Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000010.1 Hibiscus syriacus cultivar Beakdansim tig00000016_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: 133477
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:3750 original size:2 final size:2
Alignment explanation
Indices: 3736--3782 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
3726 TTAGTGAGGC
*
3736 AT AT AT A- AA AT AT AT AT AT AT AT AT AT AT AT AT -T 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
3776 AT AT AT A
1 AT AT AT A
3783 ACAATGCATT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3765 original size:23 final size:23
Alignment explanation
Indices: 3736--3782 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
3726 TTAGTGAGGC
3736 ATATATAAAATATATATATATAT
1 ATATATAAAATATATATATATAT
* *
3759 ATATATATATTATATATATATAT
1 ATATATAAAATATATATATATAT
3782 A
1 A
3783 ACAATGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATAAAATATATATATATAT
Found at i:4083 original size:37 final size:36
Alignment explanation
Indices: 4028--4101 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
4018 CACTAAATAT
* *
4028 TTGTCCGAAGGACCACTATGTCCCGAAAAACCATTGA
1 TTGTCCGAAGAACCACTATGT-CCGAAAAACCACTGA
* *
4065 TTGTTCGAAGAACCACTATGTCCGAAAGACCACTGA
1 TTGTCCGAAGAACCACTATGTCCGAAAAACCACTGA
4101 T
1 T
4102 AATTCCTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 14 0.42
37 19 0.58
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (36 bp):
TTGTCCGAAGAACCACTATGTCCGAAAAACCACTGA
Found at i:4096 original size:17 final size:17
Alignment explanation
Indices: 4029--4098 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
4019 ACTAAATATT
*
4029 TGTCCGAAGGACCACTA
1 TGTCCGAAAGACCACTA
* *
4046 TGTCCCGAAAAACCATTGA
1 TGT-CCGAAAGACCACT-A
*
4065 TTGTTCG-AAGAACCACTA
1 -TGTCCGAAAG-ACCACTA
4083 TGTCCGAAAGACCACT
1 TGTCCGAAAGACCACT
4099 GATAATTCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 14 0.34
18 16 0.39
19 8 0.20
20 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (17 bp):
TGTCCGAAAGACCACTA
Found at i:4751 original size:63 final size:62
Alignment explanation
Indices: 4666--4798 Score: 146
Period size: 62 Copynumber: 2.1 Consensus size: 62
4656 CTTGACGGGT
* * *
4666 GCATCGATGCACAATCTATGCATCG-TACA-TAAATCCCATTCGATGTTTGTATTTTAAGGGGGC
1 GCATCGATGCACAATCTATGCATCGATACACT-AAT--AATTCGATGTTTGTATTTTAAAGGAGC
* * * *
4729 GCATCGATGCACTA-CTTGTGCATCGATACACTAATAATTCGATGTTTTTATTTTAAAGGAGT
1 GCATCGATGCACAATC-TATGCATCGATACACTAATAATTCGATGTTTGTATTTTAAAGGAGC
4791 GCATCGAT
1 GCATCGAT
4799 ATACCTCATG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
62 31 0.52
63 21 0.35
64 7 0.12
65 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.34
Consensus pattern (62 bp):
GCATCGATGCACAATCTATGCATCGATACACTAATAATTCGATGTTTGTATTTTAAAGGAGC
Found at i:4784 original size:62 final size:62
Alignment explanation
Indices: 4703--4821 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 62
4693 CATAAATCCC
* * * *
4703 ATTCGATGTTTGTATTTTAAGGGGGCGCATCGATGCA-CTACTTGTGCATCGATACACTAATA
1 ATTCGATGTTTGTATTTTAAAGGAGCGCATCGATACACCT-CATGTGCATCGATACACTAATA
* * *
4765 ATTCGATGTTTTTATTTTAAAGGAGTGCATCGATATACCTCATGTGCATCGATACAC
1 ATTCGATGTTTGTATTTTAAAGGAGCGCATCGATACACCTCATGTGCATCGATACAC
4822 CTTGAACAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
62 47 0.96
63 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (62 bp):
ATTCGATGTTTGTATTTTAAAGGAGCGCATCGATACACCTCATGTGCATCGATACACTAATA
Found at i:8986 original size:16 final size:15
Alignment explanation
Indices: 8963--9084 Score: 54
Period size: 16 Copynumber: 7.7 Consensus size: 15
8953 TTTCAAATTA
8963 AAAT-TAATAACAAAT
1 AAATATAATAA-AAAT
*
8978 AAATATAATAATAAT
1 AAATATAATAAAAAT
* * *
8993 TAATA-ACAGTAATTATT
1 AAATATA-A-TAA-AAAT
9010 AAATATAATAAATAAGT
1 AAATATAATAAA-AA-T
9027 AAA-ATAATAATAAAT
1 AAATATAATAA-AAAT
*
9042 AAATATAGTAATTAAA-
1 AAATATAATAA--AAAT
*
9058 AAGATATATATAATAAT
1 AA-ATATA-ATAAAAAT
*
9075 AATTATAATA
1 AAATATAATA
9085 TATTTATAAA
Statistics
Matches: 84, Mismatches: 10, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
14 1 0.01
15 19 0.23
16 36 0.43
17 24 0.29
18 4 0.05
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (15 bp):
AAATATAATAAAAAT
Found at i:8997 original size:19 final size:19
Alignment explanation
Indices: 8975--9074 Score: 55
Period size: 19 Copynumber: 4.9 Consensus size: 19
8965 ATTAATAACA
8975 AATAAATATAATAATAATT
1 AATAAATATAATAATAATT
* *
8994 AATAACAGTA-ATTATTAAATAT
1 AATAA-A-TATAATAAT-AAT-T
9016 AATAAATAAGTAA-AATAA-T
1 AATAAAT-A-TAATAATAATT
9035 AATAAATA-AATATAGTAATT
1 AATAAATATAATA-A-TAATT
*
9055 AAAAAGATATATATAATAAT
1 AATAA-ATATA-ATAATAAT
9075 AATTATAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 26
0.67 0.05 0.28
Matches are distributed among these distances:
16 2 0.03
17 1 0.02
18 2 0.03
19 16 0.26
20 11 0.18
21 16 0.26
22 10 0.16
23 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (19 bp):
AATAAATATAATAATAATT
Found at i:9027 original size:24 final size:24
Alignment explanation
Indices: 9000--9087 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
8990 AATTAATAAC
*
9000 AGTAATTATTAAATATAATAAATA
1 AGTAATTATAAAATATAATAAATA
*
9024 AGTAA-AATAATAATA-AATAAATA
1 AGTAATTATAA-AATATAATAAATA
*
9047 TAGTAATTA-AAAAGATATATATAATA
1 -AGTAATTATAAAATATA-ATA-AATA
*
9073 A-TAATTATAATATAT
1 AGTAATTATAAAATAT
9088 TTATAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
23 14 0.27
24 23 0.45
25 10 0.20
26 4 0.08
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (24 bp):
AGTAATTATAAAATATAATAAATA
Found at i:9045 original size:32 final size:31
Alignment explanation
Indices: 8961--9053 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 31
8951 TCTTTCAAAT
* *
8961 TAAAATTAATAACAAATAAATATAATAATAAT
1 TAAAA-TAATAATAAATAAATATAATAATAAG
* * * *
8993 TAATAACAGTAATTATTAAATATAATAAATAAG
1 TAA-AATAATAATAAATAAATATAAT-AATAAG
*
9026 TAAAATAATAATAAATAAATATAGTAAT
1 TAAAATAATAATAAATAAATATAATAAT
9054 TAAAAAGATA
Statistics
Matches: 48, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
31 3 0.06
32 35 0.73
33 10 0.21
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (31 bp):
TAAAATAATAATAAATAAATATAATAATAAG
Found at i:9479 original size:22 final size:22
Alignment explanation
Indices: 9454--9495 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9444 GAATTAATTA
*
9454 TTATTT-TTTGTATTTTTAGTAT
1 TTATTTATTTGT-TGTTTAGTAT
9476 TTATTTATTTGTTGTTTAGT
1 TTATTTATTTGTTGTTTAGT
9496 TTATTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (22 bp):
TTATTTATTTGTTGTTTAGTAT
Found at i:9514 original size:16 final size:15
Alignment explanation
Indices: 9475--9504 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9465 ATTTTTAGTA
9475 TTTATTTATTTGTTG
1 TTTATTTATTTGTTG
9490 TTTAGTTTATTTGTT
1 TTTA-TTTATTTGTT
9505 TTGGTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (15 bp):
TTTATTTATTTGTTG
Found at i:12907 original size:30 final size:28
Alignment explanation
Indices: 12827--12909 Score: 71
Period size: 28 Copynumber: 2.9 Consensus size: 28
12817 GCAAGAGAAA
* *
12827 AAAATAAACTTAAGGGATT-AAATAGCAC
1 AAAA-AAATTTAAAGGATTAAAATAGCAC
* **
12855 AAAAAAATTTAAAGTACCAAAATAGCAC
1 AAAAAAATTTAAAGGATTAAAATAGCAC
12883 AAACCGAAAA-TTAAAGGATTAAAATAG
1 AAA---AAAATTTAAAGGATTAAAATAG
12910 TATTAACAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
27 9 0.21
28 16 0.37
30 14 0.33
31 4 0.09
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.19
Consensus pattern (28 bp):
AAAAAAATTTAAAGGATTAAAATAGCAC
Found at i:14123 original size:2 final size:2
Alignment explanation
Indices: 14062--14114 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
14052 ATGTATTATT
14062 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14105 TA TA TA TA TA
1 TA TA TA TA TA
14115 GGTTATATAC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14852 original size:85 final size:85
Alignment explanation
Indices: 14696--15180 Score: 568
Period size: 85 Copynumber: 5.7 Consensus size: 85
14686 ACACGACCTC
* * *
14696 GAGCTGAATGGT-ATCAAACTCAGCA-GTGTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
1 GAGCTGAAT-GTAATCAAACTC-GAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
* *
14759 ACTGTAAATTTGATATGCCTCT
64 GCTGTAAATTTGATATGCCTTT
* * * * * *
14781 GAGCTTAGTGTAATCAAACTCGAA-GTATTTTGATGAAATATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCAAACTCGAAGGT-TTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
*
14845 CTATAAATTTGATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
* * * * * *
14866 GAGTTGAGTGTAATCGAACTCGAAGGTCTTTGTT-AGCAGATACCCCTTCTCACCTTGAGCTATG
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGA-CAGATAACCCTTCTCGCCTTGAGCTATG
** *
14930 CTACAAATTTAATATGCCTTT
65 CTGTAAATTTGATATGCCTTT
** * * *
14951 GAGCTGAATGTAATTGAACAT-GAAGGTTTTTGCTGACAGATAACCCTTCTCACCTTGAGTTATG
1 GAGCTGAATGTAATCAAAC-TCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATG
* * *
15015 TTGTAAATTGGATATGCCTAT
65 CTGTAAATTTGATATGCCTTT
15036 GAGCTGAATGTAAT-AGAACTCGAAGGTTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
1 GAGCTGAATGTAATCA-AACTCGAAGG-TTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
*
15100 ACTGTAAATTTGATATGCCTTT
64 GCTGTAAATTTGATATGCCTTT
* * *
15122 AAGCTGAATGTAATCAAACTCGAAGGTCTTTGTTGACATATAACCCTTCTCGCCTTGAG
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAG
15181 TTTTGTTGTA
Statistics
Matches: 342, Mismatches: 48, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
84 8 0.02
85 254 0.74
86 79 0.23
87 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCTTT
Found at i:15031 original size:170 final size:171
Alignment explanation
Indices: 14724--15190 Score: 627
Period size: 170 Copynumber: 2.7 Consensus size: 171
14714 CTCAGCAGTG
* * * *
14724 TTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTCTGAGCTTAG
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAA
* * *
14789 TGTAATCAAACTCGAA-GTATTTTGATGAAATATAACCCTTCTCGCCTTGAGTTATGCTATAAAT
66 TGTAATCAAACTCGAAGGT-TTTTGATGACATATAACCCTTCTCGCCTTGAGTTATGTTGTAAAT
* * * * *
14853 TTGATATGCCTTTGAGTTGAGTGTAATCGAACTCGAAGG-TC
130 TGGATATGCCTATGAGCTGAATGTAATAGAACTCGAAGGTTC
* * * ** *
14894 TTTGTT-AGCAGATACCCCTTCTCACCTTGAGCTATGCTACAAATTTAATATGCCTTTGAGCTGA
1 TTTGTTGA-CAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGA
** * * *
14958 ATGTAATTGAACAT-GAAGGTTTTTGCTGACAGATAACCCTTCTCACCTTGAGTTATGTTGTAAA
65 ATGTAATCAAAC-TCGAAGGTTTTTGATGACATATAACCCTTCTCGCCTTGAGTTATGTTGTAAA
*
15022 TTGGATATGCCTATGAGCTGAATGTAATAGAACTCGAAGGTTT
129 TTGGATATGCCTATGAGCTGAATGTAATAGAACTCGAAGGTTC
*
15065 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTAAGCTGAA
1 TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAA
* * *
15130 TGTAATCAAACTCGAAGGTCTTTGTTGACATATAACCCTTCTCGCCTTGAGTTTTGTTGTA
66 TGTAATCAAACTCGAAGGTTTTTGATGACATATAACCCTTCTCGCCTTGAGTTATGTTGTA
15191 TTTGGCTGGG
Statistics
Matches: 254, Mismatches: 37, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
169 1 0.00
170 140 0.55
171 112 0.44
172 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (171 bp):
TTTGTTGACAGATAACCCTTCTCGCCTTGAGCTATACTGTAAATTTGATATGCCTTTGAGCTGAA
TGTAATCAAACTCGAAGGTTTTTGATGACATATAACCCTTCTCGCCTTGAGTTATGTTGTAAATT
GGATATGCCTATGAGCTGAATGTAATAGAACTCGAAGGTTC
Found at i:15638 original size:64 final size:64
Alignment explanation
Indices: 15567--15989 Score: 645
Period size: 64 Copynumber: 6.6 Consensus size: 64
15557 GCATTGTTTC
* * * *
15567 GAGTCCAATATCATTCGCTGTGAAGTTAAAATTGACTCTGAATGAATCTGGGAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
15631 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
15695 GAGCCCAATATCCTTCGCTGTTAAGTTGAAATTGACTCTGAATGAAAATGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
**
15759 GAGTCCAATATCCTTCGCTACGAAGTTGAAATTGACTCTGAATGAAACTGTG-AAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTG-GAAAGTTGTTTGTT
* *
15823 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTAACTCTGAAT-AGAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA-AACTGGAAAGTTGTTTGTT
* *
15887 AAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAGG-AAGTTATTTGTT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-GGAAAGTTGTTTGTT
* * * *
15951 GAGTCTAATATCCTTTGTTGTGTAGTTGAAATTGACTCT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
15990 AAAAGCTGCA
Statistics
Matches: 329, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
63 2 0.01
64 323 0.98
65 4 0.01
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (64 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:16931 original size:95 final size:95
Alignment explanation
Indices: 16736--16998 Score: 339
Period size: 95 Copynumber: 2.7 Consensus size: 95
16726 GGCTAGCTGG
* * * * *
16736 ATCCATAAAGCCAGGGCATTTAACCAATTTCTCTATAGGGACAGCTCAATGTCATTGTA-TAGAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAA-G-C-TT-TATTATAT
* * *
16800 ATTATAATCACTTTTATGAGGCTAGATGAATATT
62 ATTATAATCACCTTTATCAAGCTAGATGAATATT
* * *
16834 ATCCATAAAGTCGGGGCGTTTAACCAATTGCTCTAGAGAGACAACTCAAGCTTTATTATATATTA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATATTA
*
16899 TAATCACCTTTATCAAGCTAGATGAATCTT
66 TAATCACCTTTATCAAGCTAGATGAATATT
* * *
16929 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGATAGCTAAAGCTTTATTGTATATAT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATAT-T
16994 ATAAT
65 ATAAT
16999 ATTATAATAT
Statistics
Matches: 145, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
94 2 0.01
95 93 0.64
96 7 0.05
97 1 0.01
98 42 0.29
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAGCTCAAGCTTTATTATATATTA
TAATCACCTTTATCAAGCTAGATGAATATT
Found at i:20768 original size:29 final size:30
Alignment explanation
Indices: 20715--20778 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
20705 TCTTCATCAA
* * *
20715 TTTTCCAAAATTTACGAATTTATCCCCAAC
1 TTTTCCAAAACTTACGAAATGATCCCCAAC
*
20745 TTTTCC-AAACTTACGAAATGATCCCCAAT
1 TTTTCCAAAACTTACGAAATGATCCCCAAC
20774 TTTTC
1 TTTTC
20779 TGAGGCTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAACTTACGAAATGATCCCCAAC
Found at i:24428 original size:29 final size:29
Alignment explanation
Indices: 24386--24473 Score: 158
Period size: 29 Copynumber: 3.0 Consensus size: 29
24376 ATTTTCACCT
*
24386 AACTAAATTGATGTAAGCGATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
24415 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
24444 AACTAAATTAATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
24473 A
1 A
24474 TTAATTTAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:29079 original size:29 final size:29
Alignment explanation
Indices: 29039--29098 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
29029 AATTTTCACC
29039 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
29068 AAACTAAATTGATGTAAGCAATGACATCA
1 AAACTAAATTGATGTAAGCAATGACATCA
29097 AA
1 AA
29099 TTAATTTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (29 bp):
AAACTAAATTGATGTAAGCAATGACATCA
Found at i:31307 original size:43 final size:46
Alignment explanation
Indices: 31196--31309 Score: 153
Period size: 47 Copynumber: 2.5 Consensus size: 46
31186 CCCTTTTTTT
* *
31196 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATGCTTACCATTTAAA
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCATTT-AA
* * *
31243 TTCCATAAGCTCGTAAGCTTATTTTATCAATATACCTGCCA-TT-A
1 TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCATTTAA
31287 TT-CATAAGCTCGTAAGCTTATTT
1 TTCCATAAGCTCGTAAGCTTATTT
31310 GCATACTTAC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 21 0.34
44 3 0.05
46 2 0.03
47 36 0.58
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (46 bp):
TTCCATAAGCTCGTAAGCTTATTTTACCAAAATACCTACCATTTAA
Found at i:36150 original size:10 final size:10
Alignment explanation
Indices: 36134--36171 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
36124 GAACGCTGGA
36134 AACCGGTTTT
1 AACCGGTTTT
*
36144 GACCGG-TTT
1 AACCGGTTTT
36153 AACCGGTTTT
1 AACCGGTTTT
36163 AACCGGTTT
1 AACCGGTTT
36172 GACCGGTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (10 bp):
AACCGGTTTT
Found at i:36158 original size:19 final size:19
Alignment explanation
Indices: 36134--36178 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
36124 GAACGCTGGA
*
36134 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTAACCGGTTT
36153 AACCGGTTTTAACCGGTTT
1 AACCGGTTTTAACCGGTTT
*
36172 GACCGGT
1 AACCGGT
36179 CACGACCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (19 bp):
AACCGGTTTTAACCGGTTT
Found at i:36159 original size:9 final size:9
Alignment explanation
Indices: 36134--36178 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
36124 GAACGCTGGA
36134 AACCGGTTTT
1 AACCGG-TTT
*
36144 GACCGGTTT
1 AACCGGTTT
36153 AACCGGTTTT
1 AACCGG-TTT
36163 AACCGGTTT
1 AACCGGTTT
*
36172 GACCGGT
1 AACCGGT
36179 CACGACCCGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 17 0.55
10 14 0.45
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (9 bp):
AACCGGTTT
Found at i:36199 original size:13 final size:13
Alignment explanation
Indices: 36181--36213 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
36171 TGACCGGTCA
*
36181 CGACCCGTTTACC
1 CGACCCGTTAACC
36194 CGACCCGTTAACC
1 CGACCCGTTAACC
36207 CGACCCG
1 CGACCCG
36214 ACCCGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.48, G:0.18, T:0.15
Consensus pattern (13 bp):
CGACCCGTTAACC
Found at i:36230 original size:23 final size:23
Alignment explanation
Indices: 36204--36247 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
36194 CGACCCGTTA
36204 ACCCGACCCGACCCGTTGACCCG
1 ACCCGACCCGACCCGTTGACCCG
36227 ACCCGACCCGACCCGTTGACC
1 ACCCGACCCGACCCGTTGACC
36248 GTTGACCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.18, C:0.52, G:0.20, T:0.09
Consensus pattern (23 bp):
ACCCGACCCGACCCGTTGACCCG
Found at i:36247 original size:18 final size:18
Alignment explanation
Indices: 36191--36236 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
36181 CGACCCGTTT
36191 ACCCGACCCGTTAACCCG
1 ACCCGACCCGTTAACCCG
*
36209 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTAACCCG
36227 ACCCGACCCG
1 ACCCGACCCG
36237 ACCCGTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.20, C:0.52, G:0.20, T:0.09
Consensus pattern (18 bp):
ACCCGACCCGTTAACCCG
Found at i:36316 original size:29 final size:29
Alignment explanation
Indices: 36255--36330 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
36245 ACCGTTGACC
* ** *
36255 GGTGCTATTCTGGGAATTAGTTCAGTTTT
1 GGTGCTATTCTGGGAATTAATTCAGAATG
36284 GGTGCTATTCTGGGAATTAATTC-GAAATG
1 GGTGCTATTCTGGGAATTAATTCAG-AATG
* *
36313 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
36331 GTTTTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 1 0.03
29 39 0.98
ACGTcount: A:0.21, C:0.09, G:0.28, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCAGAATG
Found at i:43424 original size:19 final size:19
Alignment explanation
Indices: 43400--43455 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
43390 GAACGCTGGA
43400 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
43419 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
43440 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
43456 CACGACCCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:43435 original size:11 final size:11
Alignment explanation
Indices: 43400--43448 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
43390 GAACGCTGGA
43400 AACCGGTTTTG
1 AACCGGTTTTG
43411 -ACCGG-TTT-
1 AACCGGTTTTG
43419 AACCGGTTTTG
1 AACCGGTTTTG
43430 AACCGGTTTTG
1 AACCGGTTTTG
43441 -ACCGGTTT
1 AACCGGTTT
43449 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:43451 original size:9 final size:10
Alignment explanation
Indices: 43401--43455 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
43391 AACGCTGGAA
43401 ACCGGTTTTG
1 ACCGGTTTTG
*
43411 ACCGG-TTTA
1 ACCGGTTTTG
43420 ACCGGTTTTG
1 ACCGGTTTTG
43430 AACCGGTTTTG
1 -ACCGGTTTTG
43441 ACCGG-TTTG
1 ACCGGTTTTG
43450 ACCGGT
1 ACCGGT
43456 CACGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:43516 original size:18 final size:18
Alignment explanation
Indices: 43468--43519 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
43458 CGACCCGTTT
*
43468 ACCCGACCCGTTAACCCG
1 ACCCGACCCGTTGACCCG
43486 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
43504 ACCCGACCCGTTGACC
1 ACCCGACCCGTTGACC
43520 GTTGACCGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.19, C:0.50, G:0.19, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:43519 original size:13 final size:13
Alignment explanation
Indices: 43458--43490 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
43448 TGACCGGTCA
*
43458 CGACCCGTTTACC
1 CGACCCGTTAACC
43471 CGACCCGTTAACC
1 CGACCCGTTAACC
43484 CGACCCG
1 CGACCCG
43491 ACCCGTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.18, C:0.48, G:0.18, T:0.15
Consensus pattern (13 bp):
CGACCCGTTAACC
Found at i:43588 original size:29 final size:29
Alignment explanation
Indices: 43527--43602 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
43517 ACCGTTGACC
* *** *
43527 GGTGCTATTCTGGGAATTAGTTCGGTTTT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
43556 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* *
43585 GGTGCTATTTTGGTAATT
1 GGTGCTATTCTGGGAATT
43603 TTTTTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.09, G:0.29, T:0.42
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:53495 original size:30 final size:30
Alignment explanation
Indices: 53460--53549 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 30
53450 GAAGGACTTC
* *
53460 TCCATATGTTCCGAATAACATAGGTAACTG
1 TCCATATGTTCCAAATGACATAGGTAACTG
*
53490 TCCATATG-TCTCAAATGACACAGGTAATACTG
1 TCCATATGTTC-CAAATGACATAGGT-A-ACTG
* *
53522 TCCATATGTCCCAAAGGACATAGGTAAC
1 TCCATATGTTCCAAATGACATAGGTAAC
53550 CCTCGACACT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
29 2 0.04
30 21 0.42
31 2 0.04
32 24 0.48
33 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (30 bp):
TCCATATGTTCCAAATGACATAGGTAACTG
Found at i:53856 original size:2 final size:2
Alignment explanation
Indices: 53849--53928 Score: 146
Period size: 2 Copynumber: 41.0 Consensus size: 2
53839 CTTATGTAAC
53849 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
53891 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
53929 ACATATAAGT
Statistics
Matches: 76, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 74 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:58206 original size:30 final size:30
Alignment explanation
Indices: 58171--58258 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 30
58161 ATGACCTATA
* *
58171 CATATGTTCCGAAGAACATAGGTAACTGTT
1 CATATGTCCCGAAGAACATAGGTAACTGTC
* *
58201 CATATGTCCCGAAGAACACAGGAAATACTGTC
1 CATATGTCCCGAAGAACATAGG-TA-ACTGTC
* *
58233 CATATGTCCCAAAGGACATAGGTAAC
1 CATATGTCCCGAAGAACATAGGTAAC
58259 CCTCGACACT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 22 0.46
31 2 0.04
32 24 0.50
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (30 bp):
CATATGTCCCGAAGAACATAGGTAACTGTC
Found at i:58237 original size:32 final size:30
Alignment explanation
Indices: 58171--58242 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
58161 ATGACCTATA
* * * *
58171 CATATGTTCCGAAGAACATAGGTAACTGTT
1 CATATGTCCCGAAGAACACAGGAAACTGTC
58201 CATATGTCCCGAAGAACACAGGAAATACTGTC
1 CATATGTCCCGAAGAACACAGG-AA-ACTGTC
58233 CATATGTCCC
1 CATATGTCCC
58243 AAAGGACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 20 0.56
31 1 0.03
32 15 0.42
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (30 bp):
CATATGTCCCGAAGAACACAGGAAACTGTC
Found at i:58604 original size:2 final size:2
Alignment explanation
Indices: 58558--58588 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58548 CTTATGTAAC
58558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58589 TATCTCATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60603 original size:16 final size:17
Alignment explanation
Indices: 60571--60603 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
60561 TATTTTAAGC
60571 TAAAAACAATTACTAAAA
1 TAAAAACAA-TACTAAAA
60589 TAAAAACAA-ACTAAA
1 TAAAAACAATACTAAA
60604 TTTAGGGTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAACAATACTAAAA
Found at i:62135 original size:13 final size:13
Alignment explanation
Indices: 62116--62156 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
62106 ATTAACATTA
62116 AAATAATAATAAT
1 AAATAATAATAAT
* *
62129 TAATAATAGTAAT
1 AAATAATAATAAT
*
62142 AAATAATAAAAAT
1 AAATAATAATAAT
62155 AA
1 AA
62157 TGAACTTACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:62136 original size:16 final size:16
Alignment explanation
Indices: 62112--62157 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
62102 TAATATTAAC
62112 ATTAA-AATAATAATA
1 ATTAATAATAATAATA
*
62127 ATTAATAATAGTAATA
1 ATTAATAATAATAATA
* *
62143 AATAATAAAAATAAT
1 ATTAATAATAATAAT
62158 GAACTTACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTAATAATAATAATA
Found at i:62648 original size:29 final size:29
Alignment explanation
Indices: 62613--62720 Score: 171
Period size: 29 Copynumber: 3.7 Consensus size: 29
62603 CAGTGGCCGG
*
62613 TATATTTACCGATCTAACACCAGTCAGAC
1 TATATTTCCCGATCTAACACCAGTCAGAC
* * *
62642 TATATTTTCTGATCTAACACTAGTCAGAC
1 TATATTTCCCGATCTAACACCAGTCAGAC
*
62671 TATATTTCCCGATTTAACACCAGTCAGAC
1 TATATTTCCCGATCTAACACCAGTCAGAC
62700 TATATTTCCCGATCTAACACC
1 TATATTTCCCGATCTAACACC
62721 CTTAACAGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.32
Consensus pattern (29 bp):
TATATTTCCCGATCTAACACCAGTCAGAC
Found at i:62832 original size:51 final size:51
Alignment explanation
Indices: 62728--62830 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 51
62718 ACCCTTAACA
* ** *
62728 GTAAAGCGCGCCCCCTGAACCGCGCTATATGCTGATTTGGCACCACGTGGG
1 GTAAAGCGCGCCCCCTGAACCGCACTATATGCTGACATGGCAACACGTGGG
* * * *
62779 GTAAGGCGCGCCCTCTGTACCGCACTATATGCTGACATGGGATACACGTGGG
1 GTAAAGCGCGCCCCCTGAACCGCACTATATGCTGACATGGCA-ACACGTGGG
62831 TATAGTGCGG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 35 0.81
52 8 0.19
ACGTcount: A:0.20, C:0.29, G:0.30, T:0.20
Consensus pattern (51 bp):
GTAAAGCGCGCCCCCTGAACCGCACTATATGCTGACATGGCAACACGTGGG
Found at i:63031 original size:10 final size:10
Alignment explanation
Indices: 62992--63041 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
62982 TTCATCACAC
62992 CAAATTCTCT
1 CAAATTCTCT
*
63002 CAATTTCTCT
1 CAAATTCTCT
*
63012 CAACTTCTCT
1 CAAATTCTCT
*
63022 CAAATACTCT
1 CAAATTCTCT
* *
63032 TATATTCTCT
1 CAAATTCTCT
63042 GTTTAAGGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:63114 original size:16 final size:15
Alignment explanation
Indices: 63055--63114 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
63045 TAAGGTATAT
*
63055 TTTATTATATTTTTAA
1 TTTATT-TATATTTAA
* *
63071 TAT-TTTGTATTTAA
1 TTTATTTATATTTAA
*
63085 TTTATTTTTAATTTAA
1 TTTATTTAT-ATTTAA
63101 TTTATTTAATATTT
1 TTTATTT-ATATTT
63115 TACTTATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 9 0.26
15 6 0.17
16 19 0.54
17 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTATTTATATTTAA
Found at i:70488 original size:21 final size:22
Alignment explanation
Indices: 70464--70517 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
70454 TTTTTCAAAT
*
70464 TCCC-AATTTCCTGACTCACAA
1 TCCCTAATTTCCTGACCCACAA
* *
70485 TCCCTAA-TTCTTGACCCCCAA
1 TCCCTAATTTCCTGACCCACAA
70506 TCCCTAATTTCC
1 TCCCTAATTTCC
70518 CTCTAGGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.24, C:0.41, G:0.04, T:0.31
Consensus pattern (22 bp):
TCCCTAATTTCCTGACCCACAA
Found at i:73722 original size:27 final size:25
Alignment explanation
Indices: 73679--73729 Score: 59
Period size: 27 Copynumber: 2.0 Consensus size: 25
73669 TCCCCATTTT
*
73679 AACTTTTTACTCATAGCTGAACTGTAC
1 AACTTTTCACTCATAGC--AACTGTAC
73706 AACTTTTCAC-CATTAGCAACTGTA
1 AACTTTTCACTCA-TAGCAACTGTA
73730 ATAGTCAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (25 bp):
AACTTTTCACTCATAGCAACTGTAC
Found at i:75580 original size:22 final size:22
Alignment explanation
Indices: 75552--75604 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
75542 TTTTCAAATT
*
75552 CCTAATTTCCTGACTCACAATC
1 CCTAATTTCCTGACCCACAATC
* * *
75574 CCTAA-TTCTTGACCCCCAATT
1 CCTAATTTCCTGACCCACAATC
75595 CCTAATTTCC
1 CCTAATTTCC
75605 CTCCAGGGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.25, C:0.38, G:0.04, T:0.34
Consensus pattern (22 bp):
CCTAATTTCCTGACCCACAATC
Found at i:87239 original size:20 final size:20
Alignment explanation
Indices: 87214--87260 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
87204 CTTTGTGGTT
*
87214 AAGATTATTAGTGAGAATTA
1 AAGATTATCAGTGAGAATTA
87234 AAGATTATCAGTGAGAATTA
1 AAGATTATCAGTGAGAATTA
87254 AAGATTA
1 AAGATTA
87261 CCAGGGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (20 bp):
AAGATTATCAGTGAGAATTA
Found at i:87496 original size:37 final size:38
Alignment explanation
Indices: 87416--87496 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 38
87406 AACAAGTTAG
*
87416 AAAATATTTATATATTTTCTTTAAAAAAATTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAAATTAAAATCAT
*
87455 -AAAATTTATATAATTTT-TTT-ACAAAATTGAAAAT-AT
1 AAAAATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCAT
87491 AAAAAT
1 AAAAAT
87497 ATTTAATGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 9 0.24
37 20 0.54
38 8 0.22
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAAATTAAAATCAT
Found at i:89674 original size:60 final size:59
Alignment explanation
Indices: 89502--89676 Score: 176
Period size: 60 Copynumber: 2.9 Consensus size: 59
89492 AGTATAACCC
* ** * * *
89502 TCATTTTAAATTGGTCCCTAAACTTTTAAATGTTCCAAATTT-ATTCTTAAACTATGACTA
1 TCATTTTAAATTAGTCCCTAAACTTTTAAACATTTC-AATTTCA-TCCTAAATTATGACTA
* * * *
89562 TCATTCTAAATTTGT-CCTCAAACTTTTGAACATTTCAATTTCATCCCTAAATTGTGA-TA
1 TCATTTTAAATTAGTCCCT-AAACTTTTAAACATTTCAATTTCAT-CCTAAATTATGACTA
*
89621 TTCATTTTAAATTAGTCCCTAAACTTTTTAAACATTTCAATTTCATCCAAAATTAT
1 -TCATTTTAAATTAGTCCCTAAAC-TTTTAAACATTTCAATTTCATCCTAAATTAT
89677 ACATATATAC
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
59 11 0.12
60 61 0.64
61 23 0.24
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.43
Consensus pattern (59 bp):
TCATTTTAAATTAGTCCCTAAACTTTTAAACATTTCAATTTCATCCTAAATTATGACTA
Found at i:91150 original size:34 final size:34
Alignment explanation
Indices: 91108--91194 Score: 122
Period size: 34 Copynumber: 2.5 Consensus size: 34
91098 AAAAATCTTT
* * *
91108 CAATATAATTT-TCATTAATTTATGGATGTGTTAG
1 CAATATAATTTAT-ATTAATTTATGAATGTATTAA
91142 CAATATAATTTATATTAATTTATGAATGTATTAA
1 CAATATAATTTATATTAATTTATGAATGTATTAA
91176 CAATATAATTTATTATTAA
1 CAATATAATTTA-TATTAA
91195 ATTTTATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
34 41 0.85
35 7 0.15
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (34 bp):
CAATATAATTTATATTAATTTATGAATGTATTAA
Found at i:94482 original size:21 final size:21
Alignment explanation
Indices: 94431--94483 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
94421 ATTATGACTA
*
94431 TCGCAATGCAATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
** *
94452 TCGCGTTGCGTTTTTCACAA-T
1 TCGCAATGCGATTTTC-CAATT
94473 TCGCAATGCGA
1 TCGCAATGCGA
94484 ATAAGTAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:94522 original size:41 final size:40
Alignment explanation
Indices: 94473--94709 Score: 146
Period size: 41 Copynumber: 5.8 Consensus size: 40
94463 TTTTCACAAT
*
94473 TCGCAATGCGAATAAGTAAATCGCAATGCGAACTTGAAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAA-TTCAAAAA
* * ** *
94514 TCGCAATGCG-AT-ACTGACTATCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAATAAGT-A-AATCGCAATGCGAA--TTCAAAAA
* * * * ** * * *
94555 TCGCATTGCGATTTACGT-ATTCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATAAGTAAATCGCAATGCGA-ATTCAAAAA
* *
94596 TCGCAATGCGAATACGTAAATCGCAACGCG-ATT-AAGTAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTCAA--AAA
* *
94636 TCGCAACGCGATTAAGTAAATCGCAATGCGAATT-AGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTCA--AAAA
*
94677 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATAAGTAAATCGCAATGCGAAT
94710 CTGACTATCG
Statistics
Matches: 149, Mismatches: 33, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 38 0.26
41 102 0.68
42 1 0.01
43 2 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (40 bp):
TCGCAATGCGAATAAGTAAATCGCAATGCGAATTCAAAAA
Found at i:94568 original size:21 final size:21
Alignment explanation
Indices: 94534--94606 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
94524 ATACTGACTA
* *
94534 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCATAAT
* * *
94555 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGATTTTCATAAT
**
94575 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCATAAT
94596 TCGCAATGCGA
1 TCGCAATGCGA
94607 ATACGTAAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
TCGCAATGCGATTTTCATAAT
Found at i:94621 original size:20 final size:20
Alignment explanation
Indices: 94596--94709 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
94586 TTTTCATAAT
*
94596 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
94616 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
94636 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* *
94656 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
*
94677 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATAAGTAAA
94697 TCGCAATGCGAAT
1 TCGCAATGCGAAT
94710 CTGACTATCG
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
20 66 0.79
21 18 0.21
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:94720 original size:61 final size:59
Alignment explanation
Indices: 94596--94727 Score: 149
Period size: 61 Copynumber: 2.2 Consensus size: 59
94586 TTTTCATAAT
* * *
94596 TCGCAATGCGAATACGTAAATCGCAACGCGATTAAGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGAAAATCGCAACGCGAATAAGTAAATCGCAACGCGATTAACT-AA
* * * * *
94656 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACT-A
1 TCGCAATGCGAA-TACGAAAATCGCAACGCGAATAAGTAAATCGCAACGCG-AT-TAACTAA
94717 TCGCAATGCGA
1 TCGCAATGCGA
94728 TTTACATAGC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
60 12 0.20
61 44 0.72
62 2 0.03
63 3 0.05
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (59 bp):
TCGCAATGCGAATACGAAAATCGCAACGCGAATAAGTAAATCGCAACGCGATTAACTAA
Found at i:95350 original size:30 final size:30
Alignment explanation
Indices: 95310--95366 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
95300 CTTAAAAGAG
* *
95310 TTTTGCAATACTGAGATTTAAATAATTTTA
1 TTTTACAATACTGAAATTTAAATAATTTTA
95340 TTTTACAATACTGAAATTTAAATAATT
1 TTTTACAATACTGAAATTTAAATAATT
95367 CATACAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTACAATACTGAAATTTAAATAATTTTA
Found at i:95439 original size:54 final size:54
Alignment explanation
Indices: 95380--96157 Score: 488
Period size: 54 Copynumber: 14.4 Consensus size: 54
95370 ACAACTACAA
95380 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * **
95434 TAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAA-TC-TA-TATTTTAA-AATAAATCAATCCATAC
** * *
95491 TTTTAAA--A--T-AAATCAATCGATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
*
95546 -AACTACA--A--T--AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
95594 AAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATC-A---AT-CT-AT--A-T-TTTAAAATAAATCAATCCATAC
** * * *
95657 TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATA--C
* * * * * *
95714 TAAAATAAATCAATTCATACT-AAT-AA-AT-TA-TTTAAAATAAATTAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * *
95766 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCGATAC
1 TAA-TAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * ** *
95814 TAATAAATTATTTAAAATAAATCAATCAATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATC--TA-TATTTTAA-AATAAATCAATCCATA--C
* * * * * *
95874 TAAAATAAATCAATCAATACAAAT-AA-AT-TA-TTTAAAATAAATCAATCC--A-
1 T--AATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* * * *
95923 T-A-AAACTA--CAATAATAAATCAATCCATATTTTCAAATAAATCAATCCATAC
1 TAATAAATTATTTAA-AATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
95974 AAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
* *
96028 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCGATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
*
96082 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
96136 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
96158 TATTTTAAAA
Statistics
Matches: 577, Mismatches: 74, Indels: 146
0.72 0.09 0.18
Matches are distributed among these distances:
43 5 0.01
44 8 0.01
45 8 0.01
46 1 0.00
47 5 0.01
48 65 0.11
49 8 0.01
50 7 0.01
51 2 0.00
52 17 0.03
53 9 0.02
54 299 0.52
55 17 0.03
56 4 0.01
57 15 0.03
58 42 0.07
59 8 0.01
60 3 0.01
61 4 0.01
62 18 0.03
63 6 0.01
64 24 0.04
65 2 0.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
Found at i:95441 original size:22 final size:22
Alignment explanation
Indices: 95392--95440 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
95382 ATAAATTATT
* **
95392 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
95414 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
95437 TAAA
1 TAAA
95441 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:95482 original size:80 final size:80
Alignment explanation
Indices: 95395--95710 Score: 499
Period size: 80 Copynumber: 3.9 Consensus size: 80
95385 AATTATTTAA
*
95395 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
95460 TCATACAACTACAAT
66 CCATACAACTACAAT
*
95475 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
95540 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
95555 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
95620 CTATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
95639 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
95704 ATCCATA
64 ATCCATA
95711 TTTTAAAATA
Statistics
Matches: 218, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
80 147 0.67
81 2 0.01
82 1 0.00
84 1 0.00
86 67 0.31
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:95611 original size:14 final size:14
Alignment explanation
Indices: 95594--95647 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
95584 CAATCCATAC
95594 AAATAAATTATTTA
1 AAATAAATTATTTA
*
95608 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
95625 CTAATAAATTATTTA
1 -AAATAAATTATTTA
95640 AAATAAAT
1 AAATAAAT
95648 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 4 0.12
16 2 0.06
17 4 0.12
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:95662 original size:22 final size:22
Alignment explanation
Indices: 95636--95678 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
95626 TAATAAATTA
95636 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
95658 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
95679 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:95687 original size:22 final size:22
Alignment explanation
Indices: 95638--95686 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
95628 ATAAATTATT
**
95638 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
95660 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
95683 TAAA
1 TAAA
95687 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:95716 original size:22 final size:22
Alignment explanation
Indices: 95690--95732 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
95680 TAATAAATTA
95690 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
95712 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
95733 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:95741 original size:22 final size:22
Alignment explanation
Indices: 95692--95740 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
95682 ATAAATTATT
**
95692 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
95714 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATCCATA-TAA
95737 TAAA
1 TAAA
95741 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:95795 original size:80 final size:80
Alignment explanation
Indices: 95695--96157 Score: 523
Period size: 80 Copynumber: 5.8 Consensus size: 80
95685 AATTATTTAA
*
95695 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
95760 CCATACAACTACAAT
66 CCATACAACTACAAT
95775 AATAAATCAATCCATATTTTAAAATAAATCAA-TCGATACTAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAA
*
95839 TCAATACAACTACAAT
65 TCCATACAACTACAAT
*
95855 AATAAATCAATCCATATTTTAAAATAAATCAA-TCAATACAAATAAATTATTTAAAATAAATCAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAA
*
95919 TCCATAAAACTACAAT
65 TCCATACAACTACAAT
* * *
95935 AATAAATCAATCCATATTTTCAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
* * **
96000 -C-TA-TATTTTAA-
66 CCATACAACTACAAT
* ** * ** * * * **
96011 AATAAATCAATTCATACTAATAAATTATTTAAAAT-A-AATCAATCCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATTCATACT-AATAAATTA-TTTAAAATAAATC
* *
96073 AATCGATACTAA-TAAATTATTT
63 AATCCATAC-AACTACA--A--T
*
96095 AAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
1 --AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
96158 TATTTTAAAA
Statistics
Matches: 322, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
75 3 0.01
76 36 0.11
77 13 0.04
78 4 0.01
79 5 0.02
80 213 0.66
81 2 0.01
85 10 0.03
86 32 0.10
87 4 0.01
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:95901 original size:22 final size:22
Alignment explanation
Indices: 95828--95901 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
95818 AAATTATTTA
*
95828 AAATAAATCAATCAATACAACT
1 AAATAAATCAATCAATACAAAT
* * *
95850 ACAAT-AATAAATCAATCCATATTTT
1 A-AATAAATCAATCAATACA-A--AT
95875 AAAATAAATCAATCAATACAAAT
1 -AAATAAATCAATCAATACAAAT
95898 AAAT
1 AAAT
95902 TATTTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 17 0.43
23 5 0.12
25 5 0.12
26 13 0.32
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCAATACAAAT
Found at i:95981 original size:22 final size:22
Alignment explanation
Indices: 95906--95980 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
95896 ATAAATTATT
95906 TAAAATAAATCAATCCATAAAA
1 TAAAATAAATCAATCCATAAAA
***
95928 CTACAATAATAAATCAATCCATATTT
1 -T--AA-AATAAATCAATCCATAAAA
*
95954 TCAAATAAATCAATCCATACAAA
1 TAAAATAAATCAATCCATA-AAA
95977 TAAA
1 TAAA
95981 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
22 16 0.40
23 5 0.12
25 3 0.08
26 16 0.40
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAATAAATCAATCCATAAAA
Found at i:96089 original size:22 final size:22
Alignment explanation
Indices: 96040--96088 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
96030 ATAAATTATT
**
96040 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
96062 TAAAATAAATCAATCGATACTAA
1 TAAAATAAATCAATCCATA-TAA
96085 TAAA
1 TAAA
96089 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:96098 original size:380 final size:378
Alignment explanation
Indices: 95395--96112 Score: 1072
Period size: 380 Copynumber: 1.9 Consensus size: 378
95385 AATTATTTAA
*
95395 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* *
95460 TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTAT
66 TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTAT
* *
95525 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCC
131 TTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
* * *
95590 ATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCA
196 ATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATAATTCAAAATAAATAAAT-C-
* ** **
95655 TATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAT
259 TATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAAT
*
95720 AAATCAATTCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
324 AAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
*
95775 AATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAA-
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
95839 TCAATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTA
66 TC-ATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTA
*
95904 TTTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTCAAATAAATCAATC
130 TTTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
* * *
95969 CATACAAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACT-AATA
195 CATACAAATAAATTATTTAAAATAAATCAATCTATA--CT--AATAAAT-AATTCAAAATAAATA
** * **
96033 AAT-TA-TTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCGATACTAATAAAT-TAT
255 AATCTATTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAAT-C-AATAAATAT-T
96093 TTAAAATAAATCAATCCATA
317 TTAAAATAAATCAATCCATA
96113 TTTTAAAATA
Statistics
Matches: 305, Mismatches: 24, Indels: 18
0.88 0.07 0.05
Matches are distributed among these distances:
378 5 0.02
379 12 0.04
380 266 0.87
381 2 0.01
382 1 0.00
384 13 0.04
385 6 0.02
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (378 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
TCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATACAAATAAATTAT
TTAAAATAAATCAATCCATAAAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCTATACTAATAAATAATTCAAAATAAATAAATCTA
TTTTAAAATAAATCAATCCATACTAATAAAATAAATAAAATAAATCAATAAATATTTTAAAATAA
ATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATACAACTACAAT
Found at i:96118 original size:22 final size:22
Alignment explanation
Indices: 96092--96134 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
96082 TAATAAATTA
96092 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
96114 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
96135 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:96143 original size:22 final size:22
Alignment explanation
Indices: 96094--96142 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
96084 ATAAATTATT
**
96094 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
96116 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
96139 TAAA
1 TAAA
96143 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:96166 original size:15 final size:15
Alignment explanation
Indices: 96137--96254 Score: 123
Period size: 15 Copynumber: 7.5 Consensus size: 15
96127 AATCCATACT
96137 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
96151 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
96166 AATAAATCAATTTATATTTTAT
1 AAT--A--AA--T-TATTTTAA
*
96188 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
96203 AATAAATTATTTTAT
1 AATAAATTATTTTAA
96218 AATAAATTATTTTAA
1 AATAAATTATTTTAA
96233 AATAAATTATTTTTAA
1 AATAAATTA-TTTTAA
96249 AA-AAAT
1 AATAAAT
96255 AGCCTTATTA
Statistics
Matches: 89, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
14 9 0.10
15 55 0.62
16 9 0.10
17 1 0.01
18 1 0.01
19 2 0.02
20 1 0.01
21 1 0.01
22 10 0.11
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:96196 original size:47 final size:50
Alignment explanation
Indices: 95894--96224 Score: 167
Period size: 54 Copynumber: 6.5 Consensus size: 50
95884 CAATCAATAC
* **
95894 AAATAAATTA-TTTAAAATAAATCAATCCATA-AAACTACAATAATA-AAT-
1 AAATAAATTATTTTAAAATAAATCAATCCATACTAA-TA-AATAATATTTTA
* ** * *
95942 CAATCCA-TATTTTCAAATAAATCAATCCATACAAATAAAT--TA-TTTA
1 AAATAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATATTTTA
*
95988 AAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAAT--TA-TTTA
1 AAAT--A--AA--T-TATTTTAAAATAAATCAATCCATACTAATAAATAATATTTTA
*
96042 AAATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAAT--TA-TTTA
1 AAAT--A--AAT---TATTTTAAAATAAATCAATCCATACTAATAAATAATATTTTA
96096 AAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAAT--TA-TTTA
1 AAAT--A--AAT---TATTTTAAAATAAATCAATCCATACTAATAAATAATATTTTA
** **
96150 AAATAAATTATTTTAAAATAAATCAATTTATA-TTTTATAATAATTTATTTTA
1 AAATAAATTATTTTAAAATAAATCAATCCATACTAATA-AATAA--TATTTTA
*
96202 AAATAAATTATTTTATAATAAAT
1 AAATAAATTATTTTAAAATAAAT
96225 TATTTTAAAA
Statistics
Matches: 244, Mismatches: 20, Indels: 34
0.82 0.07 0.11
Matches are distributed among these distances:
45 3 0.01
46 6 0.02
47 30 0.12
48 26 0.11
49 3 0.01
50 4 0.02
51 2 0.01
52 28 0.11
54 142 0.58
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (50 bp):
AAATAAATTATTTTAAAATAAATCAATCCATACTAATAAATAATATTTTA
Found at i:96688 original size:33 final size:33
Alignment explanation
Indices: 96637--96718 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
96627 CGAGAATGAA
**
96637 AATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGC-GAAATGAAAATCGCAACGAGAG
* *
96671 AATCACAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
96704 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
96719 CCAAAATCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.77
34 10 0.23
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:96725 original size:33 final size:33
Alignment explanation
Indices: 96658--96726 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
96648 GGAAATGACT
**
96658 ATCGCAACGAGAGAATCACAACGCGAAATGAAA
1 ATCGCAACGAGAGAATCACAACGCGAAACCAAA
* *
96691 ATCGCAACGAGATAATCGCAACGCGAAACCAAA
1 ATCGCAACGAGAGAATCACAACGCGAAACCAAA
96724 ATC
1 ATC
96727 CCATTGCGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGAGAGAATCACAACGCGAAACCAAA
Found at i:96772 original size:33 final size:33
Alignment explanation
Indices: 96730--96823 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
96720 CAAAATCCCA
*
96730 TTGCGATTTTCATTTCGTGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
96763 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* **
96796 TTACGATAGTCATTTCCGCGTTGCGATT
1 TTGCGATTTTCATTT-CGCGTTGCGATT
96824 TTCATTATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
33 42 0.78
34 12 0.22
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:96828 original size:20 final size:20
Alignment explanation
Indices: 96794--96851 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
96784 GCGATTCTCT
**
96794 CGTTACGATAGTCATTTCCG
1 CGTTACGATTTTCATTTCCG
* *
96814 CGTTGCGATTTTCATTAT-CT
1 CGTTACGATTTTCATT-TCCG
96834 CGTTACGATTTTCATTTC
1 CGTTACGATTTTCATTTC
96852 AACCAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (20 bp):
CGTTACGATTTTCATTTCCG
Found at i:98664 original size:94 final size:94
Alignment explanation
Indices: 98503--98718 Score: 396
Period size: 94 Copynumber: 2.3 Consensus size: 94
98493 TCACTTAGAT
98503 TAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAG
1 TAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAG
98568 TAAATTTGTTCGGTTGCTGCCAATTCTGC
66 TAAATTTGTTCGGTTGCTGCCAATTCTGC
98597 TAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAG
1 TAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAG
* *
98662 TAAATTTGTTCGTTTGCTGTCAATTCTGC
66 TAAATTTGTTCGGTTGCTGCCAATTCTGC
* *
98691 TAAACTGTGTATTCTTTAATACTCTGAA
1 TAAACTGTGTATTCTTTAACACTGTGAA
98719 ACTATTCTTC
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 118 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (94 bp):
TAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAG
TAAATTTGTTCGGTTGCTGCCAATTCTGC
Found at i:100595 original size:14 final size:14
Alignment explanation
Indices: 100576--100611 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
100566 ATTGTTTAAT
100576 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
100590 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
100604 TGATTTGT
1 TGATTTGT
100612 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:100778 original size:19 final size:19
Alignment explanation
Indices: 100718--100778 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
100708 AAAAATGACT
*
100718 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
100737 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
100751 ATCGTAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
100770 ATCGCAACG
1 ATCGCAACG
100779 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 9 0.27
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 18 0.55
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:100788 original size:14 final size:14
Alignment explanation
Indices: 100736--100792 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
100726 GCGAAATGAA
100736 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
100750 AATCGTAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
100769 AATCGCAACGAGAG
1 AATCGCAACGAGAG
100783 AATCGCAACG
1 AATCGCAACG
100793 CGAAACTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:100808 original size:33 final size:33
Alignment explanation
Indices: 100718--100797 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
100708 AAAAATGACT
*
100718 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
100751 ATCGTAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
100784 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
100798 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:100825 original size:19 final size:19
Alignment explanation
Indices: 100803--100933 Score: 58
Period size: 19 Copynumber: 7.7 Consensus size: 19
100793 CGAAACTAAA
100803 TTCGCATTGCGATTTTTAT
1 TTCGCATTGCGATTTTTAT
* **
100822 TTCGCTTTGCGA---TTCC
1 TTCGCATTGCGATTTTTAT
* *
100838 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTTAT
*
100855 TTCGCATTGCGA---TTCT
1 TTCGCATTGCGATTTTTAT
*
100871 CTCG--TTGCGATTTTTAT
1 TTCGCATTGCGATTTTTAT
* *
100888 TTCCCATTGCGA---TTCT
1 TTCGCATTGCGATTTTTAT
* *
100904 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTTAT
100921 TTCGCATTGCGAT
1 TTCGCATTGCGAT
100934 AGTCATTTCC
Statistics
Matches: 77, Mismatches: 20, Indels: 30
0.61 0.16 0.24
Matches are distributed among these distances:
14 18 0.23
16 15 0.19
17 14 0.18
19 30 0.39
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (19 bp):
TTCGCATTGCGATTTTTAT
Found at i:100851 original size:33 final size:33
Alignment explanation
Indices: 100809--100933 Score: 205
Period size: 33 Copynumber: 3.8 Consensus size: 33
100799 TAAATTCGCA
* * *
100809 TTGCGATTTTTATTTCGCTTTGCGATTCCCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
100842 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
100875 TTGCGATTTTTATTTCCCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
100908 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
100934 AGTCATTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:100952 original size:20 final size:20
Alignment explanation
Indices: 100906--100999 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
100896 GCGATTCTCT
**
100906 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
100925 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
100945 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
100964 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
100986 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
101000 AATAATTGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:103281 original size:12 final size:12
Alignment explanation
Indices: 103264--103288 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103254 TCTTCGGGGA
103264 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103276 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103288 C
1 C
103289 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:103497 original size:24 final size:24
Alignment explanation
Indices: 103463--103516 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
103453 CTGAAACATC
*
103463 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
103487 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
103511 ATCAAA
1 ATCAAA
103517 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:104287 original size:20 final size:20
Alignment explanation
Indices: 104264--104369 Score: 131
Period size: 20 Copynumber: 5.3 Consensus size: 20
104254 TATTATCTCA
* * *
104264 TTGCGATAGTCAAAATCTCG
1 TTGCGAAAGTCAGAATCGCG
*
104284 TTGCAAAAGTCAGAATCGCG
1 TTGCGAAAGTCAGAATCGCG
** *
104304 TTGAAAAAGTCAGAATCGCA
1 TTGCGAAAGTCAGAATCGCG
*
104324 TTGCGAAAGTCAGTATCGCG
1 TTGCGAAAGTCAGAATCGCG
*
104344 TTGCGAAAGTCAGTATCGCG
1 TTGCGAAAGTCAGAATCGCG
104364 TTGCGA
1 TTGCGA
104370 TTTTGTATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (20 bp):
TTGCGAAAGTCAGAATCGCG
Found at i:104396 original size:41 final size:41
Alignment explanation
Indices: 104298--104414 Score: 139
Period size: 41 Copynumber: 2.9 Consensus size: 41
104288 AAAAGTCAGA
** * ** *
104298 ATCGCGTTGAAAAAGTCAGAATCGCATTGCGA--AAGTCAGT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT-ATT
*
104338 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
*
104379 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
104415 CCCAATTCGC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 28 0.42
41 36 0.55
42 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:104403 original size:20 final size:20
Alignment explanation
Indices: 104282--104410 Score: 134
Period size: 20 Copynumber: 6.4 Consensus size: 20
104272 GTCAAAATCT
* *
104282 CGTTGCAAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
** *
104302 CGTTGAAAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
104322 CATTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
104342 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** *
104362 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
104383 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
104403 CATTGCGA
1 CGTTGCGA
104411 TTTTCCCAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 75 0.80
21 14 0.15
22 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:104411 original size:20 final size:20
Alignment explanation
Indices: 104264--104411 Score: 127
Period size: 20 Copynumber: 7.3 Consensus size: 20
104254 TATTATCTCA
** *
104264 TTGCGATAGTCAAAATCTCG
1 TTGCGATAGTCAGTATCGCG
* * *
104284 TTGCAAAAGTCAGAATCGCG
1 TTGCGATAGTCAGTATCGCG
** * * *
104304 TTGAAAAAGTCAGAATCGCA
1 TTGCGATAGTCAGTATCGCG
*
104324 TTGCGAAAGTCAGTATCGCG
1 TTGCGATAGTCAGTATCGCG
*
104344 TTGCGAAAGTCAGTATCGCG
1 TTGCGATAGTCAGTATCGCG
* *
104364 TTGCGATTTTGT-ATTATCGCG
1 TTGCGA--TAGTCAGTATCGCG
*
104385 TTGCGATAGTCAGTATCGCA
1 TTGCGATAGTCAGTATCGCG
104405 TTGCGAT
1 TTGCGAT
104412 TTTCCCAATT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.03
20 90 0.83
21 14 0.13
22 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGTATCGCG
Found at i:104425 original size:41 final size:41
Alignment explanation
Indices: 104311--104432 Score: 131
Period size: 41 Copynumber: 3.0 Consensus size: 41
104301 GCGTTGAAAA
* *** * *
104311 AGTCAGAATCGCATTGCGAAAGT-CAGTATCGCGTTGCGAA
1 AGTCAGTATCGCATTGCGATTTTCCAATATCGCGTTGCGAT
* ** *
104351 AGTCAGTATCGCGTTGCGATTTTGTATTATCGCGTTGCGAT
1 AGTCAGTATCGCATTGCGATTTTCCAATATCGCGTTGCGAT
104392 AGTCAGTATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 AGTCAGTATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
104433 TTACTTATTC
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
40 18 0.26
41 48 0.71
42 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
AGTCAGTATCGCATTGCGATTTTCCAATATCGCGTTGCGAT
Found at i:104493 original size:21 final size:22
Alignment explanation
Indices: 104441--104493 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
104431 ATTTACTTAT
104441 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
104462 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
104483 TCGCATTGCGA
1 TCGCATTGCGA
104494 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:105415 original size:29 final size:29
Alignment explanation
Indices: 105336--105421 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 29
105326 GAAAAAATAT
* *
105336 AACTTTCAAAAATTAAATTTTGGTCTCTA
1 AACTTTCAAAAATTAAATTTTAGTCACTA
* * * *
105365 AACTTTTCTAAATTTATA-TTTAGCCACTA
1 AAC-TTTCAAAAATTAAATTTTAGTCACTA
* *
105394 AACTTTCAAAACTTACATTTTAGTCACT
1 AACTTTCAAAAATTAAATTTTAGTCACT
105422 GACCAAAATT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 11 0.24
29 23 0.51
30 11 0.24
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (29 bp):
AACTTTCAAAAATTAAATTTTAGTCACTA
Found at i:106251 original size:22 final size:22
Alignment explanation
Indices: 106225--106302 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
106215 TTAACAGAAA
* * *
106225 TGCCTTAGCATTGGTATTAAAG
1 TGCCTTAGCACTGATACTAAAG
*
106247 TGCCTCAGCACTGATACTAAAG
1 TGCCTTAGCACTGATACTAAAG
106269 TGCCTTAGCACTGATACTAAAG
1 TGCCTTAGCACTGATACTAAAG
*
106291 TGCTTTAGCACT
1 TGCCTTAGCACT
106303 ACTGAGAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (22 bp):
TGCCTTAGCACTGATACTAAAG
Found at i:107432 original size:54 final size:54
Alignment explanation
Indices: 107350--107785 Score: 593
Period size: 54 Copynumber: 8.1 Consensus size: 54
107340 AATGCACCCG
* * * * *
107350 TAGTGCCCATACGGTCATTCATAAACATATGATGAATTCCGTGAATAGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * * *
107404 TAGTGCTGAAACAGCTATTCATTAACATATGATGAATTCCATGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * *
107458 TAGTGACGAAACGATTATTCATCAACATATGATGAATTTCGTGAATTGTACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
*
107512 TAGTGCCGAAACGATTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* ** * * *
107566 CAGTGCCGAAATAGTTATTCATCAATATATGATGAATTCTGTGAATTGCACACA
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * * *
107620 TAATGTCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGTACATT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* *
107674 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCATGAATTGCACATT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
* * **
107728 TAGTGTCGAAACGGTTATTTATCAACATATGATGAATTATGTGAATTGCACACT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
107782 TAGT
1 TAGT
107786 TATTTGGTAA
Statistics
Matches: 334, Mismatches: 48, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 334 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACT
Found at i:108162 original size:22 final size:22
Alignment explanation
Indices: 108111--108167 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
108101 TGGCTCATTA
*
108111 GTACCAATAC-AC-ATACCATG
1 GTACCAATACTACTATACTATG
*
108131 GTATCAATACTACTATACTATG
1 GTACCAATACTACTATACTATG
*
108153 GTACCGATACT-CTAT
1 GTACCAATACTACTAT
108168 TACGGTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 9 0.29
21 6 0.19
22 16 0.52
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (22 bp):
GTACCAATACTACTATACTATG
Found at i:111398 original size:76 final size:77
Alignment explanation
Indices: 111247--111453 Score: 285
Period size: 76 Copynumber: 2.7 Consensus size: 77
111237 CAAAGCCAAA
* * * **
111247 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
111311 TTTGGCCCCGAG
66 TTTGGCCCCGAG
*
111323 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
*
111388 TTT-GCTCCGAG
66 TTTGGCCCCGAG
* * * * *
111399 AATTCCAGTATGCTCGGAGGAAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCC
111454 TTGTACAACG
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
75 17 0.15
76 86 0.74
77 14 0.12
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (77 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGT
TTTGGCCCCGAG
Found at i:117285 original size:21 final size:21
Alignment explanation
Indices: 117259--117298 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
117249 CCCCCTTTGA
*
117259 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
117280 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
117299 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:119545 original size:30 final size:31
Alignment explanation
Indices: 119496--119568 Score: 112
Period size: 30 Copynumber: 2.3 Consensus size: 31
119486 GGAGAAGAAT
119496 AGGTGTTAAATGTTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTTACATAATAAATTGA
*
119527 AGGTGTTCAATG-TTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTTACATAATAAATTGA
119557 AGAAGTGTTAAA
1 AG--GTGTTAAA
119569 GTAAGGGGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 20 0.53
31 11 0.29
32 7 0.18
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (31 bp):
AGGTGTTAAATGTTTTTACATAATAAATTGA
Found at i:120079 original size:74 final size:76
Alignment explanation
Indices: 119873--120077 Score: 274
Period size: 76 Copynumber: 2.7 Consensus size: 76
119863 CAAAGCCAAA
* * * **
119873 AATTACAGATTGCTCAGA-GGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
119937 TTTGTCCCCGAG
65 TTTGTCCCCGAG
* *
119949 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAG-T
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
*
120013 TTG-CTCCGAG
66 TTGTCCCCGAG
* * *
120023 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
120078 CTTGTACAAC
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
73 17 0.15
74 39 0.34
75 4 0.03
76 47 0.41
77 8 0.07
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGTCCCCGAG
Found at i:124134 original size:38 final size:40
Alignment explanation
Indices: 124062--124142 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 40
124052 TCGTTAGTCT
124062 TAATCTACTACTCTATTCATCGAGTATATTTTTAA-TGAA
1 TAATCTACTACTCTATTCATCGAGTATATTTTTAATTGAA
*
124101 TAATCTACTACTCTA-TCATTGAGTATATTTTTAATTGAA
1 TAATCTACTACTCTATTCATCGAGTATATTTTTAATTGAA
124140 TAA
1 TAA
124143 ACCTTGCAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 18 0.45
39 22 0.55
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (40 bp):
TAATCTACTACTCTATTCATCGAGTATATTTTTAATTGAA
Found at i:127248 original size:16 final size:16
Alignment explanation
Indices: 127227--127261 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
127217 CCATCTGTTT
*
127227 TAATCCAAATGGATGC
1 TAATCCAAATGAATGC
127243 TAATCCAAATGAATGC
1 TAATCCAAATGAATGC
127259 TAA
1 TAA
127262 AAGATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (16 bp):
TAATCCAAATGAATGC
Found at i:127998 original size:18 final size:17
Alignment explanation
Indices: 127952--127991 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
127942 CTGGGAGAAA
*
127952 ATGTATGTGTACATATGT
1 ATGTATTTGTACATA-GT
127970 ATGTATTTGTACATA-T
1 ATGTATTTGTACATAGT
127986 ATGTAT
1 ATGTAT
127992 GCTTGTAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (17 bp):
ATGTATTTGTACATAGT
Found at i:129679 original size:22 final size:21
Alignment explanation
Indices: 129631--129679 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
129621 AATTGGGGTT
*
129631 TTAATTTGGAAATTATGGTAC
1 TTAATTTGGAAATTAGGGTAC
* * *
129652 TCAATTTGGGAATTAGGGTTC
1 TTAATTTGGAAATTAGGGTAC
129673 TATAATT
1 T-TAATT
129680 GGATAGGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (21 bp):
TTAATTTGGAAATTAGGGTAC
Found at i:131155 original size:350 final size:337
Alignment explanation
Indices: 130514--131186 Score: 908
Period size: 350 Copynumber: 2.0 Consensus size: 337
130504 CTACACTATT
** *
130514 ATAAAAAGGAATAATGATAAATGATTATGACATTTTAAACAAATGATTTTATCACAACTCAAGTA
1 ATAAAAAGGAATAATGATAAATGATTATGACAAGTTAAAC-AATGATCTTATCACAACTCAAGTA
130579 TAATATATCTAAATAATTACTAAAATATCAATATGAGATAACTAATCAATAATTCAATATAATCA
65 TAATATATCTAAATAATTACTAAAATATCAATATGAGATAACTAATCAATAATTCAATATAATCA
*
130644 GCATAAAGTGTCACCCCCAATTTATAATTTAATTATTTTTATTAATTAATTATTGTATTTAGGGA
130 GCATAAAGTGTCACCCCCAATTTATAATTTAATTATTTTTATTAATTAATTATTGTATTTAAGGA
*
130709 TAAAATGTATAGTTTTAAACTTTGAGGGTTAATTTGTAAGTTTTCAGTCAATCTAAGCCCTTGAA
195 TAAAATGTATAGTTTTAAACTTTGAGGGTTAATTTGTAAATTTTCAGTCAATCTAAGCCCTTGAA
* * * *
130774 CCCGAATCTATCCAACCCATGTTAGCCAAGAAAAAAATTAATAGGTGATTGAGAGGGGTTGAACC
260 CCCAAATCTATCCAACCCATGTCAGCCAAGAAAAAAATTAATAAGTGATTAAGA-GGGTTGAACC
130839 CATGACATGCTAGC
324 CATGACATGCTAGC
*
130853 ATAAAAAGGAATAATGATGAATGATTATGACAAGTTAATAGC-A-GATCTTATCACAACTCAAGT
1 ATAAAAAGGAATAATGATAAATGATTATGACAAGTTAA-A-CAATGATCTTATCACAACTCAAGT
*
130916 ATAATATATCTGAATAATTACTAATAATATCAATATAAGAGATCAATCGATAATTC-A-AA-TCA
64 ATAATATATCTAAATAATTACTAA-AATATCAATAT--GAGAT-AA-C--TAA-TCAATAATTC-
* *
130978 AATATAAATCAGCATAATGTGTCACAACCCTCCAATTTCTAATTTAATTATTTTTATTAATTAAT
120 AATAT-AATCAGCATAAAGTGT--C-ACCC-CCAATTTATAATTTAATTATTTTTATTAATTAAT
* * * *
131043 TATTTTATTTAAGGATCAAGATGTATAGTTTTAAACTTTGATGGTTAATTTGTAAATTTTCAGTT
180 TATTGTATTTAAGGAT-AAAATGTATAGTTTTAAACTTTGAGGGTTAATTTGTAAATTTTCAGTC
* * * * * * *
131108 AAT-TCAGGCCCTTGAACCTAAATTTATCCAATCCATGTCATCCAAGAAAAAATTTAATAAGTGG
244 AATCT-AAGCCCTTGAACCCAAATCTATCCAACCCATGTCAGCCAAGAAAAAAATTAATAAGTGA
131172 TTAAGAGGGTTGAAC
308 TTAAGAGGGTTGAAC
131187 TAATGCCATG
Statistics
Matches: 292, Mismatches: 24, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
338 42 0.14
339 47 0.16
340 1 0.00
341 6 0.02
342 2 0.01
343 3 0.01
344 7 0.02
345 19 0.07
346 2 0.01
347 1 0.00
348 4 0.01
349 57 0.20
350 101 0.35
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (337 bp):
ATAAAAAGGAATAATGATAAATGATTATGACAAGTTAAACAATGATCTTATCACAACTCAAGTAT
AATATATCTAAATAATTACTAAAATATCAATATGAGATAACTAATCAATAATTCAATATAATCAG
CATAAAGTGTCACCCCCAATTTATAATTTAATTATTTTTATTAATTAATTATTGTATTTAAGGAT
AAAATGTATAGTTTTAAACTTTGAGGGTTAATTTGTAAATTTTCAGTCAATCTAAGCCCTTGAAC
CCAAATCTATCCAACCCATGTCAGCCAAGAAAAAAATTAATAAGTGATTAAGAGGGTTGAACCCA
TGACATGCTAGC
Done.