Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008930.1 Hibiscus syriacus cultivar Beakdansim tig00112236_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: 792381
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:367008 original size:12 final size:12
Alignment explanation
Indices: 366993--367027 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
366983 CGATTCTCAG
366993 CCCAATACCCGA
1 CCCAATACCCGA
*
367005 CCCAATACCCGG
1 CCCAATACCCGA
367017 CCCAATACCCG
1 CCCAATACCCG
367028 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.29, C:0.51, G:0.11, T:0.09
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:368038 original size:24 final size:22
Alignment explanation
Indices: 368004--368047 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
367994 ATTTTATATA
368004 AAAATAATTTAAATATATAAATGT
1 AAAATAATTT-AATAT-TAAATGT
*
368028 AAAATATTTTAATATTAAAT
1 AAAATAATTTAATATTAAAT
368048 AATTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAAATAATTTAATATTAAATGT
Found at i:368041 original size:23 final size:23
Alignment explanation
Indices: 368004--368047 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
367994 ATTTTATATA
368004 AAAATAATTTAAATATATAAATGT
1 AAAATAATTTAAATAT-TAAATGT
*
368028 AAAAT-ATTTTAATATTAAAT
1 AAAATAATTTAAATATTAAAT
368048 AATTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
AAAATAATTTAAATATTAAATGT
Found at i:368378 original size:17 final size:17
Alignment explanation
Indices: 368356--368389 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
368346 ACGAAAATAA
368356 AATTTAAAAAAAATACT
1 AATTTAAAAAAAATACT
* *
368373 AATTTAATAACAATACT
1 AATTTAAAAAAAATACT
368390 GTAAACCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
AATTTAAAAAAAATACT
Found at i:370415 original size:20 final size:20
Alignment explanation
Indices: 370390--370431 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
370380 ATGAACTCAC
370390 TTACGTGATAAAAGAAAGTG
1 TTACGTGATAAAAGAAAGTG
370410 TTACGTGATAAAAGAAAGTG
1 TTACGTGATAAAAGAAAGTG
370430 TT
1 TT
370432 TTTATCTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.05, G:0.24, T:0.29
Consensus pattern (20 bp):
TTACGTGATAAAAGAAAGTG
Found at i:372159 original size:69 final size:68
Alignment explanation
Indices: 372037--372266 Score: 239
Period size: 69 Copynumber: 3.3 Consensus size: 68
372027 TCATCGGAGA
* * * * * *
372037 TCCCTTGCGAGTCACCCAAAAATTATTATGATT-GAGTGTTCTTGTGTGAGTCACTCTAATTCTT
1 TCCCGTGCGAGTCACCC-AAAATGATTATGATTAG-GTGCTCCTATGAGAGTCACTCTAA-TCTT
372101 TTGGGC
63 TTGGGC
* * * *
372107 TCCCGTGCGAGTCACCCATAATGATTATGATTAGGTGCTCCTATGCGTGTCACTCTAATCCTTTG
1 TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGCTCCTATGAGAGTCACTCTAATCTTTTG
372172 GGAC
66 GG-C
* * *
372176 TCTCGTGCGAGTCACCCAGAATGATTATGATTAGGTGCTTCC-ATGAGAGTCACTCTAATCTTTC
1 TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGC-TCCTATGAGAGTCACTCTAATCTTTT
*
372240 GAGAC
65 G-GGC
* * *
372245 TCCCGTGCAAGTTACCCGAAAT
1 TCCCGTGCGAGTCACCCAAAAT
372267 AATTGTTCAT
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
68 8 0.06
69 106 0.79
70 21 0.16
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (68 bp):
TCCCGTGCGAGTCACCCAAAATGATTATGATTAGGTGCTCCTATGAGAGTCACTCTAATCTTTTG
GGC
Found at i:374181 original size:63 final size:62
Alignment explanation
Indices: 374102--374258 Score: 181
Period size: 63 Copynumber: 2.5 Consensus size: 62
374092 TTCAGTGTGT
* * * ** *
374102 ATCGATGCACAGGGAGTGCATCGATGCACCCATTAAAATGGAAACATCGAATGCAATTGGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCACCC-CTAAAATACAAACATCGAATGCAATTGATGC
** *
374165 ATCGATGCATAAGGAGTGCATCGATGCATCCCCTAAAATACAAACATCGAATGGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCA-CCCCTAAAATACAAACATCGAATGCAATTGATGC
* *
374228 ACCGATGCAT-AGATAGTGCATCGATGCACCC
1 ATCGATGCATAAG-GAGTGCATCGATGCACCC
374259 GTCTAGGGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 5 0.06
63 73 0.90
64 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (62 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCCTAAAATACAAACATCGAATGCAATTGATGC
Found at i:378211 original size:63 final size:62
Alignment explanation
Indices: 378132--378288 Score: 181
Period size: 63 Copynumber: 2.5 Consensus size: 62
378122 TTCAGTGTGT
* * * ** * *
378132 ATCGATGCACAGGGAGTGCATCGATGCACCCATTAAAATGGAAATATCGAATGCGATTGGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCACCC-CTAAAATACAAACATCGAATGCGATTGATGC
* *
378195 ATCGATGCATAAGGAGTGCATCGATGCATCCCCTAAAATACAAACATCGAATGGGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCA-CCCCTAAAATACAAACATCGAATGCGATTGATGC
* *
378258 ACCGATGCAT-AGATAGTGCATCGATGCACCC
1 ATCGATGCATAAG-GAGTGCATCGATGCACCC
378289 GTATAGGGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
62 5 0.06
63 73 0.90
64 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (62 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCCTAAAATACAAACATCGAATGCGATTGATGC
Found at i:380987 original size:20 final size:20
Alignment explanation
Indices: 380964--381003 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
380954 TTGATCTCTT
*
380964 AGTATCAATACTTTGCCTTA
1 AGTATCAATACTTTACCTTA
*
380984 AGTATCGATACTTTACCTTA
1 AGTATCAATACTTTACCTTA
381004 TTATTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
AGTATCAATACTTTACCTTA
Found at i:381285 original size:20 final size:20
Alignment explanation
Indices: 381260--381297 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
381250 ACACTTCTTG
*
381260 AAGAACAATATCGGTACTGT
1 AAGAACAATATCGATACTGT
*
381280 AAGAACATTATCGATACT
1 AAGAACAATATCGATACT
381298 CCTGCTCGAA
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:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AAGAACAATATCGATACTGT
Found at i:386544 original size:35 final size:35
Alignment explanation
Indices: 386454--386528 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
386444 TTCATGTTCA
* *
386454 AAATTCCAAAACACTTCAATTACATTCTAAACTCC
1 AAATTCCAAAATACTTTAATTACATTCTAAACTCC
*
386489 AAATTCCAAAATACTTTAATTACATTCTAAACTCT
1 AAATTCCAAAATACTTTAATTACATTCTAAACTCC
386524 AAATT
1 AAATT
386529 GAAGTATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAATACTTTAATTACATTCTAAACTCC
Found at i:388579 original size:75 final size:75
Alignment explanation
Indices: 388491--388667 Score: 225
Period size: 75 Copynumber: 2.4 Consensus size: 75
388481 AAATATCAAT
*
388491 ACTCAAACCATAATATTAAGTTTAGAATAGT-AAAATCAATAAACAAATCACAATATTAAAATGT
1 ACTCAAACCATAATATTAAGTTTAGAATAATCAAAA-CAATAAACAAATCACAATATTAAAATGT
388555 CAAAT-TTCAAG
65 CAAATCTT-AAG
* * * * * * *
388566 ATTCAAACTATAATATTAACTCTT-GAATAATCAAAACCATAATCAAATCATAATATTAAAGTGT
1 ACTCAAACCATAATATTAAGT-TTAGAATAATCAAAACAATAAACAAATCACAATATTAAAATGT
388630 CAAATCTTAAG
65 CAAATCTTAAG
*
388641 ACTCAAACCATAATATTAAGTGTAGAA
1 ACTCAAACCATAATATTAAGTTTAGAA
388668 AAATATTAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
74 1 0.01
75 77 0.90
76 8 0.09
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (75 bp):
ACTCAAACCATAATATTAAGTTTAGAATAATCAAAACAATAAACAAATCACAATATTAAAATGTC
AAATCTTAAG
Found at i:388982 original size:20 final size:21
Alignment explanation
Indices: 388957--389008 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
388947 TTTTCCCAAT
*
388957 TCGCAATGCGAATAAG-TAAA
1 TCGCAATGCGAATAAGAAAAA
* **
388977 TCGCAACGCGAATTGGAAAAA
1 TCGCAATGCGAATAAGAAAAA
388998 TCGCAATGCGA
1 TCGCAATGCGA
389009 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATAAGAAAAA
Found at i:389663 original size:19 final size:19
Alignment explanation
Indices: 389627--389668 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
389617 ACGAGAGAAT
*
389627 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
389646 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
389665 CGCA
1 CGCA
389669 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:389686 original size:19 final size:19
Alignment explanation
Indices: 389664--389794 Score: 182
Period size: 19 Copynumber: 7.1 Consensus size: 19
389654 GAAACCAAAA
*
389664 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
389683 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
389697 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
389716 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
389735 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
389754 TCGCGTTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
*
389773 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
389793 TC
1 TC
389795 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
14 10 0.10
16 3 0.03
17 3 0.03
19 67 0.67
20 17 0.17
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:389711 original size:33 final size:33
Alignment explanation
Indices: 389664--389769 Score: 149
Period size: 33 Copynumber: 3.1 Consensus size: 33
389654 GAAACCAAAA
*
389664 TCGCATTGCGATTTTCATTTCGCGTTGCGATTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
*
389697 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA--TTC
389732 ATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
1 ---TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
389768 TC
1 TC
389770 ATTATCTCGT
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
33 30 0.46
35 3 0.05
36 3 0.05
38 29 0.45
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTC
Found at i:391345 original size:63 final size:63
Alignment explanation
Indices: 391246--391376 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
391236 GTTACGTGAT
391246 GAGGTCAATGCCTTACGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTACGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
*
391309 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTACGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
391372 GAGGT
1 GAGGT
391377 GTCTACTTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTACGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:392025 original size:21 final size:21
Alignment explanation
Indices: 392001--392067 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
391991 TCATTCCTCG
392001 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
392022 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
392043 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
392064 AGAG
1 AGAG
392068 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:392025 original size:42 final size:42
Alignment explanation
Indices: 391949--392067 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
391939 GACTCGCCTG
* * * * * * *
391949 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
391991 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
392033 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
392068 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:393444 original size:14 final size:14
Alignment explanation
Indices: 393425--393460 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
393415 ATTGTTTAAT
393425 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
393439 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
393453 TGATTTGT
1 TGATTTGT
393461 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:393604 original size:14 final size:14
Alignment explanation
Indices: 393585--393641 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
393575 GCGAAATGAA
393585 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
393599 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
393618 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
393632 AAACGCAACG
1 AATCGCAACG
393642 CGAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.23, G:0.25, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:393612 original size:33 final size:33
Alignment explanation
Indices: 393567--393656 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
393557 AAAAAGTACT
*
393567 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
393600 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
393633 AACGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
393657 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:393626 original size:19 final size:19
Alignment explanation
Indices: 393567--393627 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
393557 AAAAAGTACT
*
393567 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
393586 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
393600 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
393619 ATCGCAACG
1 ATCGCAACG
393628 AGAGAAACGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:393674 original size:19 final size:19
Alignment explanation
Indices: 393652--393782 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
393642 CGAAATTAAA
*
393652 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
393671 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
393687 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
393704 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
*
393718 TTAGCATTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
393737 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
393753 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
393770 TTCGCATTGCGAT
1 TTCGCATTGCGAT
393783 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 11, Indels: 30
0.68 0.09 0.24
Matches are distributed among these distances:
14 24 0.28
16 13 0.15
17 13 0.15
19 36 0.42
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:393698 original size:33 final size:32
Alignment explanation
Indices: 393656--393782 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
393646 ATTAAATTCG
393656 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
393689 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
393722 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
393755 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
393783 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:393732 original size:66 final size:66
Alignment explanation
Indices: 393649--393781 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
393639 ACGCGAAATT
* *
393649 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
393714 G
66 G
*
393715 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
393780 G
66 G
393781 A
1 A
393782 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCATTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:396300 original size:24 final size:24
Alignment explanation
Indices: 396273--396319 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
396263 CAAAATCCGT
*
396273 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
396297 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
396320 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:396328 original size:24 final size:24
Alignment explanation
Indices: 396277--396328 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
396267 ATCCGTGTAT
* ** *
396277 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
396301 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
396325 TGAC
1 TGAC
396329 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:397396 original size:20 final size:20
Alignment explanation
Indices: 397371--397428 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
397361 ATTCATTTGA
397371 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
397391 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
397411 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
397429 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:397512 original size:33 final size:33
Alignment explanation
Indices: 397447--397523 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
397437 GAAATGAAAA
***
397447 TCGCATTGCGA-TTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
397479 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
* *
397512 TTGCGTTGCGAT
1 TCGCATTGCGAT
397524 AGTCTGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 11 0.28
33 28 0.72
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.43
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:397630 original size:14 final size:13
Alignment explanation
Indices: 397611--397646 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
397601 CATCAATTAA
397611 ACAAATCAACATTT
1 ACAAATCAAC-TTT
*
397625 ACAAATCATCTTT
1 ACAAATCAACTTT
397638 ACAAATCAA
1 ACAAATCAA
397647 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (13 bp):
ACAAATCAACTTT
Found at i:399544 original size:20 final size:19
Alignment explanation
Indices: 399509--399575 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
399499 GAAACTTAAA
399509 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
399528 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
** **
399548 ATCGCAATACGAAATGAAA
1 ATCGCAACGCGAAATGACT
399567 ATCGCAACG
1 ATCGCAACG
399576 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:399583 original size:14 final size:14
Alignment explanation
Indices: 399564--399621 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
399554 ATACGAAATG
*
399564 AAAATCGCAACGAC
1 AAAATCGCAACGAA
399578 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAA
*
399594 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
399610 AAAATCGCAACG
1 AAAATCGCAACG
399622 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:399606 original size:32 final size:33
Alignment explanation
Indices: 399548--399626 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
399538 GGAAATGGCT
**
399548 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
399581 ATCGCAACGCGAAATG-AAATCGCAACGATAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
399613 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
399627 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 29 0.67
33 14 0.33
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:399655 original size:19 final size:19
Alignment explanation
Indices: 399633--399696 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
399623 GAAACACAAA
399633 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
399652 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
*
399668 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
399685 TCGCATTGCGAT
1 TCGCATTGCGAT
399697 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
14 5 0.14
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 16 0.46
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:399715 original size:20 final size:19
Alignment explanation
Indices: 399681--399735 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
399671 TTGCAATTTT
*
399681 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
399700 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
399720 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
399736 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:400243 original size:18 final size:18
Alignment explanation
Indices: 400217--400261 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
400207 GTCGATCAGA
*
400217 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
400235 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
400253 TGATGGCTC
1 TGATGGCTC
400262 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:401628 original size:20 final size:20
Alignment explanation
Indices: 401580--401638 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
401570 AATAGTTTCT
** *
401580 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
401600 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
401620 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
401639 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:401927 original size:22 final size:22
Alignment explanation
Indices: 401900--401943 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
401890 GATGGAGATA
401900 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
401922 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
401944 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:402237 original size:20 final size:20
Alignment explanation
Indices: 402111--402245 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
402101 CGCTTTGAAA
*
402111 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
402132 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
*
402152 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
402172 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
402192 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
402213 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
402233 ATCGCATTGCGAT
1 ATCGCATTGCGAT
402246 TTTCCCAATT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.05
20 64 0.68
21 23 0.24
22 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:402263 original size:21 final size:21
Alignment explanation
Indices: 402234--402326 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
402224 ATAGTCAGTA
402234 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
402255 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
402275 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
402296 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
402316 TCGCATTGCGA
1 TCGCATTGCGA
402327 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:402264 original size:41 final size:41
Alignment explanation
Indices: 402111--402307 Score: 143
Period size: 41 Copynumber: 4.8 Consensus size: 41
402101 CGCTTTGAAA
* ** * * *
402111 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
*** * * *
402152 ATCGCATTGCGAAAGT-CAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* * ** * *
402192 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
* *
402233 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT--TTACTT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGATAGTCA-GT
402273 ATTCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 A-TCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
402308 TTACTTATTC
Statistics
Matches: 127, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 33 0.26
41 90 0.71
42 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTCAGT
Found at i:402308 original size:41 final size:41
Alignment explanation
Indices: 402234--402326 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
402224 ATAGTCAGTA
402234 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
402275 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
402316 TCGCATTGCGA
1 TCGCATTGCGA
402327 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:410636 original size:19 final size:20
Alignment explanation
Indices: 410614--410651 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
410604 TTATAAACAA
410614 ATAAAAAG-TAAATAAATTT
1 ATAAAAAGTTAAATAAATTT
*
410633 ATAAAAGGTTAAATAAATT
1 ATAAAAAGTTAAATAAATT
410652 AAGTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (20 bp):
ATAAAAAGTTAAATAAATTT
Found at i:412118 original size:14 final size:15
Alignment explanation
Indices: 412092--412120 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
412082 ATTATGAATA
412092 ATTTATATTTTAATT
1 ATTTATATTTTAATT
412107 ATTTAT-TTTTAATT
1 ATTTATATTTTAATT
412121 TGTTAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATATTTTAATT
Found at i:416404 original size:12 final size:12
Alignment explanation
Indices: 416387--416415 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
416377 GAAAAAATAT
416387 TAATTATAGATA
1 TAATTATAGATA
416399 TAATTATAGATA
1 TAATTATAGATA
416411 TAATT
1 TAATT
416416 GTAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (12 bp):
TAATTATAGATA
Found at i:416846 original size:18 final size:18
Alignment explanation
Indices: 416825--416862 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
416815 TAAAAATACA
416825 AAAAAGTATA-GTTATAAT
1 AAAAA-TATATGTTATAAT
*
416843 AAAAATATATTTTATAAT
1 AAAAATATATGTTATAAT
416861 AA
1 AA
416863 CTCAGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAAATATATGTTATAAT
Found at i:419504 original size:48 final size:48
Alignment explanation
Indices: 419450--419557 Score: 216
Period size: 48 Copynumber: 2.2 Consensus size: 48
419440 TCGATTCTTG
419450 TTCTTTTGATCCTTAATTGAGTTAATTCTTATTCTTACATTTATTCTC
1 TTCTTTTGATCCTTAATTGAGTTAATTCTTATTCTTACATTTATTCTC
419498 TTCTTTTGATCCTTAATTGAGTTAATTCTTATTCTTACATTTATTCTC
1 TTCTTTTGATCCTTAATTGAGTTAATTCTTATTCTTACATTTATTCTC
419546 TTCTTTTGATCC
1 TTCTTTTGATCC
419558 AAAAATAGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 60 1.00
ACGTcount: A:0.19, C:0.18, G:0.06, T:0.56
Consensus pattern (48 bp):
TTCTTTTGATCCTTAATTGAGTTAATTCTTATTCTTACATTTATTCTC
Found at i:419750 original size:31 final size:31
Alignment explanation
Indices: 419715--419778 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
419705 AAACCATAAT
419715 ATATGACCACTTTCATTTTTATTTAATTAAG
1 ATATGACCACTTTCATTTTTATTTAATTAAG
* *
419746 ATATGATCACTTTCTTTTTTATTTAATTAAG
1 ATATGACCACTTTCATTTTTATTTAATTAAG
419777 AT
1 AT
419779 GTGGTCATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.52
Consensus pattern (31 bp):
ATATGACCACTTTCATTTTTATTTAATTAAG
Found at i:428276 original size:104 final size:103
Alignment explanation
Indices: 428097--428303 Score: 378
Period size: 104 Copynumber: 2.0 Consensus size: 103
428087 TAAACTCTTG
428097 TTACAAAGCAAATTTACAATAATTAAAAATATATATTAAAATTTATTCTCAATTATTTCCTCATT
1 TTACAAAGCAAATTTACAATAATTAAAAATATATATTAAAATTTATTCTCAATTATTTCCTCATT
428162 TCATTATATGTGATAGTATCGCGTTAATACTTTAATAC
66 TCATTATATGTGATAGTATCGCGTTAATACTTTAATAC
* * *
428200 TTACAAAGCAACTTTACAATAATTAAAAATATAATATTAAAATTTATTCTTAATTATTTCCTCGT
1 TTACAAAGCAAATTTACAATAATTAAAAATAT-ATATTAAAATTTATTCTCAATTATTTCCTCAT
428265 TTCATTATATGTGATAGTATCGCGTTAATACTTTAATAC
65 TTCATTATATGTGATAGTATCGCGTTAATACTTTAATAC
428304 ATGCAGATAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
103 31 0.31
104 69 0.69
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (103 bp):
TTACAAAGCAAATTTACAATAATTAAAAATATATATTAAAATTTATTCTCAATTATTTCCTCATT
TCATTATATGTGATAGTATCGCGTTAATACTTTAATAC
Found at i:430118 original size:2 final size:2
Alignment explanation
Indices: 430111--430151 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
430101 GACTTGACCC
430111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
430152 GGTAAAACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:430411 original size:29 final size:29
Alignment explanation
Indices: 430365--430420 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
430355 TCCCAACACA
*
430365 TAGGTCGCCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCACTCCGGGCGACCTTG
430394 TAGGTCGCCATGCACTCCGGGCGACCT
1 TAGGTCGCCATGCACTCCGGGCGACCT
430421 ACCCTCGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCGGGCGACCTTG
Found at i:430465 original size:33 final size:33
Alignment explanation
Indices: 430424--430517 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
430414 GCGACCTACC
*
430424 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
430457 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * * *
430490 CTCGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCG
430518 GATGGCCTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.09, C:0.38, G:0.27, T:0.27
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:430480 original size:10 final size:10
Alignment explanation
Indices: 430436--430527 Score: 58
Period size: 10 Copynumber: 8.6 Consensus size: 10
430426 CGCTCGGCTT
*
430436 CCCTCGGATT
1 CCCTCGGATG
*
430446 CCCTCGCATAG
1 CCCTCGGAT-G
*
430457 CTCGCTCGGTTG
1 C-C-CTCGGATG
430469 CCCTCGGATG
1 CCCTCGGATG
*
430479 CCCTCGCATAG
1 CCCTCGGAT-G
*
430490 CTCGTTCGGATG
1 C-C-CTCGGATG
*
430502 GCCTCGGATG
1 CCCTCGGATG
*
430512 CTCTCGGATG
1 CCCTCGGATG
*
430522 GCCTCG
1 CCCTCG
430528 ATCGGATGGC
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
10 42 0.68
11 5 0.08
12 5 0.08
13 10 0.16
ACGTcount: A:0.10, C:0.37, G:0.28, T:0.25
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:430538 original size:34 final size:33
Alignment explanation
Indices: 430437--430548 Score: 134
Period size: 33 Copynumber: 3.4 Consensus size: 33
430427 GCTCGGCTTC
* * * *
430437 CCTCGGATTCCCTCGCATAGCTCGCTCGGTTGC
1 CCTCGGATGCCCTCGCATAGCTCGATCGGATGG
*
430470 CCTCGGATGCCCTCGCATAGCTCGTTCGGATGG
1 CCTCGGATGCCCTCGCATAGCTCGATCGGATGG
* * *
430503 CCTCGGATGCTCTCGGATGGCCTCGATCGGATGG
1 CCTCGGATGCCCTCGCATAG-CTCGATCGGATGG
*
430537 CCTCAGATGCCC
1 CCTCGGATGCCC
430549 AACGTGTTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
33 46 0.68
34 22 0.32
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.24
Consensus pattern (33 bp):
CCTCGGATGCCCTCGCATAGCTCGATCGGATGG
Found at i:430623 original size:29 final size:29
Alignment explanation
Indices: 430586--430643 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
430576 GCAGTCTCTT
*
430586 GTAGCTCGCCGGGAAGACATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
* *
430615 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCCGGAAGACATGGCGACCTA
430644 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCCGGAAGACATGGCGACCTA
Found at i:430752 original size:2 final size:2
Alignment explanation
Indices: 430745--430800 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
430735 AAGTTTTGCC
**
430745 TA TA TA TA TA TA GCC TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
430788 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
430801 CCTCGCATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:432771 original size:21 final size:21
Alignment explanation
Indices: 432745--432785 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
432735 CTTATATTTA
432745 ATTTAAATTATTTAAAAATAT
1 ATTTAAATTATTTAAAAATAT
*
432766 ATTTAAATTATTTAATAATA
1 ATTTAAATTATTTAAAAATA
432786 AATTATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAAATTATTTAAAAATAT
Found at i:440456 original size:2 final size:2
Alignment explanation
Indices: 440449--440497 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
440439 TTTAATTCCT
440449 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
440491 TC TC TC T
1 TC TC TC T
440498 GTACATTCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:443706 original size:23 final size:23
Alignment explanation
Indices: 443677--443721 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
443667 AGTGTTATAT
443677 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
443700 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
443722 AATATTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:443960 original size:42 final size:41
Alignment explanation
Indices: 443904--443996 Score: 102
Period size: 41 Copynumber: 2.2 Consensus size: 41
443894 TATTATAATA
*
443904 TTAAAAATATAATATTATT-ATTAGAAAT-ATTAATAAATATATT
1 TTAATAATATAATATT-TTGATTA-AAATGA-TAATAAA-ATATT
*
443947 TTAATAAT-TAATATTTTGATTAAAATGATATTAAAATATT
1 TTAATAATATAATATTTTGATTAAAATGATAATAAAATATT
*
443987 TTATTAATAT
1 TTAATAATAT
443997 TAAATTCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
40 12 0.27
41 13 0.30
42 12 0.27
43 7 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (41 bp):
TTAATAATATAATATTTTGATTAAAATGATAATAAAATATT
Found at i:445438 original size:21 final size:20
Alignment explanation
Indices: 445400--445437 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
445390 TTTTAAGGCA
*
445400 CAAAGGATCGATCCTTTTAC
1 CAAAGGATCAATCCTTTTAC
445420 CAAAGGGATCAAT-CTTTT
1 CAAA-GGATCAATCCTTTT
445438 TTCAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (20 bp):
CAAAGGATCAATCCTTTTAC
Found at i:446942 original size:20 final size:20
Alignment explanation
Indices: 446864--446933 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
446854 TTTAAATCAT
446864 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATTTCATTTTGA
*
446884 TTTTAAAAATTTCATTTTGA
1 TTTTCAAAATTTCATTTTGA
446904 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATTTCATTTTGA
446924 TTTTCAAAAT
1 TTTTCAAAAT
446934 CTATTTTTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATTTCATTTTGA
Found at i:446942 original size:40 final size:39
Alignment explanation
Indices: 446864--446951 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 39
446854 TTTAAATCAT
*
446864 TTTTCAAAATTTCATTTTGATTTTAAAAATTTCATTTTG
1 TTTTCAAAATTTCATTTTGATTTTAAAAATCTCATTTTG
*
446903 ATTTTCAAAATTTCATTTTGATTTTCAAAATCT-ATTTTTG
1 -TTTTCAAAATTTCATTTTGATTTTAAAAATCTCA-TTTTG
*
446943 CTTTCAAAA
1 TTTTCAAAA
446952 GAAAATCGTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 9 0.20
40 35 0.80
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (39 bp):
TTTTCAAAATTTCATTTTGATTTTAAAAATCTCATTTTG
Found at i:450661 original size:16 final size:16
Alignment explanation
Indices: 450649--450705 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 16
450639 ATTAAAATTG
**
450649 ACCCAAACCAAAAGCA
1 ACCCAAACCAAAAATA
* *
450665 ACCCGAACCAAAACTA
1 ACCCAAACCAAAAATA
*
450681 ACCCGAACCAAAAATA
1 ACCCAAACCAAAAATA
450697 ACCCAAACC
1 ACCCAAACC
450706 GAAAGAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.53, C:0.39, G:0.05, T:0.04
Consensus pattern (16 bp):
ACCCAAACCAAAAATA
Found at i:450732 original size:33 final size:34
Alignment explanation
Indices: 450680--450793 Score: 119
Period size: 33 Copynumber: 3.5 Consensus size: 34
450670 AACCAAAACT
**
450680 AACCCGAACCAAA-AATAACCCA-AACCGAAAGA
1 AACCCGAACCAAATTTTAACCCAGAACCGAAAGA
* * *
450712 AACTCGAATCAGATTTTAA-CCAGAACCGAAAGA
1 AACCCGAACCAAATTTTAACCCAGAACCGAAAGA
* *
450745 AACCCGAACCAAATTTTAACCC-GATCTGAAAGA
1 AACCCGAACCAAATTTTAACCCAGAACCGAAAGA
* *
450778 AAACTGAACCAAATTT
1 AACCCGAACCAAATTT
450794 AACTCGACCC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 13 0.19
33 52 0.78
34 2 0.03
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.15
Consensus pattern (34 bp):
AACCCGAACCAAATTTTAACCCAGAACCGAAAGA
Found at i:450753 original size:16 final size:16
Alignment explanation
Indices: 450649--450754 Score: 52
Period size: 16 Copynumber: 6.6 Consensus size: 16
450639 ATTAAAATTG
* * *
450649 ACCCAAACCAAAAGCA
1 ACCCGAACCGAAAGAA
* **
450665 ACCCGAACCAAAACTA
1 ACCCGAACCGAAAGAA
*
450681 ACCCGAACC-AAAAATA
1 ACCCGAACCGAAAGA-A
*
450697 ACCCAAACCGAAAGAA
1 ACCCGAACCGAAAGAA
* * ****
450713 ACTCGAATCAGATTTTA
1 ACCCGAA-CCGAAAGAA
*
450730 ACCAGAACCGAAAGAA
1 ACCCGAACCGAAAGAA
450746 ACCCGAACC
1 ACCCGAACC
450755 AAATTTTAAC
Statistics
Matches: 65, Mismatches: 22, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
15 3 0.05
16 49 0.75
17 13 0.20
ACGTcount: A:0.50, C:0.32, G:0.10, T:0.08
Consensus pattern (16 bp):
ACCCGAACCGAAAGAA
Found at i:451431 original size:14 final size:14
Alignment explanation
Indices: 451412--451441 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
451402 TTACATTGAG
451412 TTTCTTAATAAAAC
1 TTTCTTAATAAAAC
451426 TTTCTTAATAAAAC
1 TTTCTTAATAAAAC
451440 TT
1 TT
451442 AAAAGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTCTTAATAAAAC
Found at i:455125 original size:28 final size:28
Alignment explanation
Indices: 455083--455141 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
455073 TGAGGTTCAT
455083 ATAAAAATTTCATAACAAATTCTAACAC
1 ATAAAAATTTCATAACAAATTCTAACAC
* * *
455111 ATAAAATTTTGATAACAAATTTTAACAC
1 ATAAAAATTTCATAACAAATTCTAACAC
455139 ATA
1 ATA
455142 TTATAGGATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAAAATTTCATAACAAATTCTAACAC
Found at i:457565 original size:23 final size:23
Alignment explanation
Indices: 457533--457576 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
457523 TAACATTGAC
457533 TGTAAATTATCTATTAATTAGTG
1 TGTAAATTATCTATTAATTAGTG
* *
457556 TGTAATTTATCTGTTAATTAG
1 TGTAAATTATCTATTAATTAG
457577 AATAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (23 bp):
TGTAAATTATCTATTAATTAGTG
Found at i:458877 original size:106 final size:105
Alignment explanation
Indices: 458585--459198 Score: 1032
Period size: 106 Copynumber: 5.8 Consensus size: 105
458575 GTCAGCCAAC
* * *
458585 CCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
1 CCCTTCGTC-GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
**
458649 TTGGCTCTGAAATTGGGATTTTGTTGTTGACAACCAGCGGT
65 TTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
458690 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
*
458755 TGGCTCTGAAATTGGGAAGTTATTGTTGACAACCAGCGGT
66 TGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
* * * *
458795 CCCTTCATCGTGAAGTTGAACTTGCATTGTCTTAGAGTCCAATATCCTTCGCTGTGAAGTTAAAA
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
458860 TTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
65 TTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
*
458901 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
* *
458966 TGGCTCTGAAATTGGGGAGTTGTTTATTGACAACCAGCGGT
66 TGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGT
*
459007 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
* *
459072 TGGCTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGT
66 TGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGT
*
459113 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTAAAGTTGAAAT
1 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
459178 TGGCTCTGAAATTGGGAAGTT
66 TGGCTCTGAAATTGGGAAGTT
459199 TGAAGATTTC
Statistics
Matches: 481, Mismatches: 25, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
105 179 0.37
106 302 0.63
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (105 bp):
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAAT
TGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGT
Found at i:458930 original size:211 final size:211
Alignment explanation
Indices: 458594--459198 Score: 1014
Period size: 211 Copynumber: 2.9 Consensus size: 211
458584 CCCCTTCGCT
* *** *
458594 GTGAAGTTGAGCTTGTGCTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
**
458659 AATTGGGATTTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
458724 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-ATTGTTGACAAC
131 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGATTATTGACAAC
458788 CAGCGGTCCCTTCATC
196 CAGCGGTCCCTTCATC
*
458804 GTGAAGTTGAACTTGCATTGTCTTAGAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTG
1 GTGAAGTTGAACTTGCATTGTC-TAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
* *
458869 AAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATG
65 AAATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
458934 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGGAGTTGTTTATTGACAA
130 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGATTATTGACAA
*
458999 CCAGCGGTCCCTTCGTC
195 CCAGCGGTCCCTTCATC
* * *
459016 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GTGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
*
459081 AATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 AATTGGGAAATTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
459146 GAGTCCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
130 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
459199 TGAAGATTTC
Statistics
Matches: 370, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
210 18 0.05
211 206 0.56
212 146 0.39
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (211 bp):
GTGAAGTTGAACTTGCATTGTCTAGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA
AATTGGGAAATTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGATTATTGACAAC
CAGCGGTCCCTTCATC
Found at i:459865 original size:47 final size:46
Alignment explanation
Indices: 459800--459889 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
459790 AACCCACTTT
* * *
459800 TTTTTTTTTTTTTCTAGGGCGCCCTTTCAGGTTTTCACCCTAAACG
1 TTTTTTTTTTCTACTAGGGCACCCTTTCAGGTTTTCACCCTAAACG
** * *
459846 TTTTTTTTTTCTACTTAGGGCACGTTTTCGGGTTTTCATCCTAA
1 TTTTTTTTTTCTAC-TAGGGCACCCTTTCAGGTTTTCACCCTAA
459890 GCGTAATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 12 0.33
47 24 0.67
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (46 bp):
TTTTTTTTTTCTACTAGGGCACCCTTTCAGGTTTTCACCCTAAACG
Found at i:470163 original size:23 final size:23
Alignment explanation
Indices: 470137--470187 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
470127 AACAAATGAT
470137 ATAAAGAAAATAAAAT-AAAGGGG
1 ATAAA-AAAATAAAATAAAAGGGG
* *
470160 ATAAATAAATAAAATAAAATGGG
1 ATAAAAAAATAAAATAAAAGGGG
470183 ATAAA
1 ATAAA
470188 TGAAGAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.18
Consensus pattern (23 bp):
ATAAAAAAATAAAATAAAAGGGG
Found at i:470172 original size:22 final size:23
Alignment explanation
Indices: 470144--470188 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
470134 GATATAAAGA
470144 AAATAAAAT-AAAGGGGATAAAT
1 AAATAAAATAAAAGGGGATAAAT
*
470166 AAATAAAATAAAATGGGATAAAT
1 AAATAAAATAAAAGGGGATAAAT
470189 GAAGAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (23 bp):
AAATAAAATAAAAGGGGATAAAT
Found at i:470622 original size:13 final size:13
Alignment explanation
Indices: 470592--470629 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
470582 ATAACCGTAT
*
470592 ATATATATATATA
1 ATATATATATAAA
*
470605 TTATATATATAAA
1 ATATATATATAAA
470618 ATATA-ATATAAA
1 ATATATATATAAA
470630 TACTAGTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATATATAAA
Found at i:475735 original size:6 final size:6
Alignment explanation
Indices: 475724--475751 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
475714 GTCGAGTGAC
475724 TCTGTT TCTGTT TCTGTT TCTGTT TCTG
1 TCTGTT TCTGTT TCTGTT TCTGTT TCTG
475752 CCTCGACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.64
Consensus pattern (6 bp):
TCTGTT
Found at i:482174 original size:25 final size:25
Alignment explanation
Indices: 482146--482193 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
482136 TTTATTGAGT
*
482146 ATCCGACTATTAAAGTTATAAAATA
1 ATCCAACTATTAAAGTTATAAAATA
*
482171 ATCCAATTATTAAAGTTATAAAA
1 ATCCAACTATTAAAGTTATAAAA
482194 AAAATCGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (25 bp):
ATCCAACTATTAAAGTTATAAAATA
Found at i:482966 original size:15 final size:15
Alignment explanation
Indices: 482946--482975 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
482936 AGAAAGTTCA
482946 AATTATTAAAATAAT
1 AATTATTAAAATAAT
482961 AATTATTAAAATAAT
1 AATTATTAAAATAAT
482976 TTTAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTATTAAAATAAT
Found at i:483212 original size:4 final size:4
Alignment explanation
Indices: 483205--485188 Score: 3735
Period size: 4 Copynumber: 499.5 Consensus size: 4
483195 TTTAAAGTCC
483205 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483253 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483301 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483349 ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483396 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483444 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483492 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483540 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483588 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483636 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483684 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
483732 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT GTGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * * * * * * * *
483778 ATGT GTGT GTGT GTGT GTGT GTGT GTGT GTGT ATGT ATGT GTGT GTAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * * *
483826 GTGT GTGT GTGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483874 ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483920 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
483968 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG- -TGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484014 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484062 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484110 ATGT ATGT ATGT A-GT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484157 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484205 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484253 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484301 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484349 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484397 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484445 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484491 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484539 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484587 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484635 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484683 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484731 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484779 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484827 A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484873 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484921 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
484969 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
485017 ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
485063 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
485111 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
485159 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
485189 TCATTGCTTT
Statistics
Matches: 1959, Mismatches: 7, Indels: 28
0.98 0.00 0.01
Matches are distributed among these distances:
2 12 0.01
3 6 0.00
4 1941 0.99
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:483776 original size:2 final size:2
Alignment explanation
Indices: 483769--483841 Score: 110
Period size: 2 Copynumber: 36.5 Consensus size: 2
483759 TATGTATGTA
* *
483769 TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
* *
483811 TG TA TG TG TG TG TA TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
483842 ATGTATGTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.05, C:0.00, G:0.44, T:0.51
Consensus pattern (2 bp):
TG
Found at i:485340 original size:31 final size:31
Alignment explanation
Indices: 485305--485390 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 31
485295 AGTTTCAAAA
* *
485305 GTAACAAATTAATCATTAATGTTATTGTTTT
1 GTAACAAATTGATCATTAATGTTATTGATTT
* * **
485336 GTAACATATTGGTCATTAACATTATTGATTT
1 GTAACAAATTGATCATTAATGTTATTGATTT
* *
485367 G-AAAAAATTGATCACTCAATGTTA
1 GTAACAAATTGATCA-TTAATGTTA
485391 ACAATTGTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
30 10 0.24
31 32 0.76
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (31 bp):
GTAACAAATTGATCATTAATGTTATTGATTT
Found at i:496247 original size:20 final size:21
Alignment explanation
Indices: 496209--496248 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
496199 ACAAAATAAT
*
496209 AATAATATTTTTAAATATTAA
1 AATAATATATTTAAATATTAA
496230 AATAATATATTT-AATATTA
1 AATAATATATTTAAATATTA
496249 TTTATGTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATATATTTAAATATTAA
Found at i:496418 original size:31 final size:31
Alignment explanation
Indices: 496383--496476 Score: 145
Period size: 31 Copynumber: 3.1 Consensus size: 31
496373 TGCAATACAA
*
496383 TCCCCCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCTGTTTGCAATATGG
*
496414 TCCCCCAACATTTAGTCTGTTTGTAATATGG
1 TCCCCCAACATTTAGTCTGTTTGCAATATGG
* *
496445 T-CCCCAATATTTAGTCTGTTTGCAATAAGG
1 TCCCCCAACATTTAGTCTGTTTGCAATATGG
496475 TC
1 TC
496477 TCCGACCGTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 27 0.47
31 30 0.53
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCTGTTTGCAATATGG
Found at i:496457 original size:30 final size:30
Alignment explanation
Indices: 496385--496476 Score: 139
Period size: 30 Copynumber: 3.0 Consensus size: 30
496375 CAATACAATC
*
496385 CCCCAACATTTAGTCCGTTTGCAATATGGT
1 CCCCAACATTTAGTCTGTTTGCAATATGGT
*
496415 CCCCCAACATTTAGTCTGTTTGTAATATGGT
1 -CCCCAACATTTAGTCTGTTTGCAATATGGT
* *
496446 CCCCAATATTTAGTCTGTTTGCAATAAGGT
1 CCCCAACATTTAGTCTGTTTGCAATATGGT
496476 C
1 C
496477 TCCGACCGTA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 28 0.50
31 28 0.50
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (30 bp):
CCCCAACATTTAGTCTGTTTGCAATATGGT
Found at i:499099 original size:25 final size:22
Alignment explanation
Indices: 499039--499104 Score: 53
Period size: 25 Copynumber: 2.8 Consensus size: 22
499029 TAAGATAATT
*
499039 ACTAAA-TAAAAATAAACAAGG
1 ACTAAATTAAAAATTAACAAGG
499060 ATCTAAATTCAAAAAATTAACAACAGTG
1 A-CTAAATT--AAAAATTAAC-A-AG-G
*
499088 ACTAAATTAAAAGTTAA
1 ACTAAATTAAAAATTAA
499105 TAGTGACTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 1 0.03
22 5 0.14
23 1 0.03
25 17 0.47
26 1 0.03
27 9 0.25
28 2 0.06
ACGTcount: A:0.59, C:0.11, G:0.08, T:0.23
Consensus pattern (22 bp):
ACTAAATTAAAAATTAACAAGG
Found at i:500883 original size:84 final size:84
Alignment explanation
Indices: 500616--501277 Score: 819
Period size: 84 Copynumber: 7.9 Consensus size: 84
500606 TTTGATATGC
*
500616 CTGAGTGTAATCGAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* *
500680 TAAATTTGATATG-CTTCTGAG
66 CAAA--TGATGTGCCTT-TGAG
* * * * * * * * * *
500701 TTGAATGTAATCGAACTCAAATGT-ATTTGTTGACAGGTAACCTTTCTCGCCTTGAGTTACGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* * * *
500765 TAACTTTAATATGCCTTTGAG
66 CAA--ATGATGTGCCTTTGAG
*
500786 ATGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
500851 CAAATGATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* * ** * * *
500870 CTGAGTGTAATCGAGCTCGAAGGTCTTTGGTTGGCAGATAGTCCTTCTCGACTTAAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
500935 CAAATGATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
*
500954 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTTTAGCCTTGAGTTATGCTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
*
501019 CAAATAATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* * * ** * * * * *
501038 CTGAGTGTAATCGAACTCGAAGGTCTTTGGTTGGAAGATAGCATTTCTCGACTTAAGCTATACTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
501103 CAAATGATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* * *
501122 CTGAGTATAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTG
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
* *
501186 TAAATTATGTGCCTTTGAG
66 CAAATGATGTGCCTTTGAG
* * * *
501205 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTAGCAGATAACCCATTCTTGCCTTGAGCTAAGCT
1 CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCC-TTCTAGCCTTGAGTTATGCT
*
501270 GTAAATGA
65 GCAAATGA
501278 GCACAATATC
Statistics
Matches: 494, Mismatches: 77, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
83 68 0.14
84 276 0.56
85 111 0.22
86 39 0.08
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (84 bp):
CTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTG
CAAATGATGTGCCTTTGAG
Found at i:501713 original size:43 final size:43
Alignment explanation
Indices: 501665--501774 Score: 150
Period size: 43 Copynumber: 2.6 Consensus size: 43
501655 TGATTACCTT
* * **
501665 CGTCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTC
1 CGTCGTGGAGTTGAAATCGTGGATGCATGGGCACGATATCCTC
* * *
501708 CGTCGTGGAGTTGAAATCGTGGATCCATTGGTACGATATCCTC
1 CGTCGTGGAGTTGAAATCGTGGATGCATGGGCACGATATCCTC
501751 CGTCGTGGAGTTG-AATCGTGGATG
1 CGTCGTGGAGTTGAAATCGTGGATG
501775 GCCCCTTCAT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 10 0.17
43 49 0.83
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
CGTCGTGGAGTTGAAATCGTGGATGCATGGGCACGATATCCTC
Found at i:502042 original size:43 final size:43
Alignment explanation
Indices: 501995--502083 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
501985 TATACGATTC
*
501995 CCTTCGTTGTGAAGTTGAAACCGTGGATGTATGGGCACGATAT
1 CCTTCGTTGTGAAGTTGAAACCGTGGATCTATGGGCACGATAT
* * * * *
502038 CCTTCGTTGTGGAGTTGAAATCGTGGATCTGTTGGTACGATAT
1 CCTTCGTTGTGAAGTTGAAACCGTGGATCTATGGGCACGATAT
502081 CCT
1 CCT
502084 CCATCATGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (43 bp):
CCTTCGTTGTGAAGTTGAAACCGTGGATCTATGGGCACGATAT
Found at i:502245 original size:335 final size:336
Alignment explanation
Indices: 501401--502295 Score: 1307
Period size: 334 Copynumber: 2.7 Consensus size: 336
501391 GCTGGTGGAC
* * *
501401 ACGATATCCTTCGTCGTGAAGTTAAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGAA
1 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGAC
* * * * *
501466 TTGGATATCCTTCGTCGTGAAGTTAAAATCC-AAGTTAAGTTGCATTGTTTCGAGGCCAATATCC
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAACTT-A--TG--TTGTTTTGAGTCCAATATCC
* * *
501530 TTCGCT-GTGAAGTTGAAATTGACTCTGAAACTGGAAAGTTTATTGACAAACACTCCTTCTTTGA
126 TTCGCTCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGA
* * * * * *
501594 GTTGGATATCCTTCGTTGTGAAATTGAAATCTAATATAGAGATAGATGCTGCTTGTGTGTATGAT
191 GTTGGATATCCTTCGTCGTGAAGTTGAAATCCAATATAGAGATAGATGCTGCTCGTGTATACGAT
*
501659 TACCTTCGTCGTGAAGTTGAAACCGTGGATGTGTGGGCACGATATCCTCCGTCGTGGAGTTGAAA
256 TACCTTCGTCGTGAAGTTGAAACCGTGGATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAA
501724 TCGTGGATCCATTGGT
321 TCGTGGATCCATTGGT
* * * *
501740 ACGATATCCTCCGTCGTGGAGTT-GAATCGTGGATGGCCCCTTCATCGTAAAGTTGATCCTTTAC
1 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGAC
*
501804 TTGAATATCCTTCGTCGTGAAGTTGAAAT-CAAAGCTTGTGTTGTTTTGAGTCCAATATCCTTCG
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAA-CTTATGTTGTTTTGAGTCCAATATCCTTCG
*
501868 C-CGTGAAGTTGAAATTGGTTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTTG
130 CTCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTTG
* * * * * *
501932 GATATCCTTCATCGTGAAGTTGAAATCCAATCTTGAGATGGATGTTGCTCGTGTATACGATTCCC
195 GATATCCTTCGTCGTGAAGTTGAAATCCAATATAGAGATAGATGCTGCTCGTGTATACGATTACC
* * *
501997 TTCGTTGTGAAGTTGAAACCGTGGATGTATGGGCACGATATCCTTCGTTGTGGAGTTGAAATCGT
260 TTCGTCGTGAAGTTGAAACCGTGGATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGT
**
502062 GGATCTGTTGGT
325 GGATCCATTGGT
* * * *
502074 ACGATATCCTCCATCATGGAGTTAAAATCGTGGATGACCCCTTCATCGTGAAGTTGAGCCTTGAC
1 ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGAC
*
502139 TTGAATATCATTCGTCGTGAAGTTGAAATCCAAACTTATGTTGTTTTGAGTCCAATATCCTTC-C
66 TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAACTTATGTTGTTTTGAGTCCAATATCCTTCGC
*
502203 TCGTGAAGTTAAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTTGG
131 TCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTTGG
* *
502268 ATATTCTTTGTCGTGAAGTTGAAATCCA
196 ATATCCTTCGTCGTGAAGTTGAAATCCA
502296 CTCTCGAGCA
Statistics
Matches: 501, Mismatches: 49, Indels: 16
0.89 0.09 0.03
Matches are distributed among these distances:
334 227 0.45
335 179 0.36
336 6 0.01
337 1 0.00
338 65 0.13
339 23 0.05
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (336 bp):
ACGATATCCTCCGTCGTGGAGTTAAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAACCTTGAC
TTGAATATCCTTCGTCGTGAAGTTGAAATCCAAACTTATGTTGTTTTGAGTCCAATATCCTTCGC
TCGTGAAGTTGAAATTGGCTCTGAAACTGGAAAGTTTATTGACAGACACTCATTCTTTGAGTTGG
ATATCCTTCGTCGTGAAGTTGAAATCCAATATAGAGATAGATGCTGCTCGTGTATACGATTACCT
TCGTCGTGAAGTTGAAACCGTGGATGTATGGGCACGATATCCTCCGTCGTGGAGTTGAAATCGTG
GATCCATTGGT
Found at i:502391 original size:64 final size:64
Alignment explanation
Indices: 502311--502439 Score: 213
Period size: 64 Copynumber: 2.0 Consensus size: 64
502301 GAGCAAATTG
* *
502311 TGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAATTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAATTGTTTGT
* * *
502375 TGAGTACAATATCCTTCGTTGTGAAGTTAAAATTGACTCTGAATGAAATTGAAAAGTTGTTTGT
1 TGAGTACAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAATTGTTTGT
502439 T
1 T
502440 AACAGACGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (64 bp):
TGAGTACAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAATGAAACTGAAAAATTGTTTGT
Found at i:502772 original size:32 final size:32
Alignment explanation
Indices: 502698--502791 Score: 98
Period size: 32 Copynumber: 2.9 Consensus size: 32
502688 TTGCATCAGG
* * *
502698 ATGTTAAATCCCCAAATATGTCCCAATATTCA
1 ATGTTAAATCTCCAAATATGCCCCAACATTCA
**
502730 ATGTTAAATCTCCAAATATGCCCCAACATTTG
1 ATGTTAAATCTCCAAATATGCCCCAACATTCA
* * ** *
502762 CTGTTGAATCTTTAAAGATGCCCCAACATT
1 ATGTTAAATCTCCAAATATGCCCCAACATT
502792 GCTTGCTTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (32 bp):
ATGTTAAATCTCCAAATATGCCCCAACATTCA
Found at i:503796 original size:21 final size:21
Alignment explanation
Indices: 503770--503833 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
503760 CTCGTCCCTT
503770 TTCTTTGCTTTTTCTTTTTGC
1 TTCTTTGCTTTTTCTTTTTGC
*
503791 TTCTTTTCTTTTT-TATTCTTG-
1 TTCTTTGCTTTTTCT-TT-TTGC
*
503812 TTCTTTGC-TTTTCTTTCTGC
1 TTCTTTGCTTTTTCTTTTTGC
503832 TT
1 TT
503834 TGATTTGATC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.06
20 9 0.25
21 22 0.61
22 3 0.08
ACGTcount: A:0.02, C:0.19, G:0.08, T:0.72
Consensus pattern (21 bp):
TTCTTTGCTTTTTCTTTTTGC
Found at i:503799 original size:15 final size:15
Alignment explanation
Indices: 503779--503817 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
503769 TTTCTTTGCT
*
503779 TTTTCTTTTTGCTTC
1 TTTTCTTTTTGATTC
*
503794 TTTTCTTTTTTATTC
1 TTTTCTTTTTGATTC
503809 TTGTTCTTT
1 TT-TTCTTT
503818 GCTTTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTTCTTTTTGATTC
Found at i:504012 original size:2 final size:2
Alignment explanation
Indices: 504005--504046 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
503995 ACAACAAGGG
*
504005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
504047 GGGTAAATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:506765 original size:6 final size:6
Alignment explanation
Indices: 506724--506748 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
506714 TTAATTGCGA
506724 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
506749 GAGATTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:506899 original size:13 final size:12
Alignment explanation
Indices: 506884--506921 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
506874 AGGAATGAAA
506884 AAAAATCAAATT
1 AAAAATCAAATT
506896 AAAAATCAAATT
1 AAAAATCAAATT
*
506908 GAAAAT--AATT
1 AAAAATCAAATT
506918 AAAA
1 AAAA
506922 TTTATGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 7 0.29
12 17 0.71
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAAATCAAATT
Found at i:508499 original size:31 final size:31
Alignment explanation
Indices: 508441--508504 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
508431 CAAACAGTTA
* *
508441 GGGATCATATTGCAAACAGACTAAATGTTGG
1 GGGATCATATTACAAACAGACTAAATGTCGG
** *
508472 GGGATCATATTACAAATGGACTTAATGTCGG
1 GGGATCATATTACAAACAGACTAAATGTCGG
508503 GG
1 GG
508505 ACTGTATTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (31 bp):
GGGATCATATTACAAACAGACTAAATGTCGG
Found at i:509605 original size:29 final size:30
Alignment explanation
Indices: 509580--509640 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
509570 ATTAATAATT
*
509580 TATTATATATTATTAA-AATAAAAATATAA
1 TATTATATATTAATAATAATAAAAATATAA
*
509609 TATTATATATTAATAATAATAAAATTATAA
1 TATTATATATTAATAATAATAAAAATATAA
509639 TA
1 TA
509641 ATAAAATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TATTATATATTAATAATAATAAAAATATAA
Found at i:509607 original size:21 final size:21
Alignment explanation
Indices: 509583--509668 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 21
509573 AATAATTTAT
509583 TATATATTATTAAAATAAAAATA
1 TATATATTATTAAAAT-AAAA-A
509606 TAATATTATATATTAATAATAATAAA
1 T-ATA-TAT-TATTAA-AATAA-AAA
* *
509632 -ATTATAATAATAAAATATAAAA
1 TA-TATATTATTAAAATA-AAAA
509654 T-TATATTATTAAAAT
1 TATATATTATTAAAAT
509669 TATCAATAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
21 12 0.24
22 7 0.14
23 7 0.14
24 6 0.12
25 5 0.10
26 9 0.18
27 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATATTATTAAAATAAAAA
Found at i:509667 original size:35 final size:37
Alignment explanation
Indices: 509585--509677 Score: 97
Period size: 35 Copynumber: 2.6 Consensus size: 37
509575 TAATTTATTA
* *
509585 TATATTATTAAAA-TA-AA-AATATAATATTATATAT
1 TATATTATTAAAATTATAATAATAAAATATTATAAAT
* *
509619 TAATAATAATAAAATTATAATAATAAAATA-TA-AAAT
1 T-ATATTATTAAAATTATAATAATAAAATATTATAAAT
509655 TATATTATTAAAATTATCAATAA
1 TATATTATTAAAATTAT-AATAA
509678 ATATAATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
34 1 0.02
35 24 0.50
36 11 0.23
37 4 0.08
38 8 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (37 bp):
TATATTATTAAAATTATAATAATAAAATATTATAAAT
Found at i:509752 original size:30 final size:30
Alignment explanation
Indices: 509593--509753 Score: 72
Period size: 30 Copynumber: 5.4 Consensus size: 30
509583 TATATATTAT
*
509593 TAAAATAA-AA-ATA-TAATATTATATAT-
1 TAAAATAATAATATATTAATATTAAATATA
* *
509619 TAATAATAATAAAAT-TATAATAATAAA-ATA
1 TAA-AATAATAATATAT-TAATATTAAATATA
* * *
509649 TAAAATTAT-AT-TATTAAAATTATCAATAAA
1 TAAAATAATAATATATTAATATTA--AATATA
* ** *
509679 TATAATTAATAATTAATATTTTTATTAAA-ATGT
1 TA-AAATAATAA-T-ATATTAATATTAAATAT-A
*
509712 TACTAA-AATAATATATTAATATTAAATATA
1 TA-AAATAATAATATATTAATATTAAATATA
509742 TAAAATAATAAT
1 TAAAATAATAAT
509754 TTTTGAGTGT
Statistics
Matches: 96, Mismatches: 21, Indels: 32
0.64 0.14 0.21
Matches are distributed among these distances:
26 3 0.03
27 12 0.12
28 4 0.04
29 13 0.14
30 35 0.36
31 8 0.08
32 7 0.07
33 6 0.06
35 8 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
TAAAATAATAATATATTAATATTAAATATA
Found at i:511063 original size:15 final size:15
Alignment explanation
Indices: 511045--511077 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
511035 GATATTTGAG
511045 TATGTGTTATTCGGA
1 TATGTGTTATTCGGA
*
511060 TATGTGTTATTTGGA
1 TATGTGTTATTCGGA
511075 TAT
1 TAT
511078 CGGATATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.52
Consensus pattern (15 bp):
TATGTGTTATTCGGA
Found at i:516686 original size:21 final size:22
Alignment explanation
Indices: 516657--516705 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
516647 TCATCCCCAA
*
516657 TACT-CATGCCTTAGAAGAA-T
1 TACTCCATGCCTCAGAAGAAGT
*
516677 TACTCCATGCCTCAGATGAAGT
1 TACTCCATGCCTCAGAAGAAGT
516699 T-CTCCAT
1 TACTCCAT
516706 ATCTTGGCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.16
21 19 0.76
22 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (22 bp):
TACTCCATGCCTCAGAAGAAGT
Found at i:518832 original size:26 final size:26
Alignment explanation
Indices: 518802--518875 Score: 139
Period size: 26 Copynumber: 2.8 Consensus size: 26
518792 ATAGTAGGCT
*
518802 AATCCGTAGAACCCAAAACAAGTACA
1 AATCCTTAGAACCCAAAACAAGTACA
518828 AATCCTTAGAACCCAAAACAAGTACA
1 AATCCTTAGAACCCAAAACAAGTACA
518854 AATCCTTAGAACCCAAAACAAG
1 AATCCTTAGAACCCAAAACAAG
518876 ATTCAAGAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.50, C:0.27, G:0.09, T:0.14
Consensus pattern (26 bp):
AATCCTTAGAACCCAAAACAAGTACA
Found at i:523101 original size:26 final size:25
Alignment explanation
Indices: 523051--523103 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
523041 TTTTTGGTTC
* *
523051 TTTTAAATTATAATATTTAATATTT
1 TTTTAAAATATAAGATTTAATATTT
523076 TTTTAAAATATATAGATTATAA-ATTT
1 TTTTAAAATATA-AGATT-TAATATTT
523102 TT
1 TT
523104 ATATGCATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 10 0.42
27 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTAAAATATAAGATTTAATATTT
Found at i:523298 original size:58 final size:58
Alignment explanation
Indices: 523232--523348 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
523222 TCAATTTAAC
523232 GTATAGTTTAGGCGCCTAAAAAATGTATCAAGCCATTAAGAAAATAAGAGAACAAAAA
1 GTATAGTTTAGGCGCCTAAAAAATGTATCAAGCCATTAAGAAAATAAGAGAACAAAAA
523290 GTATAGTTTAGGCGCCTAAAAAATGTATCAAGCCATTAAGAAAATAAGAGAACAAAAA
1 GTATAGTTTAGGCGCCTAAAAAATGTATCAAGCCATTAAGAAAATAAGAGAACAAAAA
523348 G
1 G
523349 GGAAAAAGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.21
Consensus pattern (58 bp):
GTATAGTTTAGGCGCCTAAAAAATGTATCAAGCCATTAAGAAAATAAGAGAACAAAAA
Found at i:528168 original size:23 final size:23
Alignment explanation
Indices: 528142--528211 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
528132 GCATCACTGA
528142 ATCAATTCAGTAAGTATCATTGC
1 ATCAATTCAGTAAGTATCATTGC
528165 ATCAATTCAGTAAGTATCATTGC
1 ATCAATTCAGTAAGTATCATTGC
* *
528188 ATCAATTCAGCAAGCATC-TTGC
1 ATCAATTCAGTAAGTATCATTGC
528210 AT
1 AT
528212 TTAGAAAGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
22 6 0.13
23 39 0.87
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (23 bp):
ATCAATTCAGTAAGTATCATTGC
Found at i:528330 original size:20 final size:20
Alignment explanation
Indices: 528307--528378 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
528297 AAATATCAAG
* *
528307 CATAATCGAGCAATATTAAA
1 CATAATCAAGCAATATAAAA
*
528327 CATAAGT-AAACAATATAAAA
1 CATAA-TCAAGCAATATAAAA
* *
528347 CATAATCAAGCAATATCAAG
1 CATAATCAAGCAATATAAAA
*
528367 CAGAATCAAGCA
1 CATAATCAAGCA
528379 CCAACTATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.19
Consensus pattern (20 bp):
CATAATCAAGCAATATAAAA
Found at i:530983 original size:31 final size:32
Alignment explanation
Indices: 530948--531027 Score: 117
Period size: 31 Copynumber: 2.5 Consensus size: 32
530938 TTTAATGTTT
530948 TATTTAATACTTTATACACATTTATATAT-TA
1 TATTTAATACTTTATACACATTTATATATATA
* * *
530979 TATTTAATACTCTATACATATTTATTTATATA
1 TATTTAATACTTTATACACATTTATATATATA
531011 TATTTATATACTTTATA
1 TATTTA-ATACTTTATA
531028 TTTAATAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 26 0.60
32 8 0.19
33 9 0.21
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.54
Consensus pattern (32 bp):
TATTTAATACTTTATACACATTTATATATATA
Found at i:531027 original size:9 final size:8
Alignment explanation
Indices: 531007--531278 Score: 76
Period size: 7 Copynumber: 34.9 Consensus size: 8
530997 TATTTATTTA
531007 TATATATT
1 TATATATT
*
531015 TATATACT
1 TATATATT
531023 T-TATATT
1 TATATATT
*
531030 TA-ATAAT
1 TATATATT
531037 TA-ATA-T
1 TATATATT
*
531043 TGTATATT
1 TATATATT
* *
531051 AATATA-C
1 TATATATT
*
531058 T-TATACT
1 TATATATT
531065 TATATAGTT
1 TATATA-TT
*
531074 ATATATACT
1 -TATATATT
*
531083 T-TATACT
1 TATATATT
531090 T-TATATT
1 TATATATT
*
531097 TA-ATACT
1 TATATATT
* *
531104 TCTATACT
1 TATATATT
531112 T-TATA-T
1 TATATATT
* *
531118 TACATACT
1 TATATATT
*
531126 TGTATATT
1 TATATATT
531134 T-TATATT
1 TATATATT
*
531141 TA-ATACT
1 TATATATT
531148 TATATACTTT
1 TATATA--TT
*
531158 TATATATA
1 TATATATT
*
531166 TATATATA
1 TATATATT
*
531174 TATAAACTTT
1 TATATA--TT
*
531184 TATTATACT
1 TA-TATATT
531193 T-TATA-T
1 TATATATT
*
531199 TATATACT
1 TATATATT
*
531207 TATACA-T
1 TATATATT
*
531214 TATAGTTTT
1 TATA-TATT
*
531223 TATATATA
1 TATATATT
* *
531231 AACTTATACT
1 TA--TATATT
531241 TATATAGTT
1 TATATA-TT
531250 TATATATT
1 TATATATT
*
531258 TATACA-T
1 TATATATT
*
531265 TATA-GTT
1 TATATATT
531272 TATATAT
1 TATATAT
531279 ATGTATACTT
Statistics
Matches: 199, Mismatches: 38, Indels: 54
0.68 0.13 0.19
Matches are distributed among these distances:
6 10 0.05
7 80 0.40
8 69 0.35
9 16 0.08
10 21 0.11
11 3 0.02
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATATT
Found at i:531068 original size:60 final size:60
Alignment explanation
Indices: 531004--531139 Score: 154
Period size: 60 Copynumber: 2.2 Consensus size: 60
530994 ACATATTTAT
*
531004 TTATATATATTTATATACTTTATA-TTTAATAATTAATA-TTGTATA-TTAATA-TACTTATAC
1 TTATATAT-TTTATATACTTTATACTTT-ATAATTAATACTTCTATACTTAATATTAC--ATAC
* * *
531064 TTATATAGTTATATATACTTTATACTTTATATTTAATACTTCTATACTTTATATTACATAC
1 TTATATA-TTTTATATACTTTATACTTTATAATTAATACTTCTATACTTAATATTACATAC
*
531125 TTGTATATTTTATAT
1 TTATATATTTTATAT
531140 TTAATACTTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
60 37 0.57
61 20 0.31
62 5 0.08
63 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (60 bp):
TTATATATTTTATATACTTTATACTTTATAATTAATACTTCTATACTTAATATTACATAC
Found at i:531077 original size:22 final size:22
Alignment explanation
Indices: 531052--531621 Score: 140
Period size: 22 Copynumber: 25.9 Consensus size: 22
531042 TTGTATATTA
*
531052 ATATACTTATACTTATATAGTTAT
1 ATATACTTATACTTATATA-CT-T
*
531076 ATATACTTTATACTT-TATATTT
1 ATATAC-TTATACTTATATACTT
531098 A-ATACTTCTATACTT-TATA-TT
1 ATATAC-T-TATACTTATATACTT
* * *
531119 ACATACTTGTATA-TTTTATATTT
1 ATATAC-T-TATACTTATATACTT
*
531142 A-ATACTTATATACTTTTATA--T
1 ATATAC-T-TATACTTATATACTT
*
531163 ATATA--TATA-TATATAAACTT
1 ATATACTTATACT-TATATACTT
531183 -T-TA-TTATACTT-TATA-TT
1 ATATACTTATACTTATATACTT
**
531200 ATATACTTATACATTATAGTTTTTAT
1 ATATACTTATAC-TTATA--TACT-T
*
531226 ATATAAACTTATACTTATATAGTTT
1 ATAT--ACTTATACTTATATA-CTT
*
531251 ATATATTTATACATTATAGT--TT
1 ATATACTTATAC-TTATA-TACTT
* *
531273 ATATATATGTATACTTCTATACTT
1 ATATA-CT-TATACTTATATACTT
* *
531297 -TCATACTTATA-TTCTATAATT
1 AT-ATACTTATACTTATATACTT
* *
531318 TTATACTTTAATACTTATACACTT
1 ATATAC-TT-ATACTTATATACTT
*
531342 -TAATACTTATA-TTATATAGTT
1 AT-ATACTTATACTTATATACTT
*
531363 TTATACTTTATAC-TATATACTT
1 ATATAC-TTATACTTATATACTT
* **
531385 -TAATACTTATA-TTCTATTGTT
1 AT-ATACTTATACTTATATACTT
* * *
531406 TTATACTTTAATACTTTTACACTT
1 ATATAC-TT-ATACTTATATACTT
*
531430 -TAATACTTATA-TTATATAGTT
1 AT-ATACTTATACTTATATACTT
* *
531451 TTATACTT-TATCGTATATACTT
1 ATATACTTATA-CTTATATACTT
* * *
531473 -TAATACTTGTA-TTCTATAGTT
1 AT-ATACTTATACTTATATACTT
* *
531494 TTATACTTTATA-GTATATACTT
1 ATATAC-TTATACTTATATACTT
*
531516 -TAATACTTTATATTTATATACTT
1 AT-ATAC-TTATACTTATATACTT
*
531539 -TAATACTTTATATTTA-ATACTT
1 AT-ATAC-TTATACTTATATACTT
* *
531561 ATAT--TATATAGTTTTATACTT
1 ATATACT-TATACTTATATACTT
*
531582 -TATAGTATATACTT-TAATACTT
1 ATATACT-TATACTTAT-ATACTT
*
531604 -TATATTATATACTT-TATA
1 ATATACT-TATACTTATATA
531622 AACTATGGTT
Statistics
Matches: 443, Mismatches: 42, Indels: 125
0.73 0.07 0.20
Matches are distributed among these distances:
17 3 0.01
18 14 0.03
19 9 0.02
20 19 0.04
21 92 0.21
22 157 0.35
23 66 0.15
24 47 0.11
25 16 0.04
26 7 0.02
27 5 0.01
28 8 0.02
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (22 bp):
ATATACTTATACTTATATACTT
Found at i:531253 original size:51 final size:48
Alignment explanation
Indices: 531186--531280 Score: 145
Period size: 51 Copynumber: 1.9 Consensus size: 48
531176 TAAACTTTTA
*
531186 TTATACTTTATATTATATACTTATACATTATAGTTTTTATATATAAAC
1 TTATACTTTATATTATATACTTATACATTATAGTTTATATATATAAAC
*
531234 TTATACTTATATAGTTTATATATTTATACATTATAGTTTATATATAT
1 TTATACTT-TATA--TTATATACTTATACATTATAGTTTATATATAT
531281 GTATACTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
48 8 0.19
49 4 0.10
51 30 0.71
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (48 bp):
TTATACTTTATATTATATACTTATACATTATAGTTTATATATATAAAC
Found at i:531275 original size:29 final size:28
Alignment explanation
Indices: 531099--531915 Score: 111
Period size: 29 Copynumber: 29.0 Consensus size: 28
531089 TTTATATTTA
* *
531099 ATACTTCTATACTTTATAT-TACATACTTGT
1 ATACTT-TATAGTTTATATATATATAC-T-T
*
531129 ATATTTTATA-TTTA-ATACTTATATACTT
1 ATACTTTATAGTTTATATA--TATATACTT
* * * *
531157 TTA-TATATA-TATATATATATAAACTT
1 ATACTTTATAGTTTATATATATATACTT
* *
531183 TTA--TTATACTTTATAT-TATATACTT
1 ATACTTTATAGTTTATATATATATACTT
* * *
531208 ATACATTATAGTTTTTATATATAAACTT
1 ATACTTTATAGTTTATATATATATACTT
*
531236 ATACTTATATAGTTTATATATTTATACATT
1 ATACTT-TATAGTTTATATATATATAC-TT
* * *
531266 ATAGTTTATA---TATATGTATACTTC-T
1 ATACTTTATAGTTTATATATATA-TACTT
* * *
531291 ATACTTTCATA-CTTATAT-TCTATAATTTT
1 ATACTTT-ATAGTTTATATATATAT-A-CTT
* * *
531320 ATACTTTAATA-CTTATACACTTTAATACTT
1 ATACTTT-ATAGTTTATATA-TAT-ATACTT
*
531350 ATA-TTATATAGTTT-TATACTTTATACTAT
1 ATACTT-TATAGTTTATATA-TATATACT-T
* * **
531379 ATACTTTAATA-CTTATAT-TCTATTGTTTT
1 ATACTTT-ATAGTTTATATATATA-T-ACTT
* * *
531408 ATACTTTAATACTTT-TACACTTTAATACTT
1 ATACTTT-ATAGTTTATATA-TAT-ATACTT
*
531438 ATA-TTATATAGTTT-TATACTTTAT-CGTAT
1 ATACTT-TATAGTTTATATA-TATATAC-T-T
* * *
531467 ATACTTTAATACTTGTAT-TCTATAGT-TTT
1 ATACTTT-ATAGTT-TATATATATA-TACTT
* *
531496 ATACTTTATAGTATATACTTTA-ATACTTT
1 ATACTTTATAGTTTATA-TATATATAC-TT
* *
531525 ATATTTATATACTTTAATACTTTATATTTAATACTT
1 ATACTT-TATAGTTT-ATA---TATA--T-ATACTT
* *
531561 ATA-TTATATAGTTT-TATACTTTATAGTAT
1 ATACTT-TATAGTTTATATA-TATATACT-T
*
531590 ATACTTTAATACTTTATAT-TATATACTTT
1 ATACTTT-ATAGTTTATATATATATAC-TT
*** * *
531619 ATAAACTAT-GGTT-TATATCTATACTT
1 ATACTTTATAGTTTATATATATATACTT
**
531645 ATGGTTTATAGTTTATATATATATA--T
1 ATACTTTATAGTTTATATATATATACTT
* *
531671 ACACTTTATACTTTATATAATTATATATACTTT
1 ATACTTTATA-GTT-TAT-A-TATATATAC-TT
* * *
531704 ATAC-TAAAACTTTATATATATATA--T
1 ATACTTTATAGTTTATATATATATACTT
* * * *
531729 ATAC-ATATACTTTAATATTTTATATATTT
1 ATACTTTATAGTTT-ATA-TATATATACTT
*
531758 ATACTTTATA---TATATATATACT-TTT
1 ATACTTTATAGTTTATATATATA-TACTT
** *
531783 ATACTAAATAGTTTATATA-CT-TA--T
1 ATACTTTATAGTTTATATATATATACTT
*
531807 ATACTTTATA--TTATATACTTATATCCTT
1 ATACTTTATAGTTTATATA--TATATACTT
* * * *
531835 TTGTCTTTATA--ATATATATATACACATT
1 AT-ACTTTATAGTTTATATATATATAC-TT
* * *
531863 ATAGTTTATAGTTTATACTTTGTATA--T
1 ATACTTTATAGTTTATA-TATATATACTT
*
531890 ATAC-TTATA-TATATATATATATACTT
1 ATACTTTATAGTTTATATATATATACTT
531916 TTATATTAAT
Statistics
Matches: 586, Mismatches: 110, Indels: 186
0.66 0.12 0.21
Matches are distributed among these distances:
22 7 0.01
24 15 0.03
25 55 0.09
26 61 0.10
27 68 0.12
28 81 0.14
29 155 0.26
30 91 0.16
31 18 0.03
32 7 0.01
33 9 0.02
35 10 0.02
36 5 0.01
37 4 0.01
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (28 bp):
ATACTTTATAGTTTATATATATATACTT
Found at i:531293 original size:8 final size:7
Alignment explanation
Indices: 531077--531883 Score: 215
Period size: 7 Copynumber: 113.1 Consensus size: 7
531067 TATAGTTATA
531077 TATACTT
1 TATACTT
531084 TATACTT
1 TATACTT
531091 TATA-TT
1 TATACTT
531097 TAATACTT
1 T-ATACTT
531105 CTATACTT
1 -TATACTT
531113 TATA-TT
1 TATACTT
*
531119 ACATACTT
1 -TATACTT
*
531127 GTATATTT
1 -TATACTT
531135 TATA-TT
1 TATACTT
531141 TAATACTT
1 T-ATACTT
531149 ATATACTTT
1 -TATAC-TT
*
531158 TATA-TA
1 TATACTT
*
531164 TATA-TA
1 TATACTT
*
531170 TATA-TA
1 TATACTT
*
531176 TAAACTT
1 TATACTT
531183 T-TA--T
1 TATACTT
531187 TATACTT
1 TATACTT
531194 TATA-TT
1 TATACTT
531200 ATATAC-T
1 -TATACTT
*
531207 TATACAT
1 TATACTT
*
531214 TATAGTTTT
1 TATA--CTT
*
531223 TATA-TA
1 TATACTT
*
531229 TAAAC-T
1 TATACTT
531235 TATACTT
1 TATACTT
*
531242 ATATAGTT
1 -TATACTT
*
531250 TATATATT
1 TATA-CTT
*
531258 TATACAT
1 TATACTT
*
531265 TATAGTT
1 TATACTT
*
531272 TATATATAT
1 TATA-CT-T
531281 GTATACTT
1 -TATACTT
531289 CTATACTT
1 -TATACTT
531297 TCATAC-T
1 T-ATACTT
531304 TATA-TT
1 TATACTT
*
531310 CTATAATTT
1 -TAT-ACTT
531319 TATACTT
1 TATACTT
531326 TAATACTT
1 T-ATACTT
*
531334 ATACACTT
1 -TATACTT
531342 TAATAC-T
1 T-ATACTT
531349 TATA-TT
1 TATACTT
*
531355 ATATAGTTT
1 -TATA-CTT
531364 TATACTT
1 TATACTT
*
531371 TATACTA
1 TATACTT
531378 TATACTT
1 TATACTT
531385 TAATAC-T
1 T-ATACTT
531392 TATA-TT
1 TATACTT
**
531398 CTATTGTTT
1 -TA-TACTT
531407 TATACTT
1 TATACTT
531414 TAATACTTT
1 T-ATAC-TT
*
531423 TACACTT
1 TATACTT
531430 TAATAC-T
1 T-ATACTT
531437 TATA-TT
1 TATACTT
*
531443 ATATAGTTT
1 -TATA-CTT
531452 TATACTT
1 TATACTT
*
531459 TAT-CGTA
1 TATAC-TT
531466 TATACTT
1 TATACTT
531473 TAATACTT
1 T-ATACTT
*
531481 GTAT--TC
1 -TATACTT
*
531487 TATAGTTT
1 TATA-CTT
531495 TATACTT
1 TATACTT
* *
531502 TATAGTA
1 TATACTT
531509 TATACTT
1 TATACTT
531516 TAATACTT
1 T-ATACTT
*
531524 TATATTT
1 TATACTT
531531 ATATACTT
1 -TATACTT
531539 TAATACTT
1 T-ATACTT
531547 TATA-TT
1 TATACTT
531553 TAATAC-T
1 T-ATACTT
531560 TATA-TT
1 TATACTT
*
531566 ATATAGTTT
1 -TATA-CTT
531575 TATACTT
1 TATACTT
* *
531582 TATAGTA
1 TATACTT
531589 TATACTT
1 TATACTT
531596 TAATACTT
1 T-ATACTT
531604 TATA-TT
1 TATACTT
531610 ATATACTT
1 -TATACTT
***
531618 TATAAAC
1 TATACTT
**
531625 TATGGTT
1 TATACTT
*
531632 TATA-TC
1 TATACTT
531638 TATAC-T
1 TATACTT
**
531644 TATGGTT
1 TATACTT
*
531651 TATAGTT
1 TATACTT
*
531658 TATA-TA
1 TATACTT
*
531664 TATA-TA
1 TATACTT
*
531670 TACACTT
1 TATACTT
531677 TATACTT
1 TATACTT
531684 TATA-TAAT
1 TATACT--T
531692 TATA---
1 TATACTT
531696 TATACTT
1 TATACTT
531703 TATAC-T
1 TATACTT
* *
531709 AAAACTT
1 TATACTT
*
531716 TATA-TA
1 TATACTT
*
531722 TATA-TA
1 TATACTT
*
531728 TATAC-A
1 TATACTT
531734 TATACTT
1 TATACTT
*
531741 TAATATTT
1 T-ATACTT
*
531749 TATATATT
1 TATA-CTT
531757 TATACTT
1 TATACTT
*
531764 TATATATAT
1 TATA-CT-T
531773 ATATACTTT
1 -TATAC-TT
*
531782 TATACTA
1 TATACTT
* *
531789 AATAGTTT
1 TATA-CTT
531797 ATATACTT
1 -TATACTT
531805 ATATACTT
1 -TATACTT
531813 TATA-TT
1 TATACTT
531819 ATATACTT
1 -TATACTT
*
531827 ATATCCTT
1 -TATACTT
*
531835 T-TGTCTT
1 TAT-ACTT
* *
531842 TATAATA
1 TATACTT
*
531849 TATA-TA
1 TATACTT
* *
531855 TACACAT
1 TATACTT
*
531862 TATAGTT
1 TATACTT
*
531869 TATAGTT
1 TATACTT
531876 TATACTT
1 TATACTT
531883 T
1 T
531884 GTATATATAC
Statistics
Matches: 611, Mismatches: 97, Indels: 184
0.68 0.11 0.21
Matches are distributed among these distances:
4 6 0.01
5 5 0.01
6 115 0.19
7 261 0.43
8 184 0.30
9 31 0.05
10 9 0.01
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (7 bp):
TATACTT
Found at i:531396 original size:88 final size:86
Alignment explanation
Indices: 531290--531614 Score: 423
Period size: 88 Copynumber: 3.8 Consensus size: 86
531280 TGTATACTTC
* * *
531290 TATACTTTCATACTTATATTCTATAATTTTATACTTTAATACTTATACACTTTAATACTTATATT
1 TATACTTTAATACTTATATTCTATAGTTTTATACTTT-ATA-GTATACACTTTAATACTTATATT
531355 ATATAGTTTTATACTTTATACTA
64 ATATAGTTTTATACTTTATACTA
* * *
531378 TATACTTTAATACTTATATTCTATTGTTTTATACTTTAATACTTTTACACTTTAATACTTATATT
1 TATACTTTAATACTTATATTCTATAGTTTTATACTTT-ATA-GTATACACTTTAATACTTATATT
531443 ATATAGTTTTATACTTTAT-CGTA
64 ATATAGTTTTATACTTTATAC-TA
* *
531466 TATACTTTAATACTTGTATTCTATAGTTTTATACTTTATAGTATATACTTTAATAC---T-TTAT
1 TATACTTTAATACTTATATTCTATAGTTTTATACTTTATAGTATACACTTTAATACTTATATTAT
* *
531527 AT--TTATATACTTTAATACTT
66 ATAGTTTTATACTTT-ATACTA
* *
531547 TATA-TTTAATACTTATATTATATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTA
1 TATACTTTAATACTTATATTCTATAGTTTTATACTTTATAGTATACACTTTAATAC-TTATATTA
531611 TATA
65 TATA
531615 CTTTATAAAC
Statistics
Matches: 215, Mismatches: 13, Indels: 20
0.87 0.05 0.08
Matches are distributed among these distances:
80 59 0.27
81 7 0.03
82 7 0.03
83 1 0.00
84 1 0.00
85 6 0.03
86 13 0.06
87 4 0.02
88 117 0.54
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (86 bp):
TATACTTTAATACTTATATTCTATAGTTTTATACTTTATAGTATACACTTTAATACTTATATTAT
ATAGTTTTATACTTTATACTA
Found at i:531407 original size:43 final size:43
Alignment explanation
Indices: 531290--531614 Score: 405
Period size: 43 Copynumber: 7.6 Consensus size: 43
531280 TGTATACTTC
* * *
531290 TATACTTTCATACTTATATTCTATAATTTTATACTTTAATACTTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTT-ATAC-TA
*
531335 TACACTTTAATACTTATATTATATAGTTTTATACTTTATACTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATACTA
* * *
531378 TATACTTTAATACTTATATTCTATTGTTTTATACTTTAATACTTT
1 TATACTTTAATACTTATATTATATAGTTTTATACTTT-ATAC-TA
*
531423 TACACTTTAATACTTATATTATATAGTTTTATACTTTAT-CGTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATAC-TA
* * *
531466 TATACTTTAATACTTGTATTCTATAGTTTTATACTTTATAGTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATACTA
* *
531509 TATACTTTAATAC---T-TTATAT--TTATATACTTTAATACTT
1 TATACTTTAATACTTATATTATATAGTTTTATACTTT-ATACTA
*
531547 TATA-TTTAATACTTATATTATATAGTTTTATACTTTATAGTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATACTA
531589 TATACTTTAATACTTTATATTATATA
1 TATACTTTAATAC-TTATATTATATA
531615 CTTTATAAAC
Statistics
Matches: 244, Mismatches: 24, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
37 18 0.07
38 8 0.03
39 5 0.02
40 2 0.01
41 6 0.02
42 8 0.03
43 107 0.44
44 22 0.09
45 68 0.28
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (43 bp):
TATACTTTAATACTTATATTATATAGTTTTATACTTTATACTA
Found at i:531537 original size:58 final size:57
Alignment explanation
Indices: 531485--531617 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 57
531475 ATACTTGTAT
*
531485 TCTATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTTATATACTTTAATA
1 TCTATA-TTTAATAC-TTATAGTATATACTTTAATACTTTATATTTATATACTTTAATA
* * * * *
531544 CTTTATATTTAATACTTATATTATATAGTTTTATACTTTATA-GTATATACTTTAATA
1 -TCTATATTTAATACTTATAGTATATACTTTAATACTTTATATTTATATACTTTAATA
*
531601 -CTTTATATTATATACTT
1 TCTATAT-TTA-ATACTT
531618 TATAAACTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
55 4 0.06
56 3 0.05
57 20 0.32
58 24 0.38
59 7 0.11
60 5 0.08
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (57 bp):
TCTATATTTAATACTTATAGTATATACTTTAATACTTTATATTTATATACTTTAATA
Found at i:531582 original size:80 final size:80
Alignment explanation
Indices: 531466--531619 Score: 274
Period size: 80 Copynumber: 1.9 Consensus size: 80
531456 CTTTATCGTA
* *
531466 TATACTTTAATACTTGTATTCTATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTT
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATAGTATATACTTTAATACTTTATA-TT
531531 ATATACTTTAATACTT
65 ATATACTTTAATACTT
531547 TATA-TTTAATACTTATATTATATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTA
1 TATACTTTAATACTTATATTATATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTA
531611 TATACTTTA
66 TATACTTTA
531620 TAAACTATGG
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 12 0.17
80 55 0.77
81 4 0.06
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.55
Consensus pattern (80 bp):
TATACTTTAATACTTATATTATATAGTTTTATACTTTATAGTATATACTTTAATACTTTATATTA
TATACTTTAATACTT
Done.