Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009042.1 Hibiscus syriacus cultivar Beakdansim tig00112452_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: 514287
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:236 original size:30 final size:30
Alignment explanation
Indices: 202--432 Score: 108
Period size: 30 Copynumber: 7.6 Consensus size: 30
192 AAGACAAAAC
*
202 TTTGTTTCAAGGGAAACAGACTCAAAGACT
1 TTTGTTTCAAGAGAAACAGACTCAAAGACT
* *
232 TTTGTTTCAAGAGAAACTA-TCTCAAAAGAGACAAAAC
1 TTTGTTTCAAGAGAAAC-AGACTC--AA-AGAC----T
* * *
269 TGTGTTTTAAGAGAAACAGACTCAAAAACT
1 TTTGTTTCAAGAGAAACAGACTCAAAGACT
* * *
299 TGTGTTTCAAGAGAAACTA-TCTCAAGGGAGACAAAA
1 TTTGTTTCAAGAGAAAC-AGACTCAA---AGAC---T
* *
335 TTTGTTTCAAGGGAAACAAACTCAAAGA-T
1 TTTGTTTCAAGAGAAACAGACTCAAAGACT
364 TTGTGTTTCAAGAG----AGA--CAAA-AC-
1 TT-TGTTTCAAGAGAAACAGACTCAAAGACT
* *
387 -TTGTTTCAAGGGAAACATACTCAAAGACT
1 TTTGTTTCAAGAGAAACAGACTCAAAGACT
*
416 TTTGTTTCACGAGAAAC
1 TTTGTTTCAAGAGAAAC
433 TGTCTCAAGC
Statistics
Matches: 151, Mismatches: 22, Indels: 56
0.66 0.10 0.24
Matches are distributed among these distances:
21 10 0.07
22 1 0.01
23 1 0.01
24 4 0.03
25 2 0.01
26 2 0.01
27 4 0.03
28 2 0.01
29 2 0.01
30 64 0.42
31 2 0.01
32 2 0.01
33 10 0.07
34 3 0.02
35 3 0.02
36 21 0.14
37 18 0.12
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (30 bp):
TTTGTTTCAAGAGAAACAGACTCAAAGACT
Found at i:256 original size:67 final size:67
Alignment explanation
Indices: 54--378 Score: 398
Period size: 67 Copynumber: 4.9 Consensus size: 67
44 AGGGATGATG
* **
54 TCTCAA-GAGAGACAAAA-TTCGTTTCAAGGGAAAC-GACTCAAAGAAGATTGTTTCAAGAGAAA
1 TCTCAAGGA-AGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAATTTTGTTTCAAGAGAAA
*
116 CTG
65 CTA
* * * *
119 TCTCAAGGGAGACAAAAC-TTATTTCAAGGGAAAC-GACTCAAAGAATTGTGCTTCAAGAGAAAC
1 TCTCAAGGAAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAATTTTGTTTCAAGAGAAAC
*
182 TG
66 TA
*
184 TCTCAAGGAAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGACTTTTGTTTCAAGAGAAAC
1 TCTCAAGGAAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAATTTTGTTTCAAGAGAAAC
249 TA
66 TA
* * * * *
251 TCTCAA-AAGAGACAAAACTGTGTTTTAAGAGAAACAGACTCAAA-AACTTGTGTTTCAAGAGAA
1 TCTCAAGGA-AGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAA-TTTTGTTTCAAGAGAA
314 ACTA
64 ACTA
* *
318 TCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACAAACTCAAAG-ATTTGTGTTTCAAGAGA
1 TCTCAAGGAAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAATTT-TGTTTCAAGAGA
379 GACAAAACTT
Statistics
Matches: 225, Mismatches: 26, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
65 74 0.33
66 53 0.24
67 98 0.44
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (67 bp):
TCTCAAGGAAGACAAAACTTTGTTTCAAGGGAAACAGACTCAAAGAATTTTGTTTCAAGAGAAAC
TA
Found at i:396 original size:51 final size:51
Alignment explanation
Indices: 320--429 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
310 AGAAACTATC
* *
320 TCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAACTCAAAGA-TTTGTGTT
1 TCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGACTTT-TGTT
*
371 TCAAGAGAGACAAAACTTGTTTCAAGGGAAACATACTCAAAGACTTTTGTT
1 TCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGACTTTTGTT
*
422 TCACGAGA
1 TCAAGAGA
430 AACTGTCTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 51 0.94
52 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (51 bp):
TCAAGAGAGACAAAACTTGTTTCAAGGGAAACAAACTCAAAGACTTTTGTT
Found at i:512 original size:37 final size:37
Alignment explanation
Indices: 429--551 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 37
419 GTTTCACGAG
* * *
429 AAACTGTCTCAAGCAAGACGAAATTTGTTTTGAGAG-
1 AAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA
* *
465 AAATTGTCTCAAGCGAGACAAAAATTGTTTTTAGAGA
1 AAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA
* *
502 AAACTATCTCAAGCGAGATAAAATTTGTTTTTA-AGA
1 AAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA
538 AAACTTGTCTCAAG
1 AAAC-TGTCTCAAG
552 TGAAACGACC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
36 38 0.51
37 37 0.49
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (37 bp):
AAACTGTCTCAAGCGAGACAAAATTTGTTTTTAGAGA
Found at i:2323 original size:27 final size:27
Alignment explanation
Indices: 2288--2343 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
2278 GTACCTGAGT
* *
2288 ATATGCATATGT-ATATATGTTAAGTGC
1 ATATACATATGTGATATATGTGAA-TGC
*
2315 ATATACATATGTGATCTATGTGAATGC
1 ATATACATATGTGATATATGTGAATGC
2342 AT
1 AT
2344 GTATGTGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
ATATACATATGTGATATATGTGAATGC
Found at i:2403 original size:15 final size:15
Alignment explanation
Indices: 2380--2421 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2370 GATACATTGG
2380 TGATAATAA-ATTATA
1 TGATAATAAGA-TATA
*
2395 TGATCATAAGATATA
1 TGATAATAAGATATA
2410 TGATAA-AAGATA
1 TGATAATAAGATA
2422 CGTGAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 6 0.25
15 17 0.71
16 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (15 bp):
TGATAATAAGATATA
Found at i:7081 original size:21 final size:21
Alignment explanation
Indices: 7055--7094 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7045 TATGTGTTAT
*
7055 ATGTGGTCATTTGGGACATCA
1 ATGTGGTCATTCGGGACATCA
7076 ATGTGGTCATTCGGGACAT
1 ATGTGGTCATTCGGGACAT
7095 TTCTACGCAG
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:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATGTGGTCATTCGGGACATCA
Found at i:7110 original size:23 final size:24
Alignment explanation
Indices: 7081--7125 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7071 CATCAATGTG
*
7081 GTCATTCGGGAC-ATTTCTACGCA
1 GTCATTCGGGACAAATTCTACGCA
7104 GTCATTCGGGACAAATTCTACG
1 GTCATTCGGGACAAATTCTACG
7126 TGCCCCTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (24 bp):
GTCATTCGGGACAAATTCTACGCA
Found at i:8560 original size:21 final size:21
Alignment explanation
Indices: 8535--8588 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
8525 TTGCATGTGC
8535 TTCTTGTTTTCTTT-TTTCTTT
1 TTCTTGTTTT-TTTCTTTCTTT
8556 TTCTT-TATTTTTTCTTTCTTT
1 TTCTTGT-TTTTTTCTTTCTTT
8577 TCTCTTTGTTTT
1 T-TC-TTGTTTT
8589 GATTTGATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.14
21 16 0.57
22 2 0.07
23 5 0.18
24 1 0.04
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.80
Consensus pattern (21 bp):
TTCTTGTTTTTTTCTTTCTTT
Found at i:13219 original size:15 final size:14
Alignment explanation
Indices: 13198--13243 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
13188 AAATATCAAC
13198 ATTTTTCTTTTTCTT
1 ATTTTTCTTTTT-TT
*
13213 TTTTTTCCTTTTTTT
1 ATTTTT-CTTTTTTT
13228 ATTTTTCATTTTTTT
1 ATTTTTC-TTTTTTT
13243 A
1 A
13244 AAACTAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 20 0.74
16 6 0.22
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (14 bp):
ATTTTTCTTTTTTT
Found at i:14085 original size:3 final size:3
Alignment explanation
Indices: 14077--14112 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14067 TGTAATTGTT
*
14077 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14113 TTTTTGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19784 original size:21 final size:21
Alignment explanation
Indices: 19754--19794 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19744 ATCGTCACGA
*
19754 TGATATAAATTATTGTCTATT
1 TGATAGAAATTATTGTCTATT
19775 TGATAGAAATTATTGTCTAT
1 TGATAGAAATTATTGTCTAT
19795 GTCATCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.12, T:0.49
Consensus pattern (21 bp):
TGATAGAAATTATTGTCTATT
Found at i:23840 original size:20 final size:20
Alignment explanation
Indices: 23816--23995 Score: 109
Period size: 20 Copynumber: 8.8 Consensus size: 20
23806 GATTATGACT
23816 ATCGCAATGCGATTTACGTA
1 ATCGCAATGCGATTTACGTA
* ** * *
23836 TTCGCGTTGCGATTTTCATA
1 ATCGCAATGCGATTTACGTA
*
23856 ATTCGCAATGCGA-ATACGTAA
1 A-TCGCAATGCGATTTACGT-A
* *
23877 ATCGCAACGCGA-TTAAGTAA
1 ATCGCAATGCGATTTACGT-A
* * *
23897 ATCGCAATGCGAATTAGGAAA
1 ATCGCAATGCGATTTACG-TA
* * *
23918 ATCGCAATGCGAATTAGGAAA
1 ATCGCAATGCGATTTACG-TA
* *
23939 ATCGCAATGTGA-ATACGTAA
1 ATCGCAATGCGATTTACGT-A
23959 ATCGCAATGCGAATCTTAC-T-
1 ATCGCAATGCG-AT-TTACGTA
23979 ATCGCAATGCGATTTAC
1 ATCGCAATGCGATTTAC
23996 ATAGCTCCAT
Statistics
Matches: 129, Mismatches: 23, Indels: 18
0.76 0.14 0.11
Matches are distributed among these distances:
18 4 0.03
19 2 0.02
20 70 0.54
21 49 0.38
22 1 0.01
23 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGATTTACGTA
Found at i:23867 original size:21 final size:20
Alignment explanation
Indices: 23795--23868 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
23785 CAGTTTCCAG
*
23795 ATTCGCAACGCGATTATGAC-T
1 ATTCGCAATGCGATT-T-ACAT
*
23816 A-TCGCAATGCGATTTACGT
1 ATTCGCAATGCGATTTACAT
** *
23835 ATTCGCGTTGCGATTTTCAT
1 ATTCGCAATGCGATTTACAT
23855 AATTCGCAATGCGA
1 -ATTCGCAATGCGA
23869 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
18 2 0.05
19 3 0.07
20 26 0.60
21 12 0.28
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (20 bp):
ATTCGCAATGCGATTTACAT
Found at i:23889 original size:41 final size:41
Alignment explanation
Indices: 23816--23970 Score: 131
Period size: 41 Copynumber: 3.8 Consensus size: 41
23806 GATTATGACT
* * ** *
23816 ATCGCAATGCGATTTACGT-ATTCGCGTTGCGATTTTCATAA
1 ATCGCAATGCGA-ATACGTAAATCGCAATGCGATTTTAATAA
* *
23857 TTCGCAATGCGAATACGTAAATCGCAACGCGA--TTAAGTAA
1 ATCGCAATGCGAATACGTAAATCGCAATGCGATTTTAA-TAA
* * *
23897 ATCGCAATGCGAATTAGGAAAATCGCAATGCGA-ATTAGGA-AA
1 ATCGCAATGCGAA-TACGTAAATCGCAATGCGATTTTA--ATAA
*
23939 ATCGCAATGTGAATACGTAAATCGCAATGCGA
1 ATCGCAATGCGAATACGTAAATCGCAATGCGA
23971 ATCTTACTAT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.03
40 20 0.21
41 53 0.56
42 17 0.18
44 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGAATACGTAAATCGCAATGCGATTTTAATAA
Found at i:23919 original size:21 final size:21
Alignment explanation
Indices: 23816--23972 Score: 151
Period size: 20 Copynumber: 7.7 Consensus size: 21
23806 GATTATGACT
*
23816 ATCGCAATGCGATTTACGT-A
1 ATCGCAATGCGAATTACGTAA
* ** * * *
23836 TTCGCGTTGCGATTTTCATAA
1 ATCGCAATGCGAATTACGTAA
*
23857 TTCGCAATGCGAA-TACGTAA
1 ATCGCAATGCGAATTACGTAA
* *
23877 ATCGCAACGCG-ATTAAGTAA
1 ATCGCAATGCGAATTACGTAA
* *
23897 ATCGCAATGCGAATTAGGAAA
1 ATCGCAATGCGAATTACGTAA
* *
23918 ATCGCAATGCGAATTAGGAAA
1 ATCGCAATGCGAATTACGTAA
*
23939 ATCGCAATGTGAA-TACGTAA
1 ATCGCAATGCGAATTACGTAA
23959 ATCGCAATGCGAAT
1 ATCGCAATGCGAAT
23973 CTTACTATCG
Statistics
Matches: 113, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 61 0.54
21 51 0.45
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (21 bp):
ATCGCAATGCGAATTACGTAA
Found at i:23971 original size:41 final size:41
Alignment explanation
Indices: 23858--23972 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
23848 TTTTCATAAT
* *
23858 TCGCAATGCGAATACGTAAATCGCAACGCG-ATTAAGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTAAGAAAA
* * *
23898 TCGCAATGCGAATTAGGAAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAATCGCAATGCGAATTAAGAAAA
*
23940 TCGCAATGTGAATACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
23973 CTTACTATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 12 0.18
41 34 0.52
42 19 0.29
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTAAGAAAA
Found at i:24554 original size:19 final size:19
Alignment explanation
Indices: 24509--24556 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
24499 TTCGAGAATG
* *
24509 AAAATCACAACGCGGAAAT
1 AAAATCGCAACGCGGAAAC
24528 AAATATCGCAACGC-GAAACC
1 AAA-ATCGCAACGCGGAAA-C
24548 AAAATCGCA
1 AAAATCGCA
24557 TTGCGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.50, C:0.25, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGGAAAC
Found at i:24593 original size:14 final size:14
Alignment explanation
Indices: 24574--24662 Score: 70
Period size: 14 Copynumber: 5.6 Consensus size: 14
24564 TTTCATTTCG
24574 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
24588 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
24607 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
24621 CGTTGCGATAGTCATTTCG
1 CGTTGCGAT--TC---TCT
24640 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
24654 CGTTGCGAT
1 CGTTGCGAT
24663 AGTCATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
14 30 0.49
16 5 0.08
17 5 0.08
19 21 0.34
ACGTcount: A:0.10, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:24599 original size:33 final size:33
Alignment explanation
Indices: 24557--24686 Score: 215
Period size: 33 Copynumber: 3.9 Consensus size: 33
24547 CAAAATCGCA
**
24557 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
**
24590 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
24623 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
24656 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
24687 ATTATCTCAT
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
33 79 0.84
34 15 0.16
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:26922 original size:21 final size:20
Alignment explanation
Indices: 26863--26923 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
26853 CTCGAGAGTC
*
26863 CCCTCCCACCGTTCAAGAGG
1 CCCTCTCACCGTTCAAGAGG
* * *
26883 CCACTATCATCGTTGAAGAGG
1 CC-CTCTCACCGTTCAAGAGG
*
26904 TCCCTCTCACCATTCAAGAG
1 -CCCTCTCACCGTTCAAGAG
26924 CCCGATTCAC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (20 bp):
CCCTCTCACCGTTCAAGAGG
Found at i:28285 original size:14 final size:14
Alignment explanation
Indices: 28266--28301 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
28256 ATTGTTTAAT
28266 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
28280 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
28294 TGATTTGT
1 TGATTTGT
28302 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:28432 original size:19 final size:19
Alignment explanation
Indices: 28408--28474 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
28398 AAAAAGTACT
*
28408 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
28427 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
28441 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
28460 ATCACAACGCGAAAT
1 ATCGCAACGCGAAAT
28475 TAAATTCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:28501 original size:19 final size:19
Alignment explanation
Indices: 28479--28629 Score: 62
Period size: 19 Copynumber: 8.7 Consensus size: 19
28469 CGAAATTAAA
28479 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
28498 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
28513 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
28531 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
28545 TTCGCGTTGCGATTTTTAT
1 TTCGCGTTGCGATTTTCAT
* * *
28564 TTTGCATTGCGA--TGC--
1 TTCGCGTTGCGATTTTCAT
*
28579 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
28597 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
28616 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
28630 AGATATTAAG
Statistics
Matches: 92, Mismatches: 24, Indels: 31
0.63 0.16 0.21
Matches are distributed among these distances:
14 28 0.30
16 5 0.05
17 4 0.04
19 45 0.49
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:28525 original size:33 final size:32
Alignment explanation
Indices: 28483--28609 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
28473 ATTAAATTCG
28483 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
*
28516 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
* * *
28549 CGTTGCGATTTTTATTTTGCATTGCGATGCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
28582 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
28610 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 2 0.02
33 78 0.94
35 3 0.04
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:28559 original size:66 final size:66
Alignment explanation
Indices: 28476--28608 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
28466 ACGCGAAATT
*
28476 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATGCCCTCGTTGCGATTTTCATTTCGCATTGC
28541 G
66 G
* * *
28542 AAATTCGCGTTGCGATTTTTATTTTGCATTGCGATGCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATGCCCTCGTTGCGATTTTCATTTCGCATTGC
28607 G
66 G
28608 A
1 A
28609 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATGCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:31967 original size:21 final size:20
Alignment explanation
Indices: 31920--31971 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
31910 TTTTCCTAAT
*
31920 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
* **
31940 TCACAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
31961 TCGCAATGCGA
1 TCGCAATGCGA
31972 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:32045 original size:20 final size:20
Alignment explanation
Indices: 31956--32047 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
31946 TGCGAATTTG
* *
31956 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
31976 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
*
31996 ACAAAATCGCAACGAGA-ATCT
1 -GAAAATCGCAACGAGATA-CT
*** *
32017 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
32037 GAAAATCGCAA
1 GAAAATCGCAA
32048 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:32542 original size:14 final size:14
Alignment explanation
Indices: 32523--32559 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
32513 CATCAATTAA
32523 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
32537 ACAAATCATCTTTT
1 ACAAATCAACATTT
32551 ACAAATCAA
1 ACAAATCAA
32560 TTAAACAATC
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:34307 original size:18 final size:18
Alignment explanation
Indices: 34281--34325 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
34271 GTCGATCGGA
*
34281 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
34299 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
34317 TGATGGCTC
1 TGATGGCTC
34326 CGAAGTGGAG
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:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:35689 original size:20 final size:20
Alignment explanation
Indices: 35641--35699 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
35631 TATAGTTTCT
** *
35641 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
35661 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
35681 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
35700 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:36272 original size:18 final size:20
Alignment explanation
Indices: 36168--36300 Score: 112
Period size: 20 Copynumber: 6.7 Consensus size: 20
36158 CGCTTTGAAA
*
36168 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
36189 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
36209 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
36229 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
36250 ATCGCATTGCGATA-T-AGT
1 ATCGCATTGCGATAGTCAGT
36268 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
36288 ATCGCATTGCGAT
1 ATCGCATTGCGAT
36301 TTTCCTATTT
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
18 17 0.18
19 4 0.04
20 48 0.51
21 23 0.24
22 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:36298 original size:59 final size:59
Alignment explanation
Indices: 36168--36341 Score: 197
Period size: 59 Copynumber: 2.9 Consensus size: 59
36158 CGCTTTGAAA
* * * *
36168 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATA-T-AGTATCGCATTGCGAAAGTCAGT
* * * *
36229 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATATAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGATATAGTATCGCATTGCGAAAGTCAGT
* * *
36288 ATCGCATTGCGATTTTCCTATT-TCGCGTTGCGATTTACTTATTCGCATTGCGAA
1 ATCGCATTGCGATTTT-GTATTATCGCGTTGCGATATA-GTA-TCGCATTGCGAA
36342 TTGGGAAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
59 47 0.49
60 7 0.07
61 41 0.43
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (59 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGATATAGTATCGCATTGCGAAAGTCAGT
Found at i:36338 original size:20 final size:21
Alignment explanation
Indices: 36289--36340 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
36279 ATAGTCAGTA
*
36289 TCGCATTGCGATTTTCCTATT
1 TCGCATTGCGATTTACCTATT
* *
36310 TCGCGTTGCGATTTACTTA-T
1 TCGCATTGCGATTTACCTATT
36330 TCGCATTGCGA
1 TCGCATTGCGA
36341 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTACCTATT
Found at i:36962 original size:29 final size:29
Alignment explanation
Indices: 36930--37036 Score: 119
Period size: 29 Copynumber: 3.7 Consensus size: 29
36920 TAAATACACA
36930 TTATTCTT-TTTGTAACTTAAAAATATATT
1 TTATTCTTATTT-TAACTTAAAAATATATT
*
36959 TTATTCTTATTTTAACTTAAAAATGTATT
1 TTATTCTTATTTTAACTTAAAAATATATT
* ** * *
36988 TTAATCTTAGCTTAAATT-AAAATATAAT
1 TTATTCTTATTTTAACTTAAAAATATATT
* *
37016 TTATTTTTATCTTAACTTAAA
1 TTATTCTTATTTTAACTTAAA
37037 TATTTATATT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 22 0.34
29 40 0.62
30 3 0.05
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.52
Consensus pattern (29 bp):
TTATTCTTATTTTAACTTAAAAATATATT
Found at i:37106 original size:30 final size:30
Alignment explanation
Indices: 37070--37421 Score: 154
Period size: 30 Copynumber: 12.2 Consensus size: 30
37060 ATTTTAAATC
* *
37070 TAAGATAAAAATATAATATGTTTTTTTAGT
1 TAAGATAAAAATATAATATATTTTTATAGT
*
37100 TAAGATAAAAATAAAATATATTTTTATAG-
1 TAAGATAAAAATATAATATATTTTTATAGT
* *
37129 T----T-AAAATA-AAAATATTTTTA-AAT
1 TAAGATAAAAATATAATATATTTTTATAGT
* *
37152 TAAGATAAGAATAAAATATATGTTTTA-AGT
1 TAAGATAAAAATATAATATAT-TTTTATAGT
* * *
37182 TAAAATAAGAAT-TAAT-TATATTTAATAGTT
1 TAAGATAAAAATATAATATAT-TTTTATAG-T
* * * * *
37212 TAAGGTGAAAATAGAATATA-TTTAATAATT
1 TAAGATAAAAATATAATATATTTTTAT-AGT
* * * * *
37242 TAAGCTAAGAATATAATTTA-TGTAATTAGT
1 TAAGATAAAAATATAATATATTTTTA-TAGT
* *
37272 TAAG--AATAAGAT-ATAT-TTTTTA-AGT
1 TAAGATAAAAATATAATATATTTTTATAGT
* * *
37297 TGAGATAAAGATTAAAATATATTTTTA-AGT
1 TAAGATAAA-AATATAATATATTTTTATAGT
* * * *
37327 TAAAATAAGAATAAAATATATTTTTA-GGT
1 TAAGATAAAAATATAATATATTTTTATAGT
* * * * *
37356 TAAGACAAGAGTAAAATATA-TTTAATAAGT
1 TAAGATAAAAATATAATATATTTTTAT-AGT
* *
37386 TAATATAAAAATAAAATATATTTTTA-ATGT
1 TAAGATAAAAATATAATATATTTTTATA-GT
37416 TAAGAT
1 TAAGAT
37422 GTAAAATTAA
Statistics
Matches: 247, Mismatches: 51, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
22 1 0.00
23 12 0.05
24 6 0.02
25 7 0.03
27 9 0.04
28 24 0.10
29 52 0.21
30 125 0.51
31 9 0.04
32 2 0.01
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.40
Consensus pattern (30 bp):
TAAGATAAAAATATAATATATTTTTATAGT
Found at i:37133 original size:25 final size:25
Alignment explanation
Indices: 37105--37186 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 25
37095 TTAGTTAAGA
37105 TAAAAATAAAATATATTTTTATAGT
1 TAAAAATAAAATATATTTTTATAGT
*
37130 T-AAAATAAAA-ATATTTTTAAATTAAGA
1 TAAAAATAAAATATATTTTT--A-T-AGT
*
37157 TAAGAATAAAATATATGTTTTA-AGT
1 TAAAAATAAAATATAT-TTTTATAGT
37182 TAAAA
1 TAAAA
37187 TAAGAATTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 8 0.17
24 9 0.20
25 8 0.17
26 1 0.02
27 3 0.07
28 9 0.20
29 4 0.09
30 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
TAAAAATAAAATATATTTTTATAGT
Found at i:37154 original size:22 final size:23
Alignment explanation
Indices: 37107--37164 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
37097 AGTTAAGATA
*
37107 AAAATAAAATATATTTTTATAGTT
1 AAAATAAAA-ATATTTTTATAATT
37131 AAAATAAAAATATTTTTA-AATT
1 AAAATAAAAATATTTTTATAATT
* *
37153 AAGATAAGAATA
1 AAAATAAAAATA
37165 AAATATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 9 0.29
24 9 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (23 bp):
AAAATAAAAATATTTTTATAATT
Found at i:37224 original size:82 final size:82
Alignment explanation
Indices: 37057--37211 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 82
37047 TTAATTTGAT
* * * * *
37057 AATATTTTAAATCTAAGATAAAAATATAATATGTTTTTTTAGTTAAGATAAAAATAAAATATATT
1 AATATTTTAAATCTAAGATAAAAATAAAATATATGTTTTAAGTTAAAATAAAAATAAAATATATT
*
37122 TTTATAGTTAAAATAAA
66 TTAATAGTTAAAATAAA
* * * *
37139 AATATTTTTAAAT-TAAGATAAGAATAAAATATATGTTTTAAGTTAAAATAAGAATTAATTATA-
1 AATA-TTTTAAATCTAAGATAAAAATAAAATATATGTTTTAAGTTAAAATAAAAATAAAATATAT
37202 TTTAATAGTT
65 TTTAATAGTT
37212 TAAGGTGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 9 0.15
82 45 0.73
83 8 0.13
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (82 bp):
AATATTTTAAATCTAAGATAAAAATAAAATATATGTTTTAAGTTAAAATAAAAATAAAATATATT
TTAATAGTTAAAATAAA
Found at i:37297 original size:25 final size:28
Alignment explanation
Indices: 37269--37360 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 28
37259 TTATGTAATT
37269 AGTTAAGAATAAGA-T-ATAT-TTTTTA
1 AGTTAAGAATAAGATTAATATATTTTTA
*
37294 AGTTGAG-ATAAAGATTAAAATATATTTTTA
1 AGTTAAGAAT-AAGATT--AATATATTTTTA
*
37324 AGTTAA-AATAAGAATAAAATATATTTTTA
1 AGTTAAGAATAAG-AT-TAATATATTTTTA
*
37353 GGTTAAGA
1 AGTTAAGA
37361 CAAGAGTAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
24 2 0.04
25 10 0.19
26 1 0.02
29 24 0.45
30 16 0.30
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (28 bp):
AGTTAAGAATAAGATTAATATATTTTTA
Found at i:37399 original size:59 final size:59
Alignment explanation
Indices: 37276--37421 Score: 186
Period size: 59 Copynumber: 2.4 Consensus size: 59
37266 ATTAGTTAAG
* * * * *
37276 AATAAGATATATTTTTTAAGTTGAGATAAAGATTAAAATATATTTTTAAGTTAAAATAAG
1 AATAAAATATA-TTTTTAAGTTAAGATAAAGAGTAAAATATATTTATAAGTTAAAATAAA
* * *
37336 AATAAAATATATTTTTAGGTTAAGA-CAAGAGTAAAATATATTTAATAAGTTAATATAAA
1 AATAAAATATATTTTTAAGTTAAGATAAAGAGTAAAATATATTT-ATAAGTTAAAATAAA
37395 AATAAAATATATTTTTAATGTTAAGAT
1 AATAAAATATATTTTTAA-GTTAAGAT
37422 GTAAAATTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 16 0.22
59 41 0.55
60 17 0.23
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.39
Consensus pattern (59 bp):
AATAAAATATATTTTTAAGTTAAGATAAAGAGTAAAATATATTTATAAGTTAAAATAAA
Found at i:37449 original size:18 final size:18
Alignment explanation
Indices: 37408--37457 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
37398 AAAATATATT
37408 TTTAATGTTAAGATGTAAA
1 TTTAAT-TTAAGATGTAAA
* * *
37427 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGTAAA
*
37445 TTTAAGTTAAGAT
1 TTTAATTTAAGAT
37458 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (18 bp):
TTTAATTTAAGATGTAAA
Found at i:39380 original size:29 final size:30
Alignment explanation
Indices: 39327--39389 Score: 69
Period size: 29 Copynumber: 2.1 Consensus size: 30
39317 AAACACCGGG
* *
39327 TTAGTGTCCAAATTGTAAAATTTTAGAA-T
1 TTAGTGACCAAATTGTAAAATTTTAAAAGT
39356 TTAGTGACCAAATTAG-ATAAA-TTTAAAAGT
1 TTAGTGACCAAATT-GTA-AAATTTTAAAAGT
39386 TTAG
1 TTAG
39390 GACTTAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.38
Consensus pattern (30 bp):
TTAGTGACCAAATTGTAAAATTTTAAAAGT
Found at i:40208 original size:20 final size:19
Alignment explanation
Indices: 40166--40218 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
40156 ACCAAAGAGT
*
40166 AGTACCGATACCATATGCA
1 AGTACCGATACCATATACA
*
40185 AGTACTGATACCATTATACA
1 AGTACCGATACCA-TATACA
* *
40205 AGTATCAATACCAT
1 AGTACCGATACCAT
40219 TTTTATAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (19 bp):
AGTACCGATACCATATACA
Found at i:47375 original size:20 final size:19
Alignment explanation
Indices: 47331--47429 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 19
47321 AAATAACCAA
47331 CGAATTCGCAACTCAATTT
1 CGAATTCGCAACTCAATTT
*
47350 CGAATTCGCAA-TACAGTTT
1 CGAATTCGCAACT-CAATTT
47369 CCGAATTCGCAACTCGAATTT
1 -CGAATTCGCAACTC-AATTT
* * **
47390 AGAATTCGCAACACAAAAGT
1 CGAATTCGCAACTC-AATTT
47410 CGAATTCGCAACTCGAATTT
1 CGAATTCGCAACTC-AATTT
47430 TTTTTTCGCA
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
18 1 0.02
19 16 0.25
20 42 0.66
21 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (19 bp):
CGAATTCGCAACTCAATTT
Found at i:47399 original size:40 final size:40
Alignment explanation
Indices: 47331--47429 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
47321 AAATAACCAA
* * ***
47331 CGAATTCGCAACTC-AATTTCGAATTCGCAATAC-AGTTT
1 CGAATTCGCAACTCGAATTTAGAATTCGCAACACAAAAGT
47369 CCGAATTCGCAACTCGAATTTAGAATTCGCAACACAAAAGT
1 -CGAATTCGCAACTCGAATTTAGAATTCGCAACACAAAAGT
47410 CGAATTCGCAACTCGAATTT
1 CGAATTCGCAACTCGAATTT
47430 TTTTTTCGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 14 0.26
40 37 0.70
41 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (40 bp):
CGAATTCGCAACTCGAATTTAGAATTCGCAACACAAAAGT
Found at i:47456 original size:40 final size:40
Alignment explanation
Indices: 47432--47510 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
47422 TCGAATTTTT
* *
47432 TTTTCGCAACTCGATT-TTTAAATTCGCAACACAAGTTTCG
1 TTTTCACAACTCGATTATCT-AATTCGCAACACAAGTTTCG
* *
47472 TTTTCACAACTCGATTATCTAATTCGCAACGCGAGTTTC
1 TTTTCACAACTCGATTATCTAATTCGCAACACAAGTTTC
47511 AATTTTGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (40 bp):
TTTTCACAACTCGATTATCTAATTCGCAACACAAGTTTCG
Found at i:47457 original size:20 final size:20
Alignment explanation
Indices: 47372--47461 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
47362 ACAGTTTCCG
**
47372 AATTCGCAACTCGAATTTAG
1 AATTCGCAACTCGAATTTTT
* * ** **
47392 AATTCGCAACACAAAAGTCG
1 AATTCGCAACTCGAATTTTT
47412 AATTCGCAACTCGAATTTTT
1 AATTCGCAACTCGAATTTTT
**
47432 TTTTCGCAACTCG-ATTTTT
1 AATTCGCAACTCGAATTTTT
47451 AAATTCGCAAC
1 -AATTCGCAAC
47462 ACAAGTTTCG
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
19 6 0.11
20 48 0.89
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.32
Consensus pattern (20 bp):
AATTCGCAACTCGAATTTTT
Found at i:47498 original size:60 final size:58
Alignment explanation
Indices: 47372--47549 Score: 160
Period size: 60 Copynumber: 3.0 Consensus size: 58
47362 ACAGTTTCCG
* ** ** *
47372 AATTCGCAACTCGAATTTAGAATTCGCAACACAAAAGTCGAATTCGCAACTCGAATT-TTT
1 AATTCGCAACTCGATTTTA-AATTCGCAACAC-AATTTCGTTTTCGCAACTCG-ATTATCT
** *
47432 TTTTCGCAACTCGATTTTTAAATTCGCAACACAAGTTTCGTTTTCACAACTCGATTATCT
1 AATTCGCAACTCGA-TTTTAAATTCGCAACACAA-TTTCGTTTTCGCAACTCGATTATCT
* * * * *
47492 AATTCGCAACGCGAGTTTCAATTTTGCAACACGAATTTTGTTTTCGCAACTCGATTAT
1 AATTCGCAACTCGA-TTTTAAATTCGCAACAC-AATTTCGTTTTCGCAACTCGATTAT
47550 ACAGACTTGC
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
59 5 0.05
60 85 0.89
61 6 0.06
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (58 bp):
AATTCGCAACTCGATTTTAAATTCGCAACACAATTTCGTTTTCGCAACTCGATTATCT
Found at i:47540 original size:20 final size:20
Alignment explanation
Indices: 47414--47545 Score: 74
Period size: 20 Copynumber: 6.6 Consensus size: 20
47404 AAAAGTCGAA
*
47414 TTCGCAACTCGAATTTTTTT
1 TTCGCAACTCGAATTTTATT
* **
47434 TTCGCAACTCGATTTTTAAA
1 TTCGCAACTCGAATTTTATT
* **
47454 TTCGCAACAC-AAGTTTCGTT
1 TTCGCAACTCGAA-TTTTATT
* *
47474 TTCACAACTCG-ATTATCTA-A
1 TTCGCAACTCGAATT-T-TATT
* * *
47494 TTCGCAACGCGAGTTTCAATT
1 TTCGCAACTCGAATTT-TATT
* *
47515 TT-GCAACACGAATTTTGTT
1 TTCGCAACTCGAATTTTATT
47534 TTCGCAACTCGA
1 TTCGCAACTCGA
47546 TTATACAGAC
Statistics
Matches: 80, Mismatches: 25, Indels: 14
0.67 0.21 0.12
Matches are distributed among these distances:
19 7 0.09
20 69 0.86
21 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (20 bp):
TTCGCAACTCGAATTTTATT
Found at i:47904 original size:20 final size:20
Alignment explanation
Indices: 47879--48010 Score: 156
Period size: 20 Copynumber: 6.6 Consensus size: 20
47869 TATATGCCAC
* * *
47879 TCGAGTTGTGAATTCGAAAT
1 TCGAGTTGCGAATTTGAATT
** *
47899 TCGAGTTATGAATTTGATTT
1 TCGAGTTGCGAATTTGAATT
*
47919 TCGAGTTGCGCATTTGAATT
1 TCGAGTTGCGAATTTGAATT
* *
47939 TCGAGTTGTGAATTTGAGTT
1 TCGAGTTGCGAATTTGAATT
47959 TCGAGTTGCGAATTTGAATT
1 TCGAGTTGCGAATTTGAATT
* *
47979 TCGAGTTGCGAATTCGATTT
1 TCGAGTTGCGAATTTGAATT
*
47999 TCAAGTTGCGAA
1 TCGAGTTGCGAA
48011 ATCCATATTC
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 96 1.00
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGAGTTGCGAATTTGAATT
Found at i:47923 original size:40 final size:40
Alignment explanation
Indices: 47879--48010 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
47869 TATATGCCAC
* * * *
47879 TCGAGTTGTGAATTCGAAATTCGAGTTATGAATTTGATTT
1 TCGAGTTGCGAATTTGAATTTCGAGTTGTGAATTTGATTT
* *
47919 TCGAGTTGCGCATTTGAATTTCGAGTTGTGAATTTGAGTT
1 TCGAGTTGCGAATTTGAATTTCGAGTTGTGAATTTGATTT
* *
47959 TCGAGTTGCGAATTTGAATTTCGAGTTGCGAATTCGATTT
1 TCGAGTTGCGAATTTGAATTTCGAGTTGTGAATTTGATTT
*
47999 TCAAGTTGCGAA
1 TCGAGTTGCGAA
48011 ATCCATATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (40 bp):
TCGAGTTGCGAATTTGAATTTCGAGTTGTGAATTTGATTT
Found at i:47972 original size:60 final size:60
Alignment explanation
Indices: 47879--48098 Score: 176
Period size: 60 Copynumber: 3.6 Consensus size: 60
47869 TATATGCCAC
* * * *
47879 TCGAGTTGTGAATTCGAAATTCGAGTTATGAATTTGATTTTCGAGTTGCGCATTTGAATT
1 TCGAGTTGTGAATTCGAAATTCGAGTTACGAATTTGAATTTCGAGTTGCGAATTCGAATT
* ** * *
47939 TCGAGTTGTGAATTTGAGTTTCGAGTTGCGAATTTGAATTTCGAGTTGCGAATTCGATTT
1 TCGAGTTGTGAATTCGAAATTCGAGTTACGAATTTGAATTTCGAGTTGCGAATTCGAATT
* * * * * * * * * *
47999 TCAAGTTGCGAAATCCATATTCAAGTTACAAATTCGAAAATT-GAGTTGCGAAATTGACGGATT
1 TCGAGTTGTGAATTCGAAATTCGAGTTACGAATTTG-AATTTCGAGTTGCG-AATT--CGAATT
* * *
48062 T-GAGTTGCGAAATCCG-AATTCGAGTTGCGAATTTGAA
1 TCGAGTTGTG-AATTCGAAATTCGAGTTACGAATTTGAA
48099 AACTGAGTTG
Statistics
Matches: 123, Mismatches: 32, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
60 84 0.68
61 10 0.08
62 21 0.17
63 8 0.07
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (60 bp):
TCGAGTTGTGAATTCGAAATTCGAGTTACGAATTTGAATTTCGAGTTGCGAATTCGAATT
Found at i:48088 original size:20 final size:20
Alignment explanation
Indices: 47879--48092 Score: 95
Period size: 20 Copynumber: 10.6 Consensus size: 20
47869 TATATGCCAC
*
47879 TCGAGTTGTG-AATTCGAAAT
1 TCGAGTTGCGAAATTCG-AAT
** * *
47899 TCGAGTTATG-AATTTGATTT
1 TCGAGTTGCGAAATTCGA-AT
* *
47919 TCGAGTTGCG-CATTTGAATT
1 TCGAGTTGCGAAATTCGAA-T
* * *
47939 TCGAGTTGTG-AATTTGAGTT
1 TCGAGTTGCGAAATTCGA-AT
*
47959 TCGAGTTGCG-AATTTGAATT
1 TCGAGTTGCGAAATTCGAA-T
*
47979 TCGAGTTGCG-AATTCGATTT
1 TCGAGTTGCGAAATTCGA-AT
* *
47999 TCAAGTTGCGAAA-TCCATAT
1 TCGAGTTGCGAAATTCGA-AT
* *
48019 TCAAGTTAC-AAATTCGAAAAT
1 TCGAGTTGCGAAATTCG--AAT
*
48040 T-GAGTTGCGAAATTGACGGAT
1 TCGAGTTGCGAAATT--CGAAT
* *
48061 TTGAGTTGCGAAATCCGAAT
1 TCGAGTTGCGAAATTCGAAT
48081 TCGAGTTGCGAA
1 TCGAGTTGCGAA
48093 TTTGAAAACT
Statistics
Matches: 156, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
19 4 0.03
20 124 0.79
21 13 0.08
22 13 0.08
23 2 0.01
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (20 bp):
TCGAGTTGCGAAATTCGAAT
Found at i:48131 original size:62 final size:62
Alignment explanation
Indices: 48002--48136 Score: 146
Period size: 62 Copynumber: 2.2 Consensus size: 62
47992 TCGATTTTCA
* ** *
48002 AGTTGCGAAATCCATATTCAAGTTACAAATTCGAAAATTGAGTTGCGAAATTGACGGATTTG
1 AGTTGCGAAATCCATATTCAAGTTACAAATTCGAAAACTGAGTTGCGAAATTGACAAATTCG
* * * * * *
48064 AGTTGCGAAATCCGA-ATTCGAGTTGCGAATTTGAAAACTGAGTTGCGAATTTGGCAAATTCG
1 AGTTGCGAAATCC-ATATTCAAGTTACAAATTCGAAAACTGAGTTGCGAAATTGACAAATTCG
* *
48126 TGTTGCAAAAT
1 AGTTGCGAAAT
48137 GTAAATTCTT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 59 0.98
63 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (62 bp):
AGTTGCGAAATCCATATTCAAGTTACAAATTCGAAAACTGAGTTGCGAAATTGACAAATTCG
Found at i:60430 original size:140 final size:139
Alignment explanation
Indices: 60141--61112 Score: 1296
Period size: 139 Copynumber: 6.9 Consensus size: 139
60131 TTATAATTGC
* * * * * *
60141 CCTATCATGTTTGAGGGGATGTAACAATGTGGTGAAAGCGCTTTTTATGGGACGTGTCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCC--
* * * *** *
60206 TTTTTTTGTCAGAAAATAGGTTATAATTGCCCTAATACGTGTGATATCCCCCGGTATGGTACTAT
64 TTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTAT
*
60271 TCACGTCAACA
129 TCATGTCAACA
*
60282 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGTGCCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCC-T
* * *
60347 TTTTTTGTTAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCTCTGGCGGGGCACTATT
65 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATT
*
60412 TATGTCAACA
130 CATGTCAACA
* * * ** * *
60422 CCTATCATGTTTGAGGAGATGCAACAATGTGGTGAAATCGCTTCTTGTGGGGGGGCGCATTTTCT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGT-GGGACGCGCCTTTCCT
* * * * * *
60487 TTTTTCGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATATCCCCCAGAGGGGAACTATT
65 TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATT
**
60552 CACATCAACA
130 CATGTCAACA
* * * * * * *
60562 CCTGTCATTTTTTAGGGGACACAACAATGTGGTGAAAGCGCTTCTTGTGGGAAGCGACTTTTCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTT
* * * *
60627 TTTTTATCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATTTCCCCCGACGGGGCGCTATTC
66 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTC
60692 ATGTCAACA
131 ATGTCAACA
* * *
60701 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCACTTCTTGTGGGACACGTCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTT
* **
60766 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTAGGGCACTATTC
66 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTC
*
60831 ATATCAACA
131 ATGTCAACA
**** * *
60840 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAATATTTCTTGTGGGACGCGCCTTTACAT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTT
60905 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTC
66 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTC
60970 ATGTCAACA
131 ATGTCAACA
* ** *
60979 CCTATCATGTTTGAAGGGATACAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCACCTTTCCTT
1 CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCC--
* **
61044 TCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTAGGGCACTA
64 T-TTTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTA
61109 TTCA
128 TTCA
61113 CATCAACGCC
Statistics
Matches: 727, Mismatches: 100, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
139 380 0.52
140 215 0.30
141 68 0.09
142 64 0.09
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (139 bp):
CCTATCATGTTTGAGGGGACGCAACAATGTGGTGAAAGCGCTTCTTGTGGGACGCGCCTTTCCTT
TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTGATGTCCCCCGGCGGGGCACTATTC
ATGTCAACA
Found at i:62036 original size:21 final size:21
Alignment explanation
Indices: 61986--62037 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
61976 GGTATCATAA
* *
61986 AACCCTGTGGGCTGGGTATGT
1 AACCCTGTGGGCTAGGAATGT
* *
62007 -ACCTATGTGGTCTAGGAATGT
1 AACC-CTGTGGGCTAGGAATGT
62028 AACCCTGTGG
1 AACCCTGTGG
62038 AGATGGAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 3 0.12
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (21 bp):
AACCCTGTGGGCTAGGAATGT
Found at i:62123 original size:42 final size:43
Alignment explanation
Indices: 62053--62156 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 43
62043 GAATATGAAA
62053 TGGTGGG-TTGAGCATATACCCATACGGAGATGACATAC-AAAC
1 TGGTGGGCTTGAGCATATACCCATACGGAGATGACAT-CTAAAC
** * * *
62095 TGGTGGGCTTG-GCATATACCTTTGCGGAGATGGCATCTGAAC
1 TGGTGGGCTTGAGCATATACCCATACGGAGATGACATCTAAAC
*
62137 TGGTGGGC--GAGCATGTACCC
1 TGGTGGGCTTGAGCATATACCC
62157 CTGTGGTATC
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 9 0.17
42 39 0.75
43 3 0.06
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
TGGTGGGCTTGAGCATATACCCATACGGAGATGACATCTAAAC
Found at i:62739 original size:17 final size:17
Alignment explanation
Indices: 62717--62752 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
62707 AAACTGAAAT
62717 ATAAATAT-ATAATTCTA
1 ATAAATATAAT-ATTCTA
62734 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
62751 AT
1 AT
62753 TATATCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:63919 original size:15 final size:15
Alignment explanation
Indices: 63879--63928 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
63869 ATAATTAATT
*
63879 AATAA-ATTTAAATA
1 AATAATATTTATATA
*
63893 AATAATAATTATATA
1 AATAATATTTATATA
*
63908 AATATTATTTAT-TA
1 AATAATATTTATATA
63922 AA-AATAT
1 AATAATAT
63929 AACATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.13
14 9 0.30
15 17 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATATTTATATA
Found at i:63957 original size:21 final size:21
Alignment explanation
Indices: 63911--63965 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 21
63901 TTATATAAAT
*
63911 ATTATTTATTAAAAATATAAC
1 ATTATTTATTAAAAATAAAAC
63932 ATTATTT-TTAAAAA-AAAAC
1 ATTATTTATTAAAAATAAAAC
63951 --TATTTA-TAGAAAATA
1 ATTATTTATTA-AAAATA
63966 TATAACAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 5 0.17
20 7 0.23
21 7 0.23
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTATTTATTAAAAATAAAAC
Found at i:63997 original size:16 final size:16
Alignment explanation
Indices: 63973--64003 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63963 ATATATAACA
*
63973 ACTATTTAAAAAATAT
1 ACTAATTAAAAAATAT
63989 ACTAATTAAAAAATA
1 ACTAATTAAAAAATA
64004 ATTTCTTATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (16 bp):
ACTAATTAAAAAATAT
Found at i:67327 original size:2 final size:2
Alignment explanation
Indices: 67309--67364 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
67299 TGCTGCAAAA
* * * * *
67309 TC TC TG TC TC TC CC TC TC TC TC TC TC CC TT TC TC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
67351 TT TC TC TC TC TC TC
1 TC TC TC TC TC TC TC
67365 GTGTAGTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.02, T:0.48
Consensus pattern (2 bp):
TC
Found at i:67332 original size:14 final size:14
Alignment explanation
Indices: 67309--67362 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
67299 TGCTGCAAAA
*
67309 TCTCTGTCTCTCCC
1 TCTCTCTCTCTCCC
67323 TCTCTCTCTCTCCC
1 TCTCTCTCTCTCCC
*
67337 TTTCTCTCTCTCCC
1 TCTCTCTCTCTCCC
*
67351 TTTCTCTCTCTC
1 TCTCTCTCTCTC
67363 TCGTGTAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.02, T:0.48
Consensus pattern (14 bp):
TCTCTCTCTCTCCC
Found at i:76109 original size:64 final size:64
Alignment explanation
Indices: 76036--76259 Score: 229
Period size: 64 Copynumber: 3.5 Consensus size: 64
76026 TGTTTGAATG
* * *
76036 TGCACCGATGCATTAGTAGTGCATCGATGCA-CTCATTTAA-AATAAAGACATCGAATGCAATTC
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCA-TTAATAATAAA-ACATCGAATGCAA-TC
76099 -A
63 GA
* * *
76100 TGCATCGATGCATAAGTAATGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATCGG
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGA
* ** ** * ** **
76164 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATACTACATCGAATACCTTTTA
1 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGA
* **
76228 TGCACCGATGCATAAGTCTTGCATCGATGCAT
1 TGCATCGATGCATAAGTAGTGCATCGATGCAT
76260 ACCTTCATTA
Statistics
Matches: 134, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
63 2 0.01
64 124 0.93
65 8 0.06
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGA
Found at i:76585 original size:27 final size:26
Alignment explanation
Indices: 76538--76595 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
76528 GATAATTATG
*
76538 ATGATATGATATGTGATATGAG-AAC
1 ATGATATGATAAGTGATATGAGCAAC
*
76563 ATGATATGAATTAAGTGATATGAGCTAC
1 ATGATATG-A-TAAGTGATATGAGCAAC
76591 ATGAT
1 ATGAT
76596 CTACGCGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.29
26 1 0.04
27 12 0.43
28 7 0.25
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (26 bp):
ATGATATGATAAGTGATATGAGCAAC
Found at i:76809 original size:15 final size:15
Alignment explanation
Indices: 76789--76872 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
76779 GTTTAAAGGC
76789 ACATATGAACAGTTT
1 ACATATGAACAGTTT
**
76804 ACATATGTTTAA-AG-GA
1 ACATATG---AACAGTTT
76820 ACATATGAACAGTTT
1 ACATATGAACAGTTT
**
76835 ACATATGTTTAA-AG-GC
1 ACATATG---AACAGTTT
76851 ACATATGAACAGTTT
1 ACATATGAACAGTTT
76866 ACATATG
1 ACATATG
76873 TTTAAAGGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 4 0.08
15 21 0.41
16 14 0.27
17 4 0.08
18 4 0.08
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (15 bp):
ACATATGAACAGTTT
Found at i:76810 original size:31 final size:31
Alignment explanation
Indices: 76769--76990 Score: 381
Period size: 31 Copynumber: 7.2 Consensus size: 31
76759 AGAGTCGAGG
*
76769 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
76800 GTTTACATATGTTTAAAGGAACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
76831 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
76862 GTTTACATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
76893 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
* *
76924 GTTTATATATGTTTAAAGGAACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
76955 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
76986 GTTTA
1 GTTTA
76991 TATTGTGACC
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 180 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.34
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:79475 original size:64 final size:64
Alignment explanation
Indices: 79402--79585 Score: 205
Period size: 64 Copynumber: 2.9 Consensus size: 64
79392 TGTTTGAATG
* * * *
79402 TGCACCGATGCATTGGTAGTGCATCGATGCA-CTCATTTAA-AATAAAGACATTGAATGCAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCA-TTAATAATAAA-ACATCGAATGCAA-TC
79465 -A
63 GA
* * *
79466 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATCGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGA
** **
79530 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCCAGCAATAATACTACATCGAAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAAT
79586 ATCTTTTATG
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
63 2 0.02
64 91 0.88
65 10 0.10
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATCGA
Found at i:79598 original size:64 final size:64
Alignment explanation
Indices: 79449--79625 Score: 191
Period size: 64 Copynumber: 2.8 Consensus size: 64
79439 TAAAATAAAG
* **
79449 ACATTGAATGCAATTC-ATGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAA
1 ACATCGAATGCAA-TCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
* * *
79513 ACATCGAATGCAATCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAAT-ACT
1 ACATCGAATGCAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGA-A
* * ** *
79577 ACATCGAATATC-TTTTATGCATTGATGCATCAA-TAGTGCATCGATGCAT
1 ACATCGAAT-GCAATCGATGCATCGATGCAT-AAGTAGTGCATCGATGCAT
79626 ACCTTCATTA
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 3 0.03
64 90 0.94
65 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
ACATCGAATGCAATCGATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAATGAA
Found at i:80176 original size:31 final size:31
Alignment explanation
Indices: 80135--80263 Score: 222
Period size: 31 Copynumber: 4.2 Consensus size: 31
80125 AGAGTCGAGG
* *
80135 GTTTATATATGTTTAAAGGCATATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
80166 GTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
80197 GTTTATATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
*
80228 GTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTACATATGTTTAAAGGCACATATGAACA
80259 GTTTA
1 GTTTA
80264 TATTGTGACC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 92 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (31 bp):
GTTTACATATGTTTAAAGGCACATATGAACA
Found at i:80205 original size:62 final size:62
Alignment explanation
Indices: 80135--80266 Score: 246
Period size: 62 Copynumber: 2.1 Consensus size: 62
80125 AGAGTCGAGG
* *
80135 GTTTATATATGTTTAAAGGCATATATGAACAGTTTACATATGTTTAAAGGCACATATGAACA
1 GTTTATATATGTTTAAAGGCACATATGAACAGTCTACATATGTTTAAAGGCACATATGAACA
80197 GTTTATATATGTTTAAAGGCACATATGAACAGTCTACATATGTTTAAAGGCACATATGAACA
1 GTTTATATATGTTTAAAGGCACATATGAACAGTCTACATATGTTTAAAGGCACATATGAACA
80259 GTTTATAT
1 GTTTATAT
80267 TGTGACCTCT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 68 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (62 bp):
GTTTATATATGTTTAAAGGCACATATGAACAGTCTACATATGTTTAAAGGCACATATGAACA
Found at i:80253 original size:16 final size:16
Alignment explanation
Indices: 80203--80254 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
80193 AACAGTTTAT
80203 ATATGTTTAAAGGCAC
1 ATATGTTTAAAGGCAC
*
80219 ATATG---AACAGTCTAC
1 ATATGTTTAA-AGGC-AC
80234 ATATGTTTAAAGGCAC
1 ATATGTTTAAAGGCAC
80250 ATATG
1 ATATG
80255 AACAGTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 7 0.24
16 12 0.41
17 3 0.10
18 2 0.07
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (16 bp):
ATATGTTTAAAGGCAC
Found at i:87421 original size:2 final size:2
Alignment explanation
Indices: 87377--87413 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
87367 CCTCCCCCCT
87377 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
87414 TTTCTCTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:88679 original size:20 final size:20
Alignment explanation
Indices: 88649--88746 Score: 142
Period size: 20 Copynumber: 4.8 Consensus size: 20
88639 TGCGATTTTC
88649 CAAATTCGCAATGCGAATACG
1 CAAA-TCGCAATGCGAATACG
* *
88670 TAAATCGCAATACGAATACG
1 CAAATCGCAATGCGAATACG
*
88690 TAAATCGCAATGCGAATACG
1 CAAATCGCAATGCGAATACG
* *
88710 CAAATCGCAATGCAAATATG
1 CAAATCGCAATGCGAATACG
88730 CAAATCGCAATGCGAAT
1 CAAATCGCAATGCGAAT
88747 TGACTATCGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 67 0.96
21 3 0.04
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAATCGCAATGCGAATACG
Found at i:88969 original size:21 final size:21
Alignment explanation
Indices: 88944--89005 Score: 97
Period size: 21 Copynumber: 2.9 Consensus size: 21
88934 GACATCCGTC
88944 CCCATCTCCGACGATATCAGT
1 CCCATCTCCGACGATATCAGT
88965 CCCATCTCCGACGATATCAGT
1 CCCATCTCCGACGATATCAGT
* *
88986 CTCCATCTCCGGCGAAATCA
1 C-CCATCTCCGACGATATCA
89006 TTCACGGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 22 0.58
22 16 0.42
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.23
Consensus pattern (21 bp):
CCCATCTCCGACGATATCAGT
Found at i:89399 original size:20 final size:20
Alignment explanation
Indices: 89374--89514 Score: 107
Period size: 20 Copynumber: 7.4 Consensus size: 20
89364 CGATTCTTGC
*
89374 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCAATTTCGT
** *
89394 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCAATTTCGT
** *
89414 GTTGCGATTTTC-ATTTCGC
1 GTTGCGATAGTCAATTTCGT
*
89433 GTTGCGAT--TC---TT-GC
1 GTTGCGATAGTCAATTTCGT
* *
89447 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAATTTCGT
*
89467 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCAATTTCGT
** *
89487 GTTGCGATTTTCATTTTCGT
1 GTTGCGATAGTCAATTTCGT
89507 GTTGCGAT
1 GTTGCGAT
89515 TTTAAGTTTC
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
14 10 0.10
15 2 0.02
16 2 0.02
17 2 0.02
19 15 0.14
20 73 0.70
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.44
Consensus pattern (20 bp):
GTTGCGATAGTCAATTTCGT
Found at i:89451 original size:53 final size:51
Alignment explanation
Indices: 89329--89495 Score: 128
Period size: 53 Copynumber: 3.1 Consensus size: 51
89319 ACTATCGCAA
89329 TGCGATTC-TGTCGTTGCGATTTTCATTTCGCGTTGCGA-TTC--TT-GCGT
1 TGCGATTCTTG-CGTTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCGT
* *
89376 TGCGATAGTCAAATTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTCATTTCGCGT
1 TGCGAT--TC---TT-GCGTTGCGATTTTCA-TTTCGCGTTGCGA-TTTCATTTCGCGT
** * * *
89435 TGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGT
1 TGCGATTCTTGCGTTGCGATTTTC-ATTTCGCGTTGCGAT-TTCA-TTTCGCGT
89489 TGCGATT
1 TGCGATT
89496 TTCATTTTCG
Statistics
Matches: 95, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
47 6 0.06
49 2 0.02
52 1 0.01
53 39 0.41
54 30 0.32
56 3 0.03
57 2 0.02
58 2 0.02
59 10 0.11
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.43
Consensus pattern (51 bp):
TGCGATTCTTGCGTTGCGATTTTCATTTCGCGTTGCGATTTCATTTCGCGT
Found at i:89460 original size:73 final size:73
Alignment explanation
Indices: 89341--89515 Score: 305
Period size: 73 Copynumber: 2.4 Consensus size: 73
89331 CGATTCTGTC
* **
89341 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGTGTTGCGATTTTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
89406 ATTTTCGT
66 ATTTTCGT
89414 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
1 GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
89479 ATTTTCGT
66 ATTTTCGT
*
89487 GTTGCGATTTTCATTTTCGTGTTGCGATT
1 GTTGCGATTTTCA-TTTCGCGTTGCGATT
89516 TTAAGTTTCA
Statistics
Matches: 97, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
73 83 0.86
74 14 0.14
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.45
Consensus pattern (73 bp):
GTTGCGATTTTCATTTCGCGTTGCGATTCTTGCGTTGCGATAGTCAAATTCGCGTTGCGATAGTC
ATTTTCGT
Found at i:89515 original size:20 final size:20
Alignment explanation
Indices: 89389--89517 Score: 128
Period size: 20 Copynumber: 6.8 Consensus size: 20
89379 GATAGTCAAA
89389 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
89409 TTCGTGTTGCGATTTTCA-T
1 TTCGTGTTGCGATTTTCATT
*
89428 TTCGCGTTGCGA--TTC---
1 TTCGTGTTGCGATTTTCATT
* ** **
89443 TT-GCGTTGCGATAGTCAAA
1 TTCGTGTTGCGATTTTCATT
* **
89462 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
89482 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
89502 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
89518 AAGTTTCAGA
Statistics
Matches: 96, Mismatches: 7, Indels: 12
0.83 0.06 0.10
Matches are distributed among these distances:
14 9 0.09
15 2 0.02
16 2 0.02
17 3 0.03
19 14 0.15
20 66 0.69
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.47
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:89524 original size:20 final size:20
Alignment explanation
Indices: 89481--89524 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
89471 CGATAGTCAT
* *
89481 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
89501 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
89521 TTTC
1 TTTC
89525 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:91399 original size:20 final size:20
Alignment explanation
Indices: 91374--91510 Score: 104
Period size: 20 Copynumber: 7.5 Consensus size: 20
91364 AAAATAGTTT
91374 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
91394 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
91410 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
** *
91427 AAAATCGCAA--C-AACA--
1 ACTATCGCAATGCGAAAATG
*
91442 A--ATCGCAACGCGAAAAATG
1 ACTATCGCAATGCG-AAAATG
91461 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
91481 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
91501 ACTATCGCAA
1 ACTATCGCAA
91511 CAAAGAATCG
Statistics
Matches: 96, Mismatches: 7, Indels: 28
0.73 0.05 0.21
Matches are distributed among these distances:
13 7 0.07
14 7 0.07
15 2 0.02
16 6 0.06
17 10 0.10
18 2 0.02
19 8 0.08
20 44 0.46
21 10 0.10
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:91521 original size:53 final size:53
Alignment explanation
Indices: 91374--91529 Score: 142
Period size: 53 Copynumber: 2.9 Consensus size: 53
91364 AAAATAGTTT
* *
91374 ACTATCGCAATGCGAAAATGACTATCGCAACGAGAGAATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAATTGACTATCGCAAC-AAAGAATCGCAATGCGAAAATG
** ** * *
91427 AAAATCGCAACAAC-AAATCG-C-AACGCGAA-AAATGACTATCGCAATGCGAAAATG
1 ACTATCGCAA-TGCGAAATTGACTATCGC-AACAAA-GA--ATCGCAATGCGAAAATG
*
91481 ACTATCGCAATGCGAATTTGACTATCGCAACAAAGAATCGCAATGCGAA
1 ACTATCGCAATGCGAAATTGACTATCGCAACAAAGAATCGCAATGCGAA
91530 TGAAAATCGC
Statistics
Matches: 78, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
50 2 0.03
51 6 0.08
52 3 0.04
53 37 0.47
54 18 0.23
55 5 0.06
56 7 0.09
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (53 bp):
ACTATCGCAATGCGAAATTGACTATCGCAACAAAGAATCGCAATGCGAAAATG
Found at i:91612 original size:13 final size:13
Alignment explanation
Indices: 91594--91620 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91584 CATTTTCGCA
91594 TGCGATAGTCATT
1 TGCGATAGTCATT
91607 TGCGATAGTCATT
1 TGCGATAGTCATT
91620 T
1 T
91621 TTGTGTTGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCGATAGTCATT
Found at i:92441 original size:18 final size:19
Alignment explanation
Indices: 92402--92443 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
92392 TTCACCTATC
92402 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
92423 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
92441 ATC
1 ATC
92444 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:92661 original size:31 final size:31
Alignment explanation
Indices: 92623--92685 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
92613 GTACCATTCC
92623 GGCAGATGAAGTGGAGAGGAAACAACTACCG
1 GGCAGATGAAGTGGAGAGGAAACAACTACCG
92654 GGCAGATGAAGTGGAGAGGAAACAACTACCG
1 GGCAGATGAAGTGGAGAGGAAACAACTACCG
92685 G
1 G
92686 AAATATTCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.37, T:0.10
Consensus pattern (31 bp):
GGCAGATGAAGTGGAGAGGAAACAACTACCG
Found at i:93931 original size:14 final size:14
Alignment explanation
Indices: 93912--93947 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
93902 ATTGTTTAAT
93912 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
93926 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
93940 TGATTTGT
1 TGATTTGT
93948 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:94123 original size:20 final size:20
Alignment explanation
Indices: 94088--94139 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
94078 AACGAGAGAT
94088 TCGCAATGCG-AAATGAAAA
1 TCGCAATGCGAAAATGAAAA
*
94107 TTGCAATGCGAAAATGAAAA
1 TCGCAATGCGAAAATGAAAA
*
94127 TCGCAACGCGAAA
1 TCGCAATGCGAAA
94140 CTAAATTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAATGCGAAAATGAAAA
Found at i:94193 original size:34 final size:33
Alignment explanation
Indices: 94149--94233 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
94139 ACTAAATTCG
*
94149 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTCCGATTCTCT
*
94183 CGTTGTGATTTTCATTTCGCATTCCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTCCGATTCTCT
* **
94216 CATTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
94234 TGCGTTGCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 32 0.71
34 13 0.29
ACGTcount: A:0.14, C:0.24, G:0.16, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTCCGATTCTCT
Found at i:94211 original size:33 final size:34
Alignment explanation
Indices: 94149--94224 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
94139 ACTAAATTCG
*
94149 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTCCGATTCTCT
*
94183 CGTTGTGATTTTCA-TTTCGCATTCCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTCCGATTCTCT
*
94216 CATTGCGAT
1 CGTTGCGAT
94225 AGTCATTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 25 0.66
34 13 0.34
ACGTcount: A:0.13, C:0.24, G:0.17, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTCCGATTCTCT
Found at i:94243 original size:20 final size:20
Alignment explanation
Indices: 94218--94269 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
94208 GATTCTCTCA
94218 TTGCGATAGTCAT-TTCTGCG
1 TTGCGATAGTCATATTC-GCG
94238 TTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATATTCGCG
94258 TTGCGATAGTCA
1 TTGCGATAGTCA
94270 AATGAATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATATTCGCG
Found at i:96687 original size:24 final size:24
Alignment explanation
Indices: 96653--96706 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
96643 CTGAAAAATC
96653 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
96677 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
96701 ATCAAA
1 ATCAAA
96707 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:96720 original size:24 final size:24
Alignment explanation
Indices: 96653--96720 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
96643 CTGAAAAATC
* * *
96653 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
96677 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
96701 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
96721 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:97575 original size:20 final size:20
Alignment explanation
Indices: 97550--97616 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
97540 AAATTCAGTA
*
97550 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGATTCGCG
97570 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGATTCGCG
*
97590 TTGCGATAGTCAGATTCGCA
1 TTGCGATAGTCAGATTCGCG
97610 TTGCGAT
1 TTGCGAT
97617 TTACGTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (20 bp):
TTGCGATAGTCAGATTCGCG
Found at i:97626 original size:20 final size:20
Alignment explanation
Indices: 97603--97659 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
97593 CGATAGTCAG
97603 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
97623 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
97643 ATTCGCATTGCGATTTA
1 ATTCGCATTGCGATTTA
97660 GGAAAATCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:97627 original size:40 final size:40
Alignment explanation
Indices: 97549--97659 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 40
97539 GAAATTCAGT
* * *
97549 ATTGCGATAGTCAGAATCGCGTTGCGATAGT-CAGATTCGC
1 ATTGCGATAGTCAGATTCGCATTGCGAT-TTACAGATTCGC
*
97589 GTTGCGATAGTCAGATTCGCATTGCGATTTAC-GTATTCGC
1 ATTGCGATAGTCAGATTCGCATTGCGATTTACAG-ATTCGC
*
97629 ATTGCGAT--TTACGTATTCGCATTGCGATTTA
1 ATTGCGATAGTCA-G-ATTCGCATTGCGATTTA
97660 GGAAAATCGC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.03
39 3 0.05
40 56 0.92
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (40 bp):
ATTGCGATAGTCAGATTCGCATTGCGATTTACAGATTCGC
Found at i:97676 original size:21 final size:20
Alignment explanation
Indices: 97652--97698 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
97642 TATTCGCATT
97652 GCGATTTAGGAAAATCGCAAC
1 GCGATTT-GGAAAATCGCAAC
*
97673 GCGAATTTGGAAAATCGCAAT
1 GCG-ATTTGGAAAATCGCAAC
97694 GCGAT
1 GCGAT
97699 AGTCAGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (20 bp):
GCGATTTGGAAAATCGCAAC
Found at i:103441 original size:238 final size:238
Alignment explanation
Indices: 103069--103545 Score: 936
Period size: 238 Copynumber: 2.0 Consensus size: 238
103059 CACTGTTCTT
103069 ATAATTTAACCTGAAACCCAAGGATTATGGTAAGTAAGCAAGTTCTAAATGTCAACAATGTTGAT
1 ATAATTTAACCTGAAACCCAAGGATTATGGTAAGTAAGCAAGTTCTAAATGTCAACAATGTTGAT
*
103134 GGAGAATTTGGATAGCGACTGTGGCACTCCCGATATTATCGGTCCGTACGTCTACAAAAAAATAC
66 GGAGAATTTGGATAGCGACTGTGGCACTCCCGATATTATCGGTCCGTACGTCTACAAAAAAACAC
103199 ACATGGTAATTAAAGTATGAAGCATAAACACGAGGACAGCACACTGTTATGACTTAGTTTTGATT
131 ACATGGTAATTAAAGTATGAAGCATAAACACGAGGACAGCACACTGTTATGACTTAGTTTTGATT
103264 GAATGTTCAAGCACCAATTCACAGTGTTAACTTGTACCTTGTG
196 GAATGTTCAAGCACCAATTCACAGTGTTAACTTGTACCTTGTG
103307 ATAATTTAACCTGAAACCCAAGGATTATGGTAAGTAAGCAAGTTCTAAATGTCAACAATGTTGAT
1 ATAATTTAACCTGAAACCCAAGGATTATGGTAAGTAAGCAAGTTCTAAATGTCAACAATGTTGAT
103372 GGAGAATTTGGATAGCGACTGTGGCACTCCCGATATTATCGGTCCGTACGTCTACAAAAAAACAC
66 GGAGAATTTGGATAGCGACTGTGGCACTCCCGATATTATCGGTCCGTACGTCTACAAAAAAACAC
*
103437 ACATGGTAATTAAAGTATGAAGCATAAACACGAGGACAGCACTCTGTTATGACTTAGTTTTGATT
131 ACATGGTAATTAAAGTATGAAGCATAAACACGAGGACAGCACACTGTTATGACTTAGTTTTGATT
103502 GAATGTTCAAGCACCAATTCACAGTGTTAACTTGTACCTTGTG
196 GAATGTTCAAGCACCAATTCACAGTGTTAACTTGTACCTTGTG
103545 A
1 A
103546 CTTTCATGAA
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 237 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (238 bp):
ATAATTTAACCTGAAACCCAAGGATTATGGTAAGTAAGCAAGTTCTAAATGTCAACAATGTTGAT
GGAGAATTTGGATAGCGACTGTGGCACTCCCGATATTATCGGTCCGTACGTCTACAAAAAAACAC
ACATGGTAATTAAAGTATGAAGCATAAACACGAGGACAGCACACTGTTATGACTTAGTTTTGATT
GAATGTTCAAGCACCAATTCACAGTGTTAACTTGTACCTTGTG
Found at i:105325 original size:20 final size:19
Alignment explanation
Indices: 105294--105332 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
105284 TTATCACACC
*
105294 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
105313 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
105333 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:105596 original size:110 final size:111
Alignment explanation
Indices: 105457--105677 Score: 390
Period size: 110 Copynumber: 2.0 Consensus size: 111
105447 TAGAAATCAT
* *
105457 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
* *
105522 TATTTAG-TCATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTCATTCATTTAATGCATGATTATTAGATTAAGAATTAA
105567 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
*
105632 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTCATTCATTTAATGCATGATTATTAGATTAAGAATTAA
105678 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
110 69 0.66
111 36 0.34
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTCATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:107206 original size:18 final size:18
Alignment explanation
Indices: 107183--107217 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
107173 AGCAGCCACC
107183 GCAGCCATATATGATGCT
1 GCAGCCATATATGATGCT
107201 GCAGCCATATATGATGC
1 GCAGCCATATATGATGC
107218 CGCCATCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (18 bp):
GCAGCCATATATGATGCT
Found at i:111444 original size:51 final size:46
Alignment explanation
Indices: 111334--111444 Score: 125
Period size: 51 Copynumber: 2.3 Consensus size: 46
111324 ATGTAGTATA
*
111334 TGATCCGCGCTATATAAAATTATGTTTAAAGGTATGTCGCGGTACC
1 TGATCCGCGCTATATAAAATTATGTGTAAAGGTATGTCGCGGTACC
** *
111380 TGCCCCGCGCTATATAAAATTATGTCAGGAGTAAATGTATAG-CGCGGTACC
1 TGATCCGCGCTATATAAAATTATGT-----GTAAAGGTAT-GTCGCGGTACC
111431 TGATCCGCGCTATA
1 TGATCCGCGCTATA
111445 CCCCTACGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
46 23 0.43
51 29 0.55
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
TGATCCGCGCTATATAAAATTATGTGTAAAGGTATGTCGCGGTACC
Found at i:111535 original size:50 final size:51
Alignment explanation
Indices: 111456--111580 Score: 171
Period size: 51 Copynumber: 2.5 Consensus size: 51
111446 CCCTACGTGG
* * * **
111456 CGTATAGCGCGTTGCAGGGGCCGCTCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
* * *
111506 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCTCGTGGCGCCAAATCAT
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
111557 CGTATAGCGCGATGCAGGGGGCGC
1 CGTATAGCGCGATGCAGGGGGCGC
111581 TTTACTGCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 27 0.41
51 39 0.59
ACGTcount: A:0.17, C:0.32, G:0.34, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
Found at i:114986 original size:21 final size:20
Alignment explanation
Indices: 114909--115005 Score: 125
Period size: 20 Copynumber: 5.0 Consensus size: 20
114899 ATCAGATTGT
114909 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
114929 CCAGGGGGTATC-GATT--CC
1 CCAGGGGGTA-CAGATTCCCC
*
114947 CC---GGGAACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
114964 CCAGGGGGTACAGATTCCCCC
1 CCAGGGGGTACAGATT-CCCC
114985 CCAGGGGGTACAGATTCCCC
1 CCAGGGGGTACAGATTCCCC
115005 C
1 C
115006 TGCATGGTTT
Statistics
Matches: 67, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
14 1 0.01
15 8 0.12
17 4 0.06
18 4 0.06
20 29 0.43
21 21 0.31
ACGTcount: A:0.20, C:0.36, G:0.29, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:115153 original size:20 final size:21
Alignment explanation
Indices: 115117--115156 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
115107 ATTTGAATAT
*
115117 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
115138 TATGAA-GGGTACCGATTCC
1 TATGAAGGGGTACCGATTCC
115157 TACCATTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:115483 original size:35 final size:33
Alignment explanation
Indices: 115438--115510 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 33
115428 CATTTTGTAA
* * *
115438 AGGGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCT
1 AGGGAAAAGGTTCTAGCTTAGCCCG-G-AAAAACT
*
115473 AGGGAAAAGGTTCTAGTTTAGCCCGGAAAAACT
1 AGGGAAAAGGTTCTAGCTTAGCCCGGAAAAACT
115506 AGGGA
1 AGGGA
115511 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 11 0.32
34 1 0.03
35 22 0.65
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (33 bp):
AGGGAAAAGGTTCTAGCTTAGCCCGGAAAAACT
Found at i:118313 original size:20 final size:19
Alignment explanation
Indices: 118291--118357 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
118281 GATTGTTCAG
118291 GGGGTACAGATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
118310 GGGGGTATC-GATT--CCCC-
1 -GGGGTA-CAGATTCCCCCCA
*
118327 -GGGAACAGATTCCCCCCA
1 GGGGTACAGATTCCCCCCA
*
118345 GGGGTATAGATTC
1 GGGGTACAGATTC
118358 TCCCTACATG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
14 1 0.03
15 8 0.21
17 4 0.11
18 4 0.11
19 10 0.26
20 10 0.26
21 1 0.03
ACGTcount: A:0.21, C:0.30, G:0.30, T:0.19
Consensus pattern (19 bp):
GGGGTACAGATTCCCCCCA
Found at i:118500 original size:21 final size:21
Alignment explanation
Indices: 118474--118514 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
118464 ATTTGAATAT
* *
118474 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGATATCAATTCCC
118495 TATGAAGGGATATCAATTCC
1 TATGAAGGGATATCAATTCC
118515 TCTCATTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (21 bp):
TATGAAGGGATATCAATTCCC
Found at i:119890 original size:19 final size:19
Alignment explanation
Indices: 119851--119890 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
119841 TTTCTTTTCG
*
119851 TTTTTTGAATCTATTTGTT
1 TTTTTTGAATCTATTTCTT
119870 TTTTTTCGAATCT-TTTCTT
1 TTTTTT-GAATCTATTTCTT
119889 TT
1 TT
119891 CTCTCTGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.70
Consensus pattern (19 bp):
TTTTTTGAATCTATTTCTT
Found at i:119956 original size:23 final size:22
Alignment explanation
Indices: 119915--119971 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
119905 TGATATTTTT
*
119915 TTTTTTCATTTTCCCTTCTCTCTC
1 TTTTTTCATTCTCCCTTCT-T-TC
*
119939 TTTTTTC-TTCTCCTTTCTTTC
1 TTTTTTCATTCTCCCTTCTTTC
119960 TTTTTATCATTC
1 TTTTT-TCATTC
119972 CCTTTGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 3 0.10
23 12 0.41
24 7 0.24
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTTTCATTCTCCCTTCTTTC
Found at i:120385 original size:11 final size:12
Alignment explanation
Indices: 120366--120396 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
120356 AATAATAATA
120366 ATAATTATTATT
1 ATAATTATTATT
120378 AT-ATTATTATT
1 ATAATTATTATT
120389 ATAATTAT
1 ATAATTAT
120397 AATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATAATTATTATT
Found at i:121614 original size:16 final size:16
Alignment explanation
Indices: 121593--121631 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
121583 ACAGAGCCTC
121593 TGAATCAAACAGCATT
1 TGAATCAAACAGCATT
** *
121609 TGAATCATTCAGTATT
1 TGAATCAAACAGCATT
121625 TGAATCA
1 TGAATCA
121632 TTCAACGCTT
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:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (16 bp):
TGAATCAAACAGCATT
Found at i:121905 original size:8 final size:8
Alignment explanation
Indices: 121894--121926 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
121884 TTTAATTAAT
121894 ATAATATA
1 ATAATATA
121902 ATAATATA
1 ATAATATA
*
121910 ATAGTATA
1 ATAATATA
121918 ATAAT-TA
1 ATAATATA
121925 AT
1 AT
121927 TATTTAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:129134 original size:16 final size:16
Alignment explanation
Indices: 129093--129135 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
129083 ATTAGGTAAT
* *
129093 TTATGATAATTTTTTA
1 TTATGATTATTGTTTA
129109 TTAT-ACTTATTGTTTA
1 TTATGA-TTATTGTTTA
129125 TTATGATTATT
1 TTATGATTATT
129136 TGAAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (16 bp):
TTATGATTATTGTTTA
Found at i:132498 original size:34 final size:33
Alignment explanation
Indices: 132456--132526 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
132446 AATGGTAATA
* *
132456 AACAAAATTAAGCAAAATAAATTAACAA-AAAGTCC
1 AACAAATTTAA-CAAAACAAATTAA-AATAAA-TCC
132491 AACAAATTTAACAAAACAAATTAAAATAAATCC
1 AACAAATTTAACAAAACAAATTAAAATAAATCC
132524 AAC
1 AAC
132527 CATATTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 8 0.24
34 15 0.45
35 10 0.30
ACGTcount: A:0.63, C:0.15, G:0.03, T:0.18
Consensus pattern (33 bp):
AACAAATTTAACAAAACAAATTAAAATAAATCC
Found at i:132767 original size:18 final size:18
Alignment explanation
Indices: 132746--132780 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
132736 ATCATCACCA
132746 TCATCATCGTCGTCGTCG
1 TCATCATCGTCGTCGTCG
* *
132764 TCATCCTTGTCGTCGTC
1 TCATCATCGTCGTCGTC
132781 CTGAGCAGCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.34, G:0.20, T:0.37
Consensus pattern (18 bp):
TCATCATCGTCGTCGTCG
Found at i:134852 original size:9 final size:9
Alignment explanation
Indices: 134838--134871 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
134828 TAAGTAAAAT
134838 ATTAAATAA
1 ATTAAATAA
134847 ATTAAAT-A
1 ATTAAATAA
*
134855 CTTAAATAA
1 ATTAAATAA
134864 ATTAAATA
1 ATTAAATA
134872 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:134852 original size:17 final size:17
Alignment explanation
Indices: 134817--134869 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
134807 TATATATGTA
* *
134817 AAAATATT-AATTAAGT
1 AAAATATTAAATAAATT
134833 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
134850 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
134867 AAA
1 AAA
134870 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 13 0.41
17 17 0.53
18 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:134853 original size:16 final size:16
Alignment explanation
Indices: 134818--134871 Score: 72
Period size: 16 Copynumber: 3.3 Consensus size: 16
134808 ATATATGTAA
* * *
134818 AAATATTAATTAAGTA
1 AAATATTAAATAAATT
134834 AAATATTAAATAAATT
1 AAATATTAAATAAATT
134850 AAATACTTAAATAAATT
1 AAATA-TTAAATAAATT
134867 AAATA
1 AAATA
134872 CAAAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
16 18 0.53
17 16 0.47
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATATTAAATAAATT
Found at i:134870 original size:17 final size:17
Alignment explanation
Indices: 134834--134872 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
134824 TAATTAAGTA
134834 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
134850 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
134867 AAATAC
1 AAATAC
134873 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Done.