Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008594.1 Hibiscus syriacus cultivar Beakdansim tig00111543_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: 1173925
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:306030 original size:30 final size:30
Alignment explanation
Indices: 305994--306065 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
305984 TGAGAGATAA
305994 CTTAGCAAAGCTATGAGAGAAAAGGTGAAG
1 CTTAGCAAAGCTATGAGAGAAAAGGTGAAG
306024 CTTAGCAAAGCTATGAGAGAAAAGGTGAAG
1 CTTAGCAAAGCTATGAGAGAAAAGGTGAAG
306054 CTTAGCAAAGCT
1 CTTAGCAAAGCT
306066 TAGAATATTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (30 bp):
CTTAGCAAAGCTATGAGAGAAAAGGTGAAG
Found at i:332724 original size:14 final size:13
Alignment explanation
Indices: 332705--332734 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
332695 GTTAAAAGAG
332705 AAAATAAAAATAAA
1 AAAAT-AAAATAAA
332719 AAAATAAAATAAA
1 AAAATAAAATAAA
332732 AAA
1 AAA
332735 GTGGGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:332884 original size:18 final size:18
Alignment explanation
Indices: 332863--332905 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
332853 GTTATTTTTA
*
332863 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
332881 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
332899 AAATAAA
1 AAATAAA
332906 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:333502 original size:73 final size:74
Alignment explanation
Indices: 333408--333556 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 74
333398 AGATAATTCC
* * * *
333408 TAAAATAATATCTTAAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATTCCTAAAAC
1 TAAAACAATATCCTAAAATCCTAATTAAAACAC-TAAAATATATTTAAACTAAAATACCTAAAAC
333472 AAAGATAAAA
65 AAAGATAAAA
* *
333482 TAAAACAATATCCT-AAATCCTAATTAAAATACTAAAATATATTTAAACTAAAATACCTAAAATA
1 TAAAACAATATCCTAAAATCCTAATTAAAACACTAAAATATATTTAAACTAAAATACCTAAAACA
*
333546 AAGATGAAA
66 AAGATAAAA
333555 TA
1 TA
333557 TAATACTTAA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 5 0.07
73 50 0.75
74 12 0.18
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (74 bp):
TAAAACAATATCCTAAAATCCTAATTAAAACACTAAAATATATTTAAACTAAAATACCTAAAACA
AAGATAAAA
Found at i:333973 original size:28 final size:29
Alignment explanation
Indices: 333915--333973 Score: 68
Period size: 32 Copynumber: 2.0 Consensus size: 29
333905 ATAATAATAT
333915 ACTATATAATATATAAAAATATTCTTTAAAAA
1 ACTATATAATATAT---AATATTCTTTAAAAA
*
333947 ACTATATAATATAT-ATATT-TTTCAAAA
1 ACTATATAATATATAATATTCTTTAAAAA
333974 TATTTGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 7 0.27
28 5 0.19
32 14 0.54
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
ACTATATAATATATAATATTCTTTAAAAA
Found at i:334142 original size:20 final size:20
Alignment explanation
Indices: 334117--334169 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
334107 GAAATAAAAT
334117 TCGCAACGCGATCTCC-AGAA
1 TCGCAACGCGAT-TCCTAGAA
**
334137 TCGCAAATC-AGTTCCTAGAA
1 TCGCAACGCGA-TTCCTAGAA
334157 TCGCAACGCGATT
1 TCGCAACGCGATT
334170 ATGAAGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.15
20 21 0.81
21 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGATTCCTAGAA
Found at i:334247 original size:20 final size:20
Alignment explanation
Indices: 334222--334453 Score: 123
Period size: 20 Copynumber: 11.4 Consensus size: 20
334212 TTCCAGAATT
*
334222 GCAACGCGAATATGAAAATC
1 GCAACGCGAATACGAAAATC
* *
334242 GCAACGCGAACA-TATAAATC
1 GCAACGCGAATACGA-AAATC
* **
334262 GCAACGCG-ATTCTGACTATC
1 GCAACGCGAATAC-GAAAATC
* *
334282 GCAACGAGTAT-CTGTAAAATC
1 GCAACGCGAATAC-G-AAAATC
* * *
334303 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
* *
334323 GCAACGAC-AATATGTAAAATT
1 GCAACG-CGAATACG-AAAATC
* * *
334344 GCAACGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
* *
334364 GCAACGAGAATACGTAAATC
1 GCAACGCGAATACGAAAATC
* * * *
334384 GCAATGCGTATCCGTAAATC
1 GCAACGCGAATACGAAAATC
334404 GCAACGAC-AATACGTAAAATC
1 GCAACG-CGAATACG-AAAATC
* * * *
334425 GCAACGCGTATCCGTAAATT
1 GCAACGCGAATACGAAAATC
334445 GCAACGCGA
1 GCAACGCGA
334454 TTTTTAAAGC
Statistics
Matches: 162, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.01
20 111 0.69
21 48 0.30
22 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (20 bp):
GCAACGCGAATACGAAAATC
Found at i:334322 original size:81 final size:80
Alignment explanation
Indices: 334237--334450 Score: 240
Period size: 81 Copynumber: 2.6 Consensus size: 80
334227 GCGAATATGA
* * *
334237 AAATCGCAACG-CGAACATATAAATCGCAACGCG-ATTC-TGACTATCGCAACGAGTAT-CTGTA
1 AAATCGCAACGAC-AACATATAAATCGCAACGCGTATCCGT-A-AATCGCAACGAGAATAC-GT-
334298 AAATCGCAACGCGTATCCGT
61 AAATCGCAACGCGTATCCGT
* * *
334318 AAATCGCAACGACAATATGTAAAATTGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAAT
1 AAATCGCAACGACAACATAT-AAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAAT
*
334383 CGCAATGCGTATCCGT
65 CGCAACGCGTATCCGT
* *
334399 AAATCGCAACGACAATACGTA-AAATCGCAACGCGTATCCGTAAATTGCAACG
1 AAATCGCAACGAC-A-ACATATAAATCGCAACGCGTATCCGTAAATCGCAACG
334451 CGATTTTTAA
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
81 77 0.68
82 29 0.25
83 7 0.06
84 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (80 bp):
AAATCGCAACGACAACATATAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTAAATC
GCAACGCGTATCCGT
Found at i:334324 original size:41 final size:41
Alignment explanation
Indices: 334295--334450 Score: 260
Period size: 41 Copynumber: 3.8 Consensus size: 41
334285 ACGAGTATCT
*
334295 GTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAT
1 GTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAC
* *
334336 GTAAAATTGCAACGCGTATCCGTAAATCGCAACGAGAATAC
1 GTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAC
*
334377 GT-AAATCGCAATGCGTATCCGTAAATCGCAACGACAATAC
1 GTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAC
*
334417 GTAAAATCGCAACGCGTATCCGTAAATTGCAACG
1 GTAAAATCGCAACGCGTATCCGTAAATCGCAACG
334451 CGATTTTTAA
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 37 0.35
41 69 0.65
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
GTAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATAC
Found at i:335039 original size:20 final size:19
Alignment explanation
Indices: 335014--335081 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 19
335004 TTCTAAACTT
335014 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
335034 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
** *
335054 ACTATCACAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
335075 AAAATCG
1 AAAATCG
335082 GAACGAGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 29 0.74
21 10 0.26
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:335130 original size:19 final size:19
Alignment explanation
Indices: 335091--335131 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
335081 GGAACGAGAG
**
335091 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
335110 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
335129 AAT
1 AAT
335132 TGCATTGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:335172 original size:14 final size:14
Alignment explanation
Indices: 335153--335209 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
335143 TTTCATTTCG
335153 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
335167 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
335186 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
335200 CGTTGCGATT
1 CGTTGCGATT
335210 GTCATTTCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:335182 original size:33 final size:33
Alignment explanation
Indices: 335140--335257 Score: 155
Period size: 33 Copynumber: 3.4 Consensus size: 33
335130 ATTGCATTGA
335140 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
1 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
335173 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
1 GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
* *
335206 GATTGTCATTTCCGCATTGCGATAGTCATTCTCTCGTTGC
1 GATTTTCATTT-CGCGTTGC----G--ATTCTCTCGTTGC
335246 GATTTTCATTTC
1 GATTTTCATTTC
335258 AACCAAAAGG
Statistics
Matches: 75, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
33 43 0.57
34 7 0.09
38 1 0.01
39 1 0.01
40 23 0.31
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
GATTTTCATTTCGCGTTGCGATTCTCTCGTTGC
Found at i:335227 original size:20 final size:19
Alignment explanation
Indices: 335164--335257 Score: 83
Period size: 20 Copynumber: 5.1 Consensus size: 19
335154 GTTGCGATTC
*
335164 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGATTGTCATT
*
335183 TCGCGTTGCGA-T-TC---
1 TCTCGTTGCGATTGTCATT
335197 TCTCGTTGCGATTGTCATT
1 TCTCGTTGCGATTGTCATT
*
335216 TC-CGCATTGCGATAGTCATT
1 TCTCG--TTGCGATTGTCATT
*
335236 CTCTCGTTGCGATTTTCATT
1 -TCTCGTTGCGATTGTCATT
335256 TC
1 TC
335258 AACCAAAAGG
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 10 0.16
15 1 0.02
16 2 0.03
17 2 0.03
18 3 0.05
19 14 0.23
20 25 0.41
21 2 0.03
22 2 0.03
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (19 bp):
TCTCGTTGCGATTGTCATT
Found at i:337113 original size:94 final size:94
Alignment explanation
Indices: 336952--337331 Score: 683
Period size: 94 Copynumber: 4.1 Consensus size: 94
336942 TAGATTGCTT
* *
336952 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
337017 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
337046 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
337111 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
337140 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
337205 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
337234 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
337299 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
337327 AGTAA
1 AGTAA
337332 TGCAATCCAT
Statistics
Matches: 280, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 26 0.09
94 254 0.91
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:337467 original size:19 final size:18
Alignment explanation
Indices: 337390--337495 Score: 77
Period size: 14 Copynumber: 6.2 Consensus size: 18
337380 ACGAAACTTA
*
337390 AAATCGCAACGTGAAAAATG
1 AAATCGCAAC--GAGAAATG
* *
337410 ACTATCGCAACGCGAAATG
1 A-AATCGCAACGAGAAATG
337429 -AATCGCAACGAG--A-G
1 AAATCGCAACGAGAAATG
337443 -AATCGCAACGAGAAATG
1 AAATCGCAACGAGAAATG
337460 AAAATCGCAACGAG--A-G
1 -AAATCGCAACGAGAAATG
*
337476 -AATCGCAACGCGAAATG
1 AAATCGCAACGAGAAATG
337493 AAA
1 AAA
337496 ATTGCAATGA
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
14 24 0.34
15 1 0.01
16 3 0.04
17 13 0.19
18 2 0.03
19 18 0.26
20 1 0.01
21 8 0.11
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (18 bp):
AAATCGCAACGAGAAATG
Found at i:337471 original size:33 final size:33
Alignment explanation
Indices: 337413--337523 Score: 163
Period size: 33 Copynumber: 3.4 Consensus size: 33
337403 AAAAATGACT
337413 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
337444 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * * *
337477 ATCGCAACGCGAAATGAAAATTGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
337510 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
337524 CTATAATCGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
31 15 0.21
33 57 0.79
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:337593 original size:20 final size:20
Alignment explanation
Indices: 337568--337654 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
337558 GATTCTCTCG
**
337568 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
337588 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
337608 TTACGATAGTCATTTTCACA
1 TTGCGATAGTCATTTTCGCA
*
337628 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
337648 TTGCGAT
1 TTGCGAT
337655 TTTAAGTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:337665 original size:40 final size:40
Alignment explanation
Indices: 337586--337665 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
337576 GTCAAATTCG
* *
337586 CATTGCGATAGTCATTTTCGCATTACGATAGTCATTTTCA
1 CATTGCGATAGTCATTTTCGCATTACGATAGTAAGTTTCA
* * **
337626 CATTGCGATAGTCATTTTCGCGTTGCGATTTTAAGTTTCA
1 CATTGCGATAGTCATTTTCGCATTACGATAGTAAGTTTCA
337666 GATTCTATTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (40 bp):
CATTGCGATAGTCATTTTCGCATTACGATAGTAAGTTTCA
Found at i:338173 original size:42 final size:42
Alignment explanation
Indices: 338114--338198 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
338104 AAGCCCGACT
** * *
338114 CACCTATCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGG
1 CACCTATCATCCCTCAAGAGGCC-CCTCCCACCGTTCAAGAGG
*
338156 CACCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGG
1 CACCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGG
338198 C
1 C
338199 CACTGTCATC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.21
Consensus pattern (42 bp):
CACCTATCATCCCTCAAGAGGCCCCTCCCACCGTTCAAGAGG
Found at i:338217 original size:42 final size:42
Alignment explanation
Indices: 338114--338227 Score: 101
Period size: 42 Copynumber: 2.7 Consensus size: 42
338104 AAGCCCGACT
** *
338114 CACCTATCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGG
1 CACCTATCATCACTCAAGAGGTCCCT-CCC-ACCGTTCAAGAGG
*
338156 CACCTATCATCCCTCAAGA-GTCCCCTCCCACCGTTCAAGAGG
1 CACCTATCATCACTCAAGAGGT-CCCTCCCACCGTTCAAGAGG
* * *
338198 C-CACTGTCATCATTGAAGAGGTCCCTCCCA
1 CAC-CTATCATCACTCAAGAGGTCCCTCCCA
338228 ACATTCTAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 50 0.83
43 5 0.08
44 3 0.05
ACGTcount: A:0.24, C:0.38, G:0.17, T:0.22
Consensus pattern (42 bp):
CACCTATCATCACTCAAGAGGTCCCTCCCACCGTTCAAGAGG
Found at i:339601 original size:14 final size:14
Alignment explanation
Indices: 339582--339617 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
339572 ATTGTTTAAT
339582 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
339596 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
339610 TGATTTGT
1 TGATTTGT
339618 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:339769 original size:33 final size:33
Alignment explanation
Indices: 339719--339814 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
339709 AAAAAAGACT
* **
339719 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
339753 ATCGCAATGCGAAATGAAAATCGTAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
339786 ATCGCAATGCGAAAATAAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
339815 CGAAACTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 30 0.56
34 24 0.44
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:339845 original size:19 final size:19
Alignment explanation
Indices: 339823--339948 Score: 154
Period size: 19 Copynumber: 6.8 Consensus size: 19
339813 CGCGAAACTA
*
339823 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
339842 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
339860 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
339876 ATTTCGCATTGCGATTCTC
1 ATTTCGCATTGCGATTTTC
*
339895 ATTTCGCATTGCGAATTTC
1 ATTTCGCATTGCGATTTTC
* *
339914 ATTTCGCATTGCAAATTTC
1 ATTTCGCATTGCGATTTTC
339933 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
339949 CTCTCGTTGC
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 3 0.03
18 4 0.04
19 60 0.65
20 12 0.13
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:339978 original size:20 final size:20
Alignment explanation
Indices: 339953--340041 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
339943 GCGATTCTCT
339953 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCTG
* *
339973 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCTG
*
339993 CATTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCTG
*
340013 TGTTGCGATAGTCATATTC-G
1 CGTTGCGATAGTCAT-TTCTG
340033 CGTTGCGAT
1 CGTTGCGAT
340042 TTCCGTGTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCTG
Found at i:339999 original size:40 final size:40
Alignment explanation
Indices: 339955--340041 Score: 140
Period size: 40 Copynumber: 2.2 Consensus size: 40
339945 GATTCTCTCG
339955 TTGCGATAGTCATTTCTGCGTTGCGATAGTCA-ATTCCGCA
1 TTGCGATAGTCATTTCTGCGTTGCGATAGTCATATT-CGCA
* *
339995 TTGCGATAGTCATTTCTGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCTGCGTTGCGATAGTCATATTCGCA
340035 TTGCGAT
1 TTGCGAT
340042 TTCCGTGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (40 bp):
TTGCGATAGTCATTTCTGCGTTGCGATAGTCATATTCGCA
Found at i:342508 original size:24 final size:24
Alignment explanation
Indices: 342474--342525 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
342464 CTGAAAAATC
342474 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
342498 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
342522 ATCA
1 ATCA
342526 GATTTCGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:343402 original size:20 final size:20
Alignment explanation
Indices: 343382--343514 Score: 133
Period size: 20 Copynumber: 6.7 Consensus size: 20
343372 CGATAGTCAG
*
343382 AATCTCATTGCGATTTACAG-
1 AATCGCATTGCGATTTAC-GT
* *
343402 ATTCGCATTGCAATTTACGT
1 AATCGCATTGCGATTTACGT
* *
343422 ATTCGCGTTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
*
343442 AATCGCGTTGCGATTTACGT
1 AATCGCATTGCGATTTACGT
* * *
343462 ATTCGCGTTGCGATTTATGT
1 AATCGCATTGCGATTTACGT
* *
343482 AATCGCGTTACGATTTACGT
1 AATCGCATTGCGATTTACGT
* *
343502 ATTCGCGTTGCGA
1 AATCGCATTGCGA
343515 ATTAGGAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
19 1 0.01
20 98 0.99
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.38
Consensus pattern (20 bp):
AATCGCATTGCGATTTACGT
Found at i:343433 original size:40 final size:40
Alignment explanation
Indices: 343389--343514 Score: 191
Period size: 40 Copynumber: 3.1 Consensus size: 40
343379 CAGAATCTCA
* * *
343389 TTGCGATTTACAG-ATTCGCATTGCAATTTACGTATTCGCG
1 TTGCGATTTAC-GTAATCGCGTTGCGATTTACGTATTCGCG
343429 TTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCG
1 TTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCG
* *
343469 TTGCGATTTATGTAATCGCGTTACGATTTACGTATTCGCG
1 TTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCG
343509 TTGCGA
1 TTGCGA
343515 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 79 0.99
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACGTAATCGCGTTGCGATTTACGTATTCGCG
Found at i:343453 original size:60 final size:60
Alignment explanation
Indices: 343389--343514 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 60
343379 CAGAATCTCA
* *
343389 TTGCGATTTACAG-ATTCGCATTGCAATTTACGTATTCGCGTTGCGATTTACGTAATCGCG
1 TTGCGATTTAC-GTATTCGCATTGCAATTTACGTAATCGCGTTACGATTTACGTAATCGCG
* * * *
343449 TTGCGATTTACGTATTCGCGTTGCGATTTATGTAATCGCGTTACGATTTACGTATTCGCG
1 TTGCGATTTACGTATTCGCATTGCAATTTACGTAATCGCGTTACGATTTACGTAATCGCG
343509 TTGCGA
1 TTGCGA
343515 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 1 0.02
60 58 0.98
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (60 bp):
TTGCGATTTACGTATTCGCATTGCAATTTACGTAATCGCGTTACGATTTACGTAATCGCG
Found at i:343535 original size:21 final size:21
Alignment explanation
Indices: 343511--343551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
343501 TATTCGCGTT
343511 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
343532 GCGAATTTGGGAAATCGCAA
1 GCGAATTAGGAAAATCGCAA
343552 TGTGATAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:350374 original size:28 final size:29
Alignment explanation
Indices: 350333--350389 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
350323 ATTACCTATT
*
350333 TTTATAATGCAAATGAT-AAAAAAACAAA
1 TTTATAATGAAAATGATAAAAAAAACAAA
350361 TTTATAATGAAAATGATAAAAAAAACAAA
1 TTTATAATGAAAATGATAAAAAAAACAAA
350390 CTTGAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (29 bp):
TTTATAATGAAAATGATAAAAAAAACAAA
Found at i:350403 original size:29 final size:28
Alignment explanation
Indices: 350336--350401 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
350326 ACCTATTTTT
* *
350336 ATAATGCAAATGATAAAAAAACAAATTT
1 ATAATGAAAATGATAAAAAAACAAATTG
350364 ATAATGAAAATGATAAAAAAAACAAACTTG
1 ATAATGAAAATGAT-AAAAAAACAAA-TTG
350394 A-AA-GAAAA
1 ATAATGAAAA
350402 ATCAGTTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 18 0.53
29 13 0.38
30 3 0.09
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.20
Consensus pattern (28 bp):
ATAATGAAAATGATAAAAAAACAAATTG
Found at i:351504 original size:16 final size:16
Alignment explanation
Indices: 351474--351503 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
351464 GTTAAAAGAG
351474 AAAATAAAAATAAAAC
1 AAAATAAAAATAAAAC
351490 AAAAT-AAAATAAAA
1 AAAATAAAAATAAAA
351504 AAGTGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATAAAAATAAAAC
Found at i:351620 original size:18 final size:19
Alignment explanation
Indices: 351599--351645 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
351589 GTTGTTTTTA
351599 AAATAAAAT-ATAAGAATT
1 AAATAAAATAATAAGAATT
*
351617 AAAT-AAATAATAATAATT
1 AAATAAAATAATAAGAATT
351635 AAAT-AAATAAT
1 AAATAAAATAAT
351646 CTAAAGAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAAAATAATAAGAATT
Found at i:352258 original size:84 final size:82
Alignment explanation
Indices: 352158--352339 Score: 276
Period size: 84 Copynumber: 2.2 Consensus size: 82
352148 GATAATTCCC
* * *
352158 AAAATAATATCTTAAATCCTAATTAAAACACTTAAAAT-TATTTAAACTAAAATTCCTAAAATAA
1 AAAATATTATCCTAAATCCTAATTAAAACAC-TAAAATATATTTAAACTAAAATACCTAAAATAA
*
352222 AGATAAATAAAATAATATTT
65 AGAT-AA-AAAATAATACTT
*
352242 AAAATATTATCCTAAATCCTAATTAAAATACTAAAATATATTTAAACTAAAATACCTAAAATAAA
1 AAAATATTATCCTAAATCCTAATTAAAACACTAAAATATATTTAAACTAAAATACCTAAAATAAA
*
352307 GATAAAATATAATACTT
66 GATAAAAAATAATACTT
352324 AAAATATTATCCTAAA
1 AAAATATTATCCTAAA
352340 ACATGAGTTT
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
82 26 0.29
83 8 0.09
84 57 0.63
ACGTcount: A:0.56, C:0.10, G:0.01, T:0.32
Consensus pattern (82 bp):
AAAATATTATCCTAAATCCTAATTAAAACACTAAAATATATTTAAACTAAAATACCTAAAATAAA
GATAAAAAATAATACTT
Found at i:352312 original size:25 final size:25
Alignment explanation
Indices: 352265--352329 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
352255 AAATCCTAAT
* ** *
352265 TAAAATA-CTAAAATATATTTAAAC
1 TAAAATACCTAAAATAAAGATAAAA
352289 TAAAATACCTAAAATAAAGATAAAA
1 TAAAATACCTAAAATAAAGATAAAA
* *
352314 TATAATACTTAAAATA
1 TAAAATACCTAAAATA
352330 TTATCCTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 7 0.21
25 27 0.79
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (25 bp):
TAAAATACCTAAAATAAAGATAAAA
Found at i:352521 original size:21 final size:21
Alignment explanation
Indices: 352497--352537 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
352487 TTTGGCCGGG
352497 TCGGGTCGGCTTGATGGGTCC
1 TCGGGTCGGCTTGATGGGTCC
* * *
352518 TCGGGTTGGTTTGTTGGGTC
1 TCGGGTCGGCTTGATGGGTC
352538 AGGCTTACCT
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:0.02, C:0.17, G:0.44, T:0.37
Consensus pattern (21 bp):
TCGGGTCGGCTTGATGGGTCC
Found at i:352720 original size:25 final size:25
Alignment explanation
Indices: 352692--352757 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
352682 TACTATATAA
352692 TATATAA-ATATAT-TCTTTAAAAAAC
1 TATATAATATATATAT-TTT-AAAAAC
*
352717 TATATAATATATATATTTTCAAAAC
1 TATATAATATATATATTTTAAAAAC
*
352742 TATATATTATATATAT
1 TATATAATATATATAT
352758 ATATTAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
25 27 0.73
26 9 0.24
27 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (25 bp):
TATATAATATATATATTTTAAAAAC
Found at i:352807 original size:6 final size:6
Alignment explanation
Indices: 352796--352937 Score: 84
Period size: 6 Copynumber: 24.8 Consensus size: 6
352786 AGTGATTACA
* * * * *
352796 AGAGAG AGAGAG -GA-AG AGGGAG AGGGAG TGAGAG AGAGGG AGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * *
352842 AGAGGG AGAGGG AGTGAG AGAGAG GGAGA- AG-GAG A-AG-G AGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * *
352886 AGAGAG GGAGAG GGAGATG -GAGAG AGGGAG AGAGGG AGAGAA AG-GAG
1 AGAGAG AGAGAG AGAGA-G AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
352933 AGAGA
1 AGAGA
352938 CGTAAGCTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
4 6 0.06
5 13 0.12
6 89 0.82
7 1 0.01
ACGTcount: A:0.40, C:0.00, G:0.58, T:0.02
Consensus pattern (6 bp):
AGAGAG
Found at i:352833 original size:20 final size:20
Alignment explanation
Indices: 352799--352926 Score: 129
Period size: 20 Copynumber: 6.4 Consensus size: 20
352789 GATTACAAGA
352799 GAGAGAGAGGAAGAGGGAGAGG
1 GAGAGAGA-G-AGAGGGAGAGG
*
352821 GAGTGAGAGAGAGGGAGAGG
1 GAGAGAGAGAGAGGGAGAGG
* *
352841 GAGAG-G-GAGAGGGAGTGA
1 GAGAGAGAGAGAGGGAGAGG
* * *
352859 GAGAGAGGGAGAAGGAGAAG
1 GAGAGAGAGAGAGGGAGAGG
*
352879 GAGAGGGAGAGAGGGAGAGG
1 GAGAGAGAGAGAGGGAGAGG
352899 GAGATG-GAGAGAGGGAGAGAG
1 GAGA-GAGAGAGAGGGAGAG-G
352920 G-GAGAGA
1 GAGAGAGA
352927 AAGGAGAGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
18 15 0.17
19 3 0.03
20 60 0.67
21 4 0.04
22 7 0.08
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.02
Consensus pattern (20 bp):
GAGAGAGAGAGAGGGAGAGG
Found at i:352839 original size:26 final size:26
Alignment explanation
Indices: 352799--352917 Score: 127
Period size: 26 Copynumber: 4.6 Consensus size: 26
352789 GATTACAAGA
*
352799 GAGAGAGAGGAAGAGGGAGAGGGAGT
1 GAGAGAGAGGGAGAGGGAGAGGGAGT
*
352825 GAGAGAGAGGGAGAGGGAGAGGGAGA
1 GAGAGAGAGGGAGAGGGAGAGGGAGT
* * * *
352851 GGGAGTGAGAGAGAGGGAGAAGGAG-
1 GAGAGAGAGGGAGAGGGAGAGGGAGT
*
352876 AAG-GAGAGGGAGAGAGGGAGAGGGAGAT
1 GAGAGAGA-GG-GAGAGGGAGAGGGAG-T
352904 G-GAGAGAGGGAGAG
1 GAGAGAGAGGGAGAG
352918 AGGGAGAGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
24 3 0.04
25 2 0.03
26 64 0.84
27 3 0.04
28 4 0.05
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.03
Consensus pattern (26 bp):
GAGAGAGAGGGAGAGGGAGAGGGAGT
Found at i:352839 original size:32 final size:32
Alignment explanation
Indices: 352796--352917 Score: 165
Period size: 32 Copynumber: 3.8 Consensus size: 32
352786 AGTGATTACA
*
352796 AGAGAGAGAGAGGAAGAGGGAGAGGGAGTGAG
1 AGAGAGGGAGAGGAAGAGGGAGAGGGAGTGAG
*
352828 AGAGAGGGAGAGGGAGAGGGAGAGGGAGTGAG
1 AGAGAGGGAGAGGAAGAGGGAGAGGGAGTGAG
* *
352860 AGAGAGGGAGAAGG-AGAAGGAGAGGGAGAGAG
1 AGAGAGGGAG-AGGAAGAGGGAGAGGGAGTGAG
*
352892 GGAGAGGGAGATGGAGAGAGGGAGAG
1 AGAGAGGGAGA-GGA-AGAGGGAGAG
352918 AGGGAGAGAA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
31 1 0.01
32 67 0.84
33 3 0.04
34 9 0.11
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (32 bp):
AGAGAGGGAGAGGAAGAGGGAGAGGGAGTGAG
Found at i:352988 original size:25 final size:25
Alignment explanation
Indices: 352954--353005 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
352944 CTTAGCTCGA
*
352954 TTGAATATGTTCTAACAACTAATTT
1 TTGAACATGTTCTAACAACTAATTT
*
352979 TTGAACATGTTCTAACAACTCATTT
1 TTGAACATGTTCTAACAACTAATTT
353004 TT
1 TT
353006 ATTATTCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (25 bp):
TTGAACATGTTCTAACAACTAATTT
Found at i:353541 original size:19 final size:18
Alignment explanation
Indices: 353502--353542 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
353492 ATTGGATGAT
*
353502 TAAATTTATTTAATTCAA
1 TAAATTTATTTAATCCAA
*
353520 TAAATTTATTTTCATCCAA
1 TAAATTTA-TTTAATCCAA
353539 TAAA
1 TAAA
353543 AAGGTCACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTTATTTAATCCAA
Found at i:353772 original size:19 final size:18
Alignment explanation
Indices: 353739--353774 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
353729 ATAATTTTAT
*
353739 ATATCTTAAATTAAATTC
1 ATATCCTAAATTAAATTC
353757 ATATCCTAACATTAAATT
1 ATATCCTAA-ATTAAATT
353775 TTTTATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATCCTAAATTAAATTC
Found at i:355117 original size:20 final size:20
Alignment explanation
Indices: 355082--355132 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
355072 ACCAAAACTA
*
355082 AAAACCTAAGGAAAAAAGGAAC
1 AAAA-CTAAGCAAAAAA-GAAC
* *
355104 AAAGCTAAGCAAAAAATAAC
1 AAAACTAAGCAAAAAAGAAC
355124 AAAACTAAG
1 AAAACTAAG
355133 AAGTTACAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 11 0.44
21 11 0.44
22 3 0.12
ACGTcount: A:0.65, C:0.14, G:0.14, T:0.08
Consensus pattern (20 bp):
AAAACTAAGCAAAAAAGAAC
Found at i:357071 original size:32 final size:32
Alignment explanation
Indices: 357022--357119 Score: 126
Period size: 32 Copynumber: 3.1 Consensus size: 32
357012 CACCCTAAAC
357022 CTAACACTACTATGCATTATCTGAATGTGAA-A
1 CTAACACTACTATGCATTATCTGAATGT-AACA
* * *
357054 CTAAAACTACTAAGCATTATCTCAATGTAACA
1 CTAACACTACTATGCATTATCTGAATGTAACA
* * *
357086 CTAACACTGCTATGCATTATGTGAATGCAACA
1 CTAACACTACTATGCATTATCTGAATGTAACA
357118 CT
1 CT
357120 CTGCTAGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 2 0.04
32 54 0.96
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (32 bp):
CTAACACTACTATGCATTATCTGAATGTAACA
Found at i:377828 original size:23 final size:23
Alignment explanation
Indices: 377763--377821 Score: 109
Period size: 23 Copynumber: 2.6 Consensus size: 23
377753 AAATAATGAA
377763 ACATACTTTCATAACATACAGTT
1 ACATACTTTCATAACATACAGTT
377786 ACATACTTTCATAACATACAGTT
1 ACATACTTTCATAACATACAGTT
*
377809 ACATACTTGCATA
1 ACATACTTTCATA
377822 TCTTACATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ACATACTTTCATAACATACAGTT
Found at i:378058 original size:23 final size:23
Alignment explanation
Indices: 378031--378094 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
378021 TGCCATATAG
*
378031 AATGTCCTAAAGGACCGCGTAGA
1 AATGTCCTAAAGGACCACGTAGA
378054 AATGTCCTGAAA-GACCACGTAGA
1 AATGTCCT-AAAGGACCACGTAGA
* *
378077 ATTGTCCCAAAGGACCAC
1 AATGTCCTAAAGGACCAC
378095 ATATATATCC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 3 0.08
23 30 0.83
24 3 0.08
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (23 bp):
AATGTCCTAAAGGACCACGTAGA
Found at i:380192 original size:168 final size:168
Alignment explanation
Indices: 379914--380249 Score: 663
Period size: 168 Copynumber: 2.0 Consensus size: 168
379904 AACTGTCTCT
379914 CATCAAGGACTTCCTCATCTTCGCCACTATCTATGGGCTTGGGTCTGGATGACTCGATGCTAGTT
1 CATCAAGGACTTCCTCATCTTCGCCACTATCTATGGGCTTGGGTCTGGATGACTCGATGCTAGTT
379979 GGCATGTCTCCTGCAAGCTTTGTTAGCGACTCAGTTACAATTTTGTCCTTCAAAAGTCTTTATCC
66 GGCATGTCTCCTGCAAGCTTTGTTAGCGACTCAGTTACAATTTTGTCCTTCAAAAGTCTTTATCC
*
380044 CTCTTTTAATGTATTAAGTGACATGTTCTATCATTGTA
131 CTCTTTTAACGTATTAAGTGACATGTTCTATCATTGTA
380082 CATCAAGGACTTCCTCATCTTCGCCACTATCTATGGGCTTGGGTCTGGATGACTCGATGCTAGTT
1 CATCAAGGACTTCCTCATCTTCGCCACTATCTATGGGCTTGGGTCTGGATGACTCGATGCTAGTT
380147 GGCATGTCTCCTGCAAGCTTTGTTAGCGACTCAGTTACAATTTTGTCCTTCAAAAGTCTTTATCC
66 GGCATGTCTCCTGCAAGCTTTGTTAGCGACTCAGTTACAATTTTGTCCTTCAAAAGTCTTTATCC
380212 CTCTTTTAACGTATTAAGTGACATGTTCTATCATTGTA
131 CTCTTTTAACGTATTAAGTGACATGTTCTATCATTGTA
380250 GACTTGCAAA
Statistics
Matches: 167, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 167 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (168 bp):
CATCAAGGACTTCCTCATCTTCGCCACTATCTATGGGCTTGGGTCTGGATGACTCGATGCTAGTT
GGCATGTCTCCTGCAAGCTTTGTTAGCGACTCAGTTACAATTTTGTCCTTCAAAAGTCTTTATCC
CTCTTTTAACGTATTAAGTGACATGTTCTATCATTGTA
Found at i:382669 original size:20 final size:22
Alignment explanation
Indices: 382644--382687 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
382634 CTGCCTTGGA
382644 AAGTTTCGAAACTT-TTG-TAG
1 AAGTTTCGAAACTTCTTGTTAG
382664 AAGTTTCGAAACTTCTTGTTAG
1 AAGTTTCGAAACTTCTTGTTAG
382686 AA
1 AA
382688 AACGCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 14 0.64
21 3 0.14
22 5 0.23
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (22 bp):
AAGTTTCGAAACTTCTTGTTAG
Found at i:383950 original size:17 final size:17
Alignment explanation
Indices: 383928--383998 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 17
383918 AAAGGAAACT
383928 TACAAAGTAGAAATCTA
1 TACAAAGTAGAAATCTA
* *
383945 TACAAAGTAG--GT-TT
1 TACAAAGTAGAAATCTA
*
383959 TATAAAG--GAAA-CT-
1 TACAAAGTAGAAATCTA
383972 TACAAAGTAGAAATCTA
1 TACAAAGTAGAAATCTA
*
383989 CACAAAGTAG
1 TACAAAGTAG
383999 GTTTTATACA
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
12 1 0.02
13 6 0.15
14 8 0.20
15 5 0.12
16 2 0.05
17 19 0.46
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.24
Consensus pattern (17 bp):
TACAAAGTAGAAATCTA
Found at i:383959 original size:44 final size:44
Alignment explanation
Indices: 383910--384006 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
383900 CTATTTATAG
*
383910 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTATACAAAGTA
1 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
383954 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
1 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
383998 GGTTTTATA
1 GGTTTTATA
384007 CATAAAGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (44 bp):
GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
Found at i:384461 original size:44 final size:44
Alignment explanation
Indices: 384411--384507 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
384401 CTATTTATAG
384411 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
1 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
*
384455 GGTTTTATAAAGGAAATTTACAAAGTAGAAATCTACACAAAGTA
1 GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
384499 GGTTTTATA
1 GGTTTTATA
384508 CATAAAGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.29
Consensus pattern (44 bp):
GGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTA
Found at i:384492 original size:501 final size:501
Alignment explanation
Indices: 383545--385047 Score: 2880
Period size: 501 Copynumber: 3.0 Consensus size: 501
383535 TGTATAATAT
* *
383545 AAAATTTGATAGTCTTTCTCTGTCTTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
1 AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
383610 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
66 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
383675 ATTATCGTAATTAACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
131 ATTATCGTAATTAACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
383740 ATAATGATCGTCCAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
196 ATAATGATCGTCCAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
*
383805 ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCTTCATAGAC
261 ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAC
383870 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
326 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
*
383935 TAGAAATCTATACAAAGTAGGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
391 TAGAAATCTACACAAAGTAGGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
384000 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
456 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
384046 AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
1 AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
384111 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
66 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
*
384176 ATTATCGTAATTAACTCAAACAACGCGGGCGTTCTGATACCATTTTGTTAGAGATAACAACATGC
131 ATTATCGTAATTAACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
*
384241 ATAATGATCGTCTAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
196 ATAATGATCGTCCAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
384306 ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAC
261 ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAC
384371 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
326 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
*
384436 TAGAAATCTACACAAAGTAGGTTTTATAAAGGAAATTTACAAAGTAGAAATCTACACAAAGTAGG
391 TAGAAATCTACACAAAGTAGGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
*
384501 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTATGTTTCTTA
456 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
384547 AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
1 AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
384612 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
66 CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
*
384677 ATTATCGTAATTGACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
131 ATTATCGTAATTAACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
*
384742 ATAATGATCGTCCAATAAAATACACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
196 ATAATGATCGTCCAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
* *
384807 ATACAGCATATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAA
261 ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAC
384872 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
326 AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
* *
384937 TAGAAAACTACACAAAGTAGCTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
391 TAGAAATCTACACAAAGTAGGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
385002 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
456 TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
385048 CTTTCCCAAA
Statistics
Matches: 984, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
501 984 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (501 bp):
AAAACTTGATAGTCTTTCTCTGTCCTTTTATCATAATAAGAGAGTTCTTAAAAATTTACATTCCT
CTGTCTTTCACAACATGAATCTGGTACGAAGATCCAACAACGAAATTTCATACTTCAAAAATGTA
ATTATCGTAATTAACTCAAACAACGCGGACGTTCTGATACCATTTTGTTAGAGATAACAACATGC
ATAATGATCGTCCAATAAAATATACACCAAAATTTTACATAGAAAATCTTTTAGTTAAAAACCAC
ATACAGCAGATGAGAAAAATCACTAATGTCAAGCGAAGAAGAATAGAAAAGGAGTCCTCATAGAC
AACCTAATCTCTAACCATAGTCCTTAGTATCTATTTATAGGGTTTTATAAAGGAAACTTACAAAG
TAGAAATCTACACAAAGTAGGTTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
TTTTATACATAAAGGAAAAATAATCCTAGTCAAACTAGGTTTCTTA
Found at i:384977 original size:44 final size:44
Alignment explanation
Indices: 384914--385008 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
384904 ATTTATAGGG
384914 TTTTATAAAGGAAACTTACAAAGTAGAAAACTACACAAAGTAGC
1 TTTTATAAAGGAAACTTACAAAGTAGAAAACTACACAAAGTAGC
* *
384958 TTTTATAAAGGAAACTTACAAAGTAGAAATCTACACAAAGTAGG
1 TTTTATAAAGGAAACTTACAAAGTAGAAAACTACACAAAGTAGC
385002 TTTTATA
1 TTTTATA
385009 CATAAAGGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (44 bp):
TTTTATAAAGGAAACTTACAAAGTAGAAAACTACACAAAGTAGC
Found at i:391218 original size:19 final size:19
Alignment explanation
Indices: 391174--391223 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
391164 CAAAAAATTC
391174 ATACA-ATTATAAGCATAT
1 ATACATATTATAAGCATAT
* *
391192 AAAAATATTATATA-CATAT
1 ATACATATTATA-AGCATAT
391211 ATACATATT-TAAG
1 ATACATATTATAAG
391224 ATTTAGTACC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 18 0.72
20 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (19 bp):
ATACATATTATAAGCATAT
Found at i:395184 original size:22 final size:22
Alignment explanation
Indices: 395144--395185 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
395134 GAGTTATTTG
* *
395144 AATTATTCGAGTTGTGTTTAAA
1 AATTATTCGAGTCGAGTTTAAA
*
395166 AATTTTTCGAGTCGAGTTTA
1 AATTATTCGAGTCGAGTTTA
395186 TGAAATTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.45
Consensus pattern (22 bp):
AATTATTCGAGTCGAGTTTAAA
Found at i:395681 original size:15 final size:15
Alignment explanation
Indices: 395661--395710 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
395651 TAAATTATAC
395661 ATTATTTTATGATTA
1 ATTATTTTATGATTA
*
395676 ATTATTTTTTGATTA
1 ATTATTTTATGATTA
* *
395691 GATAATTTTAGTGGTTA
1 -ATTATTTTA-TGATTA
395708 ATT
1 ATT
395711 TGGATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 14 0.50
16 9 0.32
17 5 0.18
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
ATTATTTTATGATTA
Found at i:396151 original size:8 final size:10
Alignment explanation
Indices: 396127--396155 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
396117 TCACACCAAA
396127 TTCTCTCAAC
1 TTCTCTCAAC
396137 TTCTCTCAAC
1 TTCTCTCAAC
396147 TTCTCTCAA
1 TTCTCTCAA
396156 ATACTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (10 bp):
TTCTCTCAAC
Found at i:396162 original size:10 final size:10
Alignment explanation
Indices: 396123--396162 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
396113 TTCATCACAC
396123 CAAATTCTCT
1 CAAATTCTCT
*
396133 CAACTTCTCT
1 CAAATTCTCT
*
396143 CAACTTCTCT
1 CAAATTCTCT
*
396153 CAAATACTCT
1 CAAATTCTCT
396163 TATAATCTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.38
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:396221 original size:9 final size:9
Alignment explanation
Indices: 396209--396260 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
396199 TAATATTTTG
396209 TATTTAATT
1 TATTTAATT
*
396218 TATTTAA-G
1 TATTTAATT
396226 TATTTAATT
1 TATTTAATT
396235 TATTTAA--
1 TATTTAATT
*
396242 TATTTTATT
1 TATTTAATT
*
396251 TAATTAATT
1 TATTTAATT
396260 T
1 T
396261 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:396230 original size:17 final size:17
Alignment explanation
Indices: 396208--396257 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
396198 TTAATATTTT
396208 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
396225 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
396242 -TATTTTATTTAATTAA
1 GTATTTAATTTATTTAA
396258 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:398487 original size:26 final size:25
Alignment explanation
Indices: 398439--398501 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
398429 TAGATTTTGT
* *
398439 TTTTTTATTATATTTGTATTTAGTAC
1 TTTTTTATTGTAGTTGTATTTAG-AC
*
398465 -TTTTTATTGTAGTTGTTTATTAGAC
1 TTTTTTATTGTAGTTGTAT-TTAGAC
398490 TTTTTTATTGTA
1 TTTTTTATTGTA
398502 ATTTTTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 17 0.53
26 15 0.47
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.65
Consensus pattern (25 bp):
TTTTTTATTGTAGTTGTATTTAGAC
Found at i:402454 original size:12 final size:12
Alignment explanation
Indices: 402437--402524 Score: 56
Period size: 12 Copynumber: 7.6 Consensus size: 12
402427 TCATCGCTGG
*
402437 CGTGGCAACTAA
1 CGTGGCAACTGA
*
402449 CGTGGCGA-TGA
1 CGTGGCAACTGA
* *
402460 TGTGGCAGCTGA
1 CGTGGCAACTGA
*
402472 CGTGGCAA-TAA
1 CGTGGCAACTGA
* *
402483 CATGGCATCTGA
1 CGTGGCAACTGA
* *
402495 CGTGGTAA-TAA
1 CGTGGCAACTGA
* *
402506 CATGGCATCTGA
1 CGTGGCAACTGA
402518 CGTGGCA
1 CGTGGCA
402525 GGTGACATGG
Statistics
Matches: 53, Mismatches: 20, Indels: 6
0.67 0.25 0.08
Matches are distributed among these distances:
11 22 0.42
12 31 0.58
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (12 bp):
CGTGGCAACTGA
Found at i:402488 original size:23 final size:23
Alignment explanation
Indices: 402462--402524 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
402452 GGCGATGATG
*
402462 TGGCAGCTGACGTGGCAATAACA
1 TGGCATCTGACGTGGCAATAACA
*
402485 TGGCATCTGACGTGGTAATAACA
1 TGGCATCTGACGTGGCAATAACA
402508 TGGCATCTGACGTGGCA
1 TGGCATCTGACGTGGCA
402525 GGTGACATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (23 bp):
TGGCATCTGACGTGGCAATAACA
Found at i:403395 original size:14 final size:14
Alignment explanation
Indices: 403376--403415 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
403366 GAAATCTTTT
*
403376 TATTTTTTTTCTTC
1 TATTTTATTTCTTC
403390 TATTTTATTTCTTC
1 TATTTTATTTCTTC
403404 TATTTTATTTCT
1 TATTTTATTTCT
403416 CTTCATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTTTATTTCTTC
Found at i:404398 original size:26 final size:26
Alignment explanation
Indices: 404369--404420 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
404359 TCATGTAAGA
404369 ACCAAAATTTAACATTTTTGAATTCG
1 ACCAAAATTTAACATTTTTGAATTCG
404395 ACCAAAATTTAACATTTTTGAATTCG
1 ACCAAAATTTAACATTTTTGAATTCG
404421 GTGAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (26 bp):
ACCAAAATTTAACATTTTTGAATTCG
Found at i:405813 original size:131 final size:131
Alignment explanation
Indices: 405028--405806 Score: 1378
Period size: 131 Copynumber: 5.9 Consensus size: 131
405018 ACAAACTAAT
* * * * *
405028 CCATTAATTCAATGCCCACAAATAAAAGTGCTTCTAAGTTCATACCACCATCTCAGGCAGCAAAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
*
405093 AAGCTCACAACACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
405158 A
131 A
** * * *
405159 TAATTAATTCAATGCCCACAAATACAAGTGCTTCTAAGTTCATACCACCATCTGAGGCAGCAAAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
*
405224 AAGCTCACAATACCTCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
405289 A
131 A
405290 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
**
405355 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCACGACAT
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
405420 A
131 A
*
405421 CTATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
405486 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
405551 A
131 A
* *
405552 CCATTAATTCAATGCCCACAAGTACAAGTGCATCTAAGTTCATACCACCATCTGAGGCAGCAGAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
*
405617 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTGCATGTATCATAACAT
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
405682 A
131 A
* *
405683 CCATTAATTCAATGCACACACGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
1 CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
405748 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCA
66 AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCA
405807 CGACATAACT
Statistics
Matches: 622, Mismatches: 26, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 622 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.22
Consensus pattern (131 bp):
CCATTAATTCAATGCCCACAAGTACAAGTGCTTCCAAGTTCATACCACCATCTGAGGCAGCAGAC
AAGCTCACAATACCCCAAATACTGGTTAAAAGAGCAACAATAAAGCTTTACATGTATCATAACAT
A
Found at i:410289 original size:2 final size:2
Alignment explanation
Indices: 410282--410316 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
410272 TGTAAAAGCT
410282 TA TA 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 TA TA T
410317 TGAAATAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:414511 original size:23 final size:24
Alignment explanation
Indices: 414480--414527 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
414470 TGAATTTTTA
*
414480 AAATCATA-TTAATTATTTATTTG
1 AAATAATATTTAATTATTTATTTG
414503 AAATAATATTTTTAATTATTTATTT
1 AAATAATA--TTTAATTATTTATTT
414528 AATTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
26 14 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
AAATAATATTTAATTATTTATTTG
Found at i:414652 original size:23 final size:22
Alignment explanation
Indices: 414623--414701 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 22
414613 AGATAATTAA
414623 AAATAATATTATTTCAAATAAAT
1 AAATAATATTATTT-AAATAAAT
**
414646 ATTTAATATTATTTAGAATAAAT
1 AAATAATATTATTTA-AATAAAT
*
414669 AAATAATATGATTTTAAA-AAAT
1 AAATAATATTA-TTTAAATAAAT
414691 AAATAAATATT
1 AAAT-AATATT
414702 TTATAATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.19
23 34 0.72
24 4 0.09
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.41
Consensus pattern (22 bp):
AAATAATATTATTTAAATAAAT
Found at i:414662 original size:47 final size:45
Alignment explanation
Indices: 414598--414691 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 45
414588 CATATAATAT
*
414598 TATTTAAAATTAATTAG-ATAATTAAAAATAATATTATTTCAAATAAA
1 TATTTAAAATTAATTAGAATAA--AAAAATAATATGATTTCAAA-AAA
* * * *
414645 TATTTAATATTATTTAGAATAAATAAATAATATGATTTTAAAAAA
1 TATTTAAAATTAATTAGAATAAAAAAATAATATGATTTCAAAAAA
414690 TA
1 TA
414692 AATAAATATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 5 0.12
46 17 0.41
47 15 0.37
48 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (45 bp):
TATTTAAAATTAATTAGAATAAAAAAATAATATGATTTCAAAAAA
Found at i:415267 original size:31 final size:31
Alignment explanation
Indices: 415232--415302 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
415222 AACATAATAA
*
415232 ATGGTCACTTTCGTTTTTATTTAATTAAGAT
1 ATGGTCACTTTCATTTTTATTTAATTAAGAT
* *
415263 ATGGTCACTTTTATTTTTGTTTAATTAAGAT
1 ATGGTCACTTTCATTTTTATTTAATTAAGAT
*
415294 GTGGTCACT
1 ATGGTCACT
415303 ACAGGTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (31 bp):
ATGGTCACTTTCATTTTTATTTAATTAAGAT
Found at i:415543 original size:15 final size:15
Alignment explanation
Indices: 415523--415554 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
415513 GAGGACTAAC
*
415523 TTTAATTTAATTTAT
1 TTTAATTTAATATAT
415538 TTTAATTTAATATAT
1 TTTAATTTAATATAT
415553 TT
1 TT
415555 ATTTTTCACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTAATTTAATATAT
Found at i:422113 original size:30 final size:30
Alignment explanation
Indices: 422056--422113 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
422046 TTTATATTCA
* *
422056 TTTGTTTGTGTTCGCTTGCATTCATTTAAG
1 TTTGTTTGTGTTCGCTTACATTAATTTAAG
*
422086 TTTGTTTGTGTT-GACTTACGTTAATTTA
1 TTTGTTTGTGTTCG-CTTACATTAATTTA
422114 CATTCATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.16, C:0.10, G:0.19, T:0.55
Consensus pattern (30 bp):
TTTGTTTGTGTTCGCTTACATTAATTTAAG
Found at i:422898 original size:2 final size:2
Alignment explanation
Indices: 422893--422918 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
422883 TCCACACACA
422893 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
422919 TCTTTTGAAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:426228 original size:3 final size:3
Alignment explanation
Indices: 426222--426252 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
426212 TATTAATAAT
426222 AAC AAC AAC AA- AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
426253 TAATAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:426679 original size:138 final size:138
Alignment explanation
Indices: 426464--426733 Score: 371
Period size: 138 Copynumber: 2.0 Consensus size: 138
426454 AAATTTGGAG
* * * *
426464 ATAACATGGTTCATACATGATGAGGAAGTATGGCTATCTAAGGGTGACACGGCTCCTACGTGATG
1 ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
* ** * *
426529 AGGAGATCTGGTCAGTGGATGACACGGTTCCTACGTGATGAGGACGTC-TGATCATCTTTAGGGA
66 AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTG-CCATCTTTAGGGA
426593 TAAAGGCGT
130 TAAAGGCGT
* * * *
426602 ATAACATGGTTCATACGTGATAAGGAAGTTTGGCTATCCGAGGATAACGCGGCTCCTACGTGATG
1 ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
* * * *
426667 AGGAGATATGGTCGGTGGATGACACAATTCTTACGTTATGAGGATGGCTTGCCATCTTTAGGGAT
66 AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTGCCATCTTTAGGGAT
426732 AA
131 AA
426734 TTTGTTTCAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
138 112 0.98
139 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (138 bp):
ATAACATGGTTCATACATGATAAGGAAGTATGGCTATCCAAGGATAACACGGCTCCTACGTGATG
AGGAGATATGGTCAGTGGATGACACAATTCCTACGTGATGAGGACGGCTTGCCATCTTTAGGGAT
AAAGGCGT
Found at i:426895 original size:67 final size:66
Alignment explanation
Indices: 426736--426929 Score: 223
Period size: 67 Copynumber: 2.9 Consensus size: 66
426726 AGGGATAATT
* * * * * *
426736 TGTTTCAAGAGAAAATGTCTCAAGAGAAACAAAACTTGTTTCAAGGGAAATAATC-TCAATGTTG
1 TGTTTCAAGAGAAAAAGTCTCAAAAGAAA-AAAACTAGTTTCAAGGGAAACAATCTTAAAGGTTG
426800 TA
65 TA
* *
426802 TGTTTCAAGAGAAACTA-TCTCCAAAGAGAAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTT
1 TGTTTCAAGAGAAA-AAGTCTCAAAAGA-AAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTT
426866 GTA
64 GTA
* * *
426869 TGTTTCAAGAGAAAAAGTCTCAAAAGACACAAAACTGGTTTCAAGAGG-AACAATCTCAAAG
1 TGTTTCAAGAGAAAAAGTCTCAAAAGA-AAAAAACTAGTTTCAAG-GGAAACAATCTTAAAG
426930 TTTATCAAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
66 46 0.42
67 61 0.56
68 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (66 bp):
TGTTTCAAGAGAAAAAGTCTCAAAAGAAAAAAACTAGTTTCAAGGGAAACAATCTTAAAGGTTGT
A
Found at i:427032 original size:67 final size:66
Alignment explanation
Indices: 426961--427097 Score: 159
Period size: 67 Copynumber: 2.1 Consensus size: 66
426951 GAAACAATTT
* * * *
426961 TCAAAT-TTTGTGTTTTGAAGAAAAATTATCTCAAGTGAAACGAAATTTGTTTTTAAGAAAAGTA
1 TCAAATGTTCGTGTCTTG-AGAAAAACTATCTCAAGTGAAACGAAATTTG-TTTTAAGAAAAATA
427025 ATC
64 ATC
* * * * * *
427028 TCAAATGTTCGTGTCTTGAGGAAGACTATCTCATGTGAGATGAAATTTGTTTTGAGAAAAATAAT
1 TCAAATGTTCGTGTCTTGAGAAAAACTATCTCAAGTGAAACGAAATTTGTTTTAAGAAAAATAAT
427093 C
66 C
427094 TCAA
1 TCAA
427098 GTGAGATCAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 19 0.32
67 31 0.53
68 9 0.15
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (66 bp):
TCAAATGTTCGTGTCTTGAGAAAAACTATCTCAAGTGAAACGAAATTTGTTTTAAGAAAAATAAT
C
Found at i:429744 original size:18 final size:19
Alignment explanation
Indices: 429716--429753 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
429706 ATACATGTTA
*
429716 AGATATATATGAACATGAG
1 AGATATATATGAACAAGAG
429735 AGAT-TATATGAACAAGAG
1 AGATATATATGAACAAGAG
429753 A
1 A
429754 ATAAGATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (19 bp):
AGATATATATGAACAAGAG
Found at i:433017 original size:11 final size:10
Alignment explanation
Indices: 433003--433096 Score: 71
Period size: 11 Copynumber: 8.5 Consensus size: 10
432993 TGTCTTCTTT
433003 TTTTCTTTTTC
1 TTTT-TTTTTC
433014 TTTTTTTTTTC
1 -TTTTTTTTTC
433025 TTTGTTTTTTC
1 TTT-TTTTTTC
*
433036 TCTTTTTTTCC
1 T-TTTTTTTTC
*
433047 TTTTTGTTTC
1 TTTTTTTTTC
**
433057 TTTTCTTTGCCC
1 TTTT-TTT-TTC
433069 TTTTTTATTTC
1 TTTTTT-TTTC
433080 TTTGTTTTTTC
1 TTT-TTTTTTC
433091 TCTTTT
1 T-TTTT
433097 CTTTGATTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
10 14 0.21
11 36 0.54
12 17 0.25
ACGTcount: A:0.01, C:0.16, G:0.04, T:0.79
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:441053 original size:53 final size:55
Alignment explanation
Indices: 440980--441084 Score: 160
Period size: 53 Copynumber: 1.9 Consensus size: 55
440970 TTTAAATTTG
*
440980 GAGATCTTACTTTAAGGAAATACAATAAAGTGCTTATGC-A-ATAGGTTTGAGTA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGAGTA
* * *
441033 GAGATTTTATTTTAAAGAAATACAATAAAGTGCTTGTGCAATATAGGTTTGA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGA
441085 ATAGTGCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 35 0.76
54 1 0.02
55 10 0.22
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (55 bp):
GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGAGTA
Found at i:441427 original size:29 final size:29
Alignment explanation
Indices: 441384--441466 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
441374 CTCACCTAAC
441384 TAAATCGATGTAAGCAATGACATCATTAAT
1 TAAAT-GATGTAAGCAATGACATCATTAAT
*
441414 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
441443 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
441467 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:446170 original size:29 final size:29
Alignment explanation
Indices: 446127--446209 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
446117 CTCACCTAAC
446127 TAAATCGATGTAAGCAATGACATCATTAAT
1 TAAAT-GATGTAAGCAATGACATCATTAAT
*
446157 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
446186 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
446210 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:446515 original size:53 final size:55
Alignment explanation
Indices: 446442--446546 Score: 160
Period size: 53 Copynumber: 1.9 Consensus size: 55
446432 TTTAAATTTG
*
446442 GAGATCTTACTTTAAGGAAATACAATAAAGTGCTTATGC-A-ATAGGTTTGAGTA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGAGTA
* * *
446495 GAGATTTTATTTTAAAGAAATACAATAAAGTGCTTGTGCAATATAGGTTTGA
1 GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGA
446547 ATAGTGCTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 35 0.76
54 1 0.02
55 10 0.22
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (55 bp):
GAGATCTTACTTTAAAGAAATACAATAAAGTGCTTATGCAATATAGGTTTGAGTA
Found at i:448692 original size:2 final size:2
Alignment explanation
Indices: 448685--448724 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
448675 TCCAAATTAC
*
448685 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC 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
448725 CCTTTTGGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:449630 original size:49 final size:49
Alignment explanation
Indices: 449566--449659 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
449556 AAGTTATCAC
* *
449566 TCCTTCCGGTGCTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
1 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
449615 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCC
1 TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCC
449660 ATCCGGTACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.35
Consensus pattern (49 bp):
TCCTTCCAGTACTTTTGAGGGTACCCTCTTGGGACTCTTCAATCCTCAA
Found at i:451262 original size:163 final size:164
Alignment explanation
Indices: 450992--451318 Score: 647
Period size: 163 Copynumber: 2.0 Consensus size: 164
450982 ACAGGCTTCG
450992 AATAAACAACAATTGTGTCCAAATGCACACCACCCCTCCTATGAAATACCACAATCTTTCTCCTA
1 AATAAACAACAATTGTGTCCAAATGCACACCACCCCTCCTATGAAATACCACAATCTTTCTCCTA
451057 CTCATCGAGAAACTAGTCCCTTGCTCCATACCATAGGTCCATAAGCTTTTCTGTTGC-TTACAAA
66 CTCATCGAGAAACTAGTCCCTTGCTCCATACCATAGGTCCATAAGCTTTTCTGTTGCTTTACAAA
451121 GTGAGCGATCGAACCATAAGAGGTCCCTTTCGTT
131 GTGAGCGATCGAACCATAAGAGGTCCCTTTCGTT
451155 AATAAACAACAATTGTGTCCAAATGCACACCACCCCTCCTATGAAATACCACAATCTTTCTCCTA
1 AATAAACAACAATTGTGTCCAAATGCACACCACCCCTCCTATGAAATACCACAATCTTTCTCCTA
451220 CTCATCGAGAAACTAGTCCCTTGCTCCATACCATAGGTCCATAAGCTTTTCTGTTGCTTTACAAA
66 CTCATCGAGAAACTAGTCCCTTGCTCCATACCATAGGTCCATAAGCTTTTCTGTTGCTTTACAAA
451285 GTGAGCGATCGAACCATAAGAGGTCCCTTTCGTT
131 GTGAGCGATCGAACCATAAGAGGTCCCTTTCGTT
451319 TAGGGTACCG
Statistics
Matches: 163, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
163 122 0.75
164 41 0.25
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (164 bp):
AATAAACAACAATTGTGTCCAAATGCACACCACCCCTCCTATGAAATACCACAATCTTTCTCCTA
CTCATCGAGAAACTAGTCCCTTGCTCCATACCATAGGTCCATAAGCTTTTCTGTTGCTTTACAAA
GTGAGCGATCGAACCATAAGAGGTCCCTTTCGTT
Found at i:455838 original size:20 final size:20
Alignment explanation
Indices: 455813--455850 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
455803 CACATATTAA
455813 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
455833 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
455851 TCAAGGAGAA
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:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:457265 original size:20 final size:20
Alignment explanation
Indices: 457240--457277 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
457230 GTCTACGCGG
*
457240 TCCTTTGGGACATATATGTA
1 TCCTTTGGAACATATATGTA
*
457260 TCCTTTGGAACATCTATG
1 TCCTTTGGAACATATATG
457278 AAGTCTTTTG
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:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TCCTTTGGAACATATATGTA
Found at i:457399 original size:23 final size:23
Alignment explanation
Indices: 457365--457432 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
457355 CATCTTATAT
*
457365 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTAGGTGCATTTCTACGC
* **
457388 GGCACTTAGGTGCAATTCTACAT
1 GGCACTTAGGTGCATTTCTACGC
*
457411 GGCACTTCA-GTGCATTTATACG
1 GGCACTT-AGGTGCATTTCTACG
457433 AGCTGTAGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (23 bp):
GGCACTTAGGTGCATTTCTACGC
Found at i:460371 original size:22 final size:22
Alignment explanation
Indices: 460343--460388 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
460333 AAAATTAAAG
460343 AAAATAAA-A-AGAAATAAAAGTA
1 AAAATAAAGAGAGAAA-AAAA-TA
460365 AAAATAAAGAGAGAAAAAAATA
1 AAAATAAAGAGAGAAAAAAATA
460387 AA
1 AA
460389 TGAACTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 12 0.55
23 5 0.23
24 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAATAAAGAGAGAAAAAAATA
Found at i:460463 original size:23 final size:23
Alignment explanation
Indices: 460434--460480 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
460424 ATAAATAAAT
*
460434 AAATAAAAACAAGA-ATGAAATAA
1 AAATAAAAA-AAGAGATAAAATAA
*
460457 AAATAAATAAAGAGATAAAATAA
1 AAATAAAAAAAGAGATAAAATAA
460480 A
1 A
460481 TACAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.74, C:0.02, G:0.09, T:0.15
Consensus pattern (23 bp):
AAATAAAAAAAGAGATAAAATAA
Found at i:460487 original size:27 final size:25
Alignment explanation
Indices: 460423--460526 Score: 72
Period size: 27 Copynumber: 4.0 Consensus size: 25
460413 ATGTACATAT
460423 AATAAAT-AAATAAATAAAAACAAG
1 AATAAATAAAATAAATAAAAACAAG
*
460447 AATGAAATAAAAATAAATAAAGAGATAA-
1 AAT-AAAT-AAAATAAATAAA-A-ACAAG
**
460475 AATAAATACAAATGAAATAAAAGTAAG
1 AATAAATA-AAAT-AAATAAAAACAAG
460502 -ATAAAGGTAAAGA-AAATAAAAACAA
1 AATAAA--TAAA-ATAAATAAAAACAA
460527 AGAAAAACAA
Statistics
Matches: 65, Mismatches: 4, Indels: 20
0.73 0.04 0.22
Matches are distributed among these distances:
24 3 0.05
25 4 0.06
26 19 0.29
27 22 0.34
28 14 0.22
29 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (25 bp):
AATAAATAAAATAAATAAAAACAAG
Found at i:460534 original size:10 final size:10
Alignment explanation
Indices: 460519--460561 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
460509 TAAAGAAAAT
460519 AAAAACAAAG
1 AAAAACAAAG
460529 AAAAACAAAG
1 AAAAACAAAG
*
460539 AAAAATAAAG
1 AAAAACAAAG
460549 -AAAACAATAG
1 AAAAACAA-AG
460559 AAA
1 AAA
460562 TAAAGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 6 0.21
10 21 0.72
11 2 0.07
ACGTcount: A:0.79, C:0.07, G:0.09, T:0.05
Consensus pattern (10 bp):
AAAAACAAAG
Found at i:460782 original size:26 final size:25
Alignment explanation
Indices: 460717--460784 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
460707 AACAAATGAT
**
460717 AAAAAAACCAAAAAGAATAAATAGTA
1 AAAAAAAATAAAAA-AATAAATAGTA
*
460743 AAAAAGAATAAAAATAATAAATAG-A
1 AAAAAAAATAAAAA-AATAAATAGTA
460768 AAAAGACAAATAAAAAA
1 AAAA-A-AAATAAAAAA
460785 TATATTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.14
26 22 0.63
27 8 0.23
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.12
Consensus pattern (25 bp):
AAAAAAAATAAAAAAATAAATAGTA
Found at i:461522 original size:25 final size:23
Alignment explanation
Indices: 461466--461523 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
461456 TATTTTCTGA
*
461466 GTATTTTGTGTGTAATCTCTTGT
1 GTATTTCGTGTGTAATCTCTTGT
** *
461489 GTAAATCGTGTGTAATCTATTGTGT
1 GTATTTCGTGTGTAATCT-CT-TGT
461514 GTATTTCGTG
1 GTATTTCGTG
461524 AGTACAATAG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
23 15 0.56
24 1 0.04
25 11 0.41
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (23 bp):
GTATTTCGTGTGTAATCTCTTGT
Found at i:463400 original size:228 final size:229
Alignment explanation
Indices: 462894--463603 Score: 1298
Period size: 229 Copynumber: 3.1 Consensus size: 229
462884 GTTATATTGT
* * *
462894 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
462958 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
463023 ATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
131 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
463088 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
463123 AAAGTATATATCATTTTTATAAAAGTGTCTATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
463188 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
463252 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
131 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
*
463317 AAAAATTTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
*
463351 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCATTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
463416 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
*
463481 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
131 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
463546 AAAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
**
463580 AAAGTATCGATCATTTTTATAAAA
1 AAAGTATATATCATTTTTATAAAA
463604 AGTATGGACA
Statistics
Matches: 466, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
228 154 0.33
229 237 0.51
230 75 0.16
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:463666 original size:23 final size:23
Alignment explanation
Indices: 463635--463698 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
463625 ATAGGTAAAA
*
463635 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
463658 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
463681 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
463699 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:464149 original size:23 final size:23
Alignment explanation
Indices: 464123--464178 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
464113 AAATATGATG
*
464123 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCACTTATATAATA
* * *
464146 TAATAGGTATCATTTATATAATG
1 TAATAGGTAGCACTTATATAATA
464169 TAATAGGTAG
1 TAATAGGTAG
464179 TTGTAAAGTA
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:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCACTTATATAATA
Found at i:464626 original size:23 final size:23
Alignment explanation
Indices: 464600--464655 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
464590 AAATATTATC
464600 TAATAGGTAGCGATTATATAATG
1 TAATAGGTAGCGATTATATAATG
* *
464623 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGATTATATAATG
464646 TAATAGGTAG
1 TAATAGGTAG
464656 TTGTAAAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGATTATATAATG
Found at i:465101 original size:23 final size:23
Alignment explanation
Indices: 465070--465133 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
465060 ATAGGTAAAA
*
465070 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
465093 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
465116 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
465134 TTGTAAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:465497 original size:481 final size:482
Alignment explanation
Indices: 463402--466978 Score: 6598
Period size: 480 Copynumber: 7.5 Consensus size: 482
463392 ATTGTGGAAA
463402 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
*
463467 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
463532 ATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
463596 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
463661 TAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
* *
463726 AGTGTCCATACTTTTTTCATTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
463791 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
463855 AAATTAAAAACAATAAACATATATATT
456 AAATTAAAAACAATAAACATATATATT
463882 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
* *
463947 ATCAAAACAATCAAATAATTTTTTGTATAAATGAAATTATTAAATTAATATTGTAGGTAGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
*
464012 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
464076 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
* *
464141 TAATATAATAGGTATCATTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
464206 AGTGTCCATACTTTTTTCACTGTGGAAAA-AGTTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
326 AGTGTCCATACTTTTTTCACTGTGGAAAACA-TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
*
464270 GATTTTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACG--ATATA-TATTAT
390 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTAT
464331 TAAATTAAAAACAATAAACATATAT-TT
455 TAAATTAAAAACAATAAACATATATATT
464358 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
*
464423 ATCAAAACAATCATATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
464488 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
* * * *
464553 TTATAAAATGTATGGACACTTTCAATATAATAGGTAAAAATATTATCTAATAGGTAGCGATTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
464618 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCC-TTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
*
464682 AGTGTCCATAC-TTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
464746 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
464811 AAATTAAAAACAATAAAC--ATATATT
456 AAATTAAAAACAATAAACATATATATT
464836 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
*
464901 ATCAAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
* * *
464966 ATAAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
465031 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
465096 TAATGTAATATGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
*
465161 AGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
*
465226 ATATTAATTTAGTAATTACAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
465291 AAATTAAAAACAATAAACATATATATT
456 AAATTAAAAACAATAAACATATATATT
465318 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
465382 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
*
465447 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
*
465512 TTATAAAAAGTATGGACACTTTTAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
465577 TAATGTAATAGGTATCATTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
465642 AGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
* *
465706 ATATTAATTTAGTAATTTTAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
465771 AAATTAAAAACAATAAACATATATATT
456 AAATTAAAAACAATAAACATATATATT
465798 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
465863 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
* * *
465928 ATAAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
*
465993 TTATAAAAAGTATGGACACTTTCAATATAATAGGT-AAAA-ATGATGTAATAGGTACCGCTTATA
196 TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
*
466056 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCATTTTTATAAA
261 TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
* *
466121 AGTGTCCATAATTTTTTCACTGTTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
326 AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
*
466186 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACATTACGATATATATTATTATT
391 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
466251 AAATTAAAAACAATAAACATATATATT
456 AAATTAAAAACAATAAACATATATATT
466278 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
466343 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
* **
466408 ATAAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTGCCGATCATT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCATT
466472 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT
195 TTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTAT
466537 ATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAA
260 ATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAA
*
466602 AAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
325 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
466667 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTAT
390 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTAT
* *
466732 TAAATTAAAAATAATAAAAATATATATT
455 TAAATTAAAAACAATAAACATATATATT
466760 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
1 ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
* *
466825 ATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAAC
66 ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
*
466890 ATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCATTT
131 ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
466954 TTATAAAAAGTATGGACACTTTCAA
196 TTATAAAAAGTATGGACACTTTCAA
466979 CATATTATAA
Statistics
Matches: 3009, Mismatches: 70, Indels: 35
0.97 0.02 0.01
Matches are distributed among these distances:
475 85 0.03
476 208 0.07
477 167 0.06
478 317 0.11
479 173 0.06
480 1065 0.35
481 524 0.17
482 470 0.16
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (482 bp):
ACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAAT
ATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAC
ATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCATTT
TTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATA
TAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAA
AGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
AAATTAAAAACAATAAACATATATATT
Found at i:465582 original size:23 final size:23
Alignment explanation
Indices: 465551--465614 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
465541 ATAGGTAAAA
* *
465551 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
* *
465574 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCACTT
465597 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
465615 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:466061 original size:23 final size:23
Alignment explanation
Indices: 466035--466092 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
466025 GGTAAAAATG
466035 ATGTAATAGGTACCGCTTATATA
1 ATGTAATAGGTACCGCTTATATA
* *
466058 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTACCGCTTATATA
466081 ATGTAATAGGTA
1 ATGTAATAGGTA
466093 GTTGTAAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTACCGCTTATATA
Found at i:466543 original size:23 final size:23
Alignment explanation
Indices: 466512--466575 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
466502 ATAGGTAAAA
*
466512 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
466535 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
466558 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
466576 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:477419 original size:28 final size:27
Alignment explanation
Indices: 477364--477419 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
477354 TAAAAAATGT
* *
477364 AGTTATTTAAAATAAGATTTAACTTTG
1 AGTTATTAAAAATAAGATTTAACATTG
477391 AGTTATTAAAAATGAAGA-TTATACATTG
1 AGTTATTAAAAAT-AAGATTTA-ACATTG
477419 A
1 A
477420 AAAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (27 bp):
AGTTATTAAAAATAAGATTTAACATTG
Found at i:478748 original size:13 final size:13
Alignment explanation
Indices: 478727--478778 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
478717 GTCACAACCC
*
478727 GACCGGACCCGTT
1 GACCCGACCCGTT
478740 GACCCGACCCGTT
1 GACCCGACCCGTT
*
478753 GACCCGACAC---
1 GACCCGACCCGTT
478763 GACCCGACCCGTT
1 GACCCGACCCGTT
478776 GAC
1 GAC
478779 TCGTTGACCG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.27
13 24 0.73
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.12
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:481243 original size:12 final size:11
Alignment explanation
Indices: 481232--481315 Score: 55
Period size: 12 Copynumber: 7.1 Consensus size: 11
481222 TCGATTTGAT
481232 TTCTGATCTGA
1 TTCTGATCTGA
* *
481243 TACTTGATATGGA
1 TTC-TGATCT-GA
481256 TTCTGATCTGA
1 TTCTGATCTGA
481267 TATCTGA-CATGGA
1 T-TCTGATC-T-GA
481280 TTCTGATCTGA
1 TTCTGATCTGA
*
481291 TACTTGA-CTTAGA
1 TTC-TGATC-T-GA
481304 TTCTGATCTGA
1 TTCTGATCTGA
481315 T
1 T
481316 ACTTGACCTG
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
11 14 0.25
12 30 0.53
13 13 0.23
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (11 bp):
TTCTGATCTGA
Found at i:481259 original size:24 final size:24
Alignment explanation
Indices: 481232--481346 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
481222 TCGATTTGAT
*
481232 TTCTGATCTGATACTTGATATGGA
1 TTCTGATCTGATACTTGACATGGA
481256 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
* *
481280 TTCTGATCTGATACTTGACTTAGA
1 TTCTGATCTGATACTTGACATGGA
*
481304 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
481328 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
481347 GTGAATTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 80 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:481358 original size:24 final size:23
Alignment explanation
Indices: 481235--481363 Score: 98
Period size: 24 Copynumber: 5.4 Consensus size: 23
481225 ATTTGATTTC
* * *
481235 TGATCTGATACTTGATATGGATTC
1 TGATCTGATACTTGA-CTGAATTA
* *
481259 TGATCTGATA-TCTGACATGGATTC
1 TGATCTGATACT-TGAC-TGAATTA
* *
481283 TGATCTGATACTTGACTTAGATTC
1 TGATCTGATACTTGACTGA-ATTA
* *
481307 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGA-CTGAATTA
*
481331 TGATATGATACTTGACGTGAATTA
1 TGATCTGATACTTGAC-TGAATTA
*
481355 TGATTTGAT
1 TGATCTGAT
481364 TTTTGATATA
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
23 3 0.03
24 83 0.93
25 3 0.03
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (23 bp):
TGATCTGATACTTGACTGAATTA
Found at i:483490 original size:23 final size:23
Alignment explanation
Indices: 483464--483507 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
483454 ACCGGTCACA
483464 ACTCGACCCGACCCGTTGACCTG
1 ACTCGACCCGACCCGTTGACCTG
483487 ACTCGACCCGACCCGTTGACC
1 ACTCGACCCGACCCGTTGACC
483508 CGACCAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.45, G:0.20, T:0.16
Consensus pattern (23 bp):
ACTCGACCCGACCCGTTGACCTG
Found at i:483509 original size:13 final size:13
Alignment explanation
Indices: 483468--483518 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
483458 GTCACAACTC
483468 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
483481 GACCTGA--C-TC
1 GACCCGACCCGTT
483491 GACCCGACCCGTT
1 GACCCGACCCGTT
*
483504 GACCCGACCAGTT
1 GACCCGACCCGTT
483517 GA
1 GA
483519 TCCATTGACC
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 1 0.03
13 21 0.70
ACGTcount: A:0.20, C:0.41, G:0.24, T:0.16
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:483538 original size:15 final size:15
Alignment explanation
Indices: 483509--483550 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
483499 CCGTTGACCC
*
483509 GACCAGTTGATCCATT
1 GACC-GTTGACCCATT
483525 GACCGTTGACCCATT
1 GACCGTTGACCCATT
483540 GACCGTTGACC
1 GACCGTTGACC
483551 GGCGTTGACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (15 bp):
GACCGTTGACCCATT
Found at i:495312 original size:35 final size:35
Alignment explanation
Indices: 495265--495365 Score: 184
Period size: 35 Copynumber: 2.9 Consensus size: 35
495255 CGTCACGTCT
*
495265 AGTAAGGTCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
*
495300 AGTAAGGCCCTGAGCACACAGCCGAGGAACAGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
495335 AGTAAGGCCCTGAGCACACAGCCGAGGAACC
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACC
495366 TCCAGGTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.33, C:0.28, G:0.31, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
Found at i:495468 original size:24 final size:24
Alignment explanation
Indices: 495453--495567 Score: 178
Period size: 24 Copynumber: 4.8 Consensus size: 24
495443 CATAATTCAC
* * *
495453 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
495477 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
495501 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
495525 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
495549 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
495568 ATCAAATCAA
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
23 2 0.02
24 81 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:498044 original size:15 final size:15
Alignment explanation
Indices: 498011--498045 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
498001 TCAACGCCGG
* *
498011 TCAACAGTCAATGGG
1 TCAACAGTCAACGGA
498026 TCAACAGTCAACGGA
1 TCAACAGTCAACGGA
498041 TCAAC
1 TCAAC
498046 TGGTCGGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (15 bp):
TCAACAGTCAACGGA
Done.