Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007922.1 Hibiscus syriacus cultivar Beakdansim tig00110327_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: 874983
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:489716 original size:2 final size:2
Alignment explanation
Indices: 489709--489767 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
489699 ACAATAAAAC
489709 TA TA TA TA TA TA TA 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
*
489751 TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA T
489768 GTGCGTGTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:495213 original size:12 final size:12
Alignment explanation
Indices: 495196--495220 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
495186 ACAAAGCACC
495196 ATTTGGTGCCTA
1 ATTTGGTGCCTA
495208 ATTTGGTGCCTA
1 ATTTGGTGCCTA
495220 A
1 A
495221 CATTATTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:508602 original size:48 final size:48
Alignment explanation
Indices: 508550--508681 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
508540 AATATTTTAC
*
508550 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
508598 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
508646 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
508682 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:508688 original size:24 final size:24
Alignment explanation
Indices: 508567--508681 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
508557 TCGATTTGAT
508567 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
508591 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
508615 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
508639 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
508662 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
508682 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:508704 original size:24 final size:24
Alignment explanation
Indices: 508618--508691 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
508608 ACATGGATTC
* * *
508618 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
508642 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
508666 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
508690 TG
1 TG
508692 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:513694 original size:48 final size:48
Alignment explanation
Indices: 513642--513773 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
513632 AATATTTTAC
*
513642 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
513690 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
513738 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
513774 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:513780 original size:24 final size:24
Alignment explanation
Indices: 513659--513773 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
513649 TCGATTTGAT
513659 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
513683 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
513707 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
513731 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
513754 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
513774 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:513796 original size:24 final size:24
Alignment explanation
Indices: 513710--513783 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
513700 ACATGGATTC
* * *
513710 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
513734 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
513758 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
513782 TG
1 TG
513784 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:517980 original size:2 final size:2
Alignment explanation
Indices: 517975--518003 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
517965 ATATTTAAAT
517975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
518004 TATTTTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:521116 original size:3 final size:3
Alignment explanation
Indices: 521108--521193 Score: 163
Period size: 3 Copynumber: 28.3 Consensus size: 3
521098 AGACAGTAAA
521108 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
521154 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
521194 CTACTACTAC
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 79 0.96
4 3 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:521897 original size:5 final size:5
Alignment explanation
Indices: 521889--521915 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
521879 CATTCCCCTC
521889 CCCCA CCCCA CCCCA CCCCA CCCCA CC
1 CCCCA CCCCA CCCCA CCCCA CCCCA CC
521916 TTGTCAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.81, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCCA
Found at i:523657 original size:192 final size:194
Alignment explanation
Indices: 523330--523715 Score: 758
Period size: 192 Copynumber: 2.0 Consensus size: 194
523320 ATCGAGAGAA
523330 GGGTATCTGAGGTGAGTGCTCTGTTTTATATATCAGAATTTGGCAGTATGCTCTGGATTTTTGTT
1 GGGTATCTGAGGTGAGTGCTCTGTTTTATATATCAGAATTTGGCAGTATGCTCTGGATTTTTGTT
523395 TCAGAAAATCATATTATTTTACTTGAATGATGGATTTCATGACATCAGGTTCAAAGATTTAGAAG
66 TCAGAAAATCATATTATTTTACTTGAATGATGGATTTCATGACATCAGGTTCAAAGATTTAGAAG
523460 AAAGTAGAATTGGGTCAAGGAATAATTTTCCATGTGTTTGT-TTA-CACACTGTAACTTCCGAG
131 AAAGTAGAATTGGGTCAAGGAATAATTTTCCATGTGTTTGTATTATCACACTGTAACTTCCGAG
523522 GGGTATCTGAGGTGAGTGCTCTGTTTTATATATCAGAATTTGGCAGTATGCTCTGGATTTTTGTT
1 GGGTATCTGAGGTGAGTGCTCTGTTTTATATATCAGAATTTGGCAGTATGCTCTGGATTTTTGTT
523587 TCAGAAAATCATATTATTTTACTTGAATGATGGATTTCATGACATCAGGTTCAAAGATTTAGAAG
66 TCAGAAAATCATATTATTTTACTTGAATGATGGATTTCATGACATCAGGTTCAAAGATTTAGAAG
523652 AAAGTAGAATTGGGTCAAGGAATAATTTTCCATGTGTTTGTATTATCACACTGTAACTTCCGAG
131 AAAGTAGAATTGGGTCAAGGAATAATTTTCCATGTGTTTGTATTATCACACTGTAACTTCCGAG
523716 TAAAGTAATC
Statistics
Matches: 192, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
192 171 0.89
193 3 0.02
194 18 0.09
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.38
Consensus pattern (194 bp):
GGGTATCTGAGGTGAGTGCTCTGTTTTATATATCAGAATTTGGCAGTATGCTCTGGATTTTTGTT
TCAGAAAATCATATTATTTTACTTGAATGATGGATTTCATGACATCAGGTTCAAAGATTTAGAAG
AAAGTAGAATTGGGTCAAGGAATAATTTTCCATGTGTTTGTATTATCACACTGTAACTTCCGAG
Found at i:554158 original size:43 final size:42
Alignment explanation
Indices: 554088--554238 Score: 200
Period size: 43 Copynumber: 3.6 Consensus size: 42
554078 TCATATAACC
*
554088 TACATATACATACATACATACATACATACATACATACATACCA
1 TACATACACATACATACATACATACATACATACATACATA-CA
* *
554131 TACAGACATATACATACATACATACATACATACATACATACA
1 TACATACACATACATACATACATACATACATACATACATACA
*
554173 TACATACAGACTACATACATACATACAT--ATACATACAATAACA
1 TACATACACA-TACATACATACATACATACATACATAC-AT-ACA
*
554216 TACATACACATACATGCAT-CATA
1 TACATACACATACATACATACATA
554239 TTATCATACT
Statistics
Matches: 98, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
41 12 0.12
42 20 0.20
43 66 0.67
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.25
Consensus pattern (42 bp):
TACATACACATACATACATACATACATACATACATACATACA
Found at i:554158 original size:47 final size:47
Alignment explanation
Indices: 554089--554229 Score: 216
Period size: 47 Copynumber: 3.0 Consensus size: 47
554079 CATATAACCT
554089 ACATATACATACATACATACATACATACATACATACATACCATACAG
1 ACATATACATACATACATACATACATACATACATACATACCATACAG
554136 ACATATACATACATACATACATACATACATACATACATA-CATACAG
1 ACATATACATACATACATACATACATACATACATACATACCATACAG
*
554182 ACTACATACATACATACAT--ATACATACAATAACATACATACACATACA
1 AC-ATATACATACATACATACATACATAC-AT-ACATACATAC-CATACA
554230 TGCATCATAT
Statistics
Matches: 88, Mismatches: 1, Indels: 8
0.91 0.01 0.08
Matches are distributed among these distances:
45 8 0.09
46 11 0.12
47 63 0.72
49 6 0.07
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.23
Consensus pattern (47 bp):
ACATATACATACATACATACATACATACATACATACATACCATACAG
Found at i:554230 original size:4 final size:4
Alignment explanation
Indices: 554093--554223 Score: 182
Period size: 4 Copynumber: 33.2 Consensus size: 4
554083 TAACCTACAT
*
554093 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC AGAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC
*
554140 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AGAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
554187 ATAC ATAC ATAC AT-- ATAC ATAC AATAAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC -AT-AC ATAC ATAC A
554224 CATACATGCA
Statistics
Matches: 115, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.03
3 2 0.02
4 99 0.86
5 8 0.07
6 2 0.02
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:555105 original size:30 final size:30
Alignment explanation
Indices: 555069--555160 Score: 184
Period size: 30 Copynumber: 3.1 Consensus size: 30
555059 ACATCGATGC
555069 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
555099 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
555129 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
555159 AG
1 AG
555161 GTCCTTCGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:555799 original size:23 final size:23
Alignment explanation
Indices: 555768--555821 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
555758 GTTACAGATA
*
555768 CCGCTATTGTATGACCACAATAC
1 CCGCAATTGTATGACCACAATAC
555791 CCGCAATTGTATGACCACAATAC
1 CCGCAATTGTATGACCACAATAC
555814 CCGCAATT
1 CCGCAATT
555822 ACCACAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.24
Consensus pattern (23 bp):
CCGCAATTGTATGACCACAATAC
Found at i:563098 original size:3 final size:3
Alignment explanation
Indices: 563090--563174 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
563080 AGAATAGCAA
563090 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
563138 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
563175 ATTATAATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:563980 original size:2 final size:2
Alignment explanation
Indices: 563973--564000 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
563963 TCAAATATCC
563973 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
564001 GCACATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:566646 original size:2 final size:2
Alignment explanation
Indices: 566639--566681 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
566629 GAAAATTTCT
566639 TA TA TA TA TA TA TA 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
566681 T
1 T
566682 GAAAGCTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:569494 original size:7 final size:7
Alignment explanation
Indices: 569482--569509 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
569472 ATACTCGTGA
569482 GACATCC
1 GACATCC
569489 GACATCC
1 GACATCC
569496 GACATCC
1 GACATCC
569503 GACATCC
1 GACATCC
569510 TACTATTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
GACATCC
Found at i:582640 original size:3 final size:3
Alignment explanation
Indices: 582632--582672 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
582622 TCTTCAACGT
*
582632 TGA TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
582673 GAGGGAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:584831 original size:20 final size:20
Alignment explanation
Indices: 584789--584831 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
584779 TTAATAAAAA
* * *
584789 TTTATCTAAAACGTTATTTT
1 TTTATCTAAAACATTAATAT
*
584809 TTTATCTAAAATATTAATAT
1 TTTATCTAAAACATTAATAT
584829 TTT
1 TTT
584832 TTAATATTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTATCTAAAACATTAATAT
Found at i:584952 original size:21 final size:21
Alignment explanation
Indices: 584926--584966 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
584916 TAAAGCGTCT
*
584926 AATAATAATATTTTCGGTAAA
1 AATAATAATATTTTAGGTAAA
*
584947 AATAATAATGTTTTAGGTAA
1 AATAATAATATTTTAGGTAA
584967 CTTTTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (21 bp):
AATAATAATATTTTAGGTAAA
Found at i:585203 original size:29 final size:30
Alignment explanation
Indices: 585154--585215 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
585144 AAAATAAAAA
* * *
585154 TTAAGAAAAATAGGATCATGATA-AATTAT
1 TTAAGAAAAATAAGATAATGATACAATAAT
585183 TTAAG-AAAATAAGATGAATGATACAATAAT
1 TTAAGAAAAATAAGAT-AATGATACAATAAT
585213 TTA
1 TTA
585216 TTTTTCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.32
29 11 0.39
30 8 0.29
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.31
Consensus pattern (30 bp):
TTAAGAAAAATAAGATAATGATACAATAAT
Found at i:603590 original size:12 final size:12
Alignment explanation
Indices: 603573--603604 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
603563 CATCGAATCG
603573 AGTTGATTCTCA
1 AGTTGATTCTCA
603585 AGTTGATTCTCA
1 AGTTGATTCTCA
603597 AGTTGATT
1 AGTTGATT
603605 GAATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (12 bp):
AGTTGATTCTCA
Found at i:616142 original size:146 final size:144
Alignment explanation
Indices: 615909--616199 Score: 476
Period size: 146 Copynumber: 2.0 Consensus size: 144
615899 GGAGGAAATA
* *
615909 GAGAATGATGATTGTAATACTGGAGTATCAGATGTCACAAGTATTGCTTGAAATTTGAGAATGTT
1 GAGAATAATGATTGTAATACTGGAGTATCAGATGTCACAAGTATTGCTTGAAATTTGAAAATGTT
* * *
615974 GTGCCAAATAACAAAAATATTATGTGTTTGTCATTTATGTTTCTAGGCTTTAATTATGTCTTTTA
66 GTGCCAAAGAACAAAAACATTATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTCTTTTA
616039 TTATGGTGTTTTAT
131 TTATGGTGTTTTAT
* * *
616053 GAGAATAATGATTGTAATATTGGAGTATATTAGATGTCACAAGTATTG-TCTGAAATTTTAAAAT
1 GAGAATAATGATTGTAATACTGGAG--TATCAGATGTCACAAGTATTGCT-TGAAATTTGAAAAT
616117 GTTGTGCCAAAGAACAAAAACATTATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTCTT
63 GTTGTGCCAAAGAACAAAAACATTATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTCTT
616182 TTATTATGGTGTTTTAT
128 TTATTATGGTGTTTTAT
616199 G
1 G
616200 TACTTTAAGA
Statistics
Matches: 136, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
144 23 0.17
145 1 0.01
146 112 0.82
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.43
Consensus pattern (144 bp):
GAGAATAATGATTGTAATACTGGAGTATCAGATGTCACAAGTATTGCTTGAAATTTGAAAATGTT
GTGCCAAAGAACAAAAACATTATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTCTTTTA
TTATGGTGTTTTAT
Found at i:621927 original size:29 final size:30
Alignment explanation
Indices: 621895--621957 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
621885 ATATATTTAA
621895 ATATTTCACTATTAATTTAATAT-AAAAAT
1 ATATTTCACTATTAATTTAATATAAAAAAT
* * * *
621924 ATATTTTACTCTTAATTTTATTTAAAAAAT
1 ATATTTCACTATTAATTTAATATAAAAAAT
621954 ATAT
1 ATAT
621958 AATATTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.49
Consensus pattern (30 bp):
ATATTTCACTATTAATTTAATATAAAAAAT
Found at i:622019 original size:29 final size:29
Alignment explanation
Indices: 621966--622243 Score: 136
Period size: 29 Copynumber: 9.1 Consensus size: 29
621956 ATAATATTTT
* *
621966 AATATATTTTTAAAAGTTAAGATAATAATAA
1 AATATATTTTT--AATTTAAAATAATAATAA
*
621997 AATATATTTTTAATTTAAAATAAGAATAA
1 AATATATTTTTAATTTAAAATAATAATAA
*
622026 AATATATTTTTAAATAAATATAAGAATAA-AATAT
1 AATATATTTTT-AAT---T-TAA-AATAATAATAA
* * *
622060 TATATATTTTTAATTTAAAATAAGAGTAA
1 AATATATTTTTAATTTAAAATAATAATAA
*
622089 AATATATATTTATATATTAGATTAATAA-AATATTTA
1 AATATATTTTTA-AT-TTA-A--AATAATAATA---A
* * * *
622125 AATATA-TTTTAAGTTAATATATTTA-AA
1 AATATATTTTTAATTTAAAATAATAATAA
*
622152 AATATATTTTTAAGTGATGATAAAT-ATAA-AA
1 AATATATTTTTAA-T--TTA-AAATAATAATAA
* * * *
622183 TATATATTTTTAAATTAAAATAAAAACAA
1 AATATATTTTTAATTTAAAATAATAATAA
* * * *
622212 AATATATTTAATAAATTAAGATAAAAATAA
1 AATATATTT-TTAATTTAAAATAATAATAA
622242 AA
1 AA
622244 AATTTAATAA
Statistics
Matches: 195, Mismatches: 28, Indels: 49
0.72 0.10 0.18
Matches are distributed among these distances:
27 11 0.06
28 16 0.08
29 52 0.27
30 29 0.15
31 33 0.17
32 5 0.03
33 10 0.05
34 23 0.12
35 9 0.05
36 7 0.04
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (29 bp):
AATATATTTTTAATTTAAAATAATAATAA
Found at i:622021 original size:34 final size:33
Alignment explanation
Indices: 621974--622092 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 33
621964 TTAATATATT
621974 TTTAAAAGTTAAGATAATAATAAAATATATTTTTAA
1 TTTAAAA--TAAGATAA-AATAAAATATATTTTTAA
622010 TTTAAAATAAG----AATAAAATATATTTTTAA
1 TTTAAAATAAGATAAAATAAAATATATTTTTAA
* **
622039 -ATAAATATAAGAATAAAATATTATATATTTTTAA
1 TTTAAA-ATAAG-ATAAAATAAAATATATTTTTAA
622073 TTTAAAATAAGAGTAAAATA
1 TTTAAAATAAGA-TAAAATA
622093 TATATTTATA
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
28 4 0.06
29 23 0.32
33 1 0.01
34 32 0.45
35 4 0.06
36 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (33 bp):
TTTAAAATAAGATAAAATAAAATATATTTTTAA
Found at i:622070 original size:63 final size:62
Alignment explanation
Indices: 621966--622243 Score: 212
Period size: 63 Copynumber: 4.5 Consensus size: 62
621956 ATAATATTTT
* **
621966 AATATATTTTTAAA-AGT-TAAG-ATAATAATAAAATATATTTTTAATTTAAAATAAGAATAA
1 AATATATTTTTAAATAATATAAGAATAA-AATATTATATATTTTTAATTTAAAATAAGAATAA
*
622026 AATATATTTTTAAATAAATATAAGAATAAAATATTATATATTTTTAATTTAAAATAAGAGTAA
1 AATATATTTTTAAAT-AATATAAGAATAAAATATTATATATTTTTAATTTAAAATAAGAATAA
* * * * ** * * * ***
622089 AATATATATTTATATATTAGATTAATAAAATATTTAAATATATTTTAAGTTAATATATTTA-AA
1 AATATATTTTTAAATAATATAAGAATAAAATA-TTATATAT-TTTTAATTTAAAATAAGAATAA
* * * * *
622152 AATATATTTTTAAGTGATGAT-A-AATATAAA-A-TATATATTTTTAAATTAAAATAAAAACAA
1 AATATATTTTTAAATAAT-ATAAGAATA-AAATATTATATATTTTTAATTTAAAATAAGAATAA
* * *
622212 AATATATTTAATAAATTAAGATAAAAATAAAA
1 AATATATTT-TTAAA-TAATATAAGAATAAAA
622244 AATTTAATAA
Statistics
Matches: 171, Mismatches: 34, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
59 14 0.08
60 31 0.18
61 5 0.03
62 26 0.15
63 77 0.45
64 18 0.11
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (62 bp):
AATATATTTTTAAATAATATAAGAATAAAATATTATATATTTTTAATTTAAAATAAGAATAA
Found at i:622118 original size:39 final size:36
Alignment explanation
Indices: 622038--622120 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 36
622028 TATATTTTTA
*
622038 AATAAATATAAGAATAAAATATTATATATTTTTAATT
1 AATAAA-ATAAGAATAAAATATTATATATTATTAATT
* *
622075 --TAAAATAAGAGTAAAATATATATTTATATATTAGATT
1 AATAAAATAAGAATAAAATAT-TATATAT-TATTA-ATT
622112 AATAAAATA
1 AATAAAATA
622121 TTTAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
34 14 0.37
35 10 0.26
36 4 0.11
37 3 0.08
39 7 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (36 bp):
AATAAAATAAGAATAAAATATTATATATTATTAATT
Found at i:622130 original size:28 final size:25
Alignment explanation
Indices: 622092--622159 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
622082 AGAGTAAAAT
* *
622092 ATATATTTATATATTAGATTAA--TA
1 ATATATTTAAATA-TATATTAAGTTA
* *
622116 AAATATTTAAATATATTTTAAGTTA
1 ATATATTTAAATATATATTAAGTTA
*
622141 ATATATTTAAAAATATATT
1 ATATATTTAAATATATATT
622160 TTTAAGTGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
23 6 0.17
24 11 0.31
25 18 0.51
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
ATATATTTAAATATATATTAAGTTA
Found at i:622203 original size:27 final size:27
Alignment explanation
Indices: 622173--622267 Score: 68
Period size: 28 Copynumber: 3.4 Consensus size: 27
622163 AAGTGATGAT
*
622173 AAATATAAAATATATATTT-TTAAATTA
1 AAATA-AAAATATATATTTAATAAATTA
*
622200 AAATAAAAACAAAATATATTTAATAAATTA
1 AAAT--AAA-AATATATATTTAATAAATTA
* * * *
622230 AGATAAAAATAAAAAATTTAATAAGTT-
1 AAATAAAAAT-ATATATTTAATAAATTA
*
622257 AAACAAAAATA
1 AAATAAAAATA
622268 AAGAGATAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
26 1 0.02
27 14 0.26
28 18 0.33
29 11 0.20
30 10 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (27 bp):
AAATAAAAATATATATTTAATAAATTA
Found at i:622258 original size:28 final size:29
Alignment explanation
Indices: 622171--622269 Score: 103
Period size: 30 Copynumber: 3.4 Consensus size: 29
622161 TTAAGTGATG
* **
622171 ATAAATATAAAATATATATTTTTAAATTAAA
1 ATAAAAATAAAATATAT-TTAATAAATT-AA
*
622202 ATAAAAACAAAATATATTTAATAAATTAA
1 ATAAAAATAAAATATATTTAATAAATTAA
*
622231 GATAAAAATAAAA-A-ATTTAATAAGTTAA
1 -ATAAAAATAAAATATATTTAATAAATTAA
*
622259 ACAAAAATAAA
1 ATAAAAATAAA
622270 GAGATAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 10 0.17
28 13 0.22
29 3 0.05
30 19 0.32
31 15 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (29 bp):
ATAAAAATAAAATATATTTAATAAATTAA
Found at i:628672 original size:17 final size:17
Alignment explanation
Indices: 628650--628688 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
628640 TAATATTATC
*
628650 TAAAATATATATT-TTTA
1 TAAAATATA-ATTATATA
628667 TAAAATATAATTATATA
1 TAAAATATAATTATATA
628684 TAAAA
1 TAAAA
628689 AATGAACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATAATTATATA
Found at i:628683 original size:15 final size:16
Alignment explanation
Indices: 628642--628683 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
628632 TCGATTATTA
*
628642 ATATTATCTAAAATAT
1 ATATTATATAAAATAT
*
628658 ATATTTTTATAAAATAT
1 ATA-TTATATAAAATAT
628675 A-ATTATATA
1 ATATTATATA
628684 TAAAAAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 4 0.18
17 12 0.55
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTATATAAAATAT
Found at i:636336 original size:20 final size:20
Alignment explanation
Indices: 636313--636364 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
636303 AACGCGATCC
636313 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
636333 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
636353 CCAAAATCGCAA
1 CCAGAATCGCAA
636365 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:636381 original size:21 final size:20
Alignment explanation
Indices: 636354--636452 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
636344 AATCAGTTTC
636354 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
636375 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
636396 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
636416 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
636437 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
636453 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:636481 original size:20 final size:20
Alignment explanation
Indices: 636419--636612 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
636409 CGATTTTCCA
* ** *
636419 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
636439 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
636459 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
636479 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
636499 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
636519 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
636539 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
636559 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
636579 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
636600 AAATCGCAACGCG
1 AAATCGCAACGCG
636613 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:636503 original size:60 final size:60
Alignment explanation
Indices: 636419--636612 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
636409 CGATTTTCCA
* ** * *
636419 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
636479 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
636539 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
636600 AAATCGCAACGCG
1 AAATCGCAACGCG
636613 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:637032 original size:33 final size:33
Alignment explanation
Indices: 636993--637063 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
636983 TTCACTTAGA
*
636993 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
637026 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
637059 TTTCA
1 TTTCA
637064 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:637168 original size:20 final size:20
Alignment explanation
Indices: 637143--637197 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
637133 TGCAGAAGAG
*
637143 TCGCAACGAGATAATGAAAA
1 TCGCAACGAGAGAATGAAAA
***
637163 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
637183 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
637198 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.25, T:0.15
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:637202 original size:14 final size:14
Alignment explanation
Indices: 637183--637237 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
637173 AGAATGACTG
637183 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
637197 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
637216 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
637230 TCGCAACG
1 TCGCAACG
637238 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:637250 original size:33 final size:33
Alignment explanation
Indices: 637183--637253 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
637173 AGAATGACTG
***
637183 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
637216 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
637249 TCGCA
1 TCGCA
637254 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:637271 original size:19 final size:19
Alignment explanation
Indices: 637249--637346 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
637239 GAAACCAAAA
*
637249 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
637268 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
637282 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
637301 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
637315 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
637334 TCGCGTTGCGATT
1 TCGCGTTGCGATT
637347 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:637290 original size:14 final size:14
Alignment explanation
Indices: 637271--637360 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
637261 TTTCATTTCG
637271 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
637285 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
637304 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
637318 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
637335 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
637351 CGTTGCGATT
1 CGTTGCGATT
637361 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:637296 original size:33 final size:33
Alignment explanation
Indices: 637254--637368 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
637244 CAAAATCGCA
637254 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
637287 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
637320 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
637353 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
637369 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:639372 original size:183 final size:185
Alignment explanation
Indices: 639064--639440 Score: 708
Period size: 183 Copynumber: 2.0 Consensus size: 185
639054 TAGATTGCTT
639064 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
639129 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
639194 GTGTATTCTTTAACACTGTG-AA-A-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTC-TTTGGTTGAA
639247 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAATAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AAATAGT
639312 ATTTGTCTTTG-TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
639376 TGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTGGTTGAA
130 TGTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTGGTTGAA
639432 AGTAAATTT
1 AGTAAATTT
639441 ATCCATTCAA
Statistics
Matches: 190, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
183 131 0.69
184 20 0.11
185 20 0.11
186 19 0.10
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTGGTTGAA
Found at i:639459 original size:93 final size:93
Alignment explanation
Indices: 639064--639440 Score: 710
Period size: 93 Copynumber: 4.1 Consensus size: 93
639054 TAGATTGCTT
639064 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
639129 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
639157 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AA-A-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
639219 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
639247 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAAATAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AAATAGT
639312 ATTTGTCTTTG-TTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
639340 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
639405 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
639432 AGTAAATTT
1 AGTAAATTT
639441 ATCCATTCAA
Statistics
Matches: 279, Mismatches: 0, Indels: 11
0.96 0.00 0.04
Matches are distributed among these distances:
90 87 0.31
91 1 0.00
92 41 0.15
93 138 0.49
94 12 0.04
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:639524 original size:19 final size:19
Alignment explanation
Indices: 639484--639612 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
639474 TAGTTTACTT
* *
639484 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
639504 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
639523 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
639542 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
639556 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
639575 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
639589 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
639608 TCGCA
1 TCGCA
639613 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:639563 original size:33 final size:32
Alignment explanation
Indices: 639520--639612 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
639510 CGCGAAACCA
**
639520 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
639552 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
639585 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
639613 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:639610 original size:52 final size:52
Alignment explanation
Indices: 639484--639612 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
639474 TAGTTTACTT
**
639484 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
639536 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
639589 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
639613 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:639630 original size:19 final size:19
Alignment explanation
Indices: 639608--639742 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
639598 GAAACCAAAA
*
639608 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
639627 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
639643 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
639660 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
639676 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
639693 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
639712 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
639732 TCGTGTTGCGA
1 TCGCGTTGCGA
639743 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:639649 original size:14 final size:14
Alignment explanation
Indices: 639630--639686 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
639620 TTTCATTTCG
639630 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
639644 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
639661 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
639677 CGTTGCGATT
1 CGTTGCGATT
639687 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:639655 original size:33 final size:33
Alignment explanation
Indices: 639613--639705 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
639603 CAAAATCGCA
*
639613 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
639646 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
639679 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
639706 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:641210 original size:12 final size:12
Alignment explanation
Indices: 641193--641217 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
641183 TCTTCGGGGA
641193 CTTTTTCTTCTT
1 CTTTTTCTTCTT
641205 CTTTTTCTTCTT
1 CTTTTTCTTCTT
641217 C
1 C
641218 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:641426 original size:24 final size:24
Alignment explanation
Indices: 641392--641438 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
641382 CTGAAACATC
641392 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
641416 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
641439 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:642140 original size:20 final size:20
Alignment explanation
Indices: 642112--642480 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
642102 AAATTTCAGT
* * * *
642112 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
642132 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
642152 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
642172 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
642192 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
642212 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
642232 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
642252 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
642272 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
642292 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
642312 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
642332 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
642352 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
642372 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
642392 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
642412 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
642432 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
642452 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
642472 GTTGCGATT
1 GTTGCGATT
642481 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 32, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 299 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:643748 original size:3 final size:3
Alignment explanation
Indices: 643742--643803 Score: 70
Period size: 3 Copynumber: 19.3 Consensus size: 3
643732 TTTAAAAAAA
* *
643742 TAT TATT TATT TAT TAT TAC TAT TAC TAT TAT TATT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
643790 TAT TATT TAT TAT T
1 TAT TA-T TAT TAT T
643804 TATTTTTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
3 39 0.75
4 13 0.25
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:643771 original size:19 final size:17
Alignment explanation
Indices: 643741--643803 Score: 76
Period size: 16 Copynumber: 3.6 Consensus size: 17
643731 GTTTAAAAAA
643741 ATATTATTTATTTATTATT
1 ATATTA-TTA-TTATTATT
*
643760 ACTATTACTATTATTATT
1 A-TATTATTATTATTATT
643778 -TATTATTATTATTATT
1 ATATTATTATTATTATT
643794 AT-TTATTATT
1 ATATTATTATT
643804 TATTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 23 0.57
17 1 0.03
18 8 0.20
19 3 0.08
20 5 0.12
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATTATTATTATT
Found at i:649227 original size:106 final size:106
Alignment explanation
Indices: 648910--650249 Score: 2295
Period size: 106 Copynumber: 12.6 Consensus size: 106
648900 GAAAAGTTAT
*
648910 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
648975 GAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * ** *
649016 TTGTCAACAAACAATTTCCCAATTTTGGAGCCAATTTCAAACTTCACAATGAAGGATATTGGACT
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACT
*
649081 CCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
65 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* *
649123 TTGTCAATAAACAACTTCTCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
649188 CAGACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
649229 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * *
649294 GAGATAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
649335 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
649400 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
649441 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACT
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACT
*
649506 CCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
65 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
649548 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAAACTTCACAACAAAGGATATTGGACT
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACT
649613 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
65 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * *
649655 TTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* *
649720 CAAACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
*
649761 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
649826 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
649867 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
649932 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
649973 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
*
650038 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
650079 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * *
650144 CAGACAACACAAGTTCTACTTCACAACGAAGGGACCACTGG
66 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
* * * * *
650185 TTGTCAATAAACAA-TTTTCCAGTTTCAGAACCAATTTCAACTTCACATCGGAGGATATTGGACT
1 TTGTCAATAAACAACTTCT-CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACT
650249 C
65 C
650250 GGAACAATAC
Statistics
Matches: 1176, Mismatches: 55, Indels: 6
0.95 0.04 0.00
Matches are distributed among these distances:
105 3 0.00
106 867 0.74
107 306 0.26
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGG
Found at i:649952 original size:532 final size:531
Alignment explanation
Indices: 648910--650249 Score: 2358
Period size: 532 Copynumber: 2.5 Consensus size: 531
648900 GAAAAGTTAT
*
648910 TTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
* * * * *
648975 GAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATT
66 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATT
** * *
649040 TTGGAGCCAATTTCAAACTTCACAATGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCA
131 TCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* *
649105 CGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCGGAGCCAATTTCAACTTCACA
196 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACA
* *
649170 GCGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
261 ACGAAGGATATTGGACTCCAAACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
* *
649235 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGATA
326 ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
*
649300 ACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
391 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
*
649365 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAA
456 CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
649430 GGGACCGCTGG
521 GGGACCGCTGG
649441 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACT
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACT
649506 CCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
65 CCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAAT
*
649571 TTCAGAGCCAATTTCAAACTTCACAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
130 TTCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
649636 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCAC
195 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCAC
*
649701 AACGAAGGATATTGGACTCCAAACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
260 AACGAAGGATATTGGACTCCAAACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTC
* *
649766 AATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGAC
325 AACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC
*
649831 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTCAGA
390 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGA
649896 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
455 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGA
649961 AGGGACCGCTGG
520 AGGGACCGCTGG
649973 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
650038 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATT
66 CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATT
* *
650103 TCAGAGCCAATTTC-AACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCTACTTCA
131 TCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * * * *
650167 CAACGAAGGGACCACTGGTTGTCAATAAACAATTTTCCAGTTTCAGAACCAATTTCAACTTCACA
196 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACA
* *
650232 TCGGAGGATATTGGACTC
261 ACGAAGGATATTGGACTC
650250 GGAACAATAC
Statistics
Matches: 772, Mismatches: 36, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
530 121 0.16
531 143 0.19
532 508 0.66
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (531 bp):
TTGTCAATAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
CAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATT
TCAGAGCCAATTTCAAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACA
ACGAAGGATATTGGACTCCAAACAACGTAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCA
ACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAG
CCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAA
GGGACCGCTGG
Found at i:650608 original size:3 final size:3
Alignment explanation
Indices: 650602--650663 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
650592 TTTAAAAAAA
* * *
650602 TAT TATT TATT TAT CAT TAC TAT TAC TAT TAT TATT TAT TAT TAT TAT
1 TAT TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
650650 TAT TATT TAT TAT T
1 TAT TA-T TAT TAT T
650664 TATTTTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
3 37 0.74
4 13 0.26
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:650642 original size:7 final size:7
Alignment explanation
Indices: 650630--650674 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
650620 ACTATTACTA
650630 TTATTAT
1 TTATTAT
650637 TTATTA-
1 TTATTAT
650643 TTATTA-
1 TTATTAT
650649 TTATTAT
1 TTATTAT
650656 TTATTAT
1 TTATTAT
*
650663 TTATTTT
1 TTATTAT
650670 TTATT
1 TTATT
650675 TTTGTAGGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 12 0.33
7 24 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:650644 original size:19 final size:19
Alignment explanation
Indices: 650622--650663 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
650612 TTATCATTAC
650622 TATTACTATTATTATTTAT
1 TATTACTATTATTATTTAT
*
650641 TATTATTATTATTATTTAT
1 TATTACTATTATTATTTAT
650660 TATT
1 TATT
650664 TATTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTACTATTATTATTTAT
Found at i:658011 original size:13 final size:13
Alignment explanation
Indices: 657991--658021 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
657981 AAGGGACAAC
657991 CATTTTTTTATTT
1 CATTTTTTTATTT
658004 -ATTTTTTTATTT
1 CATTTTTTTATTT
658016 CATTTT
1 CATTTT
658022 CGTATCTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (13 bp):
CATTTTTTTATTT
Found at i:659582 original size:16 final size:16
Alignment explanation
Indices: 659563--659593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
659553 TTGATTGGTT
659563 TATTTATTTTATTTTA
1 TATTTATTTTATTTTA
*
659579 TATTTTTTTTATTTT
1 TATTTATTTTATTTT
659594 TTACTAACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTATTTTATTTTA
Found at i:659650 original size:25 final size:25
Alignment explanation
Indices: 659622--659669 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
659612 CTGTTTTATC
659622 TTTTTATTATAT-TAATATTTTTTTA
1 TTTTTATTATATAT-ATATTTTTTTA
*
659647 TTTTTTTTATATATATATTTTTT
1 TTTTTATTATATATATATTTTTT
659670 AATCTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTATTATATATATATTTTTTTA
Found at i:659653 original size:27 final size:25
Alignment explanation
Indices: 659615--659669 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 25
659605 TATTTATCTG
659615 TTTTATCTTTTTATTATAT-TAATATTT
1 TTTTA-CTTTTT-TTATATAT-ATATTT
*
659642 TTTTATTTTTTTTATATATATATTT
1 TTTTACTTTTTTTATATATATATTT
659667 TTT
1 TTT
659670 AATCTAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 15 0.58
26 6 0.23
27 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTACTTTTTTTATATATATATTT
Found at i:663451 original size:105 final size:104
Alignment explanation
Indices: 663268--664663 Score: 1969
Period size: 105 Copynumber: 13.3 Consensus size: 104
663258 CTCGAGAGTA
* ** * * * * *
663268 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG
* * * *
663332 GGGCGGCTGATTGTCAACAAACACTTCCCAATTTCAGAGCC
65 GGACCGCTGGTTGTCAACAAA-ATTTCCCAATTTCAGAGCC
* * *
663373 AATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
663438 GACCGCTGGTTGTCAACAAATTTTCCCGATTTCAGGGCC
66 GACCGCTGGTTGTCAACAAAATTTCCCAATTTCAGAGCC
*
663477 AATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
663542 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-AATTTCCCAATTTCAGAGCC
663582 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
663647 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-AATTTCCCAATTTCAGAGCC
*
663687 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
663752 GACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAACAA-AATTTCCCAATTTCAGAGCC
*
663792 AATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
663857 GACCGCTGGTTGTCAATAAAAAAAATTCCCAATTTCAGAGCC
66 GACCGCTGGTTGTC---AACAAAATTTCCCAATTTCAGAGCC
663899 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
663964 GACCGCTGGTTGTCAACAAACAATTTTCCAA-TTCTAGAGTC
66 GACCGCTGGTTGTCAAC-AA-AATTTCCCAATTTC-AGAGCC
* *
664005 AATTTCAACTTCACAGCGAAGGATAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
664070 GACCACTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCC
66 GACCGCTGGTTGTCAAC-AA-AATTTCCCAATTTCAGAGCC
*
664111 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * **
664176 GACCCCTGGTTGTCAATAAACAATTTCATAATTTCAGAGCC
66 GACCGCTGGTTGTCAA-CAA-AATTTCCCAATTTCAGAGCC
* * * *
664217 AATTTCAACTTCACATCGAATGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* *
664282 GACCGCTGGTTGTCAACAAATTTTCCCGATTTCAGAGCC
66 GACCGCTGGTTGTCAACAAAATTTCCCAATTTCAGAGCC
664321 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* * *
664386 GACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCC
66 GACCGCTGGTTGTCAACAA-AATTTCCCAATTTCAGAGCC
*
664426 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* **
664491 GACCGCTGCTTGTCAACAAAATTT--C-A-TTCAGAATC
66 GACCGCTGGTTGTCAACAAAATTTCCCAATTTCAGAGCC
* * * * *
664526 AATTTCAACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
* ** *
664591 GACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCC
66 GACCGCTGGTTGTCAACAA--AATTTCCCAATTTCAGAGCC
*
664632 AATTTCAACTTCAC-GACGGAGGATATTGGACT
1 AATTTCAACTTCACAG-CGAAGGATATTGGACT
664664 TGGAACAATG
Statistics
Matches: 1182, Mismatches: 91, Indels: 35
0.90 0.07 0.03
Matches are distributed among these distances:
100 84 0.07
101 1 0.00
102 6 0.01
104 196 0.17
105 473 0.40
106 320 0.27
107 98 0.08
108 4 0.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (104 bp):
AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
GACCGCTGGTTGTCAACAAAATTTCCCAATTTCAGAGCC
Found at i:664730 original size:634 final size:628
Alignment explanation
Indices: 663268--664663 Score: 2009
Period size: 634 Copynumber: 2.2 Consensus size: 628
663258 CTCGAGAGTA
* * * * * **
663268 AATTTCAACTTCTCAATGAAGGATCTT-GAATCCAAGACAACACAAGCTCAACTTCATGACGAAG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACACAAGTTCAACTTCACAACGAAG
* * * * * *
663332 GGGCGGCTGATTGTCAACAAAC-ACTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGA
65 GGACCGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGA
* ** * * * * **
663396 TATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-ATT
130 TAGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCAC--ATTGCCAACAACAAC
* * * * *
663460 TTCCCGATTTCAGGGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
193 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
* * *
663525 CAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAATTTCATAATTTCAGAGCCAATTTCAA
258 CAACTTCACGACGAAGGGACCCCTGCTTGTCAAAAACAATTTCATAATTTCAGAGCCAATTTCAA
663590 CTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
323 CTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTG
*
663655 CTTGTCAACAATAATTTCATAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
388 CTTGTCAACAATAATTTCACAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTC
* * * * *
663720 CTGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAATAATTTCATAATTT
453 CAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCACAATCT
* *
663785 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCTGACAACGCAAGTTCAACTTCACG
518 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
663850 ACGAAGGGACCGCTGGTTGTCAATAAAAAAAATTCCCAATTTCAGAGCC
583 ACGAAGGGACCGCTGCTTGTC---AAAAAAAATTCCCAATTTCAGAACC
* * *
663899 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGG
* * *
663964 GACCGCTGGTTGTCAACAAACAATTTTCCAATTCTAGAGTCAATTTCAACTTCACAGCGAAGGAT
66 GACCGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGAT
* *
664029 AGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAAC
131 AGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCAC--ATTGCCAAC-AACAAC
664094 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
193 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
*
664159 CAACTTCACGACGAAGGGACCCCTGGTTGTCAATAAACAATTTCATAATTTCAGAGCCAATTTCA
258 CAACTTCACGACGAAGGGACCCCTGCTTGTCAA-AAACAATTTCATAATTTCAGAGCCAATTTCA
* * * *
664224 ACTTCACATCGAATGATATTGGACTCCAGACAACGTATGTTCAACTTCACGACGAAGGGACCGCT
322 ACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCT
* * * *
664289 GGTTGTCAACAA-ATTTTCCCGATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
387 GCTTGTCAACAATAATTTCACAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACT
*
664353 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATC
452 CCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCACAATC
664418 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
517 TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
* * *
664483 GACGAAGGGACCGCTGCTTGTC-AACAAAATT-TC-A-TTCAGAATC
582 GACGAAGGGACCGCTGCTTGTCAAAAAAAATTCCCAATTTCAGAACC
* *
664526 AATTTCAACTTCACAACGAAGGATGTTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGG
1 AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGG
* * ** *
664591 GACGGCTGGTTGTCAACAACCAATTTCCCGGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGA
66 GACCGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCAACTTCACAG-CGAAGGA
*
664655 TATTGGACT
130 TAGTGGACT
664664 TGGAACAATG
Statistics
Matches: 690, Mismatches: 69, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
626 1 0.00
627 129 0.19
628 1 0.00
629 1 0.00
630 8 0.01
631 69 0.10
632 95 0.14
633 2 0.00
634 283 0.41
635 101 0.15
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (628 bp):
AATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGG
GACCGCTGGTTGTCAACAAACAATTTCCCAATTCCAGAGCCAATTTCAACTTCACAGCGAAGGAT
AGTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACATTGCCAACAACAACTTC
TCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAA
CTTCACGACGAAGGGACCCCTGCTTGTCAAAAACAATTTCATAATTTCAGAGCCAATTTCAACTT
CACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTT
GTCAACAATAATTTCACAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCACAATCTCAG
AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACG
AAGGGACCGCTGCTTGTCAAAAAAAATTCCCAATTTCAGAACC
Found at i:666099 original size:14 final size:14
Alignment explanation
Indices: 666069--666098 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
666059 TATTGATTGG
666069 TTTATTTATTTTAT
1 TTTATTTATTTTAT
666083 TTTATTT-TTTTAT
1 TTTATTTATTTTAT
666096 TTT
1 TTT
666099 TTACTAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTATTTATTTTAT
Found at i:666167 original size:23 final size:27
Alignment explanation
Indices: 666127--666174 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
666117 CTGTTTTATC
666127 TTTTTATTATATTAATAT-TTTTTTCT
1 TTTTTATTATATTAATATATTTTTTCT
666153 TTTTTA-TATA-T-ATATATTTTTT
1 TTTTTATTATATTAATATATTTTTT
666175 AATCTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 7 0.33
25 4 0.19
26 6 0.29
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTATTATATTAATATATTTTTTCT
Found at i:669651 original size:22 final size:22
Alignment explanation
Indices: 669598--669639 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
669588 TTAAATAAAT
* *
669598 AAAAAGAAACCAGAGATTAACA
1 AAAAAGAAAACAGAAATTAACA
669620 AAAAAGAAAACAGAAATTAA
1 AAAAAGAAAACAGAAATTAA
669640 AATGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.69, C:0.10, G:0.12, T:0.10
Consensus pattern (22 bp):
AAAAAGAAAACAGAAATTAACA
Found at i:675260 original size:18 final size:18
Alignment explanation
Indices: 675239--675277 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
675229 TTTATTAGAA
675239 TTGAG-TTATTTAAACTAT
1 TTGAGTTTATTTAAA-TAT
*
675257 TTGAGTTTATTTTAATAT
1 TTGAGTTTATTTAAATAT
675275 TTG
1 TTG
675278 TTCTAATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (18 bp):
TTGAGTTTATTTAAATAT
Found at i:695166 original size:17 final size:18
Alignment explanation
Indices: 695141--695174 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
695131 TCATTTTTTT
695141 ATATATAAAATTTAATAC
1 ATATATAAAATTTAATAC
*
695159 ATAT-TAAATTTTAATA
1 ATATATAAAATTTAATA
695175 TTACGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATAAAATTTAATAC
Found at i:696170 original size:15 final size:15
Alignment explanation
Indices: 696145--696184 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
696135 ACAGGCACCA
696145 CACCTACCGGGACAAC
1 CACC-ACCGGGACAAC
*
696161 CACCACCGGGTCAAC
1 CACCACCGGGACAAC
696176 CACCACCGG
1 CACCACCGG
696185 CTCAACCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.28, C:0.47, G:0.20, T:0.05
Consensus pattern (15 bp):
CACCACCGGGACAAC
Found at i:696189 original size:15 final size:15
Alignment explanation
Indices: 696157--696193 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
696147 CCTACCGGGA
*
696157 CAACCACCACCGGGT
1 CAACCACCACCGGCT
696172 CAACCACCACCGGCT
1 CAACCACCACCGGCT
696187 CAACCAC
1 CAACCAC
696194 AGGGACTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.51, G:0.14, T:0.05
Consensus pattern (15 bp):
CAACCACCACCGGCT
Found at i:697236 original size:29 final size:29
Alignment explanation
Indices: 697170--697236 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
697160 CAAATATATT
* *
697170 AAATTCAATGAGAAAATTAAAAAGATATA
1 AAATTCAATGAGAAAATAAAAAAGAGATA
* *
697199 AAGTACAATGA-ACAAA-AAAAAAGAGAGTA
1 AAATTCAATGAGA-AAATAAAAAAGAGA-TA
697228 AAATTCAAT
1 AAATTCAAT
697237 TATCAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.63, C:0.06, G:0.12, T:0.19
Consensus pattern (29 bp):
AAATTCAATGAGAAAATAAAAAAGAGATA
Found at i:697264 original size:2 final size:2
Alignment explanation
Indices: 697257--697296 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
697247 GTAATTTACC
*
697257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAA AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
697297 CTCGTATCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.97
3 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:703537 original size:2 final size:2
Alignment explanation
Indices: 703530--703562 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
703520 TCCAATTGCA
703530 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
703563 CATCCGAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:709364 original size:24 final size:24
Alignment explanation
Indices: 709332--709377 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
709322 ATTCAGTAGG
709332 CTGTGGACGGAAGAAGTTGGTCTA
1 CTGTGGACGGAAGAAGTTGGTCTA
709356 CTGTGGACGGAAGAAGTTGGTC
1 CTGTGGACGGAAGAAGTTGGTC
709378 AACAAAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.39, T:0.24
Consensus pattern (24 bp):
CTGTGGACGGAAGAAGTTGGTCTA
Found at i:714145 original size:2 final size:2
Alignment explanation
Indices: 714140--714191 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
714130 AAATACACAC
* * *
714140 AT AT AT AC AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
714182 AT AT AT AT AT
1 AT AT AT AT AT
714192 TACATGCATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:716346 original size:13 final size:13
Alignment explanation
Indices: 716328--716352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
716318 GAATGAGAGA
716328 GTTTCTGGCTAGG
1 GTTTCTGGCTAGG
716341 GTTTCTGGCTAG
1 GTTTCTGGCTAG
716353 TTTCTTAGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.36, T:0.40
Consensus pattern (13 bp):
GTTTCTGGCTAGG
Found at i:730581 original size:20 final size:21
Alignment explanation
Indices: 730541--730583 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
730531 ATTAAATTTT
730541 TAAACATTTATATTATTATAC
1 TAAACATTTATATTATTATAC
* *
730562 TAAATATTTA-ATTTTTATAC
1 TAAACATTTATATTATTATAC
730582 TA
1 TA
730584 TATAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAACATTTATATTATTATAC
Found at i:737161 original size:40 final size:40
Alignment explanation
Indices: 737101--737182 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
737091 TTGACGTAAC
* *
737101 TTGATTTTATAATGTCAAATATTCTATTTAAAATTTAAAT
1 TTGATTTTATAAAGTAAAATATTCTATTTAAAATTTAAAT
*
737141 TTGATTTTATAAAGTAAAATATTTTATTTAAAATTTAAAT
1 TTGATTTTATAAAGTAAAATATTCTATTTAAAATTTAAAT
737181 TT
1 TT
737183 AGGTTAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (40 bp):
TTGATTTTATAAAGTAAAATATTCTATTTAAAATTTAAAT
Found at i:743340 original size:2 final size:2
Alignment explanation
Indices: 743333--743357 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
743323 AAACCAAATG
743333 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
743358 ATTTTCTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:747816 original size:2 final size:2
Alignment explanation
Indices: 747809--747843 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
747799 AATTGTATGT
747809 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
747844 ATGGAATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:751896 original size:117 final size:117
Alignment explanation
Indices: 751690--751927 Score: 431
Period size: 117 Copynumber: 2.0 Consensus size: 117
751680 ATAATCTTCT
* * * *
751690 TCCTTGGTTTCTGCTAGTTCCAAGATGATCAACTCAAAGTAATCGATCTCTTCTAAGGAATATTC
1 TCCTTGGTTTATGCTAGTTCCAAGATCAACAACTCAAAGCAATCGATCTCTTCTAAGGAATATTC
751755 CTCTCTACCCCCATCTTTACCTCCCGAAAGAGCCTCGAGCTTGCTCTCAAGA
66 CTCTCTACCCCCATCTTTACCTCCCGAAAGAGCCTCGAGCTTGCTCTCAAGA
*
751807 TCCTTGGTTTATGCTAGTTCCAAGATCAACGACTCAAAGCAATCGATCTCTTCTAAGGAATATTC
1 TCCTTGGTTTATGCTAGTTCCAAGATCAACAACTCAAAGCAATCGATCTCTTCTAAGGAATATTC
751872 CTCTCTACCCCCATCTTTACCTCCCGAAAGAGCCTCGAGCTTGCTCTCAAGA
66 CTCTCTACCCCCATCTTTACCTCCCGAAAGAGCCTCGAGCTTGCTCTCAAGA
751924 TCCT
1 TCCT
751928 CGCCAAAAGA
Statistics
Matches: 116, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (117 bp):
TCCTTGGTTTATGCTAGTTCCAAGATCAACAACTCAAAGCAATCGATCTCTTCTAAGGAATATTC
CTCTCTACCCCCATCTTTACCTCCCGAAAGAGCCTCGAGCTTGCTCTCAAGA
Found at i:755993 original size:6 final size:6
Alignment explanation
Indices: 755982--756066 Score: 161
Period size: 6 Copynumber: 14.2 Consensus size: 6
755972 GACACGTATT
755982 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
*
756030 ACCTCG ACCACG ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
756067 GCCGAGCCGA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.33, C:0.49, G:0.16, T:0.01
Consensus pattern (6 bp):
ACCACG
Found at i:756074 original size:5 final size:5
Alignment explanation
Indices: 756064--756102 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
756054 ACCACGACCA
* * *
756064 CGAGC CGAGC CGAGC CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
756103 ACGGACGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.23, C:0.33, G:0.41, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:761975 original size:6 final size:6
Alignment explanation
Indices: 761964--761988 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
761954 GACACGTATT
761964 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
761989 GCCGAGCCGT
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:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:761996 original size:5 final size:5
Alignment explanation
Indices: 761986--762029 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
761976 ACCACGACCA
* * * *
761986 CGAGC CGAGC CGTGC CGAGC CGTGC CGAGC CGAGA CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
762030 ACGGACGGAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.20, C:0.34, G:0.41, T:0.05
Consensus pattern (5 bp):
CGAGC
Found at i:762004 original size:10 final size:10
Alignment explanation
Indices: 761989--762017 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
761979 ACGACCACGA
761989 GCCGAGCCGT
1 GCCGAGCCGT
761999 GCCGAGCCGT
1 GCCGAGCCGT
762009 GCCGAGCCG
1 GCCGAGCCG
762018 AGACGAGACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.41, G:0.41, T:0.07
Consensus pattern (10 bp):
GCCGAGCCGT
Found at i:765064 original size:3 final size:3
Alignment explanation
Indices: 765058--765101 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
765048 GATGATGATG
* *
765058 ATT ATT ATT ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
765102 ATTGCAGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:765858 original size:45 final size:45
Alignment explanation
Indices: 765803--765898 Score: 140
Period size: 45 Copynumber: 2.1 Consensus size: 45
765793 AATTATAATT
* * *
765803 TTTTTAAAATATGAATTTATTAATTC-AACATTCTTTATAATTAAC
1 TTTTTAAAATATAAATTTATTAATTCAAAAAAT-TTTATAATTAAC
*
765848 TTTTTAAAATATAAATTTATTAATTCAAAAAATTTTATAATTAAT
1 TTTTTAAAATATAAATTTATTAATTCAAAAAATTTTATAATTAAC
765893 TTTTTA
1 TTTTTA
765899 TTTAATTGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.91
46 4 0.09
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (45 bp):
TTTTTAAAATATAAATTTATTAATTCAAAAAATTTTATAATTAAC
Found at i:770414 original size:2 final size:2
Alignment explanation
Indices: 770407--770483 Score: 131
Period size: 2 Copynumber: 39.5 Consensus size: 2
770397 TAATATCTCT
770407 TA TA TA TA TA TA TA 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
*
770449 TA TA TA TA TA TA TA T- TA TA TA T- TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
770484 CCTTAATTAT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
1 2 0.03
2 69 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:788826 original size:3 final size:3
Alignment explanation
Indices: 788818--788846 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
788808 AAATCTTTGT
788818 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
788847 TTGTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:793671 original size:345 final size:345
Alignment explanation
Indices: 793040--793732 Score: 1368
Period size: 345 Copynumber: 2.0 Consensus size: 345
793030 ACTGGTAATT
793040 ATTCTGCAATCTTCTAATTAAAAATTCCAATGATCTAGTTCTGGTTGATATTATAAATTGAAGCA
1 ATTCTGCAATCTTCTAATTAAAAATTCCAATGATCTAGTTCTGGTTGATATTATAAATTGAAGCA
793105 ACAGAAATACCAAATCAAGATATGCTCAACTTCACTATTATTTATTTCTCAGAGGTTTTTAATCT
66 ACAGAAATACCAAATCAAGATATGCTCAACTTCACTATTATTTATTTCTCAGAGGTTTTTAATCT
793170 CCTTTATGAGAAAAGGAGAGATATAGTTTGGTAGACTATAGGAAGAGATTTCCGTGAATTTTCCA
131 CCTTTATGAGAAAAGGAGAGATATAGTTTGGTAGACTATAGGAAGAGATTTCCGTGAATTTTCCA
793235 AGCCCAAAGCTTTCGCAGCAACACACAAATATACAGCAGTCAAAGAAGATAAACAACAGGAATGA
196 AGCCCAAAGCTTTCGCAGCAACACACAAATATACAGCAGTCAAAGAAGATAAACAACAGGAATGA
793300 TGCTGAAATGAAATAAGCTGGAGCTTTTAATATACACTTACACGGTTAGAATGCTTTTCAAGAAC
261 TGCTGAAATGAAATAAGCTGGAGCTTTTAATATACACTTACACGGTTAGAATGCTTTTCAAGAAC
793365 GGAAACCAAATTTCCAACTG
326 GGAAACCAAATTTCCAACTG
793385 ATTCTGCAATCTTCTAATTAAAAATTCCAATGATCTAGTTCTGGTTGATATTATAAATTGAAGCA
1 ATTCTGCAATCTTCTAATTAAAAATTCCAATGATCTAGTTCTGGTTGATATTATAAATTGAAGCA
793450 ACAGAAATACCAAATCAAGATATGCTCAACTTCACTATTATTTATTTCTCAGAGGTTTTTAATCT
66 ACAGAAATACCAAATCAAGATATGCTCAACTTCACTATTATTTATTTCTCAGAGGTTTTTAATCT
*
793515 CCTTTATGGGAAAAGGAGAGATATAGTTTGGTAGACTATAGGAAGAGATTTCCGTGAATTTTCCA
131 CCTTTATGAGAAAAGGAGAGATATAGTTTGGTAGACTATAGGAAGAGATTTCCGTGAATTTTCCA
*
793580 AGCCCAAAGCTTTGGCAGCAACACACAAATATACAGCAGTCAAAGAAGATAAACAACAGGAATGA
196 AGCCCAAAGCTTTCGCAGCAACACACAAATATACAGCAGTCAAAGAAGATAAACAACAGGAATGA
793645 TGCTGAAATGAAATAAGCTGGAGCTTTTAATATACACTTACACGGTTAGAATGCTTTTCAAGAAC
261 TGCTGAAATGAAATAAGCTGGAGCTTTTAATATACACTTACACGGTTAGAATGCTTTTCAAGAAC
793710 GGAAACCAAATTTCCAACTG
326 GGAAACCAAATTTCCAACTG
793730 ATT
1 ATT
793733 TAGGTTAGTA
Statistics
Matches: 346, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
345 346 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (345 bp):
ATTCTGCAATCTTCTAATTAAAAATTCCAATGATCTAGTTCTGGTTGATATTATAAATTGAAGCA
ACAGAAATACCAAATCAAGATATGCTCAACTTCACTATTATTTATTTCTCAGAGGTTTTTAATCT
CCTTTATGAGAAAAGGAGAGATATAGTTTGGTAGACTATAGGAAGAGATTTCCGTGAATTTTCCA
AGCCCAAAGCTTTCGCAGCAACACACAAATATACAGCAGTCAAAGAAGATAAACAACAGGAATGA
TGCTGAAATGAAATAAGCTGGAGCTTTTAATATACACTTACACGGTTAGAATGCTTTTCAAGAAC
GGAAACCAAATTTCCAACTG
Found at i:795833 original size:17 final size:18
Alignment explanation
Indices: 795811--795844 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
795801 ACACACATAA
*
795811 TAAATAA-AAACAAGGAC
1 TAAATAAGAAAAAAGGAC
795828 TAAATAAGAAAAAAGGA
1 TAAATAAGAAAAAAGGA
795845 AAACTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.68, C:0.06, G:0.15, T:0.12
Consensus pattern (18 bp):
TAAATAAGAAAAAAGGAC
Found at i:796509 original size:2 final size:2
Alignment explanation
Indices: 796502--796549 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
796492 TTAATGCTTA
796502 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
796544 AT AT AT
1 AT AT AT
796550 TAAAAAAAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:800127 original size:14 final size:14
Alignment explanation
Indices: 800108--800135 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
800098 TCCTAACCGA
800108 GGACGCACAACTGC
1 GGACGCACAACTGC
800122 GGACGCACAACTGC
1 GGACGCACAACTGC
800136 ATGCTAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.29, T:0.07
Consensus pattern (14 bp):
GGACGCACAACTGC
Found at i:802067 original size:68 final size:68
Alignment explanation
Indices: 801951--802081 Score: 217
Period size: 68 Copynumber: 1.9 Consensus size: 68
801941 CGACAGGTAG
* *
801951 TTGCTCTGGAGAATATGCATTTGCTGTGTGATTGCTTTTTGCACTTTCTAACATGTATGGCTAGA
1 TTGCTCCGGAGAATATGCATTTGCTGTGTGATTGCTTTTAGCACTTTCTAACATGTATGGCTAGA
802016 ATC
66 ATC
* * *
802019 TTGCTCCGGAGAATATGCATTTGCTGTGTGATTGCTTTTAGTATTTTCTAATATGTATGGCTA
1 TTGCTCCGGAGAATATGCATTTGCTGTGTGATTGCTTTTAGCACTTTCTAACATGTATGGCTA
802082 TTTTGCTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.43
Consensus pattern (68 bp):
TTGCTCCGGAGAATATGCATTTGCTGTGTGATTGCTTTTAGCACTTTCTAACATGTATGGCTAGA
ATC
Found at i:803554 original size:26 final size:26
Alignment explanation
Indices: 803503--803554 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
803493 TAGGAGTTTT
*
803503 TAAGTGAAATCTTGAAGAAGAGTTGA
1 TAAGTGAAATCTTGAAGAAAAGTTGA
* *
803529 TAAGTTAAAT-TTGAAGATAAATTTGA
1 TAAGTGAAATCTTGAAGA-AAAGTTGA
803555 CTTGTCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.33
Consensus pattern (26 bp):
TAAGTGAAATCTTGAAGAAAAGTTGA
Found at i:805495 original size:30 final size:30
Alignment explanation
Indices: 805459--805515 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
805449 CAGCCGAGGG
*
805459 TTACCTAAGTCCTTCGGGACATATGGACAA
1 TTACCTAAGTCCTTCGGAACATATGGACAA
* *
805489 TTACCTATGTTCTTCGGAACATATGGA
1 TTACCTAAGTCCTTCGGAACATATGGA
805516 TAGTGGCCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (30 bp):
TTACCTAAGTCCTTCGGAACATATGGACAA
Found at i:807835 original size:25 final size:27
Alignment explanation
Indices: 807803--807856 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
807793 GTATTCAGTA
*
807803 ATAATTTAATTAT-T-TTTAAAATATT
1 ATAATTTAATTATCTAATTAAAATATT
807828 ATAATTTAATTATCTAATTAAAATATT
1 ATAATTTAATTATCTAATTAAAATATT
807855 AT
1 AT
807857 TATAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 13 0.50
26 1 0.04
27 12 0.46
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATTTAATTATCTAATTAAAATATT
Found at i:808091 original size:3 final size:3
Alignment explanation
Indices: 808064--808107 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
808054 ATTACTTTCC
* *
808064 TAA T-A TAA TAA TGA TAT TAA T-A TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
808108 TTAACATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:810359 original size:123 final size:122
Alignment explanation
Indices: 810192--810472 Score: 300
Period size: 123 Copynumber: 2.3 Consensus size: 122
810182 TTGCTGTTTC
* * * * * *
810192 AAACAACTCAGGGT-CAAAACTCGAGTCGATCAGTGACTAAAATCAATCAGACATT-GAGTGTT-
1 AAACAAATCAGGGTGCAAAACTTGAATCAACCAGTGACTAAAATCAATAAGACATTCG-GTGTTC
* * * *
810254 TCTGGAAAGCCATAAAAGAGTCATTGGCTACTCAGAACACGTTTGAAAA-ATTGTTCTTTT
65 T-TGGAAAGCCATAAAAGAGTCATTGGCTACCCAGAACA--TGTCAAAAGATCGTTCTTTT
* * * * *
810314 AAACAATTCAGGGTGCAAAACTTGATTCAACCAGTGACTACAATCAATAAGGCCTTCGGTGTTCT
1 AAACAAATCAGGGTGCAAAACTTGAATCAACCAGTGACTAAAATCAATAAGACATTCGGTGTTCT
* * ** *
810379 TGGAAAGCTATGAGGGAGTCATTGGCTACCCAGATCATGTCAAAAGATCGTTCTTTT
66 TGGAAAGCCATAAAAGAGTCATTGGCTACCCAGAACATGTCAAAAGATCGTTCTTTT
* *
810436 AAGCAAATCAGGGTGCAAAAATTGAATCAACCAGTGA
1 AAACAAATCAGGGTGCAAAACTTGAATCAACCAGTGA
810473 ATAATCAGCA
Statistics
Matches: 133, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
121 6 0.05
122 56 0.42
123 69 0.52
124 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (122 bp):
AAACAAATCAGGGTGCAAAACTTGAATCAACCAGTGACTAAAATCAATAAGACATTCGGTGTTCT
TGGAAAGCCATAAAAGAGTCATTGGCTACCCAGAACATGTCAAAAGATCGTTCTTTT
Found at i:812604 original size:16 final size:18
Alignment explanation
Indices: 812574--812618 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
812564 TTAGTATTAT
*
812574 GAAAAGTAAATAATGAAA
1 GAAAAATAAATAATGAAA
812592 -AAAAATAAA-AATGAAA
1 GAAAAATAAATAATGAAA
812608 GAAAAA-AAATA
1 GAAAAATAAATA
812619 TAACTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
GAAAAATAAATAATGAAA
Found at i:813346 original size:2 final size:2
Alignment explanation
Indices: 813339--813390 Score: 68
Period size: 2 Copynumber: 25.5 Consensus size: 2
813329 CAGTAAAAAG
* * *
813339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AA AGC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
813382 AT AT AT AT A
1 AT AT AT AT A
813391 CACCCCCATC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
2 43 0.98
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:813580 original size:24 final size:24
Alignment explanation
Indices: 813553--813662 Score: 93
Period size: 24 Copynumber: 4.6 Consensus size: 24
813543 GTAAACGGAG
*
813553 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* * * *
813577 ATATAAGATATCAGAACATAATCC
1 ATATCAGAAATCAGAACAGAATTC
813601 ATATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
813624 AGGTAAC-G-TATCAGAACAGAATTC
1 A--TATCAGAAATCAGAACAGAATTC
*
813648 A-ATTCGGAAATCAGA
1 ATA-TCAGAAATCAGA
813663 TAAAATATTT
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 15 0.22
24 48 0.71
25 3 0.04
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:816131 original size:18 final size:18
Alignment explanation
Indices: 816100--816140 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
816090 CAATGGTCAA
*
816100 CGGGTCAACAGGTCGGGT
1 CGGGTAAACAGGTCGGGT
*
816118 CGGGTAAACGGGTCGGGT
1 CGGGTAAACAGGTCGGGT
816136 CGGGT
1 CGGGT
816141 TATGACTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTAAACAGGTCGGGT
Found at i:820246 original size:20 final size:19
Alignment explanation
Indices: 820221--820289 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
820211 GACAATATAA
820221 TGACAAAACTGGTTGCAAT
1 TGACAAAACTGGTTGCAAT
* *
820240 GTGACAAAACTGCTTACGAATT
1 -TGACAAAACTGGTTGC-AA-T
* *
820262 TGACAAAATTGGTTGAAAT
1 TGACAAAACTGGTTGCAAT
*
820281 AGACAAAAC
1 TGACAAAAC
820290 CGATAGAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.21
20 16 0.41
21 14 0.36
22 1 0.03
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (19 bp):
TGACAAAACTGGTTGCAAT
Found at i:832548 original size:37 final size:36
Alignment explanation
Indices: 832490--832608 Score: 179
Period size: 35 Copynumber: 3.3 Consensus size: 36
832480 TCCCATTATG
* *
832490 ATTTTTC-AACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTG-AAAACT
832526 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
*
832562 ATTTTT-AAAGAAACATTTACCAAACTTTGAAAACC
1 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
832597 ATTTTTTCAAAG
1 A-TTTTTCAAAG
832609 TTGGTTGCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 5
0.91 0.04 0.06
Matches are distributed among these distances:
35 29 0.38
36 24 0.31
37 24 0.31
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.34
Consensus pattern (36 bp):
ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACT
Found at i:835441 original size:21 final size:21
Alignment explanation
Indices: 835399--835441 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
835389 TTTCTGGGTT
* * *
835399 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
835420 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
835441 A
1 A
835442 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:835559 original size:66 final size:67
Alignment explanation
Indices: 835421--835570 Score: 250
Period size: 66 Copynumber: 2.3 Consensus size: 67
835411 ACCCATTCAA
835421 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
835486 GG
66 GG
* *
835488 GGGGAACCGATACCCCCTCAACGAATATGAA-TTCCAGAATGCTAGTGGGGAATCGATA-CCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
835551 GGG
66 -GG
*
835554 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
835571 ATGAGAAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 5 0.06
66 43 0.54
67 31 0.39
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAATTTCCAGAATACTAGAGGGGAATCGATACCCCCA
GG
Found at i:836243 original size:149 final size:149
Alignment explanation
Indices: 836052--836355 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
836042 GGGTAGAGGG
836052 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
*
836117 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
836182 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
836201 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
* *
836266 ACTTGATCTATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGATATCATTA
66 ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
836331 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
836350 TCTACG
1 TCTACG
836356 GGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTTCTTTAGGACATATGTATATCCTTTGGAACATGTGTGAAGTCTTAAAAGACACAT
ACTTGATCCATAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:836378 original size:23 final size:23
Alignment explanation
Indices: 836334--836378 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
836324 ATCATTATAT
*
836334 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
836357 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
836379 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:841950 original size:17 final size:19
Alignment explanation
Indices: 841920--841954 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
841910 TTCTCTTATT
841920 TTTTCTTCCTTCTTCCTTA
1 TTTTCTTCCTTCTTCCTTA
841939 TTTTCTT-C-TCTTCCTT
1 TTTTCTTCCTTCTTCCTT
841955 CTCCCAAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 1 0.06
19 7 0.44
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTCTTCCTTCTTCCTTA
Done.