACATAAATG
Found at i:450633 original size:34 final size:34
Alignment explanation
Indices: 450595--450665 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
450585 CCTCTGTTCA
*
450595 AACATAAATGAATATAA-ATGAAA-AAACATAAATG
1 AACATAAATGAA-AAAACAT-AAATAAACATAAATG
*
450629 AACATAAATGAAAAAACATAAATGAACATAAATG
1 AACATAAATGAAAAAACATAAATAAACATAAATG
450663 AAC
1 AAC
450666 GAACATAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 6 0.18
34 27 0.82
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.18
Consensus pattern (34 bp):
AACATAAATGAAAAAACATAAATAAACATAAATG
Found at i:450708 original size:20 final size:20
Alignment explanation
Indices: 450683--450732 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
450673 AACGAACATA
*
450683 TAATTGAACGTTCACGAATG
1 TAATTGAACGTTCACGAACG
450703 TAATTGAACGTTCACGAACG
1 TAATTGAACGTTCACGAACG
*
450723 TAAATGAACG
1 TAATTGAACG
450733 AACGAGCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (20 bp):
TAATTGAACGTTCACGAACG
Done.