Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002832.1 Hibiscus syriacus cultivar Beakdansim tig00005824_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: 121628
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:2521 original size:20 final size:20
Alignment explanation
Indices: 2492--2530 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2482 ATTTCACCAC
*
2492 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
2512 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
2531 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:3898 original size:95 final size:94
Alignment explanation
Indices: 3703--3955 Score: 296
Period size: 95 Copynumber: 2.7 Consensus size: 94
3693 GGCTAGCTAG
* * * ** * * * *
3703 ATCCATAAAGTTGAGGCGTTTAACCAATTGCTCTAGAGTTACAACTCAA-ATGTA-TATATATAA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATAT-A
*
3766 TTATCACATTTATCAGGCTAGCTGAATATT
65 TAATCACATTTATCAGGCTAGCTGAATATT
*
3796 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATAGTA
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATA-TA
* * *
3861 TAATCACCTTTATCAGGCTAGCTGACTCTT
65 TAATCACATTTATCAGGCTAGCTGAATATT
* * * * *
3891 ATCCATAAAGCTAGGGCGTTTAACCAATTGGTTTAGAGGG-ACATTTAAGCTTTATTGTATATAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATATAT
3955 A
66 A
3956 TAATATTATA
Statistics
Matches: 137, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
93 46 0.34
94 21 0.15
95 69 0.50
96 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (94 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTTTAGAGGGAAAACTCAAGCTTTATTGTATATAT
AATCACATTTATCAGGCTAGCTGAATATT
Found at i:4506 original size:28 final size:30
Alignment explanation
Indices: 4448--4506 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
4438 CCATATAAAA
*
4448 AGAAAATTCAAAAAATAAGTTCCAAATATG
1 AGAAAATTCAAAAAATAAGTTCCAAACATG
*
4478 AGAAAGTTCAAAAACA-AA-TT-CAAACATG
1 AGAAAATTCAAAAA-ATAAGTTCCAAACATG
4506 A
1 A
4507 TGCCACGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 15 0.58
31 1 0.04
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.20
Consensus pattern (30 bp):
AGAAAATTCAAAAAATAAGTTCCAAACATG
Found at i:7629 original size:17 final size:18
Alignment explanation
Indices: 7607--7648 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
7597 GAAAAGTGTT
7607 AGATAAAATAAAT-AATA
1 AGATAAAATAAATAAATA
7624 AGATAAAATAAATAAATA
1 AGATAAAATAAATAAATA
7642 A-ATAAAA
1 AGATAAAA
7649 GATAGGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AGATAAAATAAATAAATA
Found at i:7870 original size:34 final size:34
Alignment explanation
Indices: 7827--7895 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 34
7817 ATATATATAT
7827 ATATATATATA-ATAAAACAAATAAATAA-AAAATA
1 ATATATATATACATAAAA-AAATAAA-AATAAAATA
7861 ATATATATATACATAAAAAAATAAAAATAAAATA
1 ATATATATATACATAAAAAAATAAAAATAAAATA
7895 A
1 A
7896 AAGTAATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 2 0.06
34 25 0.76
35 6 0.18
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (34 bp):
ATATATATATACATAAAAAAATAAAAATAAAATA
Found at i:7903 original size:40 final size:40
Alignment explanation
Indices: 7811--7897 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
7801 AAAAGTGGGT
* * * *
7811 TAAAGAATATATATATATATATATATAATAAAACAAATAAA
1 TAAAAAATA-ATATATATATACATATAAAAAAAAAAATAAA
7852 TAAAAAATAATATATATATACATA-AAAAAATAAAAATAAAA
1 TAAAAAATAATATATATATACATATAAAAAA-AAAAAT-AAA
7893 TAAAA
1 TAAAA
7898 GTAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 5 0.12
40 19 0.47
41 16 0.40
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (40 bp):
TAAAAAATAATATATATATACATATAAAAAAAAAAATAAA
Found at i:8176 original size:100 final size:102
Alignment explanation
Indices: 8049--8237 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 102
8039 AAGTATATAT
8049 ATATATATACATAACGTAAAAACAAATAAATAAAA-AATATATAATAAGATATA-AAAT-A-AAA
1 ATATATATACATAACGTAAAAACAAAT-AATAAAATAATA-ATAATAAGA-ATAGAAATAAGAAA
*
8110 AAAATAAAA-GGACAAA-AACAAAATAGAAATAAATAAAAA
63 AAAATAAAATGAACAAATAA-AAAATAGAAATAAATAAAAA
* * *
8149 ATATATATA-ATAACGTATAGACAAAATAATAAAATAATAATAATAATAATAGGAAATAAGAAAA
1 ATATATATACATAACGTAAAAAC-AAATAATAAAATAATAATAATAAGAATA-GAAATAAGAAAA
8213 AAATAAAATGAACAAATAAAAAATA
64 AAATAAAATGAACAAATAAAAAATA
8238 ATACAAATAA
Statistics
Matches: 77, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
98 3 0.04
99 26 0.34
100 21 0.27
101 1 0.01
102 12 0.16
103 12 0.16
104 2 0.03
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (102 bp):
ATATATATACATAACGTAAAAACAAATAATAAAATAATAATAATAAGAATAGAAATAAGAAAAAA
ATAAAATGAACAAATAAAAAATAGAAATAAATAAAAA
Found at i:9198 original size:2 final size:2
Alignment explanation
Indices: 9191--9243 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
9181 TATTTATACA
9191 AT AT AT AT AT AT A- 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
9232 AT AT AT AT AT AT
1 AT AT AT AT AT AT
9244 GTTTATTTCG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24470 original size:26 final size:26
Alignment explanation
Indices: 24410--24460 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
24400 AAAAATCATT
**
24410 CAGTTCTTGCATTCTTTGATGATTTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
24436 CAGTTCTTGCATTCTTTGAT-AGCTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
24461 AGCTATCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (26 bp):
CAGTTCTTGCATTCTTTGATGAGCTC
Found at i:29157 original size:26 final size:26
Alignment explanation
Indices: 29097--29147 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29087 AAAAATCATT
**
29097 CAGTTCTTGCATTCTTTGATGATTTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
29123 CAGTTCTTGCATTCTTTGAT-AGCTC
1 CAGTTCTTGCATTCTTTGATGAGCTC
29148 AGCTATCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (26 bp):
CAGTTCTTGCATTCTTTGATGAGCTC
Found at i:30893 original size:2 final size:2
Alignment explanation
Indices: 30886--30917 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
30876 ATGCAAATGC
30886 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
30918 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32194 original size:16 final size:16
Alignment explanation
Indices: 32173--32206 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
32163 TTACTATTCA
*
32173 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
32189 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
32205 CG
1 CG
32207 GTCGACGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:39060 original size:18 final size:19
Alignment explanation
Indices: 39037--39075 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39027 TGAAAGAATT
*
39037 AAAACTT-AAGAAGAAAGA
1 AAAACTTGAAAAAGAAAGA
*
39055 AAAACTTGAAAAAGATAGA
1 AAAACTTGAAAAAGAAAGA
39074 AA
1 AA
39076 TGTTGAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.67, C:0.05, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAACTTGAAAAAGAAAGA
Found at i:46598 original size:2 final size:2
Alignment explanation
Indices: 46591--46622 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
46581 CCTACAAACA
46591 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
46623 TAATAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46650 original size:20 final size:20
Alignment explanation
Indices: 46627--46673 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
46617 ATATATTAAT
46627 AATTATAATAATAATAA-ATA
1 AATTATAATAATAA-AATATA
46647 AATTATAATAATAAAATATA
1 AATTATAATAATAAAATATA
46667 AA-TATAA
1 AATTATAA
46674 AACCCAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTATAATAATAAAATATA
Found at i:47015 original size:84 final size:84
Alignment explanation
Indices: 46896--47067 Score: 238
Period size: 84 Copynumber: 2.0 Consensus size: 84
46886 CAAACTCGTC
* *
46896 AGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTTGAAGC
1 AGGTCTTTGGTTGGAAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTTGAAGC
*
46961 TGAGCGTAGTCGAACTCGA
66 TGAGCGTAATCGAACTCGA
** * * * *
46980 AGGTCTTTGGTTGGAAAATAGCCCTT-TTTACCTTAAGTTATGTTGCAAATGATGTGCCTTGGAG
1 AGGTCTTTGGTTGGAAAATAGCCCTTCTCGA-CTTAAGCTATGCTGCAAATAATGTGCCTTGAAG
*
47044 CTGAGTGTAATCGAACTCGA
65 CTGAGCGTAATCGAACTCGA
47064 AGGT
1 AGGT
47068 TTGGTGTTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
83 2 0.03
84 75 0.97
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (84 bp):
AGGTCTTTGGTTGGAAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAATAATGTGCCTTGAAGC
TGAGCGTAATCGAACTCGA
Found at i:47196 original size:67 final size:68
Alignment explanation
Indices: 47072--47222 Score: 207
Period size: 67 Copynumber: 2.2 Consensus size: 68
47062 GAAGGTTTGG
* * ** *
47072 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTGTTTCAAGAGAAACTGTCTCAAGAGAGGTAA
1 TGTTTCAAGAGAAACATATTCAAAGG-TATTGGTGTTTCAAGAGAAACTGTCTCAAGAGA-GAAA
47137 AATTT
64 AATTT
*
47142 TGTTTCAAGAGAAACATATTCAAA-G-ATTGGTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAA
1 TGTTTCAAGAGAAACATATTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAA
47205 TTT
66 TTT
*
47208 TGTTTCAAGGGAAAC
1 TGTTTCAAGAGAAAC
47223 TGTCTCAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
66 22 0.30
67 28 0.38
69 1 0.01
70 23 0.31
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (68 bp):
TGTTTCAAGAGAAACATATTCAAAGGTATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAA
TTT
Found at i:47219 original size:36 final size:36
Alignment explanation
Indices: 47102--47255 Score: 164
Period size: 36 Copynumber: 4.4 Consensus size: 36
47092 CAAAGGTTTT
*
47102 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGGTAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGA-GAAAAA
*
47139 TTTTGTTTCAAGAGAAACATAT-TC-A-A-AG----A
1 TTTTGTTTCAAGAGAAAC-TGTCTCAAGAGAGAAAAA
* *
47168 TTGGTGTTTCAAGGGAAACTGTCTCAAGAGAGAAAAA
1 TT-TTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAA
*
47205 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGATAAAA
1 TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGA-AAAA
47242 -TTTGTTTCAAGAGA
1 TTTTGTTTCAAGAGA
47256 GACAAAACTT
Statistics
Matches: 100, Mismatches: 6, Indels: 23
0.78 0.05 0.18
Matches are distributed among these distances:
29 5 0.05
30 16 0.16
31 1 0.01
32 1 0.01
33 3 0.03
34 1 0.01
35 1 0.01
36 43 0.43
37 27 0.27
38 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (36 bp):
TTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAA
Found at i:47253 original size:21 final size:22
Alignment explanation
Indices: 47227--47270 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
47217 GGAAACTGTC
*
47227 TCAAGAGAGATAAAA-TTTGTT
1 TCAAGAGAGACAAAACTTTGTT
47248 TCAAGAGAGACAAAACTTTGTT
1 TCAAGAGAGACAAAACTTTGTT
47270 T
1 T
47271 TGAGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (22 bp):
TCAAGAGAGACAAAACTTTGTT
Found at i:47600 original size:116 final size:116
Alignment explanation
Indices: 47356--47585 Score: 336
Period size: 116 Copynumber: 2.0 Consensus size: 116
47346 GTTCCTGAAG
* * * * *
47356 ATGAATGTGGCTGGTGGGTACGATTCCCTTCGTCGTGAAGTTAAAACCATGGATGGCCCCTTCGT
1 ATGAATGTTGTTGGTGAGCACGATTCCCTTCGGCGTGAAGTTAAAACCATGGATGGCCCCTTCGT
* *
47421 AGTGAAGTTGAACCTTGGATTGGATATCCTTCGTCGTGAAGTTGAAATCAA
66 AGTGAAGTTGAACCTTGAATTAGATATCCTTCGTCGTGAAGTTGAAATCAA
* *
47472 ATGAATGTTGTTGGTGAGCACGATTCCCTTCGGCGTGAAGTTAAAACCGTGGATGGCCCTTTCGT
1 ATGAATGTTGTTGGTGAGCACGATTCCCTTCGGCGTGAAGTTAAAACCATGGATGGCCCCTTCGT
* * *
47537 TGTGAAGTTGAGCCTT-AACTTATATATCCTTCGTCGTGAAGTTGAAATC
66 AGTGAAGTTGAACCTTGAA-TTAGATATCCTTCGTCGTGAAGTTGAAATC
47586 CAAGTATTTG
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 1 0.01
116 100 0.99
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (116 bp):
ATGAATGTTGTTGGTGAGCACGATTCCCTTCGGCGTGAAGTTAAAACCATGGATGGCCCCTTCGT
AGTGAAGTTGAACCTTGAATTAGATATCCTTCGTCGTGAAGTTGAAATCAA
Found at i:52492 original size:3 final size:3
Alignment explanation
Indices: 52484--52526 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
52474 AAATATATAT
* *
52484 TAA TAA TAA TAA TAA TAA TAAA TAAA TTA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA TAA TA
52527 TAAATATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 28 0.80
4 7 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:52494 original size:23 final size:22
Alignment explanation
Indices: 52468--52535 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
52458 TAAACAAAAA
*
52468 AATAAAAAATATATATTAATAAT
1 AATAAAAAATATAAATT-ATAAT
52491 AATAATAATAATAAATAAATTATAAT
1 AATAA-AA-AAT--ATAAATTATAAT
52517 AAT-AAAAATATAAA-TATAA
1 AATAAAAAATATAAATTATAA
52536 AATCCGGTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.12
21 5 0.12
23 8 0.20
24 4 0.10
25 4 0.10
26 8 0.20
27 6 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AATAAAAAATATAAATTATAAT
Found at i:52500 original size:29 final size:27
Alignment explanation
Indices: 52465--52535 Score: 92
Period size: 26 Copynumber: 2.6 Consensus size: 27
52455 CTATAAACAA
*
52465 AAAAATAAAAAATATATATTAATAATAAT
1 AAAAATAATAAATATA-ATT-ATAATAAT
*
52494 AATAATAATAAATA-AATTATAATAAT
1 AAAAATAATAAATATAATTATAATAAT
52520 AAAAAT-ATAAATATAA
1 AAAAATAATAAATATAA
52536 AATCCGGTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 7 0.18
26 15 0.39
27 3 0.08
28 1 0.03
29 12 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
AAAAATAATAAATATAATTATAATAAT
Found at i:52534 original size:20 final size:20
Alignment explanation
Indices: 52492--52535 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
52482 ATTAATAATA
*
52492 ATAATAATAATAAATAAATT
1 ATAATAATAATAAATAAAAT
52512 ATAATAATAA-AAATATAAAT
1 ATAATAATAATAAATA-AAAT
52532 ATAA
1 ATAA
52536 AATCCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAATAATAATAAATAAAAT
Found at i:54195 original size:23 final size:21
Alignment explanation
Indices: 54169--54220 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
54159 TATATAATTA
54169 TAAATTAGTTAAAAAATAAAAGG
1 TAAATTA-TT-AAAAATAAAAGG
* *
54192 TAAATTATTTAAAATAAAGGG
1 TAAATTATTAAAAATAAAAGG
54213 TAAATTAT
1 TAAATTAT
54221 ATCAGTGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 18 0.67
22 2 0.07
23 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.33
Consensus pattern (21 bp):
TAAATTATTAAAAATAAAAGG
Found at i:54207 original size:21 final size:21
Alignment explanation
Indices: 54181--54220 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
54171 AATTAGTTAA
54181 AAAATAAAAGGTAAATTATTT
1 AAAATAAAAGGTAAATTATTT
*
54202 AAAATAAAGGGTAAATTAT
1 AAAATAAAAGGTAAATTAT
54221 ATCAGTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AAAATAAAAGGTAAATTATTT
Found at i:62848 original size:22 final size:21
Alignment explanation
Indices: 62806--62845 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62796 GAGTTTGTTT
*
62806 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
62827 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
62846 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:65185 original size:15 final size:15
Alignment explanation
Indices: 65161--65203 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
65151 AATTTCAAGG
65161 AAAAATGAAAAATAAT
1 AAAAA-GAAAAATAAT
**
65177 AAAAAGAAAAAATGTT
1 AAAAAG-AAAAATAAT
65193 AAAAAGAAAAA
1 AAAAAGAAAAA
65204 ATAGAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (15 bp):
AAAAAGAAAAATAAT
Found at i:65187 original size:16 final size:16
Alignment explanation
Indices: 65168--65206 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
65158 AGGAAAAATG
65168 AAAAATAATAAAAAGA
1 AAAAATAATAAAAAGA
**
65184 AAAAATGTTAAAAAGA
1 AAAAATAATAAAAAGA
65200 AAAAATA
1 AAAAATA
65207 GAATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (16 bp):
AAAAATAATAAAAAGA
Found at i:67160 original size:64 final size:65
Alignment explanation
Indices: 67078--67219 Score: 182
Period size: 64 Copynumber: 2.2 Consensus size: 65
67068 CCATCTAATG
** *
67078 CATCGATGCAC-CCTTGAATAAATTGAATTTCAAATGCATTTTGTGTACCGATGCACA-AGGCAT
1 CATCGATGCACTCCTTGAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACAGA-CCAT
67141 A
65 A
** * * *
67142 CATCGATGCACTCC-TGAATATTTTGAACATCGAATGCATTTTGTGTACCGATGTACAGACCATG
1 CATCGATGCACTCCTTGAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACAGACCATA
67206 CATCGATGCACTCC
1 CATCGATGCACTCC
67220 ATGCTCATTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 65 0.96
65 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (65 bp):
CATCGATGCACTCCTTGAATAAATTGAACATCAAATGCATTTTGTGTACCGATGCACAGACCATA
Found at i:73087 original size:23 final size:22
Alignment explanation
Indices: 73059--73140 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 22
73049 ACACTAGTTA
73059 GTGCATCGATGCATCCCTTGAAT
1 GTGCATCGATGCA-CCCTTGAAT
* * * *
73082 GTGCATCTATTCA-CCATGAAG
1 GTGCATCGATGCACCCTTGAAT
* *
73103 GTGCACCGATGCACTCTTTGAAT
1 GTGCATCGATGCAC-CCTTGAAT
*
73126 GTGCATCGATACACC
1 GTGCATCGATGCACC
73141 AGTCGGGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
21 16 0.36
22 1 0.02
23 28 0.62
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACCCTTGAAT
Found at i:75875 original size:38 final size:38
Alignment explanation
Indices: 75793--75867 Score: 111
Period size: 35 Copynumber: 2.1 Consensus size: 38
75783 TTTTAAACAG
* *
75793 TATATTATATGTTTTCAAAAATCGTTTTCTAAAAATTA
1 TATATTATATGCTTTCAAAAATCATTTTCTAAAAATTA
75831 TATATTATAT-CTTTCAAAAAT-ATTTTC-AAAAATTA
1 TATATTATATGCTTTCAAAAATCATTTTCTAAAAATTA
75866 TA
1 TA
75868 CTATATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
35 10 0.29
36 5 0.14
37 10 0.29
38 10 0.29
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (38 bp):
TATATTATATGCTTTCAAAAATCATTTTCTAAAAATTA
Found at i:75903 original size:12 final size:12
Alignment explanation
Indices: 75886--75915 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
75876 ATATATGTAC
75886 ATATAAATAAAT
1 ATATAAATAAAT
75898 ATATAAATAAAT
1 ATATAAATAAAT
*
75910 AAATAA
1 ATATAA
75916 TAATTCTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAAATAAAT
Found at i:78666 original size:21 final size:22
Alignment explanation
Indices: 78616--78664 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
78606 ATTAGATACG
*
78616 ATAAAATTTTATGGTGAACACC
1 ATAAAATTTCATGGTGAACACC
*
78638 ATAAAATTTCA-GGTGAGCACAC
1 ATAAAATTTCATGGTGAACAC-C
78660 ATAAA
1 ATAAA
78665 TTAAAGAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (22 bp):
ATAAAATTTCATGGTGAACACC
Found at i:80539 original size:160 final size:160
Alignment explanation
Indices: 80267--80660 Score: 610
Period size: 160 Copynumber: 2.5 Consensus size: 160
80257 TCTCAACCAG
* *
80267 TAAACATTACCCGACAATCCACTTATCTTTGATTCAGAAGTTCGTTTGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
* *** * *
80332 AATATTTTTAATATATAATATTTTTTGTATATGATTATTTGAAAAAATGTTGTACTAATTATTTT
66 AATATTTTTAATAAATAATAAAATTTATATATGATTATTTGAAAAAATATTGTACTAATTATTTT
80397 CAATTAATTTTTATGGTTATAAAATTGGAC
131 CAATTAATTTTTATGGTTATAAAATTGGAC
* *
80427 TAAACATTACCCGGCAATCCACATATCTTTAATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
80492 AATATTTTTAATAAATAA-AAAATTTATATATGATTATTTGAAAAAAATATTGTACTAATTATTT
66 AATATTTTTAATAAATAATAAAATTTATATATGATTATTTG-AAAAAATATTGTACTAATTATTT
* *
80556 TCAATTAATTTTTGTGGTTGTAAAATTGGAC
130 TCAATTAATTTTTATGGTTATAAAATTGGAC
* * * * *
80587 TAAACATTACTCGGCAATCCATTTATCTTTGATTAAGAAGTTCGTTCGATATTTCGTTTTAAGAT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
*
80652 ATTATTTTT
66 AATATTTTT
80661 TTATATACGT
Statistics
Matches: 213, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
159 18 0.08
160 195 0.92
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (160 bp):
TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
AATATTTTTAATAAATAATAAAATTTATATATGATTATTTGAAAAAATATTGTACTAATTATTTT
CAATTAATTTTTATGGTTATAAAATTGGAC
Found at i:80715 original size:160 final size:154
Alignment explanation
Indices: 80267--80705 Score: 495
Period size: 160 Copynumber: 2.7 Consensus size: 154
80257 TCTCAACCAG
* *
80267 TAAACATTACCCGACAATCCACTTATCTTTGATTCAGAAGTTCGTTTGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
* * *
80332 AATATTTTTAATATATAATATTTTTTGTATATGATTATTTGAAAAAATGTTGTACTAATTATTTT
66 AATATTTTTAATATAAAATATTTTTTG-ATATGAATA-AT-AAAAAA---TGTACTAATTATTTT
80397 CAATTAATTTTTATGGTTATAAAATTGGAC
125 CAATTAATTTTTATGGTTATAAAATTGGAC
* *
80427 TAAACATTACCCGGCAATCCACATATCTTTAATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
* * *
80492 AATATTTTTAATAAATAAAAAATTTATATATGATTATTTGAA-AA-AAATATTGTACTAATTATT
66 AATATTTTTAAT--ATAAAATATTT-T-T-TGA-TA--TGAATAATAAAAAATGTACTAATTATT
* *
80555 TTCAATTAATTTTTGTGGTTGTAAAATTGGAC
123 TTCAATTAATTTTTATGGTTATAAAATTGGAC
* * * * *
80587 TAAACATTACTCGGCAATCCATTTATCTTTGATTAAGAAGTTCGTTCGATATTTCGTTTTAAGAT
1 TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
*
80652 ATTATTTTTTTATATACGTCAAAATATTTTTTCGATATGGAAATAATAAAAAAT
66 A--ATATTTTTA-ATA--T-AAAATATTTTTT-GATAT-G-AATAATAAAAAAT
80706 TATATTATTT
Statistics
Matches: 237, Mismatches: 23, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
159 1 0.00
160 176 0.74
161 6 0.03
162 22 0.09
163 14 0.06
164 10 0.04
165 4 0.02
166 1 0.00
167 3 0.01
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (154 bp):
TAAACATTACCCGGCAATCCACTTATCTTTGATTCAGAAGTTCGTTCGATCTTTCGTTTTAAGGT
AATATTTTTAATATAAAATATTTTTTGATATGAATAATAAAAAATGTACTAATTATTTTCAATTA
ATTTTTATGGTTATAAAATTGGAC
Found at i:82598 original size:30 final size:31
Alignment explanation
Indices: 82556--82624 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
82546 ACAAGCTTTA
*
82556 GAAAA-TTTGGGGACC-ATTCTATAAATTTT-
1 GAAAAGTTGGGGGACCAATTC-ATAAATTTTG
**
82585 GAAAAGTTGGGGGACCAATTCATATTTTTTG
1 GAAAAGTTGGGGGACCAATTCATAAATTTTG
82616 GAAAAGTTG
1 GAAAAGTTG
82625 TAAATGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.15
30 16 0.47
31 13 0.38
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (31 bp):
GAAAAGTTGGGGGACCAATTCATAAATTTTG
Found at i:85321 original size:22 final size:22
Alignment explanation
Indices: 85290--85370 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
85280 GTAGCAGTAT
*
85290 TGTAGCAAGGGTATCGGTACAC
1 TGTAGTAAGGGTATCGGTACAC
*
85312 TGTAGTAAGGGTATCGGTGCAC
1 TGTAGTAAGGGTATCGGTACAC
*
85334 TGTAGTAAGGGTATCGATACAC
1 TGTAGTAAGGGTATCGGTACAC
85356 TGTAGT-AGGGTATCG
1 TGTAGTAAGGGTATCG
85371 ATACCCCTAC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
21 9 0.16
22 46 0.84
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTAGTAAGGGTATCGGTACAC
Found at i:85385 original size:44 final size:44
Alignment explanation
Indices: 85296--85385 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
85286 GTATTGTAGC
* * * **
85296 AAGGGTATCGGTACACTGTAGTAAGGGTATCGGTGCACTGTAGT
1 AAGGGTATCGATACACTGTAGTAAGGGTATCGATCCACTACAGT
*
85340 AAGGGTATCGATACACTGTAGT-AGGGTATCGATACCCCTACAGT
1 AAGGGTATCGATACACTGTAGTAAGGGTATCGAT-CCACTACAGT
85384 AA
1 AA
85386 TCTGGGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 10 0.26
44 29 0.74
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
AAGGGTATCGATACACTGTAGTAAGGGTATCGATCCACTACAGT
Found at i:85475 original size:22 final size:22
Alignment explanation
Indices: 85411--85476 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
85401 TAGCATTCGG
* *
85411 TACTGTTCACGGCACTATTCGT
1 TACTGTTCACGGTACTATTCAT
* * *
85433 TACTATTCACAGTATTATTCAT
1 TACTGTTCACGGTACTATTCAT
85455 TACTGTTCACGGTACTATTCAT
1 TACTGTTCACGGTACTATTCAT
85477 ATCGTATAGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (22 bp):
TACTGTTCACGGTACTATTCAT
Found at i:90561 original size:15 final size:16
Alignment explanation
Indices: 90533--90590 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 16
90523 CAAAAATAAA
90533 TAAATAAATAAAATAC
1 TAAATAAATAAAATAC
*
90549 TAAA-AAATTAAATA-
1 TAAATAAATAAAATAC
*
90563 T--TTAAATAAAATAC
1 TAAATAAATAAAATAC
90577 TAAAAATAAATAAA
1 T--AAATAAATAAA
90591 TTAAAATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 9 0.28
14 2 0.06
15 9 0.28
16 4 0.12
18 8 0.25
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAATAAATAAAATAC
Found at i:90597 original size:28 final size:28
Alignment explanation
Indices: 90524--90595 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
90514 TTATAACTGC
90524 AAAAATAAATAAA-TAAATAAAATACTA
1 AAAAATAAATAAATTAAATAAAATACTA
*
90551 AAAAATTAAAT-ATTTAAATAAAATACT-
1 AAAAA-TAAATAAATTAAATAAAATACTA
90578 AAAAATAAATAAATTAAA
1 AAAAATAAATAAATTAAA
90596 ATTTCATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
26 5 0.12
27 17 0.43
28 18 0.45
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (28 bp):
AAAAATAAATAAATTAAATAAAATACTA
Found at i:91553 original size:8 final size:8
Alignment explanation
Indices: 91538--91580 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
91528 AAGAATTTAA
91538 AATATTTT
1 AATATTTT
91546 -ATATTTTT
1 AATA-TTTT
91554 AATA-TTT
1 AATATTTT
91561 AATATTTT
1 AATATTTT
91569 AATATTTAT
1 AATATTT-T
91578 AAT
1 AAT
91581 TTTATGGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 10 0.32
8 14 0.45
9 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATATTTT
Found at i:91568 original size:15 final size:16
Alignment explanation
Indices: 91538--91576 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
91528 AAGAATTTAA
*
91538 AATATTTTATATTTTT
1 AATATTTAATATTTTT
91554 AATATTTAATA-TTTT
1 AATATTTAATATTTTT
91569 AATATTTA
1 AATATTTA
91577 TAATTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AATATTTAATATTTTT
Found at i:91582 original size:15 final size:15
Alignment explanation
Indices: 91538--91584 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
91528 AAGAATTTAA
*
91538 AATATTTTATATTTTT
1 AATA-TTTATAATTTT
91554 AATATTTA-ATATTTT
1 AATATTTATA-ATTTT
91569 AATATTTATAATTTT
1 AATATTTATAATTTT
91584 A
1 A
91585 TGGGATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 1 0.04
15 22 0.79
16 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AATATTTATAATTTT
Found at i:91629 original size:16 final size:17
Alignment explanation
Indices: 91594--91630 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
91584 ATGGGATGAA
91594 AAAAATAGTATTATTGT
1 AAAAATAGTATTATTGT
91611 AAAAATA-TAATTATT-T
1 AAAAATAGT-ATTATTGT
91627 AAAA
1 AAAA
91631 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTGT
Found at i:94389 original size:21 final size:21
Alignment explanation
Indices: 94360--94412 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
94350 ATTCTGACTA
94360 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
94381 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
* *
94402 TCACAATGCGA
1 TCGCATTGCGA
94413 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:94434 original size:20 final size:20
Alignment explanation
Indices: 94405--94515 Score: 159
Period size: 20 Copynumber: 5.5 Consensus size: 20
94395 TCCTAATTCA
94405 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
* ** *
94425 CAACGCGAATTTGAAAAATCG
1 CAATGCGAATACG-TAAATCG
94446 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
*
94466 CAATGCGATTACGTAAATCG
1 CAATGCGAATACGTAAATCG
94486 CAATGCGAATACGTAAATCG
1 CAATGCGAATACGTAAATCG
*
94506 TAATGCGAAT
1 CAATGCGAAT
94516 CTGACTATCA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 63 0.80
21 16 0.20
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
CAATGCGAATACGTAAATCG
Found at i:94530 original size:40 final size:39
Alignment explanation
Indices: 94402--94533 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 39
94392 TTTTCCTAAT
* **
94402 TCACAATGCGAATACGTAAATCGCAACGCGAATTTGAAAAA
1 TCACAATGCGAATACGTAAATCGCAATGCGAA-TTG-ACTA
*
94443 TCGCAATGCGAATACGTAAATCGCAATGCG-ATT-ACGTAAA
1 TCACAATGCGAATACGTAAATCGCAATGCGAATTGAC-T--A
* *
94483 TCGCAATGCGAATACGTAAATCGTAATGCGAATCTGACTA
1 TCACAATGCGAATACGTAAATCGCAATGCGAAT-TGACTA
94523 TCACAATGCGA
1 TCACAATGCGA
94534 TTTACATAGC
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
37 1 0.01
39 2 0.03
40 42 0.53
41 30 0.38
42 2 0.03
43 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (39 bp):
TCACAATGCGAATACGTAAATCGCAATGCGAATTGACTA
Found at i:94737 original size:22 final size:22
Alignment explanation
Indices: 94712--94773 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
94702 GGCGACATCC
94712 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
94734 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
94752 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
94774 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:95121 original size:20 final size:20
Alignment explanation
Indices: 95096--95167 Score: 108
Period size: 20 Copynumber: 3.6 Consensus size: 20
95086 CAACGAGTGA
* **
95096 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAATTTGACT
*
95116 ATCGCAATACGAATTTGACT
1 ATCGCAATGCGAATTTGACT
95136 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
95156 ATCGCAATGCGA
1 ATCGCAATGCGA
95168 TTTTTCATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATTTGACT
Found at i:95218 original size:20 final size:20
Alignment explanation
Indices: 95193--95242 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
95183 TGCGATTCTT
95193 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
95213 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
95233 GTGTTGCGAT
1 GCGTTGCGAT
95243 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:95248 original size:20 final size:20
Alignment explanation
Indices: 95210--95264 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
95200 GATAGTCAAA
* **
95210 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
95230 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
95250 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
95265 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:95272 original size:20 final size:20
Alignment explanation
Indices: 95229--95272 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
95219 CGATAGTCAT
** *
95229 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
95249 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
95269 TTTC
1 TTTC
95273 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:97156 original size:20 final size:20
Alignment explanation
Indices: 97130--97289 Score: 206
Period size: 20 Copynumber: 8.3 Consensus size: 20
97120 ATAATAGTTT
97130 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* *
97150 GCTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
97170 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
97186 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
97204 ACTATCGCAATACGAAAATG
1 ACTATCGCAATGCGAAAATG
97224 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
97244 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
**
97264 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
97284 ACTATC
1 ACTATC
97290 ACAACGAAAG
Statistics
Matches: 125, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
14 7 0.06
16 4 0.03
17 4 0.03
18 4 0.03
20 106 0.85
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:97199 original size:34 final size:36
Alignment explanation
Indices: 97130--97314 Score: 171
Period size: 40 Copynumber: 4.9 Consensus size: 36
97120 ATAATAGTTT
* *
97130 ACTATCGCAATGCGAAAATGGCTATCGCAACGCGAAAATG
1 ACTATCGCAA--CG-AAATGAC-ATCGCAATGCGAAAATG
*
97170 ACTATCGCAACGAGA-GA-ATCGCAATGCGAAAATG
1 ACTATCGCAACGAAATGACATCGCAATGCGAAAATG
97204 ACTATCGCAATACGAAAATGACTATCGCAATGCGAAAATG
1 ACTATCGC-A-ACG-AAATGAC-ATCGCAATGCGAAAATG
* **
97244 ACTATCGCAATGCGAATTTGACTATCGCAATGCGAATTTG
1 ACTATCGCAA--CGAA-ATGAC-ATCGCAATGCGAAAATG
*
97284 ACTATCACAACGAAA-GA-ATCGCAATGCGAAA
1 ACTATCGCAACGAAATGACATCGCAATGCGAAA
97315 TGAAAATCGC
Statistics
Matches: 126, Mismatches: 10, Indels: 24
0.79 0.06 0.15
Matches are distributed among these distances:
34 37 0.29
35 1 0.01
36 6 0.05
37 4 0.03
38 9 0.07
39 3 0.02
40 66 0.52
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.19
Consensus pattern (36 bp):
ACTATCGCAACGAAATGACATCGCAATGCGAAAATG
Found at i:97220 original size:54 final size:54
Alignment explanation
Indices: 97133--97331 Score: 229
Period size: 54 Copynumber: 3.6 Consensus size: 54
97123 ATAGTTTACT
* * *
97133 ATCGCAATGCGAAAATGGCTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
*
97187 ATCGCAATGCGAAAATGACTATCGCAATACGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
** ** *
97245 CTATCGCAATGCGAATTTGACTATCGCAATGCGAATTTGACTATCACAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
97301 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
97332 TTCTTTCGTT
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
53 15 0.12
54 55 0.44
56 4 0.03
57 5 0.04
58 4 0.03
60 41 0.33
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:97365 original size:20 final size:20
Alignment explanation
Indices: 97340--97386 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
97330 GATTCTTTCG
97340 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
97360 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
97380 TTGCGAT
1 TTGCGAT
97387 TTTGTTGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:97398 original size:34 final size:33
Alignment explanation
Indices: 97358--97453 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
97348 GTCAAATTCG
* * *
97358 CATTGCGATAGTCATTTTCGCGTTGCGATTTTGT
1 CATTGCGATAGTCA-TTTCGCATTGCGATTCTCT
** **
97392 TGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CATTGCGATAGTCATTTCGCATTGCGATTCTCT
*
97425 CATTGCGATAGTCAAATTCGCATTGCGAT
1 CATTGCGATAGTC-ATTTCGCATTGCGAT
97454 AGTCATTTTC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 25 0.51
34 24 0.49
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.42
Consensus pattern (33 bp):
CATTGCGATAGTCATTTCGCATTGCGATTCTCT
Found at i:97399 original size:87 final size:87
Alignment explanation
Indices: 97308--97476 Score: 266
Period size: 87 Copynumber: 1.9 Consensus size: 87
97298 AGAATCGCAA
* *
97308 TGCGAAATGAAAATCGCATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCAT
97373 TTTCGCGTTGCGATTTTGTTGT
66 TTTCGCGTTGCGATTTTGTTGT
** ** **
97395 TGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCAT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCAT
97460 TTTCGCGTTGCGATTTT
66 TTTCGCGTTGCGATTTT
97477 AAGTTTCAGA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (87 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCATTGCGATAGTCAAATTCGCATTGCGATAGTCAT
TTTCGCGTTGCGATTTTGTTGT
Found at i:97450 original size:20 final size:20
Alignment explanation
Indices: 97425--97473 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
97415 GCGATTCTCT
97425 CATTGCGATAGTCAAATTCG
1 CATTGCGATAGTCAAATTCG
**
97445 CATTGCGATAGTCATTTTCG
1 CATTGCGATAGTCAAATTCG
*
97465 CGTTGCGAT
1 CATTGCGAT
97474 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (20 bp):
CATTGCGATAGTCAAATTCG
Found at i:99438 original size:14 final size:14
Alignment explanation
Indices: 99419--99454 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
99409 ATTGTTTAAT
99419 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
99433 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
99447 TGATTTGT
1 TGATTTGT
99455 TTAATTGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:99577 original size:20 final size:20
Alignment explanation
Indices: 99546--99603 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
99536 TGTTGAATGC
99546 AAAATAGACTATCGCAACGCG
1 AAAAT-GACTATCGCAACGCG
*
99567 AAAATGACTATCGCAATGCG
1 AAAATGACTATCGCAACGCG
**
99587 -AAATGAAAATCGCAACG
1 AAAATGACTATCGCAACG
99604 ATTTCGCGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 14 0.42
20 14 0.42
21 5 0.15
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATGACTATCGCAACGCG
Found at i:99648 original size:34 final size:34
Alignment explanation
Indices: 99610--99705 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
99600 AACGATTTCG
99610 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
99644 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
99677 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
99706 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:99702 original size:20 final size:20
Alignment explanation
Indices: 99677--99770 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
99667 GCGATTCTCT
99677 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
99697 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
99717 CATTGTGATAGTTATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
99737 TGTTGCGACAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
99757 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
99771 AATGAATGTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:102211 original size:24 final size:24
Alignment explanation
Indices: 102160--102211 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
102150 ATCTGAGTAT
** *
102160 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
102184 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
102208 TGAC
1 TGAC
102212 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:103101 original size:20 final size:20
Alignment explanation
Indices: 103059--103205 Score: 161
Period size: 20 Copynumber: 7.3 Consensus size: 20
103049 CAGAATCTCG
* *
103059 TTGCGATTTACAG-ATTTGTA
1 TTGCGATTTAC-GTATTCGCA
*
103079 TTGCGATTTACGTATTCTCA
1 TTGCGATTTACGTATTCGCA
* *
103099 TTGCGATTTACGTAATCACA
1 TTGCGATTTACGTATTCGCA
*
103119 TTGTGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
**
103139 TTGCGATTTACGTAACCGCA
1 TTGCGATTTACGTATTCGCA
* ** *
103159 TTGCGATTTTCCAAATTCGCG
1 TTGCGA-TTTACGTATTCGCA
103180 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
103200 TTGCGA
1 TTGCGA
103206 ATTAGGAAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
19 1 0.01
20 89 0.86
21 14 0.13
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:103226 original size:21 final size:21
Alignment explanation
Indices: 103202--103247 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
103192 TATTCGCATT
103202 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTAGG-AAATCGCAAC
*
103223 GCGAATTTAGGAAATCGCAAT
1 GCGAATTTAGGAAATCGCAAC
103244 GCGA
1 GCGA
103248 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGGAAATCGCAAC
Found at i:105258 original size:18 final size:19
Alignment explanation
Indices: 105211--105267 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 19
105201 ATGTTTAATG
*
105211 AAAAAGATACCAATTGTTA
1 AAAAAGATATCAATTGTTA
105230 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
105250 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
105268 GGAAAATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
20 5 0.14
21 12 0.34
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.30
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:107306 original size:33 final size:34
Alignment explanation
Indices: 107269--107339 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
107259 CATTTACAAC
*
107269 TCCCTAG-TTTTTCATGGGATAAACTAGAACATT
1 TCCCTAGCTTTTACATGGGATAAACTAGAACATT
* * *
107302 TCCCTAGCTTTTACATGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACATGGGATAAACTAGAACATT
107336 TCCC
1 TCCC
107340 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 7 0.21
34 26 0.79
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.34
Consensus pattern (34 bp):
TCCCTAGCTTTTACATGGGATAAACTAGAACATT
Found at i:107730 original size:19 final size:21
Alignment explanation
Indices: 107695--107734 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
107685 GGATGAAATT
107695 ACTGTAGCAATGTATCGATAC
1 ACTGTAGCAATGTATCGATAC
107716 ACTGTAGC-A-GTATCGATAC
1 ACTGTAGCAATGTATCGATAC
107735 CCATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
ACTGTAGCAATGTATCGATAC
Found at i:107830 original size:19 final size:20
Alignment explanation
Indices: 107761--107835 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
107751 GTTTTTTAGC
* * * *
107761 ATCATTACTGTTCACACAAT
1 ATCAATACTATTCATACAGT
* *
107781 ATCGATACTATTTATACAGT
1 ATCAATACTATTCATACAGT
* *
107801 ATCAGTACTATTCATATAGT
1 ATCAATACTATTCATACAGT
107821 A-CAATACTATTCATA
1 ATCAATACTATTCATA
107836 AAATATTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
19 13 0.30
20 31 0.70
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (20 bp):
ATCAATACTATTCATACAGT
Found at i:109839 original size:21 final size:21
Alignment explanation
Indices: 109815--109884 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
109805 ACCACAGCTA
109815 ACATAATTG-CACCGAAGTG-CC
1 ACATAATTGTC-CCGAAG-GACC
*
109836 ACATATTTGTCCCGAAGGACC
1 ACATAATTGTCCCGAAGGACC
* *
109857 ACATAGTTTTGTCCCGAAGAACC
1 ACATA--ATTGTCCCGAAGGACC
109880 ACATA
1 ACATA
109885 GAACCCTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 21 0.49
22 1 0.02
23 20 0.47
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (21 bp):
ACATAATTGTCCCGAAGGACC
Found at i:109871 original size:23 final size:22
Alignment explanation
Indices: 109826--109885 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 22
109816 CATAATTGCA
109826 CCGAAGTG-CCACATA-TTTGTC
1 CCGAAG-GACCACATAGTTTGTC
109847 CCGAAGGACCACATAGTTTTGTC
1 CCGAAGGACCACATAG-TTTGTC
*
109870 CCGAAGAACCACATAG
1 CCGAAGGACCACATAG
109886 AACCCTCGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 1 0.03
21 13 0.37
23 21 0.60
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (22 bp):
CCGAAGGACCACATAGTTTGTC
Done.