Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1846
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: 186639
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:7880 original size:18 final size:18
Alignment explanation
Indices: 7848--7893 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7838 AAAAAAAAGC
*
7848 AAAAAAA-AAAGCAAAAA
1 AAAAAAACAAAACAAAAA
7865 AAAAAAACAAAACAAAAA
1 AAAAAAACAAAACAAAAA
*
7883 AACAAAACAAA
1 AAAAAAACAAA
7894 GAAAAAGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAACAAAAA
Found at i:7890 original size:13 final size:13
Alignment explanation
Indices: 7839--7898 Score: 77
Period size: 13 Copynumber: 4.5 Consensus size: 13
7829 TTCTCTTAAA
7839 AAAAAAAGCAAAA-
1 AAAAAAA-CAAAAC
* *
7852 AAAAAAGCAAAAA
1 AAAAAAACAAAAC
7865 AAAAAAACAAAAC
1 AAAAAAACAAAAC
7878 AAAAAAACAAAAC
1 AAAAAAACAAAAC
7891 AAAGAAAA
1 AAA-AAAA
7899 AGAGAGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
12 5 0.12
13 33 0.79
14 4 0.10
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:7899 original size:18 final size:17
Alignment explanation
Indices: 7848--7899 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
7838 AAAAAAAAGC
7848 AAAAAAA-AAAGCAAAAA
1 AAAAAAACAAAG-AAAAA
7865 AAAAAAACAAA-ACAAAA
1 AAAAAAACAAAGA-AAAA
7882 AAACAAAACAAAGAAAAA
1 AAA-AAAACAAAGAAAAA
7900 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 14 0.45
18 15 0.48
19 1 0.03
ACGTcount: A:0.87, C:0.10, G:0.04, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAAGAAAAA
Found at i:9029 original size:59 final size:58
Alignment explanation
Indices: 8882--9538 Score: 736
Period size: 59 Copynumber: 11.3 Consensus size: 58
8872 TCCGCTTTTT
* * * * * **
8882 AGTCTTCAGAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACG-CTTTT-CTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
*
8944 AGTCCTCAAAGAGCAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
9003 AGTCCTCAAAGAGCGGGACACTTTTTCTCTTAAAGCCCACACAAGTTGGCGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
9062 AGTCCTCAAAGAGCAGAACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGAC-GCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
9121 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACG-CTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
9180 AGTCCTCAAAGAGCAGGATGCTTTTGC-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCTTTT-CTC-TT-AAAGCCCACACAAGTTGGTGGCACCTTC
* *
9240 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGC-TTTTCTCTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
9301 AGTCCCCAAAGAGCATGAC-CTCTT-TC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * **
9356 AGTCCTCAAAGAGCAGGACAC-CTT-TC--AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
9411 AGTCCTCAAAGAGCAGGACAC----CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
9466 AGTCCTCAAAGAGCAGGACGC-CTT-TC--AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
9521 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
9539 TACACTTTAT
Statistics
Matches: 537, Mismatches: 39, Indels: 45
0.86 0.06 0.07
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 183 0.34
56 3 0.01
57 2 0.00
58 6 0.01
59 186 0.35
60 103 0.19
61 28 0.05
62 22 0.04
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (58 bp):
AGTCCTCAAAGAGCAGGACGCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:9359 original size:55 final size:55
Alignment explanation
Indices: 8915--9538 Score: 630
Period size: 55 Copynumber: 10.8 Consensus size: 55
8905 TTTCCTTTTA
* * *
8915 AAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA-TGCTTTTTCTC
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACT-C-TCTT-TC
* * * *
8973 TTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACTTTTTCTC
1 --AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACTC-TCTT-TC
* * * * *
9032 TTAAAGCCCACACAAGTTGGCGGCACCTTCAGTCCTCAAAGAGCAGAACACCTTTTCTC
1 --AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGAC-TCTCTT-TC
* * * *
9091 TTAAAGCCCACACAAGTTGGTGGCACCTTCAATCCTCAAAGAGCAGGACGCCTTTTCTTTT
1 --AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGA---C-TCTCTTTC
* * *
9152 AAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGA--C-TCT--CTTTC
* *
9212 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGA--C--TCTC-TTTC
* *
9272 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCATGAC-CTCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACTCTCTTTC
* *
9327 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-CTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACTCTCTTTC
* *
9382 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC-CTCTT-
1 AAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACTCTCT-TTC
*
9437 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-CTTTC
1 AAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACTCTCTTTC
* *
9492 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGA
9539 TACACTTTAT
Statistics
Matches: 514, Mismatches: 34, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
54 6 0.01
55 191 0.37
56 8 0.02
58 5 0.01
59 171 0.33
60 104 0.20
61 25 0.05
62 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACTCTCTTTC
Found at i:9381 original size:27 final size:27
Alignment explanation
Indices: 9351--9491 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
9341 TTGGTGGCAT
9351 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
9378 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
9406 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
** * * * **
9433 TCTTAAAGCCCACACAAGTTGGTGG-CACC
1 T-TTCCAGTCCTCA-AAG-AGCAGGACACC
*
9462 TTT-CAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
9488 TTTC
1 TTTC
9492 AAAGCCCACA
Statistics
Matches: 76, Mismatches: 28, Indels: 20
0.61 0.23 0.16
Matches are distributed among these distances:
25 6 0.08
26 14 0.18
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:10307 original size:21 final size:21
Alignment explanation
Indices: 10283--10359 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
10273 ATAAATTTCA
10283 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
10304 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
10325 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
10346 AATGTATCGATACA
1 AATGTATCGATACA
10360 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:10419 original size:19 final size:19
Alignment explanation
Indices: 10395--10494 Score: 98
Period size: 19 Copynumber: 5.9 Consensus size: 19
10385 AATTCAACAA
10395 TTTGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
10414 TTTGTATCGATAC---AA-
1 TTTGTATCGATACATAAAT
10429 --TGTATCGATACATAAAT
1 TTTGTATCGATACATAAAT
10446 TTTGTATCGATAC---AA-
1 TTTGTATCGATACATAAAT
*
10461 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAAT
*
10478 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
10495 TTAGCTACTG
Statistics
Matches: 68, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
13 22 0.32
16 7 0.10
19 39 0.57
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAAT
Found at i:10434 original size:13 final size:13
Alignment explanation
Indices: 10416--10472 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
10406 ACATAAATTT
10416 TGTATCGATACAA
1 TGTATCGATACAA
10429 TGTATCGATACATAAA
1 TGTATCGATAC---AA
10445 TTTTGTATCGATACAA
1 ---TGTATCGATACAA
10461 TGTATCGATACA
1 TGTATCGATACA
10473 TAAGTATTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
16 4 0.11
19 11 0.29
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:10438 original size:32 final size:32
Alignment explanation
Indices: 10397--10491 Score: 172
Period size: 32 Copynumber: 3.0 Consensus size: 32
10387 TTCAACAATT
10397 TGTATCGATACATAAATTTTGTATCGATACAA
1 TGTATCGATACATAAATTTTGTATCGATACAA
10429 TGTATCGATACATAAATTTTGTATCGATACAA
1 TGTATCGATACATAAATTTTGTATCGATACAA
* *
10461 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATTTTGTATCGATACA
10492 TAATTAGCTA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAATTTTGTATCGATACAA
Found at i:10552 original size:13 final size:13
Alignment explanation
Indices: 10534--10559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10524 CATTTTTCTG
10534 TGTATCGATACAT
1 TGTATCGATACAT
10547 TGTATCGATACAT
1 TGTATCGATACAT
10560 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10556 original size:33 final size:33
Alignment explanation
Indices: 10514--10580 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
10504 GCCAAGGAAA
***
10514 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
10547 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
10580 T
1 T
10581 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:13123 original size:51 final size:51
Alignment explanation
Indices: 13060--13281 Score: 237
Period size: 52 Copynumber: 4.3 Consensus size: 51
13050 TTATTTTCGA
* * * *
13060 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
* * * * *
13111 GGGGATATTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTT-CATAATC
* * * * *
13163 GGGGATACTCCAACCCCGATTTTATTTTCGAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
13215 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAGTC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
*
13267 GAGGATACTCCAACC
1 GGGGATACTCCAACC
13282 TCGTTATTTC
Statistics
Matches: 139, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
51 37 0.27
52 89 0.64
53 13 0.09
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATC
Found at i:13301 original size:28 final size:28
Alignment explanation
Indices: 13269--13340 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
13259 TCACAGTCGA
* * **
13269 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
13297 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
13325 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
13341 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:13419 original size:28 final size:29
Alignment explanation
Indices: 13374--13428 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
13364 TCTCATAATT
*
13374 GGGGATACTCCAACCCCG-TTATTTTTGA
1 GGGGATACTCAAACCCCGATTATTTTTGA
* *
13402 GGGGATACTCAAATCCCGATTTTTTTT
1 GGGGATACTCAAACCCCGATTATTTTT
13429 CTAATCATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (29 bp):
GGGGATACTCAAACCCCGATTATTTTTGA
Found at i:15145 original size:16 final size:16
Alignment explanation
Indices: 15124--15159 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
15114 ATAAAATAAT
15124 ATTTA-TTTATTATTTC
1 ATTTATTTTATT-TTTC
15140 ATTTATTTTATTTTTC
1 ATTTATTTTATTTTTC
15156 ATTT
1 ATTT
15160 TCAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTTTATTTTTC
Found at i:16661 original size:20 final size:20
Alignment explanation
Indices: 16638--16711 Score: 130
Period size: 20 Copynumber: 3.7 Consensus size: 20
16628 CACATCCAGA
*
16638 TGTATAGATACATTATGCTT
1 TGTATCGATACATTATGCTT
*
16658 TGTATCGATCCATTATGCTT
1 TGTATCGATACATTATGCTT
16678 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
16698 TGTATCGATACATT
1 TGTATCGATACATT
16712 GTATCGACAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:16732 original size:19 final size:19
Alignment explanation
Indices: 16708--16763 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
16698 TGTATCGATA
*
16708 CATTGTATCGACACATGCT
1 CATTGTATCGATACATGCT
* *
16727 CATTGTATCAATACATACT
1 CATTGTATCGATACATGCT
16746 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
16764 AAATTAACAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGCT
Found at i:19630 original size:13 final size:13
Alignment explanation
Indices: 19612--19636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19602 CATAAAGTGT
19612 TGTATCGATACAA
1 TGTATCGATACAA
19625 TGTATCGATACA
1 TGTATCGATACA
19637 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:19636 original size:33 final size:33
Alignment explanation
Indices: 19594--19658 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
19584 CAACGATTTT
19594 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
*** *
19627 TATCGATACATATTTTTTTGTATCGATACAAT
1 TATCGATACATAAAGTGTTGTATCGATACAAT
19659 TTAAGCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:19768 original size:52 final size:51
Alignment explanation
Indices: 19703--19802 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 51
19693 CTCAAATGTA
*
19703 ATGTATCGATACACTGATCT-TTGTATCGATACATGCAGGCAAATTTTCCCAG
1 ATGTATCGATACACT-AT-TAATGTATCGATACATGCAGGCAAATTTTCCCAG
*
19755 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTTTC
1 ATGTATCGATACACTATT-AATGTATCGATACATGCAGGCAAATTTTC
19803 ATATTTCGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 1 0.02
51 2 0.05
52 41 0.93
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (51 bp):
ATGTATCGATACACTATTAATGTATCGATACATGCAGGCAAATTTTCCCAG
Found at i:22504 original size:32 final size:30
Alignment explanation
Indices: 22468--22526 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
22458 GAAAACAAAT
22468 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
22500 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
22527 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:22805 original size:13 final size:13
Alignment explanation
Indices: 22787--22812 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22777 CAATTTTTTG
22787 TGTATCGATACAT
1 TGTATCGATACAT
22800 TGTATCGATACAT
1 TGTATCGATACAT
22813 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:22827 original size:32 final size:33
Alignment explanation
Indices: 22767--22830 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
22757 TACAAGCCAA
** *
22767 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
22800 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
22831 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:25371 original size:13 final size:13
Alignment explanation
Indices: 25353--25390 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
25343 ATAATCCCCC
25353 TGTATCGATAC-T
1 TGTATCGATACAT
25365 ATGTATCGATACAT
1 -TGTATCGATACAT
25379 TGTATCGATACA
1 TGTATCGATACA
25391 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 23 0.96
14 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:27493 original size:15 final size:15
Alignment explanation
Indices: 27473--27503 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
27463 ATTTCGTTTG
*
27473 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
27488 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
27503 G
1 G
27504 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:29335 original size:21 final size:21
Alignment explanation
Indices: 29306--29350 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29296 AAGTTTTTAT
*
29306 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
29326 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
29348 TTT
1 TTT
29351 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:31267 original size:32 final size:30
Alignment explanation
Indices: 31231--31289 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
31221 GAAAACAAAT
31231 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
31263 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
31290 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:31588 original size:13 final size:13
Alignment explanation
Indices: 31570--31595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31560 CAATTTTTTG
31570 TGTATCGATACAT
1 TGTATCGATACAT
31583 TGTATCGATACAT
1 TGTATCGATACAT
31596 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31610 original size:32 final size:33
Alignment explanation
Indices: 31550--31613 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
31540 TACAAGCCAA
** *
31550 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
31583 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
31614 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:38954 original size:13 final size:13
Alignment explanation
Indices: 38936--38991 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
38926 TTATGCTTTA
38936 TATCGATACAATG
1 TATCGATACAATG
38949 TATCGATAC-AT-
1 TATCGATACAATG
**
38960 TAT-G---CTTTG
1 TATCGATACAATG
38969 TATCGATACAATG
1 TATCGATACAATG
38982 TATCGATACA
1 TATCGATACA
38992 TTATGCTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 2 0.06
11 3 0.09
12 2 0.06
13 22 0.65
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:38958 original size:33 final size:33
Alignment explanation
Indices: 38913--39017 Score: 183
Period size: 33 Copynumber: 3.2 Consensus size: 33
38903 ACACATCCAT
* *
38913 ATGTATCAATACATTATGCTTTATATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
38946 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
38979 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCTTTGTATCGATACA
*
39012 TTGTAT
1 ATGTAT
39018 TGGTATATGC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (33 bp):
ATGTATCGATACATTATGCTTTGTATCGATACA
Found at i:38972 original size:20 final size:20
Alignment explanation
Indices: 38947--39013 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
38937 ATCGATACAA
38947 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
38967 TGTATCGATACA--A-----
1 TGTATCGATACATTATGCTT
38980 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
39000 TGTATCGATACATT
1 TGTATCGATACATT
39014 GTATTGGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
15 1 0.03
18 1 0.03
20 26 0.65
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:49260 original size:23 final size:23
Alignment explanation
Indices: 49229--49277 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
49219 TTTAAAAAAA
49229 TAAAAAATAATAATAATCA-TAAT
1 TAAAAAATAATAATAAT-ATTAAT
*
49252 TAAATAATAATAATAATATTAAT
1 TAAAAAATAATAATAATATTAAT
49275 TAA
1 TAA
49278 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAAAATAATAATAATATTAAT
Found at i:49686 original size:30 final size:29
Alignment explanation
Indices: 49615--49715 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 29
49605 CAGCTATAGC
* * * *
49615 AAAAGAAGAATAAAAGAAAAACAAAAACAAC
1 AAAAGAA-AA-AAAAGACAAACAACAAGAAA
49646 AAAAGAAAAAAAATGA-AAACAACAATAGAAA
1 AAAAGAAAAAAAA-GACAAACAAC-A-AGAAA
49677 AAAAGAAAAAAAAGACGAAACAACAAGAAA
1 AAAAGAAAAAAAAGAC-AAACAACAAGAAA
49707 AAAAGAAAA
1 AAAAGAAAA
49716 GTTACTTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
29 10 0.16
30 21 0.34
31 24 0.39
32 7 0.11
ACGTcount: A:0.78, C:0.08, G:0.11, T:0.03
Consensus pattern (29 bp):
AAAAGAAAAAAAAGACAAACAACAAGAAA
Found at i:49687 original size:23 final size:23
Alignment explanation
Indices: 49631--49680 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
49621 AGAATAAAAG
*
49631 AAAAACAAAAACAACAAAAGAAA
1 AAAAATAAAAACAACAAAAGAAA
* *
49654 AAAAATGAAAACAACAATAGAAA
1 AAAAATAAAAACAACAAAAGAAA
49677 AAAA
1 AAAA
49681 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.80, C:0.10, G:0.06, T:0.04
Consensus pattern (23 bp):
AAAAATAAAAACAACAAAAGAAA
Found at i:49830 original size:3 final size:3
Alignment explanation
Indices: 49784--49813 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
49774 AACACAGCAG
*
49784 CAA CAA CAA CAA CAA CAG CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
49814 GCAAGTAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.33, G:0.03, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:49835 original size:18 final size:18
Alignment explanation
Indices: 49779--49836 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
49769 GTAGTAACAC
*
49779 AGCAGCAACAACAACAACA
1 AGCAGCAACAACAA-AGCA
49798 A-CAGCAACAACAACAAGCA
1 AGCAGCAACAAC-A-AAGCA
*
49817 AGTAGCAACAACAAAGCA
1 AGCAGCAACAACAAAGCA
49835 AG
1 AG
49837 AAATGAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 17 0.50
19 7 0.21
20 10 0.29
ACGTcount: A:0.57, C:0.28, G:0.14, T:0.02
Consensus pattern (18 bp):
AGCAGCAACAACAAAGCA
Found at i:49846 original size:23 final size:21
Alignment explanation
Indices: 49800--49853 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
49790 CAACAACAAC
* *
49800 AGCAACAAC-AACAAGCAAGT
1 AGCAACAACAAACAAGAAAGA
49820 AGCAACAACAAAGCAAGAAATGA
1 AGCAACAACAAA-CAAGAAA-GA
*
49843 AGCAGCAACAA
1 AGCAACAACAA
49854 CTTTGCAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 6 0.21
23 11 0.39
ACGTcount: A:0.57, C:0.22, G:0.17, T:0.04
Consensus pattern (21 bp):
AGCAACAACAAACAAGAAAGA
Found at i:56728 original size:13 final size:13
Alignment explanation
Indices: 56710--56734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56700 ACACCATGTA
56710 TGTATCGATACAT
1 TGTATCGATACAT
56723 TGTATCGATACA
1 TGTATCGATACA
56735 CCAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:58922 original size:22 final size:21
Alignment explanation
Indices: 58895--58946 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
58885 TTGCAAGTTG
58895 AAATAAAAAATTTAGCTAATG-A
1 AAATAAAAAA-TTAGCTAA-GAA
**
58917 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
58938 AAATAAAAA
1 AAATAAAAA
58947 CTTGCATGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.10, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:62817 original size:20 final size:20
Alignment explanation
Indices: 62745--62824 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
62735 AATTTCCAAA
*
62745 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATCTTTCT
* *
62765 GTGTATCGATACATCTGGAAAATTCA
1 ATGTATCGATACATCT------TTCT
62791 ATGTATCGATACATCTTTCT
1 ATGTATCGATACATCTTTCT
*
62811 TTGTATCGATACAT
1 ATGTATCGATACAT
62825 TGTATCAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
20 30 0.62
26 18 0.38
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATCTTTCT
Found at i:62829 original size:13 final size:13
Alignment explanation
Indices: 62811--62849 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
62801 ACATCTTTCT
62811 TTGTATCGATACA
1 TTGTATCGATACA
*
62824 TTGTATCAATACA
1 TTGTATCGATACA
* *
62837 CTATATCGATACA
1 TTGTATCGATACA
62850 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:62844 original size:46 final size:46
Alignment explanation
Indices: 62748--62849 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
62738 TTCCAAAATG
* * *
62748 TATCGATACATGTTTCTGTGTATCGATACATCTGGAAAATTCAATG
1 TATCGATACATCTTTCTGTGTATCGATACATCTGGAAAATACAATA
* * * *
62794 TATCGATACATCTTTCTTTGTATCGATACAT-TGTATCAATACACTA
1 TATCGATACATCTTTCTGTGTATCGATACATCTGGA-AAATACAATA
62840 TATCGATACA
1 TATCGATACA
62850 GGGGGATTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 3 0.06
46 45 0.94
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (46 bp):
TATCGATACATCTTTCTGTGTATCGATACATCTGGAAAATACAATA
Found at i:65438 original size:13 final size:13
Alignment explanation
Indices: 65420--65445 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65410 ACACCATGTA
65420 TGTATCGATACAT
1 TGTATCGATACAT
65433 TGTATCGATACAT
1 TGTATCGATACAT
65446 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:66778 original size:20 final size:20
Alignment explanation
Indices: 66753--66806 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
66743 GTATCGATAC
**
66753 AATGTATCGATACATGACTA
1 AATGTATCGATACATGAAAA
*
66773 AATGTATCGATACTTGAAAA
1 AATGTATCGATACATGAAAA
*
66793 AATGTATCCATACA
1 AATGTATCGATACA
66807 AGTCATTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATGAAAA
Found at i:66876 original size:13 final size:13
Alignment explanation
Indices: 66858--66883 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66848 ACACACAATG
66858 TGTATCGATACAT
1 TGTATCGATACAT
66871 TGTATCGATACAT
1 TGTATCGATACAT
66884 CACAAATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72850 original size:8 final size:8
Alignment explanation
Indices: 72837--72862 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
72827 ATTTGATTCA
72837 ATTTTGTG
1 ATTTTGTG
72845 ATTTTGTG
1 ATTTTGTG
72853 ATTTTGTG
1 ATTTTGTG
72861 AT
1 AT
72863 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:73083 original size:13 final size:13
Alignment explanation
Indices: 73065--73102 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
73055 CAGCATTCTC
*
73065 TGTATCGATACAT
1 TGTATCGATACAG
*
73078 TGTATCGATATAG
1 TGTATCGATACAG
73091 TGTATCGATACA
1 TGTATCGATACA
73103 AGGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:73576 original size:20 final size:21
Alignment explanation
Indices: 73536--73587 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
73526 CCCCTAGGCA
*
73536 GCACCCACCAGGTCGCGACC-G
1 GCACCC-CCAGGTCGCAACCGG
*
73557 GCACCCCCAGGTCGTAACCGG
1 GCACCCCCAGGTCGCAACCGG
73578 GCAGCCCCCA
1 GCA-CCCCCA
73588 CACTAGCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (21 bp):
GCACCCCCAGGTCGCAACCGG
Found at i:75006 original size:28 final size:28
Alignment explanation
Indices: 74986--75042 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
74976 TTTTTAATGT
74986 GCGAAATTGTTAAATTATTTTATTAAGG
1 GCGAAATTGTTAAATTATTTTATTAAGG
*
75014 GTGAAATTGTTAAATTATTTTATTAAGG
1 GCGAAATTGTTAAATTATTTTATTAAGG
75042 G
1 G
75043 GGAGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (28 bp):
GCGAAATTGTTAAATTATTTTATTAAGG
Found at i:75555 original size:20 final size:20
Alignment explanation
Indices: 75530--75599 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
75520 ACCCTGAAAA
*
75530 GTATCGATACACATTTAAAT
1 GTATCGATACAAATTTAAAT
* *
75550 GTATCGATACAAATTGCACA-
1 GTATCGATACAAATT-TAAAT
* *
75570 GTATCGATACATGA-CTAAAT
1 GTATCGATACA-AATTTAAAT
75590 GTATCGATAC
1 GTATCGATAC
75600 TTGAAAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
19 2 0.05
20 35 0.88
21 3 0.08
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (20 bp):
GTATCGATACAAATTTAAAT
Found at i:75609 original size:20 final size:20
Alignment explanation
Indices: 75570--75620 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
75560 AAATTGCACA
**
75570 GTATCGATACATGACTAAAT
1 GTATCGATACATGAAAAAAT
*
75590 GTATCGATACTTGAAAAAAT
1 GTATCGATACATGAAAAAAT
75610 GTATCGATACA
1 GTATCGATACA
75621 AGTCATTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
GTATCGATACATGAAAAAAT
Found at i:75690 original size:13 final size:13
Alignment explanation
Indices: 75672--75697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
75662 ACACACAATA
75672 TGTATCGATACAT
1 TGTATCGATACAT
75685 TGTATCGATACAT
1 TGTATCGATACAT
75698 CACAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:75708 original size:33 final size:32
Alignment explanation
Indices: 75652--75719 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
75642 GTAGCTAAAT
*
75652 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
75684 TTGTATCGATACATCACAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
75717 TTG
1 TTG
75720 GCTTGTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:78698 original size:7 final size:7
Alignment explanation
Indices: 78686--78718 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
78676 GTTTAGTTTA
78686 TTTTTTC
1 TTTTTTC
78693 TTTTTTC
1 TTTTTTC
78700 TTTTTT-
1 TTTTTTC
*
78706 TTTTCTC
1 TTTTTTC
78713 TTTTTT
1 TTTTTT
78719 TTTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:78708 original size:12 final size:12
Alignment explanation
Indices: 78687--78729 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
78677 TTTAGTTTAT
78687 TTTTTCTTTTTTC
1 TTTTT-TTTTTTC
78700 TTTTTTTTTTCTC
1 TTTTTTTTTT-TC
*
78713 TTTTTTTTTCTC
1 TTTTTTTTTTTC
78725 TTTTT
1 TTTTT
78730 CATTCATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:78709 original size:11 final size:12
Alignment explanation
Indices: 78693--78729 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
78683 TTATTTTTTC
78693 TTTTTTCT-TTT
1 TTTTTTCTCTTT
78704 TTTTTTCTCTTT
1 TTTTTTCTCTTT
78716 TTTTTTCTCTTT
1 TTTTTTCTCTTT
78728 TT
1 TT
78730 CATTCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 8 0.32
12 17 0.68
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:78709 original size:13 final size:13
Alignment explanation
Indices: 78686--78729 Score: 63
Period size: 12 Copynumber: 3.4 Consensus size: 13
78676 GTTTAGTTTA
*
78686 TTTTTTCTTTTTTC
1 TTTTTT-TTTTCTC
78700 TTTTTTTTTTCTC
1 TTTTTTTTTTCTC
78713 -TTTTTTTTTCTC
1 TTTTTTTTTTCTC
78725 TTTTT
1 TTTTT
78730 CATTCATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.43
13 10 0.36
14 6 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:80489 original size:52 final size:52
Alignment explanation
Indices: 80255--80614 Score: 225
Period size: 51 Copynumber: 7.0 Consensus size: 52
80245 AGAGTCAAAA
* * * * *
80255 TCCAC-ATTAGTTGGCACCTATATAGAGAGGTCAAGCCTTATAGAGT-TAAAA
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCT-AAG
* * * * * * * * *
80306 TCCAC-ATTAGTT-GCCATCTATATAAGGG-GATTAATCCTAATAGAGTCAAAA
1 TCCACAATTAGTTAG-CACCTATAT-AGGGAGGTCAAGCCTTATAAAATCTAAG
* * * * * * * * *
80357 TCCAC-ATTAGTTGGCACCTGTATAGTGTGGTCAAACTTTATAGAACCTATG
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
* * * * * *
80408 TTCAC-ATTTGCTAGCACTTGTATAAGGAGGTCAAGCCTTATAAAATCTAAG
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
* *
80459 TCTACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCCTATAAAATCTAAG
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
* * * * * * * * *
80511 TCCACACTAACTGA-CACCTGTATAGAGAGGTCTACCCTTATAGAATCTAAG
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
* * * * *
80562 TCCACAATTAGCTGGCACCTATATAGGGAGGTTAAG-CTTATAAAGTCAAAG
1 TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
80613 TC
1 TC
80615 TAGCTAGTAC
Statistics
Matches: 236, Mismatches: 66, Indels: 14
0.75 0.21 0.04
Matches are distributed among these distances:
50 4 0.02
51 163 0.69
52 69 0.29
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TCCACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCTTATAAAATCTAAG
Found at i:80492 original size:103 final size:103
Alignment explanation
Indices: 80357--80593 Score: 255
Period size: 103 Copynumber: 2.3 Consensus size: 103
80347 AGAGTCAAAA
* * * ** * * * * **
80357 TCCAC-ATTAGTTGGCACCTGTATAGTGTGGTCAAACTTTATAGAACCTATGTTCACATTTGCT-
1 TCCACAATTAGTTGGCACCTATATAGGGAGGTCAAACCCTATAAAACCTAAGTCCACACTAACTG
* *
80420 AGCACTTGTATA-AGGAGGTCAAGCCTTATAAAATCTAAG
66 A-CACCTGTATAGA-GAGGTCAACCCTTATAAAATCTAAG
* * * *
80459 TCTACAATTAGTTAGCACCTATATAGGGAGGTCAAGCCCTATAAAATCTAAGTCCACACTAACTG
1 TCCACAATTAGTTGGCACCTATATAGGGAGGTCAAACCCTATAAAACCTAAGTCCACACTAACTG
* *
80524 ACACCTGTATAGAGAGGTCTACCCTTATAGAATCTAAG
66 ACACCTGTATAGAGAGGTCAACCCTTATAAAATCTAAG
*
80562 TCCACAATTAGCTGGCACCTATATAGGGAGGT
1 TCCACAATTAGTTGGCACCTATATAGGGAGGT
80594 TAAGCTTATA
Statistics
Matches: 110, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
102 4 0.04
103 104 0.95
104 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (103 bp):
TCCACAATTAGTTGGCACCTATATAGGGAGGTCAAACCCTATAAAACCTAAGTCCACACTAACTG
ACACCTGTATAGAGAGGTCAACCCTTATAAAATCTAAG
Found at i:80614 original size:51 final size:50
Alignment explanation
Indices: 80165--80732 Score: 219
Period size: 51 Copynumber: 11.3 Consensus size: 50
80155 GTATCTATAA
* * * *
80165 TTGGCACCTGAT-T-GGAAGGTCAAG-TCTACAAAGTCAAAGTCCATATTAA
1 TTGGCACCT-ATATAGGGAGGTCAAGCT-TATAAAGTCAAAGTCCACATTAG
* * * * * * * * *
80214 CTGGCACTTATTTAGAGAAGTCAAATCCTATAGAGTCAAAATCCACATTAG
1 TTGGCACCTATATAGGGAGGTC-AAGCTTATAAAGTCAAAGTCCACATTAG
* * * *
80265 TTGGCACCTATATAGAGAGGTCAAGCCTTATAGAGTTAAAATCCACATTAG
1 TTGGCACCTATATAGGGAGGTCAAG-CTTATAAAGTCAAAGTCCACATTAG
* * * * * * * *
80316 TTGCCATCTATATAAGGG-GATTAATCCTAATAGAGTCAAAATCCACATTAG
1 TTGGCACCTATAT-AGGGAGGTCAA-GCTTATAAAGTCAAAGTCCACATTAG
* * * * * * * * *
80367 TTGGCACCTGTATAGTGTGGTCAAACTTTATAGAA-CCTATGTTCACATTTG
1 TTGGCACCTATATAGGGAGGTCAAGC-TTATA-AAGTCAAAGTCCACATTAG
* * * * * * * *
80418 CTAGCACTTGTATAAGGAGGTCAAGCCTTATAAAATCTAAGTCTACAATTAG
1 TTGGCACCTATATAGGGAGGTCAAG-CTTATAAAGTCAAAGTCCAC-ATTAG
* * * * * *
80470 TTAGCACCTATATAGGGAGGTCAAGCCCTATAAAATCTAAGTCCACACTAA
1 TTGGCACCTATATAGGGAGGTCAAG-CTTATAAAGTCAAAGTCCACATTAG
* * * * ** *
80521 CTGACACCTGTATAGAGAGGTCTACCCTTATAGAA-TCTAAGTCCACAATTAG
1 TTGGCACCTATATAGGGAGGTC-AAGCTTATA-AAGTCAAAGTCCAC-ATTAG
* * *
80573 CTGGCACCTATATAGGGAGGTTAAGCTTATAAAGTCAAAGTCTAGC--TAG
1 TTGGCACCTATATAGGGAGGTCAAGCTTATAAAGTCAAAGTCCA-CATTAG
* * * ** * *
80622 -T---ACGTATATAGGAAGGTCGAGCCTTATAGTGT-AAACATCCATC-CTAG
1 TTGGCACCTATATAGGGAGGTCAAG-CTTATAAAGTCAAA-GTCCA-CATTAG
* * * * *
80669 TTGGCACTTATATAGGGAGGTTAAGCCCTATAAAGTCCAAGTTCACATTAG
1 TTGGCACCTATATAGGGAGGTCAAG-CTTATAAAGTCAAAGTCCACATTAG
* *
80720 CTAGCACCTATAT
1 TTGGCACCTATAT
80733 GAGAAGGTTA
Statistics
Matches: 389, Mismatches: 103, Indels: 52
0.72 0.19 0.10
Matches are distributed among these distances:
45 19 0.05
46 12 0.03
47 3 0.01
48 4 0.01
49 11 0.03
50 16 0.04
51 248 0.64
52 76 0.20
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
TTGGCACCTATATAGGGAGGTCAAGCTTATAAAGTCAAAGTCCACATTAG
Found at i:81377 original size:51 final size:52
Alignment explanation
Indices: 81247--81365 Score: 136
Period size: 51 Copynumber: 2.3 Consensus size: 52
81237 TTTTGAAGGA
* * **
81247 AAATGTATCGATACA-TTTCTATTGTATTGATATATTCTGGGTTTTTAACTG
1 AAATGTATCGATACATTTTCTATTGTATCGATACATTCTGGGTTTTTAACCC
* * * *
81298 ACATGTATCGATAAATTGTT-TATTGTATCGATACATTTTGGG-TTTTGACCC
1 AAATGTATCGATACATT-TTCTATTGTATCGATACATTCTGGGTTTTTAACCC
81349 AAATGTATCGATACATT
1 AAATGTATCGATACATT
81366 CTTCCATGTA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
51 34 0.61
52 20 0.36
53 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.16, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTTTCTATTGTATCGATACATTCTGGGTTTTTAACCC
Found at i:83402 original size:28 final size:28
Alignment explanation
Indices: 83370--83470 Score: 139
Period size: 28 Copynumber: 3.6 Consensus size: 28
83360 AGTGAAAACG
* *
83370 GGGTTCGAGTATCCCCTCAAAAATGATA
1 GGGTTGGAGTATCCCCTCAAAAATAATA
*
83398 GGGTTGGAGTATCCCCTCGAAAATAATA
1 GGGTTGGAGTATCCCCTCAAAAATAATA
* * **
83426 AGGTTGGAGTATCCCCTCAGAAATAACG
1 GGGTTGGAGTATCCCCTCAAAAATAATA
83454 GGGTTGGAGTATCCCCT
1 GGGTTGGAGTATCCCCT
83471 AGATGAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAAAAATAATA
Found at i:83554 original size:52 final size:51
Alignment explanation
Indices: 83444--83554 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 51
83434 GTATCCCCTC
* * *
83444 AGAAATAACGGGGTTGGAGTATCCCCTAGATGAAAATTTTAATATTTTGGAA
1 AGAAA-AACGGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAA
* * * *
83496 ATAAAAACGGGGTTAGAGTATCCTCGAGATGAAAAATTTAGTGTTTTTGGAA
1 AGAAAAACGGGGTTAGAGTATCCCCGAGATGAAAAATTTAAT-ATTTTGGAA
*
83548 GGAAAAA
1 AGAAAAA
83555 ATTAAAAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 32 0.65
52 17 0.35
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (51 bp):
AGAAAAACGGGGTTAGAGTATCCCCGAGATGAAAAATTTAATATTTTGGAA
Found at i:84678 original size:20 final size:19
Alignment explanation
Indices: 84625--84679 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
84615 TGTATCGATA
* *
84625 CATTGTATCGATGCATGCT
1 CATTGTATCGATACATACT
*
84644 CATTGTATCAATACATACT
1 CATTGTATCGATACATACT
*
84663 CAATTGTATCGCTACAT
1 C-ATTGTATCGATACAT
84680 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (19 bp):
CATTGTATCGATACATACT
Found at i:86337 original size:3 final size:3
Alignment explanation
Indices: 86322--86362 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
86312 AACCGTCAAA
* * *
86322 GAT GAT GAA GAT GAT GAA GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
86363 AGTTGACTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.32, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:86362 original size:9 final size:9
Alignment explanation
Indices: 86320--86354 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
86310 TTAACCGTCA
86320 AAGATGATG
1 AAGATGATG
86329 AAGATGATG
1 AAGATGATG
86338 AAGATGATG
1 AAGATGATG
*
86347 ATGATGAT
1 AAGATGAT
86355 AATGATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (9 bp):
AAGATGATG
Found at i:87035 original size:37 final size:37
Alignment explanation
Indices: 86994--87067 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
86984 AAAGAAAAAC
86994 AAAAATTTGCATGAATCATTCACTATGTTTTATATGT
1 AAAAATTTGCATGAATCATTCACTATGTTTTATATGT
87031 AAAAATTTGCATGAATCATTCACTATGTTTTATATGT
1 AAAAATTTGCATGAATCATTCACTATGTTTTATATGT
87068 CACATCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (37 bp):
AAAAATTTGCATGAATCATTCACTATGTTTTATATGT
Found at i:99107 original size:47 final size:47
Alignment explanation
Indices: 99038--99133 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
99028 GTATGGAGTT
99038 GACTTTCAAGTAATGGATATCAATCCATCTTATAACTTTCTATTAAA
1 GACTTTCAAGTAATGGATATCAATCCATCTTATAACTTTCTATTAAA
99085 GACTTTCAAGTAATGGATATCAATCCATCTTATAACTTTCTATTAAA
1 GACTTTCAAGTAATGGATATCAATCCATCTTATAACTTTCTATTAAA
99132 GA
1 GA
99134 GGCCATGGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (47 bp):
GACTTTCAAGTAATGGATATCAATCCATCTTATAACTTTCTATTAAA
Found at i:100359 original size:13 final size:13
Alignment explanation
Indices: 100327--100363 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
100317 GTGAACAATG
100327 ATGTATCGATAC-
1 ATGTATCGATACA
*
100339 -TATATCGATACA
1 ATGTATCGATACA
100351 ATGTATCGATACA
1 ATGTATCGATACA
100364 TGAATAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:100411 original size:14 final size:14
Alignment explanation
Indices: 100392--100420 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
100382 GATTTTTAAC
100392 GATACATGAATAGT
1 GATACATGAATAGT
100406 GATACATGAATAGT
1 GATACATGAATAGT
100420 G
1 G
100421 TGAACAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (14 bp):
GATACATGAATAGT
Found at i:100566 original size:53 final size:53
Alignment explanation
Indices: 100500--100636 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
100490 CTACTACCAA
*
100500 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
100553 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
100606 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
100637 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:100743 original size:21 final size:21
Alignment explanation
Indices: 100717--100757 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100707 GTCAACCTTG
100717 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
100738 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
100758 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:104951 original size:9 final size:9
Alignment explanation
Indices: 104937--104988 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
104927 TCACTCGTAC
104937 CAAAAAAAA
1 CAAAAAAAA
104946 CAAAAAAAA
1 CAAAAAAAA
104955 CAAAAAAAA
1 CAAAAAAAA
*
104964 TTAAAAAAAA
1 -CAAAAAAAA
*
104974 TTAAAAAAAAA
1 --CAAAAAAAA
104985 CAAA
1 CAAA
104989 CAAATAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 21 0.55
10 8 0.21
11 9 0.24
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:104953 original size:10 final size:10
Alignment explanation
Indices: 104938--104988 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
104928 CACTCGTACC
104938 AAAAAAAAC-
1 AAAAAAAACA
104947 AAAAAAAACA
1 AAAAAAAACA
**
104957 AAAAAAATTA
1 AAAAAAAACA
**
104967 AAAAAAATTA
1 AAAAAAAACA
104977 AAAAAAAACA
1 AAAAAAAACA
104987 AA
1 AA
104989 CAAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
9 9 0.24
10 28 0.76
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:104993 original size:19 final size:18
Alignment explanation
Indices: 104938--105000 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 18
104928 CACTCGTACC
104938 AAAAAAAACAAAAAAA-A
1 AAAAAAAACAAAAAAATA
*
104955 CAAAAAAAATTAAAAAAAATTA
1 -AAAAAAAA--CAAAAAAA-TA
*
104977 AAAAAAAACAAACAAATA
1 AAAAAAAACAAAAAAATA
104995 AAAAAA
1 AAAAAA
105001 GGGGTCCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 16 0.42
19 6 0.16
20 7 0.18
21 8 0.21
22 1 0.03
ACGTcount: A:0.86, C:0.06, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAAAAACAAAAAAATA
Found at i:106251 original size:28 final size:29
Alignment explanation
Indices: 106216--106517 Score: 301
Period size: 28 Copynumber: 10.4 Consensus size: 29
106206 CGTTCATCTC
*
106216 TTCAAAGCCCACAAGTCAATGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
106245 TT-AAAGCCCACAAGTTAGTGGCAT-CTC
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
** * *
106272 TTCAAAAAACCATAAGTTAGTGGCA-CCTT
1 TTC-AAAGCCCACAAGTCAGTGGCATCCTT
* *
106301 TTCAAAGCCAACAAGTCAATGGCATCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * * *
106330 CTCAAAGCCCACAAGTCAATTGCA-CCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
*
106358 TTCAAAGCCCACAAGTCAATGGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
106386 TTCAAAGCCCATAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTT
* * *
106415 TTCAAAGCCTACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGGCATC-CTT
* * *
106445 TTCAAAGCCCACAAGTCAGTGGTAACTTTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTT
* *
106475 TTCAAAGCCCACAAGTCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTT
106505 TTCAAAGCCCACA
1 TTCAAAGCCCACA
106518 CAAATCGGTG
Statistics
Matches: 235, Mismatches: 29, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.02
28 86 0.37
29 73 0.31
30 71 0.30
31 1 0.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTT
Found at i:106324 original size:57 final size:56
Alignment explanation
Indices: 106210--106492 Score: 259
Period size: 57 Copynumber: 4.9 Consensus size: 56
106200 CTAGAACGTT
* * * * *
106210 CATCTCTTCAAAGCCCACAAGTCAATGGCATCCTTTT-AAAGCCCACAAGTTAGTGG
1 CATC-CTTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGG
** * *
106266 CATCTCTTCAAAAAACCATAAGTTAGTGGCA-CCTTTTCAAAGCCAACAAGTCAATGG
1 CATC-CTTC-AAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGG
* * *
106323 CATCCTTCTCAAAGCCCACAAGTCAATTGCACCC-TTTCAAAGCCCACAAGTCAATGG
1 CATCC-T-TCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGG
* *
106380 CATCCTTTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCTACAAG-CTAGTGG
1 CATCC-TTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTC-AATGG
* * * * **
106437 TAACTCTTTTCAAAGCCCACAAGTCAGTGGTAACTTTTTTCAAAGCCCACAAGTCA
1 -CA-TC-CTTCAAAGCCCATAAGTCAGTGG-CACCCTTTTCAAAGCCCACAAGTCA
106493 GTGGTAACTC
Statistics
Matches: 188, Mismatches: 27, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
56 40 0.21
57 100 0.53
58 5 0.03
59 23 0.12
60 19 0.10
61 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (56 bp):
CATCCTTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGG
Found at i:106381 original size:85 final size:85
Alignment explanation
Indices: 106216--106517 Score: 297
Period size: 85 Copynumber: 3.5 Consensus size: 85
106206 CGTTCATCTC
* *
106216 TTCAAAGCCCACAAGTCAATGGCATCCTTTT-AAAGCCCACAAGTTAGTGGCA-TCTCTTCAAAA
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCT-TTC-AAA
** * *
106279 AACCATAAGTTAGTGGCACCTT
64 GCCCACAAGTCAGTGGCACCTT
* * * *
106301 TTCAAAGCCAACAAGTCAATGGCATCCTTCTCAAAGCCCACAAGTCAATTGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
*
106366 CCACAAGTCAATGGCATCC-T
66 CCACAAGTCAGTGGCA-CCTT
* * * * * *
106386 TTCAAAGCCCATAAGTCAGTGGCACCCTTTTCAAAGCCTACAAG-CTAGTGGTAACTCTTTTCAA
1 TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTC-AGTGG-CAC-CCTTTCAA
* *
106450 AGCCCACAAGTCAGTGGTAACTTTT
63 AGCCCACAAGTCAGTGG-CAC-CTT
* * *
106475 TTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGCCCACA
1 TTCAAAGCCCACAAGTCAATGGCATC-CTTTTCAAAGCCCACA
106518 CAAATCGGTG
Statistics
Matches: 179, Mismatches: 28, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
84 1 0.01
85 87 0.49
86 25 0.14
87 26 0.15
88 1 0.01
89 24 0.13
90 15 0.08
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (85 bp):
TTCAAAGCCCACAAGTCAATGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACCTT
Found at i:106568 original size:62 final size:60
Alignment explanation
Indices: 106357--106554 Score: 183
Period size: 60 Copynumber: 3.3 Consensus size: 60
106347 AATTGCACCC
* * * * * **
106357 TTTCAAAGCCCACAAGTCA-ATGG-CA-TCCTTTCAAAGCCCATAAGTCAGTGG-CACCCT
1 TTTCAAAGCCCACAAGTCAGA-GGTAACTCTTTTCAAAGCCCACAAATCAGTGGTAACTTT
* * *
106414 TTTCAAAGCCTACAAG-CTAGTGGTAACTCTTTTCAAAGCCCACAAGTCAGTGGTAACTTT
1 TTTCAAAGCCCACAAGTC-AGAGGTAACTCTTTTCAAAGCCCACAAATCAGTGGTAACTTT
* *
106474 TTTCAAAGCCCACAAGTCAGTGGTAACTCTTTTCAAAGCCCACACAAATCGGTGAG-AACTTT
1 TTTCAAAGCCCACAAGTCAGAGGTAACTCTTTTCAAAG-CC-CACAAATCAGTG-GTAACTTT
106536 TTTCAAAGGCCACACAAGT
1 TTTCAAA-GCC-CACAAGT
106555 TGGAGGCACC
Statistics
Matches: 119, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
56 1 0.01
57 18 0.15
58 1 0.01
59 24 0.20
60 38 0.32
61 3 0.03
62 23 0.19
63 4 0.03
64 7 0.06
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (60 bp):
TTTCAAAGCCCACAAGTCAGAGGTAACTCTTTTCAAAGCCCACAAATCAGTGGTAACTTT
Found at i:107761 original size:40 final size:40
Alignment explanation
Indices: 107715--107874 Score: 151
Period size: 40 Copynumber: 3.7 Consensus size: 40
107705 CCCAGATATG
107715 TCGATACAATT-TTCAATGTATCGATACATGTATGAATGTA
1 TCGATAC-ATTCTTCAATGTATCGATACATGTATGAATGTA
* *
107755 TCGATACATTCTTCAATGTATTGATACATTCTGTCTTTTTATCCAGATGTA
1 TCGATACATTCTTCAATGTATCGATACA---TG------TAT-GA-ATGTA
* * *
107806 TTGATAAATTTTTCAATGTATCGATACATGTATGAATGTA
1 TCGATACATTCTTCAATGTATCGATACATGTATGAATGTA
*
107846 TCGATACATTCTTCAATGTACCGATACAT
1 TCGATACATTCTTCAATGTATCGATACAT
107875 TCTGTCTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
39 3 0.03
40 53 0.55
41 1 0.01
42 3 0.03
43 2 0.02
48 2 0.02
49 3 0.03
50 1 0.01
51 29 0.30
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (40 bp):
TCGATACATTCTTCAATGTATCGATACATGTATGAATGTA
Found at i:107854 original size:91 final size:91
Alignment explanation
Indices: 107699--107925 Score: 348
Period size: 91 Copynumber: 2.5 Consensus size: 91
107689 AAAAATCACA
* * *
107699 TTTTTACCCAGATATGTCGATACAA-TTTTCAATGTATCGATACATGTATGAATGTATCGATACA
1 TTTTTACCCAGATGTATCAATA-AATTTTTCAATGTATCGATACATGTATGAATGTATCGATACA
**
107763 TTCTTCAATGTATTGATACATTCTGTC
65 TTCTTCAATGTACCGATACATTCTGTC
* **
107790 TTTTTATCCAGATGTATTGATAAATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCAATAAATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
107855 TCTTCAATGTACCGATACATTCTGTC
66 TCTTCAATGTACCGATACATTCTGTC
* *
107881 TTTTTACCCAGATGTATCAATACATTATTCAATGTATCGATACAT
1 TTTTTACCCAGATGTATCAATAAATTTTTCAATGTATCGATACAT
107926 CTAGTTAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
90 2 0.02
91 122 0.98
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCAATAAATTTTTCAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGTACCGATACATTCTGTC
Found at i:107876 original size:20 final size:20
Alignment explanation
Indices: 107715--107877 Score: 98
Period size: 20 Copynumber: 7.6 Consensus size: 20
107705 CCCAGATATG
107715 TCGATACAATT-TTCAATGTA
1 TCGATAC-ATTCTTCAATGTA
* *
107735 TCGATACATGT-ATGAATGTA
1 TCGATACAT-TCTTCAATGTA
107755 TCGATACATTCTTCAATGTA
1 TCGATACATTCTTCAATGTA
*
107775 TTGATACATTCTGTCTTTTTATCCAGATGTA
1 TCGATACA---T-TC----T-T-CA-ATGTA
* * *
107806 TTGATAAATTTTTCAATGTA
1 TCGATACATTCTTCAATGTA
* *
107826 TCGATACATGT-ATGAATGTA
1 TCGATACAT-TCTTCAATGTA
107846 TCGATACATTCTTCAATGTA
1 TCGATACATTCTTCAATGTA
*
107866 CCGATACATTCT
1 TCGATACATTCT
107878 GTCTTTTTAC
Statistics
Matches: 114, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
19 4 0.04
20 84 0.74
21 3 0.03
22 1 0.01
23 2 0.02
24 2 0.02
27 1 0.01
28 2 0.02
29 1 0.01
30 2 0.02
31 12 0.11
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
TCGATACATTCTTCAATGTA
Found at i:115016 original size:22 final size:23
Alignment explanation
Indices: 114975--115020 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
114965 ATAAATTTGG
114975 CATTTGACAAAGGGGGAGAAATTA
1 CATTTGACAAA-GGGGAGAAATTA
114999 CATTTGACAAA-GGGAGAAATTA
1 CATTTGACAAAGGGGAGAAATTA
115021 TTTTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
24 11 0.50
ACGTcount: A:0.43, C:0.09, G:0.26, T:0.22
Consensus pattern (23 bp):
CATTTGACAAAGGGGAGAAATTA
Found at i:116282 original size:23 final size:23
Alignment explanation
Indices: 116236--116282 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116226 GTTGCATTCA
*
116236 AATTTGGGTTAGAATCTCTTAAG
1 AATTTGGGATAGAATCTCTTAAG
*
116259 AATTTGGGATATAAT-TCTTGAAG
1 AATTTGGGATAGAATCTCTT-AAG
116282 A
1 A
116283 GATTGAGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
AATTTGGGATAGAATCTCTTAAG
Found at i:118214 original size:21 final size:21
Alignment explanation
Indices: 118188--118244 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
118178 ACTATGATAA
*
118188 ATGTATCGATACATTTTAAGT-
1 ATGTATCGATACATTTT-ACTC
118209 ATGTATCGATACA-TTTACTC
1 ATGTATCGATACATTTTACTC
118229 ATGTATCGATACATTT
1 ATGTATCGATACATTT
118245 CCTTTCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATTTTACTC
Found at i:122141 original size:22 final size:22
Alignment explanation
Indices: 122113--122167 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
122103 TGGACATGTT
122113 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
122135 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
122157 AAAAATGCATG
1 AAAAATGCATG
122168 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:123127 original size:20 final size:20
Alignment explanation
Indices: 123080--123154 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
123070 AAAAAGACAT
* ** *
123080 AATGTACCGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
123100 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
123120 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
123140 AATGTATCGATACAT
1 AATGTATCGATACAT
123155 CAGGGTAAAA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:123148 original size:40 final size:39
Alignment explanation
Indices: 123077--123154 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
123067 GGTAAAAAGA
* *
123077 CATAATGTACCGATACATTGTAGAATATATCGATACATT
1 CATAATGTACCGATACATTGAAAAATATATCGATACATT
* * *
123116 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTACCGATACATTGAAAAATATATCGATACAT
123155 CAGGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTACCGATACATTGAAAAATATATCGATACATT
Found at i:125199 original size:22 final size:21
Alignment explanation
Indices: 125174--125235 Score: 54
Period size: 23 Copynumber: 2.8 Consensus size: 21
125164 AAACACAAAA
*
125174 GAAACAAAAATGAAAAAATAGC
1 GAAACAAAAAT-AAAAAAAAGC
*
125196 GAAAGC-AAAATAAAAAAAAGG
1 GAAA-CAAAAATAAAAAAAAGC
*
125217 GAATGACAAAAATCAAAAA
1 GAA--ACAAAAATAAAAAA
125236 GCAAAGACAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 11 0.33
22 10 0.30
23 12 0.36
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (21 bp):
GAAACAAAAATAAAAAAAAGC
Found at i:125204 original size:23 final size:22
Alignment explanation
Indices: 125174--125235 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 22
125164 AAACACAAAA
*
125174 GAAA-CAAAAATGAAAAAATAGC
1 GAAAGCAAAAAT-AAAAAAAAGC
*
125196 GAAAGC-AAAATAAAAAAAAGG
1 GAAAGCAAAAATAAAAAAAAGC
* *
125217 GAATGACAAAAATCAAAAA
1 GAAAG-CAAAAATAAAAAA
125236 GCAAAGACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 12 0.36
22 10 0.30
23 11 0.33
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAAGCAAAAATAAAAAAAAGC
Found at i:126878 original size:44 final size:44
Alignment explanation
Indices: 126829--126932 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
126819 TGGGAGCACC
* *
126829 TTTTTCTCTTTTT-AAGCCCACACAAGTTGGTGGCACCCTTTTCT
1 TTTTTC-CTTTTTAAAGCCCACACAAGTTGGTAGCACCCCTTTCT
*
126873 TTTTTCCTTTTTAAAGCCCACATAAGTTGGTAGCACCCCTTTC-
1 TTTTTCCTTTTTAAAGCCCACACAAGTTGGTAGCACCCCTTTCT
126916 TTTTT-C-TTTTAAAGCCC
1 TTTTTCCTTTTTAAAGCCC
126933 CTTTCTTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
41 11 0.20
42 1 0.02
43 11 0.20
44 33 0.59
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.43
Consensus pattern (44 bp):
TTTTTCCTTTTTAAAGCCCACACAAGTTGGTAGCACCCCTTTCT
Found at i:127006 original size:36 final size:35
Alignment explanation
Indices: 126948--127716 Score: 242
Period size: 36 Copynumber: 20.3 Consensus size: 35
126938 TTTTCTTTTT
*
126948 TTTTACTTTTAAAGCCCACACAAGTTGGTGGCACCA
1 TTTT-CTTTTTAAGCCCACACAAGTTGGTGGCACCA
* * * * * *
126984 TTTTCTTTTTAATGTCCGCACAAGCTGGCAGG-ATCT
1 TTTTCTTTTTAA-GCCCACACAAGTTGG-TGGCACCA
* * *
127020 TTTTCTTTTTTAAGCCCACATAGGTTGGTGGCACCCTTT
1 TTTTC-TTTTTAAGCCCACACAAGTTGGTGGCA-CC--A
*
127059 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCATCC-
1 TTTTCTTTTTAAGCCCACACAAGTTGGTGGCA-CCA
* ** * * *
127094 TTTTCTTTTTAAAGTCCGTACAAGCTGGCGGTACCA
1 TTTTCTTTTT-AAGCCCACACAAGTTGGTGGCACCA
* *
127130 TTTTCTCTTTTAAGCCCACACAGGTTGGTGGCACCCCTTTTT
1 TTTTCT-TTTTAAGCCCACACAAGTTGGTGGCA--CC----A
* * *
127172 TTTTCTTTTCAAAGCCTACACAAGTTGGTAGCACCCA
1 TTTTCTTTT-TAAGCCCACACAAGTTGGTGGCA-CCA
* * * * *
127209 -TTTCTTTTTAAAGCCTATACAAGCTGGCGGCACCT
1 TTTTCTTTTT-AAGCCCACACAAGTTGGTGGCACCA
* * *
127244 TTTTCCCTCTTTAAGCCCATACAAGTTGGTGGCACCTTTTTCTT
1 TTTT--CTTTTTAAGCCCACACAAGTTGGTGGCA-C-----C-A
127288 TTTTCTGTTTTCAAAGCCCACACAAGTTGGTGGCACTC-
1 TTTTCT-TTTT--AAGCCCACACAAGTTGGTGGCAC-CA
* ** * *
127326 TTTTCTTTTTAAAGCCCATACAAGTTGGCAGTACCTT
1 TTTTCTTTTT-AAGCCCACACAAGTTGGTGGCACC-A
* * *
127363 TTTCTCTTTTTAAGCCCACAGAAATTGGTGGCACTCTTT
1 TTT-TCTTTTTAAGCCCACACAAGTTGGTGGCAC-C--A
* *
127402 TTTTCCTTTTGAAAGCCCACATAAGTTGGTGGCACC-
1 TTTT-CTTTT-TAAGCCCACACAAGTTGGTGGCACCA
** **** *
127438 TCTTT-TTTTTAAAGCCTGCACAAGTTGACAACACCTT
1 T-TTTCTTTTT-AAGCCCACACAAGTTGGTGGCACC-A
* * *
127475 TTTTCTTTTTTTAAGCCCACACAGGGTGGTGGCAACTCTTTCTT
1 TTTTC--TTTTTAAGCCCACACAAGTTGGTGGC-A--C---C-A
* * *
127519 TTTTCCTTTTCAAAACCCACACAAGTTGGTGGCATCCC
1 TTTT-CTTTT-TAAGCCCACACAAGTTGGTGGCA-CCA
* * * * *
127557 CTTT-TTTTAAAGCCCATACAAGTTGGCGACACC-
1 TTTTCTTTTTAAGCCCACACAAGTTGGTGGCACCA
* **
127590 TTTTCCTCCTTTTAAGCCCACACAGGTTGGTTCCACC-
1 TTTT-CT--TTTTAAGCCCACACAAGTTGGTGGCACCA
* *
127627 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGCTGGTGGCACCT
1 T-TTTC-----T--TTTT--AAGCCCACACAAGTTGGTGGCACCA
* * * ** *
127672 TTTTTTTTTTAAGCCTACACAGGTTGGTGGCGTCT
1 TTTTCTTTTTAAGCCCACACAAGTTGGTGGCACCA
127707 TTTTCTTTTT
1 TTTTCTTTTT
127717 TTCTAGTTTA
Statistics
Matches: 560, Mismatches: 107, Indels: 133
0.70 0.13 0.17
Matches are distributed among these distances:
33 3 0.01
34 2 0.00
35 93 0.17
36 128 0.23
37 89 0.16
38 68 0.12
39 25 0.04
40 23 0.04
41 7 0.01
42 36 0.06
43 9 0.02
44 54 0.10
45 23 0.04
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.38
Consensus pattern (35 bp):
TTTTCTTTTTAAGCCCACACAAGTTGGTGGCACCA
Found at i:127032 original size:189 final size:182
Alignment explanation
Indices: 126754--127103 Score: 463
Period size: 189 Copynumber: 1.9 Consensus size: 182
126744 TAGTGGCACC
*
126754 CTTTTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCATCTCATTTTTTAAAGCTCGCACAAGCT
1 CTTTTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTCATTTTTTAAAGCTCGCACAAGCT
*
126819 TGGGAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCACCCTTTTCTTTTTTCCTTTT
66 TGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCACCC---T-TTTTTT-C-TTT
*
126884 TAAAGCCCACATAAGTTGGTAGCACCCCTTTCTTTTTCTTTTAAAGCCCCTTTCTTTT
125 TAAAGCCCACACAAGTTGGTAGCACCCCTTTCTTTTTCTTTTAAAGCCCCTTTCTTTT
* ** *
126942 CTTTTTTTTTACTTTTAAAGCCCACACAAGTTGGTGGCACCATTTTCTTTTTAATG-TCCGCACA
1 CTTTTTTTTT-CTTTTAAAGCCCACACAAGCTGGTGGCACC-TCAT-TTTTTAAAGCT-CGCACA
* * * *
127006 AGC-TGGCAGGATCTTTTTCT-TTTTTAAGCCCACATAGGTTGGTGGCACCCTTTTTTTCTTTTA
62 AGCTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCACCCTTTTTTTCTTTTA
* * *
127069 AAGCCCACACAAGTTGGTGGCATCCTTTTCTTTTT
127 AAGCCCACACAAGTTGGTAGCACCCCTTTCTTTTT
127104 AAAGTCCGTA
Statistics
Matches: 144, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
183 36 0.25
184 1 0.01
185 6 0.04
186 1 0.01
188 10 0.07
189 56 0.39
190 17 0.12
191 17 0.12
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (182 bp):
CTTTTTTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTCATTTTTTAAAGCTCGCACAAGCT
TGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCACCCTTTTTTTCTTTTAAAGC
CCACACAAGTTGGTAGCACCCCTTTCTTTTTCTTTTAAAGCCCCTTTCTTTT
Found at i:127331 original size:118 final size:116
Alignment explanation
Indices: 126941--127688 Score: 766
Period size: 118 Copynumber: 6.5 Consensus size: 116
126931 CCCTTTCTTT
* * **
126941 TCTTT-TTTTTTACTTTT-AAAGCCCACACAAGTTGGTGGCACCATTTTCTTTTTAATGTCC-GC
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTTTCTTTTTAAAG-CCTAT
* * *
127003 ACAAGCTGGCAGG-ATCTTTTT-CTTTTTTAAGCCCACATAGGTTGGTGGCACC
64 ACAAGCTGGC-GGCACCTTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
*
127055 -C--T-TTTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCATCCTTTTCTTTTTAAAGTCC-GT
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTCTTTTTAAAG-CCTAT
* * *
127113 ACAAGCTGGCGGTACCATTTTCTC-TTTTAAGCCCACACAGGTTGGTGGCACC
64 ACAAGCTGGCGGCACCTTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
* * * *
127165 CCTTT-TTTTTT-CTTTTCAAAGCCTACACAAGTTGGTAGCACCCATTTCTTTTTAAAGCCTATA
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTCTTTTTAAAGCCTATA
* * *
127228 CAAGCTGGCGGCACCTTTTTCCCTCTTTAAGCCCATACAAGTTGGTGGCACC
65 CAAGCTGGCGGCACCTTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
* * *
127280 TTTTTCTTTTTTCTGTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTTTCTTTTTAAAGCCCAT
1 TCTTTCTTTTTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTTCTTTTTAAAGCCTAT
* * * * * **
127345 ACAAGTTGGCAGTACCTTTTTCTCTTTTTAAGCCCACAGAAATTGGTGGCA-C
64 ACAAGCTGGCGGCACCTTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
* * **
127397 TC--T-TTTTTTCCTTTTGAAAGCCCACATAAGTTGGTGGCACCTCTTT-TTTTTAAAGCCTGCA
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT-TTTCTTTTTAAAGCCTATA
* * ** ** * *
127458 CAAGTTGACAACACCTTTTTTCTTTTTTTAAGCCCACACAGGGTGGTGGCAAC
65 CAAGCTGGCGGCACC-TTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
* ** *
127511 TCTTTCTTTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCATCCCCTT-TTTTTAAAGCCCATA
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTCTTTTTAAAGCCTATA
* * * **
127575 CAAGTTGGCGACACC-TTTTCCTCCTTTTAAGCCCACACAGGTTGGTTCCACC
65 CAAGCTGGCGGCACCTTTTTCC-CTTTTTAAGCCCACACAGGTTGGTGGCACC
* * *
127627 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTTTTTTTTAAGCCTA
1 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTCTTTTTAAAGCCTA
127689 CACAGGTTGG
Statistics
Matches: 541, Mismatches: 71, Indels: 42
0.83 0.11 0.06
Matches are distributed among these distances:
109 2 0.00
110 88 0.16
111 10 0.02
112 26 0.05
113 75 0.14
114 68 0.13
115 38 0.07
116 82 0.15
117 63 0.12
118 89 0.16
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.38
Consensus pattern (116 bp):
TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTCTTTTTAAAGCCTATAC
AAGCTGGCGGCACCTTTTTCCCTTTTTAAGCCCACACAGGTTGGTGGCACC
Found at i:127378 original size:73 final size:73
Alignment explanation
Indices: 126954--127786 Score: 287
Period size: 73 Copynumber: 10.9 Consensus size: 73
126944 TTTTTTTTAC
* ** * * * * *
126954 TTTTAAAGCCCACACAAGTTGGTGGCACC-ATTT-TCTTTTTAATGTCCGCACAAGCTGGCAGG-
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAA-GCCCACACAAGTTGG-TGGC
127016 A-TCTTTTTCT
64 ACTC-TTTTCT
* * * * ** * *
127026 TTTTTAAGCCCACATAGGTTGGTGGCACCCTTTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCATACAAGTTGGCAGCA-CCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCA
127091 -TCCTTTTCT
65 CT-CTTTTCT
* * * * * * *
127100 TTTTAAAGTCCGTACAAGCTGGCGGTACCATTTTCTC-TTTTAAGCCCACACAGGTTGGTGGCAC
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCA-
*
127164 CCCTTTTTTTTTCT
65 --C---TCTTTTCT
* * * * ** * * * * *
127178 TTTCAAAGCCTACACAAGTTGGTAGCACCCATTTCT-TTTTAAAGCCTATACAAGCTGGCGGCAC
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCAC
127242 -CTTTTTCCCT
66 TC-TTTT--CT
* **
127252 CTTT-AAGCCCATACAAGTTGGTGGCACCTTTTTCTTTTTTCTGTTTTCAAAGCCCACACAAGTT
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTC-----TCT-TTTT--AAGCCCACACAAGTT
127316 GGTGGCACTCTTTTCT
58 GGTGGCACTCTTTTCT
* * *
127332 TTTTAAAGCCCATACAAGTTGGCAGTACCTTTTTCTCTTTTTAAGCCCACAGAAATTGGTGGCAC
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCAC
127397 TCTTTTTTTCCT
66 TC---TTTT-CT
* * * ** * * ** ****
127409 TTTGAAAGCCCACATAAGTTGGTGGCACCTCTTT-T-TTTTAAAGCCTGCACAAGTTGACAACAC
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCA-
*
127472 CTTTTTTCTT
65 CTCTTTTC-T
* * * * * * *
127482 TTTTTAAGCCCACACAGGGTGGTGGCAACTCTTTCTTTTT-TCCTTTTCAAAACCCACACAAGTT
1 TTTTAAAGCCCATACA-AGT--TGGCAGCAC---CTTTTTCT-CTTTT-TAAGCCCACACAAGTT
**
127546 GGTGGCA-TCCCCTT-T
58 GGTGGCACT-CTTTTCT
* * * **
127561 TTTTAAAGCCCATACAAGTTGGC-GACACCTTTTCCTCCTTTTAAGCCCACACAGGTTGGTTCCA
1 TTTTAAAGCCCATACAAGTTGGCAG-CACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCA
127625 CCTCTTTCTTTTTTCCT
65 ---C--TC--TTTT-CT
* * * ** * * *
127642 TTTCAAAGCCCACACAAGCTGGTGGCACCTTTTT-T-TTTTTAAGCCTACACAGGTTGGTGGCGT
1 TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGC-A
127705 CTTTTTCTTTTTTTCT
65 C----TC---TTTTCT
* *** * * *
127721 AGTTTAAAGCCTGCACAAGCTGGTAGCACCTTTTTCTCTTTTTAAAGGCCACACAAGTTGGTGGC
1 -TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTT-AAGCCCACACAAGTTGGTGGC
127786 A
64 A
127787 TCATCTTTAA
Statistics
Matches: 569, Mismatches: 128, Indels: 118
0.70 0.16 0.14
Matches are distributed among these distances:
72 71 0.12
73 87 0.15
74 48 0.08
75 32 0.06
76 21 0.04
77 31 0.05
78 55 0.10
79 53 0.09
80 45 0.08
81 62 0.11
82 45 0.08
83 19 0.03
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.37
Consensus pattern (73 bp):
TTTTAAAGCCCATACAAGTTGGCAGCACCTTTTTCTCTTTTTAAGCCCACACAAGTTGGTGGCAC
TCTTTTCT
Found at i:127671 original size:44 final size:41
Alignment explanation
Indices: 127596--127681 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 41
127586 CACCTTTTCC
* * *
127596 TCCTTTTAAGCCCACACAGGTTGGTTCCACCTCTTTCTTTTT
1 TCCTTTTAAGCCCACACAAGCTGGTGCCACCT-TTTCTTTTT
* *
127638 TCCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTTTTTTT
1 TCCTTTT--AAGCCCACACAAGCTGGTGCCACCTTTTCTTTTT
127681 T
1 T
127682 AAGCCTACAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.19
43 9 0.24
44 21 0.57
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.42
Consensus pattern (41 bp):
TCCTTTTAAGCCCACACAAGCTGGTGCCACCTTTTCTTTTT
Found at i:127692 original size:35 final size:36
Alignment explanation
Indices: 127647--127717 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
127637 TTCCTTTTCA
127647 AAGCCCACACAAGCTGGTGGCACCTTTTT-TTTTTT
1 AAGCCCACACAAGCTGGTGGCACCTTTTTCTTTTTT
* * * **
127682 AAGCCTACACAGGTTGGTGGCGTCTTTTTCTTTTTT
1 AAGCCCACACAAGCTGGTGGCACCTTTTTCTTTTTT
127718 TCTAGTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 24 0.80
36 6 0.20
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (36 bp):
AAGCCCACACAAGCTGGTGGCACCTTTTTCTTTTTT
Found at i:127709 original size:116 final size:115
Alignment explanation
Indices: 126941--127712 Score: 761
Period size: 116 Copynumber: 6.7 Consensus size: 115
126931 CCCTTTCTTT
* * * *
126941 TCTTTTTTTTTACTTTT-AAAGCCCACACAAGTTGGTGGCACCATTTTCTTTTTAATGTCC-GCA
1 TCTTTTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACC-TTTTTTTTTTAAAG-CCTACA
* * * *
127004 CAAGCTGGCAGG-ATCTTTTTCT-TTTTTAAGCCCACATAGGTTGGTGGCACC
64 CAAGTTGGC-GGCACCTTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
*
127055 -C--TTTTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCATCCTTTTCTTTTTAAAGTCCGT--
1 TCTTTTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTAAAG-CC-TAC
* * *
127113 ACAAGCTGGCGGTACCATTTTCT-CTTTTAAGCCCACACAGGTTGGTGGCACC
63 ACAAGTTGGCGGCACCTTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
* * * * * *
127165 CCTTTTTTTTT-CTTTTCAAAGCCTACACAAGTTGGTAGCACCCATTTCTTTTTAAAGCCTATAC
1 TCTTTTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTAAAGCCTACAC
* * *
127229 AAGCTGGCGGCACCTTTTTC-CCTCTTTAAGCCCATACAAGTTGGTGGCACC
65 AAGTTGGCGGCACCTTTTTCTCCT-TTTAAGCCCACACAGGTTGGTGGCACC
* * * * *
127280 TTTTTCTTTTTTCTGTTTTCAAAGCCCACACAAGTTGGTGGCACTCTTTTCTTTTTAAAGCCCAT
1 TCTTT-TTTTTTC-CTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTTTTTTTTAAAGCCTAC
* * * * **
127345 ACAAGTTGGCAGTACCTTTTTCTCTTTTTAAGCCCACAGAAATTGGTGGCA-C
63 ACAAGTTGGCGGCACCTTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
* * * *
127397 TC--TTTTTTTCCTTTTGAAAGCCCACATAAGTTGGTGGCACCTCTTTTTTTTAAAGCCTGCACA
1 TCTTTTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTTTTTTAAAGCCTACACA
* ** ** * *
127460 AGTTGACAACACCTTTTTTCTTTTTTTAAGCCCACACAGGGTGGTGGCAAC
66 AGTTGGCGGCACC-TTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
* ** * *
127511 TCTTTCTTTTTTCCTTTTCAAAACCCACACAAGTTGGTGGCATCC-CCTTTTTTTAAAGCCCATA
1 TCTTT-TTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCA-CCTTTTTTTTTTAAAGCCTACA
* * **
127575 CAAGTTGGCGACACCTTTTCCTCCTTTTAAGCCCACACAGGTTGGTTCCACC
64 CAAGTTGGCGGCACCTTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
* *
127627 TCTTTCTTTTTTCCTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTTTTTTTTAAGCCTACAC
1 TCTTT-TTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTTTTTTAAAGCCTACAC
* * **
127692 AGGTTGGTGGCGTCTTTTTCT
65 AAGTTGGCGGCACCTTTTTCT
127713 TTTTTTCTAG
Statistics
Matches: 561, Mismatches: 73, Indels: 46
0.82 0.11 0.07
Matches are distributed among these distances:
109 2 0.00
110 89 0.16
111 10 0.02
112 29 0.05
113 72 0.13
114 68 0.12
115 31 0.06
116 107 0.19
117 64 0.11
118 87 0.16
119 2 0.00
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (115 bp):
TCTTTTTTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTTTTTTTAAAGCCTACACA
AGTTGGCGGCACCTTTTTCTCCTTTTAAGCCCACACAGGTTGGTGGCACC
Found at i:127752 original size:80 final size:80
Alignment explanation
Indices: 127560--127786 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 80
127550 GCATCCCCTT
* * * * * * **
127560 TTTTTAAAGCCCATACAAGTTGG-CGACACCTTTTCCTCCTTTTAAGCCCACACAGGTTGGTTCC
1 TTTTCAAAGCCCACACAAGCTGGTAG-CACCTTTTTCTCTTTTTAAG-CCACACAGGTTGGTGGC
127624 ACCTCTTTCTTTTTTCC
64 ACCTCTTTCTTTTTTCC
* *
127641 TTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTT-T-TTTTTAAGCCTACACAGGTTGGTGGCG
1 TTTTCAAAGCCCACACAAGCTGGTAGCACCTTTTTCTCTTTTTAAGCC-ACACAGGTTGGTGGCA
* * *
127704 TCTTTTTCTTTTTTTC
65 CCTCTTTCTTTTTTCC
** *
127720 TAGTTT-AAAGCCTGCACAAGCTGGTAGCACCTTTTTCTCTTTTTAAAGGCCACACAAGTTGGTG
1 T--TTTCAAAGCCCACACAAGCTGGTAGCACCTTTTTCTCTTTTT-AA-GCCACACAGGTTGGTG
127784 GCA
62 GCA
127787 TCATCTTTAA
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
78 2 0.02
79 34 0.28
80 28 0.23
81 32 0.26
82 6 0.05
83 16 0.13
84 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (80 bp):
TTTTCAAAGCCCACACAAGCTGGTAGCACCTTTTTCTCTTTTTAAGCCACACAGGTTGGTGGCAC
CTCTTTCTTTTTTCC
Found at i:128713 original size:51 final size:51
Alignment explanation
Indices: 128582--128719 Score: 145
Period size: 51 Copynumber: 2.7 Consensus size: 51
128572 TTTGGAAGGA
* * *
128582 AAATGTATCGATACA-TTTCTATTGTATCGCTACATTCTAGGTTTTAGACCC
1 AAATGTATCGATACATTTTC-ATTGTATTGATACATTCTAGGTATTAGACCC
* ** * *
128633 AAATGTATCGAAATGTTATTCATTGTATTGATACATTTTAGGTATTA-ACCT
1 AAATGTATCGATACATT-TTCATTGTATTGATACATTCTAGGTATTAGACCC
* *
128684 AAATGTATCGATACATTCTTCACTATATTGATACAT
1 AAATGTATCGATACATT-TTCATTGTATTGATACAT
128720 ATAGGCCATT
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
51 45 0.63
52 23 0.32
53 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTTTCATTGTATTGATACATTCTAGGTATTAGACCC
Found at i:131198 original size:78 final size:79
Alignment explanation
Indices: 131045--131344 Score: 356
Period size: 78 Copynumber: 3.8 Consensus size: 79
131035 TCATCGTCGA
* * * * *
131045 GGATACTCCAGCCCCATTTTTATTTCTAAAATATCAATTTTCCACCATC-GAGGATACTCTAACC
1 GGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCAG-GGATACTCCAACC
131109 CCATCATTTCCAAGG
65 CCATCATTTCCAAGG
* * * *
131124 GAATACTCTAACCCCATTTTAACTTCCAAAATATCAATTTTTCA-CATCAGGGATACTACAACCC
1 GGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCC
131188 CATCATTTCCAAGG
66 CATCATTTCCAAGG
* ** * * * *
131202 GGATACTCCAACTCTGTTTTTACTTCCAAAATATCAATTTCTCA-CTTCGGGGATACTCCGACCC
1 GGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCC
* *
131266 CATCATTTTCGAGG
66 CATCATTTCCAAGG
* * * *
131280 GGATACTCCAACCCCATTTTTACTTCCAAAATATTAAATTTTTTATC-TCAAGGATACTCCAACC
1 GGATACTCCAACCCCATTTTTACTTCCAAAATA-TCAATTTTTCACCATCAGGGATACTCCAACC
131344 C
65 C
131345 TGATTTTCAC
Statistics
Matches: 187, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 125 0.67
79 61 0.33
80 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (79 bp):
GGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCAGGGATACTCCAACCC
CATCATTTCCAAGG
Found at i:132786 original size:114 final size:115
Alignment explanation
Indices: 132584--132916 Score: 444
Period size: 113 Copynumber: 2.9 Consensus size: 115
132574 GGTAAGGTTG
* *
132584 TAAATTATTTAATTTAAGGCCAAGTCTTATAAAAAATATATATTAGATAAAAT-AGGTCCCAAGT
1 TAAATTATTTAATTTAAGGCAAAGTCTTAT-AAAAATATATATTAGATAAAATAAAGTCCCAAGT
* * *
132648 GCTTATTTAAGTAATTTATGTAGGCCTA-TTTATTTAATTATATTAAGCCA
65 GCATATTTAATTAATTTATTTAGGCCTATTTTATTTAATTATATTAAGCCA
*
132698 TAAATTATTTAATTTAAGGCAAAGTCTTATAAAAATATATATTAGATAAAATAAAG-CCCACGTG
1 TAAATTATTTAATTTAAGGCAAAGTCTTATAAAAATATATATTAGATAAAATAAAGTCCCAAGTG
* * *
132762 CATATTTAATTAATTTATTTTAGGCCTATTTTATTCAGTTATATTAAGTCA
66 CATATTTAATTAATTTA-TTTAGGCCTATTTTATTTAATTATATTAAGCCA
* * * * *
132813 TAAATTATTTAATATAAGGCTAAG-CTTA-AAAAATATATGTTAGATAAAATAGAGTCCC-TGTG
1 TAAATTATTTAATTTAAGGCAAAGTCTTATAAAAATATATATTAGATAAAATAAAGTCCCAAGTG
* * *
132875 CATATCTAATTAATTTATTGAGGATCTATTTTATTTAATTAT
66 CATATTTAATTAATTTATTTAGG-CCTATTTTATTTAATTAT
132917 GTTAGGCTAA
Statistics
Matches: 195, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
112 5 0.03
113 102 0.52
114 47 0.24
115 41 0.21
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (115 bp):
TAAATTATTTAATTTAAGGCAAAGTCTTATAAAAATATATATTAGATAAAATAAAGTCCCAAGTG
CATATTTAATTAATTTATTTAGGCCTATTTTATTTAATTATATTAAGCCA
Found at i:137939 original size:13 final size:13
Alignment explanation
Indices: 137921--137946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137911 TACACAAAGT
137921 ATGTATCGATACA
1 ATGTATCGATACA
137934 ATGTATCGATACA
1 ATGTATCGATACA
137947 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:137944 original size:32 final size:33
Alignment explanation
Indices: 137903--137966 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
137893 TAGCCAAACT
**
137903 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
137935 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
137967 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Found at i:138031 original size:20 final size:22
Alignment explanation
Indices: 138000--138043 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
137990 ACTATATTTT
138000 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
138021 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
138042 CA
1 CA
138044 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:146783 original size:20 final size:22
Alignment explanation
Indices: 146752--146795 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
146742 GCTATATTTT
146752 CAAATATGTATCGATACA-TCA
1 CAAATATGTATCGATACATTCA
146773 CAAAT-TGTATCGATACATTCA
1 CAAATATGTATCGATACATTCA
146794 CA
1 CA
146796 CGGGAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CAAATATGTATCGATACATTCA
Found at i:147845 original size:21 final size:21
Alignment explanation
Indices: 147812--147852 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
147802 CTAAGTAAAA
147812 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
147833 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
147853 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:147917 original size:20 final size:19
Alignment explanation
Indices: 147892--147962 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
147882 ACCCTGAAAA
147892 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
147912 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
147931 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
147952 GTATCGATACA
1 GTATCGATACA
147963 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:148015 original size:53 final size:53
Alignment explanation
Indices: 147932--148068 Score: 204
Period size: 53 Copynumber: 2.6 Consensus size: 53
147922 AGATTGCATA
147932 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCGA-TAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGG-GAGTAGCCAAATTT
** *
147986 GTATCGATACACACAATATGTATCGATACAGGTTATTGGTAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGGAGTAGCCAAATTT
* *
148039 GTAGCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
148069 TTGGTAGTAG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 62 0.81
54 14 0.18
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGGAGTAGCCAAATTT
Found at i:148111 original size:10 final size:10
Alignment explanation
Indices: 148092--148122 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
148082 AATCTCATTT
148092 TCACTGTTCA
1 TCACTGTTCA
*
148102 TCACTATTCA
1 TCACTGTTCA
148112 TCACTGTTCA
1 TCACTGTTCA
148122 T
1 T
148123 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:148196 original size:47 final size:48
Alignment explanation
Indices: 148139--148229 Score: 157
Period size: 47 Copynumber: 1.9 Consensus size: 48
148129 ATACATCACC
*
148139 TTCATGTATCGTTAAATATCACTGTTCA-CACTATTCACGTATCACTA
1 TTCATGTATCGTTAAAAATCACTGTTCATCACTATTCACGTATCACTA
*
148186 TTCATGTATCGTTAAAAATCACTGTTCATCACTATTCATGTATC
1 TTCATGTATCGTTAAAAATCACTGTTCATCACTATTCACGTATC
148230 GATACAGTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
47 27 0.66
48 14 0.34
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.40
Consensus pattern (48 bp):
TTCATGTATCGTTAAAAATCACTGTTCATCACTATTCACGTATCACTA
Found at i:150512 original size:20 final size:20
Alignment explanation
Indices: 150484--150521 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
150474 GAGATGCTAG
*
150484 ACATGGTAAAAATGCATGGA
1 ACATAGTAAAAATGCATGGA
150504 ACATAGTAAAAATGCATG
1 ACATAGTAAAAATGCATG
150522 ATCAAAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (20 bp):
ACATAGTAAAAATGCATGGA
Found at i:153760 original size:58 final size:58
Alignment explanation
Indices: 153690--153807 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
153680 TTGATTACAG
153690 GCATGTAATGATTCATTCACTTATGTATCGATACAATTGTTTTAGAATGCAAAATTTT
1 GCATGTAATGATTCATTCACTTATGTATCGATACAATTGTTTTAGAATGCAAAATTTT
153748 GCATGTAATGATTCATTCACTTATGTATCGATACAATTGTTTTAGAATGCAAAATTTT
1 GCATGTAATGATTCATTCACTTATGTATCGATACAATTGTTTTAGAATGCAAAATTTT
153806 GC
1 GC
153808 CTTGAAAGGG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (58 bp):
GCATGTAATGATTCATTCACTTATGTATCGATACAATTGTTTTAGAATGCAAAATTTT
Found at i:157518 original size:2 final size:2
Alignment explanation
Indices: 157511--157557 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
157501 TAAGAGTTCT
*
157511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
157553 TA TA T
1 TA TA T
157558 GAGGTTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:160583 original size:19 final size:19
Alignment explanation
Indices: 160535--160585 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
160525 ATTGCCAGTT
160535 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
* *
160554 TGTAAGTATCGATACAA-TG
1 T-CATGTATCGATACAATTG
160573 ATCATGTATCGAT
1 -TCATGTATCGAT
160586 GCAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:169569 original size:32 final size:33
Alignment explanation
Indices: 169507--169575 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
169497 TTCAACGATT
*
169507 TGTATCGATACATAAAGTGTTGTATTGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
169540 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
169572 TGTA
1 TGTA
169576 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:169740 original size:52 final size:52
Alignment explanation
Indices: 169591--169741 Score: 221
Period size: 52 Copynumber: 2.9 Consensus size: 52
169581 CTGCCAAAAA
* ** * * *
169591 ATGTATCGATACATTACTCTAATGTATCGATACATGCAGGTAAATCTGCCCAT
1 ATGTATCGATACACTA-TGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
169644 ATGTATCGATACGCTATGAAATGTATCGATACATACAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
169696 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
169742 TCATATTTTG
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
52 74 0.84
53 14 0.16
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (52 bp):
ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:177963 original size:31 final size:30
Alignment explanation
Indices: 177908--178027 Score: 107
Period size: 30 Copynumber: 3.9 Consensus size: 30
177898 CTTCAAATAC
* * *
177908 CTTCTTAAAGTCCATGACTTAGTGGCAATCT
1 CTTCTCAAAGTCCACGACTCAGTGGCAAT-T
*
177939 CTTCTCAAAGCCCACGACTCAGTGGC-ATT
1 CTTCTCAAAGTCCACGACTCAGTGGCAATT
* *
177968 TTGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 CT-TCTCAAAGTCCACGACTCAGTGGCA--ATT
* * * *
178001 TTTTTCAAAGTCCACAACTCTGTGGCA
1 CTTCTCAAAGTCCACGACTCAGTGGCA
178028 CCCTTTTAAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
29 2 0.03
30 25 0.33
31 22 0.29
32 22 0.29
33 4 0.05
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (30 bp):
CTTCTCAAAGTCCACGACTCAGTGGCAATT
Done.