Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005188.1 Hibiscus syriacus cultivar Beakdansim tig00011717_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: 95952
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:6240 original size:21 final size:22
Alignment explanation
Indices: 6212--6275 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
6202 CATTTTGGTG
6212 CAGAGGGAATCGAT-CCCCCCA
1 CAGAGGGAATCGATACCCCCCA
* *
6233 -ATGAGGGAACCGATTCCCCCCCA
1 CA-GAGGGAATCGA-TACCCCCCA
6256 CAG-GGGAATCGATACCCCCC
1 CAGAGGGAATCGATACCCCCC
6276 TGGGGTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.03
21 17 0.47
22 9 0.25
23 8 0.22
24 1 0.03
ACGTcount: A:0.27, C:0.39, G:0.23, T:0.11
Consensus pattern (22 bp):
CAGAGGGAATCGATACCCCCCA
Found at i:9753 original size:57 final size:60
Alignment explanation
Indices: 9661--9802 Score: 150
Period size: 58 Copynumber: 2.5 Consensus size: 60
9651 CAACAATTTT
* ***
9661 CTTACCATTTTAGCACA-TAAAATGCCCTATCTGG-AATCCATATTTTCAATATGATTCC
1 CTTACCATTTTAGCACACTAAAATGCCCTATATGGAAATCCATACACTCAATATGATTCC
* * * * *
9719 CTTACCA-TTTAGCACACT-CAGTGCTCTATATGGAAATCCATACACTCAGTATGATTTC
1 CTTACCATTTTAGCACACTAAAATGCCCTATATGGAAATCCATACACTCAATATGATTCC
* *
9777 CTTATCATTTTAGCACAC-AAAGTGCC
1 CTTACCATTTTAGCACACTAAAATGCC
9803 ATTTGGTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
57 20 0.29
58 33 0.49
59 15 0.22
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (60 bp):
CTTACCATTTTAGCACACTAAAATGCCCTATATGGAAATCCATACACTCAATATGATTCC
Found at i:16215 original size:17 final size:18
Alignment explanation
Indices: 16186--16219 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16176 TATTCTGATA
16186 TTTAATCTCCAATGAATC
1 TTTAATCTCCAATGAATC
16204 TTTAAT-TCCAATGAAT
1 TTTAATCTCCAATGAAT
16220 ATACTACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (18 bp):
TTTAATCTCCAATGAATC
Found at i:16485 original size:59 final size:58
Alignment explanation
Indices: 16381--16492 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 58
16371 CTTCCCCTTT
*
16381 CATTTTAGCACACGAAGTGCCCTATTCAAAAAATCATACATTTAGTATGATTTTGTTAC
1 CATTTTAGCACACGAAATGCCCTATT-AAAAAATCATACATTTAGTATGATTTTGTTAC
* *
16440 CATTTTAGCACATGAAATGCCCTATGT-GAAAATCTATACCA-TTAGTATGATTT
1 CATTTTAGCACACGAAATGCCCTAT-TAAAAAATC-ATA-CATTTAGTATGATTT
16493 CCTTATCTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 6 0.13
59 38 0.81
60 3 0.06
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (58 bp):
CATTTTAGCACACGAAATGCCCTATTAAAAAATCATACATTTAGTATGATTTTGTTAC
Found at i:16609 original size:58 final size:59
Alignment explanation
Indices: 16525--17149 Score: 618
Period size: 58 Copynumber: 10.8 Consensus size: 59
16515 GTGCTTTATC
* * * *
16525 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCGCATAAAATGCCCTATC
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
** * * * **
16584 TGG-AATCCATATTTTCAATATGATTCCCTTACCA-TTTAGAACACT-CATTGCTTTATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATA
* * *
16641 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATACCCTATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
** * * *
16700 TGG-AATCCATATTTTCAATATGATTCCCTTACCA-TTTAGCACACT-CAGTGCTCTATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATA
* *
16757 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCACATAAAATG-CC-ATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
** ** * * *
16814 TCTATAATCCATATTTTCAATATGATTCCCTTACCA-TTTAGCACACT-CAGTGCTCTATA
1 TGGA-AATCCATATACTCAATATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATA
* * * *
16873 TGGAAATCCATAAACTCAGTATGATTCCCTTACCATTTTAGCACATAAAAAGCCCTATC
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
** * * * *
16932 TGG-AATCCATATTTTCAATATGATTCGCTTACCA-TTTAGCACACT-CAGTGCTCTATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATA
* * * *
16989 TGGAAATCCATACACTCAGTATGATTCCCTTACCATTTTAGCATATAAAATGCCCTATC
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
** * * *
17048 TGG-AATCCATATTTTCAATATGATTCCCTTACCA-TTTAGCACACT-CAGTGCTCTATA
1 TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATA
* * *
17105 TGGAAATCCATACACT-AAGTATGATTTCCTTATCATTTTAGCACA
1 TGGAAATCCATATACTCAA-TATGATTCCCTTACCATTTTAGCACA
17150 CAAAGTGTCA
Statistics
Matches: 454, Mismatches: 90, Indels: 44
0.77 0.15 0.07
Matches are distributed among these distances:
57 94 0.21
58 275 0.61
59 85 0.19
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (59 bp):
TGGAAATCCATATACTCAATATGATTCCCTTACCATTTTAGCACATAAAATGCCCTATA
Found at i:16665 original size:116 final size:116
Alignment explanation
Indices: 16436--17149 Score: 1124
Period size: 116 Copynumber: 6.1 Consensus size: 116
16426 TATGATTTTG
* * * * ** * * *
16436 TTACCATTTTAGCACATGAAATGCCCTATGTGAAAATCTATACCATT-AGTATGATTTCCTTATC
1 TTACCATTTTAGCACATAAAATGCCCTATCTG-GAATCCATA-TTTTCAATATGATTCCCTTACC
* * * * *
16500 TTTGTAGCACCCTTAGTGCTTTATCTGGAAATCCATACACTCAGTATGATTCCC
64 ATT-TAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
*
16554 TTACCATTTTAGCGCATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
* * *
16619 TTAGAACACTCATTGCTTTATATGGAAATCCATACACTCAGTATGATTCCC
66 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
* *
16670 TTACCATTTTAGCACATAAAATACCCTATATGGAATCCATATTTTCAATATGATTCCCTTACCAT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
16735 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
66 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
* **
16786 TTACCATTTTAGCACATAAAATGCCATATCTATAATCCATATTTTCAATATGATTCCCTTACCAT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
*
16851 TTAGCACACTCAGTGCTCTATATGGAAATCCATAAACTCAGTATGATTCCC
66 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
* *
16902 TTACCATTTTAGCACATAAAAAGCCCTATCTGGAATCCATATTTTCAATATGATTCGCTTACCAT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
16967 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
66 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
*
17018 TTACCATTTTAGCATATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
1 TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
* *
17083 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTAAGTATGATTTCC
66 TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
*
17134 TTATCATTTTAGCACA
1 TTACCATTTTAGCACA
17150 CAAAGTGTCA
Statistics
Matches: 554, Mismatches: 41, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
116 502 0.91
117 23 0.04
118 29 0.05
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (116 bp):
TTACCATTTTAGCACATAAAATGCCCTATCTGGAATCCATATTTTCAATATGATTCCCTTACCAT
TTAGCACACTCAGTGCTCTATATGGAAATCCATACACTCAGTATGATTCCC
Found at i:22531 original size:29 final size:29
Alignment explanation
Indices: 22454--22533 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
22444 TTTTTTTGGG
*
22454 AACTTGAATTTTTAAAATTCTAAGGGACA
1 AACTTGAATTTTTAAAATTTTAAGGGACA
22483 AACTTGAATTTTTAAAATTTTAAGGGACA
1 AACTTGAATTTTTAAAATTTTAAGGGACA
*
22512 AACTTGAATTTATAAAATTTTA
1 AACTTGAATTTTTAAAATTTTA
22534 TGGGGCGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.39
Consensus pattern (29 bp):
AACTTGAATTTTTAAAATTTTAAGGGACA
Found at i:24269 original size:12 final size:12
Alignment explanation
Indices: 24252--24311 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
24242 CATAAATCAA
24252 AACAGAATTCAG
1 AACAGAATTCAG
*
24264 AACAG-ATATCAT
1 AACAGAAT-TCAG
*
24276 AACAGAATCCAG
1 AACAGAATTCAG
* *
24288 ATCAGAAATCAG
1 AACAGAATTCAG
*
24300 AACAAAATTCAG
1 AACAGAATTCAG
24312 GTCATGTATC
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
11 2 0.05
12 33 0.89
13 2 0.05
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:24279 original size:24 final size:24
Alignment explanation
Indices: 24245--24311 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
24235 GAGATATCAT
24245 AAATCAAAACAGAATTCAGAACAG
1 AAATCAAAACAGAATTCAGAACAG
* * * *
24269 ATATCATAACAGAATCCAGATCAG
1 AAATCAAAACAGAATTCAGAACAG
* *
24293 AAATCAGAACAAAATTCAG
1 AAATCAAAACAGAATTCAG
24312 GTCATGTATC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.54, C:0.18, G:0.12, T:0.16
Consensus pattern (24 bp):
AAATCAAAACAGAATTCAGAACAG
Found at i:24346 original size:24 final size:24
Alignment explanation
Indices: 24289--24348 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
24279 AGAATCCAGA
*
24289 TCAGAAATCAGAACAAAATTCAGG
1 TCAGAAATCAGAACAAAATTCAAG
* * *
24313 TCATG-TATCAGAGCAGAATTCAAG
1 TCA-GAAATCAGAACAAAATTCAAG
24337 TCAGAAATCAGA
1 TCAGAAATCAGA
24349 TAAAATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 1 0.03
24 27 0.93
25 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.18, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAACAAAATTCAAG
Found at i:29611 original size:12 final size:12
Alignment explanation
Indices: 29586--29678 Score: 64
Period size: 12 Copynumber: 7.8 Consensus size: 12
29576 ACGGAGATAT
* *
29586 CAGAAATCAAAA
1 CAGAATTCAGAA
29598 CAGAATTCAGAA
1 CAGAATTCAGAA
*
29610 CAG-ATATCATAA
1 CAGAAT-TCAGAA
* *
29622 CAGAATCCAGAT
1 CAGAATTCAGAA
* *
29634 CAAAAATCAGAA
1 CAGAATTCAGAA
**
29646 CAGAATTCAGGT
1 CAGAATTCAGAA
*
29658 CATGTA-TCAGAA
1 CA-GAATTCAGAA
29670 CAGAATTCA
1 CAGAATTCA
29679 AGTCAGAAAT
Statistics
Matches: 59, Mismatches: 18, Indels: 8
0.69 0.21 0.09
Matches are distributed among these distances:
11 4 0.07
12 51 0.86
13 4 0.07
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:29689 original size:48 final size:48
Alignment explanation
Indices: 29584--29690 Score: 128
Period size: 48 Copynumber: 2.2 Consensus size: 48
29574 AAACGGAGAT
* *
29584 ATCAGAAATCAAAACAGAATTCAGAACAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
* * **
29632 ATCAAAAATCAGAACAGAATTCAGGTCATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAA-TCAAG
29681 -TCAGAAATCA
1 ATCAGAAATCA
29691 TATAAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 45 0.90
49 5 0.10
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCAAG
Found at i:29690 original size:24 final size:25
Alignment explanation
Indices: 29584--29690 Score: 98
Period size: 24 Copynumber: 4.4 Consensus size: 25
29574 AAACGGAGAT
*
29584 ATCAGAAATCAAAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* * * *
29608 AACAGATATCATAACAGAA-TCCAG
1 ATCAGAAATCAGAACAGAATTCAAG
*
29632 ATCAAAAATCAGAACAGAATTC-AG
1 ATCAGAAATCAGAACAGAATTCAAG
* *
29656 GTCATG-TATCAGAACAGAATTCAAG
1 ATCA-GAAATCAGAACAGAATTCAAG
29681 -TCAGAAATCA
1 ATCAGAAATCA
29691 TATAAAATAT
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
23 3 0.04
24 60 0.90
25 4 0.06
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.19
Consensus pattern (25 bp):
ATCAGAAATCAGAACAGAATTCAAG
Found at i:42534 original size:20 final size:19
Alignment explanation
Indices: 42509--42547 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
42499 AAACATTCTG
42509 TTCTGGCCAGTTTCAAAACT
1 TTCTGG-CAGTTTCAAAACT
*
42529 TTCTGGGAGTTTCAAAACT
1 TTCTGGCAGTTTCAAAACT
42548 ATGACCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (19 bp):
TTCTGGCAGTTTCAAAACT
Found at i:47236 original size:16 final size:16
Alignment explanation
Indices: 47212--47256 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
47202 TATCTAATTT
47212 AACCTGAACCAAAAAC
1 AACCTGAACCAAAAAC
* *
47228 AATCTGAACCGAAAAC
1 AACCTGAACCAAAAAC
*
47244 AACCCGAACCAAA
1 AACCTGAACCAAA
47257 TTTAATCTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.31, G:0.09, T:0.07
Consensus pattern (16 bp):
AACCTGAACCAAAAAC
Found at i:47291 original size:32 final size:32
Alignment explanation
Indices: 47228--47327 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
47218 AACCAAAAAC
* * *
47228 AATCTGAACCGAAAACAACCCGAACCAAATTT
1 AATCTGAACCGAAAATAACCCAAACCGAATTT
* *
47260 AATCTAAACCGAAAATAACCCAAACTGAATTT
1 AATCTGAACCGAAAATAACCCAAACCGAATTT
* *
47292 AA-CTCGATCC-AAAAGTAACCCAAACCGAAATT
1 AATCT-GAACCGAAAA-TAACCCAAACCGAATTT
47324 AATC
1 AATC
47328 CGACCTGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 6 0.11
32 49 0.88
33 1 0.02
ACGTcount: A:0.48, C:0.26, G:0.08, T:0.18
Consensus pattern (32 bp):
AATCTGAACCGAAAATAACCCAAACCGAATTT
Found at i:47904 original size:21 final size:20
Alignment explanation
Indices: 47880--47924 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
47870 GATACTCAAT
47880 TTAGATA-AATTGATTAATAAA
1 TTAGATATAA-TGATTAA-AAA
47901 TTAGATATTAATGATTAAAAA
1 TTAGATA-TAATGATTAAAAA
47922 TTA
1 TTA
47925 AACAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 13 0.59
22 7 0.32
23 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TTAGATATAATGATTAAAAA
Found at i:48716 original size:14 final size:15
Alignment explanation
Indices: 48699--48730 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48689 ATAATAAATA
48699 ATTAT-AAATATATT
1 ATTATAAAATATATT
48713 ATTATAAAATATATT
1 ATTATAAAATATATT
48728 ATT
1 ATT
48731 TTAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAAAATATATT
Found at i:49326 original size:3 final size:3
Alignment explanation
Indices: 49320--49348 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49310 CTCCCGTTGA
49320 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
49349 CCTCTCCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:49331 original size:55 final size:52
Alignment explanation
Indices: 49216--49328 Score: 217
Period size: 52 Copynumber: 2.2 Consensus size: 52
49206 CTCCGTTAAC
*
49216 CTTCTTTTTTTGCTGACGAGGCAGTTCTTTCTTCTTCTTCAACTCCCGTTGA
1 CTTCTTCTTTTGCTGACGAGGCAGTTCTTTCTTCTTCTTCAACTCCCGTTGA
49268 CTTCTTCTTTTGCTGACGAGGCAGTTCTTTCTTCTTCTTCAACTCCCGTTGA
1 CTTCTTCTTTTGCTGACGAGGCAGTTCTTTCTTCTTCTTCAACTCCCGTTGA
49320 CTTCTTCTT
1 CTTCTTCTT
49329 CTTCTTCTTC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.11, C:0.28, G:0.14, T:0.47
Consensus pattern (52 bp):
CTTCTTCTTTTGCTGACGAGGCAGTTCTTTCTTCTTCTTCAACTCCCGTTGA
Found at i:50113 original size:16 final size:16
Alignment explanation
Indices: 50092--50123 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50082 ATTTTTTGAA
*
50092 AAATGACTTACGGTCT
1 AAATGACTTACAGTCT
50108 AAATGACTTACAGTCT
1 AAATGACTTACAGTCT
50124 GATTTTCCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (16 bp):
AAATGACTTACAGTCT
Found at i:50459 original size:27 final size:26
Alignment explanation
Indices: 50380--50483 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 26
50370 ATAAATTATT
* *
50380 TATTATTTAATAATTTCATAGAAATAA
1 TATTATTTAAT-ATTTAATATAAATAA
* *
50407 TATTATTAAAT-TATTAATAATGAATAA
1 TATTATTTAATAT-TTAAT-ATAAATAA
50434 TATTATTTATATATTTAATATTAATATAA
1 TATTATTTA-ATATTTAATA-TAA-ATAA
*
50463 TAATATTTTAATATTTTAATA
1 TATTA-TTTAATA-TTTAATA
50484 AAAACATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
25 1 0.02
26 4 0.06
27 25 0.40
28 9 0.15
29 12 0.19
30 11 0.18
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (26 bp):
TATTATTTAATATTTAATATAAATAA
Found at i:54290 original size:3 final size:3
Alignment explanation
Indices: 54284--54701 Score: 424
Period size: 3 Copynumber: 139.3 Consensus size: 3
54274 CACCACCACG
* * * * * * * * *
54284 ATT ATT ATT ATG ATT ATT ATG ATG ATC ATC ATC ATC ATT ATC ATG ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
54332 ATT ATT ATT ATT ATG ATT ATT ATG ATC ATC ATC ATC ATT ATT ATC ATG
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
54380 ATT ATT ATT ATG ATT ATT ATT ATT ATG ATC ATC ATC ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
54428 ATT ATG ATT -TT GATT ATT ATG ATC ATC ATC ATT ATT ATC ATG ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
54473 ATT ATT ATG ATT ATT ATT ATT ATG ATC ATC ATC ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
54521 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
54569 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATC ATT ATC ATT ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
54617 ATT ATT ATT ATT ATC ATT ATT ATT ATC ATT ATT ATT ATC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
54665 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
54702 GAGAAAATCG
Statistics
Matches: 359, Mismatches: 54, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
2 2 0.01
3 355 0.99
4 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (3 bp):
ATT
Found at i:54357 original size:48 final size:48
Alignment explanation
Indices: 54284--54681 Score: 481
Period size: 48 Copynumber: 8.4 Consensus size: 48
54274 CACCACCACG
* * * *
54284 ATTATTATTATGATTATTATGATGATCATCATCATCATTATCATGATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
* *
54332 ATTATTATTATTATGATTATTATGATCATCATCATCATTATTATCATGATT
1 ATTATTATTATTATTATTATTATG---ATCATCATCATTATTATCATTATT
*
54383 ATTATTATGATTATTATTATTATGATCATCATCATTATTATC---ATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
* * *
54428 ATTATGA-T-TT-TGATTATTATGATCATCATCATTATTATCATGATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
*
54473 ATTATTATGATTATTATTATTATGATCATCATCATTATTATCATTATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
* * *
54521 ATTATTATTATTATTATTATTAT--T-ATTATTATTATTATTATTATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
* * * * * *
54566 ATTATTATTATTATTATTATCATTATTATTATTATCATTATCATTATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
* * * * *
54614 TTTATTATTATTATTATCATTATTATTATCATTATTATTATCATTATT
1 ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
54662 ATTATTATTATTATTATTAT
1 ATTATTATTATTATTATTAT
54682 CATTATTATT
Statistics
Matches: 311, Mismatches: 27, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
42 28 0.09
43 2 0.01
45 58 0.19
46 1 0.00
47 3 0.01
48 174 0.56
51 45 0.14
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (48 bp):
ATTATTATTATTATTATTATTATGATCATCATCATTATTATCATTATT
Found at i:54931 original size:21 final size:21
Alignment explanation
Indices: 54907--54961 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
54897 CGATTTTCCC
*
54907 AATTCGCAATGCGAATAAGTA
1 AATTCGCAATGCGAATAAGGA
* **
54928 AATT-GCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGGA
*
54948 AAATCGCAATGCGA
1 AATTCGCAATGCGA
54962 TACTGACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (21 bp):
AATTCGCAATGCGAATAAGGA
Found at i:54975 original size:20 final size:20
Alignment explanation
Indices: 54950--55063 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
54940 AATTGGGAAA
*
54950 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
54970 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
54990 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
55011 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
55031 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
55051 TTCGCAACGCGAT
1 ATCGCAACGCGAT
55064 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:55012 original size:61 final size:61
Alignment explanation
Indices: 54947--55063 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
54937 GCGAATTGGG
* * * * *
54947 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
55008 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
55064 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:55659 original size:19 final size:19
Alignment explanation
Indices: 55637--55767 Score: 146
Period size: 19 Copynumber: 7.1 Consensus size: 19
55627 GAAACCAAAA
*
55637 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
55656 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
55675 TCGCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
55694 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
55708 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
55727 TCGCGTTGCGATTCTCTTT
1 TCGCGTTGCGATTTTCATT
*
55746 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
55766 TC
1 TC
55768 AACCAAAAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.11
16 2 0.02
17 3 0.03
19 63 0.67
20 16 0.17
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:55726 original size:52 final size:53
Alignment explanation
Indices: 55659--55759 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
55649 TTTCATTTCG
** *
55659 CGTTGCGATTTTCATTTCGCGTTGCAATTTTCATT-TCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTCATTATCGCGTTGCGATTCTCT
* * *
55711 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCTTTATCTCGTTGCGATT
1 CGTTGCGATAGTCATTTCGCGTTGCAATTCTCATTATCGCGTTGCGATT
55760 TTCATTTCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 30 0.71
53 12 0.29
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.45
Consensus pattern (53 bp):
CGTTGCGATAGTCATTTCGCGTTGCAATTCTCATTATCGCGTTGCGATTCTCT
Found at i:57318 original size:63 final size:63
Alignment explanation
Indices: 57219--57349 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
57209 GTTACATGAT
*
57219 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
*
57282 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACGCGATAACGATGGTGTATGGCGTGTG
1 GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
57345 GAGGT
1 GAGGT
57350 GTCTACTTTA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCATGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:57998 original size:42 final size:42
Alignment explanation
Indices: 57922--58124 Score: 185
Period size: 42 Copynumber: 4.8 Consensus size: 42
57912 GACTCGCCTG
* * * * * * *
57922 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
57964 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * * * * * * * *
58006 TCATCCCTCAAGAGTCCACTCCTATCATTGAAAAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
58048 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
58090 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
58125 CCCGATTCAC
Statistics
Matches: 128, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
41 4 0.03
42 122 0.95
43 2 0.02
ACGTcount: A:0.23, C:0.37, G:0.17, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:58082 original size:21 final size:21
Alignment explanation
Indices: 58058--58124 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
58048 TCATTCCTCG
58058 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
58079 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
58100 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
58121 AGAG
1 AGAG
58125 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:58103 original size:84 final size:84
Alignment explanation
Indices: 57919--58094 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
57909 CCCGACTCGC
* *
57919 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCT
57984 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
58003 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCT
58068 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
58087 CTGTCATC
1 CTGTCATC
58095 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAAAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:59499 original size:14 final size:14
Alignment explanation
Indices: 59480--59515 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
59470 ATTGTTTAAT
59480 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
59494 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
59508 TGATTTGT
1 TGATTTGT
59516 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:59659 original size:14 final size:14
Alignment explanation
Indices: 59640--59694 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
59630 GCGAAATGAA
59640 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
59654 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
59673 AATCGCAACGAGAG
1 AATCGCAACGAGAG
59687 AATCGCAA
1 AATCGCAA
59695 TGCGAAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:59667 original size:33 final size:33
Alignment explanation
Indices: 59622--59711 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
59612 AAAAAGTACT
59622 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
59655 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
59688 ATCGCAATGCGAAATTAAATTCGC
1 ATCGCAATGCGAAATGAAAATCGC
59712 GTTGCGATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:59681 original size:19 final size:19
Alignment explanation
Indices: 59622--59682 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
59612 AAAAAGTACT
*
59622 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
59641 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
59655 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
59674 ATCGCAACG
1 ATCGCAACG
59683 AGAGAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:59729 original size:19 final size:19
Alignment explanation
Indices: 59707--59824 Score: 67
Period size: 19 Copynumber: 6.7 Consensus size: 19
59697 CGAAATTAAA
59707 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
59726 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
59741 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
59759 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
59773 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
59792 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
59811 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
59825 AGACATTAAG
Statistics
Matches: 71, Mismatches: 17, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
14 19 0.27
16 3 0.04
17 3 0.04
19 36 0.51
20 10 0.14
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:59753 original size:33 final size:31
Alignment explanation
Indices: 59710--59804 Score: 136
Period size: 33 Copynumber: 2.9 Consensus size: 31
59700 AATTAAATTC
*
59710 GCGTTGCGATTTTCATTTCGCATTGCGATTCCC
1 GCGTTGCGATTTTCATTTCGCATTGCGATT--A
*
59743 TCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
59776 GCGTTGCGATTTTCATTTCGCATTGCGAT
1 GCGTTGCGATTTTCATTTCGCATTGCGAT
59805 AGTAATTTCC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
31 2 0.04
33 52 0.91
35 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (31 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTA
Found at i:61384 original size:24 final size:24
Alignment explanation
Indices: 61357--61403 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
61347 CAAAATCTGA
*
61357 GTATTGACCAATATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
61381 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
61404 AATACTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:61412 original size:24 final size:24
Alignment explanation
Indices: 61361--61412 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
61351 ATCTGAGTAT
* ** *
61361 TGACCAATATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
61385 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
61409 TGAC
1 TGAC
61413 TAGTATTCAC
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:0.19, G:0.17, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:62169 original size:20 final size:20
Alignment explanation
Indices: 62144--62194 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
62134 TGTATTATCT
62144 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
62164 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
62184 TGTTGCGAAAG
1 CGTTGCGAAAG
62195 GCAATCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:62448 original size:22 final size:20
Alignment explanation
Indices: 62407--62498 Score: 141
Period size: 20 Copynumber: 4.5 Consensus size: 20
62397 ATTCATTTGA
62407 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
62427 CTATCGCAACGCGAAAAAATGG
1 CTATCGCAACGCG--AAAATGG
*
62449 CTATCGCAATGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
62469 CTATCGCAATGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
62488 CTATCGCAACG
1 CTATCGCAACG
62499 ACAAAATCGC
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
19 16 0.24
20 33 0.49
22 19 0.28
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:62466 original size:42 final size:39
Alignment explanation
Indices: 62407--62498 Score: 139
Period size: 42 Copynumber: 2.3 Consensus size: 39
62397 ATTCATTTGA
62407 CTATCGCAACGCGAAAATGGCTATCGCAACGCGAAAAAATGG
1 CTATCGCAACGCGAAAATGGCTATCGCAACGCG---AAATGG
* *
62449 CTATCGCAATGCGAAAATGGCTATCGCAATGCGAAATGG
1 CTATCGCAACGCGAAAATGGCTATCGCAACGCGAAATGG
62488 CTATCGCAACG
1 CTATCGCAACG
62499 ACAAAATCGC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 16 0.34
42 31 0.66
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (39 bp):
CTATCGCAACGCGAAAATGGCTATCGCAACGCGAAATGG
Found at i:62565 original size:19 final size:19
Alignment explanation
Indices: 62524--62607 Score: 133
Period size: 19 Copynumber: 4.7 Consensus size: 19
62514 GAAATGAAAA
62524 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
62540 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
62557 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
62576 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
62595 TCGCATTGCGATT
1 TCGCATTGCGATT
62608 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.17
16 3 0.05
17 3 0.05
19 46 0.73
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:62594 original size:38 final size:33
Alignment explanation
Indices: 62524--62620 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 33
62514 GAAATGAAAA
62524 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
62557 TCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTC---TCG--TTGCGATTTTCATT
*
62595 TCGCATTGCGATTCTCTCGTTGCGAT
1 TCGCATTGCGATTTTCTCGTTGCGAT
62621 AGTCAGTTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
33 23 0.40
35 3 0.05
36 3 0.05
38 29 0.50
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
Found at i:62638 original size:20 final size:20
Alignment explanation
Indices: 62613--62651 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
62603 CGATTCTCTC
62613 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
62633 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
62652 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:62753 original size:14 final size:14
Alignment explanation
Indices: 62734--62770 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
62724 CATCAATTAA
62734 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
62748 ACAAATCATCTTTT
1 ACAAATCAACATTT
62762 ACAAATCAA
1 ACAAATCAA
62771 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:64665 original size:20 final size:20
Alignment explanation
Indices: 64623--64688 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
64613 TAGTTTACTT
* * **
64623 TCGCAACACGAAACTTAAAA
1 TCGCAACACGAAAATGACTA
64643 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
64663 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
64683 TCGCAA
1 TCGCAA
64689 TGCGAAATGA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:64697 original size:19 final size:20
Alignment explanation
Indices: 64642--64709 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
64632 GAAACTTAAA
* *
64642 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
64662 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
64682 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
64701 ATCGCAACG
1 ATCGCAACG
64710 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:64717 original size:14 final size:14
Alignment explanation
Indices: 64698--64756 Score: 73
Period size: 14 Copynumber: 3.9 Consensus size: 14
64688 ATGCGAAATG
64698 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
64712 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
64728 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
64744 AAAATCGCAACGA
1 AAAATCGCAACGA
64757 GAAACACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 22 0.56
16 8 0.21
18 9 0.23
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:64740 original size:32 final size:33
Alignment explanation
Indices: 64682--64753 Score: 137
Period size: 32 Copynumber: 2.2 Consensus size: 33
64672 GGAAATGGCT
64682 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
64715 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
64747 ATCGCAA
1 ATCGCAA
64754 CGAGAAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
32 23 0.59
33 16 0.41
ACGTcount: A:0.47, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:64789 original size:19 final size:18
Alignment explanation
Indices: 64767--64858 Score: 65
Period size: 14 Copynumber: 5.4 Consensus size: 18
64757 GAAACACAAA
64767 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
64786 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
*
64802 T--CTTTGCGATTTCATT
1 TCGCATTGCGATTTCATT
* *
64818 TCGCATTGTGATTT--TG
1 TCGCATTGCGATTTCATT
64834 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
64851 TCGCATTG
1 TCGCATTG
64859 TGATAGCCAT
Statistics
Matches: 55, Mismatches: 9, Indels: 18
0.67 0.11 0.22
Matches are distributed among these distances:
14 15 0.27
15 3 0.05
16 8 0.15
17 4 0.07
18 12 0.22
19 13 0.24
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.49
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:64853 original size:33 final size:33
Alignment explanation
Indices: 64772--64862 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
64762 ACAAATCGCA
* * *
64772 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCT
1 TTGCGATTTTCATTTCGCATTGTGATTTTGTCG
64805 TTGCGA-TTTCATTTCGCATTGTGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGTGATTTTGTCG
64837 TTGCGATTTTCATTTCGCATTGTGAT
1 TTGCGATTTTCATTTCGCATTGTGAT
64863 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 29 0.54
33 25 0.46
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGTGATTTTGTCG
Found at i:64889 original size:20 final size:19
Alignment explanation
Indices: 64835--64901 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
64825 GTGATTTTGT
**
64835 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* * *
64854 CATTGTGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
64874 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-TTTCG
*
64894 TGTTGCGA
1 CGTTGCGA
64902 AAGTAAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
19 12 0.32
20 22 0.59
21 3 0.08
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:65410 original size:18 final size:18
Alignment explanation
Indices: 65384--65428 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
65374 GTCGATCAGA
**
65384 TGATGGCTCTGGGTTAGG
1 TGATGGCTCTGGGCGAGG
*
65402 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
65420 TGATGGCTC
1 TGATGGCTC
65429 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:66733 original size:20 final size:20
Alignment explanation
Indices: 66710--66761 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
66700 AAATGAAAAT
*
66710 CGCAACACGAAAATGACTAC
1 CGCAACGCGAAAATGACTAC
** *
66730 CGCAACGCGAATTTGACTAT
1 CGCAACGCGAAAATGACTAC
66750 CGCAACGCGAAA
1 CGCAACGCGAAA
66762 CTAAAATCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.13
Consensus pattern (20 bp):
CGCAACGCGAAAATGACTAC
Found at i:67021 original size:20 final size:21
Alignment explanation
Indices: 66996--67044 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
66986 TCTGAGAGAT
66996 GGAGAT-AGACGGATTTCGCC
1 GGAGATGAGACGGATTTCGCC
* *
67016 GGAGATGGGGACGGATTTCGTC
1 GGAGAT-GAGACGGATTTCGCC
*
67038 GCAGATG
1 GGAGATG
67045 GGTGAGAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 1 0.04
22 17 0.71
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.20
Consensus pattern (21 bp):
GGAGATGAGACGGATTTCGCC
Found at i:67030 original size:22 final size:22
Alignment explanation
Indices: 67003--67046 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
66993 GATGGAGATA
*
67003 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGCAGATGGG
*
67025 GACGGATTTCGTCGCAGATGGG
1 GACGGATTTCGCCGCAGATGGG
67047 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGCAGATGGG
Found at i:67244 original size:21 final size:22
Alignment explanation
Indices: 67214--67309 Score: 87
Period size: 20 Copynumber: 4.6 Consensus size: 22
67204 CGCTTTGAAA
*
67214 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGATTATGTCAGT
* *
67235 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGTCAGT
* * * *
67255 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGATTATGTCAGT
67276 ATCGCATTGCGA-TA-GTCAGT
1 ATCGCATTGCGATTATGTCAGT
67296 ATCGCATTGCGATT
1 ATCGCATTGCGATT
67310 TTCCCAATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
19 5 0.08
20 28 0.47
21 24 0.41
22 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (22 bp):
ATCGCATTGCGATTATGTCAGT
Found at i:67277 original size:41 final size:41
Alignment explanation
Indices: 67214--67311 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
67204 CGCTTTGAAA
* *
67214 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
* * *
67255 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
67296 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
67312 CCCAATTTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTCAGT
Found at i:67327 original size:41 final size:41
Alignment explanation
Indices: 67214--67329 Score: 119
Period size: 41 Copynumber: 2.8 Consensus size: 41
67204 CGCTTTGAAA
* ** *
67214 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
* * ** *
67255 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
67296 ATCGCATTGCGATTTTCCCAATT-T-GCGTTGCGAT
1 ATCGCATTGCGATTTT--CAATTATCGCGTTGCGAT
67330 TTTCCCAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
41 59 0.94
42 1 0.02
43 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
Found at i:67328 original size:21 final size:21
Alignment explanation
Indices: 67302--67352 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
67292 CAGTATCGCA
67302 TTGCGATTTTCCCAATTTGCG
1 TTGCGATTTTCCCAATTTGCG
67323 TTGCGATTTTCCCAATTTGCG
1 TTGCGATTTTCCCAATTTGCG
67344 TTGCGATTT
1 TTGCGATTT
67353 ACTTATTCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGCGATTTTCCCAATTTGCG
Found at i:67832 original size:18 final size:18
Alignment explanation
Indices: 67809--67850 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
67799 CCTTAATATC
* *
67809 ATATTTCAAAAATTTTAA
1 ATATTTAAAAAAATTTAA
67827 ATATTTAAAAAAATTTAA
1 ATATTTAAAAAAATTTAA
67845 AT-TTTA
1 ATATTTA
67851 GGGTTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATTTAAAAAAATTTAA
Found at i:68201 original size:21 final size:20
Alignment explanation
Indices: 68123--68221 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
68113 AATCAGTTTC
*
68123 CAAAATCACAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
68144 AAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
68165 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
68185 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
68206 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
68222 ACACATAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 16 0.27
21 44 0.73
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:68404 original size:20 final size:20
Alignment explanation
Indices: 68188--68417 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
68178 CGATTTTCCA
** *
68188 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
68208 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
68228 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
68248 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
68268 AAATCGCAACGCGTATAGGT
1 AAATCGCAACGCGAATCCGT
* * *
68288 AAATCGCAATGCGTATCCAT
1 AAATCGCAACGCGAATCCGT
* *
68308 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
68328 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
68348 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
68368 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
68388 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
68408 AAATCACAAC
1 AAATCGCAAC
68418 ACTGAAATTT
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:69124 original size:24 final size:24
Alignment explanation
Indices: 69097--69143 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
69087 AAATTTGGTC
69097 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
69121 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
69144 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:69335 original size:12 final size:12
Alignment explanation
Indices: 69318--69342 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
69308 ATATAATCCT
69318 GAAGAAGAAAAA
1 GAAGAAGAAAAA
69330 GAAGAAGAAAAA
1 GAAGAAGAAAAA
69342 G
1 G
69343 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:71671 original size:33 final size:34
Alignment explanation
Indices: 71620--71827 Score: 218
Period size: 33 Copynumber: 6.1 Consensus size: 34
71610 CGGAAATTAC
*
71620 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
71653 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGC-GAAATGAA
*
71687 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
*
71720 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
71753 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--CG--ATGAAAATCGCAATGCGAAATGAA
* *
71791 AATCGCAACGA-GAGAATCGCAATGCGAAATTAA
1 AATCGCAACGATGAAAATCGCAATGCGAAATGAA
71824 AATC
1 AATC
71828 ACATTGCGAT
Statistics
Matches: 153, Mismatches: 9, Indels: 26
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 90 0.59
34 31 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 20 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (34 bp):
AATCGCAACGATGAAAATCGCAATGCGAAATGAA
Found at i:71725 original size:19 final size:19
Alignment explanation
Indices: 71634--71827 Score: 194
Period size: 19 Copynumber: 11.2 Consensus size: 19
71624 GCAACGAGAG
71634 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
71653 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
71667 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
71687 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
71701 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
71720 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
71739 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
71753 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
71772 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
71791 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
71805 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
71824 AATC
1 AATC
71828 ACATTGCGAT
Statistics
Matches: 145, Mismatches: 9, Indels: 42
0.74 0.05 0.21
Matches are distributed among these distances:
14 42 0.29
15 3 0.02
16 7 0.05
17 6 0.04
18 4 0.03
19 70 0.48
20 13 0.09
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:71747 original size:52 final size:52
Alignment explanation
Indices: 71662--71836 Score: 314
Period size: 52 Copynumber: 3.3 Consensus size: 52
71652 AAATCCCAAC
71662 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
71715 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
71767 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * *
71819 ATTAAAATCACATTGCGA
1 ATGAAAATCGCAATGCGA
71837 TTCTCTCGTT
Statistics
Matches: 119, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 103 0.87
53 16 0.13
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:71927 original size:33 final size:33
Alignment explanation
Indices: 71829--71944 Score: 160
Period size: 33 Copynumber: 3.3 Consensus size: 33
71819 ATTAAAATCA
71829 CATTGCGATTCTCTCGTTGCGATTTTCATTTCCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTT-CG
*
71863 CATTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCG
1 CATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTCG
71902 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
1 CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
71935 CATTGCGATT
1 CATTGCGATT
71945 TTCATTTCGC
Statistics
Matches: 74, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
33 27 0.36
34 8 0.11
35 2 0.03
36 5 0.07
37 5 0.07
38 2 0.03
39 10 0.14
40 15 0.20
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (33 bp):
CATTGCGATTCTCTCGTTGCGATTTTCATTTCG
Found at i:71970 original size:19 final size:19
Alignment explanation
Indices: 71845--71962 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
71835 GATTCTCTCG
71845 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
71865 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
71885 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
71904 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
71918 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
71937 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
71956 TTGCGAT
1 TTGCGAT
71963 AGTCATTTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 36 0.40
20 35 0.38
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:72087 original size:14 final size:14
Alignment explanation
Indices: 72068--72104 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
72058 CATCAATTAC
72068 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
72082 ACAAATCATCTTTT
1 ACAAATCAACTTTT
72096 ACAAATCAA
1 ACAAATCAA
72105 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:74137 original size:14 final size:14
Alignment explanation
Indices: 74118--74174 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
74108 GCGAAATGAA
*
74118 AATCGCAACGACAG
1 AATCGCAACGAAAG
74132 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
74149 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
74165 AATCGCAACG
1 AATCGCAACG
74175 CGAAACGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:74145 original size:33 final size:33
Alignment explanation
Indices: 74099--74191 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
74089 GCGAAACCAA
*
74099 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
74132 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
74165 AATCGCAACGCGAAACGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
74192 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:74183 original size:21 final size:19
Alignment explanation
Indices: 74024--74196 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
74014 TAGTTTACTT
* *
74024 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-GAAAA
* *
74044 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAACGAAAA
* *
74063 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAACGAAAA
*
74082 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACGAAAA
*
74101 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACGAAAA
*
74120 TCGCAA--CG--AC-AGAA
1 TCGCAACGCGAAACGAAAA
* *
74134 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACGAAAA
74153 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAACGAAAA
74167 TCGCAACGCGAAACGAAAA
1 TCGCAACGCGAAACGAAAA
*
74186 TCGCAATGCGA
1 TCGCAACGCGA
74197 TTTTGGTTTC
Statistics
Matches: 127, Mismatches: 16, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 8 0.06
17 8 0.06
18 1 0.01
19 80 0.63
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACGAAAA
Found at i:74188 original size:52 final size:51
Alignment explanation
Indices: 74061--74196 Score: 139
Period size: 52 Copynumber: 2.6 Consensus size: 51
74051 GCGAAATGAT
* * * **
74061 AATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGCGA
1 AATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGAAA
* ** * **
74112 AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGAAA
1 AATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGAAA
74164 GAATCGCAACGCGAAACGAAAATCGCAATGCGA
1 -AATCGCAACGCGAAACGAAAATCGCAATGCGA
74197 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 40 0.61
53 4 0.06
54 10 0.15
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (51 bp):
AATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGAAA
Found at i:74214 original size:19 final size:19
Alignment explanation
Indices: 74192--74320 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
74182 AAAATCGCAA
74192 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
74211 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
74225 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
74244 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
74258 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
74277 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
74296 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
74316 TGCGA
1 TGCGA
74321 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:74234 original size:33 final size:33
Alignment explanation
Indices: 74192--74283 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
74182 AAAATCGCAA
74192 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
74225 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
74258 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
74284 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:74487 original size:93 final size:93
Alignment explanation
Indices: 74368--74743 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
74358 ATGGATTGCA
74368 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
74432 TAGCAGAATTAGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74460 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
74525 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74553 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
74618 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
74646 TTACTTTCAACCAAAAGACAAAACAAAGACAAGTACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
74711 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
74739 TTACT
1 TTACT
74744 AAGCAATCTA
Statistics
Matches: 280, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 276 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:76464 original size:20 final size:20
Alignment explanation
Indices: 76433--76529 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
76423 TTTTGGTTGA
76433 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
76453 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
76473 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
76492 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
76507 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
76527 AAT
1 AAT
76530 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:76485 original size:21 final size:21
Alignment explanation
Indices: 76431--76495 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
76421 TCTTTTGGTT
76431 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
76452 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
76472 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
76493 GAA
1 GAA
76496 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:76499 original size:14 final size:14
Alignment explanation
Indices: 76480--76536 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
76470 GAGAAATGAA
76480 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
76494 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
76513 AATCGCAACGAGAG
1 AATCGCAACGAGAG
76527 AATCGCAACG
1 AATCGCAACG
76537 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:76512 original size:33 final size:33
Alignment explanation
Indices: 76431--76553 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
76421 TCTTTTGGTT
*
76431 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
76472 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
76505 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
76538 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
76554 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:76589 original size:14 final size:14
Alignment explanation
Indices: 76570--76626 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
76560 TTTGGTTTCG
76570 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
76584 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
76603 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
76617 CGTTGCGATT
1 CGTTGCGATT
76627 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:76602 original size:33 final size:33
Alignment explanation
Indices: 76554--76634 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
76544 AAAATCGCAA
**
76554 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
76587 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
76620 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
76635 TCTCGTTGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:76637 original size:21 final size:21
Alignment explanation
Indices: 76611--76686 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
76601 CGCGTTGCGA
76611 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
76632 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
76652 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
76673 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
76687 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:76667 original size:41 final size:41
Alignment explanation
Indices: 76610--76687 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
76600 TCGCGTTGCG
*
76610 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
76651 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
76688 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:76808 original size:33 final size:33
Alignment explanation
Indices: 76766--76836 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
76756 AATACTAACT
*
76766 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
76799 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
76832 TGAAA
1 TGAAA
76837 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:77070 original size:22 final size:22
Alignment explanation
Indices: 77018--77072 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
77008 TGGTTGTGAG
**
77018 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
77040 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
77062 GGATTTCTTCG
1 GGATTTCTTCG
77073 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:77244 original size:20 final size:20
Alignment explanation
Indices: 77219--77412 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
77209 CTTTAAATAT
77219 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
77239 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
77261 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
77280 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
77300 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
77320 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
77340 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
77360 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
77380 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
77400 CGCGTTGCGATTT
1 CGCGTTGCGATTT
77413 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:77406 original size:60 final size:60
Alignment explanation
Indices: 77219--77412 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
77209 CTTTAAATAT
**
77219 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
77280 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
77340 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
77400 CGCGTTGCGATTT
1 CGCGTTGCGATTT
77413 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:83168 original size:21 final size:20
Alignment explanation
Indices: 83143--83194 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
83133 ACACAGTTTC
83143 CGAATTCGCAACACAGAATAT
1 CGAATTCGCAACACAGAA-AT
* *
83164 GGAATTCGC-ACACAGAAGT
1 CGAATTCGCAACACAGAAAT
83183 CGAATTCGCAAC
1 CGAATTCGCAAC
83195 TCGAATTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.33
20 10 0.37
21 8 0.30
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.17
Consensus pattern (20 bp):
CGAATTCGCAACACAGAAAT
Found at i:83189 original size:19 final size:20
Alignment explanation
Indices: 83143--83192 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
83133 ACACAGTTTC
83143 CGAATTCGCAACACAGAATAT
1 CGAATTCGC-ACACAGAATAT
* *
83164 GGAATTCGCACACAGAA-GT
1 CGAATTCGCACACAGAATAT
83183 CGAATTCGCA
1 CGAATTCGCA
83193 ACTCGAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 8 0.31
21 8 0.31
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (20 bp):
CGAATTCGCACACAGAATAT
Found at i:83252 original size:20 final size:20
Alignment explanation
Indices: 83229--83357 Score: 79
Period size: 20 Copynumber: 6.5 Consensus size: 20
83219 AAATTTCTTT
83229 TTCGCAAATCGATTTTTAAA
1 TTCGCAAATCGATTTTTAAA
*
83249 TTCGCAACA-CGAGTTTCTT--T
1 TTCGCAA-ATCGA-TTT-TTAAA
* * *
83269 TTCTCAACTCGATTTTTTAA
1 TTCGCAAATCGATTTTTAAA
* * *
83289 TTCGCAAAGCGAGTTTTAAT
1 TTCGCAAATCGATTTTTAAA
*
83309 TTCGCAACTCGA-TTTTAGAA
1 TTCGCAAATCGATTTTTA-AA
* * *
83329 TTCGTAAAACGA-ATTTAAA
1 TTCGCAAATCGATTTTTAAA
83348 TTTCGCAAAT
1 -TTCGCAAAT
83358 AAGCTTTTAA
Statistics
Matches: 82, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
18 2 0.02
19 10 0.12
20 64 0.78
21 4 0.05
22 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
TTCGCAAATCGATTTTTAAA
Found at i:83302 original size:40 final size:40
Alignment explanation
Indices: 83187--83332 Score: 154
Period size: 40 Copynumber: 3.6 Consensus size: 40
83177 AGAAGTCGAA
** * *
83187 TTCGCAACTCGAATTTGACAAATTCGCAACACAAATTTCTTT
1 TTCGCAACTCG-ATTT-TTAAATTCGCAACACGAGTTTCTTT
*
83229 TTCGCAAATCGATTTTTAAATTCGCAACACGAGTTTCTTT
1 TTCGCAACTCGATTTTTAAATTCGCAACACGAGTTTCTTT
* * *
83269 TTCTCAACTCGATTTTTTAATTCGCAA-AGCGAGTTT-TAAT
1 TTCGCAACTCGATTTTTAAATTCGCAACA-CGAGTTTCT-TT
83309 TTCGCAACTCGA-TTTTAGAATTCG
1 TTCGCAACTCGATTTTTA-AATTCG
83333 TAAAACGAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 6 0.07
40 70 0.78
41 4 0.04
42 10 0.11
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (40 bp):
TTCGCAACTCGATTTTTAAATTCGCAACACGAGTTTCTTT
Found at i:83350 original size:40 final size:39
Alignment explanation
Indices: 83228--83355 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
83218 CAAATTTCTT
* * ***
83228 TTTCGCAAATCGATTTTTAAATTCGCAACACGAGTTTCTT
1 TTTCGCAACTCGA-TTTTAAATTCGCAAAACGAGTTTAAA
* * * *
83268 TTTCTCAACTCGATTTTTTAATTCGCAAAGCGAGTTTTAA
1 TTTCGCAACTCGA-TTTTAAATTCGCAAAACGAGTTTAAA
* *
83308 TTTCGCAACTCGATTTTAGAATTCGTAAAACGAATTTAAA
1 TTTCGCAACTCGATTTTA-AATTCGCAAAACGAGTTTAAA
83348 TTTCGCAA
1 TTTCGCAA
83356 ATAAGCTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.05
40 69 0.95
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (39 bp):
TTTCGCAACTCGATTTTAAATTCGCAAAACGAGTTTAAA
Found at i:83488 original size:22 final size:22
Alignment explanation
Indices: 83470--83517 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
83460 CTCTCTCCAG
83470 CGACATCCGTCCCCATCTCCGA
1 CGACATCCGTCCCCATCTCCGA
83492 CGACATCCGTCCCCATCTCCGA
1 CGACATCCGTCCCCATCTCCGA
83514 CGAC
1 CGAC
83518 CCCCCTCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.50, G:0.15, T:0.17
Consensus pattern (22 bp):
CGACATCCGTCCCCATCTCCGA
Found at i:83529 original size:20 final size:21
Alignment explanation
Indices: 83470--83531 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
83460 CTCTCTCCAG
*
83470 CGACATCCGTCCCCATCTCCGA
1 CGACA-CCGCCCCCATCTCCGA
*
83492 CGACATCCGTCCCCATCTCCGA
1 CGACA-CCGCCCCCATCTCCGA
83514 CGAC-CC-CCCTCCATCTCC
1 CGACACCGCCC-CCATCTCC
83532 ATCTCTCACA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
19 2 0.05
20 10 0.26
22 26 0.68
ACGTcount: A:0.16, C:0.55, G:0.11, T:0.18
Consensus pattern (21 bp):
CGACACCGCCCCCATCTCCGA
Found at i:83887 original size:20 final size:20
Alignment explanation
Indices: 83864--83931 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
83854 CAAGAAACTT
*
83864 AAATTCACAACACGAAAATG
1 AAATTCGCAACACGAAAATG
* *
83884 AAATTCGTAATACGAAAATCG
1 AAATTCGCAACACGAAAAT-G
* *
83905 AAAATT-GCAACTCGAAAATA
1 -AAATTCGCAACACGAAAATG
83925 AAATTCG
1 AAATTCG
83932 AAAATAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 5 0.13
20 17 0.45
21 11 0.29
22 5 0.13
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:83934 original size:13 final size:13
Alignment explanation
Indices: 83916--83945 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
83906 AAATTGCAAC
83916 TCGAAAATAAAAT
1 TCGAAAATAAAAT
83929 TCGAAAATAAAAT
1 TCGAAAATAAAAT
83942 TCGA
1 TCGA
83946 GTTGCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (13 bp):
TCGAAAATAAAAT
Found at i:85413 original size:42 final size:42
Alignment explanation
Indices: 85354--85519 Score: 248
Period size: 42 Copynumber: 4.0 Consensus size: 42
85344 CCCCACTTTT
*
85354 TCATCAAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
*
85396 TCATCGAGTCGATTCTCCACTTCGACACCAAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
*
85438 TCATCGAGTCGATTCTCCACTTCAACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
* * * *
85480 TC-T--AGCCGACTCTACACCTCGACACCGAGATCCATCACC
1 TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
85519 T
1 T
85520 ATTCCATCAC
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 32 0.28
41 1 0.01
42 82 0.71
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.23
Consensus pattern (42 bp):
TCATCGAGTCGATTCTCCACTTCGACACCGAGATCCATCACC
Found at i:85653 original size:21 final size:21
Alignment explanation
Indices: 85619--85893 Score: 257
Period size: 21 Copynumber: 13.1 Consensus size: 21
85609 ACCTCCACGG
* * *
85619 GATGAGTTAGGTGCTTTACAT
1 GATGAGGTCGGTGCTTTACGT
* *
85640 GACGAGGTCAGTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
*
85661 GATAAGGTCGGTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
85682 GATGAGGTCGGTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
* *
85703 GATGAGGTCGGTACTTTATGT
1 GATGAGGTCGGTGCTTTACGT
** *
85724 GATGATAAT-GGTACTTTACGT
1 GATGA-GGTCGGTGCTTTACGT
* *
85745 GATAAGGTAGGTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
* * *
85766 GGTGAGGTAGCTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
* * *
85787 GGTGAGGTAGCTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
** *
85808 GATGACAAT-GGTGTTTTACGT
1 GATGA-GGTCGGTGCTTTACGT
* * *
85829 GATGAGGTAGGTGTTTTACAT
1 GATGAGGTCGGTGCTTTACGT
* * *
85850 GGTGAGGTAGCTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
*
85871 GATGAGGTAGGTGCTTTACGT
1 GATGAGGTCGGTGCTTTACGT
85892 GA
1 GA
85894 GATTGTTTCA
Statistics
Matches: 215, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
20 2 0.01
21 211 0.98
22 2 0.01
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.35
Consensus pattern (21 bp):
GATGAGGTCGGTGCTTTACGT
Found at i:85760 original size:84 final size:84
Alignment explanation
Indices: 85653--85893 Score: 347
Period size: 84 Copynumber: 2.9 Consensus size: 84
85643 GAGGTCAGTG
* * * * * *
85653 CTTTACGTGATAAGGTCGGTGCTTTACGTGATGAGGTCGGTGCTTTACGTGATGAGGTCGGTACT
1 CTTTACGTGATAAGGTAGGTGCTTTACGTGGTGAGGTAGCTGCTTTACGTGATGAGGTAGGTGCT
* *
85718 TTATGTGATGATAATGGTA
66 TTACGTGATGACAATGGTA
* *
85737 CTTTACGTGATAAGGTAGGTGCTTTACGTGGTGAGGTAGCTGCTTTACGTGGTGAGGTAGCTGCT
1 CTTTACGTGATAAGGTAGGTGCTTTACGTGGTGAGGTAGCTGCTTTACGTGATGAGGTAGGTGCT
*
85802 TTACGTGATGACAATGGTG
66 TTACGTGATGACAATGGTA
* * * *
85821 TTTTACGTGATGAGGTAGGTGTTTTACATGGTGAGGTAGCTGCTTTACGTGATGAGGTAGGTGCT
1 CTTTACGTGATAAGGTAGGTGCTTTACGTGGTGAGGTAGCTGCTTTACGTGATGAGGTAGGTGCT
85886 TTACGTGA
66 TTACGTGA
85894 GATTGTTTCA
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 140 1.00
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.35
Consensus pattern (84 bp):
CTTTACGTGATAAGGTAGGTGCTTTACGTGGTGAGGTAGCTGCTTTACGTGATGAGGTAGGTGCT
TTACGTGATGACAATGGTA
Found at i:86255 original size:21 final size:21
Alignment explanation
Indices: 86195--86324 Score: 120
Period size: 21 Copynumber: 6.2 Consensus size: 21
86185 GAAAAAGCCT
** *
86195 GATCCACCTATCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* * *
86216 GGTCCACATCCCATTGTTCAG
1 GATCCACCTCCCATCGTTCAG
* * *
86237 GATTCACCTCTCATCGTTCAA
1 GATCCACCTCCCATCGTTCAG
* *
86258 GAGGCC-CCTCCCATCATTCAG
1 GA-TCCACCTCCCATCGTTCAG
*
86279 GATCCACCTCCCATCATTCAG
1 GATCCACCTCCCATCGTTCAG
86300 GATCCACC-CCACATCGTTCAG
1 GATCCACCTCC-CATCGTTCAG
86321 GATC
1 GATC
86325 TACATTCCAT
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
20 4 0.04
21 84 0.94
22 1 0.01
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (21 bp):
GATCCACCTCCCATCGTTCAG
Found at i:88561 original size:20 final size:20
Alignment explanation
Indices: 88447--88561 Score: 142
Period size: 20 Copynumber: 5.8 Consensus size: 20
88437 ATCAAATTCG
*
88447 TCGAGTTGCGAATTCGATTT
1 TCGAGTTGCGAATTTGATTT
* *
88467 TCGAGTT-CGAATTTGAATA
1 TCGAGTTGCGAATTTGATTT
* *
88486 TCGAGTTGCGATTTTCATGTT
1 TCGAGTTGCGAATTTGAT-TT
* **
88507 TCGAATTGCGAATTCAATTT
1 TCGAGTTGCGAATTTGATTT
88527 TCGAGTTGCGAATTTGATTT
1 TCGAGTTGCGAATTTGATTT
88547 TCGAGTTGCGAATTT
1 TCGAGTTGCGAATTT
88562 AAGCTGCGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
19 16 0.20
20 48 0.61
21 15 0.19
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (20 bp):
TCGAGTTGCGAATTTGATTT
Found at i:89110 original size:18 final size:18
Alignment explanation
Indices: 89084--89124 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
89074 AGGTGAAGGC
*
89084 GATTGTGATTGAGATTTT
1 GATTTTGATTGAGATTTT
*
89102 GATTTTGATTGCGATTTT
1 GATTTTGATTGAGATTTT
89120 GATTT
1 GATTT
89125 CCCTTTACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (18 bp):
GATTTTGATTGAGATTTT
Found at i:91427 original size:24 final size:24
Alignment explanation
Indices: 91400--91459 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
91390 CTGAAACATC
91400 ATCAAAA-TCTGAGTATTGACCAAG
1 ATCAAAATTC-GAGTATTGACCAAG
* *
91424 ATCAAAGTTCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
91448 ATCAAATTTCGA
1 ATCAAAATTCGA
91460 ATACTTACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 29 0.94
25 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:91663 original size:19 final size:19
Alignment explanation
Indices: 91639--91675 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
91629 TTTCTTGGTG
91639 ATGAAATTGTGGTGGAACC
1 ATGAAATTGTGGTGGAACC
* *
91658 ATGAAATTTTGGTTGAAC
1 ATGAAATTGTGGTGGAAC
91676 AACGTTTTAC
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:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (19 bp):
ATGAAATTGTGGTGGAACC
Found at i:92435 original size:20 final size:20
Alignment explanation
Indices: 92412--92455 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
92402 GTTGCGAATT
92412 GAAAATCAAGTTGCAAAAAC
1 GAAAATCAAGTTGCAAAAAC
* * * *
92432 GAAATTCATGTTGCGAAAAT
1 GAAAATCAAGTTGCAAAAAC
92452 GAAA
1 GAAA
92456 CTCGCGTTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (20 bp):
GAAAATCAAGTTGCAAAAAC
Found at i:92509 original size:39 final size:40
Alignment explanation
Indices: 92440--92517 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
92430 ACGAAATTCA
*
92440 TGTTGCGAAAATGAAACTCGCGTTACGAA-TTAGAAAATCT
1 TGTTGCGAAAAGGAAACTCGCGTTACGAATTTA-AAAATCT
* **
92480 TGTTGCG-AAAGGAAACTCGTGTTGTGAATTTAAAAATC
1 TGTTGCGAAAAGGAAACTCGCGTTACGAATTTAAAAATC
92518 AAGTTTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 23 0.70
40 10 0.30
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (40 bp):
TGTTGCGAAAAGGAAACTCGCGTTACGAATTTAAAAATCT
Found at i:92585 original size:20 final size:20
Alignment explanation
Indices: 92560--92607 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
92550 TCAAATTCGA
* *
92560 GTTGCGAATTATACTTCTGT
1 GTTGCGAATTACAATTCTGT
*
92580 GTTGCGAATTCCAATTCTGT
1 GTTGCGAATTACAATTCTGT
92600 GTTGCGAA
1 GTTGCGAA
92608 ATTGGCTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGAATTACAATTCTGT
Found at i:93080 original size:41 final size:40
Alignment explanation
Indices: 93045--93124 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
93035 ATTAAATTTA
93045 AAAAAATAAATAAAT-A-TTAAAAAGATTAAAAATTAAGAAAT
1 AAAAAATAAA-AAATAATTTAAAAA-ATTAAAAATTAA-AAAT
93086 AAAAAATAAAAAATAATTTAAAAAA-TAAAAATATAAAAA
1 AAAAAATAAAAAATAATTTAAAAAATTAAAAAT-TAAAAA
93125 AATGATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
40 14 0.39
41 15 0.42
42 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (40 bp):
AAAAAATAAAAAATAATTTAAAAAATTAAAAATTAAAAAT
Found at i:93323 original size:49 final size:48
Alignment explanation
Indices: 93236--93330 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 48
93226 TATAGTTTTA
***
93236 ATAAAAATATAAAAATAAATTTTATTTTTTAATATTTT-AATAAAAAT
1 ATAAAAATATAAAAATAAATTTTATTGAATAATATTTTAAATAAAAAT
*
93283 ATAAAAATATAGTAAATTAAATTTTATTGAAT-ATAGTTTTAAATAAAA
1 ATAAAAATATA--AAAATAAATTTTATTGAATAATA-TTTTAAATAAAA
93331 TGAAAACGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
47 11 0.28
48 3 0.08
49 19 0.47
50 7 0.17
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (48 bp):
ATAAAAATATAAAAATAAATTTTATTGAATAATATTTTAAATAAAAAT
Found at i:93946 original size:26 final size:22
Alignment explanation
Indices: 93927--93968 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
93917 TGATCTTAAT
93927 TACTA-TTTTGTTTTAATGATC
1 TACTACTTTTGTTTTAATGATC
93948 TACTACTTTTGTTTTAATGAT
1 TACTACTTTTGTTTTAATGAT
93969 TATAGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (22 bp):
TACTACTTTTGTTTTAATGATC
Done.