Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold251
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: 763550
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 5
Found at i:148 original size:33 final size:33
Alignment explanation
Indices: 109--772 Score: 321
Period size: 33 Copynumber: 20.7 Consensus size: 33
99 GGGCTTTTGG
*
109 GGAAAAAGGTGCTACGAAGTTGTGGACTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * * ** ***
142 GGAAAAAAGGTGCCATGAAATTATGAGTTTTTGGA
1 GG-AAAAAGGTGCCACGAAGTTGTG-GACTTAAAA
* *
177 GGAAAAAAGGTGCCACGGAGTTGTAGACTTAAAA
1 GG-AAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
211 -GAAAAAGGGTGCCATGAAATTGTGGGCATTGAAAA
1 GGAAAAA-GGTGCCACGAAGTTGTGGAC-TT-AAAA
* * *
246 -GAAAAAGATACCACG-AGTTGTGGA-TTTAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
276 GGAAAAAGATGCCATGGAA-TTGTGAACTT----
1 GGAAAAAGGTGCCA-CGAAGTTGTGGACTTAAAA
*
305 -G--AAAGGTGCCAC-AGAGTTATGGACTTAAAA
1 GGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
* *
335 GGAAAAGGGTGCCA-TAGAGTTGTAGG-CTTTGAAAA
1 GGAAAAAGGTGCCACGA-AGTTGT-GGAC-TT-AAAA
* *
370 -G-AAAAGGTGCCACGGAGTTATGGACTT-AAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
400 GGAAAAAGATGTCACAATAGTTGTGGACTTAAAA
1 GGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
** * * *
434 GGAAAAAAATGCCACGGAGTTGTGGGCTTTGAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGAC-TTAAAA
* *
468 -GAAAAAGGTACCACG-AGTCGTGGACTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* *
499 -G-----GGTGCCACGGAGTTGTAG-CTTTGAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAA
527 -GAAAAAGGTGCCAC-AGAGTTGTGGACTT-AAA
1 GGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
* * * *
558 GGAAAAAGATGCCATGGAGTTGTGGGCTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* *
591 GG-AAAAGATGCCACGGAGTTGTGGACTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
623 -GAAACAGATGCCACGAAGTTATGGACTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* * *
655 GGAAAAAGATGTCAC-AGAGTTGTGAACTTTGAAAA
1 GGAAAAAGGTGCCACGA-AGTTGTGGAC-TT-AAAA
* * * *
690 AG-AAGAGGCGCCA-TAGAGTTGTGGACTTAAAA
1 GGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
* * *
722 -G-----GGTGCCACGGAGTTATAGACTTAAAA
1 GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
* *
749 GGAAAAAGGGTGCCATGGAGTTGT
1 GGAAAAA-GGTGCCACGAAGTTGT
773 ATACTTTAAG
Statistics
Matches: 484, Mismatches: 91, Indels: 111
0.71 0.13 0.16
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 26 0.05
27 28 0.06
28 7 0.01
30 6 0.01
31 27 0.06
32 117 0.24
33 137 0.28
34 91 0.19
35 43 0.09
ACGTcount: A:0.38, C:0.11, G:0.30, T:0.21
Consensus pattern (33 bp):
GGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA
Found at i:181 original size:68 final size:67
Alignment explanation
Indices: 103--231 Score: 197
Period size: 69 Copynumber: 1.9 Consensus size: 67
93 GGGAGTGGGC
* *
103 TTTTGGGG-AAAAAGGTGCTACGAAGTTGTGGACTTAAAAGGAAAAAAGGTGCCATGAAATTATG
1 TTTTGGGGAAAAAAGGTGCCACGAAGTTGTAGACTTAAAA-GAAAAAAGGTGCCATGAAATTATG
167 AGT
65 AGT
* *
170 TTTTGGAGGAAAAAAGGTGCCACGGAGTTGTAGACTTAAAAGAAAAAGGGTGCCATGAAATT
1 TTTTGG-GGAAAAAAGGTGCCACGAAGTTGTAGACTTAAAAGAAAAAAGGTGCCATGAAATT
232 GTGGGCATTG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
67 6 0.11
68 22 0.39
69 28 0.50
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (67 bp):
TTTTGGGGAAAAAAGGTGCCACGAAGTTGTAGACTTAAAAGAAAAAAGGTGCCATGAAATTATGA
GT
Found at i:402 original size:124 final size:124
Alignment explanation
Indices: 182--410 Score: 327
Period size: 124 Copynumber: 1.8 Consensus size: 124
172 TTGGAGGAAA
* * *
182 AAAGGTGCCACGGAGTTGTAGACTTAAAAGAAAAAGGGTGCCATGAAATTGTGGGCATTGAAAAG
1 AAAGGTGCCACAGAGTTATAGACTTAAAAGAAAAAGGGTGCCATGAAATTGTAGGCATTGAAAAG
* *
247 AAAAAGATACCACGAGTTGTGGATTTAAAGGAAAAAGATGCCATGGAATTGTGAACTTG
66 AAAAAGATACCACGAGTTATGGACTTAAAGGAAAAAGATGCCATGGAATTGTGAACTTG
* * * *
306 AAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAGGGTGCCAT-AGAGTTGTAGGCTTTGAAAA
1 AAAGGTGCCACAGAGTTATAGACTTAAAAGAAAAAGGGTGCCATGA-AATTGTAGGCATTGAAAA
* *
370 G-AAAAGGTGCCACGGAGTTATGGACTTAAAGGAAAAAGATG
65 GAAAAAGATACCAC-GAGTTATGGACTTAAAGGAAAAAGATG
411 TCACAATAGT
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
123 11 0.12
124 81 0.88
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.21
Consensus pattern (124 bp):
AAAGGTGCCACAGAGTTATAGACTTAAAAGAAAAAGGGTGCCATGAAATTGTAGGCATTGAAAAG
AAAAAGATACCACGAGTTATGGACTTAAAGGAAAAAGATGCCATGGAATTGTGAACTTG
Found at i:504 original size:158 final size:155
Alignment explanation
Indices: 337--656 Score: 439
Period size: 158 Copynumber: 2.0 Consensus size: 155
327 ACTTAAAAGG
* *
337 AAAAGGGTGCCATAGAGTTGTAGGCTTTGAAAAG-AAAAGGTGCCACGGAGTTATGGACTTAAAG
1 AAAAGGGTGCCACAGAGTTGTA-GCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAG
* *
401 GAAAAAGATGTCACAAT-AGTTGTGGACTTAAAAGGAAAAAAATGCCACGGAGTTGTGGGCTTTG
65 GAAAAAGATG-C-C-ATGAGTTGTGGACTTAAAAGG-AAAAAATGCCACGGAGTTGTGGAC-TTA
* *
465 AAAGAAAAAGGTACCACG-AGTCGTGGACTT
125 AAAGAAAAAGATACCACGAAGTCATGGACTT
* *
495 AAAAGGGTGCCACGGAGTTGTAGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAGG
1 AAAAGGGTGCCACAGAGTTGTAGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAGG
* *
560 AAAAAGATGCCATGGAGTTGTGGGCTTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGA
66 AAAAAGATGCCAT-GAGTTGTGGACTTAAAAGGAAAAAATGCCACGGAGTTGTGGACTTAAAAGA
* * *
625 AACAGATGCCACGAAGTTATGGACTT
130 AAAAGATACCACGAAGTCATGGACTT
651 AAAAGG
1 AAAAGG
657 AAAAAGATGT
Statistics
Matches: 145, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
155 19 0.13
156 39 0.27
157 29 0.20
158 58 0.40
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.21
Consensus pattern (155 bp):
AAAAGGGTGCCACAGAGTTGTAGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGGACTTAAAGG
AAAAAGATGCCATGAGTTGTGGACTTAAAAGGAAAAAATGCCACGGAGTTGTGGACTTAAAAGAA
AAAGATACCACGAAGTCATGGACTT
Found at i:515 original size:59 final size:62
Alignment explanation
Indices: 377--683 Score: 218
Period size: 65 Copynumber: 4.9 Consensus size: 62
367 AAAGAAAAGG
* * * * *
377 TGCCACGGAGTTATGGAC-TT-AAAGGAAAAAGATGTCACAATAGTTGTGGACTTAAAAGGAAAA
1 TGCCACGGAGTTGTGGGCTTTGAAA-GAAAAAGGTGCCAC-AGAGTTGTGGACTTAAAAGG----
*
440 AAA
60 AGA
* *
443 TGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTACCAC-GAGTCGTGGACTTAAAAGG-G-
1 TGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAGA
*
502 TGCCACGGAGTTGT-AGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-AAAGGAAAAA
1 TGCCACGGAGTTGTGGGCTTTG-AAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG----A
565 GA
61 GA
* * * * * *
567 TGCCATGGAGTTGTGGGC-TTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAACAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAG---GAGA
* * * * * * *
631 TGCCACGAAGTTATGGAC-TTAAAAGGAAAAAGATGTCACAGAGTTGTGAACTT
1 TGCCACGGAGTTGTGGGCTTTGAAA-GAAAAAGGTGCCACAGAGTTGTGGACTT
684 TGAAAAAGAA
Statistics
Matches: 199, Mismatches: 26, Indels: 33
0.77 0.10 0.13
Matches are distributed among these distances:
58 6 0.03
59 35 0.18
60 12 0.06
64 52 0.26
65 60 0.30
66 18 0.09
67 13 0.07
68 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (62 bp):
TGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAGA
Found at i:590 original size:27 final size:28
Alignment explanation
Indices: 528--654 Score: 92
Period size: 32 Copynumber: 4.1 Consensus size: 28
518 CTTTGAAAAG
* *
528 AAAAAGGTGCCACAGAGTTGTGGACTTAAA
1 AAAAAGATGCCACGGAGTTGTGGACTT--A
* *
558 GGAAAAAGATGCCATGGAGTTGTGGGCTTAAA
1 --AAAAAGATGCCACGGAGTTGTGGACTT--A
590 AGGAAAAGATGCCACGGAGTTGTGGACTTAAA
1 A--AAAAGATGCCACGGAGTTGTGGACTT--A
* *
622 AGAAACAGATGCCACGAAGTTATGGACTTA
1 A-AAA-AGATGCCACGGAGTTGTGGACTTA
652 AAA
1 AAA
655 GGAAAAAGAT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
29 2 0.02
30 3 0.04
31 4 0.05
32 75 0.89
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (28 bp):
AAAAAGATGCCACGGAGTTGTGGACTTA
Found at i:897 original size:59 final size:59
Alignment explanation
Indices: 820--969 Score: 214
Period size: 59 Copynumber: 2.5 Consensus size: 59
810 GAAGAAAAAG
* *
820 GATGCCACTTA-GTCGTGGACTTTAAGAAGGGTGTCATGGAATCGTGGACTTTGAAAGGA
1 GATGCCA-TTAGGTTGTGGACTTTAAGAAGGGTGCCATGGAATCGTGGACTTTGAAAGGA
*
879 GATGCCATTAGGTTGTGGACTTTAAGAAGGGTGCCATGGAGTCGTGGACTTTGAAAGGA
1 GATGCCATTAGGTTGTGGACTTTAAGAAGGGTGCCATGGAATCGTGGACTTTGAAAGGA
* * *
938 GATGCCACT-GAGTTGTGAACTTTAGGAAGGGT
1 GATGCCATTAG-GTTGTGGACTTTAAGAAGGGT
970 TTGAAAGATT
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
58 4 0.05
59 79 0.95
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.27
Consensus pattern (59 bp):
GATGCCATTAGGTTGTGGACTTTAAGAAGGGTGCCATGGAATCGTGGACTTTGAAAGGA
Found at i:899 original size:30 final size:30
Alignment explanation
Indices: 830--944 Score: 105
Period size: 29 Copynumber: 3.9 Consensus size: 30
820 GATGCCACTT
* * *
830 AGTCGTGGACTTTAAGAAGG-G-TGTCATGG
1 AGTCGTGGACTTTGA-AAGGAGATGCCATAG
*
859 AATCGTGGACTTTGAAAGGAGATGCCATTAG
1 AGTCGTGGACTTTGAAAGGAGATGCCA-TAG
* * *
890 -GTTGTGGACTTTAAGAAGG-G-TGCCATGG
1 AGTCGTGGACTTTGA-AAGGAGATGCCATAG
918 AGTCGTGGACTTTGAAAGGAGATGCCA
1 AGTCGTGGACTTTGAAAGGAGATGCCA
945 CTGAGTTGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
28 10 0.14
29 32 0.46
30 21 0.30
31 6 0.09
ACGTcount: A:0.27, C:0.12, G:0.35, T:0.26
Consensus pattern (30 bp):
AGTCGTGGACTTTGAAAGGAGATGCCATAG
Found at i:960 original size:30 final size:29
Alignment explanation
Indices: 863--960 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 29
853 TCATGGAATC
*
863 GTGGACTTTGAAAGGAGATGCCATTAGGTT
1 GTGGACTTTGAAAGGAGATGCCATGA-GTT
* *
893 GTGGACTTTAAGAAGG-G-TGCCATGGAGTC
1 GTGGACTTTGA-AAGGAGATGCCAT-GAGTT
922 GTGGACTTTGAAAGGAGATGCCACTGAGTT
1 GTGGACTTTGAAAGGAGATGCCA-TGAGTT
*
952 GTGAACTTT
1 GTGGACTTT
961 AGGAAGGGTT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.07
29 19 0.33
30 29 0.51
31 5 0.09
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.29
Consensus pattern (29 bp):
GTGGACTTTGAAAGGAGATGCCATGAGTT
Found at i:2164 original size:9 final size:9
Alignment explanation
Indices: 2150--2210 Score: 72
Period size: 9 Copynumber: 6.9 Consensus size: 9
2140 TGCCTTTGCA
2150 TTTTTTTTG
1 TTTTTTTTG
2159 -TTTTTTT-
1 TTTTTTTTG
**
2166 TTTCATTTG
1 TTTTTTTTG
2175 TTTTTTTTG
1 TTTTTTTTG
*
2184 TTTGTTTTG
1 TTTTTTTTG
2193 TTTTTTTTGG
1 TTTTTTTT-G
2203 TTTTTTTT
1 TTTTTTTT
2211 TCATCATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
8 12 0.28
9 22 0.51
10 9 0.21
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:7642 original size:20 final size:20
Alignment explanation
Indices: 7566--7644 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
7556 AAAAACCCCA
* * *
7566 AATGTATCGATACAATAATA
1 AATGTATCGATACATTTATT
* *
7586 AATGTATTGATACAATTTGAAGT
1 AATGTATCGATAC-ATTT--ATT
7609 -ATGTATCGATACATTTATT
1 AATGTATCGATACATTTATT
7628 AATGTATCGATACATTT
1 AATGTATCGATACATTT
7645 CATTGGCAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.04
20 28 0.58
21 6 0.12
22 11 0.23
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTATT
Found at i:7795 original size:21 final size:20
Alignment explanation
Indices: 7771--7809 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
7761 ATTGGGACCT
7771 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATT-TAGAAA
7792 TGTATCGATACATTTAGA
1 TGTATCGATACATTTAGA
7810 TAAAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAGAAA
Found at i:10152 original size:21 final size:20
Alignment explanation
Indices: 10122--10160 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10112 CACATTTTTG
10122 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
*
10142 TCTAGAATGTATTGATACA
1 TCTA-AATGTATCGATACA
10161 AGGTCCCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:15402 original size:9 final size:9
Alignment explanation
Indices: 15388--15451 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
15378 CCTTCTCTTC
15388 AAAAAAAGA
1 AAAAAAAGA
*
15397 AAAAAAATA
1 AAAAAAAGA
*
15406 AAAAAAAAA
1 AAAAAAAGA
*
15415 CAAAAAAACA
1 -AAAAAAAGA
*
15425 AAACAAAGA
1 AAAAAAAGA
*
15434 AAAAGAGAGA
1 AAAA-AAAGA
15444 AAAGAAAA
1 AAA-AAAA
15452 AGAACCTACT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
9 26 0.59
10 17 0.39
11 1 0.02
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:16672 original size:55 final size:54
Alignment explanation
Indices: 16448--16951 Score: 681
Period size: 55 Copynumber: 9.1 Consensus size: 54
16438 GACGCCTTCT
* * *
16448 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACA
* * * * * *
16503 TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCGTCAAAGAGCGGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
*
16557 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACA
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
*
16616 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* * *
16671 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGGGCAGGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
16726 CCTCTT-AAAGCCCACACAAGTTGGTGGCAGCTTTCAGTCCTCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* *
16781 TCTTTCAAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
* * *
16835 CCTTTCAAAGCCCACCCAAGTTTGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
*
16890 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
16945 CCTTTCA
1 CCTTTCA
16952 GTCCCCAAAG
Statistics
Matches: 408, Mismatches: 27, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
53 3 0.01
54 96 0.24
55 247 0.61
56 11 0.03
58 4 0.01
59 47 0.12
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:16812 original size:164 final size:163
Alignment explanation
Indices: 16448--16951 Score: 744
Period size: 164 Copynumber: 3.0 Consensus size: 163
16438 GACGCCTTCT
* * ** *
16448 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGTCTTTTAAA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGACACCTTTCAAA
** * *
16512 GCCCACACAAGTTGGTGGCACCTTCAGTCGTCAAAGAGC-GGGACGCCTTTTCTTTTAAAGCCCA
65 GCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGG-CACC---TC--TTAAAGCCCA
*
16576 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACA
124 CACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
16616 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
*
16681 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGGGCAGGGCACCTCTTAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGGCACCTCTTAAAGCCCACACAAG
16746 TTGGTGGCAGCTTTCAGTCCTCAAAGAGCAGGACA
130 TTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
*
16781 TCTTTCAAAG-CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* * *
16845 CCCACCCAAGTTTGTGGCATTTTTCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAG
66 CCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGGCACCTCTTAAAGCCCACACAAG
*
16910 TTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
130 TTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
16945 CCTTTCA
1 CCTTTCA
16952 GTCCCCAAAG
Statistics
Matches: 312, Mismatches: 19, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
164 174 0.56
165 37 0.12
166 2 0.01
168 76 0.24
169 20 0.06
170 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (163 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
CCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGGCACCTCTTAAAGCCCACACAAGT
TGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:16881 original size:219 final size:218
Alignment explanation
Indices: 16451--16947 Score: 714
Period size: 219 Copynumber: 2.2 Consensus size: 218
16441 GCCTTCTCCT
* ** *
16451 TTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACGTCTTTTAAAGCCC
1 TTTAAAGCCCACACAAGTTGGTGGCATTTCC-AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCC
* * * *
16516 ACACAAGTTGGTGGCACCTTCAGTCGTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAA
65 ACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGA--CC-TATCTTTCAAAGCCCACACAA
16581 GTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
127 GTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
16646 TTTCCAGTCCTCAAAGAGCAGGACACC
192 TTTCCAGTCCTCAAAGAGCAGGACACC
* *
16673 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGGGCAGGGCACCTCTTAAAGCC
1 TTT-AAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCC
*
16738 CACACAAGTTGGTGGCAGCTTTCAGTCCTCAAAGAGCAGGA-C-ATCTTTCAAAG-CCACACAAG
64 CACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCAGGACCTATCTTTCAAAGCCCACACAAG
** * *
16800 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTTGTGGCAT
128 TTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
*
16865 TTTTCAGTCCTCAAAGAGCAGGACACC
192 TTTCCAGTCCTCAAAGAGCAGGACACC
*
16892 TCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACACCT
1 T-TTAAAGCCCACACAAGTTGGTGGCA--TTTCCAGTCCTCAAAGAGCAGGACACCT
16948 TTCAGTCCCC
Statistics
Matches: 249, Mismatches: 20, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
218 20 0.08
219 129 0.52
220 5 0.02
221 1 0.00
222 3 0.01
223 67 0.27
224 24 0.10
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (218 bp):
TTTAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCA
CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACCTATCTTTCAAAGCCCACACAAGTTG
GTGGCACCTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
CAGTCCTCAAAGAGCAGGACACC
Found at i:17188 original size:21 final size:21
Alignment explanation
Indices: 17162--17217 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
17152 AAAAAATCCA
17162 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
17183 AATGTATGGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
17204 AATGTATCGATACA
1 AATGTATCGATACA
17218 GGGTCCCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:17302 original size:32 final size:32
Alignment explanation
Indices: 17255--17317 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
17245 TTCAACAATT
*
17255 TGTATCGATAAATAAGTTTTGTATCGATACAA
1 TGTATCGATAAATAAGTATTGTATCGATACAA
* *
17287 TGTATTGATACATAAGTATTGTATCGATACA
1 TGTATCGATAAATAAGTATTGTATCGATACA
17318 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATAAATAAGTATTGTATCGATACAA
Found at i:17315 original size:19 final size:19
Alignment explanation
Indices: 17254--17320 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
17244 ATTCAACAAT
* *
17254 TTGTATCGATAAATAAGTT
1 TTGTATCGATACATAAGTA
17273 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
17287 -TGTATTGATACATAAGTA
1 TTGTATCGATACATAAGTA
17305 TTGTATCGATACATAA
1 TTGTATCGATACATAA
17321 TTAGCTACTG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
13 10 0.26
16 2 0.05
18 1 0.03
19 25 0.66
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:17378 original size:13 final size:13
Alignment explanation
Indices: 17360--17385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17350 CATTTTTCTG
17360 TGTATCGATACAT
1 TGTATCGATACAT
17373 TGTATCGATACAT
1 TGTATCGATACAT
17386 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:17382 original size:33 final size:33
Alignment explanation
Indices: 17340--17406 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
17330 GCCAAGGAAA
***
17340 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
17373 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
17406 T
1 T
17407 TGGAAACTTT
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:19810 original size:51 final size:53
Alignment explanation
Indices: 19746--19885 Score: 178
Period size: 51 Copynumber: 2.7 Consensus size: 53
19736 AGTTTCTCAA
* * * *
19746 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
19797 TT-TTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* *
19851 TTCTTCACAATCGGGGATACTCCAACCCCGTTTTT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTT
19886 CATCGGGGAT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
50 2 0.03
51 34 0.45
53 9 0.12
54 28 0.37
55 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:19890 original size:27 final size:28
Alignment explanation
Indices: 19860--19935 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
19850 TTTCTTCACA
*
19860 ATCGGGGATACTCCAACCCCGTT-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
19887 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
19915 --CGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
19936 GCTTTATTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.04
27 23 0.51
28 20 0.44
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:20119 original size:80 final size:80
Alignment explanation
Indices: 19892--20123 Score: 193
Period size: 80 Copynumber: 2.9 Consensus size: 80
19882 TTTTCATCGG
* * * ** *
19892 GGATACTCCAACCCCGTTACTTCCGAAGGG-ATACTCCAACCCCGGCT-TTAT-TCCCAAAATAT
1 GGATACTCCAACCCCGTTATTTTCG-AGGGAACACTCCAACCCCGATTATTATCT-CCAAAACAT
** * ** *
19954 TGATTTCTCATAATTGG
64 AAATTTCTCACAACCGA
* * * * * * * * * *
19971 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTTCTAATCATCA
1 GGATACTCCAACCCCGTTATTTTCGAGGGAACACTCCAACCCCGATTATTATCTCCAAAACATAA
20036 ATTTCTCACAACCGA
66 ATTTCTCACAACCGA
* *
20051 GGATACTCGAGCCCCGTTATTTTCGAGGGAACACTCCAACCCCG-TTATTATCTCCAAAACATTA
1 GGATACTCCAACCCCGTTATTTTCGAGGGAACACTCCAACCCCGATTATTATCTCCAAAACA-TA
20115 AATTTCTCA
65 AATTTCTCA
20124 TCGGGAAATA
Statistics
Matches: 121, Mismatches: 28, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
78 4 0.03
79 48 0.40
80 68 0.56
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (80 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGAACACTCCAACCCCGATTATTATCTCCAAAACATAA
ATTTCTCACAACCGA
Found at i:22192 original size:2 final size:2
Alignment explanation
Indices: 22187--22258 Score: 85
Period size: 2 Copynumber: 37.0 Consensus size: 2
22177 TATGCCCTGT
* * *
22187 TA TA TA TA CA TA TA T- TA TG TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
22228 TA T- TA TG TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22259 ATTGGACTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
1 2 0.03
2 56 0.97
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22219 original size:29 final size:29
Alignment explanation
Indices: 22187--22258 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
22177 TATGCCCTGT
22187 TATATATACATATATTATGTATATATATA
1 TATATATACATATATTATGTATATATATA
22216 TATATATACATATATTATGTATATATATA
1 TATATATACATATATTATGTATATATATA
*
22245 TATATATAAATATA
1 TATATATACATATA
22259 ATTGGACTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (29 bp):
TATATATACATATATTATGTATATATATA
Found at i:24239 original size:20 final size:20
Alignment explanation
Indices: 24202--24240 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24192 ACTAATTCGA
**
24202 TATTAAAAAATATTAATTAC
1 TATTAAAAAATAAAAATTAC
*
24222 TATTTAAAAATAAAAATTA
1 TATTAAAAAATAAAAATTA
24241 AACAAATACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
TATTAAAAAATAAAAATTAC
Found at i:24363 original size:55 final size:51
Alignment explanation
Indices: 24216--24388 Score: 208
Period size: 51 Copynumber: 3.4 Consensus size: 51
24206 AAAAAATATT
* *
24216 AATTACTATTTAAAAAT-A-AAAATTAAACAAATA-CTTATATTAAATCTTA
1 AATTACTATTTAAAAATAATAAAATTAAA-AAATATATTATATTAAATCTCA
*
24265 AATTACTATTTAAAAATAATAAAATTAAAAAATATATGATATTAAATCTCA
1 AATTACTATTTAAAAATAATAAAATTAAAAAATATATTATATTAAATCTCA
* * * *
24316 AATTATTATTTTAAAAATAATAAAAAATTTTAAAAATATTTTATATTAAATCTCG
1 AATTACTA-TTTAAAAATAAT--AAAA-TTAAAAAATATATTATATTAAATCTCA
*
24371 TATTACTATTTAAAAATA
1 AATTACTATTTAAAAATA
24389 TTTTATATTA
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
49 17 0.16
50 6 0.06
51 29 0.27
52 12 0.11
54 14 0.13
55 29 0.27
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (51 bp):
AATTACTATTTAAAAATAATAAAATTAAAAAATATATTATATTAAATCTCA
Found at i:24383 original size:35 final size:35
Alignment explanation
Indices: 24344--24422 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
24334 AATAAAAAAT
*
24344 TTTAAAAATATTTTATATTAAATCTCGTATTACTA
1 TTTAAAAATATTTTATATTAAATCTCGAATTACTA
*
24379 TTTAAAAATATTTTATATTAAATCTTGAATTACTA
1 TTTAAAAATATTTTATATTAAATCTCGAATTACTA
24414 TTTAAAAAT
1 TTTAAAAAT
24423 TAATAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (35 bp):
TTTAAAAATATTTTATATTAAATCTCGAATTACTA
Found at i:24456 original size:89 final size:90
Alignment explanation
Indices: 24292--24477 Score: 259
Period size: 89 Copynumber: 2.1 Consensus size: 90
24282 AATAAAATTA
* *
24292 AAAAATATATGATATTAAATCTCAAATTATTATTTTAAAAATAATAAAAAATTTTAAAAATATTT
1 AAAAATATATGATATTAAATCTCAAATTACTATTTTAAAAATAATAAAAAATTTAAAAAATATTT
* ** *
24357 TATATTAAATCTCGTATTACTATTT
66 TATATTAAATCCCAAATTAATATTT
* * **
24382 AAAAATATTTTATATTAAATCTTGAATTACTA-TTTAAAAATTAAT-AAAAATTTAAAAAATATT
1 AAAAATATATGATATTAAATCTCAAATTACTATTTTAAAAA-TAATAAAAAATTTAAAAAATATT
24445 TTATATTAAATCCCAAATTAATATTT
65 TTATATTAAATCCCAAATTAATATTT
24471 AAAAATA
1 AAAAATA
24478 ATAAAAAATA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 54 0.64
90 31 0.36
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (90 bp):
AAAAATATATGATATTAAATCTCAAATTACTATTTTAAAAATAATAAAAAATTTAAAAAATATTT
TATATTAAATCCCAAATTAATATTT
Found at i:24482 original size:53 final size:52
Alignment explanation
Indices: 24378--24558 Score: 245
Period size: 53 Copynumber: 3.4 Consensus size: 52
24368 TCGTATTACT
** *
24378 ATTTAAAAATATTTTATATTAAATCTTGAATTACTATTTAAAAATTAATAAAA
1 ATTTAAAAATATTTTATATTAAATCTCAAATTAATATTTAAAAA-TAATAAAA
*
24431 ATTTAAAAAATATTTTATATTAAATCCCAAATTAATATTTAAAAATAATAAAA
1 ATTT-AAAAATATTTTATATTAAATCTCAAATTAATATTTAAAAATAATAAAA
* * * * *
24484 AATAAAAATATATTTTATATTAAATTTCAAATTATTATCTAAAAATAATAAAA
1 ATTTAAAA-ATATTTTATATTAAATCTCAAATTAATATTTAAAAATAATAAAA
*
24537 ACTTAAAAATATTTTATATTAA
1 ATTTAAAAATATTTTATATTAA
24559 TATTTATATA
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
52 18 0.16
53 60 0.53
54 36 0.32
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (52 bp):
ATTTAAAAATATTTTATATTAAATCTCAAATTAATATTTAAAAATAATAAAA
Found at i:24876 original size:53 final size:53
Alignment explanation
Indices: 24808--24961 Score: 202
Period size: 53 Copynumber: 2.9 Consensus size: 53
24798 GATACTTCCC
* * *
24808 GAATTATTATTTAAAAAATATTAAAAAATTAAAAAATGTTTTATATTAATCTT
1 GAATTACTATTTAAAAAATAATAAAAAATTAAAAAATGTTTTATATAAATCTT
* * **
24861 GAATTACTATGTAAAAAATAATAAAAAATTAAAAAATATTTTAGGGTAAATCTT
1 GAATTACTATTTAAAAAATAATAAAAAATTAAAAAATGTTTTA-TATAAATCTT
*
24915 CAATTACTATTTAAAAAATAAT-AAAAATTAAAAAATAGTTTATATAT
1 GAATTACTATTTAAAAAATAATAAAAAATTAAAAAAT-GTTT-TATAT
24962 GCATTAGTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 53 0.62
54 31 0.36
55 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (53 bp):
GAATTACTATTTAAAAAATAATAAAAAATTAAAAAATGTTTTATATAAATCTT
Found at i:25509 original size:200 final size:200
Alignment explanation
Indices: 25235--25594 Score: 441
Period size: 200 Copynumber: 1.8 Consensus size: 200
25225 AAACAATTTC
* * * * * * *
25235 TTAAGCTAAAAATATTATTTTTTCTATATGTACATATAATTATGCTATACGTATATATTATTTTT
1 TTAAGCCAAAAATATTATTTTTACTATATGCACATATAATTATGCTAAACGTACATATCACTTTT
* * ** *
25300 ACTAAATGTATATATTGTTTTTACTGCATGTACACATTATCTTATTCGAAAGAACCGACCCTTCC
66 ACTAAATGTACATATTATTTTTACTAAAAGTACACATTATCTTATTCGAAAGAACCGACCCTTCC
* *
25365 ATGAATGGAACCAACTATTAAGCCAAAAAATATATAAATCAACAAAGAGAATCAACATTTTCATG
131 ACGAAAGGAACCAACTATTAAGCCAAAAAATATATAAATCAACAAAGAGAATCAACATTTTCATG
25430 ACTTA
196 ACTTA
* * * * * *
25435 TTAAGCCAATAATATTATTTTTACTATATGCATATATGATTATGCTAAATGTACATCTCGCTTTT
1 TTAAGCCAAAAATATTATTTTTACTATATGCACATATAATTATGCTAAACGTACATATCACTTTT
* * * * * ** *
25500 ACTAAATGTACATGTTATTTTTATTAAAAGTATATATTATCTTATTTGAAAGAATTGACCCTTTC
66 ACTAAATGTACATATTATTTTTACTAAAAGTACACATTATCTTATTCGAAAGAACCGACCCTTCC
* * *
25565 ACGAAAGGAATCAACTCTTAAGGCAAAAAA
131 ACGAAAGGAACCAACTATTAAGCCAAAAAA
25595 GTGCACAAAT
Statistics
Matches: 129, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
200 129 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (200 bp):
TTAAGCCAAAAATATTATTTTTACTATATGCACATATAATTATGCTAAACGTACATATCACTTTT
ACTAAATGTACATATTATTTTTACTAAAAGTACACATTATCTTATTCGAAAGAACCGACCCTTCC
ACGAAAGGAACCAACTATTAAGCCAAAAAATATATAAATCAACAAAGAGAATCAACATTTTCATG
ACTTA
Found at i:25539 original size:22 final size:22
Alignment explanation
Indices: 25496--25539 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
25486 TACATCTCGC
* *
25496 TTTTACTAAATGTACATGTTAT
1 TTTTACTAAAAGTACATATTAT
* *
25518 TTTTATTAAAAGTATATATTAT
1 TTTTACTAAAAGTACATATTAT
25540 CTTATTTGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TTTTACTAAAAGTACATATTAT
Found at i:27881 original size:24 final size:24
Alignment explanation
Indices: 27854--27912 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
27844 GTTATGGGTT
*
27854 GAAAAAAAAAAG-TTAAGTAAAAAA
1 GAAAAAAAAAAGATGAAG-AAAAAA
* * *
27878 GAAAGAAAGAAGATGAAGAAGAAA
1 GAAAAAAAAAAGATGAAGAAAAAA
27902 GAAAAAAAAAA
1 GAAAAAAAAAA
27913 AGAGAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAAAGATGAAGAAAAAA
Found at i:28301 original size:2 final size:2
Alignment explanation
Indices: 28288--28324 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
28278 TTATTTTATT
* *
28288 TA TA TG TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28325 TTTAAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:28309 original size:16 final size:16
Alignment explanation
Indices: 28288--28324 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
28278 TTATTTTATT
28288 TATATGTATATATATA
1 TATATGTATATATATA
28304 TATATGTATATATATA
1 TATATGTATATATATA
28320 TATAT
1 TATAT
28325 TTTAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
TATATGTATATATATA
Found at i:29847 original size:12 final size:12
Alignment explanation
Indices: 29830--29854 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29820 AATTTTCTTT
29830 TACTTGTCATTA
1 TACTTGTCATTA
29842 TACTTGTCATTA
1 TACTTGTCATTA
29854 T
1 T
29855 GATGATTATT
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACTTGTCATTA
Found at i:34409 original size:36 final size:35
Alignment explanation
Indices: 34329--34409 Score: 85
Period size: 36 Copynumber: 2.3 Consensus size: 35
34319 CAAAATGACA
* *
34329 AAAAAAAAAAGTCAAAAGCAAAAGCACAAAAAATG
1 AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
* *
34364 AAAAGAAAAAGTGCAAAAGCAAAA-TA-AAAAAAGGG
1 AAAACAAAAAGT-CAAAAGCAAAAGCACAAAAAA-GG
34399 AACAACAAAAA
1 AA-AACAAAAA
34410 TAAAAAAAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 6 0.15
35 15 0.38
36 18 0.46
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.05
Consensus pattern (35 bp):
AAAACAAAAAGTCAAAAGCAAAAGCACAAAAAAGG
Found at i:35781 original size:27 final size:27
Alignment explanation
Indices: 35738--36529 Score: 1172
Period size: 27 Copynumber: 28.9 Consensus size: 27
35728 GTGGCATTTT
* *
35738 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
35766 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
35793 CTTTTAAAGTCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
35821 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
35848 CTTTTAAAATCCACAACTCCGTGGTACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
35876 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
35903 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
35930 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
35957 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
35984 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
36012 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
36039 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
** *
36066 CTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
36094 CTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGT-CCACAACTCCGTGGCACC
*
36121 CTTTTAAGTCCACAACTCCATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
36148 CTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
36175 CTTTTAAGTCCATAACTCCATGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
36203 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
36230 CTTTTAAGACCACAACTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
36257 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
36284 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
36312 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
36339 CTTTTAAAGTCCCCAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
36367 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
36394 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
36422 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
36450 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
36477 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
36505 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
36530 ACCCATTCCA
Statistics
Matches: 697, Mismatches: 56, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
27 445 0.64
28 252 0.36
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:35806 original size:55 final size:54
Alignment explanation
Indices: 35738--36529 Score: 1172
Period size: 55 Copynumber: 14.5 Consensus size: 54
35728 GTGGCATTTT
* * *
35738 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
35793 CTTTTAAAGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
35848 CTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
35903 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
35957 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCATTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
36012 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
36066 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAA-TACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT-CCACAACTCCGTGGCACC
* *
36121 CTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
36175 CTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
36230 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * ** *
36284 CTTTTAAGTCCATAACTCTGTGGCATCTTTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
36339 CTTTTAAAGTCCCCAACTCCGTGGCACCCTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
36394 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CC
36450 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * *
36505 CTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCA
36530 ACCCATTCCA
Statistics
Matches: 681, Mismatches: 47, Indels: 18
0.91 0.06 0.02
Matches are distributed among these distances:
54 238 0.35
55 399 0.59
56 44 0.06
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:35838 original size:82 final size:81
Alignment explanation
Indices: 35738--36529 Score: 1156
Period size: 82 Copynumber: 9.6 Consensus size: 81
35728 GTGGCATTTT
* *
35738 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
35803 CCACAACTCCGTGGTACC
64 CCACAACTCCGTGGCACC
* * * * *
35821 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCCGTGGTACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
35886 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
*
35903 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
35968 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
**
35984 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
36049 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
**
36066 CTTTTAAGTCCACAACTCTATGGCATTCCTTTTAA-TACCACAACTCCGTGGCACCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-TCCTTTTAAGT-CCACAACTCCGTGGCACCCTTTTAAGT
*
36130 CCACAACTCCATGGCACC
64 CCACAACTCCGTGGCACC
* *
36148 CTTTTAAGTCCACAACTCCGTGGCA-CTCTTTTAAGTCCATAACTCCATGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
36212 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * *
36230 CTTTTAAGACCACAACTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
36295 ATAACTCTGTGGCATCT
66 ACAACTCCGTGGCA-CC
* * * * *
36312 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCCCAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
36377 CACAACTCTGTGGCACC
65 CACAACTCCGTGGCACC
36394 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
36459 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
* * * *
36477 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAATTCACAAATCGGTGGCA
1 CTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
36530 ACCCATTCCA
Statistics
Matches: 652, Mismatches: 46, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.00
81 115 0.18
82 380 0.58
83 156 0.24
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:36557 original size:32 final size:32
Alignment explanation
Indices: 36515--36829 Score: 470
Period size: 32 Copynumber: 9.8 Consensus size: 32
36505 CTTTTAAATT
* *
36515 CACAAATCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
36547 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
36579 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
36611 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
36643 CACAAGTCGGTAGCAACCCA-TTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
*
36675 CACAAGTAGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** *
36707 CACAAGTCGGTGGCAACCTTTTTCAAAGCCCC
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
36739 CACAAGTTGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* *
36771 CGCAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
* * *
36803 CGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
36830 TCACCATTTT
Statistics
Matches: 262, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
31 3 0.01
32 256 0.98
33 3 0.01
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:37876 original size:24 final size:24
Alignment explanation
Indices: 37849--37907 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
37839 GTTATGGGTT
*
37849 GAAAAAAAAAAG-TTAAGTAAAAAA
1 GAAAAAAAAAAGATGAAG-AAAAAA
* * *
37873 GAAAGAAAGAAGATGAAGAAGAAA
1 GAAAAAAAAAAGATGAAGAAAAAA
37897 GAAAAAAAAAA
1 GAAAAAAAAAA
37908 AAAAAGAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAAAGATGAAGAAAAAA
Found at i:38300 original size:2 final size:2
Alignment explanation
Indices: 38287--38323 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
38277 TTATTTTATT
* *
38287 TA TA TG TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
38324 TTTAAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39846 original size:12 final size:12
Alignment explanation
Indices: 39829--39853 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39819 AATTTTCTTT
39829 TACTTGTCATTA
1 TACTTGTCATTA
39841 TACTTGTCATTA
1 TACTTGTCATTA
39853 T
1 T
39854 GATGATTATT
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:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACTTGTCATTA
Found at i:42604 original size:28 final size:27
Alignment explanation
Indices: 42545--42613 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
42535 CACCCATTTG
* *
42545 TTTGTCAAAAATGGTGGTTATTTTGTG
1 TTTGTCAAAAATGGTGGTTATTTTATA
42572 TTTGTCAAAAATGGTGGTT-TCCTTTATA
1 TTTGTCAAAAATGGTGGTTAT--TTTATA
*
42600 TTTGTCAAATATGG
1 TTTGTCAAAAATGG
42614 AGGCTTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 17 0.46
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.46
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTATTTTATA
Found at i:42715 original size:20 final size:20
Alignment explanation
Indices: 42690--42735 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
42680 AAATAGAGGC
*
42690 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
42710 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
42730 TCCCTC
1 TCCCTC
42736 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:47289 original size:20 final size:20
Alignment explanation
Indices: 47264--47309 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
47254 AAATAGAGGC
*
47264 TCCCTCCTCCCTCTCAAGTA
1 TCCCTCATCCCTCTCAAGTA
**
47284 TCCCTCATCCCTCTCTTGTA
1 TCCCTCATCCCTCTCAAGTA
47304 TCCCTC
1 TCCCTC
47310 TTCAATTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.11, C:0.50, G:0.04, T:0.35
Consensus pattern (20 bp):
TCCCTCATCCCTCTCAAGTA
Found at i:51700 original size:14 final size:14
Alignment explanation
Indices: 51681--51728 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
51671 GGAGAAACTT
51681 AATTTTTAGAGAAA
1 AATTTTTAGAGAAA
* **
51695 AATTTTTAGGGCGA
1 AATTTTTAGAGAAA
*
51709 AA-TTTTAGAAAAA
1 AATTTTTAGAGAAA
51722 AATTTTT
1 AATTTTT
51729 GTATATTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.40
Consensus pattern (14 bp):
AATTTTTAGAGAAA
Found at i:55958 original size:165 final size:167
Alignment explanation
Indices: 55497--56198 Score: 816
Period size: 166 Copynumber: 4.2 Consensus size: 167
55487 AAATTCTTTT
* * *
55497 ATTTTCATTAGTTTTTAAATTTTTTCCTTAAAATTCTT-TTTTTTTCAAAATACGGAATTTTCTA
1 ATTTTCATGAG-TTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTTCAAAATACGGAATTTTCTA
* **
55561 TTCCGTGAATTTTCACG-AGGAGATTTTTCTTGGTTTTTATTTAATTTTTAAAATTCATCAAATA
65 CTCCGTGAATTTTTTCGAAGG-GATTTTTCTTGG---TT-TTTAATTTTTAAAATTCATCAAATA
* * * *** *
55625 TTTTTATTTATTTCATATTAATTCAATTTTCAAAAATTCTTTT
125 TTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
* * * * * * *
55668 ATTTTCATTAGTTTTTTAATTTTTTCCTTAAAATTCTTC-TTTTTTC-GAATACAGAGTTTCCTA
1 ATTTTCATGAG-TTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTTCAAAATACGGAATTTTCTA
* * * *
55731 TTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAAGTCATCAAATATTATT
65 CTCCGTGAATTTTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATT
55796 ATTTATCTTC-TATTAATTCAGTTTTAAAAAATAAATTC
130 ATTTAT-TTCATATTAATTCAGTTTTAAAAAATAAATTC
*
55834 ATTTTCATGAGTTTTGGATTTTTTCCTTGAAATT-TTCTTTTTTTCAAAATAC-GAAGTTTTCTA
1 ATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTTCAAAATACGGAA-TTTTCTA
*
55897 CTCTGTGAATTTTTTCGAAGGGATTTTTCTTGG-TTTTAATTTTTAAAAGTT-ATCAAATATTAT
65 CTCCGTGAATTTTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAA-TTCATCAAATATTAT
*
55960 TATTTATCTCATATTAATTCAGTTTTAAAAAATAAATTC
129 TATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
* * ** *
55999 ATTTTCATGAGTTTTGGATTTTTTTCTTGAAA-T-TTCCCTTTTTCTAAAATACGGTATTTTCTA
1 ATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTTC-AAAATACGGAATTTTCTA
* * * * * *
56062 CTTTCG-CAATTTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAAATTAT
65 C-TCCGTGAATTTTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTAT
**
56126 CGTTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
129 TATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
* * *
56165 ATTCTCAAGAGTTTTGAATTTATTTCTTTGAAAT
1 ATTTTCATGAGTTTTGAATTT-TTTCCTTGAAAT
56199 CCCCTTTCTC
Statistics
Matches: 467, Mismatches: 49, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
164 15 0.03
165 163 0.35
166 190 0.41
167 14 0.03
170 38 0.08
171 47 0.10
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (167 bp):
ATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTCTTTTTTTCAAAATACGGAATTTTCTAC
TCCGTGAATTTTTTCGAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATTATTA
TTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
Found at i:56087 original size:331 final size:333
Alignment explanation
Indices: 55497--56198 Score: 850
Period size: 331 Copynumber: 2.1 Consensus size: 333
55487 AAATTCTTTT
* * * *
55497 ATTTTCATTAGTTTTTAAATTTTTTCCTTAAAATTCTTTTTTTTTCAAAATACGGAATTTTCTAT
1 ATTTTCATGAG-TTTTGAATTTTTTCCTTGAAATTCTTTTTTTTTCAAAATACGGAATTTTCTAC
55562 TCCGTGAATTTTCACGAGGAGATTTTTCTTGGTTTTTATTTAATTTTTAAAATTCATCAAATATT
65 TCCGTGAATTTTCACGAGGAGATTTTTCTTGG---TTATTTAATTTTTAAAATTCATCAAATATT
* * * *** * * *
55627 TTTATTTATTTCATATTAATTCAATTTTCAAAAATTCTTTTATTTTCATTAGTTTTTTAATTTTT
127 ATTATTTATCTCATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTTGAATTTTT
* **
55692 TCCTTAAAATTCTTCTTTTTTCGAATACAGAGTTTCCTATTCCGTAAATTTTTTCGAAGGGATTT
192 TCCTTAAAATTCTCCTTTTTTAAAATACAGAGTTTCCTATTCCGTAAATTTTTTCGAAGGGATTT
* * *
55757 TTCTTAGTTTTTAATTTTTAAAAGTCATCAAATATTATTATTTATCTTC-TATTAATTCAGTTTT
257 TTCTTAGTTTTTAATTTTTAAAAGTCATAAAAAATTATCATTTAT-TTCATATTAATTCAGTTTT
55821 AAAAAATAAATTC
321 AAAAAATAAATTC
*
55834 ATTTTCATGAGTTTTGGATTTTTTCCTTGAAATT-TTCTTTTTTTCAAAATAC-GAAGTTTTCTA
1 ATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTT-TTTTTTTCAAAATACGGAA-TTTTCTA
* **
55897 CTCTGTGAATTTTTTCGAAGG-GATTTTTCTTGG-T-TTTAATTTTTAAAAGTT-ATCAAATATT
64 CTCCGTGAATTTTCACG-AGGAGATTTTTCTTGGTTATTTAATTTTTAAAA-TTCATCAAATATT
* *
55958 ATTATTTATCTCATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAG-TTTTGGATTTTT
127 ATTATTTATCTCATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTTGAATTTTT
* * * * * * * *
56022 TTCTTGAAATT-TCCCTTTTTCTAAAATACGGTA-TTTTCTACTTTCG-CAATTTTTTTGAGGGG
192 TCCTTAAAATTCT-CCTTTTT-TAAAATACAG-AGTTTCCTA-TTCCGTAAATTTTTTCGAAGGG
* * *
56084 ATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAAATTATCGTTTATTTCATATTAATTCAGT
253 ATTTTTCTTAGTTTTTAATTTTTAAAAGTCATAAAAAATTATCATTTATTTCATATTAATTCAGT
56149 TTTAAAAAATAAATTC
318 TTTAAAAAATAAATTC
* * *
56165 ATTCTCAAGAGTTTTGAATTTATTTCTTTGAAAT
1 ATTTTCATGAGTTTTGAATTT-TTTCCTTGAAAT
56199 CCCCTTTCTC
Statistics
Matches: 315, Mismatches: 40, Indels: 25
0.83 0.11 0.07
Matches are distributed among these distances:
329 1 0.00
330 28 0.09
331 182 0.58
332 19 0.06
335 5 0.02
336 67 0.21
337 13 0.04
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.52
Consensus pattern (333 bp):
ATTTTCATGAGTTTTGAATTTTTTCCTTGAAATTCTTTTTTTTTCAAAATACGGAATTTTCTACT
CCGTGAATTTTCACGAGGAGATTTTTCTTGGTTATTTAATTTTTAAAATTCATCAAATATTATTA
TTTATCTCATATTAATTCAATTTTAAAAAATAAATTCATTTTCATGAGTTTTTGAATTTTTTCCT
TAAAATTCTCCTTTTTTAAAATACAGAGTTTCCTATTCCGTAAATTTTTTCGAAGGGATTTTTCT
TAGTTTTTAATTTTTAAAAGTCATAAAAAATTATCATTTATTTCATATTAATTCAGTTTTAAAAA
ATAAATTC
Found at i:56252 original size:166 final size:163
Alignment explanation
Indices: 55537--56289 Score: 736
Period size: 166 Copynumber: 4.5 Consensus size: 163
55527 AAATTCTTTT
* ** *
55537 TTTTTCAAAATACGGAA-TTTTCTATTCCGTGAATTTTCACGAGGAGATTTTTCTTGGTTTTTAT
1 TTTTTCAAAATAC-TAAGTTTTCTATTCCGT-AATTTTTTCGAGGGGATTTTTCTTGG---TT-T
* * * ***
55601 TTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCATATTAATTCAATTTTCAAAAATTCTT
60 TTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAAT
* * ** * * *
55666 TTATTTTCATTAGTTTTTTAATTTTTTCCTTAAAATTCTTCT
125 TCATTTTCATGAG-TTTTGGATTTTTT-CTTGAAATT-TCCC
* * * *
55708 TTTTTC-GAATAC-AGAGTTTCCTATTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAA
1 TTTTTCAAAATACTA-AGTTTTCTATTCCGT-AATTTTTTCGAGGGGATTTTTCTTGGTTTTTAA
*
55771 TTTTTAAAAGTCATCAAATATTATTATTTATCTTC-TATTAATTCAGTTTTAAAAAATAAATTCA
64 TTTTTAAAATTCATCAAATATTATTATTTAT-TTCATATTAATTCAGTTTTAAAAAATAAATTCA
**
55835 TTTTCATGAGTTTTGGATTTTTTCCTTGAAATTTTCTT
128 TTTTCATGAGTTTTGGATTTTTT-CTTGAAA-TTTCCC
* * * *
55873 TTTTTCAAAATACGAAGTTTTCTACTCTGTGAATTTTTTCGAAGGGATTTTTCTTGG-TTTTAAT
1 TTTTTCAAAATACTAAGTTTTCTATTCCGT-AATTTTTTCGAGGGGATTTTTCTTGGTTTTTAAT
*
55937 TTTTAAAAGTT-ATCAAATATTATTATTTATCTCATATTAATTCAGTTTTAAAAAATAAATTCAT
65 TTTTAAAA-TTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCAT
56001 TTTCATGAGTTTTGGATTTTTTTCTTGAAATTTCCC
129 TTTCATGAGTTTTGGA-TTTTTTCTTGAAATTTCCC
* * *
56037 TTTTTCTAAAATACGGT-A-TTTTCTACTTTCGCAATTTTTTTGAGGGGATTTTTCTTGGTTTTT
1 TTTTTC-AAAATAC--TAAGTTTTCTA-TTCCGTAATTTTTTCGAGGGGATTTTTCTTGGTTTTT
* * **
56100 AATTTTTAAAATTCATAAAAAATTATCGTTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
62 AATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTC
* * * *
56165 ATTCTCAAGAGTTTTGAATTTATTTCTTTGAAA-TCCCC
127 ATTTTCATGAGTTTTGGATTT-TTTC-TTGAAATTTCCC
* * * * * * **
56203 TTTCTCCGAAAA-ACTAAGTTTTCTATTCCATAATTATCTTCGGGGGGA-TTTTCTTTGATCTAA
1 TTT-TTC-AAAATACTAAGTTTTCTATTCCGTAATT-TTTTCGAGGGGATTTTTC-TTGGTTTTT
* *
56266 AATTTTTAAAATACATCTAATATT
62 AATTTTTAAAATTCATCAAATATT
56290 GTCATTGGTT
Statistics
Matches: 496, Mismatches: 64, Indels: 49
0.81 0.11 0.08
Matches are distributed among these distances:
164 13 0.03
165 169 0.34
166 250 0.50
167 18 0.04
168 1 0.00
169 1 0.00
170 38 0.08
171 6 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.50
Consensus pattern (163 bp):
TTTTTCAAAATACTAAGTTTTCTATTCCGTAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATT
TTTAAAATTCATCAAATATTATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAATTCATTT
TCATGAGTTTTGGATTTTTTCTTGAAATTTCCC
Found at i:56253 original size:331 final size:331
Alignment explanation
Indices: 55600--56289 Score: 770
Period size: 331 Copynumber: 2.1 Consensus size: 331
55590 TTGGTTTTTA
* * * ***
55600 TTTAATTTTTAAAATTCATCAAATATTTTTATTTATTTCATATTAATTCAATTTTCAAAAATTCT
1 TTTAATTTTTAAAATTCATCAAATATTATTATTTATCTCATATTAATTCAATTTTAAAAAATAAA
* * * * **
55665 TTTATTTTCATTAGTTTTTTAATTTTTTCCTTAAAATTCTTCTTTTTTCGAATACAGAGTTTCCT
66 TTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTCCTTTTTTAAAATACAGAGTTTCCT
* *
55730 ATTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAAGTCATCAAATATTAT
131 ATTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAAGTCATAAAAAATTAT
* * * *
55795 TATTTATCTTCTATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAGTTTTGGATTTTTTCC
196 CATTTATCTTCTATTAATTCAGTTTTAAAAAATAAATTCATTCTCAAGAGTTTTGAATTTTTTCC
** * * * ** *
55860 TTGAAATTTTCTTTTTTTCAAAATACGAAGTTTTCTACTCTGTGAATTTTTTCGAAGGGATTTTT
261 TTGAAATTCCCCTTTCTCCAAAATACGAAGTTTTCTACTCCATGAATTTCTTCGAAGGGATTTTT
55925 CTTGGT
326 CTTGGT
*
55931 TTTAATTTTTAAAAGTT-ATCAAATATTATTATTTATCTCATATTAATTCAGTTTTAAAAAATAA
1 TTTAATTTTTAAAA-TTCATCAAATATTATTATTTATCTCATATTAATTCAATTTTAAAAAATAA
* * * *
55995 ATTCATTTTCATGAG-TTTTGGATTTTTTTCTTGAAATT-TCCCTTTTTCTAAAATACGGTA-TT
65 ATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTCT-CCTTTTT-TAAAATACAG-AGTT
* * * * * * *
56057 TTCTACTTTCG-CAATTTTTTTGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATAAAAA
127 TCCTA-TTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAAGTCATAAAAA
*
56121 ATTATCGTTTAT-TTCATATTAATTCAGTTTTAAAAAATAAATTCATTCTCAAGAGTTTTGAATT
191 ATTATCATTTATCTTC-TATTAATTCAGTTTTAAAAAATAAATTCATTCTCAAGAGTTTTGAATT
* * * **
56185 TATTTCTTTGAAA-TCCCCTTTCTCCGAAAA-ACTAAGTTTTCTATTCCAT-AATTATCTTCGGG
255 T-TTTCCTTGAAATTCCCCTTTCTCC-AAAATACGAAGTTTTCTACTCCATGAATT-TCTTCGAA
*
56247 GGGA-TTTTCTTTGAT
317 GGGATTTTTC-TTGGT
** * *
56262 CTAAAATTTTTAAAATACATCTAATATT
1 -TTTAATTTTTAAAATTCATCAAATATT
56290 GTCATTGGTT
Statistics
Matches: 298, Mismatches: 49, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
329 1 0.00
330 37 0.12
331 218 0.73
332 42 0.14
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (331 bp):
TTTAATTTTTAAAATTCATCAAATATTATTATTTATCTCATATTAATTCAATTTTAAAAAATAAA
TTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTCTCCTTTTTTAAAATACAGAGTTTCCT
ATTCCGTAAATTTTTTCGAAGGGATTTTTCTTAGTTTTTAATTTTTAAAAGTCATAAAAAATTAT
CATTTATCTTCTATTAATTCAGTTTTAAAAAATAAATTCATTCTCAAGAGTTTTGAATTTTTTCC
TTGAAATTCCCCTTTCTCCAAAATACGAAGTTTTCTACTCCATGAATTTCTTCGAAGGGATTTTT
CTTGGT
Found at i:61730 original size:33 final size:32
Alignment explanation
Indices: 61693--61760 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
61683 TACCACTATT
* *
61693 TGTATTGATACATG-GCACATTGTATTGATACAA
1 TGTATCGATACATGAG-A-ATTGTATCGATACAA
61726 TGTATCGATACATGATGAATTGTATCGATACAA
1 TGTATCGATACATGA-GAATTGTATCGATACAA
61759 TG
1 TG
61761 CTTCAAACGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATACAA
Found at i:62765 original size:13 final size:13
Alignment explanation
Indices: 62747--62774 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62737 TATTATTTAA
62747 TGTATCGATACAT
1 TGTATCGATACAT
62760 TGTATCGATACAT
1 TGTATCGATACAT
62773 TG
1 TG
62775 ATCTTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:64980 original size:24 final size:26
Alignment explanation
Indices: 64953--65002 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64943 ATCAAAAATT
64953 TATTCAT-CGA-GGACACTCCAACCC
1 TATTCATCCGAGGGACACTCCAACCC
*
64977 TATTCCTCCGAGGGGACACTCCAACC
1 TATTCATCCGA-GGGACACTCCAACC
65003 TCGTTTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 3 0.14
27 13 0.59
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (26 bp):
TATTCATCCGAGGGACACTCCAACCC
Found at i:66937 original size:3 final size:3
Alignment explanation
Indices: 66929--66956 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
66919 AGACGATAAA
66929 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
66957 CTGACTCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:71523 original size:13 final size:13
Alignment explanation
Indices: 71505--71544 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
71495 ACAATATTCT
71505 TTGTATCGATACA
1 TTGTATCGATACA
*
71518 TTGTATTGATACA
1 TTGTATCGATACA
*
71531 ATGTATCGATACA
1 TTGTATCGATACA
71544 T
1 T
71545 GGGTTACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:73120 original size:17 final size:17
Alignment explanation
Indices: 73098--73134 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
73088 ACTTTGCTGC
73098 ACTTAACCGATGGATTG
1 ACTTAACCGATGGATTG
73115 ACTTAACCGATGGATTG
1 ACTTAACCGATGGATTG
73132 ACT
1 ACT
73135 CTCCAAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (17 bp):
ACTTAACCGATGGATTG
Found at i:73453 original size:30 final size:30
Alignment explanation
Indices: 73417--73476 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
73407 AAATAAATTT
*
73417 TTATCAAGGGGGTGAAAATCTTTTAAACGA
1 TTATCAAGGGGGAGAAAATCTTTTAAACGA
*
73447 TTATCAAGGGGGAGAAAATTTTTTAAACGA
1 TTATCAAGGGGGAGAAAATCTTTTAAACGA
73477 GAGCCTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TTATCAAGGGGGAGAAAATCTTTTAAACGA
Found at i:74051 original size:20 final size:19
Alignment explanation
Indices: 74028--74100 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
74018 CACACCCAGA
*
74028 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
74048 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
* *
74067 TGTATCGATACATGCATAAT
1 TGTATCGATACATG-TTCAT
74087 TGTATCGATACATG
1 TGTATCGATACATG
74101 AAACTGGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 16 0.33
20 31 0.65
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:82948 original size:58 final size:58
Alignment explanation
Indices: 82880--83157 Score: 364
Period size: 58 Copynumber: 5.0 Consensus size: 58
82870 TAAAAAAATT
* *
82880 AATTAAATTAGAATGACAATGCCTAGATGAAAACCTAAAAGGGCATTCAGGTAAAAAA
1 AATTAAATTAGAATGACAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAAA
*
82938 AATTAAATTAGAATGAAAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAAA
1 AATTAAATTAGAATGACAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAAA
* **
82996 AATTAAATTGGAATGACAATGCCTGGATGAAAACCCAAAAGGGTGTTCAGGT---AAA
1 AATTAAATTAGAATGACAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAAA
*
83051 AA--AAATTAGAATGACAATGCCTGGATGAAAACCCGAAAA-GGCGTTCAGGT---AAA
1 AATTAAATTAGAATGACAATGCCTGGATGAAAACCC-AAAAGGGCATTCAGGTAAAAAA
* * * *
83104 AA--AAA-TAGAATGACAATGCTTAGATGAAAACCCGAAGGGGCATTCAGGTAAAAA
1 AATTAAATTAGAATGACAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAA
83158 GTCGATCGAA
Statistics
Matches: 201, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.01
52 36 0.18
53 49 0.24
54 4 0.02
55 7 0.03
58 103 0.51
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (58 bp):
AATTAAATTAGAATGACAATGCCTGGATGAAAACCCAAAAGGGCATTCAGGTAAAAAA
Found at i:84155 original size:13 final size:13
Alignment explanation
Indices: 84137--84161 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84127 TAATTCATCA
84137 TGTATCGATACAT
1 TGTATCGATACAT
84150 TGTATCGATACA
1 TGTATCGATACA
84162 ATGTGTCATG
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:84175 original size:20 final size:20
Alignment explanation
Indices: 84150--84248 Score: 69
Period size: 20 Copynumber: 4.8 Consensus size: 20
84140 ATCGATACAT
84150 TGTATCGATACAATGTGTCA
1 TGTATCGATACAATGTGTCA
84170 TGTATCGATACAAATAGTGGT-A
1 TGTATCGATAC-AAT-GT-GTCA
* * * * * *
84192 GGGTAGCTACTGCCA-GTTTCA
1 -TGTATCGA-TACAATGTGTCA
84213 TGTATCGATACAAT-TGTGCA
1 TGTATCGATACAATGTGT-CA
84233 TGTATCGATACAATGT
1 TGTATCGATACAATGT
84249 ATCAATACAA
Statistics
Matches: 58, Mismatches: 12, Indels: 17
0.67 0.14 0.20
Matches are distributed among these distances:
19 5 0.09
20 33 0.57
21 7 0.12
22 3 0.05
23 8 0.14
24 2 0.03
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGTGTCA
Found at i:86008 original size:20 final size:22
Alignment explanation
Indices: 85969--86013 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
85959 ATAGTAGGTG
*
85969 TGGGAGCTGCCCGATTGCAACC
1 TGGGAGCTGCCCGATCGCAACC
85991 TGGGAG-TG-CCGATCGCAACC
1 TGGGAGCTGCCCGATCGCAACC
86011 TGG
1 TGG
86014 AGGTGGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.18, C:0.29, G:0.36, T:0.18
Consensus pattern (22 bp):
TGGGAGCTGCCCGATCGCAACC
Found at i:91019 original size:3 final size:3
Alignment explanation
Indices: 91011--91041 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
91001 TCCGAGTCAA
*
91011 CAT CAT CAT CAT CAT CAT CAT CTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
91042 TTTGATGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:92763 original size:13 final size:13
Alignment explanation
Indices: 92745--92771 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
92735 TATAATGAAT
92745 ATGTATCGATACA
1 ATGTATCGATACA
92758 ATGTATCGATACA
1 ATGTATCGATACA
92771 A
1 A
92772 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:93381 original size:14 final size:14
Alignment explanation
Indices: 93362--93389 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
93352 TCGTGTTTTA
93362 GTTTCTTCGAACAT
1 GTTTCTTCGAACAT
93376 GTTTCTTCGAACAT
1 GTTTCTTCGAACAT
93390 TCTTAGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.43
Consensus pattern (14 bp):
GTTTCTTCGAACAT
Found at i:93738 original size:78 final size:78
Alignment explanation
Indices: 93534--93772 Score: 262
Period size: 78 Copynumber: 3.1 Consensus size: 78
93524 TTCAGCCCGA
* * *
93534 CCACACATTCCTAATCATATCCTTCCTTCCCAAATACCAGATGATATGGGTGCATCCCAAGGCCA
1 CCACACATTCCTAATCATATCCTTCCTTCCCAAATACCAGATGATATTGGTGCATCACAAAGCCA
93599 AAAGGGGCACTTC
66 AAAGGGGCACTTC
* * * * * *
93612 CTATATATTCCTAATCATATCCTTCCTTACCAAATTCCAGATGATATTGGTGCATCATAAAGCCA
1 CCACACATTCCTAATCATATCCTTCCTTCCCAAATACCAGATGATATTGGTGCATCACAAAGCCA
*
93677 AATGGGGCACTTC
66 AAAGGGGCACTTC
* ** * * * * * * ***
93690 CCACACATTCCCAATCGCATCCCTCCTTCCCAAACACTAAATGGTATTGATGCATCACGTGGCCA
1 CCACACATTCCTAATCATATCCTTCCTTCCCAAATACCAGATGATATTGGTGCATCACAAAGCCA
* *
93755 TAAGGGGCACATC
66 AAAGGGGCACTTC
93768 CCACA
1 CCACA
93773 ACTTTTCATC
Statistics
Matches: 130, Mismatches: 31, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
78 130 1.00
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.25
Consensus pattern (78 bp):
CCACACATTCCTAATCATATCCTTCCTTCCCAAATACCAGATGATATTGGTGCATCACAAAGCCA
AAAGGGGCACTTC
Found at i:94404 original size:43 final size:43
Alignment explanation
Indices: 94264--94484 Score: 183
Period size: 43 Copynumber: 5.1 Consensus size: 43
94254 CTTTTATCTA
* * *
94264 CCCGTTGGCTTAGACTTGGGAGACTTCCTTTGTCAATCGTCTA
1 CCCGTCGGCTTAGACCTGGGAGACTTCCTTTGTCAATCGTCTG
* * * * * *
94307 CCCGTCGGCTCAGTCCCGAGAGATTTCCTTTGTCAATTGTCTG
1 CCCGTCGGCTTAGACCTGGGAGACTTCCTTTGTCAATCGTCTG
* * * * *
94350 CCTGTTGGCTTAGACCTGGGAGACTTCTTTTATCAATCATCTG
1 CCCGTCGGCTTAGACCTGGGAGACTTCCTTTGTCAATCGTCTG
* * * * * *
94393 CCCGTCAGCTTAGTCATAGGAGACTTCCTTTGTTAATTGTCTG
1 CCCGTCGGCTTAGACCTGGGAGACTTCCTTTGTCAATCGTCTG
** * * ** *
94436 CTTGTCAGCTCAGA-CTCAAGAGACTTCCTTAGTCAATCGTCTG
1 CCCGTCGGCTTAGACCT-GGGAGACTTCCTTTGTCAATCGTCTG
94479 CCCGTC
1 CCCGTC
94485 AGCTAAAACT
Statistics
Matches: 135, Mismatches: 42, Indels: 2
0.75 0.23 0.01
Matches are distributed among these distances:
42 1 0.01
43 134 0.99
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (43 bp):
CCCGTCGGCTTAGACCTGGGAGACTTCCTTTGTCAATCGTCTG
Found at i:94421 original size:86 final size:85
Alignment explanation
Indices: 94267--94488 Score: 232
Period size: 86 Copynumber: 2.6 Consensus size: 85
94257 TTATCTACCC
* * * * * *
94267 GTTGGCTTAGACTTGGGAGACTTCCTTTGTCAATCGTCTACCCGTCGGCTCAGTCCCGAGAGATT
1 GTTGGCTTAGACCTGGGAGACTT-CTTTATCAATCGTCTGCCCGTCAGCTCAGTCCAGAGAGACT
94332 TCCTTTGTCAATTGTCTGCCT
65 TCCTTTGTCAATTGTCTGCCT
* * *
94353 GTTGGCTTAGACCTGGGAGACTTCTTTTATCAATCATCTGCCCGTCAGCTTAGT-CATAGGAGAC
1 GTTGGCTTAGACCTGGGAGACTTC-TTTATCAATCGTCTGCCCGTCAGCTCAGTCCAGA-GAGAC
* *
94417 TTCCTTTGTTAATTGTCTGCTT
64 TTCCTTTGTCAATTGTCTGCCT
** * ** *
94439 GTCAGCTCAGA-CTCAAGAGACTTCCTTAGTCAATCGTCTGCCCGTCAGCT
1 GTTGGCTTAGACCT-GGGAGACTTCTTTA-TCAATCGTCTGCCCGTCAGCT
94489 AAAACTCGTG
Statistics
Matches: 114, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
85 8 0.07
86 106 0.93
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (85 bp):
GTTGGCTTAGACCTGGGAGACTTCTTTATCAATCGTCTGCCCGTCAGCTCAGTCCAGAGAGACTT
CCTTTGTCAATTGTCTGCCT
Found at i:94612 original size:85 final size:84
Alignment explanation
Indices: 94454--94716 Score: 269
Period size: 85 Copynumber: 3.1 Consensus size: 84
94444 CTCAGACTCA
* * * * * * *
94454 AGAGACTTCCTTAGTCAATCGTCTGCCCGTCAGCTAAAACTCGTGAGACTTTTCCATTACTTATC
1 AGAGACTTCCTTA-TCAATCGTCTACCCGTCGGCTTAGACTCGAGAGACTTTTCCATCACTTGTC
* * *
94519 TACTCATCGGCTTAGACTTG
65 TACCCATCGACTTAGACCTG
* *
94539 AGAGATTTCCTTCATCAATCGTCTACCCGTTGGCTTAGACTCGAGAGACTTTTCCATCACTTGTC
1 AGAGACTTCCTT-ATCAATCGTCTACCCGTCGGCTTAGACTCGAGAGACTTTTCCATCACTTGTC
* * * **
94604 TGCCCATCGACTCAAACCCA
65 TACCCATCGACTTAGACCTG
* * * * *
94624 AAAGACTTCCTTTGTCAATCGTCTACCCGTCGACTTAGACTCGAGAAACTTCTT-CATC-TTTCG
1 AGAGACTTCC-TTATCAATCGTCTACCCGTCGGCTTAGACTCGAGAGACTT-TTCCATCACTT-G
94687 TCTACCCATCGACTTAGACCTG
63 TCTACCCATCGACTTAGACCTG
94709 AGAGACTT
1 AGAGACTT
94717 TTCCATCATT
Statistics
Matches: 144, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
84 2 0.01
85 137 0.95
86 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (84 bp):
AGAGACTTCCTTATCAATCGTCTACCCGTCGGCTTAGACTCGAGAGACTTTTCCATCACTTGTCT
ACCCATCGACTTAGACCTG
Found at i:94675 original size:43 final size:43
Alignment explanation
Indices: 94260--94716 Score: 182
Period size: 43 Copynumber: 10.7 Consensus size: 43
94250 TCGCCTTTTA
* * * *
94260 TCTACCCGTTGGCTTAGACTTGGGAGACTTCCTTTGTCAATCG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
* * * * * *
94303 TCTACCCGTCGGCTCAGTCCCGAGAGATTTCCTTTGTCAATTG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
* * * * * * * *
94346 TCTGCCTGTTGGCTTAGAC-CTGGGAGACTTCTTTTATCAATCA
1 TCTACCCGTCGACTTAGACTC-GAGAGACTTCCTTTGTCAATCG
* * * * *
94389 TCTGCCCGTC-AGCTTAGTCATAG-GAGACTTCCTTTGTTAATTG
1 TCTACCCGTCGA-CTTAGAC-TCGAGAGACTTCCTTTGTCAATCG
* ** * * *
94432 TCTGCTTGTC-AGCTCAGACTCAAGAGACTTCCTTAGTCAATCG
1 TCTACCCGTCGA-CTTAGACTCGAGAGACTTCCTTTGTCAATCG
* * * * * * **
94475 TCTGCCCGTC-AGCTAAAACTCGTGAGACTTTTCC-AT-T-ACTTA
1 TCTACCCGTCGA-CTTAGACTCGAGAGAC--TTCCTTTGTCAATCG
* * * * * **
94517 TCTACTCATCGGCTTAGACTTGAGAGATTTCCTTCATCAATCG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
* * ** * *
94560 TCTACCCGTTGGCTTAGACTCGAGAGACTT--TTCCATCACTTG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTT-TGTCAATCG
* * * * * * *
94602 TCTGCCCATCGACTCAAACCCAAAAGACTTCCTTTGTCAATCG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
* ** **
94645 TCTACCCGTCGACTTAGACTCGAGAAACTT-CTTCATCTTTCG
1 TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
*
94687 TCTACCCATCGACTTAGAC-CTGAGAGACTT
1 TCTACCCGTCGACTTAGACTC-GAGAGACTT
94717 TTCCATCATT
Statistics
Matches: 302, Mismatches: 97, Indels: 31
0.70 0.23 0.07
Matches are distributed among these distances:
40 4 0.01
41 3 0.01
42 85 0.28
43 203 0.67
44 3 0.01
45 4 0.01
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (43 bp):
TCTACCCGTCGACTTAGACTCGAGAGACTTCCTTTGTCAATCG
Found at i:96532 original size:165 final size:165
Alignment explanation
Indices: 95705--96567 Score: 812
Period size: 166 Copynumber: 5.2 Consensus size: 165
95695 AATCATTTTT
* * * * ** * *
95705 TTTATTTTGATTAGTTTTTGAATTTTTCATTAAAATTCTCCTTTTTCCGAAATACAGAGTTTTCT
1 TTTATTTTCATGAGTTTTTGATTTTTTCCTTAAAATT-TTTTTTTTTCGAAATACGGAGTTTTCT
* * ** * *
95770 ACTCCGTAAATTTTCTCGAGGGGATTTTTCTTCATTTTTTTAATTTTAAAAATTCATTAAATATT
65 ACTCCGTGAATTTTTTCGAGGGGATTTTTCTT--GGTTTTTAATTTTTAAAATTCATCAAATA-T
** ***
95835 C-TTATTTATTTCATATTAATTCAGTTTT--TGAATTTT
127 CATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
* * * * * *
95871 TTTATTTTCATTAGTTTTTTAATTTTTTTCTTAAAATTTATCTTTTTTCAAAATACGAAGTTTTC
1 TTTATTTTCATGAG-TTTTTGATTTTTTCCTTAAAATTT-TTTTTTTTCGAAATACGGAGTTTTC
* * *
95936 TACTCCGTGAATTTTTTCGAGGGGATTTATCTTGGTTTTGAATTTTT-AAATTCATTAAATATTC
64 TACTCCGTGAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATA-TC
* * ***
96000 -TTATTTATTTTATATTAATTCAGTTTT-CAAAATTTT
128 ATTATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
* ** * * *
96036 TTTATTGTCATTCGTTTTTTAATTTTTCCTTAAAATTCTTTTTTTTCGAAATA-GGAGTTTTCTA
1 TTTATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTTTTTTTTTCGAAATACGGAGTTTTCTA
** * * ** * * *
96100 CTTTGTGAAATTTTTCGAGAGGATTTTTCTTTTTTTTTAATTTTTAAAAATCATAAAATATTATT
66 CTCCGTGAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATT
* * *
96165 ATTTATCTCATATTAATTTATTTTTAAAAAATAAA
131 ATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
* ** * * *
96200 TTTATTTTCATGAGTTTTAGATTTTTTCAATGAAATTTTCTTTTTTCTGAAATACAGAGTTTTCT
1 TTTATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTTTTTTTTTC-GAAATACGGAGTTTTCT
* * * * * *
96265 ACAT-CTTGAATTTTTTTGTGGGGATTTTTCTTGGTTTTTAATTTGTAAAAGTCATCAAATATTA
65 AC-TCCGTGAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCA
* * * *
96329 TTTTTTATCTCATATTAATTCATTTTTAGAAAATAAA
129 TTATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
* * * *
96366 TTCATTTTCATGAGTTTTGGATTTTTTCCTTAAAATTTTTGTTTTTTTGAAATACGGTGTTTTCT
1 TTTATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTTT-TTTTTTCGAAATACGGAGTTTTCT
* * * * *
96431 ACTCCGT-AATTTTTTTGAGAGGATTTTTCTTGGTTTTGAATTTTTAGAATTCATCAAACATCAT
65 ACTCCGTGAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCAT
*
96495 CATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
130 TATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
* * *
96531 TTCT-TTGTCATGA-ATTTTGAATTTTTTTCCTTGAAAT
1 TT-TATTTTCATGAGTTTTTG-A-TTTTTTCCTTAAAAT
96568 CCCTTTCTTC
Statistics
Matches: 581, Mismatches: 102, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
162 48 0.08
163 48 0.08
164 108 0.19
165 126 0.22
166 175 0.30
167 76 0.13
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.54
Consensus pattern (165 bp):
TTTATTTTCATGAGTTTTTGATTTTTTCCTTAAAATTTTTTTTTTTCGAAATACGGAGTTTTCTA
CTCCGTGAATTTTTTCGAGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCAAATATCATT
ATTTATTTCATATTAATTCAGTTTTAAAAAATAAA
Found at i:96640 original size:165 final size:164
Alignment explanation
Indices: 95720--96650 Score: 480
Period size: 165 Copynumber: 5.6 Consensus size: 164
95710 TTTGATTAGT
* * *
95720 TTTTGAA-TTTTTCATTAAAATTCTCCTTT-TTCCGAAATACAGAGTTTTCTACTCCGTAAATTT
1 TTTTGAATTTTTTCCTTAAAATTC-CCTTTCTT-CGAAATACGGAGTTTTCTACTCCAT-AATTT
* * * * ** * * * * * *
95783 TCTCGAGGGGATTTTTCTTCATTTTTTTAATTTTAAAAATTCATTAAATATTC-TTATTTATTTC
63 TTTCGAGAGAATTTTTCTTC--GTTTAAAATTTTTAAAATGCATCAAACA-TCATCATTTATCTC
** *** * * *
95847 ATATTAATTCAGTTTT--TGAATTTTTTTATTTTCATTAGT
125 ATATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGA-A
* * ** * * * *
95886 TTTTTAATTTTTTTCTTAAAATTTATCTTTTTTCAAAATACGAAGTTTTCTACTCCGTGAATTTT
1 TTTTGAATTTTTTCCTTAAAA-TTCCCTTTCTTCGAAATACGGAGTTTTCTACTCCAT-AATTTT
* * * * ** * * * * * *
95951 TTCGAGGGGATTTATCTTGGTTTTGAATTTTT-AAATTCATTAAATATTC-TTATTTATTTTATA
64 TTCGAGAGAATTTTTCTTCGTTTAAAATTTTTAAAATGCATCAAACA-TCATCATTTATCTCATA
* *** * * *
96014 TTAATTCAGTTTT-CAAAATTTTTTTATTGTCATTCG-T
128 TTAATTCAGTTTTAAAAAATAAATTCATTTTCA-T-GAA
* ** * *** *
96051 TTTTTAA-TTTTTCCTTAAAATTCTTTTTTTTCGAAATA-GGAGTTTTCTACTTTGTGAAATTTT
1 TTTTGAATTTTTTCCTTAAAATTCCCTTTCTTCGAAATACGGAGTTTTCTACTCCAT-AATTTTT
* ** ** * * * *
96114 TCGAGAGGATTTTTCTTTTTTTTTAATTTTTAAAAAT-CATAAAATATTATTATTTATCTCATAT
65 TCGAGAGAATTTTTCTTCGTTTAAAATTTTT-AAAATGCATCAAACATCATCATTTATCTCATAT
* * * *
96178 TAATTTATTTTTAAAAAATAAATTTATTTTCATGAG
129 TAATTCAGTTTTAAAAAATAAATTCATTTTCATGAA
** * ** * * *
96214 TTTT-AGATTTTTTCAATGAAATTTTCTTTTTTCTGAAATACAGAGTTTTCTACAT-CTTGAATT
1 TTTTGA-ATTTTTTCCTTAAAATTCCCTTTCTTC-GAAATACGGAGTTTTCTAC-TCCAT-AATT
* * * * * ** * * * **
96277 TTTTTGTGGGGATTTTTCTTGGTTTTTAATTTGTAAAA-GTCATCAAATATTATTTTTTATCTCA
62 TTTTCGAGAGAATTTTTCTTCGTTTAAAATTTTTAAAATG-CATCAAACATCATCATTTATCTCA
* * *
96341 TATTAATTCATTTTTAGAAAATAAATTCATTTTCATGAG
126 TATTAATTCAGTTTTAAAAAATAAATTCATTTTCATGAA
* *** * * * *
96380 TTTTGGATTTTTTCCTTAAAATTTTTGTTTTTTTGAAATACGGTGTTTTCTACTCCGTAATTTTT
1 TTTTGAATTTTTTCCTTAAAA-TTCCCTTTCTTCGAAATACGGAGTTTTCTACTCCATAATTTTT
* * * ** * * *
96445 TTGAGAGGATTTTTCTTGGTTTTGAATTTTTAGAATTCATCAAACATCATCATTTATTTCATATT
65 TCGAGAGAATTTTTCTTCGTTTAAAATTTTTAAAATGCATCAAACATCATCATTTATCTCATATT
96510 AATTCAGTTTTAAAAAATAAATTC-TTTGTCATGAA
130 AATTCAGTTTTAAAAAATAAATTCATTT-TCATGAA
*
96545 TTTTGAATTTTTTTCCTTGAAA-TCCCTTTCTTCGAAA-A-GTCGAGTTTTCTACTCCATAATTA
1 TTTTGAA-TTTTTTCCTTAAAATTCCCTTTCTTCGAAATACG--GAGTTTTCTACTCCATAATT-
*
96607 TTTTCGGGAGAA-TTTTCTTTCGTTTAAAATTTTTAAAATGCATC
62 TTTTCGAGAGAATTTTTC-TTCGTTTAAAATTTTTAAAATGCATC
96651 TAATATTTTC
Statistics
Matches: 632, Mismatches: 105, Indels: 57
0.80 0.13 0.07
Matches are distributed among these distances:
162 51 0.08
163 53 0.08
164 129 0.20
165 168 0.27
166 157 0.25
167 70 0.11
168 4 0.01
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (164 bp):
TTTTGAATTTTTTCCTTAAAATTCCCTTTCTTCGAAATACGGAGTTTTCTACTCCATAATTTTTT
CGAGAGAATTTTTCTTCGTTTAAAATTTTTAAAATGCATCAAACATCATCATTTATCTCATATTA
ATTCAGTTTTAAAAAATAAATTCATTTTCATGAA
Found at i:97247 original size:13 final size:12
Alignment explanation
Indices: 97231--97270 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
97221 AAGGAGAGAA
97231 AGAAGAAAAAAAT
1 AGAAG-AAAAAAT
*
97244 AGAAGAAAATAT
1 AGAAGAAAAAAT
97256 AG-AGAAAAAAT
1 AGAAGAAAAAAT
97267 AGAA
1 AGAA
97271 AAGCTAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 9 0.38
13 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (12 bp):
AGAAGAAAAAAT
Found at i:98526 original size:13 final size:13
Alignment explanation
Indices: 98508--98536 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
98498 TTTGAGGCAA
98508 TGTATCGATACAT
1 TGTATCGATACAT
98521 TGTATCGATACAT
1 TGTATCGATACAT
98534 TGT
1 TGT
98537 GCCATGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98615 original size:20 final size:20
Alignment explanation
Indices: 98580--98636 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
98570 TATTGCCAAT
* *
98580 TTCATGTATTGGTACATTTG
1 TTCATGTATCGATACATTTG
*
98600 TTCATGTATCGATACA-ATG
1 TTCATGTATCGATACATTTG
**
98619 AACATGTATCGATACATT
1 TTCATGTATCGATACATT
98637 GTATTGATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
TTCATGTATCGATACATTTG
Found at i:106477 original size:19 final size:19
Alignment explanation
Indices: 106433--106488 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
106423 CTGCCAGTTT
*
106433 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
106453 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
106472 CATGTATCGATACAATG
1 CATGTATCGATACAATG
106489 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:106491 original size:13 final size:13
Alignment explanation
Indices: 106473--106499 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
106463 TACAATGAGC
106473 ATGTATCGATACA
1 ATGTATCGATACA
106486 ATGTATCGATACA
1 ATGTATCGATACA
106499 A
1 A
106500 AGCGAGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:106873 original size:33 final size:33
Alignment explanation
Indices: 106836--106899 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
106826 GAGAACTAAA
* *
106836 GTGCTCATCCATGCGCTGTGAGAGTGAAGTGAC
1 GTGCTCATCCATGCGCTGCGAAAGTGAAGTGAC
* *
106869 GTGCTCATTCATGTGCTGCGAAAGTGAAGTG
1 GTGCTCATCCATGCGCTGCGAAAGTGAAGTG
106900 GTCAACTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.27
Consensus pattern (33 bp):
GTGCTCATCCATGCGCTGCGAAAGTGAAGTGAC
Found at i:114488 original size:19 final size:20
Alignment explanation
Indices: 114451--114488 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
114441 TCCCGTTGCT
114451 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
114471 ATGTATCGATAC-ATTCAT
1 ATGTATCGATACAATTCAT
114489 TTGAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:118096 original size:23 final size:24
Alignment explanation
Indices: 118064--118139 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
118054 TATTAATAGT
*
118064 TAATTATAGTAA-AAAATATTAAG
1 TAATTTTAGTAATAAAATATTAAG
* *
118087 TAATTTTAGTAATAAAA-AATATG
1 TAATTTTAGTAATAAAATATTAAG
* * *
118110 ATATTTTTTGTAATAAAATATTAAT
1 -TAATTTTAGTAATAAAATATTAAG
118135 TAATT
1 TAATT
118140 ATGTTAACAA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
23 15 0.37
24 23 0.56
25 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
TAATTTTAGTAATAAAATATTAAG
Found at i:118234 original size:17 final size:17
Alignment explanation
Indices: 118212--118255 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
118202 AAATTTTTGA
118212 ATTTTTATTAAATTAAT
1 ATTTTTATTAAATTAAT
* *
118229 ATTTTTATTAATTTATT
1 ATTTTTATTAAATTAAT
118246 ATTTATTATT
1 ATTT-TTATT
118256 GTTAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTATTAAATTAAT
Found at i:129735 original size:21 final size:22
Alignment explanation
Indices: 129695--129735 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
129685 ATCTTGCTCA
129695 AGCAAATATAAATAAGATATTT
1 AGCAAATATAAATAAGATATTT
* *
129717 AGCAATTATATAT-AGATAT
1 AGCAAATATAAATAAGATAT
129736 ATACATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (22 bp):
AGCAAATATAAATAAGATATTT
Found at i:133358 original size:20 final size:21
Alignment explanation
Indices: 133322--133360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
133312 CTGGACATGT
133322 TAAAATACATAGAACATGGCA
1 TAAAATACATAGAACATGGCA
*
133343 TAAAATGCAT-GAACATGG
1 TAAAATACATAGAACATGG
133361 GCTGTTAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (21 bp):
TAAAATACATAGAACATGGCA
Found at i:134810 original size:13 final size:13
Alignment explanation
Indices: 134792--134816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134782 AATTTTTTGC
134792 GTATCGATACATT
1 GTATCGATACATT
134805 GTATCGATACAT
1 GTATCGATACAT
134817 ACTTGCTGTA
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):
GTATCGATACATT
Found at i:135580 original size:21 final size:20
Alignment explanation
Indices: 135538--135576 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
135528 TATTAATAAA
135538 TCTCCCCCTTAATCAAGTAT
1 TCTCCCCCTTAATCAAGTAT
135558 TCTCCCCCTTAATCAAGTA
1 TCTCCCCCTTAATCAAGTA
135577 ATTCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (20 bp):
TCTCCCCCTTAATCAAGTAT
Found at i:137405 original size:13 final size:13
Alignment explanation
Indices: 137387--137412 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
137377 ATAATCACCC
137387 TGTATCGATACAA
1 TGTATCGATACAA
137400 TGTATCGATACAA
1 TGTATCGATACAA
137413 AGAAAAATGT
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):
TGTATCGATACAA
Found at i:137423 original size:20 final size:20
Alignment explanation
Indices: 137398--137476 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
137388 GTATCGATAC
137398 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
137418 AATGTATCGATACATTGAAA
1 AATGTATCGATACAAAGAAA
*
137438 TTCCAGATGTATCGATACACAGAAA
1 ----A-ATGTATCGATACAAAGAAA
*
137463 CATGTATCGATACA
1 AATGTATCGATACA
137477 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:139512 original size:15 final size:15
Alignment explanation
Indices: 139492--139522 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
139482 ATTTCGTTTG
*
139492 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
139507 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
139522 G
1 G
139523 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:141355 original size:21 final size:21
Alignment explanation
Indices: 141326--141370 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
141316 AAGTTTTCAT
*
141326 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
141346 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
141368 TTT
1 TTT
141371 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:143608 original size:13 final size:13
Alignment explanation
Indices: 143590--143615 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
143580 CAATTTTTTG
143590 TGTATCGATACAT
1 TGTATCGATACAT
143603 TGTATCGATACAT
1 TGTATCGATACAT
143616 ACTTGCTGTA
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:145146 original size:2 final size:2
Alignment explanation
Indices: 145141--145176 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
145131 TCAAAAAATA
*
145141 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145177 CATGATAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:146023 original size:25 final size:25
Alignment explanation
Indices: 145948--146024 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 25
145938 TTCATAACTC
*
145948 TAATTCTTAATCAAAATAAAATCATAG
1 TAATT-TT-ATCAAAATAAAATTATAG
*
145975 TAATTTTATTCAAATAGAATAATTAT-G
1 TAATTTTA-TCAAA-ATAA-AATTATAG
*
146002 TACTTATTATCAAAATAAAATTA
1 TAATT-TTATCAAAATAAAATTA
146025 ACTATAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
25 6 0.14
26 10 0.24
27 18 0.43
28 8 0.19
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (25 bp):
TAATTTTATCAAAATAAAATTATAG
Found at i:148583 original size:24 final size:20
Alignment explanation
Indices: 148541--148580 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
148531 TTCTCCCAAA
148541 AAGCAATGAAAACCATTCTT
1 AAGCAATGAAAACCATTCTT
148561 AAGCAATGAAAACCATTCTT
1 AAGCAATGAAAACCATTCTT
148581 TCTTTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (20 bp):
AAGCAATGAAAACCATTCTT
Found at i:151099 original size:23 final size:23
Alignment explanation
Indices: 151073--151149 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
151063 CTTTTTTTGT
151073 TTTAATTTGGCTTTTAGTTTAGA
1 TTTAATTTGGCTTTTAGTTTAGA
* * *
151096 TTTAAATGGGCTTTTAGTATAGA
1 TTTAATTTGGCTTTTAGTTTAGA
* * * *
151119 TTTAA-ATGGGTTTAAGTTTAAA
1 TTTAATTTGGCTTTTAGTTTAGA
151141 TTTATATTT
1 TTTA-ATTT
151150 TATTAAATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
22 15 0.36
23 26 0.62
24 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.52
Consensus pattern (23 bp):
TTTAATTTGGCTTTTAGTTTAGA
Found at i:152036 original size:21 final size:21
Alignment explanation
Indices: 151988--152026 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
151978 TAATTCCCAT
151988 AAATAA-TATTTAATAAAACA
1 AAATAATTATTTAATAAAACA
*
152008 AAATAATTATTTCATAAAA
1 AAATAATTATTTAATAAAA
152027 AAACTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAATTATTTAATAAAACA
Found at i:152970 original size:157 final size:156
Alignment explanation
Indices: 152552--153032 Score: 479
Period size: 157 Copynumber: 3.1 Consensus size: 156
152542 GCTAAAAGAC
* * * * * * * *
152552 CTAAAGATGATCATGAATGGGATGAACATATCCGAAATGCATACTTTGGGCATAAAAACATCCTG
1 CTAAA-ATGATCATAAATGGGATGAACCTATCCTAAATGCACACCTTGGACATAAAAGCATCCTA
* * * *
152617 GTGATAACCTAGGACTCAGTTCTAGGAAAAATTA-TAAAAATACCCTGGGGATATACCTTTGACA
65 GTGATAACCTAGGACTCAATTCTAAGAAAAATTACTAAAAATACACT--AGATATACCTTTGACA
* * *
152681 TTAAATTAACTCGATAACCCTAATGGACA
128 TGAAAATATCTCGATAACCCTAATGGACA
* * *
152710 CTAACATGATTATAAATGGGATGAACCTATCCTAAATGCACACCTTTTGGA-ATAAAAGTATCC-
1 CTAAAATGATCATAAATGGGATGAACCTATCCTAAATGCACACC--TTGGACATAAAAGCATCCT
* * * * * * *
152773 CGATGATAATCTAAGACTCGATTCT-AGAAAAATTAC-AAAAATATCTCTAGATTATACTTTTAA
64 AG-TGATAACCTAGGACTCAATTCTAAGAAAAATTACTAAAAATA-CACTAGA-TATACCTTTGA
* * *
152836 CATGAAAGTATCCCGAAAACCCTAATGGACA
126 CATGAAAATATCTCGATAACCCTAATGGACA
* * * *
152867 CTAAAATGATCATAAATAGGATGAACCTATCTTAAATGCGCACCTTCGACATAAAAGCATCCTAG
1 CTAAAATGATCATAAATGGGATGAACCTATCCTAAATGCACACCTTGGACATAAAAGCATCCTAG
* * ** * *
152932 TGATAACCTAGGACTCAATTCTAAG-AAGACTACTAAAAAGCCACTAGCGTACACCTTTGACATG
66 TGATAACCTAGGACTCAATTCTAAGAAAAATTACTAAAAATACACTAG-ATATACCTTTGACATG
*
152996 AAAATATCTCGATAACCTTAATGGACA
130 AAAATATCTCGATAACCCTAATGGACA
*
153023 ATAAAATGAT
1 CTAAAATGAT
153033 AAATAAAAGG
Statistics
Matches: 262, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
155 4 0.02
156 87 0.33
157 132 0.50
158 35 0.13
159 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (156 bp):
CTAAAATGATCATAAATGGGATGAACCTATCCTAAATGCACACCTTGGACATAAAAGCATCCTAG
TGATAACCTAGGACTCAATTCTAAGAAAAATTACTAAAAATACACTAGATATACCTTTGACATGA
AAATATCTCGATAACCCTAATGGACA
Found at i:154744 original size:27 final size:26
Alignment explanation
Indices: 154703--154763 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
154693 CCATTTCTAG
* *
154703 ATTTTTTTTTTATTTTTATTTT-ATTA
1 ATTTTTTTTTGA-TTTGATTTTAATTA
*
154729 CTTTTTTATTTGATTTGATTTTAATTA
1 ATTTTTT-TTTGATTTGATTTTAATTA
154756 ATTTTTTT
1 ATTTTTTT
154764 GTCTTATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (26 bp):
ATTTTTTTTTGATTTGATTTTAATTA
Found at i:155258 original size:153 final size:153
Alignment explanation
Indices: 155101--155478 Score: 433
Period size: 152 Copynumber: 2.5 Consensus size: 153
155091 ATTTAATGGA
* * *
155101 AATATGT-AATGAATTTTAAAAATTATAAACTTAGAAAAATCCTACCAAAAATTTTACGGAATAG
1 AATATGTGAA-GAATTTTAGAAATTATAAATTTAGAAAAATCCTACCAAAAA-TTTACGGAGTAG
* * **
155165 AAAACTCT-ATGTTTTGAAAACAGGAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTTAAA
64 AAAACTCTCATATTTCGAAAACAAAAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTTAAA
*
155229 ACCGATTTAACACAAATTAAACAAC
129 AACGATTTAACACAAATTAAACAAC
* * * * * *
155254 AATATTTGAAGAATTTTGGAAATCATAAATTTAGAAAAATCCTTTCCAAAAAAATTAC--AGTAC
1 AATATGTGAAGAATTTTAGAAATTATAAATTTAGAAAAATCC-TACC-AAAAATTTACGGAGTAG
** * *
155317 AAAACT-TCATATTTCGGTAACAAAAAAAATTCTAAAACTCATTAAATGAATTGAATTTTTTAAA
64 AAAACTCTCATATTTCGAAAACAAAAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTTAAA
* * * *
155381 AATGATTTAATATAAATTAAACAAT
129 AACGATTTAACACAAATTAAACAAC
* * * *
155406 AATATGTGAAAAATTTTAGAAATTATAAATTTAGAAAAATCTTATCAGAGAAATTTATGGAGTAG
1 AATATGTGAAGAATTTTAGAAATTATAAATTTAGAAAAATCCTACCA-A-AAATTTACGGAGTAG
155471 AAAACTCT
64 AAAACTCT
155479 GTATTTTAAA
Statistics
Matches: 184, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
150 1 0.01
151 4 0.02
152 120 0.65
153 34 0.18
154 19 0.10
155 6 0.03
ACGTcount: A:0.49, C:0.10, G:0.09, T:0.32
Consensus pattern (153 bp):
AATATGTGAAGAATTTTAGAAATTATAAATTTAGAAAAATCCTACCAAAAATTTACGGAGTAGAA
AACTCTCATATTTCGAAAACAAAAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTTAAAAA
CGATTTAACACAAATTAAACAAC
Found at i:156672 original size:22 final size:22
Alignment explanation
Indices: 156642--156683 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
156632 TAAAACAATA
*
156642 TTTGCCGCTTCTAATTCTTAAG
1 TTTGCCGCTTCCAATTCTTAAG
*
156664 TTTGTCGCTTCCAATTCTTA
1 TTTGCCGCTTCCAATTCTTA
156684 CATTTTGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.12, T:0.48
Consensus pattern (22 bp):
TTTGCCGCTTCCAATTCTTAAG
Found at i:157546 original size:19 final size:19
Alignment explanation
Indices: 157500--157556 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
157490 ACTACCAGTT
*
157500 TCATGTATCGATACAATTA
1 TCATGTATCGATACAATGA
*
157519 TGTATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
157539 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
157557 TATCGATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:157559 original size:13 final size:13
Alignment explanation
Indices: 157541--157567 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
157531 TACAATGATC
157541 ATGTATCGATACA
1 ATGTATCGATACA
157554 ATGTATCGATACA
1 ATGTATCGATACA
157567 A
1 A
157568 AGCATGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:157583 original size:33 final size:32
Alignment explanation
Indices: 157522--157586 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
157512 ACAATTATGT
*
157522 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATCATGTATCGATACA
*
157554 ATGTATCGATACAAAGCATGATGTATCGATACA
1 ATGTATCGATACAAAG-ATCATGTATCGATACA
157587 TCTAGATATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATCATGTATCGATACA
Found at i:164486 original size:29 final size:29
Alignment explanation
Indices: 164453--164514 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
164443 TCTTCTTTAA
*
164453 GTTTGGACAATAGAACTTTATATGCCCCG
1 GTTTGGACAATAAAACTTTATATGCCCCG
164482 GTTTGGACAATAAAACTTTATATGCCCCG
1 GTTTGGACAATAAAACTTTATATGCCCCG
164511 GTTT
1 GTTT
164515 CTTACAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (29 bp):
GTTTGGACAATAAAACTTTATATGCCCCG
Found at i:166904 original size:3 final size:3
Alignment explanation
Indices: 166890--166934 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
166880 GTTAGTATTT
*
166890 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
166935 ATAAATAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:166939 original size:4 final size:4
Alignment explanation
Indices: 166930--166961 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
166920 ATATAATAAT
166930 AATA AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA
166962 TTTGTCGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:174484 original size:19 final size:19
Alignment explanation
Indices: 174460--174557 Score: 103
Period size: 19 Copynumber: 5.8 Consensus size: 19
174450 TTTCAACGAT
*
174460 TTGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
174479 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
174493 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
174511 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
174525 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
174543 TTGTATCGATACATA
1 TTGTATCGATACATA
174558 TGAAGCTACT
Statistics
Matches: 66, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 36 0.55
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:174497 original size:32 final size:32
Alignment explanation
Indices: 174461--174555 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
174451 TTCAACGATT
*
174461 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
174493 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
174525 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
174556 TATGAAGCTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:174498 original size:13 final size:13
Alignment explanation
Indices: 174480--174536 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
174470 ACATAAGTGT
174480 TGTATCGATACAA
1 TGTATCGATACAA
174493 TGTATCGATACATAA
1 TGTATCGATAC--AA
174508 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
174525 TGTATCGATACA
1 TGTATCGATACA
174537 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:174616 original size:13 final size:13
Alignment explanation
Indices: 174598--174622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174588 CATTACTCAA
174598 TGTATCGATACAT
1 TGTATCGATACAT
174611 TGTATCGATACA
1 TGTATCGATACA
174623 CTGATCTTTG
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:174758 original size:52 final size:52
Alignment explanation
Indices: 174631--174759 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
174621 CACTGATCTT
*
174631 TGTATCGATACACGCAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
** *
174683 TGTATCGATACATATAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
* *
174735 TGTATCGATACATGCAAGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
174760 TCATATTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
Found at i:181718 original size:12 final size:12
Alignment explanation
Indices: 181703--181728 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
181693 AGTCAAAATT
181703 AAACACAAAAAA
1 AAACACAAAAAA
181715 AAACACAAAAAA
1 AAACACAAAAAA
181727 AA
1 AA
181729 GTGCAAAGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAACACAAAAAA
Found at i:183179 original size:92 final size:89
Alignment explanation
Indices: 183022--183232 Score: 284
Period size: 92 Copynumber: 2.3 Consensus size: 89
183012 ATACCTTCTC
*
183022 AAAAGTCCACGATTCAGTGGCAT-CTCTTTCCAAAGTCCACGACTCAGTGGCATTTTGTCCTAAA
1 AAAAGTCCACGACTCAGTGGCATCCT-TTTCCAAAGTCCACGACTCAGTGGCATTTTGTCCTAAA
*
183086 GTCCATGACTCAGTGGCATTTTGTCCT
65 GTCCACGACTCAGT-GCATTTT-TCCT
183113 -AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGT-CTCA
1 AAAAGTCCACGACTCAGTGGCATCCTTTTC--CAAAGTCCACGACTCAGTGGCATTTTGTCCT-A
**
183176 AAGTCCACGACTCAGTGCATTTTTTTT
63 AAGTCCACGACTCAGTGCATTTTTCCT
* *
183203 ACAAAGTCCACGACTCCGTGGCACCCTTTT
1 A-AAAGTCCACGACTCAGTGGCATCCTTTT
183233 AAGCCCACAA
Statistics
Matches: 108, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
90 27 0.25
91 11 0.10
92 70 0.65
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (89 bp):
AAAAGTCCACGACTCAGTGGCATCCTTTTCCAAAGTCCACGACTCAGTGGCATTTTGTCCTAAAG
TCCACGACTCAGTGCATTTTTCCT
Found at i:183233 original size:30 final size:29
Alignment explanation
Indices: 183023--183225 Score: 241
Period size: 30 Copynumber: 6.7 Consensus size: 29
183013 TACCTTCTCA
*
183023 AAAGTCCACGATTCAGTGGCATCTCTT-TCC
1 AAAGTCCACGACTCAGTGGCAT-T-TTGTCC
183053 AAAGTCCACGACTCAGTGGCATTTTGTCC
1 AAAGTCCACGACTCAGTGGCATTTTGTCC
*
183082 TAAAGTCCATGACTCAGTGGCATTTTGTCC
1 -AAAGTCCACGACTCAGTGGCATTTTGTCC
183112 TAAAGTCCACGACTCAGTGGCATCCTTT-TCTTC
1 -AAAGTCCACGACTCAGTGGCAT--TTTGTC--C
183145 AAAGTCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATTTTGTC-C
* *
183175 AAAGTCCACGACTCAGT-GCATTTTTTTTAC
1 AAAGTCCACGACTCAGTGGCA--TTTTGTCC
*
183205 AAAGTCCACGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
183226 CCCTTTTAAG
Statistics
Matches: 157, Mismatches: 6, Indels: 19
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.01
29 7 0.04
30 110 0.70
31 12 0.08
32 25 0.16
33 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (29 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCC
Found at i:183250 original size:27 final size:27
Alignment explanation
Indices: 183210--183354 Score: 101
Period size: 27 Copynumber: 4.9 Consensus size: 27
183200 TTTACAAAGT
*
183210 CCACGACTCCGTGGCACCCTTTTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGC
*
183237 CCACAACTCTGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACC-----C-TTTT-AAGC
* *
183271 TCACAACTCCGTGGCACCTTTTCCTTTTTTAAGT
1 CCACAACTCCGTGGCA-C----CC--TTTTAAGC
*
183305 CCACAACTCCGTGGCACCCTTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGC
* *
183332 CCACAACTTCGTGGCACTCTTTT
1 CCACAACTCCGTGGCACCCTTTT
183355 TCCTTTTAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
27 45 0.46
29 2 0.02
32 1 0.01
33 5 0.05
34 37 0.38
35 6 0.06
39 1 0.01
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (27 bp):
CCACAACTCCGTGGCACCCTTTTAAGC
Found at i:183314 original size:95 final size:95
Alignment explanation
Indices: 183206--183422 Score: 316
Period size: 95 Copynumber: 2.3 Consensus size: 95
183196 TTTTTTTACA
* *
183206 AAGTCCACGACTCCGTGGCACCCTTTTAAGCCCACAAC-TCTGTGGCAC-CTTTTTCTTTTTAAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTC-GTGGCACTCTTTTTCCTTTTAAA
* *
183269 GCTCACAACTCCGTGGCAC-C-TTTTCCTTTTTT
65 -CCCACAACTCCGTGGCACTCTTTTTCC--TTCT
*
183301 AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTTAAAC
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAAC
183366 CCACAACTCCGTGGCACTCTTTTTCCTTCT
66 CCACAACTCCGTGGCACTCTTTTTCCTTCT
*
183396 AAGTCCACAACTCCGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
183423 CTTTTCAAAG
Statistics
Matches: 112, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
95 89 0.79
96 17 0.15
97 6 0.05
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (95 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAAC
CCACAACTCCGTGGCACTCTTTTTCCTTCT
Done.