Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009387.1 Hibiscus syriacus cultivar Beakdansim tig00113279_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: 929501
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:5470 original size:28 final size:28
Alignment explanation
Indices: 5417--5471 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
5407 CAAGAACAAA
* *
5417 AAAGAAAATGAGCAAAAAAGCAAAAAAC
1 AAAGAAAAAGAGCAAAAAAGAAAAAAAC
*
5445 AAAGAAAAAGAG-AAACAAGAACAAAAA
1 AAAGAAAAAGAGCAAAAAAGAA-AAAAA
5472 GAACAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.75, C:0.09, G:0.15, T:0.02
Consensus pattern (28 bp):
AAAGAAAAAGAGCAAAAAAGAAAAAAAC
Found at i:5474 original size:16 final size:16
Alignment explanation
Indices: 5441--5491 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
5431 AAAAAGCAAA
*
5441 AAACAAAGAA-AAAGAG
1 AAAC-AAGAACAAAAAG
5457 AAACAAGAACAAAAAG
1 AAACAAGAACAAAAAG
5473 -AACAAGAATCAAAAAG
1 AAACAAGAA-CAAAAAG
5489 AAA
1 AAA
5492 AAGGGACAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 13 0.42
16 16 0.52
17 2 0.06
ACGTcount: A:0.75, C:0.10, G:0.14, T:0.02
Consensus pattern (16 bp):
AAACAAGAACAAAAAG
Found at i:6128 original size:22 final size:22
Alignment explanation
Indices: 6100--6154 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
6090 GCTACCCCAT
*
6100 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGA
6122 CAAACCTTTGAGCATCAAATGA
1 CAAACCTTTGAGCATCAAATGA
6144 CAAACCTTTGA
1 CAAACCTTTGA
6155 CAAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:7015 original size:36 final size:36
Alignment explanation
Indices: 6902--7015 Score: 97
Period size: 36 Copynumber: 3.1 Consensus size: 36
6892 ACTTGATATT
*
6902 GTTTTTTTTAAAAC-AGACTTTGTCTCGCTTGAGACC
1 GTTTTTCTTAAAACAAGA-TTTGTCTCGCTTGAGACC
* * * * * ** **
6938 G-TTTTCACTAGAAAGAAGATTTATTTCACTCAAGATT
1 GTTTTTC-TTA-AAACAAGATTTGTCTCGCTTGAGACC
6975 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
1 GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
7011 GTTTT
1 GTTTT
7016 CACTATAAGA
Statistics
Matches: 55, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
35 4 0.07
36 26 0.47
37 17 0.31
38 8 0.15
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (36 bp):
GTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACC
Found at i:7157 original size:37 final size:37
Alignment explanation
Indices: 7115--7209 Score: 154
Period size: 37 Copynumber: 2.6 Consensus size: 37
7105 AACAAATTTC
*
7115 GTCTCCCTTGAGACAGTTTCTTTTGGAACTCAGTTTT
1 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
* *
7152 GTCTCCCTTAAGACCGTTTCTTTTGGAACTAAGTTTT
1 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
*
7189 GTCTCTCTTGAGACAGTTTCT
1 GTCTCCCTTGAGACAGTTTCT
7210 CTCGAAACGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (37 bp):
GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
Found at i:7657 original size:106 final size:106
Alignment explanation
Indices: 7500--7994 Score: 725
Period size: 106 Copynumber: 4.7 Consensus size: 106
7490 ATATCGTGCC
* *
7500 ACTCGAGACAACACAAGTTTAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
7565 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
7606 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGTACGGCTGATCGTCAAC-AA-AATTT--C
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
* * * *
7667 -A-TGCAGAGTCGATTTCAACTTCACAGCAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
7706 ACT-AGAGACAACACAAGTTCAACTTTACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTC
1 ACTCA-AGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCC
7770 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
7812 ACTCGAGACAACACAAGTTAAATTTCACAACGAAGGGACGGCCGGTTGTCAACAAACAACTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
7877 AATTTCAGGGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
7918 ACCCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAACTTCTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
*
7983 AGTTTCAGAGCC
66 AATTTCAGAGCC
7995 CGCGGTTTCA
Statistics
Matches: 346, Mismatches: 35, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
99 1 0.00
100 81 0.23
101 3 0.01
102 6 0.02
104 6 0.02
105 3 0.01
106 246 0.71
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:7824 original size:206 final size:213
Alignment explanation
Indices: 7504--7994 Score: 721
Period size: 206 Copynumber: 2.3 Consensus size: 213
7494 CGTGCCACTC
* *
7504 GAGACAACACAAGTTTAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAATT
*
7569 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCAC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTAAACTTCAC
* * * * *
7634 AACGAAGGTACGGCTGATCGTCAAC-AA-AA-TT-TC-A-TGCAGAGTCGATTTCAACTTCACAG
131 AACGAAGGGACGGCCGATCGTCAACAAACAACTTCCCAATTGCAGAGCCAATTTCAACTTCACAG
*
7693 CAAAGGATATTGGA-CTA
196 CAAAGGATATTGGACCCA
*
7710 GAGACAACACAAGTTCAACTTTACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAATT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAATT
* *
7775 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTAAATTTCAC
66 TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTAAACTTCAC
* * * *
7840 AACGAAGGGACGGCCGGTTGTCAACAAACAACTTCCCAATTTCAGGGCCAATTTCAACTTCACAG
131 AACGAAGGGACGGCCGATCGTCAACAAACAACTTCCCAATTGCAGAGCCAATTTCAACTTCACAG
*
7905 CGAAGGATATTGGACCCA
196 CAAAGGATATTGGACCCA
* * * *
7923 -AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGATTGTCAACAAACAA-CTTCTCAGT
1 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTC-CAAT
7986 TTCAGAGCC
65 TTCAGAGCC
7995 CGCGGTTTCA
Statistics
Matches: 255, Mismatches: 22, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
206 145 0.57
207 2 0.01
208 2 0.01
209 2 0.01
210 1 0.00
211 4 0.02
212 97 0.38
213 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.22
Consensus pattern (213 bp):
GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTCCAATT
TCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTAAACTTCAC
AACGAAGGGACGGCCGATCGTCAACAAACAACTTCCCAATTGCAGAGCCAATTTCAACTTCACAG
CAAAGGATATTGGACCCA
Found at i:21817 original size:28 final size:28
Alignment explanation
Indices: 21777--21835 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
21767 GTCTTTTCAC
*
21777 TTAAGTTATTGAATGTCTAAGAGCCCAT
1 TTAAGCTATTGAATGTCTAAGAGCCCAT
*
21805 TTAAGCTATTGAATGTCTAAGAGCTCAT
1 TTAAGCTATTGAATGTCTAAGAGCCCAT
21833 TTA
1 TTA
21836 GGACTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (28 bp):
TTAAGCTATTGAATGTCTAAGAGCCCAT
Found at i:24197 original size:21 final size:21
Alignment explanation
Indices: 24173--24214 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24163 ATTTGAATAT
24173 TATGAAGGGGTACCGAATCCC
1 TATGAAGGGGTACCGAATCCC
* *
24194 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGAATCCC
24215 CCTATATGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (21 bp):
TATGAAGGGGTACCGAATCCC
Found at i:24281 original size:20 final size:22
Alignment explanation
Indices: 24243--24282 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
24233 TTTTTGTAGA
24243 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
24265 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
24283 AGATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:26083 original size:19 final size:19
Alignment explanation
Indices: 26059--26108 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
26049 TAAAGATAAT
26059 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
26078 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
26097 TTGATTTTGAAA
1 TTGATTTTGAAA
26109 ATCAAAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.36
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:27586 original size:21 final size:21
Alignment explanation
Indices: 27560--27601 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
27550 ATTTGAATAT
27560 TATGAACGGGTATCGATTCCC
1 TATGAACGGGTATCGATTCCC
* *
27581 TATGAAGGGGTATTGATTCCC
1 TATGAACGGGTATCGATTCCC
27602 CCTATACGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (21 bp):
TATGAACGGGTATCGATTCCC
Found at i:27668 original size:20 final size:22
Alignment explanation
Indices: 27630--27669 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
27620 TTTTTGCAGA
27630 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
27652 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
27670 AGATATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:28990 original size:2 final size:2
Alignment explanation
Indices: 28983--29012 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28973 AACGATGATC
28983 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
29013 TCATTGTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30552 original size:22 final size:20
Alignment explanation
Indices: 30501--30558 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
30491 TTTTGTGCAT
30501 TTGGTATCGATACTACTCAC
1 TTGGTATCGATACTACTCAC
* * *
30521 ATAGTATCGATACTACTCTTGC
1 TTGGTATCGATACTACTC--AC
30543 TTGGTATCGATACTAC
1 TTGGTATCGATACTAC
30559 CCGCCTAGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 16 0.52
22 15 0.48
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (20 bp):
TTGGTATCGATACTACTCAC
Found at i:30571 original size:20 final size:20
Alignment explanation
Indices: 30504--30574 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
30494 TGTGCATTTG
* *
30504 GTATCGATACTACTCACATA
1 GTATCGATACTACCCGCATA
* * *
30524 GTATCGATACTACTCTTGCTTG
1 GTATCGATACTAC-C-CGCATA
*
30546 GTATCGATACTACCCGCCTA
1 GTATCGATACTACCCGCATA
30566 GTATCGATA
1 GTATCGATA
30575 TTGTTCTTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 25 0.61
21 1 0.02
22 15 0.37
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACTACCCGCATA
Found at i:30592 original size:42 final size:42
Alignment explanation
Indices: 30504--30599 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
30494 TGTGCATTTG
* *
30504 GTATCGATACTACTCACATAGTATCGATACTACTCTTGCTTG
1 GTATCGATACTACCCACATAGTATCGATACTACTCTTGCTTA
* * * **
30546 GTATCGATACTACCCGCCTAGTATCGATATTGTTCTTAG-TTA
1 GTATCGATACTACCCACATAGTATCGATACTACTCTT-GCTTA
30588 GTATCGATACTA
1 GTATCGATACTA
30600 TTAATCCAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (42 bp):
GTATCGATACTACCCACATAGTATCGATACTACTCTTGCTTA
Found at i:31153 original size:15 final size:15
Alignment explanation
Indices: 31133--31161 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31123 TATATATACT
31133 ATTGTTTTTCATAAA
1 ATTGTTTTTCATAAA
31148 ATTGTTTTTCATAA
1 ATTGTTTTTCATAA
31162 TTTTTTTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.55
Consensus pattern (15 bp):
ATTGTTTTTCATAAA
Found at i:32101 original size:17 final size:18
Alignment explanation
Indices: 32079--32141 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
32069 TTTTGACTCA
32079 ACCCGTTGA-CCGACCCG
1 ACCCGTTGACCCGACCCG
*
32096 ACCCGTTGACCCGACTCG
1 ACCCGTTGACCCGACCCG
32114 ACCCGTTGACCCGACCC-
1 ACCCGTTGACCCGACCCG
*
32131 AACCGTTGACC
1 ACCCGTTGACC
32142 GTTGCTATTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
17 19 0.45
18 23 0.55
ACGTcount: A:0.19, C:0.46, G:0.21, T:0.14
Consensus pattern (18 bp):
ACCCGTTGACCCGACCCG
Found at i:32115 original size:18 final size:18
Alignment explanation
Indices: 32073--32141 Score: 88
Period size: 17 Copynumber: 3.9 Consensus size: 18
32063 GACCGGTTTT
*
32073 GACTCAACCCGTTGA-CC
1 GACTCGACCCGTTGACCC
*
32090 GACCCGACCCGTTGACCC
1 GACTCGACCCGTTGACCC
32108 GACTCGACCCGTTGACCC
1 GACTCGACCCGTTGACCC
* *
32126 GAC-CCAACCGTTGACC
1 GACTCGACCCGTTGACC
32142 GTTGCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
17 24 0.52
18 22 0.48
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.14
Consensus pattern (18 bp):
GACTCGACCCGTTGACCC
Found at i:32119 original size:35 final size:35
Alignment explanation
Indices: 32073--32141 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
32063 GACCGGTTTT
*
32073 GACTCAACCCGTTGA-CCGACCCGACCCGTTGACCC
1 GACTCAACCCGTTGACCCGACCC-AACCGTTGACCC
*
32108 GACTCGACCCGTTGACCCGACCCAACCGTTGACC
1 GACTCAACCCGTTGACCCGACCCAACCGTTGACC
32142 GTTGCTATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 24 0.77
36 7 0.23
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.14
Consensus pattern (35 bp):
GACTCAACCCGTTGACCCGACCCAACCGTTGACCC
Found at i:32203 original size:29 final size:29
Alignment explanation
Indices: 32144--32308 Score: 143
Period size: 29 Copynumber: 5.6 Consensus size: 29
32134 CGTTGACCGT
* ** *
32144 TGCTATTCTGGGAATTAATTTGATTTTGG
1 TGCTATTCTGGGAATTAATTCGAAATGGG
*
32173 TGCTATTCTGGAAATTAATTCGAAATGGG
1 TGCTATTCTGGGAATTAATTCGAAATGGG
* * * ** * **
32202 TGCTATTTTGGTATTTTTTTTTTTGAAAAAGG
1 TGCTATTCTGGGA---ATTAATTCGAAATGGG
32234 TGCTATTCTGGGAATTAATTCGAAATGGG
1 TGCTATTCTGGGAATTAATTCGAAATGGG
*
32263 TG-TGATTCTGGGAATTAATTCGAAAAGGG
1 TGCT-ATTCTGGGAATTAATTCGAAATGGG
* *
32292 TGCTATTTTGGTAATTA
1 TGCTATTCTGGGAATTA
32309 TTATAAAAAG
Statistics
Matches: 107, Mismatches: 24, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
28 1 0.01
29 84 0.79
30 1 0.01
32 21 0.20
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.42
Consensus pattern (29 bp):
TGCTATTCTGGGAATTAATTCGAAATGGG
Found at i:39464 original size:17 final size:17
Alignment explanation
Indices: 39425--39509 Score: 138
Period size: 17 Copynumber: 5.1 Consensus size: 17
39415 GACCGGTTTT
39425 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
39442 GA-CCGACCCGTTGACC
1 GACCCGACCCGTTGACC
39458 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
39475 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGA-CC
*
39493 GACCGGA-CCGTTGACC
1 GACCCGACCCGTTGACC
39509 G
1 G
39510 TTGACCGTTG
Statistics
Matches: 65, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
16 19 0.29
17 38 0.58
18 8 0.12
ACGTcount: A:0.18, C:0.45, G:0.26, T:0.12
Consensus pattern (17 bp):
GACCCGACCCGTTGACC
Found at i:39551 original size:29 final size:29
Alignment explanation
Indices: 39518--39627 Score: 157
Period size: 29 Copynumber: 3.8 Consensus size: 29
39508 CGTTGACCGT
*
39518 TGCTATTCTGGGAATTAATTTGATTTTGG
1 TGCTATTCTGGGAATTAATTCGATTTTGG
** *
39547 TGCTATTCTGGGAATTAATTCGAAATGGG
1 TGCTATTCTGGGAATTAATTCGATTTTGG
* *
39576 TGCTATTTTGGGAATAAATTCGATTTTGG
1 TGCTATTCTGGGAATTAATTCGATTTTGG
*
39605 TGCTATTTTGGGAATTAATTCGA
1 TGCTATTCTGGGAATTAATTCGA
39628 AAAGGGTGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.43
Consensus pattern (29 bp):
TGCTATTCTGGGAATTAATTCGATTTTGG
Found at i:39608 original size:58 final size:58
Alignment explanation
Indices: 39518--39644 Score: 200
Period size: 58 Copynumber: 2.2 Consensus size: 58
39508 CGTTGACCGT
* * * *
39518 TGCTATTCTGGGAATTAATTTGATTTTGGTGCTATTCTGGGAATTAATTCGAAATGGG
1 TGCTATTTTGGGAATAAATTCGATTTTGGTGCTATTCTGGGAATTAATTCGAAAAGGG
*
39576 TGCTATTTTGGGAATAAATTCGATTTTGGTGCTATTTTGGGAATTAATTCGAAAAGGG
1 TGCTATTTTGGGAATAAATTCGATTTTGGTGCTATTCTGGGAATTAATTCGAAAAGGG
*
39634 TGCTGTTTTGG
1 TGCTATTTTGG
39645 TAATTATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.42
Consensus pattern (58 bp):
TGCTATTTTGGGAATAAATTCGATTTTGGTGCTATTCTGGGAATTAATTCGAAAAGGG
Found at i:39635 original size:29 final size:29
Alignment explanation
Indices: 39518--39650 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
39508 CGTTGACCGT
* * ** *
39518 TGCTATTCTGGGAATTAATTTGATTTTGG
1 TGCTATTTTGGGAATTAATTCGAAATGGG
*
39547 TGCTATTCTGGGAATTAATTCGAAATGGG
1 TGCTATTTTGGGAATTAATTCGAAATGGG
* ** *
39576 TGCTATTTTGGGAATAAATTCGATTTTGG
1 TGCTATTTTGGGAATTAATTCGAAATGGG
*
39605 TGCTATTTTGGGAATTAATTCGAAAAGGG
1 TGCTATTTTGGGAATTAATTCGAAATGGG
* *
39634 TGCTGTTTTGGTAATTA
1 TGCTATTTTGGGAATTA
39651 TTTTAAAAAG
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.42
Consensus pattern (29 bp):
TGCTATTTTGGGAATTAATTCGAAATGGG
Found at i:39659 original size:29 final size:29
Alignment explanation
Indices: 39545--39670 Score: 108
Period size: 29 Copynumber: 4.3 Consensus size: 29
39535 ATTTGATTTT
* * *
39545 GGTGCTATTCTGGGAATTAATTCGAAATG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * ****
39574 GGTGCTATTTTGGGAATAAATTCGATTTT
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
*
39603 GGTGCTATTTTGGGAATTAATTCGAAAAG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* * * *
39632 GGTGCTGTTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGGAATTAATTCAAAAAG
* *
39661 AGTGATATTT
1 GGTGCTATTT
39671 CTGTAAAATG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.40
Consensus pattern (29 bp):
GGTGCTATTTTGGGAATTAATTCAAAAAG
Found at i:49647 original size:15 final size:16
Alignment explanation
Indices: 49627--49662 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
49617 AACGTCTTTT
49627 AAAAAT-AATTTTAAG
1 AAAAATCAATTTTAAG
*
49642 AAAAATCATTTTTAAG
1 AAAAATCAATTTTAAG
49658 AAAAA
1 AAAAA
49663 AAGTAGTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAATCAATTTTAAG
Found at i:50279 original size:2 final size:2
Alignment explanation
Indices: 50272--50311 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
50262 AACATTAATA
50272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50312 GAACATACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51986 original size:3 final size:3
Alignment explanation
Indices: 51971--52027 Score: 69
Period size: 3 Copynumber: 18.7 Consensus size: 3
51961 GCATAATATG
* * *
51971 TAA TAA TAT TAA TAA TAA AAA TAA TAA TAG TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
*
52017 TGA TAA TAA TA
1 TAA TAA TAA TA
52028 TTTTGTTGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:52589 original size:126 final size:126
Alignment explanation
Indices: 52421--52733 Score: 466
Period size: 126 Copynumber: 2.4 Consensus size: 126
52411 TGGAGAGTTC
* *
52421 TGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATAGGGACGGCTGGTTATCTAAGTTGACAT
1 TGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTAAGTTGACAC
* *
52486 AACTCCTACATGATGATGAGATCTGATCATGTGATGACACTGCTCATCTGTTCATGAGTCT
66 AACTCCTACATGATGAGGAGATATGATCATGTGATGACACTGCTCATCTGTTCATGAGTCT
52547 TGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTAAGTTGACAC
1 TGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTAAGTTGACAC
* * *
52612 AGCTCCTACGTGATGAGGAGATATGATCATGTGATGACACTGTTCATCTGTTCATGAGTCT
66 AACTCCTACATGATGAGGAGATATGATCATGTGATGACACTGCTCATCTGTTCATGAGTCT
** * *
52673 TGGCCATCTTTAGGGAATATGATAACACGGTTCCTACGC-GATGAGGACGGCTGGTTATCTA
1 TGGCCATC--TA---AAGGTGATAACACGGTTCC-ACTCTGATGGGGACGGCTGGTTATCTA
52734 GGGGTGACAC
Statistics
Matches: 170, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
126 127 0.75
128 2 0.01
131 38 0.22
132 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (126 bp):
TGGCCATCTAAAGGTGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTAAGTTGACAC
AACTCCTACATGATGAGGAGATATGATCATGTGATGACACTGCTCATCTGTTCATGAGTCT
Found at i:52759 original size:43 final size:40
Alignment explanation
Indices: 52697--52809 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
52687 GAATATGATA
* * *
52697 ACACGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG---TCAAGGGATG
* *
52740 ACACGGCTCCTACGTGATGACGA-GGTCTGGTCAAGGGATG
1 ACACGGTTCCTACGTGATGAGGACGG-CTGGTCAAGGGATG
*
52780 ACACGGTTCCTACGTGATGAGGACGACTGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGG
52810 CCATCTTTAG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
40 33 0.55
41 1 0.02
42 2 0.03
43 24 0.40
ACGTcount: A:0.21, C:0.22, G:0.35, T:0.21
Consensus pattern (40 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGTCAAGGGATG
Found at i:52800 original size:131 final size:131
Alignment explanation
Indices: 52435--52788 Score: 407
Period size: 126 Copynumber: 2.7 Consensus size: 131
52425 CATCTAAAGG
* * * * *
52435 TGATAACACGGTTCCACTCTGAT-AGGGACGGCTGGTTATCTAAGTTGACATAACTCCTACATGA
1 TGATAACACGGTTCCACGCTGATGA-GGACGGCTGGTTATCTAAGGTGACACAGCTCCTACGTGA
* * * * * *
52499 TGATGAGATCTGATCATGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATC--TA---AA
65 TGACGAGATATGATCAAGGGATGACACGGTTCATCTGTTCATGAGTCTTGGCCATCTTTAGGGAA
**
52559 GG
130 TA
* * *
52561 TGATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTAAGTTGACACAGCTCCTACGTGAT
1 TGATAACACGGTTCCACGCTGATGAGGACGGCTGGTTATCTAAGGTGACACAGCTCCTACGTGAT
* * * *
52626 GAGGAGATATGATCATGTGATGACACTGTTCATCTGTTCATGAGTCTTGGCCATCTTTAGGGAAT
66 GACGAGATATGATCAAGGGATGACACGGTTCATCTGTTCATGAGTCTTGGCCATCTTTAGGGAAT
52691 A
131 A
* *
52692 TGATAACACGGTTCCTACGC-GATGAGGACGGCTGGTTATCTAGGGGTGACACGGCTCCTACGTG
1 TGATAACACGGTTCC-ACGCTGATGAGGACGGCTGGTTATCTA-AGGTGACACAGCTCCTACGTG
* * *
52756 ATGACGAGGTCTGGTCAAGGGATGACACGGTTC
64 ATGACGAGATATGATCAAGGGATGACACGGTTC
52789 CTACGTGATG
Statistics
Matches: 199, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
126 112 0.56
128 2 0.01
131 38 0.19
132 47 0.24
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (131 bp):
TGATAACACGGTTCCACGCTGATGAGGACGGCTGGTTATCTAAGGTGACACAGCTCCTACGTGAT
GACGAGATATGATCAAGGGATGACACGGTTCATCTGTTCATGAGTCTTGGCCATCTTTAGGGAAT
A
Found at i:53013 original size:35 final size:32
Alignment explanation
Indices: 52898--53014 Score: 85
Period size: 35 Copynumber: 3.5 Consensus size: 32
52888 AATTCATTTA
* * *
52898 AAAGGAAATGACTCAAGGA-TAGTTTTGTTTC
1 AAAGGAAAAGACTCAAAGATTTGTTTTGTTTC
* ** *
52929 -AAGAAAAATAGACTCAAAGATTTAATTCGTTTC
1 AAAG-GAAA-AGACTCAAAGATTTGTTTTGTTTC
* *
52962 AAGGGAAATGATCTCAAAGATGTTTGTTTTGTTTC
1 AAAGGAAAAGA-CTCAAAGA--TTTGTTTTGTTTC
52997 AAAGGAAACAGACTCAAA
1 AAAGGAAA-AGACTCAAA
53015 TATGGGCATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
30 3 0.05
31 3 0.05
32 11 0.17
33 19 0.30
34 2 0.03
35 23 0.37
36 2 0.03
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (32 bp):
AAAGGAAAAGACTCAAAGATTTGTTTTGTTTC
Found at i:53468 original size:66 final size:66
Alignment explanation
Indices: 53253--53486 Score: 187
Period size: 66 Copynumber: 3.6 Consensus size: 66
53243 AAGTGAGACG
* *
53253 ACTTTGTTTCAA-AGGAAATAGACTCAAAGA-TTTTTTTCAAAAGAAATTGTCTCAAGAGAGACA
1 ACTTTGTTTCAAGA-GAAACAGACTCAAAGATTTTTTTTCAAAAGAAATTGTCTCAAGAGAGAAA
53316 AA
65 AA
* * * * * ** * * *
53318 AC-TCGTTTCAAAAGAAAC-GATCTTACATATGGGTGTTTCAAAAGAAACTT-ACTCAA-AGATT
1 ACTTTGTTTCAAGAGAAACAGA-CTCAAAGAT-TTTTTTTCAAAAGAAA-TTGTCTCAAGAGA-G
*
53379 ATAAA
62 AAAAA
* *
53384 A-TTTGTTTCAAGTGAAACAGACTCAAAGATTTTTTTTAAAAAGAAATTGTCTCAAGAGAGAAAA
1 ACTTTGTTTCAAGAGAAACAGACTCAAAGATTTTTTTTCAAAAGAAATTGTCTCAAGAGAGAAAA
53448 A
66 A
** * *
53449 ACTTTGTTTTTAGAGAAACA-AATCGAAGGATTTTTTTT
1 ACTTTGTTTCAAGAGAAACAGACTC-AAAGATTTTTTTT
53487 TATGTCTCAA
Statistics
Matches: 128, Mismatches: 29, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
63 2 0.02
64 19 0.15
65 31 0.24
66 72 0.56
67 4 0.03
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (66 bp):
ACTTTGTTTCAAGAGAAACAGACTCAAAGATTTTTTTTCAAAAGAAATTGTCTCAAGAGAGAAAA
A
Found at i:53683 original size:32 final size:32
Alignment explanation
Indices: 53642--53729 Score: 122
Period size: 32 Copynumber: 2.8 Consensus size: 32
53632 TTCGCATCAG
* *
53642 GATGTTGAATCCCCAAAGATGCCCCAATATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
* * *
53674 GATGTTGAATTTCCAATGATGCCCCAGCATTT
1 GATGTTGAATCTCCAAAGATGCCCCAACATTT
*
53706 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATCTCCAAAGATGCCC
53730 TCATTGTTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (32 bp):
GATGTTGAATCTCCAAAGATGCCCCAACATTT
Found at i:57195 original size:20 final size:22
Alignment explanation
Indices: 57170--57209 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
57160 AGTCGTATAT
57170 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
57190 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
57210 TATACTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:57263 original size:21 final size:21
Alignment explanation
Indices: 57237--57279 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57227 CCCAGAACAG
57237 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
57258 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
57279 A
1 A
57280 ATATTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:57510 original size:29 final size:31
Alignment explanation
Indices: 57478--57537 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
57468 AAATTTTGAA
57478 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
57507 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
57538 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:58351 original size:21 final size:21
Alignment explanation
Indices: 58325--58372 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
58315 AATATAAAAG
58325 ACAAAACAAAAACGTGTTCAA
1 ACAAAACAAAAACGTGTTCAA
58346 ACAAAACAAAAACGTGTTCAA
1 ACAAAACAAAAACGTGTTCAA
58367 ACAAAA
1 ACAAAA
58373 TAATGCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.60, C:0.19, G:0.08, T:0.12
Consensus pattern (21 bp):
ACAAAACAAAAACGTGTTCAA
Found at i:58755 original size:15 final size:14
Alignment explanation
Indices: 58737--58787 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
58727 AATGAAATGC
58737 AGATGCAAAATACAA
1 AGATGCAAAAT-CAA
**
58752 AGATGC-AAAT-GT
1 AGATGCAAAATCAA
58764 AGATGCAAAATGCAA
1 AGATGCAAAAT-CAA
58779 AGATGCAAA
1 AGATGCAAA
58788 TGCAGATGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 4 0.14
15 15 0.52
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.16
Consensus pattern (14 bp):
AGATGCAAAATCAA
Found at i:58762 original size:27 final size:27
Alignment explanation
Indices: 58731--58800 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58721 CTTAAAAATG
58731 AAATGCAGATGCAAAATACAAAGATGC
1 AAATGCAGATGCAAAATACAAAGATGC
* *
58758 AAATGTAGATGCAAAATGCAAAGATGC
1 AAATGCAGATGCAAAATACAAAGATGC
58785 AAATGCAGATGCAAAA
1 AAATGCAGATGCAAAA
58801 ATGTTGATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (27 bp):
AAATGCAGATGCAAAATACAAAGATGC
Found at i:58769 original size:12 final size:12
Alignment explanation
Indices: 58751--58799 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
58741 GCAAAATACA
58751 AAGATGCAAATG
1 AAGATGCAAATG
*
58763 TAGATGCAAAATG
1 AAGATGC-AAATG
58776 CAAAGATGCAAATG
1 --AAGATGCAAATG
*
58790 CAGATGCAAA
1 AAGATGCAAA
58800 AATGTTGATC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 15 0.48
13 5 0.16
14 5 0.16
15 6 0.19
ACGTcount: A:0.49, C:0.12, G:0.22, T:0.16
Consensus pattern (12 bp):
AAGATGCAAATG
Found at i:61279 original size:2 final size:2
Alignment explanation
Indices: 61272--61315 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
61262 AACATTAATA
61272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61314 AT
1 AT
61316 GAACATACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62970 original size:3 final size:3
Alignment explanation
Indices: 62955--63014 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
62945 GCATAATATG
* * *
62955 TAA TAA TAT TAA TAA TAA AAA TAA TAA TAG TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
*
63001 TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
63015 TTTTGTTGTC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:69955 original size:29 final size:29
Alignment explanation
Indices: 69859--69957 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 29
69849 ACAAATTTAG
69859 TATGATCATCATATAATACTTAATTTCTA
1 TATGATCATCATATAATACTTAATTTCTA
* * * * * * *
69888 TATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
1 TATGATC--A-TCATA-TAATA--CTTAATTTCTA
69923 TATGATCATCATATAATACTTAATTTCTA
1 TATGATCATCATATAATACTTAATTTCTA
69952 TATGAT
1 TATGAT
69958 TTACGTAAAT
Statistics
Matches: 50, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
29 21 0.42
31 4 0.08
32 6 0.12
33 4 0.08
35 15 0.30
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (29 bp):
TATGATCATCATATAATACTTAATTTCTA
Found at i:70013 original size:63 final size:64
Alignment explanation
Indices: 69859--70049 Score: 330
Period size: 64 Copynumber: 3.0 Consensus size: 64
69849 ACAAATTTAG
69859 TATGATCATCATATAATACTTAATTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
1 TATGATCATCATATAATACTTAATTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
* * *
69923 TATGATCATCATATAATACTTAATTTCTATATGATTTACGTAAATG-AAAAGTCTTAGTTACAA
1 TATGATCATCATATAATACTTAATTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
* *
69986 TATGATCATCATATAATAATTATTTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
1 TATGATCATCATATAATACTTAATTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
70050 GTCTAGACTC
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 58 0.49
64 60 0.51
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (64 bp):
TATGATCATCATATAATACTTAATTTCTATATGATCTAAGTAAAAGAAAAAGTCTTAGTTACAA
Found at i:76078 original size:5 final size:5
Alignment explanation
Indices: 76068--76100 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
76058 GGATTAAAAT
76068 TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
76101 CTTCATTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:77100 original size:11 final size:11
Alignment explanation
Indices: 77084--77119 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
77074 ACAAGAAACT
77084 AGAATCAAGAG
1 AGAATCAAGAG
77095 AGAATCAAGAG
1 AGAATCAAGAG
77106 AGAATCAA-AG
1 AGAATCAAGAG
77116 AGAA
1 AGAA
77120 AGCATCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.58, C:0.08, G:0.25, T:0.08
Consensus pattern (11 bp):
AGAATCAAGAG
Found at i:81588 original size:3 final size:3
Alignment explanation
Indices: 81580--81636 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
81570 TAAAGTTATT
* * * * * *
81580 TAA TAA TAA TAA TAA TAA TTA TTA TTA TAA TTA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
81628 AAA TAA TAA
1 TAA TAA TAA
81637 CCGAGATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:81615 original size:18 final size:18
Alignment explanation
Indices: 81585--81634 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
81575 TTATTTAATA
81585 ATAATAATAATAATTATT
1 ATAATAATAATAATTATT
* *
81603 ATTATAATTATAATTATT
1 ATAATAATAATAATTATT
*
81621 ATAATAAAAATAAT
1 ATAATAATAATAAT
81635 AACCGAGATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAATAATAATAATTATT
Found at i:81875 original size:17 final size:17
Alignment explanation
Indices: 81853--81912 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
81843 TTTGAACAAG
81853 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* * *
81870 TTCTTCTTCGTCA-GATGAG
1 TTCTTC-TCATTATGA--AC
*
81889 TTTTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
81906 TTCTTCT
1 TTCTTCT
81913 GGAAATGTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 15 0.48
18 8 0.26
19 8 0.26
ACGTcount: A:0.18, C:0.22, G:0.10, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:82023 original size:23 final size:22
Alignment explanation
Indices: 81989--82033 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
81979 TGAACAAATT
*
81989 CTTCTCATTATGAATTTCTTCTC
1 CTTCTCATTATG-AGTTCTTCTC
82012 CTTCTTCA-TATGAGTTCTTCTC
1 CTTC-TCATTATGAGTTCTTCTC
82034 ATTATGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 8 0.40
24 3 0.15
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (22 bp):
CTTCTCATTATGAGTTCTTCTC
Found at i:82226 original size:113 final size:112
Alignment explanation
Indices: 81977--82542 Score: 577
Period size: 113 Copynumber: 4.9 Consensus size: 112
81967 TTAAGGCAAG
* * *
81977 GTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCATATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* * * *** * * *
82041 ACACT-TCTGGAAATGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAAAC-AAAG
66 ACTCTACCTGG--A-----ATGTTGATCCATC-GAGT-GATG--A-ATTCAAACAAAAA
* * *
82098 GTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCC-TCTTCAGAAAAGTTATTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* *
82162 ACTCTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAAA
66 ACTCTAC-CTGG-AATGTTGATCCATCGAGTGATGAATTCAAACAAAAA
* *
82211 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* * *
82276 ACTCTACCTGGTAATGTTGATCCATCAAATGATGAATTCAAACAAAAG
66 ACTCTACCTGG-AATGTTGATCCATCGAGTGATGAATTCAAACAAAAA
* * * * *
82324 GATGAACAAGTTCTTCTTATTATGAACTTTTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* * * * *
82389 ACT-TTCTCTGGCAATGCTAATCCATTGGGTGATGAATT-AAAGCAAAAA
66 ACTCTAC-CTGG-AATGTTGATCCATCGAGTGATGAATTCAAA-CAAAAA
* * *
82437 GTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* * * *
82502 ACTCTACCTGGCATGTTGATCCATTGAGTAATGGATTCAAA
66 ACTCTACCTGGAATGTTGATCCATCGAGTGATGAATTCAAA
82543 TCTTTGCTAA
Statistics
Matches: 380, Mismatches: 56, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
112 32 0.08
113 234 0.62
114 32 0.08
115 3 0.01
116 1 0.00
117 11 0.03
121 58 0.15
122 5 0.01
123 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (112 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
ACTCTACCTGGAATGTTGATCCATCGAGTGATGAATTCAAACAAAAA
Found at i:82399 original size:226 final size:227
Alignment explanation
Indices: 81977--82525 Score: 716
Period size: 226 Copynumber: 2.4 Consensus size: 227
81967 TTAAGGCAAG
*
81977 GTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCATATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATG-
** * * * ** *
82041 ACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTATGATAGAGTCAAACAAAGGTTGAACA
65 A-AC-TCT--ACCTGGTAATGTTGATCCA--TCC-TAAATGATAGAGTCAAACAAAGGATGAACA
*
82106 AATTCTTCTTATTATGAACTTCTTCTTCCTCTTCAGAAAAGTTATTCTCATTATGAACTCTTCTC
123 AATTCTTCTTATTATGAACTTCTTATTCCTCTTCAGAAAAGTTATTCTCATTATGAACTCTTCTC
* *
82171 TGGAAAAGTTGATCCATCGAGTGATGAATTCAAA-CAAAAA
188 TGGAAAAGCTAATCCATCGAGTGATGAATT-AAAGCAAAAA
82211 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* *
82276 ACTCTACCTGGTAATGTTGATCCAT-C-AAATGAT-GAATTCAAACAAAAGGATGAACAAGTTCT
66 ACTCTACCTGGTAATGTTGATCCATCCTAAATGATAG-AGTCAAAC-AAAGGATGAACAAATTCT
* * * *
82338 TCTTATTATGAACTTTTTATTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCTCTGGCA
129 TCTTATTATGAACTTCTTATTCC-TCTTCAGAAAAGTTATTCTCATTATGAACTCTTCTCTGGAA
* * *
82402 ATGCTAATCCATTGGGTGATGAATTAAAGCAAAAA
193 AAGCTAATCCATCGAGTGATGAATTAAAGCAAAAA
* * *
82437 GTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
*
82502 ACTCTACCTGG-CATGTTGATCCAT
66 ACTCTACCTGGTAATGTTGATCCAT
82526 TGAGTAATGG
Statistics
Matches: 285, Mismatches: 25, Indels: 19
0.87 0.08 0.06
Matches are distributed among these distances:
224 1 0.00
225 27 0.09
226 145 0.51
227 29 0.10
228 1 0.00
230 14 0.05
232 3 0.01
233 2 0.01
234 34 0.12
235 29 0.10
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (227 bp):
GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
ACTCTACCTGGTAATGTTGATCCATCCTAAATGATAGAGTCAAACAAAGGATGAACAAATTCTTC
TTATTATGAACTTCTTATTCCTCTTCAGAAAAGTTATTCTCATTATGAACTCTTCTCTGGAAAAG
CTAATCCATCGAGTGATGAATTAAAGCAAAAA
Found at i:82924 original size:22 final size:22
Alignment explanation
Indices: 82899--82977 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
82889 AATAAAGCTT
*
82899 TCATCTTTGAAAATAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
82921 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
**
82943 TCATCTTTGAAGGGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
82965 TCATCTTTGAAAA
1 TCATCTTTGAAAA
82978 ATGTAGATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:84396 original size:75 final size:76
Alignment explanation
Indices: 84226--84397 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 76
84216 TGATATGGCA
* *
84226 TTCAGCATGCCCCAACAATT-GATGATACGAACATTCAAAATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAAC-ATTGGATAATACAAACATTCAAAATACATCAACATTCCTGATTCTGAT
84290 TAAAAATGGGCT
65 TAAAAATGGGCT
* * * * * *
84302 TTCAGCATGCCCCAACATTGGTTAATACAAACGTTTAAAATATATCAGCATTCTTGATTCTGATT
1 TTCAGCATGCCCCAACATTGGATAATACAAACATTCAAAATACATCAACATTCCTGATTCTGATT
*
84367 -GAAATGGGCT
66 AAAAATGGGCT
*
84377 TTCAGCATGCCCCATCATTGG
1 TTCAGCATGCCCCAACATTGG
84398 CTTCTTGTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
75 32 0.38
76 53 0.62
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTGGATAATACAAACATTCAAAATACATCAACATTCCTGATTCTGATT
AAAAATGGGCT
Found at i:87671 original size:72 final size:73
Alignment explanation
Indices: 87581--87716 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 73
87571 TATAATGGGT
*
87581 TAGCTGAATATTATCCATAAAGCC-GAGGCGATTAACCAA-TTGCTTTAGAGGGACAACTCAAGC
1 TAGCTGAATATTATCCATAAAACCAG-GGCGATTAACCAATTTGCTTTAGAGGGACAACTCAAGC
87644 ATAACAGAC
65 ATAACAGAC
* * * *
87653 TAGCTGAATATTATCCATAAAACCAGGGTGATTAACCAATTTGTTTTAGGGGGATAACTCAAGC
1 TAGCTGAATATTATCCATAAAACCAGGGCGATTAACCAATTTGCTTTAGAGGGACAACTCAAGC
87717 TTTATTGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
72 35 0.61
73 22 0.39
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (73 bp):
TAGCTGAATATTATCCATAAAACCAGGGCGATTAACCAATTTGCTTTAGAGGGACAACTCAAGCA
TAACAGAC
Found at i:90230 original size:21 final size:20
Alignment explanation
Indices: 90196--90234 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
90186 ATAAATGCAA
90196 AAAATGTAAATATGCAAAATG
1 AAAATGTAAATATG-AAAATG
**
90217 AAAATGTATGTATGAAAA
1 AAAATGTAAATATGAAAA
90235 GGTGTTACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAATGTAAATATGAAAATG
Found at i:91712 original size:26 final size:25
Alignment explanation
Indices: 91677--91734 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
91667 AATGAAATTT
*
91677 AATATTTGAAAATAATATACATATA
1 AATATTTGAAAATAATAAACATATA
*
91702 AATATTATGAAAATAATAAATATATA
1 AATATT-TGAAAATAATAAACATATA
*
91728 AAAATTT
1 AATATTT
91735 TCAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 7 0.24
26 22 0.76
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (25 bp):
AATATTTGAAAATAATAAACATATA
Found at i:91740 original size:26 final size:26
Alignment explanation
Indices: 91685--91740 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
91675 TTAATATTTG
* * *
91685 AAAATAATATACATATAAATATTATG
1 AAAATAATAAACATATAAAAATTATC
* *
91711 AAAATAATAAATATATAAAAATTTTC
1 AAAATAATAAACATATAAAAATTATC
91737 AAAA
1 AAAA
91741 GAAAGAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (26 bp):
AAAATAATAAACATATAAAAATTATC
Found at i:92248 original size:2 final size:2
Alignment explanation
Indices: 92241--92277 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
92231 TCTATTAATT
*
92241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92278 TTATTTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:98609 original size:21 final size:21
Alignment explanation
Indices: 98547--98616 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
98537 GGAATCGATA
98547 CCCCCAT-GAGGGAACCGATTC
1 CCCCCATAG-GGGAACCGATTC
** *
98568 CCCCTTTGAATGGGAACCGATTC
1 CCCCCAT--AGGGGAACCGATTC
* *
98591 CCCCCATAGGGGAATCGATAC
1 CCCCCATAGGGGAACCGATTC
98612 CCCCC
1 CCCCC
98617 TGAGGTTCTG
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 21 0.55
23 17 0.45
ACGTcount: A:0.23, C:0.39, G:0.21, T:0.17
Consensus pattern (21 bp):
CCCCCATAGGGGAACCGATTC
Found at i:102450 original size:2 final size:2
Alignment explanation
Indices: 102443--102474 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
102433 GATTTAAGGG
102443 AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
102475 AGTAACAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103781 original size:3 final size:3
Alignment explanation
Indices: 103773--103829 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
103763 TTAAGTTATT
* * * * *
103773 TAA TAA TAA TAA TAA TAA TTA TAA TTA TAA TTA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
103821 AAA TAA TAA
1 TAA TAA TAA
103830 CCGAGATAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:104065 original size:21 final size:21
Alignment explanation
Indices: 104023--104066 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
104013 ACTCCGGAAG
*
104023 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
104044 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
104065 CT
1 CT
104067 CCTCCAGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:105275 original size:30 final size:29
Alignment explanation
Indices: 105233--105296 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
105223 AAGCCTTAGA
* *
105233 AAAAATTGGGGACCATTTTGTAAGTTTCG
1 AAAAATTGGGGACCAATTCGTAAGTTTCG
* * *
105262 AAAAGTTGAGGGACCAATTCGTAATTTTGG
1 AAAAATTG-GGGACCAATTCGTAAGTTTCG
105292 AAAAA
1 AAAAA
105297 GTTACGAATG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAAATTGGGGACCAATTCGTAAGTTTCG
Found at i:106004 original size:22 final size:21
Alignment explanation
Indices: 105965--106005 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
105955 CTGATTTTTG
*
105965 TATATGATGTTATTATGAACA
1 TATATGATGTTATCATGAACA
*
105986 TATATGATTTTTATCATGAA
1 TATATGA-TGTTATCATGAA
106006 TGTCATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.46
Consensus pattern (21 bp):
TATATGATGTTATCATGAACA
Found at i:106250 original size:59 final size:59
Alignment explanation
Indices: 106151--106279 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
106141 CAGCAGGCTG
** * *
106151 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
106210 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
106269 CATACTCGGGA
1 CATATTCGGGA
106280 TTGCACTACG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:106458 original size:22 final size:22
Alignment explanation
Indices: 106432--106505 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
106422 TATATTGGTA
106432 AAATAAGCTTACAAGCTTATGG
1 AAATAAGCTTACAAGCTTATGG
* * *
106454 AAATAAAC-AATAAG-TATATTGG
1 AAATAAGCTTACAAGCT-TA-TGG
106476 TAAAATAAGCTTACAAGCTTATGG
1 --AAATAAGCTTACAAGCTTATGG
106500 AAATAA
1 AAATAA
106506 ACGATAAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
22 16 0.40
24 10 0.25
25 6 0.15
26 1 0.03
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (22 bp):
AAATAAGCTTACAAGCTTATGG
Found at i:106481 original size:24 final size:24
Alignment explanation
Indices: 106454--106529 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
106444 AAGCTTATGG
106454 AAATAAACAATAAGTATATTGGTA
1 AAATAAACAATAAGTATATTGGTA
* * *
106478 AAATAAGCTTACAAGCT-TA-TGG--
1 AAATAAAC-AATAAG-TATATTGGTA
*
106500 AAATAAACGATAAGTATATTGGTA
1 AAATAAACAATAAGTATATTGGTA
106524 AAATAA
1 AAATAA
106530 GCTTACGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
22 10 0.25
24 16 0.40
25 6 0.15
26 1 0.03
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (24 bp):
AAATAAACAATAAGTATATTGGTA
Found at i:106570 original size:45 final size:45
Alignment explanation
Indices: 106388--106655 Score: 378
Period size: 46 Copynumber: 6.0 Consensus size: 45
106378 GTAAGCATGC
*
106388 AAATAAGCTTACAAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGATAAGTATATTGGTA
**
106432 AAATAAGCTTACAAGCTTATGGAAATAAACAATAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGG-AATAAATGATAAGTATATTGGTA
*
106478 AAATAAGCTTACAAGCTTATGGAAATAAACGATAAGTATATTGGTA
1 AAATAAGCTTACAAGCTTATGG-AATAAATGATAAGTATATTGGTA
* * * *
106524 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTAAATTTGTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGATAAGTATATTGGTA
* * *
106569 AAATAAGCTTACGAGCTTATGGAATAAATGATAATTAAATT-GTA
1 AAATAAGCTTACAAGCTTATGGAATAAATGATAAGTATATTGGTA
* * *
106613 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGG
1 AAATAAGCTTACAAGCTTATGGAATAAATGATAAGTATATTGG
106656 CTATGCTAAT
Statistics
Matches: 206, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
44 62 0.30
45 62 0.30
46 82 0.40
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACAAGCTTATGGAATAAATGATAAGTATATTGGTA
Found at i:107019 original size:20 final size:20
Alignment explanation
Indices: 106994--107033 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
106984 CTGTAGCAGT
106994 TACTATAGCA-GTCACTGTAG
1 TACTATAGCAGGT-ACTGTAG
107014 TACTATAGCAGGTACTGTAG
1 TACTATAGCAGGTACTGTAG
107034 CAGTGCATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (20 bp):
TACTATAGCAGGTACTGTAG
Found at i:107051 original size:21 final size:21
Alignment explanation
Indices: 107025--107084 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
107015 ACTATAGCAG
107025 GTACTGTAGCAGTGCATCGAT
1 GTACTGTAGCAGTGCATCGAT
107046 GTACTGTAGCAGTGCATCGAT
1 GTACTGTAGCAGTGCATCGAT
*
107067 GCACTGTAGCAGTGCATC
1 GTACTGTAGCAGTGCATC
107085 AATGCATGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (21 bp):
GTACTGTAGCAGTGCATCGAT
Found at i:107187 original size:22 final size:22
Alignment explanation
Indices: 107136--107188 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
107126 CTGTCCACTA
* *
107136 TTCATCACTGTTTATGGTACTG
1 TTCATCACTGTTCACGGTACTG
**
107158 TTTTTCACTGTTCACGGTACTG
1 TTCATCACTGTTCACGGTACTG
107180 TTCATCACT
1 TTCATCACT
107189 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (22 bp):
TTCATCACTGTTCACGGTACTG
Found at i:108266 original size:28 final size:28
Alignment explanation
Indices: 108234--108295 Score: 124
Period size: 28 Copynumber: 2.2 Consensus size: 28
108224 AAAACATCGA
108234 ATGCATTTGATGCATCGATGCACACACC
1 ATGCATTTGATGCATCGATGCACACACC
108262 ATGCATTTGATGCATCGATGCACACACC
1 ATGCATTTGATGCATCGATGCACACACC
108290 ATGCAT
1 ATGCAT
108296 CGATGCACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (28 bp):
ATGCATTTGATGCATCGATGCACACACC
Found at i:114582 original size:2 final size:2
Alignment explanation
Indices: 114575--114608 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
114565 GAGAATGCTA
114575 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
114609 CGGGTTAGAA
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:115678 original size:125 final size:126
Alignment explanation
Indices: 115435--115683 Score: 347
Period size: 129 Copynumber: 2.0 Consensus size: 126
115425 AAAACAGAAA
* * * * *
115435 AGATCAACAAGATAACAAACAAGTGTTATCTTCATCAGTCAAGACGGCGTCAAATCCGATCTTGA
1 AGATCAACAAGATAACAAACAAATGTCATCTTCATCAGCCAAGACGACGTCAAATCCAATCTT--
* * *
115500 AAAAAAAAAGATAACTTAAAAGAACAATTAAACGAATGATAAAGGAAACCGAAAACGTGCACAC
64 -AAAAAAAAGATAACTGAAAAGAACAATCAAACGAATAATAAAGGAAACCGAAAACGTGCACAC
* * *
115564 AGATCAACAAGATAACAAACAAATGTCATCTTGATCAGCCGAGACGACGTCAAATTCAATCTT-A
1 AGATCAACAAGATAACAAACAAATGTCATCTTCATCAGCCAAGACGACGTCAAATCCAATCTTAA
* *
115628 AAAAAATATAACTGAAAAGAACAATCAAACGACTAATAAAGGAAACCGAAAACGTG
66 AAAAAAGATAACTGAAAAGAACAATCAAACGAATAATAAAGGAAACCGAAAACGTG
115684 TCAAAAGATA
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
125 52 0.49
129 55 0.51
ACGTcount: A:0.49, C:0.18, G:0.15, T:0.18
Consensus pattern (126 bp):
AGATCAACAAGATAACAAACAAATGTCATCTTCATCAGCCAAGACGACGTCAAATCCAATCTTAA
AAAAAAGATAACTGAAAAGAACAATCAAACGAATAATAAAGGAAACCGAAAACGTGCACAC
Found at i:116093 original size:39 final size:40
Alignment explanation
Indices: 116039--116268 Score: 194
Period size: 39 Copynumber: 6.2 Consensus size: 40
116029 ATATACATAC
*
116039 ATATATATATTATATAG-TTTGAAAACATTTTTAATACAT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAATACAT
* *
116078 ATATATATAATATATAGTTTTGAAAACATGTTTGAAAACA-
1 ATATATATATTATATAGTTTTGAAAACAT-TTTGAATACAT
*
116118 AT-TATATATTATATAGTTTTTAAAACATTTTGAA-A-AT
1 ATATATATATTATATAGTTTTGAAAACATTTTGAATACAT
*
116155 ATATATAGT-TT-T-TA------AAAACATTTTGAAAACAT
1 ATATATA-TATTATATAGTTTTGAAAACATTTTGAATACAT
* *
116187 ATATATATATTATATAGTTTT-AAAATTATTTTGAAAAC-T
1 ATATATATATTATATAGTTTTGAAAA-CATTTTGAATACAT
* * *
116226 -TATATA-A-TATATAGTTTTAAAAATATTTTTGAAAAC-T
1 ATATATATATTATATAGTTTTGAAAACA-TTTTGAATACAT
116263 ATATAT
1 ATATAT
116269 TTTTTAAAAC
Statistics
Matches: 166, Mismatches: 6, Indels: 39
0.79 0.03 0.18
Matches are distributed among these distances:
30 13 0.08
31 2 0.01
32 11 0.07
33 1 0.01
34 2 0.01
36 16 0.10
37 20 0.12
38 23 0.14
39 46 0.28
40 24 0.14
41 8 0.05
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (40 bp):
ATATATATATTATATAGTTTTGAAAACATTTTGAATACAT
Found at i:116167 original size:29 final size:30
Alignment explanation
Indices: 116127--116191 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
116117 AATTATATAT
*
116127 TATATAGTTTTT-AAAACATTTTGAAAATA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
116156 TATATAGTTTTTAAAAACATTTTGAAAACA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
116186 TATATA
1 TATATA
116192 TATATTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTGAAAACA
Found at i:116193 original size:36 final size:36
Alignment explanation
Indices: 116080--116268 Score: 155
Period size: 40 Copynumber: 5.2 Consensus size: 36
116070 TAATACATAT
*
116080 ATATATAATATATAG-TTTTGAAAACATGTTTGAAAAC
1 ATATAT-ATATATAGTTTTTAAAAACAT-TTTGAAAAC
116117 AATTATATATTATATAGTTTTT-AAAACATTTTG---A-
1 -A-TATATA-TATATAGTTTTTAAAAACATTTTGAAAAC
116151 A-A-ATATATATAGTTTTTAAAAACATTTTGAAAAC
1 ATATATATATATAGTTTTTAAAAACATTTTGAAAAC
* **
116185 ATATATATATATTATATAGTTTTAAAATTATTTTGAAAAC
1 ATATATATATA-TA-GT--TTTTAAAAACATTTTGAAAAC
* *
116225 TTATATAATATATAG-TTTTAAAAATATTTTTGAAAAC
1 ATATAT-ATATATAGTTTTTAAAAACA-TTTTGAAAAC
116262 -TATATAT
1 ATATATAT
116269 TTTTTAAAAC
Statistics
Matches: 129, Mismatches: 6, Indels: 35
0.76 0.04 0.21
Matches are distributed among these distances:
29 12 0.09
30 14 0.11
31 1 0.01
33 2 0.02
34 1 0.01
35 4 0.03
36 22 0.17
37 12 0.09
38 7 0.05
39 19 0.15
40 30 0.23
41 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (36 bp):
ATATATATATATAGTTTTTAAAAACATTTTGAAAAC
Found at i:116218 original size:70 final size:71
Alignment explanation
Indices: 116087--116268 Score: 214
Period size: 70 Copynumber: 2.5 Consensus size: 71
116077 TATATATATA
*
116087 ATATATAG-TTTTGAAAACATGTTTGAAAACA-AT-TATATATTATATAGTTTTTAAAACATTTT
1 ATATATAGTTTTTAAAAACAT-TTTGAAAACATATATATATATTATATAGTTTTTAAAACATTTT
116149 GAAAA-T
65 GAAAACT
*
116155 ATATATAGTTTTTAAAAACATTTTGAAAACATATATATATATTATATAG-TTTTAAAATTATTTT
1 ATATATAGTTTTTAAAAACATTTTGAAAACATATATATATATTATATAGTTTTTAAAA-CATTTT
116219 GAAAACTT
65 GAAAAC-T
* *
116227 ATATAATATATAGTTTTAAAAATATTTTTGAAAAC-TATATAT
1 ATAT-ATA-GT--TTTTAAAAACA-TTTTGAAAACATATATAT
116269 TTTTTAAAAC
Statistics
Matches: 99, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
68 18 0.18
69 21 0.21
70 24 0.24
72 5 0.05
73 3 0.03
74 1 0.01
76 17 0.17
77 10 0.10
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (71 bp):
ATATATAGTTTTTAAAAACATTTTGAAAACATATATATATATTATATAGTTTTTAAAACATTTTG
AAAACT
Found at i:116273 original size:106 final size:106
Alignment explanation
Indices: 116049--116304 Score: 313
Period size: 109 Copynumber: 2.4 Consensus size: 106
116039 ATATATATAT
* * * *
116049 TATATAGTTTGAAAACATTTTTAATACATATATATATAATATATAGTTTTGAAAACATGTTTGAA
1 TATATATTTTTAAAACATTTTCAAAACATATATATATAATATATAGTTTTGAAAACATGTTTGAA
* *
116114 AACAATTATATATTATATAGTTTTTAAAACATTTTGAAAATA
66 AAC-ATTATATAATATATAGTTTTAAAAACATTTTGAAAATA
* * *
116156 TATATAGTTTTTAAAAACATTTTGAAAACATATATATATATTATATAGTTTT-AAAATTAT-TTT
1 TATATA-TTTTT-AAAACATTTTCAAAACATATATATATAATATATAGTTTTGAAAA-CATGTTT
*
116219 GAAAAC-TTATATAATATATAGTTTTAAAAATATTTTTGAAAACTA
63 GAAAACATTATATAATATATAGTTTTAAAAACA-TTTTGAAAA-TA
*
116264 TATAT-TTTTTAAAACATTTCTCAAAATATATAATATATAAT
1 TATATATTTTTAAAACATTT-TCAAAACATAT-ATATATAAT
116305 TTTAAAATAT
Statistics
Matches: 130, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
105 9 0.07
106 37 0.28
107 23 0.18
108 23 0.18
109 38 0.29
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (106 bp):
TATATATTTTTAAAACATTTTCAAAACATATATATATAATATATAGTTTTGAAAACATGTTTGAA
AACATTATATAATATATAGTTTTAAAAACATTTTGAAAATA
Found at i:116294 original size:28 final size:28
Alignment explanation
Indices: 116231--116295 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
116221 AAACTTATAT
* * *
116231 AATATATAGTTTTAAAAATATTTTTGAA
1 AATATATAGTTTTAAAAACATTTCTCAA
* *
116259 AACTATATATTTTTTAAAACATTTCTCAA
1 AA-TATATAGTTTTAAAAACATTTCTCAA
116288 AATATATA
1 AATATATA
116296 ATATATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
AATATATAGTTTTAAAAACATTTCTCAA
Found at i:116363 original size:5 final size:5
Alignment explanation
Indices: 116353--116432 Score: 87
Period size: 5 Copynumber: 16.2 Consensus size: 5
116343 TTTTGGAAAA
116353 TATTT TATTT TATTT TATTAT TATTAT TA-TT TATTT TA-TT TA-TT TATTT
1 TATTT TATTT TATTT TATT-T TATT-T TATTT TATTT TATTT TATTT TATTT
* *
116402 TATTT TA-TT AATTT TATTTT TATTT CATTT T
1 TATTT TATTT TATTT TA-TTT TATTT TATTT T
116433 TACTTTTCAG
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
4 14 0.21
5 38 0.58
6 14 0.21
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:116373 original size:13 final size:13
Alignment explanation
Indices: 116357--116421 Score: 80
Period size: 13 Copynumber: 4.9 Consensus size: 13
116347 GGAAAATATT
116357 TTATTTTATTTTA
1 TTATTTTATTTTA
*
116370 TTATTATTATTAT-
1 TTATT-TTATTTTA
116383 TTATTTTA-TTTA
1 TTATTTTATTTTA
116395 TTTATTTTATTTTA
1 -TTATTTTATTTTA
116409 TTAATTTTATTTT
1 TT-ATTTTATTTT
116422 TATTTCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
11 2 0.04
12 3 0.07
13 20 0.44
14 20 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTATTTTATTTTA
Found at i:116381 original size:9 final size:9
Alignment explanation
Indices: 116353--116425 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
116343 TTTTGGAAAA
116353 TATT-TTAT
1 TATTATTAT
116361 T-TTATT-T
1 TATTATTAT
116368 TATTATTAT
1 TATTATTAT
116377 TATTATTTAT
1 TATTA-TTAT
116387 T-TTATTTATT
1 TATTA-TTA-T
116397 TATT-TTAT
1 TATTATTAT
116405 T-TTATTAAT
1 TATTATT-AT
*
116414 T-TTATTTT
1 TATTATTAT
116422 TATT
1 TATT
116426 TCATTTTTAC
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
7 6 0.11
8 14 0.25
9 26 0.47
10 7 0.13
11 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TATTATTAT
Found at i:116405 original size:39 final size:38
Alignment explanation
Indices: 116356--116431 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 38
116346 TGGAAAATAT
*
116356 TTTATTTTATTTTATT-ATTATTATTATTTATTTTATTTA
1 TTTATTTTATTTTATTAATT-TTATT-TTTATTTCATTTA
116395 TTTATTTTATTTTATTAATTTTATTTTTATTTCATTT
1 TTTATTTTATTTTATTAATTTTATTTTTATTTCATTT
116432 TTACTTTTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 11 0.31
39 21 0.60
40 3 0.09
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (38 bp):
TTTATTTTATTTTATTAATTTTATTTTTATTTCATTTA
Found at i:117449 original size:6 final size:6
Alignment explanation
Indices: 117440--117478 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
117430 TATATATGTA
*
117440 TATTTT TATTTT TATTTTAT TTTTTT TATTTT TATTTT T
1 TATTTT TATTTT TA-TTT-T TATTTT TATTTT TATTTT T
117479 TCCATCTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 21 0.72
7 6 0.21
8 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TATTTT
Found at i:117467 original size:14 final size:15
Alignment explanation
Indices: 117448--117479 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
117438 TATATTTTTA
117448 TTTTTA-TTTTATTT
1 TTTTTATTTTTATTT
117462 TTTTTATTTTTATTT
1 TTTTTATTTTTATTT
117477 TTT
1 TTT
117480 CCATCTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:122717 original size:81 final size:80
Alignment explanation
Indices: 122486--123379 Score: 933
Period size: 81 Copynumber: 10.9 Consensus size: 80
122476 GGGAGTCATT
** * * * * *
122486 CAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
*
122551 AGAAGGGTTATCTGCCAAC
66 AGAAGGGCTATCTG----C
*** * * * *
122570 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGTCG
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
122635 AGAAGGGCTATCTGC
66 AGAAGGGCTATCTGC
* * *
122650 CAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTGCAACATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTC
*
122715 GAGAAGGGTTATCTGC
65 GAGAAGGGCTATCTGC
*** * * * *
122731 CATAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAGT
1 C--AAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGT
122796 CGAGAAGGGCTATCTGC
64 CGAGAAGGGCTATCTGC
* *
122813 CAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* *
122878 GAGAAGGGTTATCTACCAAC
65 GAGAAGGGCTATCT----GC
** * * * * * *
122898 CAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCT
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
* *
122963 AGAAGGGTTGTCTGCC
66 AGAAGGGCTATCTG-C
* *** * * * *
122979 AACAAAAAACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAG
1 --C-AAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAG
123044 TCGAGAAGGGCTATCTGC
63 TCGAGAAGGGCTATCTGC
* * * *
123062 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 CAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTC
* *
123127 TAGAAGGGTTATCTATGAC
65 GAGAAGGGCTATC--TG-C
*** * * * * * * *
123146 CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGACACATCATTTGCAACATAGCTTAAGTTG
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
123211 AGAAGGGCTATCTGC
66 AGAAGGGCTATCTGC
* * * *
123226 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTTAAGTT
1 CAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTC
123291 GAGAAGGGCTATCTGC
65 GAGAAGGGCTATCTGC
* * * *
123307 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTGCAGCACAACTAAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGC-TCGAGGGCACATCATTTGCAGCATAACTTAAGTC
*
123372 TAGAAGGG
65 GAGAAGGG
123380 TTGTCTATCA
Statistics
Matches: 684, Mismatches: 109, Indels: 37
0.82 0.13 0.04
Matches are distributed among these distances:
80 98 0.14
81 243 0.36
82 46 0.07
83 63 0.09
84 207 0.30
85 27 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (80 bp):
CAAAGACCCCCGAGTTCGACTACACTCAGCTCGAGGGCACATCATTTGCAGCATAACTTAAGTCG
AGAAGGGCTATCTGC
Found at i:123161 original size:164 final size:161
Alignment explanation
Indices: 122486--123381 Score: 974
Period size: 164 Copynumber: 5.5 Consensus size: 161
122476 GGGAGTCATT
** * * * *
122486 CAAAGACCTTCGAGTTCGACTCCGCTCAGCTCCAA-GGCATATCATTTGCAGCATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
*
122550 GAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCAT
66 GAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCAT
* *
122615 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
127 TTGCAGCATAACTTAAGTCTAGAAGGGCTATCTGC
* * * *
122650 CAAAGACCCCCGAGTTCGATTACACTCAACTTCGAGGGCACATCATTTGCAACATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
*
122715 GAGAAGGGTTATCTGCCATAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
66 GAGAAGGGTTATCTGCC--AAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTT
* *
122780 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
129 GCAGCATAACTTAAGTCTAGAAGGGCTATCTGC
* **
122813 CAAAGACCCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTTAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
* *
122878 GAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCATATCA
66 GAGAAGGGTTATCT----GCCAAAGACCTTCGAGTTCGACTACGCTCAGCT-CAACGGCACATCA
* * *
122942 TTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCC
126 TTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTG-C
* *** * * *
122979 AACAAAAAACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAA
1 --C-AAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAA
* ** * * * *
123043 GTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCAT
63 GTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAACGGCACATCAT
* * * *
123108 TTACAGCATAACTCAAGGCTAGAAGGGTTATCTATGAC
127 TTGCAGCATAACTTAAGTCTAGAAGGGCTATC--TG-C
*** * * * * * *
123146 CAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGACACATCATTTGCAACATAGCTTAAGTT
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
* ** * * * * *
123210 GAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
66 GAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAACGGCACATCATTTG
*
123275 CAACATAACTTAAGT-TGAGAAGGGCTATCTGC
130 CAGCATAACTTAAGTCT-AGAAGGGCTATCTGC
* * * * *
123307 CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTGCAGCACAACTAAAGTC
1 CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
*
123372 TAGAAGGGTT
66 GAGAAGGGTT
123382 GTCTATCAAC
Statistics
Matches: 645, Mismatches: 69, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
161 28 0.04
162 35 0.05
163 156 0.24
164 203 0.31
165 147 0.23
166 4 0.01
167 5 0.01
168 44 0.07
169 23 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.24
Consensus pattern (161 bp):
CAAAGACCCCCGAGTTCGACTACACTCAGCTTCAAGGGCACATCATTTGCAGCATAACTTAAGTC
GAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGC
AGCATAACTTAAGTCTAGAAGGGCTATCTGC
Found at i:123820 original size:46 final size:45
Alignment explanation
Indices: 123752--123868 Score: 157
Period size: 45 Copynumber: 2.6 Consensus size: 45
123742 TTTTTTTTGT
* *
123752 TTTTTTATATACATACATATATATATATTATATAG-TTTGAAAACA
1 TTTTTTA-ATACATATATATATATATATAATATAGTTTTGAAAACA
123797 TTTTTTAATACATATATATATATATATAATATAGTTTTGAAAACA
1 TTTTTTAATACATATATATATATATATAATATAGTTTTGAAAACA
* * * *
123842 TGTTTGAAAACATTTATATAT-TATATA
1 TTTTTTAATACATATATATATATATATA
123869 GTTTTTAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
44 31 0.48
45 34 0.52
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (45 bp):
TTTTTTAATACATATATATATATATATAATATAGTTTTGAAAACA
Found at i:123905 original size:29 final size:30
Alignment explanation
Indices: 123863--123927 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
123853 ATTTATATAT
*
123863 TATATAGTTTTT-AAAACATTTTGAAAATA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
123892 TATATAGTTTTTAAAAACATTTTGAAAACA
1 TATATAGTTTTTAAAAACATTTTGAAAACA
123922 TATATA
1 TATATA
123928 TATTATATAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 12 0.35
30 22 0.65
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (30 bp):
TATATAGTTTTTAAAAACATTTTGAAAACA
Found at i:123916 original size:68 final size:68
Alignment explanation
Indices: 123820--124002 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 68
123810 ATATATATAT
* *
123820 ATATAATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAA-CATTT
1 ATAT-ATATAGTTTTAAAAACATGTTTGAAAACATATATATATTATATAG-TTTTAAAATCATTT
123884 TGAAA
64 TGAAA
*
123889 ATATATATAGTTTTTAAAAACAT-TTTGAAAACATATATATATTATATAGTTTTAAAATTATTTT
1 ATATATATAG-TTTTAAAAACATGTTTGAAAACATATATATATTATATAGTTTTAAAATCATTTT
123953 GAAAACTTA
65 G--AA---A
* *
123962 TATAATATATAGTTTTAAAAATATTTTTGAAAAC-TATATAT
1 -AT-ATATATAGTTTTAAAAACATGTTTGAAAACATATATAT
124003 TTTTTAAAAC
Statistics
Matches: 100, Mismatches: 4, Indels: 15
0.84 0.03 0.13
Matches are distributed among these distances:
67 8 0.08
68 37 0.37
69 15 0.15
70 2 0.02
73 1 0.01
74 20 0.20
75 17 0.17
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (68 bp):
ATATATATAGTTTTAAAAACATGTTTGAAAACATATATATATTATATAGTTTTAAAATCATTTTG
AAA
Found at i:123952 original size:38 final size:37
Alignment explanation
Indices: 123891--124002 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 37
123881 TTTTGAAAAT
*
123891 ATATATAGTTTTTAAAAACATTTTGAAAACATATATATA
1 ATATATAG-TTTTAAAAATATTTTGAAAAC-TATATATA
* *
123930 TTATATAGTTTTAAAATTATTTTGAAAACT-TATATA
1 ATATATAGTTTTAAAAATATTTTGAAAACTATATATA
123966 ATATATAGTTTTAAAAATATTTTTGAAAACTATATAT
1 ATATATAGTTTTAAAAATA-TTTTGAAAACTATATAT
124003 TTTTTAAAAC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
36 23 0.35
37 12 0.18
38 24 0.36
39 7 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (37 bp):
ATATATAGTTTTAAAAATATTTTGAAAACTATATATA
Found at i:123988 original size:104 final size:106
Alignment explanation
Indices: 123814--124038 Score: 291
Period size: 104 Copynumber: 2.1 Consensus size: 106
123804 ATACATATAT
* *
123814 ATATATATATAATATAGTTTTGAAAACATGTTTGAAAACATTTATATATTATATAGTTTTTAAAA
1 ATATATATATAATATAGTTTTGAAAACATGTTTGAAAACA-TTATATAATATATAGTTTTAAAAA
*
123879 CA-TTTTGAAAA-TATATATAGTTTTTAAAAACATTT-TGAAAAC
65 CATTTTTGAAAACTATATAT--TTTTT-AAAACATTTCTCAAAAC
* *
123921 ATATATATATTATATAGTTTT-AAAATTAT-TTTGAAAAC-TTATATAATATATAGTTTTAAAAA
1 ATATATATATAATATAGTTTTGAAAA-CATGTTTGAAAACATTATATAATATATAGTTTTAAAAA
* *
123983 TATTTTTGAAAACTATATATTTTTTAAAACATTTCTCAAAAT
65 CATTTTTGAAAACTATATATTTTTTAAAACATTTCTCAAAAC
124025 ATATAATATATAAT
1 ATAT-ATATATAAT
124039 TTCAAAATAT
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
103 9 0.09
104 37 0.35
105 17 0.16
106 20 0.19
107 22 0.21
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.45
Consensus pattern (106 bp):
ATATATATATAATATAGTTTTGAAAACATGTTTGAAAACATTATATAATATATAGTTTTAAAAAC
ATTTTTGAAAACTATATATTTTTTAAAACATTTCTCAAAAC
Found at i:124028 original size:28 final size:28
Alignment explanation
Indices: 123965--124029 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
123955 AAACTTATAT
* * *
123965 AATATATAGTTTTAAAAATATTTTTGAA
1 AATATATAGTTTTAAAAACATTTCTCAA
* *
123993 AACTATATATTTTTTAAAACATTTCTCAA
1 AA-TATATAGTTTTAAAAACATTTCTCAA
124022 AATATATA
1 AATATATA
124030 ATATATAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 8 0.26
29 23 0.74
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (28 bp):
AATATATAGTTTTAAAAACATTTCTCAA
Found at i:124087 original size:104 final size:103
Alignment explanation
Indices: 123856--124092 Score: 256
Period size: 104 Copynumber: 2.3 Consensus size: 103
123846 TGAAAACATT
*
123856 TATATATTATATAGTTTTTAAAACA-TTTTGAAAATATATATAGTTTTTAAAAACATTTTGAAAA
1 TATATATTATATAGTTTTTAAAATATTTTTGAAAATATATATA-TTTTTAAAAACATTTTGAAAA
* *
123920 CATATATATATTATATAGTTTTAAAATTATTTTGAAAAC
65 CATATATATATTATATAATTTAAAAATTATTTTGAAAAC
* * *
123959 TTATATAATATATAGTTTTAAAAATATTTTTGAAAACTATATAT-TTTTT-AAAACATTTCT-CA
1 -TATATATTATATAGTTTTTAAAATATTTTTGAAAA-TATATATATTTTTAAAAACATTT-TGAA
*
124021 AA-ATATATA-A-TATATAATTTCAAAATATTTTTTTTGAAAA-
63 AACATATATATATTATATAATTT-AAAA-A-TTATTTTGAAAAC
*
124061 TATATATTATGTAGGTTTTTGGAAAATATTTT
1 TATATATTATATA-GTTTTT--AAAATATTTT
124093 ATTTTATTTT
Statistics
Matches: 114, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
100 9 0.08
101 15 0.13
102 13 0.11
103 23 0.20
104 38 0.33
105 9 0.08
106 7 0.06
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (103 bp):
TATATATTATATAGTTTTTAAAATATTTTTGAAAATATATATATTTTTAAAAACATTTTGAAAAC
ATATATATATTATATAATTTAAAAATTATTTTGAAAAC
Found at i:124097 original size:5 final size:5
Alignment explanation
Indices: 124087--124167 Score: 96
Period size: 5 Copynumber: 16.2 Consensus size: 5
124077 TTTTGGAAAA
124087 TATTT TATTT TATTT TATTAT TATTAT TA-TT TATTT TA-TT TATTT TATTT
1 TATTT TATTT TATTT TATT-T TATT-T TATTT TATTT TATTT TATTT TATTT
* *
124137 TATTT TA-TT AATTT TATTTT TATTT CATTT T
1 TATTT TATTT TATTT TA-TTT TATTT TATTT T
124168 TACTTTTCAG
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
4 10 0.15
5 43 0.64
6 14 0.21
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:124115 original size:9 final size:9
Alignment explanation
Indices: 124087--124160 Score: 56
Period size: 9 Copynumber: 8.8 Consensus size: 9
124077 TTTTGGAAAA
124087 TATT-TTAT
1 TATTATTAT
124095 T-TTATT-T
1 TATTATTAT
124102 TATTATTAT
1 TATTATTAT
124111 TATTATTTAT
1 TATTA-TTAT
124121 T-TTATTTAT
1 TATTA-TTAT
124130 T-TTATT-T
1 TATTATTAT
124137 TATT-TTAT
1 TATTATTAT
124145 TAATT-TTAT
1 T-ATTATTAT
*
124154 TTTTATT
1 TATTATT
124161 TCATTTTTAC
Statistics
Matches: 57, Mismatches: 1, Indels: 15
0.78 0.01 0.21
Matches are distributed among these distances:
7 8 0.14
8 16 0.28
9 28 0.49
10 5 0.09
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTATTAT
Found at i:124129 original size:19 final size:17
Alignment explanation
Indices: 124090--124157 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 17
124080 TGGAAAATAT
*
124090 TTTATTTTATTTTATTA
1 TTTATTTTATTTTTTTA
124107 -TTATTATTATTTATTTTA
1 TTTATT-TTATTT-TTTTA
124125 TTTATTTTATTTTATTTTA
1 TTTATTTTA-TTT-TTTTA
*
124144 TTAATTTTATTTTT
1 TTTATTTTATTTTT
124158 ATTTCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
16 5 0.11
17 8 0.18
18 10 0.22
19 22 0.49
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTTTTA
Found at i:124131 original size:40 final size:39
Alignment explanation
Indices: 124087--124166 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 39
124077 TTTTGGAAAA
*
124087 TATTTTATTTTATTTTATT-ATTATTATTATTTATTTTATT
1 TATTTTATTTTATTTTATTAATT-TTATT-TTTATTTCATT
124127 TATTTTATTTTATTTTATTAATTTTATTTTTATTTCATT
1 TATTTTATTTTATTTTATTAATTTTATTTTTATTTCATT
124166 T
1 T
124167 TTACTTTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
39 11 0.29
40 24 0.63
41 3 0.08
ACGTcount: A:0.24, C:0.01, G:0.00, T:0.75
Consensus pattern (39 bp):
TATTTTATTTTATTTTATTAATTTTATTTTTATTTCATT
Found at i:125294 original size:7 final size:7
Alignment explanation
Indices: 125282--125322 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
125272 TATATGTATG
125282 TTTTTAT
1 TTTTTAT
125289 TTTTTATT
1 TTTTTA-T
125297 TTTTTAT
1 TTTTTAT
125304 TTTTT-T
1 TTTTTAT
125310 ATTTTTAT
1 -TTTTTAT
125318 TTTTT
1 TTTTT
125323 CCATCTAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 1 0.03
7 22 0.71
8 8 0.26
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:125302 original size:15 final size:14
Alignment explanation
Indices: 125282--125322 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
125272 TATATGTATG
*
125282 TTTTTATTTTTTATT
1 TTTTTATTTTTT-TA
125297 TTTTTATTTTTTTA
1 TTTTTATTTTTTTA
125311 TTTTTATTTTTT
1 TTTTTATTTTTT
125323 CCATCTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:125322 original size:8 final size:8
Alignment explanation
Indices: 125282--125315 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
125272 TATATGTATG
125282 TTTTTA-T
1 TTTTTATT
125289 TTTTTATT
1 TTTTTATT
125297 TTTTTATT
1 TTTTTATT
125305 TTTTTATT
1 TTTTTATT
125313 TTT
1 TTT
125316 ATTTTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:125800 original size:17 final size:17
Alignment explanation
Indices: 125775--125830 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
125765 TAATAACATG
*
125775 ACATTTATTACATGTAC
1 ACATCTATTACATGTAC
125792 ACATCTATTACATGTAC
1 ACATCTATTACATGTAC
125809 ACATCTATTACATGTAC
1 ACATCTATTACATGTAC
125826 ACATC
1 ACATC
125831 GACATTTTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (17 bp):
ACATCTATTACATGTAC
Found at i:126883 original size:22 final size:21
Alignment explanation
Indices: 126858--126912 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
126848 TTAGAGATTA
126858 AGGTCTAGGGTTTAGGGTTTAG
1 AGGT-TAGGGTTTAGGGTTTAG
* *
126880 AGGTTATGGGATTATGGTTTAG
1 AGGTTA-GGGTTTAGGGTTTAG
*
126902 AGTTTAGGGTT
1 AGGTTAGGGTT
126913 ATTAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.20, C:0.02, G:0.38, T:0.40
Consensus pattern (21 bp):
AGGTTAGGGTTTAGGGTTTAG
Found at i:127528 original size:2 final size:2
Alignment explanation
Indices: 127521--127567 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
127511 TTAGCATAAG
127521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127563 AT AT A
1 AT AT A
127568 AAACAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:134951 original size:6 final size:6
Alignment explanation
Indices: 134940--134966 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
134930 ACATTCCCAT
134940 CAGTTG CAGTTG CAGTTG CAGTTG CAG
1 CAGTTG CAGTTG CAGTTG CAGTTG CAG
134967 GATACATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.30
Consensus pattern (6 bp):
CAGTTG
Found at i:143071 original size:18 final size:17
Alignment explanation
Indices: 143044--143082 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
143034 GGGCACTGAA
143044 CACTTGTCCCGAAGGAC
1 CACTTGTCCCGAAGGAC
143061 CACTATGTCCCGAAGGAC
1 CACT-TGTCCCGAAGGAC
143079 CACT
1 CACT
143083 CCTTAAGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.18
Consensus pattern (17 bp):
CACTTGTCCCGAAGGAC
Found at i:143181 original size:21 final size:21
Alignment explanation
Indices: 143126--143182 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
143116 AATAAGTGTA
* * *
143126 CCAAAGTACCGCATATATGTT
1 CCAAAGGACCACATATATGTC
**
143147 CCAAAGGATTACATATATGTC
1 CCAAAGGACCACATATATGTC
*
143168 CCGAAGGACCACATA
1 CCAAAGGACCACATA
143183 GAAGCCTCGA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.23
Consensus pattern (21 bp):
CCAAAGGACCACATATATGTC
Found at i:149703 original size:20 final size:21
Alignment explanation
Indices: 149666--149705 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
149656 AAATTAAGTT
149666 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
149687 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
149706 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:149972 original size:19 final size:19
Alignment explanation
Indices: 149935--149973 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
149925 TCGAATGTAT
*
149935 TCCATGCACCAATGTATTC
1 TCCATGCACCAATGCATTC
* *
149954 TCCATGCATCGATGCATTC
1 TCCATGCACCAATGCATTC
149973 T
1 T
149974 GAATATTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (19 bp):
TCCATGCACCAATGCATTC
Found at i:150049 original size:45 final size:46
Alignment explanation
Indices: 149957--150061 Score: 167
Period size: 45 Copynumber: 2.3 Consensus size: 46
149947 TGTATTCTCC
* *
149957 ATGCATCGATGCATTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTG
**
150003 ATGCATCGATGCACTCAGGCTATTTTC-AAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTG
150048 ATGCATCGATGCAC
1 ATGCATCGATGCAC
150062 ACTTGGTGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTTG
Found at i:157495 original size:21 final size:21
Alignment explanation
Indices: 157453--157496 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
157443 ACTTCGGGAG
*
157453 CTAGTTCTTCTAGAGCTGCTC
1 CTAGTTCTTCTAGAGCTCCTC
* *
157474 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCTAGAGCTCCTC
157495 CT
1 CT
157497 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.16, T:0.41
Consensus pattern (21 bp):
CTAGTTCTTCTAGAGCTCCTC
Found at i:158332 original size:20 final size:21
Alignment explanation
Indices: 158295--158334 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
158285 AAATTAAGTT
158295 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
158316 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
158335 TATTTGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:158591 original size:19 final size:19
Alignment explanation
Indices: 158567--158603 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
158557 TCGAATGCAT
158567 TCCATGCACCAATGCATTC
1 TCCATGCACCAATGCATTC
* *
158586 TCCATGCATCGATGCATT
1 TCCATGCACCAATGCATT
158604 ATGAATATTT
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:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (19 bp):
TCCATGCACCAATGCATTC
Found at i:158647 original size:65 final size:64
Alignment explanation
Indices: 158553--158713 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
158543 GAATTAATTG
* * * **** * *
158553 AACATCGAATGCATTCCATGCACCAATGCATTCTCCATGCATCGATGCA-TTATGAATATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCA-GAATATTTTC-
158617 A
64 A
* **
158618 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATACATCGATGCACTCAGGCTATTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCAGAATATTTTCA
158682 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
158714 CTTGGTGCAC
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 32 0.39
65 48 0.59
66 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATACATCGATGCACTCAGAATATTTTCA
Found at i:167959 original size:24 final size:23
Alignment explanation
Indices: 167923--168007 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
167913 TCCGACTTGA
* *
167923 ATTCTATTTTGATACATGACCTGG
1 ATTCTGTTCTGATAC-TGACCTGG
* *
167947 ATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGA-TACTGACCTGG
** *
167971 ATTCTGTTCTGATATCTGATTTGA
1 ATTCTGTTCTGATA-CTGACCTGG
*
167995 ATTCTGTTTTGAT
1 ATTCTGTTCTGAT
168008 TTCTGATATC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 1 0.02
24 48 0.94
25 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (23 bp):
ATTCTGTTCTGATACTGACCTGG
Done.