Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003484.1 Hibiscus syriacus cultivar Beakdansim tig00007364_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: 166059
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:3359 original size:41 final size:42
Alignment explanation
Indices: 3290--3390 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 42
3280 TTTATAATGT
* * * *
3290 TAAAATATGTTATTTAATTATTAAAAATATAGTAAATTATGA
1 TAAAATATATTATTTAATAATTAAAAATATAATAAATGATGA
* *
3332 TAAAATATATT-TTTAATAATTTAAAATATAATAAATGATTA
1 TAAAATATATTATTTAATAATTAAAAATATAATAAATGATGA
3373 T-AAATATATTATTTAATA
1 TAAAATATATTATTTAATA
3391 TTTTTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 9 0.17
41 33 0.63
42 10 0.19
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (42 bp):
TAAAATATATTATTTAATAATTAAAAATATAATAAATGATGA
Found at i:3796 original size:32 final size:32
Alignment explanation
Indices: 3760--3830 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
3750 AATATTTATG
3760 CAATACTTGATCTAAACTAATCAATAAAAATA
1 CAATACTTGATCTAAACTAATCAATAAAAATA
* * * * * *
3792 CAATACTTGATTTGAATTCATCAATAATAATG
1 CAATACTTGATCTAAACTAATCAATAAAAATA
3824 CAATACT
1 CAATACT
3831 CGTTCTGAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.32
Consensus pattern (32 bp):
CAATACTTGATCTAAACTAATCAATAAAAATA
Found at i:3840 original size:32 final size:32
Alignment explanation
Indices: 3779--3841 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
3769 ATCTAAACTA
*
3779 ATCAATAAAAATACAATACTTGATTTGAATTC
1 ATCAATAAAAATACAATACTCGATTTGAATTC
* *
3811 ATCAATAATAATGCAATACTCG-TTCTGAATT
1 ATCAATAAAAATACAATACTCGATT-TGAATT
3842 AGTCTAGTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (32 bp):
ATCAATAAAAATACAATACTCGATTTGAATTC
Found at i:4629 original size:18 final size:19
Alignment explanation
Indices: 4601--4636 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4591 CGTTATGAGT
4601 TGGGAGGAATCGGTACCCC
1 TGGGAGGAATCGGTACCCC
4620 TGGG-GGAATCGGTACCC
1 TGGGAGGAATCGGTACCC
4637 TCCGGGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.19, C:0.25, G:0.39, T:0.17
Consensus pattern (19 bp):
TGGGAGGAATCGGTACCCC
Found at i:13022 original size:32 final size:32
Alignment explanation
Indices: 12950--13040 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
12940 CTTATATAGT
** **
12950 ACTTGATCTAAATTAATCAATAAGAATTCAGTA
1 ACTTGATCTAAATTAATCAATAA-AAAACACAA
* *
12983 A-TCGATCTGAATTAATCAATAAAAAACACAA
1 ACTTGATCTAAATTAATCAATAAAAAACACAA
*
13014 ACTTGATCTAAATTAATTAATAAAAAA
1 ACTTGATCTAAATTAATCAATAAAAAA
13041 TAAAATAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 6 0.12
32 41 0.85
33 1 0.02
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.30
Consensus pattern (32 bp):
ACTTGATCTAAATTAATCAATAAAAAACACAA
Found at i:14613 original size:28 final size:29
Alignment explanation
Indices: 14569--14626 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
14559 ATTTATCATA
*
14569 AAAATTAATATTATTATTTTTAAAATATT
1 AAAATTAATATTATTATTATTAAAATATT
14598 AAAA-TAAT-TTATTTATTATTAAAATATT
1 AAAATTAATATTA-TTATTATTAAAATATT
14626 A
1 A
14627 TTTTTATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 3 0.11
28 20 0.74
29 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
AAAATTAATATTATTATTATTAAAATATT
Found at i:14632 original size:20 final size:20
Alignment explanation
Indices: 14580--14633 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
14570 AAATTAATAT
*
14580 TATTATTTTTAAAATATTAAAA
1 TATTATTTTT--ATTATTAAAA
*
14602 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
14622 TATTATTTTTAT
1 TATTATTTTTAT
14634 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
22 5 0.19
23 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:14752 original size:22 final size:22
Alignment explanation
Indices: 14727--14769 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14717 ATAGTGTTAT
14727 TATATTTTAAA-ATATTAATTAG
1 TATA-TTTAAATATATTAATTAG
*
14749 TATATTTAAATATATTTATTA
1 TATATTTAAATATATTAATTA
14770 AAATATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATATTTAAATATATTAATTAG
Found at i:14775 original size:22 final size:21
Alignment explanation
Indices: 14732--14776 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
14722 GTTATTATAT
**
14732 TTTAAAATATTAATTAGTATA
1 TTTAAAATATTAATTAAAATA
*
14753 TTTAAATATATTTATTAAAATA
1 TTTAAA-ATATTAATTAAAATA
14775 TT
1 TT
14777 ATTAGATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTAAAATATTAATTAAAATA
Found at i:14832 original size:19 final size:19
Alignment explanation
Indices: 14764--14832 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
14754 TTAAATATAT
14764 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
14783 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
14802 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
14822 TTATTAATAAT
1 TTATTAATAAT
14833 TTAATAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
18 8 0.20
19 18 0.44
20 8 0.20
22 7 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:14974 original size:22 final size:22
Alignment explanation
Indices: 14944--14992 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14934 TATAATTGAT
*
14944 TATTTTATTATAATATTAAAAA
1 TATTATATTATAATATTAAAAA
* *
14966 TATTATATTATATTATTAGAAA
1 TATTATATTATAATATTAAAAA
14988 TATTA
1 TATTA
14993 ATAAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTATATTATAATATTAAAAA
Found at i:15069 original size:24 final size:25
Alignment explanation
Indices: 15022--15070 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
15012 TTTAATAATT
*
15022 AATATTTTAATTAAAATGATATTAA
1 AATATTTTAATTAAAATGAAATTAA
* *
15047 AATATTTT-ATTAATATTAAATTAA
1 AATATTTTAATTAAAATGAAATTAA
15071 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AATATTTTAATTAAAATGAAATTAA
Found at i:24178 original size:3 final size:3
Alignment explanation
Indices: 24170--24213 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
24160 GATCTATAAA
*
24170 ATT ATT ATT AAT A-T ATT ATT ATT ATT ATT ATT ATT ATT AATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT
24214 AAATATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:25834 original size:30 final size:30
Alignment explanation
Indices: 25731--25834 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
25721 TTTTAGTTGT
* *
25731 TGTTTTTACTA-TTTAA-CCCTTTAAGATCA
1 TGTTTTTACTATTTTAATCCCTTAAATAT-A
** * * *
25760 CATTTTTACTATTTCAGTCCTTTAAATATA
1 TGTTTTTACTATTTTAATCCCTTAAATATA
* * *
25790 TGTTTTTGCTATTTTAATCCCTTAAATGTC
1 TGTTTTTACTATTTTAATCCCTTAAATATA
25820 TGTTTTTACTATTTT
1 TGTTTTTACTATTTT
25835 GGACCTTTAA
Statistics
Matches: 57, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
29 9 0.16
30 40 0.70
31 8 0.14
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (30 bp):
TGTTTTTACTATTTTAATCCCTTAAATATA
Found at i:25845 original size:30 final size:30
Alignment explanation
Indices: 25762--25918 Score: 104
Period size: 30 Copynumber: 5.3 Consensus size: 30
25752 TAAGATCACA
** * * *
25762 TTTTTACTATTTCAGTCCTTTAAATATATG
1 TTTTTACTATTTTGGACCTTTAAATTTCTG
* * * *
25792 TTTTTGCTATTTT-AATCCCTTAAATGTCTG
1 TTTTTACTATTTTGGA-CCTTTAAATTTCTG
*
25822 TTTTTACTATTTTGGACCTTTAAATTTTTG
1 TTTTTACTATTTTGGACCTTTAAATTTCTG
* * *
25852 TTGTTGA-T-TTTTGGTCCTTTAAGTTTCTG
1 TT-TTTACTATTTTGGACCTTTAAATTTCTG
* * * * *
25881 TATTTATTATTTTGGCCCTTTAACTTTATG
1 TTTTTACTATTTTGGACCTTTAAATTTCTG
*
25911 TATTTACT
1 TTTTTACT
25919 GTTTAGCCCT
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
28 3 0.03
29 20 0.20
30 73 0.73
31 4 0.04
ACGTcount: A:0.20, C:0.13, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTTTACTATTTTGGACCTTTAAATTTCTG
Found at i:25928 original size:29 final size:30
Alignment explanation
Indices: 25867--25930 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
25857 GATTTTTGGT
* * * * *
25867 CCTTTAAGTTTCTGTATTTATTATTTTGGC
1 CCTTTAACTTTATGTATTTACTAGTTTAGC
25897 CCTTTAACTTTATGTATTTACT-GTTTAGC
1 CCTTTAACTTTATGTATTTACTAGTTTAGC
25926 CCTTT
1 CCTTT
25931 TAATTTCTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (30 bp):
CCTTTAACTTTATGTATTTACTAGTTTAGC
Found at i:27714 original size:12 final size:12
Alignment explanation
Indices: 27690--27723 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
27680 TAATTTACCC
*
27690 TAAATTATTATA
1 TAAATTATAATA
*
27702 TAAGTTATAATA
1 TAAATTATAATA
27714 TAAATTATAA
1 TAAATTATAA
27724 AAATATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (12 bp):
TAAATTATAATA
Found at i:27766 original size:2 final size:2
Alignment explanation
Indices: 27759--27792 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
27749 TTATCCTAAA
27759 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
27793 GCAACAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28609 original size:20 final size:21
Alignment explanation
Indices: 28569--28610 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
28559 ATCAGATTGT
28569 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
*
28590 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACAGATTCCCCC
28611 TTGTCTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.40, G:0.29, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACAGATTCCCCC
Found at i:28998 original size:34 final size:32
Alignment explanation
Indices: 28959--29028 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
28949 TTTTGTAAAG
* *
28959 GGGAAAGGTTCTAGCTTATCCCGTGTAAAATCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
28993 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
29025 GGGA
1 GGGA
29029 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:32036 original size:42 final size:42
Alignment explanation
Indices: 31989--32092 Score: 156
Period size: 42 Copynumber: 2.5 Consensus size: 42
31979 GATTGTCCAT
* *
31989 GGGGTACAGATTCCCCCCAGGGGGTACAGATT-CCCCCCCCA
1 GGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCCCCCCCA
32030 GGGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCCCCCCCCA
1 -GGGGTACCGATTCCCCCCAGGGGGAACAGATT-CCCCCCCCCA
*
32074 AGGGTACCGATTCCCCCCA
1 GGGGTACCGATTCCCCCCA
32093 CGCTCCAAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
42 30 0.53
43 18 0.32
44 9 0.16
ACGTcount: A:0.19, C:0.41, G:0.26, T:0.13
Consensus pattern (42 bp):
GGGGTACCGATTCCCCCCAGGGGGAACAGATTCCCCCCCCCA
Found at i:32069 original size:22 final size:20
Alignment explanation
Indices: 31989--32068 Score: 124
Period size: 20 Copynumber: 3.9 Consensus size: 20
31979 GATTGTCCAT
31989 GGGGTACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
32009 GGGGTACAGATTCCCCCCCCAG
1 GGGGTACAGATT--CCCCCCAG
*
32031 GGGGTACCGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
*
32051 GGGGAACAGATTCCCCCC
1 GGGGTACAGATTCCCCCC
32069 CCCCAAGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
20 36 0.65
22 19 0.35
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.14
Consensus pattern (20 bp):
GGGGTACAGATTCCCCCCAG
Found at i:33316 original size:19 final size:19
Alignment explanation
Indices: 33294--33334 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
33284 TAATAATATA
33294 ATAAAATAATAAAATAATT
1 ATAAAATAATAAAATAATT
*
33313 ATAATATAATAAAATAATT
1 ATAAAATAATAAAATAATT
33332 ATA
1 ATA
33335 GTGAAACCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAATAATAAAATAATT
Found at i:43194 original size:9 final size:9
Alignment explanation
Indices: 43182--43250 Score: 84
Period size: 9 Copynumber: 7.7 Consensus size: 9
43172 ACAATTCCAT
43182 AAATTCAAG
1 AAATTCAAG
*
43191 AAATTCCAG
1 AAATTCAAG
*
43200 TAATTCAAG
1 AAATTCAAG
* *
43209 AAATTCCAT
1 AAATTCAAG
43218 AAATTCAAG
1 AAATTCAAG
*
43227 AAATTCCAG
1 AAATTCAAG
*
43236 TAATTCAAG
1 AAATTCAAG
43245 AAATTC
1 AAATTC
43251 CAATACTGGA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 48 1.00
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.28
Consensus pattern (9 bp):
AAATTCAAG
Found at i:43197 original size:18 final size:18
Alignment explanation
Indices: 43174--43252 Score: 126
Period size: 18 Copynumber: 4.4 Consensus size: 18
43164 AAAATGGTAC
43174 AATTCCA-TAAATTCAAGA
1 AATTCCAGT-AATTCAAGA
43192 AATTCCAGTAATTCAAGA
1 AATTCCAGTAATTCAAGA
43210 AATTCCA-TAAATTCAAGA
1 AATTCCAGT-AATTCAAGA
43228 AATTCCAGTAATTCAAGA
1 AATTCCAGTAATTCAAGA
43246 AATTCCA
1 AATTCCA
43253 ATACTGGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.02
18 55 0.95
19 2 0.03
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (18 bp):
AATTCCAGTAATTCAAGA
Found at i:43221 original size:36 final size:36
Alignment explanation
Indices: 43174--43252 Score: 158
Period size: 36 Copynumber: 2.2 Consensus size: 36
43164 AAAATGGTAC
43174 AATTCCATAAATTCAAGAAATTCCAGTAATTCAAGA
1 AATTCCATAAATTCAAGAAATTCCAGTAATTCAAGA
43210 AATTCCATAAATTCAAGAAATTCCAGTAATTCAAGA
1 AATTCCATAAATTCAAGAAATTCCAGTAATTCAAGA
43246 AATTCCA
1 AATTCCA
43253 ATACTGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (36 bp):
AATTCCATAAATTCAAGAAATTCCAGTAATTCAAGA
Found at i:50159 original size:24 final size:26
Alignment explanation
Indices: 50125--50172 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
50115 ACCGAAACAG
50125 ACCCACATTAC-ATTACAAATCAAAT
1 ACCCACATTACAATTACAAATCAAAT
*
50150 ACCCA-ATTACAATTTCAAATCAA
1 ACCCACATTACAATTACAAATCAA
50173 GCCTAAACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (26 bp):
ACCCACATTACAATTACAAATCAAAT
Found at i:65164 original size:20 final size:19
Alignment explanation
Indices: 65139--65192 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
65129 GCGAAATAAA
65139 AATCGCAACGCGATCTCCAG
1 AATCGCAACGCGATC-CCAG
** *
65159 AATCGCAAATCAGTTCCCAG
1 AATCGCAACGC-GATCCCAG
65179 AATCGCAACGCGAT
1 AATCGCAACGCGAT
65193 TATGAAGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (19 bp):
AATCGCAACGCGATCCCAG
Found at i:65203 original size:21 final size:21
Alignment explanation
Indices: 65177--65296 Score: 88
Period size: 21 Copynumber: 5.8 Consensus size: 21
65167 ATCAGTTCCC
65177 AGAATCGCAACGCGATTATGA
1 AGAATCGCAACGCGATTATGA
*
65198 AGAATCGCAATGCGA-TA-GTA
1 AGAATCGCAACGCGATTATG-A
** * **
65218 CA-AATTCGCATTGCGATTTTTC
1 -AGAA-TCGCAACGCGATTATGA
*
65240 AGAATCGCAACGCGAATATGA
1 AGAATCGCAACGCGATTATGA
**
65261 A-AATCGCAACGCGAACAT-A
1 AGAATCGCAACGCGATTATGA
*
65280 AAAATCGCAACGCGATT
1 AGAATCGCAACGCGATT
65297 CTGACTATCG
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
19 3 0.04
20 34 0.44
21 38 0.49
22 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (21 bp):
AGAATCGCAACGCGATTATGA
Found at i:65267 original size:20 final size:20
Alignment explanation
Indices: 65242--65476 Score: 199
Period size: 20 Copynumber: 11.7 Consensus size: 20
65232 GATTTTTCAG
** *
65242 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
*
65262 AATCGCAACGCGAA--CATAAA
1 AATCGCAACGCGAATCCGT--A
* *
65282 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * *
65301 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
65323 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
65343 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* * *
65363 AATCGTAACGCGTATCTGTA
1 AATCGCAACGCGAATCCGTA
* *
65383 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
65403 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
65423 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
65444 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
65464 AATCGCAACGCGA
1 AATCGCAACGCGA
65477 TTTTTAAAGC
Statistics
Matches: 169, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.01
20 133 0.79
21 34 0.20
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:65377 original size:40 final size:41
Alignment explanation
Indices: 65303--65473 Score: 274
Period size: 40 Copynumber: 4.2 Consensus size: 41
65293 GATTCTGACT
* *
65303 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
65344 ATCGCAACGAGAATACGT-AAATCGTAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
65384 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
65424 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
65465 ATCGCAACG
1 ATCGCAACG
65474 CGATTTTTAA
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
40 74 0.62
41 46 0.38
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:66039 original size:20 final size:20
Alignment explanation
Indices: 66011--66136 Score: 97
Period size: 20 Copynumber: 6.6 Consensus size: 20
66001 TTCTAAACTT
* *
66011 AAAAGCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
66031 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
66051 ACTATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
66071 ACTATCGCAACGA-GAGAAATT
1 AAAATCGCAAC-ACGA-AAATG
66092 AAAATCGC-A-ACG---A-G
1 AAAATCGCAACACGAAAATG
* *
66106 AGAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
66125 AAAATCGCAACA
1 AAAATCGCAACA
66137 AGATAATCGC
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.08
15 2 0.02
16 2 0.02
18 2 0.02
19 12 0.14
20 50 0.58
21 11 0.13
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:66129 original size:33 final size:33
Alignment explanation
Indices: 66086--66166 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
66076 CGCAACGAGA
* *
66086 GAAATTAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATCAAAATCGCAACAAGAGAATCGCAACGC
* *
66119 GAAATGAAAATCGCAACAAGATAATCGCAACGC
1 GAAATCAAAATCGCAACAAGAGAATCGCAACGC
*
66152 GAAACCAAAATCGCA
1 GAAATCAAAATCGCA
66167 TTGCGATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (33 bp):
GAAATCAAAATCGCAACAAGAGAATCGCAACGC
Found at i:66214 original size:33 final size:33
Alignment explanation
Indices: 66167--66287 Score: 136
Period size: 33 Copynumber: 3.5 Consensus size: 33
66157 CAAAATCGCA
66167 TTGCGA-TTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
66199 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCA
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
66232 TTGCGATAGTCATTTCCGCTTTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATTT-CGCGTTGC----G--ATTCTCTCG
66272 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
66288 AACCAAAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
32 6 0.08
33 38 0.51
34 7 0.09
38 1 0.01
39 1 0.01
40 21 0.28
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:66221 original size:19 final size:18
Alignment explanation
Indices: 66162--66225 Score: 73
Period size: 18 Copynumber: 3.7 Consensus size: 18
66152 GAAACCAAAA
*
66162 TCGCATTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
66180 TCGCGTTGCGA-TTC---
1 TCGCGTTGCGATTTCATT
*
66194 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
66213 TCGCGTTGCGATT
1 TCGCGTTGCGATT
66226 CTCTCATTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
18 12 0.32
19 10 0.26
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:66285 original size:20 final size:20
Alignment explanation
Indices: 66223--66278 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
66213 TCGCGTTGCG
*
66223 ATTCTCTCATTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
66243 ATT-TC-CGCTTTGCGATAGTC
1 ATTCTCTCG--TTGCGATAGTC
66263 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
66279 TTTCATTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 24 0.77
21 2 0.06
22 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:68151 original size:94 final size:94
Alignment explanation
Indices: 67986--68365 Score: 595
Period size: 94 Copynumber: 4.1 Consensus size: 94
67976 TAGATTGCTT
* * * *
67986 AGTAAATTTACTCGGTTGCTGCCAA-TACTGCTAAATTGTTTATTCTTTAACATTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAATTA-TGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
*
68050 TAATTGTCTTTTGTTTTGTCTTTTGGTTG-A
65 TATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
68080 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68145 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
68174 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTAAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
68239 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * * * *
68268 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
68333 ATTTGTCTTTTTTTTGTCTTTTGGTTG-A
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
68361 AGTAA
1 AGTAA
68366 TGCAATCCAT
Statistics
Matches: 271, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
93 26 0.10
94 243 0.90
95 2 0.01
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.48
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:68487 original size:14 final size:14
Alignment explanation
Indices: 68468--68525 Score: 71
Period size: 14 Copynumber: 3.8 Consensus size: 14
68458 AACGCGAAAT
68468 GAATCGCAACGAGA
1 GAATCGCAACGAGA
68482 GAATCGCAACGAGAAA
1 GAATCGCAACGAG--A
68498 TGAAAATCGCAACGAGA
1 -G--AATCGCAACGAGA
68515 GAATCGCAACG
1 GAATCGCAACG
68526 CGAAATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 23 0.59
16 2 0.05
17 2 0.05
19 12 0.31
ACGTcount: A:0.45, C:0.21, G:0.26, T:0.09
Consensus pattern (14 bp):
GAATCGCAACGAGA
Found at i:68507 original size:19 final size:18
Alignment explanation
Indices: 68430--68545 Score: 79
Period size: 19 Copynumber: 6.7 Consensus size: 18
68420 ACGAAACTTA
*
68430 AAATCGCAACGTGAAAAATG
1 AAATCGCAAC--GAGAAATG
* *
68450 ACTATCGCAACGCGAAATG
1 A-AATCGCAACGAGAAATG
68469 -AATCGCAACGAG--A-G
1 AAATCGCAACGAGAAATG
68483 -AATCGCAACGAGAAATG
1 AAATCGCAACGAGAAATG
68500 AAAATCGCAACGAG--A-G
1 -AAATCGCAACGAGAAATG
*
68516 -AATCGCAACGCGAAATG
1 AAATCGCAACGAGAAATG
*
68533 AAAACCGCAACGA
1 -AAATCGCAACGA
68546 CAAAATCGCA
Statistics
Matches: 77, Mismatches: 8, Indels: 23
0.71 0.07 0.21
Matches are distributed among these distances:
14 24 0.31
15 1 0.01
16 3 0.04
17 13 0.17
19 27 0.35
20 1 0.01
21 8 0.10
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGAGAAATG
Found at i:68511 original size:33 final size:33
Alignment explanation
Indices: 68453--68577 Score: 173
Period size: 33 Copynumber: 3.8 Consensus size: 33
68443 AAAAATGACT
68453 ATCGCAACGCGAAATG--AATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
68484 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
68517 ATCGCAACGCGAAATGAAAACCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* **
68550 ATCGCAACGTGAAACCAAAATCGCAACG
1 ATCGCAACGCGAAATGAAAATCGCAACG
68578 CGAAACTATT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 15 0.18
33 68 0.82
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:68592 original size:19 final size:19
Alignment explanation
Indices: 68546--68583 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
68536 ACCGCAACGA
*
68546 CAAAATCGCAACGTGAAAC
1 CAAAATCGCAACGCGAAAC
68565 CAAAATCGCAACGCGAAAC
1 CAAAATCGCAACGCGAAAC
68584 TATTATCGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.08
Consensus pattern (19 bp):
CAAAATCGCAACGCGAAAC
Found at i:69228 original size:21 final size:21
Alignment explanation
Indices: 69137--69244 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
69127 GACTCACCTG
*
69137 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
69159 T-ATCGTTCAAAAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
69179 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
69200 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* **
69221 TCATCGTTGAAGAGATCCCTC
1 TCATCGTTCAAGAGGCCCCTC
69242 TCA
1 TCA
69245 ACATTCTAGA
Statistics
Matches: 63, Mismatches: 22, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:69234 original size:42 final size:41
Alignment explanation
Indices: 69134--69239 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 41
69124 CCCGACTCAC
* * * *
69134 CTGTCATCGTTCAAGAGGCCTCCCCTATCGTTCAAAAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCCCCACCGTTCAAAAGGCCA
* ** *
69176 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCC-CCCACCGTTCAAAAGGCCA
*
69218 CTGTCATCGTTGAAGAGATCCC
1 CTGTCATCGTTCAAGAG-TCCC
69240 TCTCAACATT
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 2 0.04
42 44 0.88
43 4 0.08
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (41 bp):
CTGTCATCGTTCAAGAGTCCCCCCCACCGTTCAAAAGGCCA
Found at i:70618 original size:14 final size:14
Alignment explanation
Indices: 70599--70634 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
70589 ATTGTTTAAT
70599 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
70613 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
70627 TGATTTGT
1 TGATTTGT
70635 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:70834 original size:19 final size:19
Alignment explanation
Indices: 70771--70855 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
70761 AACGAGAGAA
*
70771 TCGCGTTGCGATTTTCATTT
1 TCGCATTGCGATTTTCA-TT
*
70791 TCGCATTGCGA--TTCA-C
1 TCGCATTGCGATTTTCATT
70807 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
70824 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
70843 TCGTATTGCGATT
1 TCGCATTGCGATT
70856 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 3 0.05
18 4 0.07
19 26 0.46
20 10 0.18
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:70856 original size:52 final size:53
Alignment explanation
Indices: 70771--70950 Score: 182
Period size: 52 Copynumber: 3.3 Consensus size: 53
70761 AACGAGAGAA
**
70771 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATT
* * *
70824 TCGCATTGCGATTTTCA-TTTCGTATTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATT
** * * * *
70876 TCCGCGTTGCGATAGTCAATTCCGCATTACGATATTCATTTCCGTGTTGCGATAGTCATAT
1 T-CGCGTTGCGATTTTCATTTTCGCATTGCG--ATTCA-CT-C--GTTGCGATAGTCAT-T
70937 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
70951 CCGCGTTGCG
Statistics
Matches: 103, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
52 32 0.31
53 29 0.28
54 9 0.09
56 4 0.04
57 1 0.01
58 1 0.01
60 25 0.24
61 2 0.02
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (53 bp):
TCGCGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATAGTCATT
Found at i:70885 original size:20 final size:20
Alignment explanation
Indices: 70860--70948 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
70850 GCGATTCTCT
70860 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
70880 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
70900 CATTACGATATTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
70920 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
70940 CGTTGCGAT
1 CGTTGCGAT
70949 TTCCGCGTTG
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
20 56 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:70957 original size:14 final size:14
Alignment explanation
Indices: 70938--70976 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
70928 TAGTCATATT
70938 CGCGTTGCGATTTC
1 CGCGTTGCGATTTC
70952 CGCGTTGCGATTTC
1 CGCGTTGCGATTTC
70966 CGCGTTGCGAT
1 CGCGTTGCGAT
70977 AGTCAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.08, C:0.28, G:0.31, T:0.33
Consensus pattern (14 bp):
CGCGTTGCGATTTC
Found at i:71173 original size:20 final size:20
Alignment explanation
Indices: 71142--71238 Score: 133
Period size: 20 Copynumber: 4.8 Consensus size: 20
71132 GTCCCAAAAG
71142 GTATTCACATTGCGATTTAC
1 GTATTCACATTGCGATTTAC
*
71162 AG-ATTCAAATTGCGATTTAC
1 -GTATTCACATTGCGATTTAC
*
71182 GTATTCGCATTGCGATTTAC
1 GTATTCACATTGCGATTTAC
*
71202 GTATTCGCATTGCGATTTAC
1 GTATTCACATTGCGATTTAC
* *
71222 GTATTCGCGTTGCGATT
1 GTATTCACATTGCGATT
71239 CTGGAAAATC
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
19 1 0.01
20 69 0.97
21 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATTCACATTGCGATTTAC
Found at i:71291 original size:21 final size:20
Alignment explanation
Indices: 71149--71301 Score: 94
Period size: 20 Copynumber: 7.5 Consensus size: 20
71139 AAGGTATTCA
* * *
71149 CATTGCGATTTACAGATTCA
1 CATTGCGATTTACATAATCG
* * *
71169 AATTGCGATTTACGTATTCG
1 CATTGCGATTTACATAATCG
* *
71189 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACATAATCG
* *
71209 CATTGCGATTTACGTATTCG
1 CATTGCGATTTACATAATCG
* ** *
71229 CGTTGCGATTCTGGAAAATCG
1 CATTGCGATT-TACATAATCG
*
71250 CAATGCGAATTTGTAC-T-ATCG
1 CATTGCG-A-TT-TACATAATCG
*
71271 CATTGCGATTCTTCATAATCG
1 CATTGCGATT-TACATAATCG
*
71292 CGTTGCGATT
1 CATTGCGATT
71302 CTGGGAACTG
Statistics
Matches: 107, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
19 4 0.04
20 66 0.62
21 33 0.31
22 1 0.01
23 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (20 bp):
CATTGCGATTTACATAATCG
Found at i:71340 original size:20 final size:19
Alignment explanation
Indices: 71288--71341 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
71278 ATTCTTCATA
*
71288 ATCGCGTTGCGATTCTGGG
1 ATCGAGTTGCGATTCTGGG
* * *
71307 AACTGATTTACGATTCTGGAG
1 ATC-GAGTTGCGATTCTGG-G
71328 ATCGAGTTGCGATT
1 ATCGAGTTGCGATT
71342 TTTATTTCGC
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (19 bp):
ATCGAGTTGCGATTCTGGG
Found at i:77187 original size:20 final size:21
Alignment explanation
Indices: 77162--77210 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
77152 TCCCAATTTA
*
77162 CAATGCGAA-TAAGTAAATCG
1 CAATGCGAATTAAGAAAATCG
* **
77182 CAATGCAAATTTGGAAAATCG
1 CAATGCGAATTAAGAAAATCG
77203 CAATGCGA
1 CAATGCGA
77211 TACTAACTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (21 bp):
CAATGCGAATTAAGAAAATCG
Found at i:77312 original size:20 final size:20
Alignment explanation
Indices: 77200--77316 Score: 153
Period size: 20 Copynumber: 5.8 Consensus size: 20
77190 ATTTGGAAAA
* * * *
77200 TCGCAATGCGATACTAACTA
1 TCGCAACGCGATTCTGACTT
*
77220 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
77240 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
**
77260 TCGCAATACGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
77280 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
77300 TCGCAACGAGATTCTGA
1 TCGCAACGCGATTCTGA
77317 AAATCGCAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:77323 original size:20 final size:20
Alignment explanation
Indices: 77280--77325 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
77270 ATTCTGACTT
* ***
77280 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATTCTGAAAA
77300 TCGCAACGAGATTCTGAAAA
1 TCGCAACGAGATTCTGAAAA
77320 TCGCAA
1 TCGCAA
77326 TCATCTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAACGAGATTCTGAAAA
Found at i:77324 original size:40 final size:40
Alignment explanation
Indices: 77195--77325 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 40
77185 TGCAAATTTG
* * * * *
77195 GAAAATCGCAATGCGATACTAACTATCGCAACGCGATACT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATTCT
*** *
77235 GACTTTCGCAACGCGATACTGACTTTCGCAA-TACGATTCT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGA-GATTCT
*** *
77275 GACTTTCGCAACGCGATTCTGACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATTCT
77315 GAAAATCGCAA
1 GAAAATCGCAA
77326 TCATCTTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
GAAAATCGCAACGCGATACTGACTTTCGCAACGAGATTCT
Found at i:77324 original size:60 final size:60
Alignment explanation
Indices: 77195--77326 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 60
77185 TGCAAATTTG
* *
77195 GAAAATCGCAATGCGATACTAACTATCGCAACGCGATACTGACTTTCGCAACGCGATACT
1 GAAAATCGCAATACGATACTAACTATCGCAACGCGATACTGACTTTCGCAACGAGATACT
*** * * * * *
77255 GACTTTCGCAATACGATTCTGACTTTCGCAACGCGATTCTGACTTTCGCAACGAGATTCT
1 GAAAATCGCAATACGATACTAACTATCGCAACGCGATACTGACTTTCGCAACGAGATACT
77315 GAAAATCGCAAT
1 GAAAATCGCAAT
77327 CATCTTCAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (60 bp):
GAAAATCGCAATACGATACTAACTATCGCAACGCGATACTGACTTTCGCAACGAGATACT
Found at i:77564 original size:20 final size:20
Alignment explanation
Indices: 77539--77634 Score: 129
Period size: 20 Copynumber: 4.8 Consensus size: 20
77529 CAACGGGGAA
*
77539 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGGCT
*
77559 ATCGCAATGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
***
77579 ATCGCAAAATGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
77599 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
* *
77619 ATCTCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
77635 CGCAATGCGA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:77633 original size:60 final size:59
Alignment explanation
Indices: 77539--77653 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
77529 CAACGGGGAA
* * * *
77539 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGGCTATCGCAAAATGAAAATGGCT
1 ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATCGCAAT-GCAAAATGAAAATGGCT
* * *
77599 ATCGCAACGCGAAAATGGCTATCTCAACGAGAAAATCGCAATGCGAAATGAAAAT
1 ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATCGCAATGCAAAATGAAAAT
77654 CGCATTGCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 12 0.25
60 36 0.75
ACGTcount: A:0.42, C:0.20, G:0.21, T:0.17
Consensus pattern (59 bp):
ATCGCAACGCGAAAATGACTATCGCAACGAGAAAATCGCAATGCAAAATGAAAATGGCT
Found at i:77705 original size:34 final size:34
Alignment explanation
Indices: 77653--77732 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
77643 GAAATGAAAA
* * * * *
77653 TCGCATTGCAATTTTCTCGTTGCGATAGCCATTT
1 TCGCGTTGCGATTCTCTCGTTGCAATAGCCAGTT
*
77687 TCGCGTTGCGATTCTCTCGTTGCAATAGTCAGTT
1 TCGCGTTGCGATTCTCTCGTTGCAATAGCCAGTT
*
77721 TCGTGTTGCGAT
1 TCGCGTTGCGAT
77733 AGTCTGTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.40
Consensus pattern (34 bp):
TCGCGTTGCGATTCTCTCGTTGCAATAGCCAGTT
Found at i:79337 original size:41 final size:42
Alignment explanation
Indices: 79283--79374 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
79273 CCTCTTCAAC
* * * *
79283 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTAGAGGAGACTCTTGAGG
* *
79324 GATGATAGGGGCCTCTTGAACGATTAGAGGAGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTAGAGGAGACTCTTGAGG
79366 GATGACAGG
1 GATGACAGG
79375 TGAGTCGGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 20 0.47
42 23 0.53
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTAGAGGAGACTCTTGAGG
Found at i:79339 original size:21 final size:21
Alignment explanation
Indices: 79310--79370 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
79300 GAACGGTGGG
*
79310 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* ** *
79331 GGGGCCTCTTGAACGATTAGA
1 GGGGACTCTTGAGGGATGAGA
*
79352 GGAGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
79371 CAGGTGAGTC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.39, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:79737 original size:20 final size:20
Alignment explanation
Indices: 79712--79764 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
79702 GAAGAATAGT
*
79712 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
79732 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
79752 TGACTATCGCAAC
1 TTACTTTCGCAAC
79765 GTGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:79765 original size:20 final size:20
Alignment explanation
Indices: 79718--79824 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 20
79708 TAGTTTACTT
* * * *
79718 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
79738 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* * *
79758 TCGCAACGTGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* *
79778 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
79798 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
79817 TCGCAACG
1 TCGCAACG
79825 AAAAAATCGC
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 13 0.18
20 61 0.82
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:79872 original size:19 final size:19
Alignment explanation
Indices: 79850--79946 Score: 88
Period size: 19 Copynumber: 5.6 Consensus size: 19
79840 GAAACACAGA
79850 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
79869 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
79885 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
79902 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
79918 T--CATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
79935 TCTCATTGCGAT
1 TCGCATTGCGAT
79947 AGTCATTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 14 0.22
15 6 0.10
16 6 0.10
17 6 0.10
18 6 0.10
19 25 0.40
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:79891 original size:14 final size:14
Alignment explanation
Indices: 79872--79930 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
79862 TTTCATTTCG
79872 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
79886 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
79903 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
79919 CATTGCGATTTT
1 CGTTGCGATTTT
79931 CATTTCTCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 18 0.49
15 3 0.08
16 3 0.08
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:79897 original size:33 final size:33
Alignment explanation
Indices: 79853--79946 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
79843 ACACAGATCG
*
79853 CATTGCGATTTTCATTTCGCGTTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
*
79886 CGTTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
*
79919 CATTGCGATTTTCATTTCTCATTGCGAT
1 CATTGCGATTTTCATTTCGCATTGCGAT
79947 AGTCATTTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCATTGCGATTTTGT
Found at i:79952 original size:19 final size:19
Alignment explanation
Indices: 79918--79954 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79908 TGCGATTTTG
**
79918 TCATTGCGATTTTCATTTC
1 TCATTGCGATAGTCATTTC
79937 TCATTGCGATAGTCATTT
1 TCATTGCGATAGTCATTT
79955 TCGTGTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (19 bp):
TCATTGCGATAGTCATTTC
Found at i:80500 original size:18 final size:18
Alignment explanation
Indices: 80477--80524 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
80467 CGGGTCGATC
80477 AGGTGATGGCTCTGGGTA
1 AGGTGATGGCTCTGGGTA
* *
80495 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTA
80513 AGGTGATGGCTC
1 AGGTGATGGCTC
80525 CTGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTA
Found at i:81893 original size:19 final size:19
Alignment explanation
Indices: 81846--81893 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
81836 TTGAAAAGAA
*
81846 AATCGCAACACGAAATGAC
1 AATCGCAACGCGAAATGAC
*
81865 AATCGCAACGCGAATTGAC
1 AATCGCAACGCGAAATGAC
*
81884 TATCGCAACG
1 AATCGCAACG
81894 AGAGAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.15
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAC
Found at i:82172 original size:20 final size:21
Alignment explanation
Indices: 82147--82194 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
82137 TCTGAGAGAT
82147 GGAGATA-GACGGATTTCGCC
1 GGAGATAGGACGGATTTCGCC
*
82167 GGAGATAGGGACGGATTTCGTC
1 GGAGATA-GGACGGATTTCGCC
82189 GGAGAT
1 GGAGAT
82195 GGGTGAGAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.21
Consensus pattern (21 bp):
GGAGATAGGACGGATTTCGCC
Found at i:82407 original size:20 final size:20
Alignment explanation
Indices: 82379--82447 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
82369 GATTATGTAT
*
82379 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
82399 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
82419 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
82439 TATCGCGTT
1 TATCGCGTT
82448 ACGATTTTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:82486 original size:21 final size:21
Alignment explanation
Indices: 82462--82577 Score: 214
Period size: 21 Copynumber: 5.5 Consensus size: 21
82452 TTTTGTATTA
* *
82462 TCGCGTTGCGATTTTCTAAAT
1 TCGCATTGCGATTTTCCAAAT
82483 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
82504 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
82525 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
82546 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
82567 TCGCATTGCGA
1 TCGCATTGCGA
82578 ATTGAGAAAA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 93 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:82591 original size:21 final size:20
Alignment explanation
Indices: 82567--82619 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
82557 TTTTCCAAAT
82567 TCGCATTGCGAATTGAGAAAA
1 TCGCATTGCGAATTG-GAAAA
** *
82588 TCGCAACGCGAAATTGGAAAT
1 TCGCATTGCG-AATTGGAAAA
82609 TCGCATTGCGA
1 TCGCATTGCGA
82620 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.77
22 5 0.19
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:82592 original size:63 final size:63
Alignment explanation
Indices: 82461--82620 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
82451 ATTTTGTATT
* * * **
82461 ATCGCGTTGCGATTTTCTAAATTCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGACAAA
* *
82524 TTCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGAGAAA
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGACAAA
** ** **
82587 ATCGCAACGCGAAATTGGAAATTCGCATTGCGAT
1 ATCGCATTGCGATTTTCCAAATTCGCATTGCGAT
82621 AGTCATAATC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (63 bp):
ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAATTCGCATTGCGAATTGACAAA
Found at i:84624 original size:24 final size:24
Alignment explanation
Indices: 84597--84647 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
84587 CTGAACCGGT
84597 TGGACCGGTCTAAACTAAACCGCC
1 TGGACCGGTCTAAACTAAACCGCC
* *
84621 TGGACCGGTCTGAACTGAACCGCC
1 TGGACCGGTCTAAACTAAACCGCC
84645 TGG
1 TGG
84648 GCCAAGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (24 bp):
TGGACCGGTCTAAACTAAACCGCC
Found at i:87223 original size:88 final size:90
Alignment explanation
Indices: 87068--87246 Score: 335
Period size: 88 Copynumber: 2.0 Consensus size: 90
87058 CAAGATTTTT
*
87068 ACGGTGGGTCGTTCCGGTAACCCTAATGTGACACCTCAGATCGGATGGGGTCACCCGCATCGGTC
1 ACGGTGGGTCGTTCCGGTAACCCTAATGTGACACCTCAGATCGGATCGGGTCACCCGCATCGGTC
87133 AGTGGGTGTTACAATATATGC-TGA
66 AGTGGGTGTTACAATATATGCGTGA
87157 ACGGT-GGTCGTTCCGGTAACCCTAATGTGACACCTCAGATCGGATCGGGTCACCCGCATCGGTC
1 ACGGTGGGTCGTTCCGGTAACCCTAATGTGACACCTCAGATCGGATCGGGTCACCCGCATCGGTC
87221 AGTGGGTGTTACAATATATGCGTGA
66 AGTGGGTGTTACAATATATGCGTGA
87246 A
1 A
87247 ATGTTACAAA
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
88 79 0.90
89 9 0.10
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.25
Consensus pattern (90 bp):
ACGGTGGGTCGTTCCGGTAACCCTAATGTGACACCTCAGATCGGATCGGGTCACCCGCATCGGTC
AGTGGGTGTTACAATATATGCGTGA
Found at i:93291 original size:16 final size:15
Alignment explanation
Indices: 93254--93291 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
93244 GATATTTAAA
93254 TTAAATA-ATATTTT
1 TTAAATATATATTTT
*
93268 TTATATATATATTTT
1 TTAAATATATATTTT
93283 TTAAA-ATAT
1 TTAAATATAT
93292 CAGAATAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATATATATTTT
Found at i:93434 original size:26 final size:26
Alignment explanation
Indices: 93396--93447 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
93386 TATTATATAT
**
93396 ATATTTATGAATACATAATAA-TAAAA
1 ATATTTAAAAATACA-AATAAGTAAAA
*
93422 ATATTTAAAAATATAAATAAGTAAAA
1 ATATTTAAAAATACAAATAAGTAAAA
93448 TTAAAACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATTTAAAAATACAAATAAGTAAAA
Found at i:94823 original size:3 final size:3
Alignment explanation
Indices: 94815--94900 Score: 147
Period size: 3 Copynumber: 29.0 Consensus size: 3
94805 TTAATATATT
* *
94815 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94863 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94901 ATCAATATGG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95409 original size:113 final size:113
Alignment explanation
Indices: 95160--95932 Score: 1175
Period size: 113 Copynumber: 6.8 Consensus size: 113
95150 TCTTGATGAG
****
95160 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTTTCTCTA
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACT-
* * * * *
95225 GAAAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAA-ATCTGAACAAA
65 GGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGT-TGAACAAA
* *
95274 TTCTTCTCATTATGAACTTCTTCATCATTC-TTCAGATGAGTTCTTCTTATTATGAACTCGAACT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTCGAACT
* *
95338 GGAAAAGCTAATCTATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
65 GGAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
95387 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
95452 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
95500 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCGAACT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTCGAACT
* *
95564 GGAAAAGATAATCCATCATA-TGAT-GAATTTAAACAAAAGGTTGAACAAA
65 GGAAAAGATAATCCATCA-AGTGATAG-ATTTGAGCAAAAGGTTGAACAAA
* * *
95613 TTCTTCTTATTATGAACTTATTCTTCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
* *
95678 GAAAAGATAATCCATCATA-TGAT-GAATTTAAACAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCA-AGTGATAG-ATTTGAGCAAAAGGTTGAACAAA
* *
95726 TTCTTCTCATTATGAACTTATTCATCATTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
95791 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
66 GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
95839 TTCTTCTCATTATGAACTTCTTCATCCTTC-TTCAGATGAGTTCTTCTCATTATGAACTCGAACT
1 TTCTTCTCATTATGAACTTCTTCATCCTTCTTTC-GATGAGTTCTTCTCATTATGAACTCGAACT
** * *
95903 GGAAAATCTAATCCATCAAGTAATGGATTT
65 GGAAAAGATAATCCATCAAGTGATAGATTT
95933 AAATCTTTGC
Statistics
Matches: 617, Mismatches: 32, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
112 8 0.01
113 546 0.88
114 63 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCATCCTTCTTTCGATGAGTTCTTCTCATTATGAACTCGAACTG
GAAAAGATAATCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAA
Found at i:96954 original size:83 final size:83
Alignment explanation
Indices: 96715--97232 Score: 826
Period size: 83 Copynumber: 6.3 Consensus size: 83
96705 CTTATTTCTA
* * * * *
96715 CTATGAGCAAATTCATCTTTTAAATTT-AATGATTGGTTTTACTAAACCAGATCAGATAACTCAA
1 CTATGAGCACATTCATC-TTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
96779 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
* * *
96798 CTATGAGCATATTCATC-TTCTAA-TTCAATAATTGGTTCTGCCAAATCAGATCAGATAACTCAA
1 CTATGAGCACATTCATCTTTC-AATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAA
96861 AGAACACTTCCAGAAGATG
65 AGAACACTTCCAGAAGATG
*
96880 CTATTAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
96945 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
96963 CTATTAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCACATCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
97028 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
97046 CTATGAGCATATTCATCTTCCAATTTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
97111 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* * *
97129 CTATGAGCATATTCATCTTCCAATTTCAATGATTGGTTCTGCCAAACCAGATCGGATAACTCAAA
1 CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
97194 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
97212 CTATTAGCACATTCATCTTTC
1 CTATGAGCACATTCATCTTTC
97233 CAGTTAATGT
Statistics
Matches: 409, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
81 4 0.01
82 70 0.17
83 335 0.82
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTTCAATTTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:109786 original size:26 final size:26
Alignment explanation
Indices: 109748--109799 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
109738 TATTATATAT
**
109748 ATATTTATGAATACATAATAA-TAAAA
1 ATATTTAAAAATACA-AATAAGTAAAA
*
109774 ATATTTAAAAATATAAATAAGTAAAA
1 ATATTTAAAAATACAAATAAGTAAAA
109800 TTAAAACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (26 bp):
ATATTTAAAAATACAAATAAGTAAAA
Found at i:111074 original size:13 final size:13
Alignment explanation
Indices: 111058--111089 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
111048 GGTTAAATGG
111058 TTGGGCCGGTCGA
1 TTGGGCCGGTCGA
111071 TTGGGCCGGTCGA
1 TTGGGCCGGTCGA
111084 TTGGGC
1 TTGGGC
111090 TTGTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.22, G:0.47, T:0.25
Consensus pattern (13 bp):
TTGGGCCGGTCGA
Found at i:111148 original size:3 final size:3
Alignment explanation
Indices: 111140--111247 Score: 182
Period size: 3 Copynumber: 36.0 Consensus size: 3
111130 TTAATATATT
*
111140 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
111188 TAA TGA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
111234 -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
111248 ATCAATATGG
Statistics
Matches: 99, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.02
3 94 0.95
4 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:112714 original size:28 final size:28
Alignment explanation
Indices: 112674--112730 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
112664 CCATCGTTGC
112674 TTTCAAGCACTAGCTCAAAGACATAATG
1 TTTCAAGCACTAGCTCAAAGACATAATG
* *
112702 TTTCAAGCACTAGCTCGATGACATAATG
1 TTTCAAGCACTAGCTCAAAGACATAATG
112730 T
1 T
112731 AAACAAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (28 bp):
TTTCAAGCACTAGCTCAAAGACATAATG
Found at i:114301 original size:24 final size:26
Alignment explanation
Indices: 114273--114332 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
114263 TGTAATGCAC
114273 ATTATATATACATGTATCATA-ACAT
1 ATTATATATACATGTATCATACACAT
* *
114298 -TTATCATA-ACATTTATCATACATAT
1 ATTAT-ATATACATGTATCATACACAT
114323 ATTATATATA
1 ATTATATATA
114333 ATATATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
24 15 0.52
25 9 0.31
26 5 0.17
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATATATACATGTATCATACACAT
Found at i:114302 original size:12 final size:12
Alignment explanation
Indices: 114282--114317 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
114272 CATTATATAT
*
114282 ACATGTATCATA
1 ACATTTATCATA
114294 ACATTTATCATA
1 ACATTTATCATA
114306 ACATTTATCATA
1 ACATTTATCATA
114318 CATATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.39
Consensus pattern (12 bp):
ACATTTATCATA
Found at i:126950 original size:15 final size:15
Alignment explanation
Indices: 126932--126961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
126922 CAAATGAGAT
126932 ACAAACAAAAAGAAA
1 ACAAACAAAAAGAAA
*
126947 ACAAACAACAAGAAA
1 ACAAACAAAAAGAAA
126962 CATGTTAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.17, G:0.07, T:0.00
Consensus pattern (15 bp):
ACAAACAAAAAGAAA
Found at i:127528 original size:42 final size:42
Alignment explanation
Indices: 127408--127531 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 42
127398 TTTATTGCGA
* *
127408 CGGTAAATTAGCGGCGTTTAAACCACAAACACCACAATAGAT
1 CGGTAAATTAGCGGCGTTTATACCACAAACGCCACAATAGAT
* *
127450 ---TAACATATAGTGGCGTTT-TAGCCA-AAACGCAACAATAGAT
1 CGGTAA-AT-TAGCGGCGTTTATA-CCACAAACGCCACAATAGAT
*
127490 CGGTAAATTAGCGGCGTTTATACCACAAACGCCGCAATAGAT
1 CGGTAAATTAGCGGCGTTTATACCACAAACGCCACAATAGAT
127532 TACACATATA
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
39 3 0.04
40 17 0.25
41 26 0.39
42 18 0.27
43 3 0.04
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
CGGTAAATTAGCGGCGTTTATACCACAAACGCCACAATAGAT
Found at i:127552 original size:42 final size:40
Alignment explanation
Indices: 127420--127571 Score: 130
Period size: 42 Copynumber: 3.7 Consensus size: 40
127410 GTAAATTAGC
* *
127420 GGCGTTTAAACCACAAACACCACAATAGATTAACATATAGT
1 GGCGTTTATACCA-AAACGCCACAATAGATTAACATATAGT
* *
127461 GGCGTTT-TAGCCAAAACGCAACAATAGATCGGTAA-AT-TAGC
1 GGCGTTTATA-CCAAAACGCCACAATAGAT---TAACATATAGT
*
127502 GGCGTTTATACCACAAACGCCGCAATAGATTACACATATAGT
1 GGCGTTTATACCA-AAACGCCACAATAGATTA-ACATATAGT
* * * *
127544 GGCATTTATTCTTAAAACGCCGCAATAG
1 GGCGTTTATAC-CAAAACGCCACAATAG
127572 TGATAATAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
39 2 0.02
40 16 0.18
41 25 0.27
42 44 0.48
43 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (40 bp):
GGCGTTTATACCAAAACGCCACAATAGATTAACATATAGT
Found at i:129072 original size:3 final size:3
Alignment explanation
Indices: 129066--129130 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
129056 GTTAATGTTA
129066 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
129114 AAT AAG AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
129131 GAATGTAATC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:131207 original size:58 final size:58
Alignment explanation
Indices: 130810--131199 Score: 676
Period size: 58 Copynumber: 6.7 Consensus size: 58
130800 TCCAGTACAT
*
130810 AAATTCATACACTTAGTATGAATTTCTTAACTTGTTGCACACGAAGTGCCCAATAC-A
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
* *
130867 GAAATTCATACACTTAGTATGAATTTATTAACTTGTTGCACACGAAGTGCCCAATACGA
1 -AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
130926 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACTG-
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC-GA
* * *
130984 AAATTCATACACTTAGTATAAATTTCTTAACTTTTTGCATACGAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
* *
131042 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
131100 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
131158 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
131200 TTAGTGCCAT
Statistics
Matches: 319, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
57 1 0.00
58 316 0.99
59 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATACGA
Found at i:131576 original size:22 final size:19
Alignment explanation
Indices: 131534--131602 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
131524 TGGCTCTTCA
*
131534 GTATCGATACCCTTAC-CTG
1 GTATCGATACCC-TACTATG
131553 GTATCGATACTACCATACTATG
1 GTATCGATAC--CC-TACTATG
*
131575 GTACCGATACCCTACTATG
1 GTATCGATACCCTACTATG
131594 GTATCGATA
1 GTATCGATA
131603 TCATTTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 25 0.58
20 2 0.05
21 5 0.12
22 11 0.26
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:134679 original size:64 final size:64
Alignment explanation
Indices: 134598--134760 Score: 159
Period size: 64 Copynumber: 2.5 Consensus size: 64
134588 ATCCCTTGAC
* * * * *
134598 GGGTGCATTGATACACTA-TCTATGCATCGGTACATAAATCCCATTCGATGTTTGTATTTTAAGG
1 GGGTGCATCGATGCACTACT-TATGCATCGATACACAAATCCCATTCGATGTTTGTATTTTAAAG
* * * ** * *
134662 GGGTGCATCGATGCACTACTTGTGTATCGATACACCAATGGCATTCGATGTTTTTCTTTTAAAG
1 GGGTGCATCGATGCACTACTTATGCATCGATACACAAATCCCATTCGATGTTTGTATTTTAAAG
* * *
134726 GAGTGCATCGATGCACTTCATGA-GCATCGATACAC
1 GGGTGCATCGATGCACTAC-TTATGCATCGATACAC
134761 CTTGAACAAT
Statistics
Matches: 80, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
64 78 0.98
65 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (64 bp):
GGGTGCATCGATGCACTACTTATGCATCGATACACAAATCCCATTCGATGTTTGTATTTTAAAG
Found at i:134761 original size:64 final size:64
Alignment explanation
Indices: 134639--134761 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 64
134629 ACATAAATCC
* * * * *
134639 CATTCGATGTTTGTATTTTAAGGGGGTGCATCGATGCACTACTTGTGTATCGATACACCAATGG
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATGCACTACATGAGCATCGATACACCAATGG
* * *
134703 CATTCGATGTTTTTCTTTTAAAGGAGTGCATCGATGCACTTCATGAGCATCGATACACC
1 CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATGCACTACATGAGCATCGATACACC
134762 TTGAACAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAAGGAGTGCATCGATGCACTACATGAGCATCGATACACCAATGG
Found at i:139628 original size:23 final size:23
Alignment explanation
Indices: 139602--139652 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
139592 CGTATAAATG
139602 CACCGAAATGCCACGTAGAATTA
1 CACCGAAATGCCACGTAGAATTA
* * * *
139625 CACCGAAGTGTCGCGTAGAATTG
1 CACCGAAATGCCACGTAGAATTA
139648 CACCG
1 CACCG
139653 TAGTGCCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (23 bp):
CACCGAAATGCCACGTAGAATTA
Found at i:140376 original size:64 final size:64
Alignment explanation
Indices: 140300--140460 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 64
140290 ATCCCTTGAC
* * * * *
140300 AGGTGCATCGATGCACTA-TCTATGCATCGGTACATAAATTCCATTTGATGTTTGTATTTTAAGG
1 AGGTGCATCGATGCACTACT-TATGCATCGATACACAAATGCCATTCGATGTTTGTATTTTAAAG
* * ** * *
140364 GGGTGCATCGATGCACTACTTGTGCATCGATACACCGATGGCATTCGATGTTTTTATTTTAAAG
1 AGGTGCATCGATGCACTACTTATGCATCGATACACAAATGCCATTCGATGTTTGTATTTTAAAG
* * * *
140428 AAGTGCATCGATGCACTTCATGTGCATCGATAC
1 AGGTGCATCGATGCACTACTTATGCATCGATAC
140461 GCACCTTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 80 0.99
65 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (64 bp):
AGGTGCATCGATGCACTACTTATGCATCGATACACAAATGCCATTCGATGTTTGTATTTTAAAG
Found at i:141417 original size:58 final size:58
Alignment explanation
Indices: 141349--141856 Score: 740
Period size: 58 Copynumber: 8.8 Consensus size: 58
141339 TTTCCCATAT
* * *
141349 AGAAATTCATACACTTAGTATAAATCTCTTAA-TAGTTTGCACACAAAGTGCCCAATAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACT-GTTTGCACACGAAGTGCCCAATAC
* * * *
141407 AGAAATTCATACACTTAGTATGAATCTCTTAACAGTTTGCACACAAAGTGCCCAGTAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
141465 AGAAATTCATACACTTAGTATGAATTTCTTAACT-TGTTGCACACGAAGTGCCCAATAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACTGT-TTGCACACGAAGTGCCCAATAC
*
141523 AGAAATTCATACACTTAGTATGAATTTATTAACT-TGTTGCACACGAAGTGCCCAATAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACTGT-TTGCACACGAAGTGCCCAATAC
* *
141581 -GAAAATTCATACACTTACTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
1 AG-AAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
* * * * *
141639 -GTAAATTCATACGCTTACTATGAGTTTCTTAACTTTTTGCACACGAAGTACCCAATAC
1 AG-AAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
* * *
141697 GGAAATTCATACACTTAGTATGAATTTATTAACTTTTTGCACACGAAGTGCCCAATAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
*
141755 AGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
1 AGAAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
*
141813 -GAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 AG-AAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACAC
141857 TTAGTGTCAT
Statistics
Matches: 423, Mismatches: 21, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
57 3 0.01
58 418 0.99
59 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (58 bp):
AGAAATTCATACACTTAGTATGAATTTCTTAACTGTTTGCACACGAAGTGCCCAATAC
Found at i:142262 original size:19 final size:19
Alignment explanation
Indices: 142222--142265 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
142212 GTATCGATAC
*
142222 TACCATACTATGGTACTGA
1 TACCATACTATGATACTGA
*
142241 TACCCTACTATGATATCT-A
1 TACCATACTATGATA-CTGA
142260 TACCAT
1 TACCAT
142266 TTTTGCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.32, C:0.25, G:0.09, T:0.34
Consensus pattern (19 bp):
TACCATACTATGATACTGA
Found at i:142324 original size:20 final size:21
Alignment explanation
Indices: 142288--142338 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
142278 ATTTGAAATG
* *
142288 GTATCGATAC-CTTCCCTTTA
1 GTATCGATACTCTCCCCTTCA
*
142308 GTATCGATACTC-CCCCTTCG
1 GTATCGATACTCTCCCCTTCA
142328 GTATCGATACT
1 GTATCGATACT
142339 AATTAAATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.35
Consensus pattern (21 bp):
GTATCGATACTCTCCCCTTCA
Found at i:143992 original size:17 final size:17
Alignment explanation
Indices: 143961--143993 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
143951 TTATGTATTA
143961 TTAAATATAAAAATAAT
1 TTAAATATAAAAATAAT
143978 TTAAA-ATAAATAATAA
1 TTAAATATAAA-AATAA
143994 AATAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATATAAAAATAAT
Found at i:144342 original size:69 final size:69
Alignment explanation
Indices: 144231--144363 Score: 257
Period size: 69 Copynumber: 1.9 Consensus size: 69
144221 ATATGTACAC
144231 ATTATTGTTATTTTTCAGCTTAATAAGATAATCATTTTAACCCATTTCAACGCCCTAAAATATTG
1 ATTATTGTTATTTTTCAGCTTAATAAGATAATCATTTTAACCCATTTCAACGCCCTAAAATATTG
144296 CACA
66 CACA
*
144300 ATTATTGTTATTTTTCAGCTTAATAAGATAATCATTTTAACCCATTTCAACGTCCTAAAATATT
1 ATTATTGTTATTTTTCAGCTTAATAAGATAATCATTTTAACCCATTTCAACGCCCTAAAATATT
144364 TTCCTCGCCT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (69 bp):
ATTATTGTTATTTTTCAGCTTAATAAGATAATCATTTTAACCCATTTCAACGCCCTAAAATATTG
CACA
Found at i:151285 original size:41 final size:40
Alignment explanation
Indices: 151223--151300 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 40
151213 CTATTATCCG
*
151223 CTAAATACTAATATTTATTTTATTTTTAATACTACTAATCT
1 CTAAATACTAACATTTATTTTA-TTTTAATACTACTAATCT
*
151264 CTAACTACTAACATTTATTTTATTTTAATACTACTAA
1 CTAAATACTAACATTTATTTTATTTTAATACTACTAA
151301 CATTTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (40 bp):
CTAAATACTAACATTTATTTTATTTTAATACTACTAATCT
Found at i:152370 original size:20 final size:20
Alignment explanation
Indices: 152333--152434 Score: 161
Period size: 20 Copynumber: 5.2 Consensus size: 20
152323 GCGAATTTAT
*
152333 AAATT-GCAACACATAAGTC
1 AAATTCGCAACACAGAAGTC
*
152352 AAATTCGCAATACAGAAGTC
1 AAATTCGCAACACAGAAGTC
*
152372 AAATTCGCAACACATAAGTC
1 AAATTCGCAACACAGAAGTC
*
152392 AAATTCGCAACATAGAAGTC
1 AAATTCGCAACACAGAAGTC
152412 AAATTCGCAACACAGAAGTC
1 AAATTCGCAACACAGAAGTC
152432 AAA
1 AAA
152435 GCACGTTTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
19 5 0.07
20 70 0.93
ACGTcount: A:0.47, C:0.22, G:0.13, T:0.19
Consensus pattern (20 bp):
AAATTCGCAACACAGAAGTC
Found at i:152578 original size:22 final size:22
Alignment explanation
Indices: 152552--152602 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
152542 CTACGGCGAC
* **
152552 ATCCGTCCTCATCTCTGACGAA
1 ATCCGTCCCCATCTCCAACGAA
152574 ATCCGTCCCCATCTCCAACGAA
1 ATCCGTCCCCATCTCCAACGAA
152596 ATCCGTC
1 ATCCGTC
152603 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCAACGAA
Found at i:152609 original size:20 final size:21
Alignment explanation
Indices: 152552--152610 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
152542 CTACGGCGAC
**
152552 ATCCGTCCTCATCTCTGACGAA
1 ATCCGTCC-CATCTCCAACGAA
152574 ATCCGTCCCCATCTCCAACGAA
1 ATCCGT-CCCATCTCCAACGAA
*
152596 ATCCGT-CTATCTCCA
1 ATCCGTCCCATCTCCA
152611 TCTCTCATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.24
22 23 0.70
23 2 0.06
ACGTcount: A:0.24, C:0.41, G:0.10, T:0.25
Consensus pattern (21 bp):
ATCCGTCCCATCTCCAACGAA
Found at i:153000 original size:20 final size:20
Alignment explanation
Indices: 152975--153072 Score: 180
Period size: 20 Copynumber: 5.0 Consensus size: 20
152965 ATTTAGTTTC
152975 GCGTTGCGATTTTCATTTTT
1 GCGTTGCGATTTTCATTTTT
152995 GCGTTGCGA-TTTCATTTTT
1 GCGTTGCGATTTTCATTTTT
153014 GCGTTGCGATTTTCATTTTT
1 GCGTTGCGATTTTCATTTTT
*
153034 GCGTTGCGATTTTCATTTTC
1 GCGTTGCGATTTTCATTTTT
153054 GCGTTGCGATTTTCATTTT
1 GCGTTGCGATTTTCATTTT
153073 CGCATTGTGA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
19 19 0.25
20 57 0.75
ACGTcount: A:0.10, C:0.16, G:0.20, T:0.53
Consensus pattern (20 bp):
GCGTTGCGATTTTCATTTTT
Found at i:153029 original size:39 final size:40
Alignment explanation
Indices: 152971--153072 Score: 188
Period size: 39 Copynumber: 2.6 Consensus size: 40
152961 GCGAATTTAG
152971 TTTCGCGTTGCGATTTTCATTTTTGCGTTGCGA-TTTCAT
1 TTTCGCGTTGCGATTTTCATTTTTGCGTTGCGATTTTCAT
*
153010 TTTTGCGTTGCGATTTTCATTTTTGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCATTTTTGCGTTGCGATTTTCAT
153050 TTTCGCGTTGCGATTTTCATTTT
1 TTTCGCGTTGCGATTTTCATTTT
153073 CGCATTGTGA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 32 0.53
40 28 0.47
ACGTcount: A:0.10, C:0.17, G:0.20, T:0.54
Consensus pattern (40 bp):
TTTCGCGTTGCGATTTTCATTTTTGCGTTGCGATTTTCAT
Found at i:154820 original size:21 final size:21
Alignment explanation
Indices: 154732--154829 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
154722 GTTAGGGGAG
154732 TTACGTGATGAGGTCGGTGCT
1 TTACGTGATGAGGTCGGTGCT
* * *
154753 TTGCGTCATGAGGTCGGTACT
1 TTACGTGATGAGGTCGGTGCT
* ** *
154774 TTACGTGAAGACAAT-GGTGCG
1 TTACGTGATGA-GGTCGGTGCT
*
154795 CTACGTGATGAGGTACGGT-CT
1 TTACGTGATGAGGT-CGGTGCT
*
154816 TTACGTGGTGAGGT
1 TTACGTGATGAGGT
154830 GGATGTTTTT
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
20 1 0.02
21 52 0.91
22 4 0.07
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.31
Consensus pattern (21 bp):
TTACGTGATGAGGTCGGTGCT
Found at i:155218 original size:21 final size:20
Alignment explanation
Indices: 155188--155306 Score: 139
Period size: 21 Copynumber: 5.7 Consensus size: 20
155178 GATACACCTG
155188 TCATCGTTCAAGAGGCCTCTC
1 TCATCGTTCAAGAGGCC-CTC
*
155209 TCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGG-CCCTC
*
155230 TCATCGTTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
155251 CCACCGTTCAAGAGGCCCATG
1 TCATCGTTCAAGAGGCCC-TC
155272 TCATCGTTCAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
*
155293 TCACCGTTCAAGAG
1 TCATCGTTCAAGAG
155307 CCCGATTCAC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
20 3 0.04
21 75 0.90
22 5 0.06
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:155235 original size:42 final size:41
Alignment explanation
Indices: 155188--155306 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 41
155178 GATACACCTG
* * *
155188 TCATCGTTCAAGAGGCCTCTCTCATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCC-CTCTCACCGTTCAAGAGGCCCATC
* * *
155230 TCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCCATG
1 TCATCGTTCAAGAG-GCCCTCTCACCGTTCAAGAGGCCCATC
155272 TCATCGTTCAAGAGGTCCCTCTCACCGTTCAAGAG
1 TCATCGTTCAAGAGG-CCCTCTCACCGTTCAAGAG
155307 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 65 0.97
43 2 0.03
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (41 bp):
TCATCGTTCAAGAGGCCCTCTCACCGTTCAAGAGGCCCATC
Found at i:156750 original size:64 final size:64
Alignment explanation
Indices: 156640--156796 Score: 280
Period size: 64 Copynumber: 2.5 Consensus size: 64
156630 TTAATTGAAT
156640 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
* *
156705 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
156769 TTTAATTGATTT-TAAAAGTTGATTTGTT
1 TTTAATTGATTTGTAAAAGTTGATTTGTT
156797 GTTTATTCAA
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
63 16 0.18
64 70 0.78
65 4 0.04
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:156883 original size:20 final size:20
Alignment explanation
Indices: 156860--156955 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
156850 TTTTGCAAAA
156860 CGAAAATCAAATTCGCAACG
1 CGAAAATCAAATTCGCAACG
* * * **
156880 CGAAAGTCAAATCCACATTG
1 CGAAAATCAAATTCGCAACG
*
156900 CGATAATCAAATTCGCAACG
1 CGAAAATCAAATTCGCAACG
** * *
156920 TTAAAGTCAAATTTGCAACG
1 CGAAAATCAAATTCGCAACG
156940 C-AAAAGTCAAATTCGC
1 CGAAAA-TCAAATTCGC
156956 GTTGCGATTT
Statistics
Matches: 56, Mismatches: 19, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
19 3 0.05
20 53 0.95
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.21
Consensus pattern (20 bp):
CGAAAATCAAATTCGCAACG
Found at i:156986 original size:14 final size:15
Alignment explanation
Indices: 156951--156986 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
156941 AAAAGTCAAA
156951 TTCGCG-TTGCGATT
1 TTCGCGTTTGCGATT
156965 TTCG-GTTTGCGA-T
1 TTCGCGTTTGCGATT
156978 TTCGCGTTT
1 TTCGCGTTT
156987 CGAATTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.30
14 14 0.70
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCGCGTTTGCGATT
Found at i:160403 original size:13 final size:13
Alignment explanation
Indices: 160370--160404 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
160360 GAAATCATTG
160370 AAAAATTATATAA
1 AAAAATTATATAA
*
160383 ATAAAATTATGTAA
1 A-AAAATTATATAA
160397 AAAAATTA
1 AAAAATTA
160405 GAGATGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATTATATAA
Found at i:160565 original size:18 final size:18
Alignment explanation
Indices: 160542--160611 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
160532 AAAAGATTTG
*
160542 TGTTGCGAAACTAAAACT
1 TGTTGCGAAACTAAAACC
* * *
160560 TGTTGCGAAATTAAATTCG
1 TGTTGCGAAACTAAA-ACC
160579 TGTTGCGAAACTAAAACC
1 TGTTGCGAAACTAAAACC
*
160597 TGTTGCGAAATTAAA
1 TGTTGCGAAACTAAA
160612 TTCGTGTTGC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 29 0.66
19 15 0.34
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (18 bp):
TGTTGCGAAACTAAAACC
Found at i:160584 original size:19 final size:20
Alignment explanation
Indices: 160560--160703 Score: 115
Period size: 19 Copynumber: 7.5 Consensus size: 20
160550 AACTAAAACT
160560 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAAATTGAAATTCG
* * *
160579 TGTTGCGAAACT-AAA-ACC
1 TGTTGCGAAATTGAAATTCG
160597 TGTTGCGAAATT-AAATTCG
1 TGTTGCGAAATTGAAATTCG
*
160616 TGTTGCG-AATTCGAAAATCG
1 TGTTGCGAAATT-GAAATTCG
* *
160636 AGTTGCGAATTTGAAATTC-
1 TGTTGCGAAATTGAAATTCG
* *
160655 AGTTGCGAATTTGAAATTC-
1 TGTTGCGAAATTGAAATTCG
**
160674 AATTGC-AAATTTGAAATTCAG
1 TGTTGCGAAA-TTGAAATTC-G
160695 TGTTGCGAA
1 TGTTGCGAA
160704 TTTGGCAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
18 21 0.20
19 55 0.53
20 18 0.17
21 7 0.07
22 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
TGTTGCGAAATTGAAATTCG
Found at i:160591 original size:37 final size:37
Alignment explanation
Indices: 160541--160624 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
160531 CAAAAGATTT
*
160541 GTGTTGCGAAACTAAAACTTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAATTC
160578 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAATTC
160615 GTGTTGCGAA
1 GTGTTGCGAA
160625 TTCGAAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (37 bp):
GTGTTGCGAAACTAAAACCTGTTGCGAAATTAAATTC
Found at i:160660 original size:39 final size:38
Alignment explanation
Indices: 160598--160705 Score: 119
Period size: 39 Copynumber: 2.8 Consensus size: 38
160588 ACTAAAACCT
* *
160598 GTTGCGAAATT-AAATTCGTGTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTGAAATTC-AGTTGCGAATTCGAAAATC-A
* *
160637 GTTGCGAATTTGAAATTCAGTTGCGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCAGTTGCGAATTCGAAAATCA
* *
160675 ATTGCAAATTTGAAATTCAGTGTTGCGAATT
1 GTTGCGAATTTGAAATTCA--GTTGCGAATT
160706 TGGCAAACGC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
38 18 0.30
39 26 0.43
40 16 0.27
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (38 bp):
GTTGCGAATTTGAAATTCAGTTGCGAATTCGAAAATCA
Found at i:161877 original size:22 final size:24
Alignment explanation
Indices: 161828--161878 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
161818 CTTAGCATAT
*
161828 TAAAAATAAAGAAAACTTGAAAAG
1 TAAAAATAAAGAAAACGTGAAAAG
161852 -AAAAATAAAGAAAA-GTG-AAAG
1 TAAAAATAAAGAAAACGTGAAAAG
161873 TAAAAA
1 TAAAAA
161879 GAAAATAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 7 0.28
23 14 0.56
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.14
Consensus pattern (24 bp):
TAAAAATAAAGAAAACGTGAAAAG
Done.