Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007809.1 Hibiscus syriacus cultivar Beakdansim tig00110130_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: 109776
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:1467 original size:27 final size:27
Alignment explanation
Indices: 1437--1493 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1427 AGAATGTAGT
1437 TAAAAGATTAAA-GATGTTAGGTTAAGC
1 TAAAA-ATTAAATGATGTTAGGTTAAGC
1464 TAAAAATTAAATGATGTTAGGTTAAGC
1 TAAAAATTAAATGATGTTAGGTTAAGC
1491 TAA
1 TAA
1494 CAGAGTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.32
Consensus pattern (27 bp):
TAAAAATTAAATGATGTTAGGTTAAGC
Found at i:4057 original size:2 final size:2
Alignment explanation
Indices: 4052--4150 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
4042 AAATATATGA
4052 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4136 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
4151 CATACATACA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5364 original size:7 final size:7
Alignment explanation
Indices: 5331--5400 Score: 59
Period size: 7 Copynumber: 8.9 Consensus size: 7
5321 TATTTAATCT
5331 TTTTTTA
1 TTTTTTA
*
5338 TCTTTTA
1 TTTTTTA
5345 TTTCCTTTGA
1 TTT--TTT-A
5355 TTTTTTA
1 TTTTTTA
5362 TTTTTTA
1 TTTTTTA
5369 TTATAATTATA
1 TT-T--TT-TA
5380 TTTTTTTA
1 -TTTTTTA
5388 TTTTTTA
1 TTTTTTA
5395 TTTTTT
1 TTTTTT
5401 TTATTTAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 16
0.75 0.03 0.23
Matches are distributed among these distances:
7 31 0.58
8 6 0.11
9 5 0.09
10 6 0.11
11 3 0.06
12 2 0.04
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:5367 original size:24 final size:25
Alignment explanation
Indices: 5330--5397 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
5320 TTATTTAATC
* **
5330 TTTTTTTATCTTTTATTTCCTT-TGA
1 TTTTTTTATTTTTTATTTAATTAT-A
5355 -TTTTTTATTTTTTATTATAATTATA
1 TTTTTTTATTTTTTATT-TAATTATA
5380 TTTTTTTATTTTTTATTT
1 TTTTTTTATTTTTTATTT
5398 TTTTTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
24 15 0.41
25 5 0.14
26 17 0.46
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTTTTATTTTTTATTTAATTATA
Found at i:5399 original size:16 final size:16
Alignment explanation
Indices: 5330--5406 Score: 75
Period size: 17 Copynumber: 4.7 Consensus size: 16
5320 TTATTTAATC
*
5330 TTTTTTTATCTTTTAT
1 TTTTTTTATTTTTTAT
* *
5346 TTCCTTTGATTTTTTAT
1 TT-TTTTTATTTTTTAT
**
5363 TTTTTATTA-TAATTAT
1 TTTTT-TTATTTTTTAT
5379 ATTTTTTTATTTTTTAT
1 -TTTTTTTATTTTTTAT
5396 TTTTTTTATTT
1 TTTTTTTATTT
5407 AATATTTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 23 0.48
17 25 0.52
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTTTTATTTTTTAT
Found at i:5405 original size:24 final size:25
Alignment explanation
Indices: 5330--5406 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 25
5320 TTATTTAATC
* ** *
5330 TTTTTTTATCTTTTATTTCCTTTGA
1 TTTTTTTATTTTTTATTTAATTTTA
*
5355 -TTTTTTATTTTTTATTATAATTATA
1 TTTTTTTATTTTTTATT-TAATTTTA
*
5380 TTTTTTTATTTTTTATTT-TTTTTA
1 TTTTTTTATTTTTTATTTAATTTTA
5404 TTT
1 TTT
5407 AATATTTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 22 0.51
25 5 0.12
26 16 0.37
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTTTTTATTTTTTATTTAATTTTA
Found at i:5412 original size:16 final size:16
Alignment explanation
Indices: 5362--5413 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
5352 TGATTTTTTA
5362 TTTTTTATTATAATTATAT
1 TTTTTTATT-TAA-TAT-T
**
5381 TTTTTTATTTTTTATT
1 TTTTTTATTTAATATT
5397 TTTTTTATTTAATATT
1 TTTTTTATTTAATATT
5413 T
1 T
5414 AATATTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 16 0.55
17 3 0.10
18 1 0.03
19 9 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTAATATT
Found at i:6551 original size:19 final size:19
Alignment explanation
Indices: 6495--6599 Score: 102
Period size: 19 Copynumber: 5.2 Consensus size: 19
6485 GCGATTTTGA
*
6495 AAAATGTGTTGCGATAATT
1 AAAATGTGTTGCGATAGTT
6514 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTT
* *
6533 AAAATGTGTTGTGAGAGTTT
1 AAAATGTGTTGCGATAG-TT
*
6553 GAAAAACGTGTTGTTGCGATAGTG
1 --AAAA--TG-TGTTGCGATAGTT
* *
6577 AAAAAGTGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTT
6596 AAAA
1 AAAA
6600 ATCCAAAATA
Statistics
Matches: 73, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
19 50 0.68
20 3 0.04
22 8 0.11
24 3 0.04
25 9 0.12
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTT
Found at i:7041 original size:21 final size:21
Alignment explanation
Indices: 7017--7290 Score: 240
Period size: 21 Copynumber: 13.4 Consensus size: 21
7007 ATTTTGGAAA
*
7017 ATCGCAACGCGAACTTAGACT
1 ATCGCAACGCGAACTTGGACT
* **
7038 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
7057 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* *
7078 ATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
7099 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
7120 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
7139 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* * *
7160 ATCGCAACACGAACTTCGATT
1 ATCGCAACGCGAACTTGGACT
* * * **
7181 ATCGTAA--CGAATTTGAAAA
1 ATCGCAACGCGAACTTGGACT
* **
7200 ATCGTAACATGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
7221 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
7240 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
*
7261 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
7282 ATCGCAACG
1 ATCGCAACG
7291 AATTTAGACT
Statistics
Matches: 203, Mismatches: 42, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
19 59 0.29
21 144 0.71
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:7143 original size:61 final size:59
Alignment explanation
Indices: 7009--7363 Score: 297
Period size: 61 Copynumber: 5.9 Consensus size: 59
6999 TCGTTGCGAT
* * * **
7009 TTTGGAAAATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAACTTGGACTATCGCAA--CGAA
* * ** *
7070 CTTCGACTATCGCAACGTGAACTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAAC--GAACTTGGACTATCGCAACGAA
* * * * *
7131 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACACGAACTTCGATTATCGTAACGAA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGC-A-ACGAACTTGGACTATCGCAACGAA
* * * * **
7192 TTTGAAAAATCGTAACATGAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAACTTGGACTATCGCAA--CGAA
* * ** * * * *
7253 CTTCGACTATCGCAACGTGAACTTGGACTATCGCAACGAATTTAGACTAACG-TA--AA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAACTTGGACTATCGCAACGAA
* **
7309 TTTGGAAAATCGCAAC--GAATTTGGAAAATCGCAACGCGAACTTGGACTATCGCAA
1 TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAA--CGAACTTGGACTATCGCAA
7364 AATCGCGTTG
Statistics
Matches: 235, Mismatches: 50, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
54 15 0.06
56 27 0.11
57 1 0.00
59 15 0.06
60 2 0.01
61 157 0.67
62 1 0.00
63 17 0.07
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (59 bp):
TTTGGAAAATCGCAACGTGAACTTGGACTATCGCAACGAACTTGGACTATCGCAACGAA
Found at i:7231 original size:101 final size:102
Alignment explanation
Indices: 7057--7363 Score: 387
Period size: 101 Copynumber: 3.1 Consensus size: 102
7047 AATTTGGAAA
* * * ** * *
7057 ATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTCG-ACTATCGCAACGTGAACTTGGACTA
1 ATCGCAACACGAACTTCGACTATCGCAAC--GAATTTAGAAAAATCGTAACATGAACTTGGACTA
7121 TCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
64 TCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
* *
7160 ATCGCAACACGAACTTCGATTATCGTAACGAATTT-GAAAAATCGTAACATGAACTTGGACTATC
1 ATCGCAACACGAACTTCGACTATCGCAACGAATTTAGAAAAATCGTAACATGAACTTGGACTATC
7224 GCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
66 GCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
** * ** **
7261 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTAGACTAA-CGTAA-AT----TTGGAAAATC
1 ATCGCAACACGAACTTCGACTATCGCAACGAATTTAGAAAAATCGTAACATGAACTTGGACTATC
*
7320 GCAACGAATTTGGAAAATCGCAACGCGAACTTGGACT
66 GCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
7357 ATCGCAA
1 ATCGCAA
7364 AATCGCGTTG
Statistics
Matches: 184, Mismatches: 18, Indels: 11
0.86 0.08 0.05
Matches are distributed among these distances:
96 51 0.28
100 3 0.02
101 100 0.54
102 4 0.02
103 26 0.14
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (102 bp):
ATCGCAACACGAACTTCGACTATCGCAACGAATTTAGAAAAATCGTAACATGAACTTGGACTATC
GCAACGAATTTGGAAAATCGCAACGCGAACTTCGACT
Found at i:7301 original size:40 final size:40
Alignment explanation
Indices: 7017--7363 Score: 253
Period size: 40 Copynumber: 8.7 Consensus size: 40
7007 ATTTTGGAAA
* * **
7017 ATCGCAACGCGAACTTAGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
* *
7057 ATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAAC--GAACTTGGACT
* * **
7099 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
* * *
7139 ATCGCAACGCGAACTTCGACTATCGCAACACGAACTTCGATT
1 ATCGCAACGCGAACTTGGACTATCGC-A-ACGAACTTGGACT
* * * ** *
7181 ATCGTAA--CGAATTTGAAAAATCGTAACATGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAAC--GAACTTGGACT
* ** *
7221 ATCGCAA--CGAATTTGGAAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAACTTGGACT
* * *
7261 ATCGCAACGTGAACTTGGACTATCGCAACGAATTTAGAC-
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
** * ** * **
7300 -T---AACGTAAATTTGGAAAATCGCAACGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
7336 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
7364 AATCGCGTTG
Statistics
Matches: 245, Mismatches: 47, Indels: 30
0.76 0.15 0.09
Matches are distributed among these distances:
35 28 0.11
37 1 0.00
38 3 0.01
39 1 0.00
40 146 0.60
41 1 0.00
42 65 0.27
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (40 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGACT
Found at i:7353 original size:21 final size:19
Alignment explanation
Indices: 7010--7354 Score: 140
Period size: 21 Copynumber: 17.3 Consensus size: 19
7000 CGTTGCGATT
7010 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
* ** *
7031 TTAGACTATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
7050 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
* **
7071 TTCGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAAC--GAAC
* **
7092 TTCGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAAC--GAAC
** *
7113 TTGGACTATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
7132 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
* **
7153 TTCGACTATCGCAACACGAAC
1 TTGGAAAATCGC-A-ACGAAC
* ** * *
7174 TTCGATTATCGTAACGAAT
1 TTGGAAAATCGCAACGAAC
* *
7193 TTGAAAAATCGTAACATGAAC
1 TTGGAAAATCGCAAC--GAAC
** *
7214 TTGGACTATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
7233 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
* **
7254 TTCGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAAC--GAAC
** *
7275 TTGGACTATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
* * * *
7294 TTAGACTAA-CG-TA--AAT
1 TTGGA-AAATCGCAACGAAC
*
7310 TTGGAAAATCGCAACGAAT
1 TTGGAAAATCGCAACGAAC
7329 TTGGAAAATCGCAACGCGAAC
1 TTGGAAAATCGCAA--CGAAC
7350 TTGGA
1 TTGGA
7355 CTATCGCAAA
Statistics
Matches: 255, Mismatches: 48, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
15 2 0.01
16 9 0.04
17 1 0.00
18 1 0.00
19 89 0.35
20 2 0.01
21 149 0.58
22 1 0.00
23 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (19 bp):
TTGGAAAATCGCAACGAAC
Found at i:8564 original size:21 final size:21
Alignment explanation
Indices: 8529--8569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8519 AACCGTTTCT
*
8529 AACTAATTAATAACTGAACAA
1 AACTAATTAATAACTCAACAA
8550 AACTAATTACA-AACTCAACA
1 AACTAATTA-ATAACTCAACA
8570 CTCCCCCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (21 bp):
AACTAATTAATAACTCAACAA
Found at i:12131 original size:18 final size:18
Alignment explanation
Indices: 12108--12143 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
12098 ACCTTCGACG
*
12108 GTTGCCAGGAGCACTGGA
1 GTTGCCAGAAGCACTGGA
*
12126 GTTGCCAGAAGCATTGGA
1 GTTGCCAGAAGCACTGGA
12144 ATACAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.19
Consensus pattern (18 bp):
GTTGCCAGAAGCACTGGA
Found at i:13157 original size:21 final size:21
Alignment explanation
Indices: 13122--13162 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13112 AATCGTTTCT
*
13122 AACTAATTAATAACTGAACAA
1 AACTAATTAATAACTCAACAA
13143 AACTAATTACA-AACTCAACA
1 AACTAATTA-ATAACTCAACA
13163 CCCTCCAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22
Consensus pattern (21 bp):
AACTAATTAATAACTCAACAA
Found at i:14943 original size:3 final size:3
Alignment explanation
Indices: 14935--14975 Score: 55
Period size: 3 Copynumber: 12.7 Consensus size: 3
14925 CTCCCCCTCG
14935 TCT TCT TCT TCT TCTT TCT TCT TCT TCCT TCT TCCT TCT TC
1 TCT TCT TCT TCT TC-T TCT TCT TCT T-CT TCT T-CT TCT TC
14976 CTTCCTCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 26 0.74
4 9 0.26
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TCT
Found at i:14955 original size:10 final size:10
Alignment explanation
Indices: 14935--14975 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
14925 CTCCCCCTCG
14935 TCTTC-TTCT
1 TCTTCTTTCT
14944 TCTTCTTTCT
1 TCTTCTTTCT
*
14954 TCTTCTTCCT
1 TCTTCTTTCT
*
14964 TCTTCCTTCT
1 TCTTCTTTCT
14974 TC
1 TC
14976 CTTCCTCCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 5 0.18
10 23 0.82
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (10 bp):
TCTTCTTTCT
Found at i:14976 original size:7 final size:7
Alignment explanation
Indices: 14936--14984 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
14926 TCCCCCTCGT
14936 CTTCTT-
1 CTTCTTC
14942 CTTCTTC
1 CTTCTTC
*
14949 TTTCTT-
1 CTTCTTC
14955 CTTCTTC
1 CTTCTTC
14962 CTTCTTC
1 CTTCTTC
14969 CTTCTTC
1 CTTCTTC
*
14976 CTTCCTC
1 CTTCTTC
14983 CT
1 CT
14985 CCTCCTCCTC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (7 bp):
CTTCTTC
Found at i:14984 original size:3 final size:3
Alignment explanation
Indices: 14978--15038 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
14968 CCTTCTTCCT
14978 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC
15026 TCC TCC TCC TCC T
1 TCC TCC TCC TCC T
15039 TCTTCACAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:21407 original size:54 final size:54
Alignment explanation
Indices: 21348--21454 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
21338 TATCAAGATG
* *
21348 TTTACCACTTAAACTAACTCATGTTAACCACATTTTATCTTTTTTAATTATATA
1 TTTACCACTTAAACTAACCCATGTTAACCACATTTTATCTTTTCTAATTATATA
* * * *
21402 TTTACCACTTAAAGTAACCCTTGTTAATCATATTTTATCTTTTCTAATTATAT
1 TTTACCACTTAAACTAACCCATGTTAACCACATTTTATCTTTTCTAATTATAT
21455 GTGAATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.48
Consensus pattern (54 bp):
TTTACCACTTAAACTAACCCATGTTAACCACATTTTATCTTTTCTAATTATATA
Found at i:27677 original size:14 final size:15
Alignment explanation
Indices: 27656--27708 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
27646 TTCCAGAAAT
*
27656 GTAATTCACTTTCCA
1 GTAATTCAATTTCCA
*
27671 G-AATTCAAATTCCA
1 GTAATTCAATTTCCA
*
27685 GTAATTCATTTTCCA
1 GTAATTCAATTTCCA
27700 GTAATTCAA
1 GTAATTCAA
27709 ATCCCTTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (15 bp):
GTAATTCAATTTCCA
Found at i:28357 original size:21 final size:21
Alignment explanation
Indices: 28306--28358 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
28296 ATTCTGACTA
28306 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
28327 TTGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
28348 TCGCAATGCGA
1 TCGCATTGCGA
28359 ATATGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:28373 original size:20 final size:20
Alignment explanation
Indices: 28348--28403 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
28338 TTTTCCGAAT
28348 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
28368 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
*
28388 TCGCAATGCGATTATG
1 TCGCAATGCGAATATG
28404 ACTATCGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:28410 original size:20 final size:20
Alignment explanation
Indices: 28348--28480 Score: 101
Period size: 20 Copynumber: 6.7 Consensus size: 20
28338 TTTTCCGAAT
* *
28348 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
* *
28368 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
28388 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTATGACTA
* * *
28408 TCGCAACGAGATTCTGACTA
1 TCGCAATGCGATTATGACTA
* * *
28428 TCACAACGCGATTCTGACTA
1 TCGCAATGCGATTATGACTA
**
28448 TCGCAACACGATGT-TGACTA
1 TCGCAATGCGAT-TATGACTA
*
28468 TCGCAATGTGATT
1 TCGCAATGCGATT
28481 TTCAAAGTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
19 2 0.02
20 96 0.97
21 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGATTATGACTA
Found at i:28725 original size:48 final size:44
Alignment explanation
Indices: 28657--28767 Score: 143
Period size: 48 Copynumber: 2.4 Consensus size: 44
28647 GGCGACATCC
* * *
28657 GTCCCCATCTCCGACAAAACCAGTCCCCATCTCCGACGAAATCC-
1 GTCCCCATCTCCGACGAAACCAATCCCCATATCCGACGAAA-CCA
28701 GTCTATCTCCATCTCCGACGAAACCAATCCCCATATCCGACGAAACCA
1 GTC---C-CCATCTCCGACGAAACCAATCCCCATATCCGACGAAACCA
28749 GTCCCCATCTCCGACGAAA
1 GTCCCCATCTCCGACGAAA
28768 TCCGTCTATC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
44 18 0.31
45 1 0.02
47 3 0.05
48 37 0.63
ACGTcount: A:0.29, C:0.42, G:0.12, T:0.17
Consensus pattern (44 bp):
GTCCCCATCTCCGACGAAACCAATCCCCATATCCGACGAAACCA
Found at i:28764 original size:22 final size:22
Alignment explanation
Indices: 28657--28767 Score: 143
Period size: 22 Copynumber: 4.9 Consensus size: 22
28647 GGCGACATCC
*
28657 GTCCCCATCTCCGACAAAACCA
1 GTCCCCATCTCCGACGAAACCA
28679 GTCCCCATCTCCGACGAAATCC-
1 GTCCCCATCTCCGACGAAA-CCA
28701 GTCTATCTCCATCTCCGACGAAACCA
1 GTC---C-CCATCTCCGACGAAACCA
* *
28727 ATCCCCATATCCGACGAAACCA
1 GTCCCCATCTCCGACGAAACCA
28749 GTCCCCATCTCCGACGAAA
1 GTCCCCATCTCCGACGAAA
28768 TCCGTCTATC
Statistics
Matches: 78, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
22 55 0.71
23 3 0.04
25 3 0.04
26 17 0.22
ACGTcount: A:0.29, C:0.42, G:0.12, T:0.17
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAACCA
Found at i:29208 original size:20 final size:20
Alignment explanation
Indices: 29164--29228 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
29154 GCGATTTTAG
*
29164 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
* *
29184 ATTCGCATTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
29204 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
29224 TTTCG
1 TTTCG
29229 TGTTACGATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:29229 original size:20 final size:20
Alignment explanation
Indices: 29200--29240 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
29190 ATTGCGATAG
*
29200 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTACGATTT
29220 TCATTTTCGTGTTACGATTT
1 TCATTTTCGTGTTACGATTT
29240 T
1 T
29241 AAGTTTCAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.15, G:0.17, T:0.56
Consensus pattern (20 bp):
TCATTTTCGTGTTACGATTT
Found at i:29247 original size:20 final size:20
Alignment explanation
Indices: 29204--29247 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
29194 CGATAGTCAT
* * *
29204 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTACGATTTTAAG
29224 TTTCGTGTTACGATTTTAAG
1 TTTCGTGTTACGATTTTAAG
29244 TTTC
1 TTTC
29248 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.18, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTACGATTTTAAG
Found at i:30990 original size:18 final size:18
Alignment explanation
Indices: 30967--31017 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
30957 TTTACTCGTA
30967 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
*
30985 ATTTCACTTAAATTAACC
1 ATTTCACTTAGATTAACC
31003 ATTTCACTTAGATTA
1 ATTTCACTTAGATTA
31018 CTTAGTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:31192 original size:20 final size:20
Alignment explanation
Indices: 31167--31211 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
31157 TTTACTTTCG
31167 CAACGCGAAAATGACTATCA
1 CAACGCGAAAATGACTATCA
** *
31187 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCA
31207 CAACG
1 CAACG
31212 AAAGAATCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCA
Found at i:31840 original size:21 final size:21
Alignment explanation
Indices: 31766--31852 Score: 84
Period size: 21 Copynumber: 4.1 Consensus size: 21
31756 GTCTGACTCA
31766 CCTGTCATCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* ** *
31787 CCTATCATCCCTCAAGAGTCC
1 CCTGTCATCGTTCAAGAGGCC
** *
31808 CCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGGCC
* * *
31829 ACTGTCATCGTTGAAGAGGTC
1 CCTGTCATCGTTCAAGAGGCC
31850 CCT
1 CCT
31853 CCCAGCATTC
Statistics
Matches: 49, Mismatches: 17, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (21 bp):
CCTGTCATCGTTCAAGAGGCC
Found at i:31846 original size:42 final size:42
Alignment explanation
Indices: 31774--31856 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
31764 CACCTGTCAT
*
31774 CGTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAC
* ** *
31816 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
31857 GCATTCTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.20
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:32660 original size:20 final size:20
Alignment explanation
Indices: 32626--32738 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
32616 CAACGAAAAA
32626 ATCGCAAC-ACGAATTTGACT
1 ATCGCAACGA-GAATTTGACT
*
32646 ATTGCAACGCA-AATTTGACT
1 ATCGCAACG-AGAATTTGACT
32666 ATCGCAACGAGAATTTGACT
1 ATCGCAACGAGAATTTGACT
* *
32686 ATCGCAACGTGAATTTGATT
1 ATCGCAACGAGAATTTGACT
* * * *
32706 ATCACAACGGGTATTCGACT
1 ATCGCAACGAGAATTTGACT
32726 ATCGCAACGAGAA
1 ATCGCAACGAGAA
32739 AATCGCAAAG
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 1 0.01
20 76 0.97
22 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGAGAATTTGACT
Found at i:32989 original size:13 final size:14
Alignment explanation
Indices: 32929--32989 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
32919 CACAAATAAG
*
32929 AATTATTTACACATC
1 AATT-TTTACAAATC
**
32944 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
32959 AACTTTTACAAATC
1 AATTTTTACAAATC
32973 AATTTTTACAAAT-
1 AATTTTTACAAATC
32986 AATT
1 AATT
32990 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 4 0.11
14 21 0.55
15 12 0.32
16 1 0.03
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:33682 original size:20 final size:20
Alignment explanation
Indices: 33657--33806 Score: 141
Period size: 20 Copynumber: 7.8 Consensus size: 20
33647 CGATTTTTGA
*
33657 GTTGCGATAATCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
* * *
33677 GTTGCGATAGTCGAATACCC
1 GTTGCGATAGTCAAATTCGC
* *
33697 GTTGCGATAATCAAATTCAC
1 GTTGCGATAGTCAAATTCGC
* *
33717 GTTACGATAGTCAAATTCTC
1 GTTGCGATAGTCAAATTCGC
*
33737 GTTGCGATAGTCAAATTCAC
1 GTTGCGATAGTCAAATTCGC
* * *
33757 GTTGTGAT--T----TTTGA
1 GTTGCGATAGTCAAATTCGC
33771 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
*
33791 GTTGCGATATTCAAAT
1 GTTGCGATAGTCAAAT
33807 GAATGTGTAA
Statistics
Matches: 103, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
14 9 0.09
16 1 0.01
18 1 0.01
20 92 0.89
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGC
Found at i:33805 original size:54 final size:54
Alignment explanation
Indices: 33621--33806 Score: 201
Period size: 54 Copynumber: 3.3 Consensus size: 54
33611 AATTTATCAT
*** *
33621 GCGTTGCGATAGTCAAATTTGGGTTGCGATTTTTGAGTTGCGATAATCAAATTC
1 GCGTTGCGATAGTCAAATTCACGTTGCGATTTTTGAGTTGCGATAGTCAAATTC
* * * * * *
33675 GCGTTGCGATAGTCGAATACCCGTTGCGATAATCAAATTCACGTTACGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTCACGTTGCGAT--T---TTTGA-GTTGCGATAGTCAAATTC
* *
33735 TCGTTGCGATAGTCAAATTCACGTTGTGATTTTTGAGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTCACGTTGCGATTTTTGAGTTGCGATAGTCAAATTC
*
33789 GCGTTGCGATATTCAAAT
1 GCGTTGCGATAGTCAAAT
33807 GAATGTGTAA
Statistics
Matches: 107, Mismatches: 19, Indels: 12
0.78 0.14 0.09
Matches are distributed among these distances:
54 58 0.54
55 3 0.03
56 1 0.01
58 1 0.01
59 3 0.03
60 41 0.38
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (54 bp):
GCGTTGCGATAGTCAAATTCACGTTGCGATTTTTGAGTTGCGATAGTCAAATTC
Found at i:36296 original size:24 final size:24
Alignment explanation
Indices: 36262--36315 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
36252 CTGAAACATC
36262 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
*
36286 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
36310 ATCAAA
1 ATCAAA
36316 TTTTGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:36329 original size:24 final size:24
Alignment explanation
Indices: 36262--36329 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
36252 CTGAAACATC
* * *
36262 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
36286 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* **
36310 ATCAAATTTTGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
36330 TAGTACTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:37161 original size:20 final size:20
Alignment explanation
Indices: 37136--37243 Score: 171
Period size: 20 Copynumber: 5.4 Consensus size: 20
37126 GAAATTCAGT
*
37136 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
37156 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
*
37176 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
37196 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
37216 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
*
37236 ATTGCGAT
1 GTTGCGAT
37244 TTACATATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:37261 original size:60 final size:59
Alignment explanation
Indices: 37137--37270 Score: 153
Period size: 60 Copynumber: 2.2 Consensus size: 59
37127 AAATTCAGTG
* * * *
37137 TTGCGACAGTCAGAATCGCGTTGCGATAGTCAGAATCTCGTTGCGATAGTCAGAATCTCG
1 TTGCGA-AGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCA
* * * *
37197 TTGCGATAGTCAGAATCGCGTTGCGATAGTCATAATCGCATTGCGAT-TTACATATTCGCA
1 TTGCGA-AGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGT-CAGAATCGCA
*
37257 TTGCGAATTCAGAA
1 TTGCGAAGTCAGAA
37271 AATCGCAACG
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
59 8 0.13
60 55 0.87
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (59 bp):
TTGCGAAGTCAGAATCGCGTTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCA
Found at i:39207 original size:24 final size:23
Alignment explanation
Indices: 39163--39219 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
39153 TTGATGAATT
*
39163 TTTTTAAATAATAAAATATTATA
1 TTTTTAAATAATAAAATATTAAA
* **
39186 TTTTTAGATAATATTATCATTAAA
1 TTTTTAAATAATAAAAT-ATTAAA
39210 TTTTTGAAAT
1 TTTTT-AAAT
39220 TTTATCTTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 14 0.52
24 10 0.37
25 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
TTTTTAAATAATAAAATATTAAA
Found at i:41977 original size:3 final size:3
Alignment explanation
Indices: 41971--42037 Score: 82
Period size: 3 Copynumber: 21.7 Consensus size: 3
41961 GATAAAAAAA
* *
41971 TAT TAT TAAA TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAGT TA-
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
42017 TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TA
42038 CGTACCTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 2 0.04
3 46 0.82
4 8 0.14
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:42370 original size:20 final size:20
Alignment explanation
Indices: 42345--42389 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
42335 TTATCCAGAA
42345 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
*
42365 AAAAATCCGGTTTGGGGTTT
1 AAAAATCCGGTCTGGGGTTT
42385 AAAAA
1 AAAAA
42390 ATTAGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (20 bp):
AAAAATCCGGTCTGGGGTTT
Found at i:43129 original size:146 final size:144
Alignment explanation
Indices: 42778--43167 Score: 415
Period size: 146 Copynumber: 2.7 Consensus size: 144
42768 TTTCGTCGGT
* * * ** * *
42778 GATCGGAATCTCCGATCAATATTTCGAACGGTCAAAAGTTGCACAAGACCAGCACAAACAACATA
1 GATCGGAATCTCCGATCAACATTCCGAACAGTCAAAAGTTGTGC-AGATCAACACAAACAACATA
* * * * * *
42843 CTGAAAATTCAAGACGTTCGGACGGTGGACGACGGCAGATCGAAGAAAATAAACTAAACGATTTT
65 CTGAAATTTCAGGACGATCGGACGGTGGACGGCGGCAGATCGAAGAAAACAAACGAAACGATTTT
*
42908 TGACCTTTTGCCAGC
130 TGACCTCTTGCCAGC
* * * * * * *
42923 GATCGAAATCCCCAATCAACATTCCAAACAGTGAAAAGTTATGTCATATCAACACAAACAACATA
1 GATCGGAATCTCCGATCAACATTCCGAACAGTCAAAAGTTGTG-CAGATCAACACAAACAACATA
* * *
42988 CTGAAATTTCAGGACGATCGGACGGTGGACGGTGG-TGAATCGGAGAAAACAAATCCGAAA-GAT
65 CTGAAATTTCAGGACGATCGGACGGTGGACGGCGGCAG-ATCGAAGAAAACAAA--CGAAACGAT
* *
43051 TTTTGGCCTCTTGCCGGC
127 TTTTGACCTCTTGCCAGC
* * * * *
43069 GATCGGGATCTCCGATCAACATTCCGAACTGTCAAAAGTTGTGCGAGGTCAATACGAACAACATA
1 GATCGGAATCTCCGATCAACATTCCGAACAGTCAAAAGTTGTGC-AGATCAACACAAACAACATA
*
43134 CTGAAATTTCAGGACAATCGGACGGTGGCACGGC
65 CTGAAATTTCAGGACGATCGGACGGTGG-ACGGC
43168 AGCGCAGAAT
Statistics
Matches: 199, Mismatches: 40, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
144 1 0.01
145 93 0.47
146 97 0.49
147 8 0.04
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (144 bp):
GATCGGAATCTCCGATCAACATTCCGAACAGTCAAAAGTTGTGCAGATCAACACAAACAACATAC
TGAAATTTCAGGACGATCGGACGGTGGACGGCGGCAGATCGAAGAAAACAAACGAAACGATTTTT
GACCTCTTGCCAGC
Found at i:47006 original size:4 final size:4
Alignment explanation
Indices: 46997--47021 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46987 AAAATATGAT
46997 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
47022 CAATTAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:47737 original size:14 final size:14
Alignment explanation
Indices: 47710--47757 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
47700 ATTTACAAAT
47710 AAATC-AAATTTTA
1 AAATCTAAATTTTA
*
47723 AAATCTAAATATTA
1 AAATCTAAATTTTA
**
47737 ATCTCTAAATTTTA
1 AAATCTAAATTTTA
*
47751 AACTCTA
1 AAATCTA
47758 CTTCCGAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 5 0.17
14 24 0.83
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATCTAAATTTTA
Found at i:52594 original size:22 final size:23
Alignment explanation
Indices: 52555--52598 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
52545 GAAAAAAGTA
*
52555 CCACAAATACAAAGAAAAATATG
1 CCACAAAGACAAAGAAAAATATG
*
52578 CCACAAAGACAGA-AAAAATAT
1 CCACAAAGACAAAGAAAAATAT
52599 ATCATAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.11
Consensus pattern (23 bp):
CCACAAAGACAAAGAAAAATATG
Found at i:53047 original size:20 final size:21
Alignment explanation
Indices: 53022--53073 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
53012 TTTTCCCAAT
*
53022 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
53042 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
53063 TCGCAATGCGA
1 TCGCAATGCGA
53074 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:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:53087 original size:20 final size:20
Alignment explanation
Indices: 53062--53175 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
53052 AATTGGGAAA
*
53062 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
53082 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
53102 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
53123 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
53143 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
53163 TTCGCAACGCGAT
1 ATCGCAACGCGAT
53176 TTACATAACG
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:53106 original size:61 final size:61
Alignment explanation
Indices: 53059--53175 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
53049 GCGAATTGGG
* * * * *
53059 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
53120 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
53176 TTACATAACG
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:53746 original size:19 final size:19
Alignment explanation
Indices: 53710--53751 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
53700 ACGAGAGAAT
*
53710 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
53729 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
53748 CGCA
1 CGCA
53752 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:53769 original size:19 final size:19
Alignment explanation
Indices: 53747--53859 Score: 92
Period size: 20 Copynumber: 6.1 Consensus size: 19
53737 GAAACCAAAA
*
53747 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
53766 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
53780 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
**
53799 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
53818 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
53838 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
53858 TC
1 TC
53860 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
14 9 0.12
16 2 0.03
17 3 0.04
19 30 0.39
20 32 0.42
21 1 0.01
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:55707 original size:94 final size:94
Alignment explanation
Indices: 55546--55760 Score: 360
Period size: 94 Copynumber: 2.3 Consensus size: 94
55536 TAGATTGCTT
* * *
55546 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTGTTCTTTATCACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
55611 ATTTGTCTTT-TATTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGT-TTTGTCTTTTGGTTGAA
* *
55640 AGTAAATTTGTTCGGTTCCTGCCAATTCTGCTAAACTGTGTATTTTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
55705 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
55734 AGTAAATTTGTTCGTTTGCTGCCAATT
1 AGTAAATTTGTTCGGTTGCTGCCAATT
55761 GAAACTATTC
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
94 112 0.99
95 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:56122 original size:42 final size:42
Alignment explanation
Indices: 56071--56164 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
56061 CATCTCCTAT
* *
56071 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCATCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGTCCC-TCCCAC
* * *
56113 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
56155 CATTCAAGAG
1 CGTTCAAGAG
56165 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 35 0.80
43 5 0.11
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:57543 original size:14 final size:14
Alignment explanation
Indices: 57524--57559 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
57514 ATTGTTTAAT
57524 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
57538 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
57552 TGATTTGT
1 TGATTTGT
57560 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:57741 original size:19 final size:19
Alignment explanation
Indices: 57666--57732 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
57656 AAAAAGTACT
*
57666 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
57685 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
57699 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
57718 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
57733 TAAATTCGCG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 25 0.61
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:57783 original size:33 final size:32
Alignment explanation
Indices: 57741--57867 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
57731 ATTAAATTCG
*
57741 CGTTGCGATTTTTATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
* **
57774 CGTTGCGATTTTCATTTCGTATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
57807 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
57840 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
57868 AGTAATTTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:57800 original size:19 final size:18
Alignment explanation
Indices: 57743--57867 Score: 67
Period size: 19 Copynumber: 7.4 Consensus size: 18
57733 TAAATTCGCG
*
57743 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCG-A
**
57762 TTGCGA--TTC-CCTCG-
1 TTGCGATTTTCATTTCGA
57776 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCG-A
** *
57795 TTGCGAAATT-A--GCG-
1 TTGCGATTTTCATTTCGA
57809 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
*
57828 TTGCGA--TTC-TCTCG-
1 TTGCGATTTTCATTTCGA
57842 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCG-A
57861 TTGCGAT
1 TTGCGAT
57868 AGTAATTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 30
0.64 0.11 0.25
Matches are distributed among these distances:
14 20 0.26
15 1 0.01
16 15 0.19
17 14 0.18
18 1 0.01
19 27 0.35
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (18 bp):
TTGCGATTTTCATTTCGA
Found at i:57824 original size:66 final size:66
Alignment explanation
Indices: 57734--57866 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
57724 ACGCGAAATT
* * *
57734 AAATTCGCGTTGCGATTTTTATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGTATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
57799 G
66 G
*
57800 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
57865 G
66 G
57866 A
1 A
57867 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:0.17, C:0.21, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:60147 original size:12 final size:12
Alignment explanation
Indices: 60130--60154 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60120 TCTTCGGGGA
60130 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60142 CTTTTTCTTCTT
1 CTTTTTCTTCTT
60154 C
1 C
60155 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:60363 original size:24 final size:24
Alignment explanation
Indices: 60329--60382 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
60319 CTGAAACATC
* *
60329 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
60353 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
60377 ATCAAA
1 ATCAAA
60383 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:61203 original size:33 final size:33
Alignment explanation
Indices: 61161--61283 Score: 156
Period size: 33 Copynumber: 3.7 Consensus size: 33
61151 TCATTTGACC
* * *
61161 ATCGTAATGCGAAATGCAAATCGCAACGATAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
61194 ATCGCAATGCGAAATGAAAAAGGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
61227 ATCGCAATGCGAAATGAAAATCGTAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
61260 ATCGCAAAGCGAAAATTAAAATCG
1 ATCGCAATGCG-AAATGAAAATCG
61284 TTGCGATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 67 0.86
34 11 0.14
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:61320 original size:19 final size:19
Alignment explanation
Indices: 61296--61356 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
61286 GCGATTTTGT
61296 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
61315 CATTGCGA--TT-ATCTCG
1 CATTGCGATTTTCATTTCG
*
61331 --TTGCGATTTTCTTTTCG
1 CATTGCGATTTTCATTTCG
61348 CATTGCGAT
1 CATTGCGAT
61357 CTCACTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 6 0.18
16 7 0.21
17 6 0.18
19 15 0.44
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:61335 original size:33 final size:33
Alignment explanation
Indices: 61284--61356 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
61274 ATTAAAATCG
* *
61284 TTGCGATTTTGTCATTGCGATTTTCATTTCGCA
1 TTGCGATTATCTCATTGCGATTTTCATTTCGCA
* *
61317 TTGCGATTATCTCGTTGCGATTTTCTTTTCGCA
1 TTGCGATTATCTCATTGCGATTTTCATTTCGCA
61350 TTGCGAT
1 TTGCGAT
61357 CTCACTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.14, C:0.19, G:0.19, T:0.48
Consensus pattern (33 bp):
TTGCGATTATCTCATTGCGATTTTCATTTCGCA
Found at i:61605 original size:20 final size:20
Alignment explanation
Indices: 61580--61637 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
61570 ATTCATTTGA
61580 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
61600 CTATCGCAGCGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
61620 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
61638 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:61680 original size:33 final size:33
Alignment explanation
Indices: 61643--61713 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
61633 AAAATCGCAA
*
61643 TGCGAAATGAAAATCGCATTGTGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
61676 TGCGATTTTTATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
61709 TGCGA
1 TGCGA
61714 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:61723 original size:33 final size:33
Alignment explanation
Indices: 61656--61733 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
61646 GAAATGAAAA
* ****
61656 TCGCATTGTGATTTTCTCGTTGCGATTTTTATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
61689 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
61722 TCGCGTTGCGAT
1 TCGCATTGCGAT
61734 AGTCTGTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.13, C:0.21, G:0.22, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:61846 original size:14 final size:14
Alignment explanation
Indices: 61827--61864 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
61817 CATCAATTAA
61827 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
61841 ACAAATCATCTTTT
1 ACAAATCAACATTT
61855 ACAAATCAAC
1 ACAAATCAAC
61865 TAAACAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:63788 original size:19 final size:19
Alignment explanation
Indices: 63707--63861 Score: 89
Period size: 20 Copynumber: 8.6 Consensus size: 19
63697 TAGTTTACTT
* *
63707 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
63727 TCGCAACGCGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
63747 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
63767 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
63786 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
* *
63800 TCGCAATGCAAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
63818 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
63832 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
63851 TCGCAATGCGA
1 TCGCAACGCGA
63862 TTTGTGTTTC
Statistics
Matches: 106, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
14 20 0.19
15 1 0.01
16 4 0.04
17 2 0.02
18 11 0.10
19 27 0.25
20 37 0.35
21 4 0.04
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:63801 original size:14 final size:14
Alignment explanation
Indices: 63782--63839 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
63772 ATGCGAAATG
63782 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
63796 AAAATCGCAATGCAAA
1 AAAATCGCAA--CGAC
63812 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
63828 AAAATCGCAACG
1 AAAATCGCAACG
63840 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:63824 original size:32 final size:33
Alignment explanation
Indices: 63766--63856 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
63756 GGAAATGGCT
63766 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
63799 ATCGCAATGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
63831 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
63857 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:63892 original size:14 final size:14
Alignment explanation
Indices: 63873--63930 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
63863 TTGTGTTTCG
63873 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
63887 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
63903 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
63919 CGTTGCGATTTT
1 CGTTGCGATTTT
63931 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:63911 original size:32 final size:33
Alignment explanation
Indices: 63868--63946 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
63858 GCGATTTGTG
*
63868 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
63900 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
63933 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
63947 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:63982 original size:20 final size:20
Alignment explanation
Indices: 63931--63974 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
63921 TTGCGATTTT
*
63931 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
63950 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
63970 CATTT
1 CATTT
63975 TCGTGTTGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:65866 original size:20 final size:20
Alignment explanation
Indices: 65843--65896 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
65833 GAAAATAAAA
*
65843 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
65863 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
65883 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
65897 CTAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:66167 original size:22 final size:22
Alignment explanation
Indices: 66140--66183 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
66130 GATGGAGATA
66140 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
66162 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
66184 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:66401 original size:20 final size:20
Alignment explanation
Indices: 66376--66423 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
66366 TGTATTATCT
66376 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
* *
66396 CGTTGCGAAAGTCAGTATCT
1 CGTTGCGAAAGTCAGAATCG
66416 CGTTGCGA
1 CGTTGCGA
66424 TTTTGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:66457 original size:20 final size:20
Alignment explanation
Indices: 66432--66485 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
66422 GATTTTGTAT
66432 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
66452 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
66472 TATCGCATTGCGAT
1 TATCGCATTGCGAT
66486 TTTCTCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:66457 original size:61 final size:61
Alignment explanation
Indices: 66351--66488 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 61
66341 CGCTTTGAAA
* * * * *
66351 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * *
66412 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
66473 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
66489 CTCAATTCGC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:66504 original size:61 final size:61
Alignment explanation
Indices: 66351--66506 Score: 170
Period size: 61 Copynumber: 2.6 Consensus size: 61
66341 CGCTTTGAAA
* * * * * * *
66351 ATCGCATTGCGATTATGTATTATCTCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * * *
66412 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
66473 ATCGCATTGCGATTTTCTCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTTCT-AATATCGCGTTGCGAT
66507 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:66518 original size:20 final size:21
Alignment explanation
Indices: 66474--66525 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
66464 ATAGTCAGTA
*
66474 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACTCAAT
* *
66495 TCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTCAAT
66515 TCGCATTGCGA
1 TCGCATTGCGA
66526 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTACTCAAT
Found at i:66559 original size:21 final size:21
Alignment explanation
Indices: 66535--66585 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
66525 AATTGGGAAA
66535 ATCGCAACGACACTATAGACC
1 ATCGCAACGACACTATAGACC
*
66556 ATCGCAACGACACTGTAGACC
1 ATCGCAACGACACTATAGACC
66577 ATCGCAACG
1 ATCGCAACG
66586 CGATTTTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.33, G:0.18, T:0.14
Consensus pattern (21 bp):
ATCGCAACGACACTATAGACC
Found at i:74478 original size:21 final size:19
Alignment explanation
Indices: 74451--74511 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 19
74441 AAGATCAAAA
*
74451 CAAAAAGGTTTAGTTTTTTT
1 CAAAAAAGTTTA-TTTTTTT
74471 CAAAAAAGTTTATTTTTTTTT
1 CAAAAAAGTTTA--TTTTTTT
*
74492 CAAAAAAGTTGATTTTTTT
1 CAAAAAAGTTTATTTTTTT
74511 C
1 C
74512 CAGATTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.22
20 11 0.30
21 18 0.49
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (19 bp):
CAAAAAAGTTTATTTTTTT
Found at i:79883 original size:21 final size:19
Alignment explanation
Indices: 79845--79881 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
79835 TCGTTCGATT
79845 CGGTTAATATATTCAAAAC
1 CGGTTAATATATTCAAAAC
79864 CGGTTAATATATTCAAAA
1 CGGTTAATATATTCAAAA
79882 AAAAAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (19 bp):
CGGTTAATATATTCAAAAC
Found at i:85444 original size:106 final size:106
Alignment explanation
Indices: 85190--85766 Score: 940
Period size: 106 Copynumber: 5.5 Consensus size: 106
85180 GTTCTGGAAC
* * * * *
85190 TGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAG
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
85255 TCCAA-ATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
* * * * *
85295 TGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAG
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
85360 TCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAAT
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
* * *
85401 TGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTCAACTTGCGTTGTCTGGAG
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
85466 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAAT
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
*
85507 TGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
85572 TCCAATATCTTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
* * *
85613 TGGGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTCGAG
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
*
85678 TCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAAT
66 TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
*
85719 TGGGAAGTTGTTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGA
1 TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
85767 GCCTTGACTT
Statistics
Matches: 445, Mismatches: 26, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
105 70 0.16
106 375 0.84
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAG
TCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAAT
Found at i:85991 original size:36 final size:37
Alignment explanation
Indices: 85943--86041 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
85933 GCAAATTGTG
* *
85943 TTGTTTCGAGAGAAACTATCTCAAGGGAGACAACA-T
1 TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAACT
*
85979 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACT
1 TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAACT
* * *
86016 TAGTTCCAAAAGAAACTATCTCAAGG
1 TTGTTTCAAGAGAAACTATCTCAAGG
86042 AAACGGAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 32 0.58
37 23 0.42
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.24
Consensus pattern (37 bp):
TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAACT
Found at i:86165 original size:39 final size:39
Alignment explanation
Indices: 86111--86186 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
86101 TCATAGTCTA
* * *
86111 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGC
1 TGTTTCAAGAGAAACTATCTAAAGAGAGACAAAATTTGC
* * *
86150 TGTTTCGAGGGAAACTATCTAAAGAGAGACGAAATTT
1 TGTTTCAAGAGAAACTATCTAAAGAGAGACAAAATTT
86187 ATTTCAAGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTAAAGAGAGACAAAATTTGC
Found at i:86266 original size:37 final size:37
Alignment explanation
Indices: 86216--86383 Score: 124
Period size: 37 Copynumber: 4.8 Consensus size: 37
86206 CAATGTTTAC
* *
86216 GTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTTT
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* *
86253 GTTTCAAGGGAAACTATCTCAAGGGAGACAAAA-TTC
1 GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
* * * *
86289 ATTTCAAAGGAAA-TGTTTTCAA---TG------TTTAT
1 GTTTCAAGGGAAACTG-TCTCAAGGGAGACAAAATTT-T
**
86318 GTTTCAAGATAACACTGTCTCAAGGGAGACAAAATTTT
1 GTTTCAAGGGAA-ACTGTCTCAAGGGAGACAAAATTTT
* *
86356 GTTTCAAGGGAAACTATCTCAAGCGAGA
1 GTTTCAAGGGAAACTGTCTCAAGGGAGA
86384 TAAGATCTTG
Statistics
Matches: 97, Mismatches: 20, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
28 2 0.02
29 8 0.08
30 6 0.06
31 2 0.02
33 2 0.02
35 1 0.01
36 18 0.19
37 44 0.45
38 11 0.11
39 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (37 bp):
GTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTT
Found at i:86377 original size:103 final size:102
Alignment explanation
Indices: 86083--86383 Score: 451
Period size: 102 Copynumber: 2.9 Consensus size: 102
86073 AAATATTTTG
*
86083 TTTCAAGGGAAACTGTTTTC-ATAGTCTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 TTTCAAGGGAAA-TGTTTTCAAT-GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * * *
86147 TGCTGTTTCGAGGGAAACTATCTAAAGAGAGACGAAATTTA
64 T--TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
86188 TTTCAAGGGAAATGTTTTCAATGTTTACGTTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
86253 GTTTCAAGGGAAACTATCTCAAGGGAGACAAAATTCA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
86290 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGATAACACTGTCTCAAGGGAGACAAAATTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAA-ACTGTCTCAAGGGAGACAAAATTT
*
86355 TGTTTCAAGGGAAACTATCTCAAGCGAGA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGA
86384 TAAGATCTTG
Statistics
Matches: 181, Mismatches: 13, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
102 70 0.39
103 51 0.28
104 46 0.25
105 14 0.08
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:86395 original size:37 final size:38
Alignment explanation
Indices: 86317--86401 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 38
86307 TCAATGTTTA
* * * *
86317 TGTTTCAAGATAACACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAACACTATCTCAAGCGAGACAAAATCT
* * *
86355 TGTTTCAAGGGAA-ACTATCTCAAGCGAGATAAGATCT
1 TGTTTCAAGAGAACACTATCTCAAGCGAGACAAAATCT
*
86392 TGTTTTAAGA
1 TGTTTCAAGA
86402 AAAACAATCT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
37 27 0.71
38 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (38 bp):
TGTTTCAAGAGAACACTATCTCAAGCGAGACAAAATCT
Found at i:86481 original size:72 final size:72
Alignment explanation
Indices: 86366--86555 Score: 229
Period size: 72 Copynumber: 2.6 Consensus size: 72
86356 GTTTCAAGGG
* * * **
86366 AAACTATCTCAAGCGAGATAAGATCTTGTTTTAAGAAAAACAATCTTGAGGGAAATAAATC-TCT
1 AAACAATCTCAAGCGAGACAAGGTC-TGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTC-
86430 TTTCGAGTA
64 TTTCGAGTA
* * **
86439 AAGCAATCTCAAGCGAGACAAGGTCTATTTTAAGAATGACAATCTCAAGGGAAATAAATCTTCTT
1 AAACAATCTCAAGCGAGACAAGGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTT
86504 TCGAGTA
66 TCGAGTA
* * * * *
86511 AAACAGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAATAATCT
1 AAACAATCTCAAGCGAGACAAGGTCTGTTTTAAGAAAAACAATCT
86556 TGAGTGAGAT
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
72 75 0.77
73 23 0.23
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (72 bp):
AAACAATCTCAAGCGAGACAAGGTCTGTTTTAAGAAAAACAATCTCAAGGGAAATAAATCTTCTT
TCGAGTA
Found at i:90372 original size:21 final size:21
Alignment explanation
Indices: 90346--90385 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90336 CAGAACCCCA
*
90346 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
90367 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
90386 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:96979 original size:22 final size:22
Alignment explanation
Indices: 96952--97032 Score: 126
Period size: 22 Copynumber: 3.7 Consensus size: 22
96942 TCGCGTTTGA
**
96952 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGTGTTTGATGC
96974 TCAAAGGTTTGGTGTTTGATGC
1 TCAAAGGTTTGGTGTTTGATGC
96996 TCAAAGGTTTGGTGTTTGATGC
1 TCAAAGGTTTGGTGTTTGATGC
* *
97018 TCCAAGGATTGGTGT
1 TCAAAGGTTTGGTGT
97033 GGTAGCTTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 55 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGTGTTTGATGC
Found at i:97720 original size:24 final size:23
Alignment explanation
Indices: 97666--97728 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
97656 TTCTTTCGAA
*
97666 TTTTG-TTCTTTC-TTTTTGTTC
1 TTTTGCTTTTTTCTTTTTTGTTC
*
97687 TTTTGGTTTTTTCCTTTTTTGCTTC
1 TTTTGCTTTTTT-CTTTTTTG-TTC
97712 TTTT-CTTTTTTCTTTTT
1 TTTTGCTTTTTTCTTTTT
97729 GCCCTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 5 0.14
23 7 0.19
24 12 0.33
25 7 0.19
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.78
Consensus pattern (23 bp):
TTTTGCTTTTTTCTTTTTTGTTC
Found at i:97727 original size:22 final size:23
Alignment explanation
Indices: 97666--97730 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
97656 TTCTTTCGAA
*
97666 TTTTG-TTCTTTCTTTTTG-TTC
1 TTTTGCTTTTTTCTTTTTGCTTC
*
97687 TTTTGGTTTTTTCCTTTTTTGCTTC
1 TTTTGCTTTTTT-C-TTTTTGCTTC
97712 TTTT-CTTTTTTCTTTTTGC
1 TTTTGCTTTTTTCTTTTTGC
97731 CCTTTTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.13
22 12 0.32
23 2 0.05
24 12 0.32
25 7 0.18
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.75
Consensus pattern (23 bp):
TTTTGCTTTTTTCTTTTTGCTTC
Found at i:99664 original size:5 final size:5
Alignment explanation
Indices: 99654--99683 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
99644 GCAAGTGATG
99654 AAAAT AAAAT AAAAT AAAAT AAAGAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
99684 AGAGTTAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:102695 original size:18 final size:18
Alignment explanation
Indices: 102655--102697 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
102645 AAAGTAAAAA
*
102655 TTTAATTATTATTTATTG
1 TTTATTTATTATTTATTG
* *
102673 TTTATTTATTTTTTATTT
1 TTTATTTATTATTTATTG
102691 TTTATTT
1 TTTATTT
102698 TATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (18 bp):
TTTATTTATTATTTATTG
Done.