Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold495
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: 586005
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 5
Found at i:2248 original size:27 final size:26
Alignment explanation
Indices: 2209--2259 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
2199 TTTATTTTTA
*
2209 TTATTATATTTAAAAATTTTATAATT
1 TTATTATATTTAAAAATATTATAATT
2235 TTATTATATCTTAAAAATATTATAA
1 TTATTATAT-TTAAAAATATTATAA
2260 AATCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATTATATTTAAAAATATTATAATT
Found at i:10858 original size:2 final size:2
Alignment explanation
Indices: 10853--10904 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
10843 TGCGTGTGTC
*
10853 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10895 TA TA TA TA TA
1 TA TA TA TA TA
10905 AAGGAATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11590 original size:46 final size:49
Alignment explanation
Indices: 11501--11592 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 49
11491 AATTAGGAAG
*
11501 ATAAATAAAAAAAGATTTAAAGTTTTTCCATTAAATATATTTATTTGGTC
1 ATAAATAAAAAAAGATTTAAAG-TTTTCAATTAAATATATTTATTTGGTC
11551 ATAAAT-AAAAAAGATTTAAA-TTTT-AATTAAAT-TATTTTATTT
1 ATAAATAAAAAAAGATTTAAAGTTTTCAATTAAATATA-TTTATTT
11593 TTAGATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
45 2 0.05
46 14 0.35
47 4 0.10
49 14 0.35
50 6 0.15
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (49 bp):
ATAAATAAAAAAAGATTTAAAGTTTTCAATTAAATATATTTATTTGGTC
Found at i:11766 original size:17 final size:17
Alignment explanation
Indices: 11737--11772 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
11727 ATTCTACTTA
11737 TTAATTCATTTATTAAAT
1 TTAATTCATTTA-TAAAT
11755 TTAATT-ATTTATAAAT
1 TTAATTCATTTATAAAT
11771 TT
1 TT
11773 GTAACTACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTCATTTATAAAT
Found at i:23568 original size:19 final size:19
Alignment explanation
Indices: 23544--23604 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
23534 AGCGATACAT
23544 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
23563 TGTATCGAT---ATA--T-
1 TGTATCGATACAACACTTA
23576 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
23595 TGTATCGATA
1 TGTATCGATA
23605 TATTTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
16 4 0.12
18 1 0.03
19 19 0.56
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:23578 original size:32 final size:32
Alignment explanation
Indices: 23531--23608 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
23521 GTAGTAGCTT
* *
23531 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATATATTGTATCGATACAACACTTA
23563 TGTATCGATATATTGTATCGATACAACACTTA
1 TGTATCGATATATTGTATCGATACAACACTTA
23595 TGTATCGATATATT
1 TGTATCGATATATT
23609 TACTATTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTATCGATATATTGTATCGATACAACACTTA
Found at i:24694 original size:29 final size:30
Alignment explanation
Indices: 24646--24730 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 30
24636 AGAAAAAGAT
24646 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTGT--GCTTTTGAAAGGGTTG
24678 -CACCAACTTGTGTGCTTTTG-AA-GGTTG
1 CCACCAACTTGTGTGCTTTTGAAAGGGTTG
** *
24705 CCACTGACTTGTGGGCTTTTGGAAAG
1 CCACCAACTTGTGTGCTTTT-GAAAG
24731 ATACCACTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 5 0.11
28 18 0.39
29 8 0.17
30 2 0.04
31 13 0.28
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (30 bp):
CCACCAACTTGTGTGCTTTTGAAAGGGTTG
Found at i:24744 original size:57 final size:58
Alignment explanation
Indices: 24683--24952 Score: 311
Period size: 57 Copynumber: 4.7 Consensus size: 58
24673 GGTTGCACCA
* *
24683 ACTTGTGTGCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTTGGAAAGATACCACTG
1 ACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGGAAAGATACCACTG
* * *
24740 ACTTGTGGGC--TTGAAAGGGGTGCCATTGACTTGTGGGTTTTTGGAAAGATACCACTG
1 ACTTGTGGGCTTTTGAAA-GGATGCCACTGACTTGTGGGCTTTTGGAAAGATACCACTG
* * * *
24797 ACTTGTGGGC--TTGAAAGGGGTGCCATTGACTTGTGGGCTTTTTG-AAGATTGCCACTG
1 ACTTGTGGGCTTTTGAAA-GGATGCCACTGACTTGTGGGCTTTTGGAAAGA-TACCACTG
* * * * *
24854 ACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTT-GAAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGGAAAGATACCACTG
* * *
24911 ACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTAGGCTTT
1 ACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTT
24953 GAAAAGGTGA
Statistics
Matches: 193, Mismatches: 14, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
55 3 0.02
56 6 0.03
57 155 0.80
58 24 0.12
59 5 0.03
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.33
Consensus pattern (58 bp):
ACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCTTTTGGAAAGATACCACTG
Found at i:24745 original size:29 final size:28
Alignment explanation
Indices: 24657--24956 Score: 281
Period size: 29 Copynumber: 10.5 Consensus size: 28
24647 CACCAACTTG
* **
24657 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA--GATGCCACTGACT
* * *
24686 TGTGTGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGATGCCACTGACT
*
24714 TGTGGGCTTTTGGAAAGATACCACTGACT
1 TGTGGGCTTTT-GAAAGATGCCACTGACT
* *
24743 TGTGGGC--TTGAAAGGGGTGCCATTGACT
1 TGTGGGCTTTTGAAA--GATGCCACTGACT
* *
24771 TGTGGGTTTTTGGAAAGATACCACTGACT
1 TGTGGGCTTTT-GAAAGATGCCACTGACT
* *
24800 TGTGGGC--TTGAAAGGGGTGCCATTGACT
1 TGTGGGCTTTTGAAA--GATGCCACTGACT
24828 TGTGGGCTTTTTG-AAGATTGCCACTGACT
1 TGTGGGC-TTTTGAAAGA-TGCCACTGACT
*
24857 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAGATGCCACTGACT
* *
24886 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAGATGCCACTGACT
*
24914 TGTGGGCTTTGGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAGATGCCACTGACT
*
24943 TGTAGGC-TTTGAAA
1 TGTGGGCTTTTGAAA
24957 AGGTGAGGAA
Statistics
Matches: 225, Mismatches: 30, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
26 8 0.04
27 11 0.05
28 82 0.36
29 109 0.48
30 8 0.04
31 7 0.03
ACGTcount: A:0.20, C:0.16, G:0.31, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTTGAAAGATGCCACTGACT
Found at i:24795 original size:86 final size:83
Alignment explanation
Indices: 24705--24958 Score: 264
Period size: 86 Copynumber: 3.0 Consensus size: 83
24695 TTGAAGGTTG
* * *
24705 CCACTGACTTGTGGGCTTTTGGAAAGATACCACTGACTTGTGGGCTTGAAAGGGGTGCCATTGAC
1 CCACTGACTTGTGGGCTTTT-GAAAGATGCCACTGACTTGTGGGCTTG-AA-GAGTGCCACTGAC
*
24770 TTGTGGGTTTTTGG-AAAGATA
63 TTGTGGG-CTTTGGAAAAGATA
* * *
24791 CCACTGACTTGTGGGC--TTGAAAGGGGTGCCATTGACTTGTGGGCTTTTTGAAGATTGCCACTG
1 CCACTGACTTGTGGGCTTTTGAAA--GATGCCACTGACTTGTGGGC---TTGAAGAGTGCCACTG
*
24854 ACTTGTGGGCTTTGGAAAAGATG
61 ACTTGTGGGCTTTGGAAAAGATA
* * *
24877 CCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGAC
1 CCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGC-TT-GAAGAG-TGCCACTGAC
*
24942 TTGTAGGCTTT-GAAAAG
63 TTGTGGGCTTTGGAAAAG
24959 GTGAGGAATG
Statistics
Matches: 144, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
83 4 0.03
84 5 0.03
85 32 0.22
86 93 0.65
87 2 0.01
88 8 0.06
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (83 bp):
CCACTGACTTGTGGGCTTTTGAAAGATGCCACTGACTTGTGGGCTTGAAGAGTGCCACTGACTTG
TGGGCTTTGGAAAAGATA
Found at i:26344 original size:4 final size:4
Alignment explanation
Indices: 26335--26394 Score: 59
Period size: 4 Copynumber: 14.8 Consensus size: 4
26325 TTTTGTTGTT
* * * *
26335 TTTG TTTG TTTG TTTG TTTG TTTTG TTTTT TTTG TTT- TTTC TTTC TTTT
1 TTTG TTTG TTTG TTTG TTTG -TTTG -TTTG TTTG TTTG TTTG TTTG TTTG
26384 TTTG TTTG TTT
1 TTTG TTTG TTT
26395 TTTTTACGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
3 3 0.06
4 39 0.78
5 8 0.16
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (4 bp):
TTTG
Found at i:26374 original size:9 final size:9
Alignment explanation
Indices: 26324--26396 Score: 69
Period size: 9 Copynumber: 7.9 Consensus size: 9
26314 ATCCGGACCC
*
26324 TTTTTGTTG
1 TTTTTTTTG
26333 TTTTTGTTTG
1 TTTTT-TTTG
*
26343 -TTTGTTTG
1 TTTTTTTTG
*
26351 TTTGTTTTG
1 TTTTTTTTG
26360 TTTTTTTTG
1 TTTTTTTTG
26369 TTTTTTCTT-
1 TTTTTT-TTG
26378 TCTTTTTTTG
1 T-TTTTTTTG
26388 TTTGTTTTT
1 TTT-TTTTT
26397 TTTACGGAGG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 4 0.08
9 33 0.62
10 16 0.30
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:26374 original size:37 final size:35
Alignment explanation
Indices: 26324--26399 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 35
26314 ATCCGGACCC
* *
26324 TTTTTGTTGTTTTTGTTTGTTTGTTTGTTTGTTTT
1 TTTTTGTTGTTTTTCTTTCTTTGTTTGTTTGTTTT
* *
26359 GTTTTTTTTGTTTTTTCTTTCTTTTTTTGTTTGTTTT
1 -TTTTTGTTG-TTTTTCTTTCTTTGTTTGTTTGTTTT
26396 TTTT
1 TTTT
26400 ACGGAGGACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 12 0.34
37 23 0.66
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (35 bp):
TTTTTGTTGTTTTTCTTTCTTTGTTTGTTTGTTTT
Found at i:40261 original size:13 final size:13
Alignment explanation
Indices: 40243--40270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40233 ATACAAAGAT
40243 CAATGTATCGATA
1 CAATGTATCGATA
40256 CAATGTATCGATA
1 CAATGTATCGATA
40269 CA
1 CA
40271 TTGAATAATA
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:40352 original size:32 final size:32
Alignment explanation
Indices: 40309--40386 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
40299 GCAGTAGCTT
* * *
40309 TATAGCGATACATTGTATCGATATAACATTTA
1 TATATCGATACATTGTATCGATACAACACTTA
*
40341 TGTATCGATACATTGTATCGATACAACACTTA
1 TATATCGATACATTGTATCGATACAACACTTA
40373 TATATCGATACATT
1 TATATCGATACATT
40387 TACTGTTTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
TATATCGATACATTGTATCGATACAACACTTA
Found at i:40359 original size:13 final size:13
Alignment explanation
Indices: 40341--40365 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40331 ATAACATTTA
40341 TGTATCGATACAT
1 TGTATCGATACAT
40354 TGTATCGATACA
1 TGTATCGATACA
40366 ACACTTATAT
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:42172 original size:15 final size:16
Alignment explanation
Indices: 42148--42189 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
42138 ACTTATTTAA
42148 AAAAATACAAAAAAAT
1 AAAAATACAAAAAAAT
42164 AAAAA-ACAAAAAAAT
1 AAAAATACAAAAAAAT
42179 AAAAATA-AAAA
1 AAAAATACAAAA
42190 TGAATGGCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (16 bp):
AAAAATACAAAAAAAT
Found at i:43717 original size:24 final size:28
Alignment explanation
Indices: 43690--43747 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 28
43680 GCAAAAGCAC
*
43690 AAAAAATG-AAAAGA-AA-AACAAAGA-
1 AAAAAATGCAAAAGAGAACAACAAAAAT
*
43714 AAAAAGTGCAAAAGAGAACAACAAAAAT
1 AAAAAATGCAAAAGAGAACAACAAAAAT
43742 AAAAAA
1 AAAAAA
43748 ATGAGGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 7 0.26
25 6 0.22
26 2 0.07
27 7 0.26
28 5 0.19
ACGTcount: A:0.76, C:0.07, G:0.12, T:0.05
Consensus pattern (28 bp):
AAAAAATGCAAAAGAGAACAACAAAAAT
Found at i:45033 original size:28 final size:27
Alignment explanation
Indices: 44987--46851 Score: 1103
Period size: 28 Copynumber: 67.0 Consensus size: 27
44977 CATTTTCCTC
*
44987 CTTTCAAAGCCCACTAGTC-GATGGCAT
1 CTTTCAAAGCCCACGAGTCAG-TGGCAT
*
45014 CTTGTCAAAGCCCACGAGTCGGTGGCAT
1 CTT-TCAAAGCCCACGAGTCAGTGGCAT
* * *
45042 CCTTTCAAAGCCCATGAGTCGGTAGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
45070 CTTTTCAAAGCCTACGAGTCGGTGGCAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
* *
45098 CCTTTCGAAGCCCACGAGTCGGTGGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
45126 CCTTTCAAAGGCCCACAAGTTAATGGCACAT
1 -CTTTCAAA-GCCCACGAGTCAGTGG--CAT
* * *
45157 TTTTC--A---CA--AGTTAGTGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * * * *
45178 CTTTGAAAACCCACAAGTTAGTGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* *
45206 CTTTCAAAGCCCACGAGTCACTGACAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
45233 CCTTTCAAAGCCTACGAGTAAGTGGCA-
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
45260 CATTTTCAAAGCCCACGAGTCAGTAGTACC
1 C--TTTCAAAGCCCACGAGTCAGTGGCA-T
*
45290 CTTTCAAAGCCCACGAGTCAGTGACACT
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * * *
45318 TTTTTAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * * * *
45346 CTTTCAAAGGCCACAAGTCACTAGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* *
45374 CTTTCAAAGCCCATGAGTCATTGGCACT
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * *
45402 TTTTCAAAGCCCACGAGCCAATGGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
*
45429 CTTGTCAAAGCCCACGAGTCGGTGGCAT
1 CTT-TCAAAGCCCACGAGTCAGTGGCAT
* * *
45457 CCTTTCAAAGCTCATGAGTCGGTGGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
45485 CCTTTCAAAGCCCACGAGTCAGTGGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
45513 CTTTTCAAAAGCCCACAAGTTAGTGGCACC
1 C-TTTC-AAAGCCCACGAGTCAGTGGCA-T
*
45543 CTTTCAAAGCCCATGAGTCAGTGGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
45570 CCTTTCAAAGCCCACGAGTCAGTGGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
45598 CCTTTCAAAACCCACGAGTAAATGGCA-
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
45625 CAATTTCAAAGCCCA--AGTCAATGGCACC
1 C--TTTCAAAGCCCACGAGTCAGTGGCA-T
* * *
45653 CTTTCAAACCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * * * *
45681 CTTTGAAAACCTACAAGTCAGCGGCACT
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * *
45709 CTTTCAAAACCCACGAGTCAGTGACAC
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
45736 CTTTTCAAAGCCCACGAGTCAGTGGCAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
* **
45764 CCTTCCAAAAG-CCATAAGTCAGTGGCA-
1 -CTTTC-AAAGCCCACGAGTCAGTGGCAT
* * * *
45791 CTTTTTAAAGCTCACGAGTTAGTGGCAAC
1 C-TTTCAAAGCCCACGAGTCAGTGGC-AT
* ** *
45820 CTTCCAAAGCCCATAAGTTAGTGGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
** * * * *
45847 CCCTCTAAAGCCCACAAATTAGTGGCACC
1 CTTTC-AAAGCCCACGAGTCAGTGGCA-T
* * * *
45876 CTTTCAAAGCCCACAAATCGGTGACAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
45903 CCTGTCAAAGCACACGAGT-TGATGGCAT
1 -CTTTCAAAGCCCACGAGTCAG-TGGCAT
*
45931 CTTTTTAAAGCCCACGAGTCAGTGGCAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
45959 CCTTTCAAAGCCCACGAGTCAGTGGCAT
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
45987 CCTTTCAAAAGCCCACAAGTCAGTGGCAC
1 -CTTTC-AAAGCCCACGAGTCAGTGGCAT
*
46016 CTTTTCAAAGCCCACGAGTTAGTGGCAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
* * *
46044 CCTTTCAAAGCCCACGAGTAAGTGACAC
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* * *
46072 CTTTTCAAAGGCCATGAGTCAGTGGCACC
1 C-TTTCAAAGCCCACGAGTCAGTGGCA-T
** *
46101 CTTTCAAAGTTCACAAGTCAGTGGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* ** *
46128 CTTTTCAAAGCCCACAAGTCAGTGATACC
1 C-TTTCAAAGCCCACGAGTCAGTGGCA-T
* * * *
46157 CTTTTAAAGCTCACAAGTTAGTGGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* * * *
46184 CCTTTCAAAGCGCATGAGTTAGTGGCAC
1 -CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
46212 CTTTTCAAAGCTCACGAGTCAGTGGAAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
* * * * * * *
46240 CTTTTCAAAAACTCACAAGTTAATGGGAC
1 C-TTTC-AAAGCCCACGAGTCAGTGGCAT
* *
46269 CTTTTAAA-CCCACGAGTCAGTGGCAA
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* **
46295 CCTTCTAAAGCCCATAAGTCAGTGGCAT
1 CTTTC-AAAGCCCACGAGTCAGTGGCAT
** * *
46323 CCCTCTAAAGCCCACAAGTCAGTGGCACC
1 CTTTC-AAAGCCCACGAGTCAGTGGCA-T
* **
46352 CTTTTCAAAACCCATAAGTCCA-TGGCACCT
1 C-TTTCAAAGCCCACGAGT-CAGTGGCA--T
* * * * * *
46382 TTTTCAAAACTCACAAGTTAGTGGCAC
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* *
46409 CTTGT-AAAGCCCATGAGTCAGTGGCAC
1 CTT-TCAAAGCCCACGAGTCAGTGGCAT
* **
46436 CTTGT-AAAGCCTATAAGTCAGTGGCAT
1 CTT-TCAAAGCCCACGAGTCAGTGGCAT
* * *
46463 CTTTTAAAGCCCACGAGTCAATGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* *
46491 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACGAGTCAGTGGCA-T
* *
46519 CTTTTCAAAGCCCACAAGTCAATGGCAT
1 C-TTTCAAAGCCCACGAGTCAGTGGCAT
* ** * *
46547 CCTTCCAAAGCCCATAAGTTACTGGCACT
1 -CTTTCAAAGCCCACGAGTCAGTGGCA-T
*
46576 CTTTTTAAAGCCCA-GAAGTCAGTGGCATT
1 C-TTTCAAAGCCCACG-AGTCAGTGGCA-T
* * * *
46605 CTTTTTAAAGCCAATGAGTCAGTGGCACC
1 C-TTTCAAAGCCCACGAGTCAGTGGCA-T
* * *
46634 CTTTAAAAGCCCACCAGTCAGTAGCAT
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* * * * *
46661 CCTTTAAAAGCCTACAAGCCAGTGGCACC
1 -CTTTCAAAGCCCACGAGTCAGTGGCA-T
* * *
46690 CTTTAAAAACCCACAAGTCAGTGGCA-
1 CTTTCAAAGCCCACGAGTCAGTGGCAT
* * **
46716 CTTTGTAAAGCCTATAAGT-AGTGGCA-
1 CTTT-CAAAGCCCACGAGTCAGTGGCAT
* * * *
46742 CTTTGTAAAGCCCACGAGTTAGTGGTAC
1 CTTT-CAAAGCCCACGAGTCAGTGGCAT
* * * *
46770 CTTTTAAAGCCCACGAGTCAATAGCAAC
1 CTTTCAAAGCCCACGAGTCAGTGGC-AT
* * *
46798 CTTCCAAAGCCCACAAGTCAGTGGCAAC
1 CTTTCAAAGCCCACGAGTCAGTGGC-AT
* * * *
46826 CCTCCAAAGCCCACAAGTGAGTGGCA
1 CTTTCAAAGCCCACGAGTCAGTGGCA
46852 CGCTCACAAG
Statistics
Matches: 1492, Mismatches: 267, Indels: 158
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.00
21 3 0.00
22 8 0.01
23 1 0.00
24 2 0.00
26 73 0.05
27 133 0.09
28 1048 0.70
29 207 0.14
30 12 0.01
31 3 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (27 bp):
CTTTCAAAGCCCACGAGTCAGTGGCAT
Found at i:45051 original size:56 final size:55
Alignment explanation
Indices: 44985--46851 Score: 1260
Period size: 56 Copynumber: 33.5 Consensus size: 55
44975 ATCATTTTCC
* *
44985 TCCTTTCAAAGCCCACTAGTC-GATGGCATCTTGTCAAAGCCCACGAGTCGGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAG-TGGCATCTT-TCAAAGCCCACGAGTCAGTGGCA
* * * * *
45041 TCCTTTCAAAGCCCATGAGTCGGTAGCATCTTTTCAAAGCCTACGAGTCGGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
45097 TCCTTTCGAAGCCCACGAGTCGGTGGCATCCTTTCAAAGGCCCACAAGTTAATGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAA-GCCCACGAGTCAGTGGCA
* ** * * * * * * *
45154 -CATTT-----TTCACAAGTTAGTGGCACCCTTTGAAAACCCACAAGTTAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
45204 CCCTTTCAAAGCCCACGAGTCACTGACATCCTTTCAAAGCCTACGAGTAAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
45260 -CATTTTCAAAGCCCACGAGTCAGTAGTACCCTTTCAAAGCCCACGAGTCAGTGACA
1 TC-CTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * * * * *
45316 -CTTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGGCCACAAGTCACTAGCA
1 TC-CTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * * *
45372 CCCTTTCAAAGCCCATGAGTCATTGGCACTTTTTCAAAGCCCACGAGCCAATGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * * *
45428 T-CTTGTCAAAGCCCACGAGTCGGTGGCATCCTTTCAAAGCTCATGAGTCGGTGGCA
1 TCCTT-TCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAGTGGCA
* *
45484 TCCTTTCAAAGCCCACGAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC-TTTC-AAAGCCCACGAGTCAGTGGCA
* *
45541 CCCTTTCAAAGCCCATGAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAGTGGCA
* * * *
45597 TCCTTTCAAAACCCACGAGTAAATGGCA-CAATTTCAAAGCCCA--AGTCAATGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC--TTTCAAAGCCCACGAGTCAGTGGCA
* * * * * * * * *
45651 CCCTTTCAAACCCCACAAGTCAGTGGCACCCTTTGAAAACCTACAAGTCAGCGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * *
45707 -CTCTTTCAAAACCCACGAGTCAGTGACACCTTTTCAAAGCCCACGAGTCAGTGGCA
1 TC-CTTTCAAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* ** * * *
45763 TCCTTCCAAAAG-CCATAAGTCAGTGGCA-CTTTTTAAAGCTCACGAGTTAGTGGCA
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* * ** * ** * * *
45818 ACCTTCCAAAGCCCATAAGTTAGTGGCATCCCTCTAAAGCCCACAAATTAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCTTTC-AAAGCCCACGAGTCAGTGGCA
* * * * * * * *
45874 CCCTTTCAAAGCCCACAAATCGGTGACATCCTGTCAAAGCACACGAGT-TGATGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAG-TGGCA
* *
45930 TCTTTTTAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACGAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAGTGGCA
* * *
45986 TCCTTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTTAGTGGCA
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
46043 TCCTTTCAAAGCCCACGAGTAAGTGACACCTTTTCAAAGGCCATGAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* ** * * **
46099 CCCTTTCAAAGTTCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGATA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC-TTTCAAAGCCCACGAGTCAGTGGCA
* * * * * * * *
46155 CCCTTTTAAAGCTCACAAGTTAGTGGCATCCTTTCAAAGCGCATGAGTTAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCAAAGCCCACGAGTCAGTGGCA
* * * * * * * *
46211 -CCTTTTCAAAGCTCACGAGTCAGTGGAATCTTTTCAAAAACTCACAAGTTAATGGGA
1 TCC-TTTCAAAGCCCACGAGTCAGTGGCATC-TTTC-AAAGCCCACGAGTCAGTGGCA
* * * **
46268 -CCTTTTAAA-CCCACGAGTCAGTGGCAACCTTCTAAAGCCCATAAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCTTTC-AAAGCCCACGAGTCAGTGGCA
* * * * **
46322 TCC-CTCTAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAACCCATAAGTCCA-TGGCA
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCA-TC-TTTCAAAGCCCACGAGT-CAGTGGCA
* * * * * *
46379 -CCTTTTTCAAAACTCACAAGTTAGTGGCACCTTGT-AAAGCCCATGAGTCAGTGGCA
1 TCC--TTTCAAAGCCCACGAGTCAGTGGCATCTT-TCAAAGCCCACGAGTCAGTGGCA
* ** * *
46435 -CCTTGT-AAAGCCTATAAGTCAGTGGCATCTTTTAAAGCCCACGAGTCAATGGCA
1 TCCTT-TCAAAGCCCACGAGTCAGTGGCATCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
46489 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TC-TTTCAAAGCCCACGAGTCAGTGGCA
* ** * * *
46546 TCCTTCCAAAGCCCATAAGTTACTGGCACTCTTTTTAAAGCCCA-GAAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TC-TTTCAAAGCCCACG-AGTCAGTGGCA
* * * * * * * *
46603 TTCTTTTTAAAGCCAATGAGTCAGTGGCACCCTTTAAAAGCCCACCAGTCAGTAGCA
1 -TCCTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * * * * *
46660 TCCTTTAAAAGCCTACAAGCCAGTGGCACCCTTTAAAAACCCACAAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA-TCTTTCAAAGCCCACGAGTCAGTGGCA
* * ** * * *
46716 --CTTTGTAAAGCCTATAAGT-AGTGGCA-CTTTGTAAAGCCCACGAGTTAGTGGTA
1 TCCTTT-CAAAGCCCACGAGTCAGTGGCATCTTT-CAAAGCCCACGAGTCAGTGGCA
* * * * * *
46769 -CCTTTTAAAGCCCACGAGTCAATAGCAACCTTCCAAAGCCCACAAGTCAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGC-ATCTTTCAAAGCCCACGAGTCAGTGGCA
* * * * *
46824 ACCCTCCAAAGCCCACAAGTGAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA
46852 CGCTCACAAG
Statistics
Matches: 1459, Mismatches: 282, Indels: 141
0.78 0.15 0.07
Matches are distributed among these distances:
50 16 0.01
51 23 0.02
52 4 0.00
53 29 0.02
54 126 0.09
55 137 0.09
56 818 0.56
57 257 0.18
58 47 0.03
59 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (55 bp):
TCCTTTCAAAGCCCACGAGTCAGTGGCATCTTTCAAAGCCCACGAGTCAGTGGCA
Found at i:45129 original size:84 final size:84
Alignment explanation
Indices: 44985--46851 Score: 1388
Period size: 84 Copynumber: 22.3 Consensus size: 84
44975 ATCATTTTCC
* * *
44985 TCCTTTCAAAGCCCACTAGTC-GATGGCAT-CTTGTCAAAGCCCACGAGTCGGTGGCATCCTTTC
1 TCCTTTCAAAGCCCACGAGTCAG-TGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
45048 AAAGCCCATGAGTCGGTAGCA
64 AAAGCCCACGAGTCAGTGGCA
* * * * * *
45069 TCTTTTCAAAGCCTACGAGTCGGTGGCATCCTTTCGAAGCCCACGAGTCGGTGGCATCCTTTCAA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* * *
45134 AGGCCCACAAGTTAATGGCA
66 A-GCCCACGAGTCAGTGGCA
* ** * * * * * * *
45154 -CATTT-----TTCACAAGTTAGTGGCACCCTTTGAAAACCCACAAGTTAGTGGCACCCTTTCAA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
* *
45213 AGCCCACGAGTCACTGACA
66 AGCCCACGAGTCAGTGGCA
* * * * * * *
45232 TCCTTTCAAAGCCTACGAGTAAGTGGCA-CATTTTCAAAGCCCACGAGTCAGTAGTACCCTTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
*
45296 AAGCCCACGAGTCAGTGACA
65 AAGCCCACGAGTCAGTGGCA
* * * * * * * *
45316 -CTTTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGGCCACAAGTCACTAGCACCCTTTCA
1 TC-CTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* *
45380 AAGCCCATGAGTCATTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * *
45400 -CTTTTTCAAAGCCCACGAGCCAATGGCAT-CTTGTCAAAGCCCACGAGTCGGTGGCATCCTTTC
1 TC-CTTTCAAAGCCCACGAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
45463 AAAGCTCATGAGTCGGTGGCA
64 AAAGCCCACGAGTCAGTGGCA
* * *
45484 TCCTTTCAAAGCCCACGAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCA
*
45549 AAGCCCATGAGTCAGTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * *
45569 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAACCCACGAGTAAATGGCA-CAATTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCA
*
45633 AAGCCCA--AGTCAATGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * * * * *
45651 CCCTTTCAAACCCCACAAGTCAGTGGCACCCTTTGAAAACCTACAAGTCAGCGGCA-CTCTTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCA
* *
45715 AAACCCACGAGTCAGTGACA
65 AAGCCCACGAGTCAGTGGCA
* * * *
45735 -CCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAAG-CCATAAGTCAGTGGCA-CTTTTT
1 TCC-TTTCAAAGCCCACGAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
45797 AAAGCTCACGAGTTAGTGGCA
64 AAAGCCCACGAGTCAGTGGCA
* * ** * * * * *
45818 ACCTTCCAAAGCCCATAAGTTAGTGGCATCC-CTCTAAAGCCCACAAATTAGTGGCACCCTTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTCA
* * * *
45882 AAGCCCACAAATCGGTGACA
65 AAGCCCACGAGTCAGTGGCA
* * * * * *
45902 TCCTGTCAAAGCACACGAGT-TGATGGCATCTTTTTAAAGCCCACGAGTCAGTGGCATCCTTTCA
1 TCCTTTCAAAGCCCACGAGTCAG-TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
45966 AAGCCCACGAGTCAGTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * *
45986 TCCTTTCAAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTTAGTGGCATCCTTTC
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTC
* *
46050 AAAGCCCACGAGTAAGTGACA
64 AAAGCCCACGAGTCAGTGGCA
* * * ** *
46071 -CCTTTTCAAAGGCCATGAGTCAGTGGCACCCTTTCAAAGTTCACAAGTCAGTGGCATCTTTTCA
1 TCC-TTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
* **
46135 AAGCCCACAAGTCAGTGATA
65 AAGCCCACGAGTCAGTGGCA
* * * * * * ** *
46155 CCCTTTTAAAGCTCACAAGTTAGTGGCATCCTTTCAAAGCGCATGAGTTAGTGGCA-CCTTTTCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCA
* *
46219 AAGCTCACGAGTCAGTGGAA
65 AAGCCCACGAGTCAGTGGCA
* * * * * * * * * *
46239 TCTTTTCAAAAACTCACAAGTTAATGGGA-CCTTTTAAA-CCCACGAGTCAGTGGCAACC-TTCT
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTC-
**
46301 AAAGCCCATAAGTCAGTGGCA
64 AAAGCCCACGAGTCAGTGGCA
* * * * *
46322 TCC-CTCTAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAACCCATAAGTCCA-TGGCA-CCTTT
1 TCCTTTC-AAAGCCCACGAGTCAGTGGCATCC-TTTCAAAGCCCACAAGT-CAGTGGCATCC--T
* * * *
46384 TTCAAAACTCACAAGTTAGTGGCA
61 TTCAAAGCCCACGAGTCAGTGGCA
* * * *
46408 -CCTTGT-AAAGCCCATGAGTCAGTGGCA-CCTTGT-AAAGCCTATAAGTCAGTGGCAT-CTTTT
1 TCCTT-TCAAAGCCCACGAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTC
*
46468 AAAGCCCACGAGTCAATGGCA
64 AAAGCCCACGAGTCAGTGGCA
* * * * *
46489 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAGTCAATGGCATCCTTCCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
** * *
46554 AAGCCCATAAGTTACTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * * ** *
46574 CTCTTTTTAAAGCCCA-GAAGTCAGTGGCATTCTTTTTAAAGCCAATGAGTCAGTGGCACCCTTT
1 -TCCTTTCAAAGCCCACG-AGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTT
* * *
46638 AAAAGCCCACCAGTCAGTAGCA
63 CAAAGCCCACGAGTCAGTGGCA
* * * * * * * *
46660 TCCTTTAAAAGCCTACAAGCCAGTGGCACCCTTTAAAAACCCACAAGTCAGTGGCA--CTTTGTA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTT-CA
* **
46723 AAGCCTATAAGT-AGTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * * * * * *
46742 --CTTTGTAAAGCCCACGAGTTAGTGGTA-CCTTTTAAAGCCCACGAGTCAATAGCAACCTTCCA
1 TCCTTT-CAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCA
*
46804 AAGCCCACAAGTCAGTGGCA
65 AAGCCCACGAGTCAGTGGCA
* * * * *
46824 ACCCTCCAAAGCCCACAAGTGAGTGGCA
1 TCCTTTCAAAGCCCACGAGTCAGTGGCA
46852 CGCTCACAAG
Statistics
Matches: 1420, Mismatches: 298, Indels: 131
0.77 0.16 0.07
Matches are distributed among these distances:
78 14 0.01
79 45 0.03
80 26 0.02
81 47 0.03
82 139 0.10
83 152 0.11
84 642 0.45
85 267 0.19
86 83 0.06
87 5 0.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (84 bp):
TCCTTTCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
AGCCCACGAGTCAGTGGCA
Found at i:46896 original size:28 final size:28
Alignment explanation
Indices: 46864--46944 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 28
46854 CTCACAAGTG
*
46864 AATGGCACCCTTTTAAAGCCCACAGTTT
1 AATGGCACCCTTTTAAAGCCCACAGGTT
** *
46892 AATGGCACCCTTTTAAAGTTCATAGGTT
1 AATGGCACCCTTTTAAAGCCCACAGGTT
*
46920 AACGGCACCCTTTTCAAAGCCCACA
1 AATGGCACCCTTTT-AAAGCCCACA
46945 AGCCAGTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 37 0.84
29 7 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (28 bp):
AATGGCACCCTTTTAAAGCCCACAGGTT
Found at i:47005 original size:32 final size:32
Alignment explanation
Indices: 46958--47173 Score: 170
Period size: 32 Copynumber: 6.7 Consensus size: 32
46948 CAGTATTAAC
* *
46958 CTTTTCAAAGCCCACACAAGTTGGTGGCACAT
1 CTTTTTAAAGCCCACACAAGTCGGTGGCACAT
* * *
46990 CTTTTTAAAGTCCACACAAGTTGATGG--CAT
1 CTTTTTAAAGCCCACACAAGTCGGTGGCACAT
* * *
47020 CGTTTTCCAAAAGTCCACACAAGTCGGTGGCACCT
1 C-TTTT--TAAAGCCCACACAAGTCGGTGGCACAT
* * *
47055 CTTTTTCAAAGCCCACATATGTCGGTGGCA-AC
1 CTTTTT-AAAGCCCACACAAGTCGGTGGCACAT
* * * *
47087 CTTTTTCAAAACCCACATAAGTCGGTGGTA-AC
1 CTTTTT-AAAGCCCACACAAGTCGGTGGCACAT
** * *
47119 CTTTTCCAAGCCCACACAAGTTGGTGGCACTT
1 CTTTTTAAAGCCCACACAAGTCGGTGGCACAT
*
47151 CTTTTTAAAGGACCACACAAGTC
1 CTTTTTAAA-GCCCACACAAGTC
47174 AATGGTAACC
Statistics
Matches: 148, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
30 4 0.03
31 22 0.15
32 65 0.44
33 50 0.34
34 4 0.03
35 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (32 bp):
CTTTTTAAAGCCCACACAAGTCGGTGGCACAT
Found at i:47049 original size:65 final size:65
Alignment explanation
Indices: 46955--47147 Score: 205
Period size: 65 Copynumber: 3.0 Consensus size: 65
46945 AGCCAGTATT
* * *
46955 AACCTTTT-C-AAAGCCCACACAAGTTGGTGGCACATCTTTTTAAAGTCCACACAAGTTGATGGC
1 AACCTTTTCCAAAAGCCCACACAAGTCGGTGGCACATCTTTTTAAAGCCCACACAAGTTGGTGGC
* * * * * * *
47018 ATCGTTTTCCAAAAGTCCACACAAGTCGGTGGCACCTCTTTTTCAAAGCCCACATATGTCGGTGG
1 AACCTTTTCCAAAAGCCCACACAAGTCGGTGGCACATCTTTTT-AAAGCCCACACAAGTTGGTGG
47083 C
65 C
* * * * **
47084 AACCTTTTTCAAAA-CCCACATAAGTCGGTGGTA-ACCTTTTCCAAGCCCACACAAGTTGGTGGC
1 AACCTTTTCCAAAAGCCCACACAAGTCGGTGGCACATCTTTTTAAAGCCCACACAAGTTGGTGGC
47147 A
1 A
47148 CTTCTTTTTA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
63 25 0.24
64 6 0.06
65 45 0.43
66 28 0.27
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (65 bp):
AACCTTTTCCAAAAGCCCACACAAGTCGGTGGCACATCTTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:47051 original size:33 final size:32
Alignment explanation
Indices: 46955--47147 Score: 176
Period size: 32 Copynumber: 6.0 Consensus size: 32
46945 AGCCAGTATT
*
46955 AACCTTTT-CAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
* * * * *
46986 ACATCTTTT-TAAAGTCCACACAAGTTGATGGC
1 A-ACCTTTTCCAAAGCCCACACAAGTCGGTGGC
* * *
47018 ATCGTTTTCCAAAAGTCCACACAAGTCGGTGGC
1 AACCTTTTCC-AAAGCCCACACAAGTCGGTGGC
* * * *
47051 ACCTCTTTTTCAAAGCCCACATATGTCGGTGGC
1 AAC-CTTTTCCAAAGCCCACACAAGTCGGTGGC
* * * *
47084 AACCTTTTTCAAAACCCACATAAGTCGGTGGT
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
*
47116 AACCTTTTCC-AAGCCCACACAAGTTGGTGGC
1 AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
47147 A
1 A
47148 CTTCTTTTTA
Statistics
Matches: 133, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
31 23 0.17
32 62 0.47
33 43 0.32
34 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (32 bp):
AACCTTTTCCAAAGCCCACACAAGTCGGTGGC
Found at i:47133 original size:31 final size:32
Alignment explanation
Indices: 46955--47192 Score: 198
Period size: 33 Copynumber: 7.4 Consensus size: 32
46945 AGCCAGTATT
*
46955 AACC-TTTTCAAAGCCCACACAAGTTGGTGGC
1 AACCTTTTTCAAAGCCCACACAAGTCGGTGGC
* * * *
46986 ACATCTTTTT-AAAGTCCACACAAGTTGATGGC
1 A-ACCTTTTTCAAAGCCCACACAAGTCGGTGGC
* * * *
47018 ATCGTTTTCCAAAAGTCCACACAAGTCGGTGGC
1 AACCTTTTTC-AAAGCCCACACAAGTCGGTGGC
* * *
47051 ACCTCTTTTTCAAAGCCCACATATGTCGGTGGC
1 AAC-CTTTTTCAAAGCCCACACAAGTCGGTGGC
* * *
47084 AACCTTTTTCAAAACCCACATAAGTCGGTGGT
1 AACCTTTTTCAAAGCCCACACAAGTCGGTGGC
* *
47116 AACC-TTTTCCAAGCCCACACAAGTTGGTGGC
1 AACCTTTTTCAAAGCCCACACAAGTCGGTGGC
* ** *
47147 -ACTTCTTTTT-AAAGGACCACACAAGTCAATGGT
1 AAC--CTTTTTCAAA-GCCCACACAAGTCGGTGGC
47180 AACCTTTTTCAAA
1 AACCTTTTTCAAA
47193 ATACCACTTT
Statistics
Matches: 166, Mismatches: 30, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
30 2 0.01
31 27 0.16
32 62 0.37
33 68 0.41
34 7 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (32 bp):
AACCTTTTTCAAAGCCCACACAAGTCGGTGGC
Found at i:47386 original size:54 final size:52
Alignment explanation
Indices: 47328--47449 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 52
47318 AATGTCGTCG
47328 GCCTTAAATCAACACATTGGCACTCATTCTC-TTTCTTAAAGTCCAATATCA-CTA
1 GCCTTAAATCAACACATTGGCACTC-TTCTCATTT-TT-AAGTCCAATAT-AGCTA
* * * * * *
47382 GCCTTGAATCAATACGTTGGCACTCTTCTCATTTTTAAGTTCAATGTAGCTG
1 GCCTTAAATCAACACATTGGCACTCTTCTCATTTTTAAGTCCAATATAGCTA
47434 GCCTTAAATCAACACA
1 GCCTTAAATCAACACA
47450 GTGACACCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
51 1 0.02
52 24 0.42
53 7 0.12
54 25 0.44
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (52 bp):
GCCTTAAATCAACACATTGGCACTCTTCTCATTTTTAAGTCCAATATAGCTA
Found at i:47462 original size:52 final size:53
Alignment explanation
Indices: 47327--47462 Score: 127
Period size: 52 Copynumber: 2.6 Consensus size: 53
47317 CAATGTCGTC
* *
47327 GGCCTTAAATCAACACATTGGCACTCATTCTCTTTCTTAAAGTCCAATATCACT
1 GGCCTTAAATCAACACAGTGGCAC-CCTTCTCTTTCTTAAAGTCCAATATCACT
* * * * * *
47381 AGCCTTGAATCAATAC-GTTGGCACTCTTCTCATTT-TT-AAGTTCAATGT-AGCT
1 GGCCTTAAATCAACACAG-TGGCACCCTTCTC-TTTCTTAAAGTCCAATATCA-CT
*
47433 GGCCTTAAATCAACACAGTGACACCCTTCT
1 GGCCTTAAATCAACACAGTGGCACCCTTCT
47463 TATCTTTATG
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
51 1 0.02
52 34 0.52
53 8 0.12
54 22 0.34
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (53 bp):
GGCCTTAAATCAACACAGTGGCACCCTTCTCTTTCTTAAAGTCCAATATCACT
Found at i:47775 original size:10 final size:9
Alignment explanation
Indices: 47762--47803 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
47752 AGACTTATTT
47762 AAAAAATACA
1 AAAAAATA-A
47772 AAAAAATAA
1 AAAAAATAA
*
47781 AAAACA-AA
1 AAAAAATAA
*
47789 AAAAATTAA
1 AAAAAATAA
47798 AAAAAA
1 AAAAAA
47804 GAGTGGCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 6 0.22
9 13 0.48
10 8 0.30
ACGTcount: A:0.86, C:0.05, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:47782 original size:15 final size:15
Alignment explanation
Indices: 47763--47792 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
47753 GACTTATTTA
47763 AAAAATACAAAAAAAT
1 AAAAA-ACAAAAAAAT
47779 AAAAAACAAAAAAA
1 AAAAAACAAAAAAA
47793 ATTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (15 bp):
AAAAAACAAAAAAAT
Found at i:47783 original size:17 final size:17
Alignment explanation
Indices: 47760--47801 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
47750 TTAGACTTAT
*
47760 TTAAAAAATACAAAAAAA
1 TTAAAAAACA-AAAAAAA
47778 -TAAAAAACAAAAAAAA
1 TTAAAAAACAAAAAAAA
47794 TTAAAAAA
1 TTAAAAAA
47802 AAGAGTGGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (17 bp):
TTAAAAAACAAAAAAAA
Found at i:48623 original size:3 final size:3
Alignment explanation
Indices: 48610--48660 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
48600 TATGGGTAAG
*
48610 GAA GAAA GAA GAA GAA GAA GAA -AT GAA GAA GAA GAA GAA GAA GAA
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
48655 AAA GAA
1 GAA GAA
48661 AAAAAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 38 0.90
4 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:48645 original size:23 final size:24
Alignment explanation
Indices: 48611--48655 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
48601 ATGGGTAAGG
48611 AAGAAAGAAGAAGAAGAAGAAATG
1 AAGAAAGAAGAAGAAGAAGAAATG
48635 AAG-AAGAAGAAGAAGAAGAAA
1 AAGAAAGAAGAAGAAGAAGAAA
48656 AAGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAGAAGAAGAAGAAATG
Found at i:48661 original size:6 final size:6
Alignment explanation
Indices: 48611--48674 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
48601 ATGGGTAAGG
* * * *
48611 AAGAAA GAAGAAG AAGAAGA AATGAAG AAGAAG AAGAAG AAGAAA AAGAAA
1 AAGAAA -AAGAAA AAGAA-A AA-GAAA AAGAAA AAGAAA AAGAAA AAGAAA
48662 AA-AAA AAGAAA AA
1 AAGAAA AAGAAA AA
48675 ATATGACATG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
5 5 0.10
6 33 0.66
7 9 0.18
8 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:48670 original size:23 final size:26
Alignment explanation
Indices: 48618--48671 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
48608 AGGAAGAAAG
* *
48618 AAGAAGAAGAAGAAATGAAGAAGAAG
1 AAGAAGAAGAAGAAATGAAGAAAAAA
48644 AAGAAGAAGAA-AAA-GAA-AAAAAA
1 AAGAAGAAGAAGAAATGAAGAAAAAA
48667 AAGAA
1 AAGAA
48672 AAAATATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 9 0.35
24 3 0.12
25 3 0.12
26 11 0.42
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (26 bp):
AAGAAGAAGAAGAAATGAAGAAAAAA
Found at i:56064 original size:26 final size:26
Alignment explanation
Indices: 56009--56064 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
55999 ATAAAAATAG
* ** *
56009 GATTGATAAAGTTCAGTTTTATTTGG
1 GATTGATAAAATTCAACTTTATTTGA
56035 GATTGATAAAATTCAACTTTATCTT-A
1 GATTGATAAAATTCAACTTTAT-TTGA
56061 GATT
1 GATT
56065 TTAAATTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (26 bp):
GATTGATAAAATTCAACTTTATTTGA
Found at i:56375 original size:21 final size:20
Alignment explanation
Indices: 56332--56371 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56322 GTGTTTTTTC
56332 ATTAAAAAATATTTTATTGT
1 ATTAAAAAATATTTTATTGT
* *
56352 ATTAAAAACTTTTTTATTGT
1 ATTAAAAAATATTTTATTGT
56372 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
ATTAAAAAATATTTTATTGT
Found at i:56923 original size:28 final size:28
Alignment explanation
Indices: 56867--56923 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
56857 TATTTTTTAT
* * *
56867 ATTAAAAATTAATTTTTTAATTAATAAA
1 ATTAAAAATTAATATTTTAATCAACAAA
56895 ATTAAAAATTTAATATTTTAA-CAACAAA
1 ATTAAAAA-TTAATATTTTAATCAACAAA
56923 A
1 A
56924 ATTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTAAAAATTAATATTTTAATCAACAAA
Found at i:56924 original size:29 final size:28
Alignment explanation
Indices: 56867--56935 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 28
56857 TATTTTTTAT
* * *
56867 ATTAAAAATTAATTTTTTAATTAATAAA
1 ATTAAAAATTAATATTTTAATCAAAAAA
56895 ATTAAAAATTTAATATTTTAA-CAACAAAA
1 ATTAAAAA-TTAATATTTTAATCAA-AAAA
*
56924 ATT-ATAATTAAT
1 ATTAAAAATTAAT
56936 GATAAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.14
28 13 0.37
29 17 0.49
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
ATTAAAAATTAATATTTTAATCAAAAAA
Found at i:57105 original size:17 final size:16
Alignment explanation
Indices: 57085--57150 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 16
57075 ATTATTTGAT
57085 ATAAATATAGTATAAAA
1 ATAAATATA-TATAAAA
*
57102 ATAATTATAATATAATATA
1 ATAAATAT-ATATAA-A-A
*
57121 ATACATGATATAT-AAA
1 ATAAAT-ATATATAAAA
*
57137 ATTAATATATATAA
1 ATAAATATATATAA
57151 TATATATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
15 6 0.15
16 6 0.15
17 13 0.33
18 3 0.08
19 9 0.23
20 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAATATATATAAAA
Found at i:57132 original size:22 final size:21
Alignment explanation
Indices: 57081--57159 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
57071 AATTATTATT
* *
57081 TGATATAAATATAGTATAAAAA
1 TGATAT-AATATAATATAATAA
*
57103 TAATTATAATATAATATAATACA
1 TGA-TATAATATAATATAATA-A
*
57126 TGATAT-ATAAAAT-TAAT-A
1 TGATATAATATAATATAATAA
57144 T-ATATAATAT-ATATAA
1 TGATATAATATAATATAA
57160 ATATTTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
20 4 0.09
21 6 0.13
22 17 0.36
23 6 0.13
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (21 bp):
TGATATAATATAATATAATAA
Found at i:57182 original size:34 final size:34
Alignment explanation
Indices: 57111--57251 Score: 108
Period size: 32 Copynumber: 4.4 Consensus size: 34
57101 AATAATTATA
* * *
57111 ATATAATATA-ATACATGATATATAAAATTAATA-T
1 ATATAATATATATAAAT-AT-TTTAAAATTTATATT
57145 ATATAATATATATAAATATTTTAAAATTTATATT
1 ATATAATATATATAAATATTTTAAAATTTATATT
* *
57179 ATAT-ATAT-TATTAATATATTAAAATTT-TATT
1 ATATAATATATATAAATATTTTAAAATTTATATT
* *
57210 -TA-AATATA-AT--TTA-TTTAAAATATA-ATT
1 ATATAATATATATAAATATTTTAAAATTTATATT
57237 ATATAATAATATATA
1 ATATAAT-ATATATA
57252 TAAATGTGAA
Statistics
Matches: 89, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
27 11 0.12
28 4 0.04
29 3 0.03
30 11 0.12
31 6 0.07
32 17 0.19
33 15 0.17
34 17 0.19
35 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (34 bp):
ATATAATATATATAAATATTTTAAAATTTATATT
Found at i:57230 original size:16 final size:16
Alignment explanation
Indices: 57204--57249 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
57194 ATATTAAAAT
57204 TTTATTT-AAATATAA
1 TTTATTTAAAATATAA
57219 TTTATTTAAAATATAA
1 TTTATTTAAAATATAA
*
57235 -TTATATAATAATATA
1 TTTATTTAA-AATATA
57250 TATAAATGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 14 0.50
16 14 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATTTAAAATATAA
Found at i:57248 original size:32 final size:31
Alignment explanation
Indices: 57083--57253 Score: 99
Period size: 32 Copynumber: 5.3 Consensus size: 31
57073 TTATTATTTG
* *
57083 ATATAAATATAGTATAAAAATAATTATA-ATATA
1 ATAT-AATATA-TTTAAAATTAATTATATA-ATA
57116 ATATAATACATGATATATAAAATTAATATATATAATA
1 ATATAAT--AT-AT-T-TAAAATTAAT-TATATAATA
57153 TATATAA-ATATTTTAAAATTTATATTATAT-ATA
1 -ATATAATATA-TTTAAAA-TTA-ATTATATAATA
* *
57186 TTATTAATATA-TTAAAATT--TTAT-TTA-A
1 ATA-TAATATATTTAAAATTAATTATATAATA
*
57213 ATATAATTTATTTAAAATATAATTATATAATA
1 ATATAATATATTTAAAAT-TAATTATATAATA
57245 ATAT-ATATA
1 ATATAATATA
57254 AATGTGAATA
Statistics
Matches: 111, Mismatches: 7, Indels: 42
0.69 0.04 0.26
Matches are distributed among these distances:
26 6 0.05
27 11 0.10
28 6 0.05
30 4 0.04
31 8 0.07
32 16 0.14
33 15 0.14
34 16 0.14
35 6 0.05
36 9 0.08
37 7 0.06
38 7 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (31 bp):
ATATAATATATTTAAAATTAATTATATAATA
Found at i:66404 original size:51 final size:51
Alignment explanation
Indices: 66297--66421 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 51
66287 AACAGGGATA
* * ** * *
66297 GAGTATCCTCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTG
1 GAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAAACCAGAGTTG
* *
66348 GAGTATCCCCGATTGTGGAAAATCGATGCTTTCGAAATAAAATCAGAGTTG
1 GAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAAACCAGAGTTG
* *
66399 TAGTATCCCCGATTGTGAAAAAT
1 GAGTATCCCCGATTGTGGAAAAT
66422 TGGTATTTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAAACCAGAGTTG
Found at i:66440 original size:51 final size:51
Alignment explanation
Indices: 66297--66459 Score: 146
Period size: 51 Copynumber: 3.2 Consensus size: 51
66287 AACAGGGATA
* * * * *** * *
66297 GAGTATCCTCGATTATGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAATCAGAGTTG
* * *
66348 GAGTATCCCCGATTGTGGAAAATCGATGCTTTCGAAATAAAATCAGAGTTG
1 GAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAATCAGAGTTG
* * * * * * * *
66399 TAGTATCCCCGATTGTGAAAAATTGGTATTTTAGGACTAAAATCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAATCAGAGTTG
66450 GAGTATCCCC
1 GAGTATCCCC
66460 TCGAAAATAA
Statistics
Matches: 92, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 92 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAATCAGAGTTG
Found at i:66562 original size:51 final size:48
Alignment explanation
Indices: 66475--66593 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 48
66465 AATAACAGGA
* *
66475 TTGGAGTATCCCCGATGAAAAATTAATATTTTAGAAATAAAACCGGAG
1 TTGGAGTATCCCCGATGAAAAATCAATACTTTAGAAATAAAACCGGAG
* * ** *
66523 TTGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGGG
1 TTGGAGTATCCCCGA---TGAAAAATCAATACTTTAGAAATAAAACCGGAG
66574 TTGGAGTATCCCCG-TGAAAA
1 TTGGAGTATCCCCGATGAAAA
66594 TAACGGGGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
47 6 0.10
48 15 0.25
51 40 0.66
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
TTGGAGTATCCCCGATGAAAAATCAATACTTTAGAAATAAAACCGGAG
Found at i:66593 original size:127 final size:128
Alignment explanation
Indices: 66381--66626 Score: 325
Period size: 127 Copynumber: 1.9 Consensus size: 128
66371 CGATGCTTTC
* * * * * * * *
66381 GAAATAAAATCAGAGTTGTAGTATCCCCGATTGTGAAAAATTGGTATTTTAGGACTAAAATCGGG
1 GAAATAAAACCAGAGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAACCGGG
*
66446 GTTGGAGTATCCCCTCGAAAATAACAGGATTGGAGTATCCCC-GATGAAAAATTAATATTTTA
66 GTTGGAGTATCCCCTCGAAAATAACAGGATTGGAATATCCCCAGATGAAAAATTAATATTTTA
* * **
66508 GAAATAAAACCGGAGTTGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATAAGGCCGGG
1 GAAATAAAACCAGAGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAACCGGG
* *
66573 GTTGGAGTATCCCCGT-GAAAATAACGGGGTTGGAATATCCCCGAGATGAAAAAT
66 GTTGGAGTATCCCC-TCGAAAATAACAGGATTGGAATATCCCC-AGATGAAAAAT
66627 CTAGAAATTT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
127 90 0.89
128 1 0.01
129 10 0.10
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (128 bp):
GAAATAAAACCAGAGTTGGAGTATCCCCGATTGTGAAAAATCGATACTTTAGAAATAAAACCGGG
GTTGGAGTATCCCCTCGAAAATAACAGGATTGGAATATCCCCAGATGAAAAATTAATATTTTA
Found at i:68929 original size:20 final size:20
Alignment explanation
Indices: 68904--68978 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
68894 AAAATGCCTG
68904 AATGTATCGATACATTTTAC
1 AATGTATCGATACATTTTAC
* *
68924 AATGTATCGATACA-ATGAGC
1 AATGTATCGATACATTTTA-C
* * *
68944 AATGTATCGATACAATGTAA
1 AATGTATCGATACATTTTAC
68964 AATGTATCGATACAT
1 AATGTATCGATACAT
68979 CTGGGTAAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 43 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTTTAC
Found at i:69033 original size:13 final size:13
Alignment explanation
Indices: 69015--69041 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69005 TACAAAGATT
69015 AATGTATCGATAC
1 AATGTATCGATAC
69028 AATGTATCGATAC
1 AATGTATCGATAC
69041 A
1 A
69042 TTGAATAATG
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):
AATGTATCGATAC
Found at i:69038 original size:33 final size:33
Alignment explanation
Indices: 68996--69061 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
68986 AACTTCCTAG
*
68996 ATGTATCGATACAAAGATTAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
**
69029 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
69062 TTTCCTTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:69158 original size:31 final size:31
Alignment explanation
Indices: 69120--69182 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
69110 TATGCATCGA
69120 TACATTTACTGTTTGTATCGATACAAATTAT
1 TACATTTACTGTTTGTATCGATACAAATTAT
69151 TACATTTACTGTTTGTATCGATACAAATTAT
1 TACATTTACTGTTTGTATCGATACAAATTAT
69182 T
1 T
69183 GAAATTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (31 bp):
TACATTTACTGTTTGTATCGATACAAATTAT
Found at i:74615 original size:21 final size:20
Alignment explanation
Indices: 74587--74625 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
74577 CAAATTTTTG
74587 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
74607 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
74626 AGGTCCCAAT
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:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:74784 original size:13 final size:13
Alignment explanation
Indices: 74766--74793 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
74756 CATTATTCAA
74766 TGTATCGATACAT
1 TGTATCGATACAT
74779 TGTATCGATACAT
1 TGTATCGATACAT
74792 TG
1 TG
74794 ATCTTTGTAT
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:74790 original size:33 final size:33
Alignment explanation
Indices: 74748--74810 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
74738 CAAGGAAATA
74748 TATCGATACATT-ATTCAATGTATCGATACATTG
1 TATCGATACATTGA-TCAATGTATCGATACATTG
**
74781 TATCGATACATTGATCTTTGTATCGATACA
1 TATCGATACATTGATCAATGTATCGATACA
74811 ACTGGGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TATCGATACATTGATCAATGTATCGATACATTG
Found at i:75713 original size:22 final size:22
Alignment explanation
Indices: 75688--75735 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
75678 GATTATGTTA
75688 ACAGCCCATGATTCATGCATTT
1 ACAGCCCATGATTCATGCATTT
* *
75710 ACAG-CTATGTTTCATGCATTT
1 ACAGCCCATGATTCATGCATTT
75731 ACAGC
1 ACAGC
75736 ATGTCCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (22 bp):
ACAGCCCATGATTCATGCATTT
Found at i:75724 original size:21 final size:20
Alignment explanation
Indices: 75694--75739 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
75684 GTTAACAGCC
*
75694 CATGATTCATGCATTTACAG
1 CATGTTTCATGCATTTACAG
75714 CTATGTTTCATGCATTTACAG
1 C-ATGTTTCATGCATTTACAG
75735 CATGT
1 CATGT
75740 CCAGCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 5 0.21
21 19 0.79
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (20 bp):
CATGTTTCATGCATTTACAG
Found at i:77020 original size:27 final size:27
Alignment explanation
Indices: 76990--77059 Score: 140
Period size: 27 Copynumber: 2.6 Consensus size: 27
76980 TTTATTCATC
76990 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
77017 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
77044 GGGGACACTCCAACCC
1 GGGGACACTCCAACCC
77060 TGTTTTCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.23, C:0.44, G:0.20, T:0.13
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:83252 original size:22 final size:21
Alignment explanation
Indices: 83214--83264 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 21
83204 AAATAAGAAA
83214 AAAAGAAATTTGAAAAAAAAATG
1 AAAA-AAATTTGAAAAAAAAA-G
83237 AAAAAAATTGTG-AAAAAAAAG
1 AAAAAAATT-TGAAAAAAAAAG
83258 AAAAAAA
1 AAAAAAA
83265 AATTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.30
22 13 0.48
23 6 0.22
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
AAAAAAATTTGAAAAAAAAAG
Found at i:83263 original size:23 final size:22
Alignment explanation
Indices: 83201--83268 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 22
83191 TTTTATATAA
83201 AAAAAATAAGAAAAAAAGAAATTTG
1 AAAAAA-AAG-AAAAAA-AAATTTG
*
83226 AAAAAAAA-ATGAAAAAAATTGTG
1 AAAAAAAAGA-AAAAAAAATT-TG
83249 AAAAAAAAGAAAAAAAAATT
1 AAAAAAAAGAAAAAAAAATT
83269 ATTTAAGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
22 6 0.16
23 23 0.61
24 3 0.08
25 6 0.16
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAAAAAGAAAAAAAAATTTG
Found at i:84387 original size:26 final size:26
Alignment explanation
Indices: 84352--84405 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
84342 TGAGATCTAA
84352 TTGATGTTTATATTTTTCAT-TATTC
1 TTGATGTTTATATTTTTCATCTATTC
* *
84377 TTGAGTGTTTATTTTTTTCTTCTATTC
1 TTGA-TGTTTATATTTTTCATCTATTC
84404 TT
1 TT
84406 CATAATCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 14 0.56
27 7 0.28
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (26 bp):
TTGATGTTTATATTTTTCATCTATTC
Found at i:88480 original size:13 final size:13
Alignment explanation
Indices: 88462--88487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88452 ACAAAGATCC
88462 ATGTATCGATACA
1 ATGTATCGATACA
88475 ATGTATCGATACA
1 ATGTATCGATACA
88488 TTGAGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88574 original size:32 final size:32
Alignment explanation
Indices: 88533--88633 Score: 193
Period size: 32 Copynumber: 3.2 Consensus size: 32
88523 CTTTGTAGCA
88533 ATACATTGTATCGATAGAACACTTATGTATTG
1 ATACATTGTATCGATAGAACACTTATGTATTG
88565 ATACATTGTATCGATAGAACACTTATGTATTG
1 ATACATTGTATCGATAGAACACTTATGTATTG
*
88597 ATACATTGTATCGATACAACACTTATGTATTG
1 ATACATTGTATCGATAGAACACTTATGTATTG
88629 ATACA
1 ATACA
88634 GTTACTGTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (32 bp):
ATACATTGTATCGATAGAACACTTATGTATTG
Found at i:88633 original size:19 final size:18
Alignment explanation
Indices: 88539--88631 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 18
88529 AGCAATACAT
88539 TGTATCGATAGAACACTTA
1 TGTATCGATA-AACACTTA
*
88558 TGTATTGAT--ACA--T-
1 TGTATCGATAAACACTTA
88571 TGTATCGATAGAACACTTA
1 TGTATCGATA-AACACTTA
*
88590 TGTATTGAT--ACA--T-
1 TGTATCGATAAACACTTA
88603 TGTATCGATACAACACTTA
1 TGTATCGATA-AACACTTA
*
88622 TGTATTGATA
1 TGTATCGATA
88632 CAGTTACTGT
Statistics
Matches: 57, Mismatches: 5, Indels: 24
0.66 0.06 0.28
Matches are distributed among these distances:
13 16 0.28
14 2 0.04
16 12 0.21
18 2 0.04
19 25 0.44
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (18 bp):
TGTATCGATAAACACTTA
Found at i:90713 original size:97 final size:95
Alignment explanation
Indices: 90571--90809 Score: 271
Period size: 96 Copynumber: 2.5 Consensus size: 95
90561 AACCCCATTC
* * * *
90571 TTAAGCTTGTCAAGATTTAAATCTTATTTTTGATTAGATTGTCATTATCGAAGATACTCCAACCT
1 TTAAACTTGTCAAGATTTAAATCTTATTTTT-ATTAAATTATCATTATCGAAGATACTCCAACCC
* * *
90636 CATTTTTCCTAGAGAATACTCAAACCTCATTT
65 CATCTTT-CGAGAGAATACTCAAACCTCACTT
* * ** *
90668 TTAAATTTGTCAAGATTTAAATCTTATTTTTATTTAAATTATCATTATTGGGGATACTCTAACCC
1 TTAAACTTGTCAAGATTTAAATCTTATTTTTA-TTAAATTATCATTATCGAAGATACTCCAACCC
* * *
90733 CATCTTTCGAGGGGATACTCTAACCTCACTT
65 CATCTTTCGAGAGAATACTCAAACCTCACTT
* * * *
90764 TTATACTTATCAAGATTTAAATCTTATTTTCACCTAAATTATCATT
1 TTAAACTTGTCAAGATTTAAATCTTATTTTTA-TTAAATTATCATT
90810 GTCAGAGACA
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
96 60 0.50
97 60 0.50
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (95 bp):
TTAAACTTGTCAAGATTTAAATCTTATTTTTATTAAATTATCATTATCGAAGATACTCCAACCCC
ATCTTTCGAGAGAATACTCAAACCTCACTT
Found at i:92530 original size:2 final size:2
Alignment explanation
Indices: 92523--92550 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92513 ATTTGTTTAC
92523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92551 CTTCGATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95045 original size:15 final size:15
Alignment explanation
Indices: 95025--95054 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95015 CCAAAGGGAT
95025 ATATATATATAGGTG
1 ATATATATATAGGTG
95040 ATATATATATAGGTG
1 ATATATATATAGGTG
95055 CACTAGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (15 bp):
ATATATATATAGGTG
Found at i:95678 original size:15 final size:15
Alignment explanation
Indices: 95658--95687 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95648 CATGTTACAG
95658 CATAATCTCCCATGA
1 CATAATCTCCCATGA
95673 CATAATCTCCCATGA
1 CATAATCTCCCATGA
95688 AGAACACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
CATAATCTCCCATGA
Found at i:97051 original size:18 final size:18
Alignment explanation
Indices: 97030--97134 Score: 117
Period size: 18 Copynumber: 5.9 Consensus size: 18
97020 TTTATGACTT
97030 TTAAAAAATCTGTGATTC
1 TTAAAAAATCTGTGATTC
* *
97048 TTAAAAAATCTAATAATTC
1 TTAAAAAATCT-GTGATTC
*
97067 TTAGAAAATCTGTGATTC
1 TTAAAAAATCTGTGATTC
* **
97085 TTAGAAAATCT-AAATTC
1 TTAAAAAATCTGTGATTC
*
97102 TTAAAAAATCTGTGATTG
1 TTAAAAAATCTGTGATTC
97120 TT--AAAATCTGTGATT
1 TTAAAAAATCTGTGATT
97135 TATGCTAATC
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
16 13 0.18
17 14 0.19
18 32 0.43
19 15 0.20
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (18 bp):
TTAAAAAATCTGTGATTC
Found at i:97110 original size:35 final size:37
Alignment explanation
Indices: 97030--97125 Score: 151
Period size: 37 Copynumber: 2.6 Consensus size: 37
97020 TTTATGACTT
97030 TTAAAAAATCTGTGATTCTTAAAAAATCTAATAATTC
1 TTAAAAAATCTGTGATTCTTAAAAAATCTAATAATTC
* *
97067 TTAGAAAATCTGTGATTCTTAGAAAATCT-A-AATTC
1 TTAAAAAATCTGTGATTCTTAAAAAATCTAATAATTC
*
97102 TTAAAAAATCTGTGATTGTTAAAA
1 TTAAAAAATCTGTGATTCTTAAAA
97126 TCTGTGATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 26 0.48
36 1 0.02
37 27 0.50
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (37 bp):
TTAAAAAATCTGTGATTCTTAAAAAATCTAATAATTC
Found at i:99897 original size:16 final size:16
Alignment explanation
Indices: 99876--99940 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 16
99866 ATTAGGGTTT
99876 AAAATTTATGATTACA
1 AAAATTTATGATTACA
99892 AAAATTTATGATTTTTA-A
1 AAAATTTATGA---TTACA
99910 AAAATTTATGATT-CTTAA
1 AAAATTTATGATTAC---A
99928 AAAATTTATGATT
1 AAAATTTATGATT
99941 TTTAAAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.05
16 11 0.26
18 26 0.62
19 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
AAAATTTATGATTACA
Found at i:99914 original size:18 final size:18
Alignment explanation
Indices: 99891--99995 Score: 158
Period size: 18 Copynumber: 5.8 Consensus size: 18
99881 TTATGATTAC
99891 AAAAATTTATGATTTTTA
1 AAAAATTTATGATTTTTA
*
99909 AAAAATTTATGATTCTTA
1 AAAAATTTATGATTTTTA
99927 AAAAATTTATGATTTTTA
1 AAAAATTTATGATTTTTA
*
99945 AAATATTTAATGATTTTTA
1 AAAAATTT-ATGATTTTTA
*
99964 AAAAATCTATGATTTTT-
1 AAAAATTTATGATTTTTA
*
99981 AAAAATCTATGATTT
1 AAAAATTTATGATTT
99996 ATATTAATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
17 15 0.19
18 50 0.62
19 16 0.20
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.48
Consensus pattern (18 bp):
AAAAATTTATGATTTTTA
Found at i:99967 original size:37 final size:36
Alignment explanation
Indices: 99876--99994 Score: 156
Period size: 36 Copynumber: 3.4 Consensus size: 36
99866 ATTAGGGTTT
99876 AAAATTTATGA---TTACAAAAATTTATGATTTTTAA
1 AAAATTTATGATTCTTA-AAAAATTTATGATTTTTAA
99910 AAAATTTATGATTCTTAAAAAATTTATGATTTTTAA
1 AAAATTTATGATTCTTAAAAAATTTATGATTTTTAA
* * *
99946 AATATTTAATGATTTTTAAAAAATCTATGATTTTT-A
1 AAAATTT-ATGATTCTTAAAAAATTTATGATTTTTAA
*
99982 AAAATCTATGATT
1 AAAATTTATGATT
99995 TATATTAATT
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
34 11 0.14
35 6 0.08
36 31 0.41
37 28 0.37
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
AAAATTTATGATTCTTAAAAAATTTATGATTTTTAA
Found at i:100030 original size:27 final size:26
Alignment explanation
Indices: 100005--100058 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
99995 TATATTAATT
*
100005 TATA-TTAAAATTTATTTAAATATAA
1 TATATTTAAAATATATTTAAATATAA
* *
100030 TATATTTTAAATATAATTATAATATAA
1 TATATTTAAAATATATTTA-AATATAA
100057 TA
1 TA
100059 AAATATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 11 0.46
27 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATTTAAAATATATTTAAATATAA
Found at i:100492 original size:7 final size:8
Alignment explanation
Indices: 100475--100499 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
100465 GATAGTACAA
100475 TTTATTTT
1 TTTATTTT
100483 TTTATTTT
1 TTTATTTT
100491 TTTATTTT
1 TTTATTTT
100499 T
1 T
100500 AAATAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:100598 original size:19 final size:19
Alignment explanation
Indices: 100531--100603 Score: 50
Period size: 20 Copynumber: 4.1 Consensus size: 19
100521 ATTAAAATTA
100531 TTTTATTTAAAAAATATAAT
1 TTTTA-TTAAAAAATATAAT
* *
100551 ATTTAACTAAAAAAT-T-A-
1 -TTTTATTAAAAAATATAAT
* *
100568 TTATA-T-ATAAATATAAT
1 TTTTATTAAAAAATATAAT
100585 TTTTATTAAAAAATA-AAT
1 TTTTATTAAAAAATATAAT
100603 T
1 T
100604 ACTAGTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 13
0.67 0.12 0.22
Matches are distributed among these distances:
14 5 0.12
15 2 0.05
16 4 0.10
17 4 0.10
18 6 0.15
19 7 0.17
20 8 0.20
21 4 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTATTAAAAAATATAAT
Found at i:110325 original size:22 final size:22
Alignment explanation
Indices: 110283--110324 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
110273 AAAAATCTAT
*
110283 TTAAATGATGATATGGCTTTTA
1 TTAAATGATGACATGGCTTTTA
*
110305 TTAAAT-ATGACATGTCTTTT
1 TTAAATGATGACATGGCTTTT
110325 TGTGTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TTAAATGATGACATGGCTTTTA
Found at i:119898 original size:22 final size:22
Alignment explanation
Indices: 119873--119917 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
119863 GTGCTTGTAC
* *
119873 TATTTACTTTGTGACTATTTAG
1 TATTTACTTTATCACTATTTAG
**
119895 TATTTGGTTTATCACTATTTAG
1 TATTTACTTTATCACTATTTAG
119917 T
1 T
119918 TTGTGAGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTTACTTTATCACTATTTAG
Found at i:120029 original size:13 final size:12
Alignment explanation
Indices: 120009--120041 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
119999 AATCAAACAA
120009 TTTATTTATAAT
1 TTTATTTATAAT
120021 TTTATTTTATAAT
1 TTTA-TTTATAAT
120034 TTT-TTTAT
1 TTTATTTAT
120042 TTTCTTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 4 0.20
13 11 0.55
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTTATAAT
Found at i:120977 original size:27 final size:28
Alignment explanation
Indices: 120907--120978 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 28
120897 AATTAACTAT
120907 TTAAAGTTATTAATATTTAATTTTTGATAA
1 TTAAA-TTATTAA-ATTTAATTTTTGATAA
* *
120937 TTAAAATTA-AAAATTTAGTTTTT-ATGAA
1 TT-AAATTATTAAATTTAATTTTTGAT-AA
120965 -TAAATTATTAAATT
1 TTAAATTATTAAATT
120979 ATTGATAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
26 6 0.17
27 8 0.22
28 12 0.33
29 2 0.06
30 5 0.14
31 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (28 bp):
TTAAATTATTAAATTTAATTTTTGATAA
Found at i:121191 original size:17 final size:17
Alignment explanation
Indices: 121169--121228 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
121159 ATTATTGAAG
*
121169 TATAATA-AAAAATTAAA
1 TATAATATAAAAAAT-AA
121186 TATAATATAAAAAATAA
1 TATAATATAAAAAATAA
* *
121203 TATAA-ATATAATATAA
1 TATAATATAAAAAATAA
121219 TATAAATATA
1 TAT-AATATA
121229 TAAATTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.32
17 16 0.43
18 9 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAATATAAAAAATAA
Found at i:121192 original size:5 final size:5
Alignment explanation
Indices: 121184--121231 Score: 52
Period size: 5 Copynumber: 10.4 Consensus size: 5
121174 TAAAAAATTA
121184 AATAT AATAT AA-A- AA-AT AATAT AAATAT AATAT AATAT AA-AT -ATAT
1 AATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AATAT
121230 AA
1 AA
121232 ATTTTTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
3 4 0.11
4 7 0.18
5 22 0.58
6 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (5 bp):
AATAT
Found at i:121213 original size:11 final size:11
Alignment explanation
Indices: 121182--121228 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
121172 AATAAAAAAT
121182 TAAATATAATA
1 TAAATATAATA
*
121193 TAAAAAATAATA
1 T-AAATATAATA
121205 TAAATATAATA
1 TAAATATAATA
121216 T-AATATAAATA
1 TAAATAT-AATA
121227 TA
1 TA
121229 TAAATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 5 0.16
11 16 0.52
12 10 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
TAAATATAATA
Found at i:121220 original size:16 final size:16
Alignment explanation
Indices: 121184--121233 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
121174 TAAAAAATTA
*
121184 AATATAATATAAAAAAT
1 AATATAA-ATATAAAAT
*
121201 AATATAAATATAATAT
1 AATATAAATATAAAAT
121217 AATATAAATATATAAAT
1 AATATAAATATA-AAAT
121234 TTTTAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 19 0.66
17 10 0.34
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATATAAATATAAAAT
Found at i:121665 original size:23 final size:23
Alignment explanation
Indices: 121635--121679 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
121625 AAATATAGTT
121635 AAAATATTATTTTAAAA-AATATA
1 AAAATATT-TTTTAAAATAATATA
121658 AAAATATTTTTTAAAATAATAT
1 AAAATATTTTTTAAAATAATAT
121680 TTTTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAATATTTTTTAAAATAATATA
Found at i:125441 original size:22 final size:23
Alignment explanation
Indices: 125414--125463 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
125404 TTTTTTTTAA
125414 TAAATTTATAA-ATATTAAA-ATT
1 TAAATTTA-AATATATTAAATATT
125436 TAAATTTAAATATATTAAATATT
1 TAAATTTAAATATATTAAATATT
*
125459 AAAAT
1 TAAAT
125464 AATTTTACGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATTTAAATATATTAAATATT
Found at i:130774 original size:31 final size:30
Alignment explanation
Indices: 130733--130795 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 30
130723 TTTAAAAAAT
130733 ATTAATAAAAAACTT-ATTAAAAATATATTTA
1 ATTAAT-AAAAA-TTAATTAAAAATATATTTA
*
130764 ATTATTAAAAATTAAATTAAAAATATATTTA
1 ATTAATAAAAATT-AATTAAAAATATATTTA
130795 A
1 A
130796 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 2 0.07
30 5 0.17
31 22 0.76
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
ATTAATAAAAATTAATTAAAAATATATTTA
Found at i:131835 original size:52 final size:53
Alignment explanation
Indices: 131714--131816 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 53
131704 ATTAATTTTT
*
131714 AAATTATTATTTAAAAATAATAAAAAATTAAAAAATATTTTACATTAAATCCC
1 AAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTACATTAAATCCC
* * * *
131767 AAATAACTATTTAAAAATAAT-AAAAATTTAAAAGTATTTTATATTAAATC
1 AAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTACATTAAATC
131817 TTGTATTACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 26 0.58
53 19 0.42
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (53 bp):
AAATTACTATTTAAAAATAATAAAAAATTAAAAAATATTTTACATTAAATCCC
Found at i:131930 original size:21 final size:20
Alignment explanation
Indices: 131897--131936 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
131887 TATATATTGA
131897 AAATACATTTAAAGAATAAT
1 AAATACATTTAAAGAATAAT
* *
131917 AAATATATATTAAATAATAA
1 AAATACAT-TTAAAGAATAA
131937 ATATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATACATTTAAAGAATAAT
Found at i:132384 original size:51 final size:52
Alignment explanation
Indices: 132171--132395 Score: 278
Period size: 53 Copynumber: 4.3 Consensus size: 52
132161 CTAAAAATAT
** * *
132171 TATTTAAAAATAATAAAAGATTAAAATATATTTTATATTAAATCTTGAATCAT
1 TATTTAAAAATAATAAAAGATTAAAA-ATATTTTATATTAAATCTCAAATTAC
* *
132224 TATTTAAAAATAAT-AAAG-TTAAAAAATAGTTTATATTAAATCTCAAATAAC
1 TATTTAAAAATAATAAAAGATT-AAAAATATTTTATATTAAATCTCAAATTAC
** *
132275 TATTTAAAAATAATAAATATTTTAAAAATATTTTATATTAAATCTCAAATTAT
1 TATTTAAAAATAATAAA-AGATTAAAAATATTTTATATTAAATCTCAAATTAC
*
132328 TATTTAAAAATAATAAAA-ATT-AAAATATTTTATATTAAATTTCAAAATTAC
1 TATTTAAAAATAATAAAAGATTAAAAATATTTTATATTAAATCTC-AAATTAC
*
132379 AATTTAAGAAATAATAA
1 TATTTAA-AAATAATAA
132396 TTTTTCATTA
Statistics
Matches: 153, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
50 21 0.14
51 51 0.33
52 20 0.13
53 59 0.39
54 2 0.01
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (52 bp):
TATTTAAAAATAATAAAAGATTAAAAATATTTTATATTAAATCTCAAATTAC
Found at i:132384 original size:104 final size:103
Alignment explanation
Indices: 132172--132395 Score: 299
Period size: 104 Copynumber: 2.1 Consensus size: 103
132162 TAAAAATATT
**
132172 ATTTAAAAATAATAAAAGATTAAAATATATTTTATATTAAATCTTGAATCATTATTTAAAAATAA
1 ATTTAAAAATAATAAAAGATTAAAATATATTTTATATTAAATCTCAAATCATTATTTAAAAATAA
* *
132237 TAAAGTTAAAAAATAGTTTATATTAAATCTCAAATAACT
66 TAAAATT-AAAAATAGTTTATATTAAATCTCAAATAACA
** *
132276 ATTTAAAAATAATAAATATTTTAAAA-ATATTTTATATTAAATCTCAAATTATTATTTAAAAATA
1 ATTTAAAAATAATAAA-AGATTAAAATATATTTTATATTAAATCTCAAATCATTATTTAAAAATA
* * *
132340 ATAAAAATT-AAAATATTTTATATTAAATTTCAAAATTACA
65 AT-AAAATTAAAAATAGTTTATATTAAATCTC-AAATAACA
132380 ATTTAAGAAATAATAA
1 ATTTAA-AAATAATAA
132396 TTTTTCATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
103 20 0.19
104 65 0.61
105 21 0.20
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (103 bp):
ATTTAAAAATAATAAAAGATTAAAATATATTTTATATTAAATCTCAAATCATTATTTAAAAATAA
TAAAATTAAAAATAGTTTATATTAAATCTCAAATAACA
Found at i:132526 original size:21 final size:21
Alignment explanation
Indices: 132502--132541 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
132492 AATTGGTTTA
*
132502 ATTAAAATTATATTTATATTC
1 ATTAAAATTATATGTATATTC
132523 ATTAAAATTATATGTATAT
1 ATTAAAATTATATGTATAT
132542 CTTGTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (21 bp):
ATTAAAATTATATGTATATTC
Found at i:132833 original size:52 final size:52
Alignment explanation
Indices: 132769--132881 Score: 158
Period size: 52 Copynumber: 2.1 Consensus size: 52
132759 ATGTACCTAT
*
132769 TATTTTTAATTTTTTATTATTTTTAAATAATAAT-TTAGGATTTAATAT-AAA
1 TATTTTTAATTTTTTACTATTTTTAAATAATAATCTTA-GATTTAATATAAAA
*
132820 TATTTTTAAATTTTTTACTATTTTTAAATTATAATCCTTAGATTTAATATAAAA
1 TATTTTT-AATTTTTTACTATTTTTAAATAATAAT-CTTAGATTTAATATAAAA
132874 TATGTTTT
1 TAT-TTTT
132882 TAAGATAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
51 7 0.13
52 25 0.45
53 10 0.18
54 9 0.16
55 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (52 bp):
TATTTTTAATTTTTTACTATTTTTAAATAATAATCTTAGATTTAATATAAAA
Found at i:133615 original size:17 final size:17
Alignment explanation
Indices: 133574--133626 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
133564 ATAATTAGTA
*
133574 TTTTATTTATTATAATT
1 TTTTATTTAATATAATT
** *
133591 CATAATTTAATATAATT
1 TTTTATTTAATATAATT
*
133608 TTTTATTTTATA-AATT
1 TTTTATTTAATATAATT
133624 TTT
1 TTT
133627 AAATAGTATT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTTAATATAATT
Found at i:133657 original size:13 final size:13
Alignment explanation
Indices: 133641--133670 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
133631 AGTATTTTCA
*
133641 ATATATATAATTT
1 ATATATATAATAT
133654 ATATATATAATAT
1 ATATATATAATAT
133667 ATAT
1 ATAT
133671 GTTTGAAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATAATAT
Found at i:133775 original size:20 final size:20
Alignment explanation
Indices: 133737--133775 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
133727 TCCAATATAT
* *
133737 ATATATTTATATATTATTTG
1 ATATATATATATATCATTTG
*
133757 ATATATATATTTATCATTT
1 ATATATATATATATCATTT
133776 TTAAAATGTA
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:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (20 bp):
ATATATATATATATCATTTG
Found at i:133862 original size:19 final size:17
Alignment explanation
Indices: 133838--133872 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
133828 ATAATTCAAG
133838 ATTTTATATAATATTTTTT
1 ATTTTATA-AAT-TTTTTT
133857 ATTTTATAAATTTTTT
1 ATTTTATAAATTTTTT
133873 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATAAATTTTTTT
Found at i:133982 original size:54 final size:53
Alignment explanation
Indices: 133910--134012 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
133900 ATTTATTATT
133910 ATTATTTTTAAATAATAATACAAGATTTAATATAAAATAATTTTAAATTTTAA
1 ATTATTTTTAAATAATAATACAAGATTTAATATAAAATAATTTTAAATTTTAA
** * *
133963 ATTATTTGTTAAATAATAATTTATGATTTAATATAAAATATTTTTAAATT
1 ATTATTT-TTAAATAATAATACAAGATTTAATATAAAATAATTTTAAATT
134013 ATTTACATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (53 bp):
ATTATTTTTAAATAATAATACAAGATTTAATATAAAATAATTTTAAATTTTAA
Found at i:138863 original size:19 final size:19
Alignment explanation
Indices: 138839--138877 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
138829 TTTTTATCGA
138839 TTTAATA-AAATATCTAAAT
1 TTTAATATAAATAT-TAAAT
*
138858 TTTAATATAATTATTAAAT
1 TTTAATATAAATATTAAAT
138877 T
1 T
138878 AAATAGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATATAAATATTAAAT
Found at i:139187 original size:18 final size:17
Alignment explanation
Indices: 139164--139209 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
139154 GAAATATTTT
139164 TTAAATATTTAAATTCA
1 TTAAATATTTAAATTCA
* *
139181 GTTAAATATCTAAATTTA
1 -TTAAATATTTAAATTCA
139199 TTAAAATATTT
1 TT-AAATATTT
139210 TTAAAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (17 bp):
TTAAATATTTAAATTCA
Found at i:139798 original size:2 final size:2
Alignment explanation
Indices: 139791--139820 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
139781 TACGATCGTG
139791 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
139821 AGCTTTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:143012 original size:2 final size:2
Alignment explanation
Indices: 143005--143034 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
142995 ATTTTCAAAG
*
143005 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
143035 AATAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:144741 original size:32 final size:32
Alignment explanation
Indices: 144652--144746 Score: 95
Period size: 32 Copynumber: 3.0 Consensus size: 32
144642 TGGTGATTTG
* * *
144652 AAAAGGGTTGCCATTGACTTGCGTGGGCTTTA
1 AAAAGAGTTGCCATCGACTTGTGTGGGCTTTA
* * *
144684 AAAA-AATGTGCCA-CTAACTTATGTGGGCTTTA
1 AAAAGAGT-TGCCATC-GACTTGTGTGGGCTTTA
*
144716 AAAAGAGTTACCATCGACTTGTGTGGGCTTT
1 AAAAGAGTTGCCATCGACTTGTGTGGGCTTT
144747 GAAAGGGTGC
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
31 1 0.02
32 45 0.92
33 3 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (32 bp):
AAAAGAGTTGCCATCGACTTGTGTGGGCTTTA
Found at i:144775 original size:28 final size:28
Alignment explanation
Indices: 144737--146462 Score: 571
Period size: 28 Copynumber: 60.8 Consensus size: 28
144727 CATCGACTTG
144737 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ***
144765 TGTAGGCTTTGAAAAAAAATAATTGCCACTGACTT
1 TGTGGGCTTTG-----AAA-GGGTGCCACTGAC-T
*
144800 GTGTGGGCTTTGAAAGGGTGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
144829 TATGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
* * *
144858 TGTGGGCTTTGAAAAGATGCCACTGTCT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
144886 TGTGGGCTTTGAAAAGGTGCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
144914 TGTGGGCTTTAAAAGGGTATGTCACTGACT
1 TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
144944 TGTGAGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
144972 TGTGGGCTTTG-GAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
144999 TGTGGGCTTTGGAAGGGTGCCACCGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* *
145028 GTGTGGGCTTTGAAAATGAGTTGCCA-TCAACTT
1 -TGTGGGCTTTG-AAA-G-GGTGCCACT-GAC-T
* * *
145061 GTGTGGGCTTTGAAATGAGTTTCCACCGACT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGACT
* * *
145092 TGTGGGCTTTGAAATGATGCCACTCACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
145120 TGTGGACTTTGCAATGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
145148 TGTGGGCTTGGAAATGATGCCACAGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
145176 TGTGGGCTTTGAAATGATACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
145204 TATGGGCTTTGAAATGATGCTACGGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
145232 TATGGACTTT-AAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * * *
145259 TGTGGAC-TTAAAAGGGTACTA-TAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
145286 TGTGGAC-TT-AAACAGGTGCCACGGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACTGACT
* * * * * *
145313 TATGGAC-CTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
145340 GGTGGACTTTAAAAGAGCGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
145368 TGT-GGATTTAAAAGGGTGCTA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* ** * * *
145395 TGT-GGATATAAAAAAAAGAGTTACCACCGACTT
1 TGTGGGCT-T---TGAAAG-GGTGCCACTGAC-T
*** *
145428 GTGTGGGCTTTGAAAATATGCCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
145457 TGTGGGCTTTTAAAAGGATGTCACTGACT
1 TGTGGGC-TTTGAAAGGGTGCCACTGACT
* * * *
145486 TGTGGGCTTTAAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
145514 TGTGGGTTTTAAAATGATGCCACAGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
145542 TGTGGGCTTTAAAAGGGTGCCACAGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
145570 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
145598 TATGGGCTTTGAAATGGGTTGCCA-TCGACTT
1 TGTGGGCTTTGAAA-GGG-TGCCACT-GAC-T
*
145629 GTGTGGGCTTTGAAATGGGTTACCACTGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
* *
145661 GTGTGGGCTTTCAAATGAGTTGCCA-TCGACTT
1 -TGTGGGCTTTGAAA-G-GGTGCCACT-GAC-T
* * *
145693 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-G-GGTGCCACTGACT
* ** * *
145724 TGTGGGCTTTGAAATGACGCTATTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
145752 TGTGGGCTTTGAAATGATGCCAC-GAACT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* *
145780 TGTGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** * *
145808 TGTAAGCTTTGAAATGATGCCA-TGGACT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
145836 TATGGAC-TTCAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * ** *
145863 TGTGGAC-TTAAAAAGGTG-CTGTGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * ** *
145890 TGTGGAC-TT-AAATAGGTATCA-TAGAGT
1 TGTGGGCTTTGAAA-GGGTGCCACT-GACT
* * * * * *
145917 TGTTGAC-CTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * ** *
145944 GGTGGACTTTAAAAAAGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
** * * * *
145972 TGTGAAC-TTAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
145999 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
146026 TGTGGACTTTAAAATGGTACCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * ** * * *
146054 TGTGGAC-CTAAAAGGGCACCGCAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** *
146081 TGTGGAC-TTAAAAGGGTGCCACAAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** *
146108 TGTGGACTTTAAAAAGGGTGCCACAAAGT
1 TGTGGGCTTT-GAAAGGGTGCCACTGACT
* * * * * *
146137 TGTGGACTTTAAAAAGGTGTCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * ** *
146165 TGTGGAC-CTAAAAGGGCGCCACAAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
146192 TGTGGAC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
** * *
146219 TGTGAACTTTGAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * *
146247 TATGGAC-CTAAAAGGGTACTA-TAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * *
146274 TGTGGAC-TTAAAAGGGTGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * *
146301 TGTGGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
146328 TGTGGAC-TTCAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
146355 TGTTGGC-TTGAAAAGGGGTGCGACTGACT
1 TGTGGGCTTTG-AAA-GGGTGCCACTGACT
*
146384 TGTGGGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
146412 TGTGGACTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
** *
146440 TGTGGGCTTAAAAAGGATGCCAC
1 TGTGGGCTTTGAAAGGGTGCCAC
146463 GGAGTTATGA
Statistics
Matches: 1397, Mismatches: 227, Indels: 148
0.79 0.13 0.08
Matches are distributed among these distances:
26 13 0.01
27 424 0.30
28 594 0.43
29 103 0.07
30 91 0.07
31 17 0.01
32 101 0.07
33 26 0.02
34 14 0.01
35 4 0.00
36 10 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:144783 original size:64 final size:65
Alignment explanation
Indices: 144715--144843 Score: 181
Period size: 64 Copynumber: 2.0 Consensus size: 65
144705 TGTGGGCTTT
* * *
144715 AAAAAGAGTTACCA-TCGACTTGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTAGGC-TTTGAA
1 AAAAAGAATTACCACT-GACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTATAGGCTTTTGAA
144778 A
65 A
* * *
144779 AAAAATAATTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTATGGGCTTTTGAAA
1 AAAAAGAATTACCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTATAGGCTTTTGAAA
144844 GGATGCCACT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 49 0.86
65 8 0.14
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (65 bp):
AAAAAGAATTACCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTATAGGCTTTTGAAA
Found at i:144852 original size:93 final size:86
Alignment explanation
Indices: 144677--145217 Score: 287
Period size: 85 Copynumber: 6.1 Consensus size: 86
144667 GACTTGCGTG
** * * * * *
144677 GGCTTT-AAAAAAATGTGCCACTAACTTATGTGGGCTTTAAAAAGAGTTACCATCGACTTGTGTG
1 GGCTTTGAAAAAAAAATGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACCGAC-T-TATG
*
144741 GGCTTTGAAAGGGTGCCACTGACTTGT
60 GGCTTTGAAAGGATGCCACTGACTTGT
*
144768 AGGCTTTGAAAAAAAATAATTGCCACTGACTTGTGTGGGCTTTGAAAGGGTGCCACCGACTTATG
1 -GGCTTTG-AAAAAAA-AA-TGCCACTGAC-T-TGTGGGCTTTGAAAAGGTGCCACCGACTTATG
144833 GGCTTTTGAAAGGATGCCACTGACTTGT
60 GGC-TTTGAAAGGATGCCACTGACTTGT
* * * * *
144861 GGGCTTTG---AAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCTACTGACTTGTGGGCTT
1 -GGCTTTGAAAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTATGGGCTT
* *
144923 TAAAAGGGTATGTCACTGACTTGT
65 TGAAA-GG-ATGCCACTGACTTGT
*** * * * * * *
144947 GAGCTTTG---AAAGGGTGCCATTGACTTGTGGGCTTTG-GAGGGTGCCACTGATTTGTGGGCTT
1 G-GCTTTGAAAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTATGGGCTT
* * * *
145008 TGGAAGGGTGCCACCGATTTGTGT
65 TGAAAGGATGCCACTGA-CT-TGT
** ** * * * *
145032 GGGCTTTGAAAATGAGTTGCCA-TCAACTTGTGTGGGCTTTGAAATGAGTTTCCACCGACTTGTG
1 -GGCTTTGAAAAAAAAATGCCACT-GAC-T-TGTGGGCTTTGAAA--AGGTGCCACCGACTTATG
* *
145096 GGCTTTGAAATGATGCCACTCACTTGT
60 GGCTTTGAAAGGATGCCACTGACTTGT
* *** * * * * * *
145123 GGACTTTG---CAATGGTGCCACTAACTTGTGGGCTTGGAAATGATGCCACAGACTTGTGGGCTT
1 GG-CTTTGAAAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTATGGGCTT
* * *
145185 TGAAATGATACCACTGACTTAT
65 TGAAAGGATGCCACTGACTTGT
145207 GGGCTTTGAAA
1 -GGCTTTGAAA
145218 TGATGCTACG
Statistics
Matches: 360, Mismatches: 63, Indels: 57
0.75 0.13 0.12
Matches are distributed among these distances:
83 7 0.02
84 52 0.14
85 69 0.19
86 59 0.16
87 11 0.03
88 19 0.05
89 6 0.02
90 13 0.04
91 9 0.03
92 13 0.04
93 61 0.17
94 15 0.04
95 1 0.00
96 25 0.07
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (86 bp):
GGCTTTGAAAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACCGACTTATGGGCTTT
GAAAGGATGCCACTGACTTGT
Found at i:145030 original size:113 final size:113
Alignment explanation
Indices: 144801--145275 Score: 327
Period size: 113 Copynumber: 4.2 Consensus size: 113
144791 CACTGACTTG
* *
144801 TGTGGGCTTTGAAAGGGTGCCACCGACTTATGGGCTTTTGAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTAAAAGGGTGCCACCGACTTATGAGCTTTTGAAAGGATGCCACTGACTTGTGGGCT
* *
144866 TTGAAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCTACTGACT
66 TTGAAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCCACCGACT
* * * * *
144914 TGTGGGCTTTAAAAGGGTATGTCACTGACTTGTGAGC-TTTGAAAGGGTGCCATTGACTTGTGGG
1 TGTGGGCTTTAAAAGGG--TGCCACCGACTTATGAGCTTTTGAAAGGATGCCACTGACTTGTGGG
* * * * * *
144978 CTTTG-GAGGGTGCCACTGAT-TTGTGGGCTTTGGAAGGGTGCCACCGATTT
64 CTTTGAAAAGATGCCACTG-TCTTGTGGGCTTTGAAAAGGTGCCACCGA-CT
* * * * * * * *
145028 GTGTGGGCTTTGAAAATGAGTTGCCATCAACTTGTGTGGGC-TTTGAAATGAGTTTCCACCGACT
1 -TGTGGGCTTT-AAAA-G-GGTGCCACCGAC-T-TATGAGCTTTTGAAA-G-GATGCCACTGACT
* ** * * * **
145092 TGTGGGCTTTGAAATGATGCCACTCACTTGTGGACTTTGCAATGGTGCCACTAACT
58 TGTGGGCTTTGAAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCCACCGACT
** * * * * * * * *
145148 TGTGGGCTTGGAAATGATGCCACAGACTTGTGGGC-TTTGAAATGATACCACTGACTTATGGGCT
1 TGTGGGCTTTAAAAGGGTGCCACCGACTTATGAGCTTTTGAAAGGATGCCACTGACTTGTGGGCT
* * * * * * * *
145212 TTGAAATGATGCTACGGACTTATGGACTTT-AAAGGGTGCCA-CGAAGT
66 TTGAAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCCACCG-ACT
*
145259 TGTGGAC-TTAAAAGGGT
1 TGTGGGCTTTAAAAGGGT
145276 ACTATAGAGT
Statistics
Matches: 285, Mismatches: 62, Indels: 33
0.75 0.16 0.09
Matches are distributed among these distances:
110 6 0.02
111 17 0.06
112 43 0.15
113 49 0.17
114 46 0.16
115 25 0.09
116 18 0.06
117 2 0.01
118 17 0.06
119 10 0.04
120 21 0.07
121 31 0.11
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (113 bp):
TGTGGGCTTTAAAAGGGTGCCACCGACTTATGAGCTTTTGAAAGGATGCCACTGACTTGTGGGCT
TTGAAAAGATGCCACTGTCTTGTGGGCTTTGAAAAGGTGCCACCGACT
Found at i:145063 original size:33 final size:33
Alignment explanation
Indices: 145016--145105 Score: 114
Period size: 33 Copynumber: 2.8 Consensus size: 33
145006 TTTGGAAGGG
* *
145016 TGCCACCGATTTGTGTGGGCTTTGAAAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAATGAGT
*
145049 TGCCATCAACTTGTGTGGGCTTTG-AAATGAGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAATGAGT
* *
145081 TTCCACCGAC-T-TGTGGGCTTTGAAA
1 TGCCACCAACTTGTGTGGGCTTTGAAA
145106 TGATGCCACT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.22
31 3 0.06
32 15 0.30
33 21 0.42
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAATGAGT
Found at i:145272 original size:27 final size:27
Alignment explanation
Indices: 145225--145400 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 27
145215 AAATGATGCT
* * *
145225 ACGGACTTATGGACTTTAAAGGGTGCC
1 ACGGAGTTGTGGACTTAAAAGGGTGCC
* * *
145252 ACGAAGTTGTGGACTTAAAAGGGTACT
1 ACGGAGTTGTGGACTTAAAAGGGTGCC
**
145279 ATAGAGTTGTGGACTTAAACA-GGTGCC
1 ACGGAGTTGTGGACTTAAA-AGGGTGCC
* *
145306 ACGGAGTTATGGACCTAAAAGGGTGCC
1 ACGGAGTTGTGGACTTAAAAGGGTGCC
* * *
145333 ACGGAGTGGTGGACTTTAAAAGAGCGCC
1 ACGGAGTTGTGGAC-TTAAAAGGGTGCC
* * *
145361 ATGGAGTTGTGGATTTAAAAGGGTGCT
1 ACGGAGTTGTGGACTTAAAAGGGTGCC
*
145388 ATGGAGTTGTGGA
1 ACGGAGTTGTGGA
145401 TATAAAAAAA
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 97 0.81
28 22 0.18
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (27 bp):
ACGGAGTTGTGGACTTAAAAGGGTGCC
Found at i:145381 original size:55 final size:54
Alignment explanation
Indices: 145234--145400 Score: 201
Period size: 54 Copynumber: 3.1 Consensus size: 54
145224 TACGGACTTA
* * * *
145234 TGGACTTTAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGGTACTATAGAGTTG
1 TGGACTTTAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTATGGAGTTG
* * * * *
145288 TGGAC-TTAAACAGGTGCCACGGAGTTATGGACCTAAAAGGGTGCCACGGAGTGG
1 TGGACTTTAAA-AGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTATGGAGTTG
* * *
145342 TGGACTTTAAAAGAGCGCCATGGAGTTGTGGATTTAAAAGGGTGCTATGGAGTTG
1 TGGACTTTAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCTATGGAGTTG
145397 TGGA
1 TGGA
145401 TATAAAAAAA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 5 0.05
54 46 0.49
55 42 0.45
ACGTcount: A:0.28, C:0.13, G:0.34, T:0.25
Consensus pattern (54 bp):
TGGACTTTAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCTATGGAGTTG
Found at i:145641 original size:32 final size:32
Alignment explanation
Indices: 145600--145783 Score: 199
Period size: 32 Copynumber: 6.0 Consensus size: 32
145590 CACTGACTTA
*
145600 TGGGCTTTGAAATGGGTTGCCATCGACTTGTG
1 TGGGCTTTGAAATGAGTTGCCATCGACTTGTG
* *
145632 TGGGCTTTGAAATGGGTTACCA-CTGACTTGTG
1 TGGGCTTTGAAATGAGTTGCCATC-GACTTGTG
*
145664 TGGGCTTTCAAATGAGTTGCCATCGACTTGTG
1 TGGGCTTTGAAATGAGTTGCCATCGACTTGTG
* *
145696 TGGGCTTTCAAATGAGTTGCCACCGAC-T-TG
1 TGGGCTTTGAAATGAGTTGCCATCGACTTGTG
* * *
145726 TGGGCTTTGAAATGA--CGCTATTGAC-T-TG
1 TGGGCTTTGAAATGAGTTGCCATCGACTTGTG
145754 TGGGCTTTGAAATGA--TGCCA-CGAACTTGTG
1 TGGGCTTTGAAATGAGTTGCCATCG-ACTTGTG
145784 AGCTTTGAAA
Statistics
Matches: 134, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.01
28 29 0.22
29 1 0.01
30 18 0.13
31 2 0.01
32 82 0.61
33 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (32 bp):
TGGGCTTTGAAATGAGTTGCCATCGACTTGTG
Found at i:145754 original size:238 final size:233
Alignment explanation
Indices: 145414--145840 Score: 563
Period size: 238 Copynumber: 1.8 Consensus size: 233
145404 AAAAAAAAGA
* * *
145414 GTTACCACCGACTTGTGTGGGCTTTGAAAATATGCCACCGACTTGTGGGCTTTTAAAAGGATGTC
1 GTTACCACCGACTTGTGTGGGCTTTCAAAATATGCCACCGACTTGTGGGCTTTCAAAAGGATGCC
* * *
145479 ACTGACTTGTGGGCTTTAAAAAGATGCCATTGACTTGTGGGTTTTAAAATGATGCCAC-AGACTT
66 ACCGACTTGTGGGCTTTAAAAAGACGCCATTGACTTGTGGGCTTTAAAATGATGCCACGA-ACTT
* * **
145543 GTGGGCTTTAAAAGGGTGCCACAGACTTGTGGGCTTTAAAAGGATGCCACT-GACTTATGGGCTT
130 GTGAGCTTTAAAAGGATGCCACAGACTTGTAAGCTTTAAAAGGATGCCA-TGGACTTATGGGCTT
145607 TGAAATGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGG
194 TGAAATGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGG
* * *
145647 GTTACCACTGACTTGTGTGGGCTTTC-AAATGAGTTGCCATCGACTTGTGTGGGCTTTCAAATGA
1 GTTACCACCGACTTGTGTGGGCTTTCAAAAT-A--TGCCACCGAC-T-TGTGGGCTTTCAAAAG-
* * * * *
145711 GTTGCCACCGACTTGTGGGCTTTGAAATGACGCTATTGACTTGTGGGCTTTGAAATGATGCCACG
60 GATGCCACCGACTTGTGGGCTTTAAAAAGACGCCATTGACTTGTGGGCTTTAAAATGATGCCACG
* * * *
145776 AACTTGTGAGCTTTGAAAGGATGCCACTGACTTGTAAGCTTTGAAATGATGCCATGGACTTATGG
125 AACTTGTGAGCTTTAAAAGGATGCCACAGACTTGTAAGCTTTAAAAGGATGCCATGGACTTATGG
145841 ACTTCAAAGG
Statistics
Matches: 164, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
232 4 0.02
233 25 0.15
235 9 0.05
236 1 0.01
237 15 0.09
238 109 0.66
239 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (233 bp):
GTTACCACCGACTTGTGTGGGCTTTCAAAATATGCCACCGACTTGTGGGCTTTCAAAAGGATGCC
ACCGACTTGTGGGCTTTAAAAAGACGCCATTGACTTGTGGGCTTTAAAATGATGCCACGAACTTG
TGAGCTTTAAAAGGATGCCACAGACTTGTAAGCTTTAAAAGGATGCCATGGACTTATGGGCTTTG
AAATGGGTTGCCATCGACTTGTGTGGGCTTTGAAATGG
Found at i:145868 original size:27 final size:27
Alignment explanation
Indices: 145838--146585 Score: 647
Period size: 27 Copynumber: 27.3 Consensus size: 27
145828 CATGGACTTA
* *
145838 TGGACTTCAAAGGGTGCCATGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* ***
145865 TGGACTTAAAAAGGTGCTGTGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
** **
145892 TGGACTTAAATA-GGTATCATAGAGTTG
1 TGGACTTAAA-AGGGTGCCACGGAGTTG
* * *
145919 TTGACCTAAAAGGGTGCCACGGAGTGG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
** *
145946 TGGACTTTAAAAAAGTGCCACGAAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* * *
145974 TGAACTTAAAAAGGTGCCACAGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
146001 TGGACTTAAAAGGGTGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* * *
146028 TGGACTTTAAAATGGTACCACAGAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* ** * *
146056 TGGACCTAAAAGGGCACCGCAGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
**
146083 TGGACTTAAAAGGGTGCCACAAAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
**
146110 TGGACTTTAAAAAGGGTGCCACAAAGTTG
1 TGGAC-TT-AAAAGGGTGCCACGGAGTTG
* * *
146139 TGGACTTTAAAAAGGTGTCACAGAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* * **
146167 TGGACCTAAAAGGGCGCCACAAAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
*
146194 TGGACTTAAAAGGGTGCCACGAAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* * * *
146221 TGAACTTTGAAAGGGTGCCACAGAGTTA
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* * * **
146249 TGGACCTAAAAGGGTACTATAGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
*
146276 TGGACTTAAAAGGGTGCCACGAAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
*
146303 TGGACTTTAAAGGGTGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
146330 TGGACTTCAAAA-GGTGCCACGGAGTTG
1 TGGACTT-AAAAGGGTGCCACGGAGTTG
* * *
146357 TTGG-CTTGAAAAGGGGTGCGACTGACTTG
1 -TGGACTT-AAAA-GGGTGCCACGGAGTTG
* ** * *
146386 TGGGCTTTGGAAGGGTGCCACTGACTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* *
146414 TGGACTTTAAAAGGGTGCCACTGACTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* * *
146442 TGGGCTTAAAAAGGATGCCACGGAGTTA
1 TGGACTT-AAAAGGGTGCCACGGAGTTG
* ***
146470 TGAACTTAAAAAAATGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
** **
146497 TGGACTTTAAAAGAATGCCAAAGAGTTG
1 TGGAC-TTAAAAGGGTGCCACGGAGTTG
* *
146525 TGGACTTAAATGGATGCCACGGAGTTG
1 TGGACTTAAAAGGGTGCCACGGAGTTG
* * **
146552 TGGACTTAAAAGGATGCCACTGAGTCA
1 TGGACTTAAAAGGGTGCCACGGAGTTG
146579 TGGACTT
1 TGGACTT
146586 TGAAGAGGTC
Statistics
Matches: 601, Mismatches: 105, Indels: 30
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.00
27 365 0.61
28 190 0.32
29 43 0.07
30 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (27 bp):
TGGACTTAAAAGGGTGCCACGGAGTTG
Found at i:145990 original size:55 final size:54
Alignment explanation
Indices: 145838--146571 Score: 570
Period size: 55 Copynumber: 13.4 Consensus size: 54
145828 CATGGACTTA
* * * * * ****
145838 TGGACTTCAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGGTGCTGTGGAGTTG
1 TGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* ** * * * * *
145892 TGGACTTAAATAGGTATCA-TAGAGTTGTTGACCTAAAAGGGTGCCACGGAGTGG
1 TGGACTTAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * *
145946 TGGACTTTAAAAAAGTGCCACGAAGTTGTGAACTTAAAAAGGTGCCACAGAGTTG
1 TGGAC-TTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * * *
146001 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAATGGTACCACAGAGTTG
1 TGGACTTAAAAAGGTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTG
* *
146056 TGGACCT-AAAAGG-G-CACCGCAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTG
1 TGGACTTAAAAAGGTGCCA-CG-A-AGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * *
146110 TGGACTTTAAAAAGGGTGCCACAAAGTTGTGGACTTTAAAAAGGTGTCACAGAGTTG
1 TGGAC-TTAAAAA-GGTGCCACGAAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTG
* * * *
146167 TGGACCTAAAAGGGCGCCACAAAGTTGTGGACTTAAAAGGGTGCCAC-GAAGTTG
1 TGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAG-AGTTG
* * * * * * * *
146221 TGAACTTTGAAAGGGTGCCAC-AGAGTTATGGACCTAAAAGGGTACTATAGAGTTG
1 TGGAC-TTAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * *
146276 TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTTAAAGGGTGCCACGGAGTTG
1 TGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * * * *
146330 TGGACTTCAAAAGGTGCCACGGAGTTGTTGG-CTTGAAAAGGGGTGCGACTGACTTG
1 TGGACTTAAAAAGGTGCCACGAAGTTG-TGGACTT-AAAA-GGGTGCCACAGAGTTG
* ** * * * *
146386 TGGGCTTTGGAAGGGTGCCACTG-ACTTGTGGACTTTAAAAGGGTGCCACTGACTTG
1 TGGAC-TTAAAAAGGTGCCAC-GAAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTG
* * * * *** *
146442 TGGGCTTAAAAAGGATGCCACGGAGTTATGAACTTAAAAAAATGCCACGGAGTTG
1 TGGACTTAAAAAGG-TGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
* * * * * *
146497 TGGACTTTAAAAGAATGCCA-AAGAGTTGTGGACTTAAATGGATGCCACGGAGTTG
1 TGGACTTAAAAAG-GTGCCACGA-AGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
146552 TGGACTT-AAAAGGATGCCAC
1 TGGACTTAAAAAGG-TGCCAC
146572 TGAGTCATGG
Statistics
Matches: 549, Mismatches: 100, Indels: 61
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.00
53 4 0.01
54 195 0.36
55 219 0.40
56 74 0.13
57 48 0.09
58 5 0.01
59 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (54 bp):
TGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCACAGAGTTG
Found at i:146151 original size:193 final size:190
Alignment explanation
Indices: 145925--146585 Score: 677
Period size: 193 Copynumber: 3.4 Consensus size: 190
145915 GTTGTTGACC
** * * *
145925 TAAAAGGGTGCCACGGAGTGGTGGACTTTAAAAAAGTGCCACGAAGTTGTGAACTTAAAAAGGTG
1 TAAAAGGGTGCCACAAAGTTGTGGAC-TTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGGTG
* *
145990 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAATGGTACCACAGAGTT
65 CCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTT
* *
146055 GTGGACCTAAAAGGGCACCGCAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGACTT
130 GTGGACCTAAAAGGG-ACCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT
* * *
146117 TAAAAAGGGTGCCACAAAGTTGTGGACTTTAAAAAGGTGTCAC-AGAGTTGTGGACCTAAAAGGG
1 T-AAAAGGGTGCCACAAAGTTGTGGAC-TTAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAAGG
* * * * *
146181 CGCCACAAAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGAACTTTGAAAGGGTGCCACAGAG
63 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAG
* * *
146246 TTATGGACCTAAAAGGGTACTATAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT
128 TTGTGGACCTAAAAGGG-ACCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT
** * * *
146310 T-AAAGGGTGCCACGGAGTTGTGGACTTCAAAAGGTGCCACGGAGTTGTTGG-CTTGAAAAGGGG
1 TAAAAGGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTG-TGGACTT-AAAA-AGG
* * * * ** * * *
146373 TGCGACTGACTTGTGGGCTTTGGAAGGGTGCCACTGACTTGTGGACTTTAAAAGGGTGCCACTGA
63 TGCCACAGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGA
* * * * * * * *** *
146438 CTTGTGGGCTTAAAAAGGATGCCACGGAGTTATGAACTTAAAAAAATGCCACGGAGTTGTGGACT
127 GTTGTGGACCTAAAAGGGA--CCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACT
146503 T
190 T
** * *
146504 TAAAAGAATGCCA-AAGAGTTGTGGACTT-AAATGGATGCCACGGAGTTGTGGACTT-AAAAGGA
1 TAAAAGGGTGCCACAA-AGTTGTGGACTTAAAAAGG-TGCCACGAAGTTGTGGACTTAAAAAGG-
* **
146566 TGCCACTGAGTCATGGACTT
63 TGCCACAGAGTTGTGGACTT
146586 TGAAGAGGTC
Statistics
Matches: 389, Mismatches: 66, Indels: 28
0.81 0.14 0.06
Matches are distributed among these distances:
190 20 0.05
191 29 0.07
192 22 0.06
193 236 0.61
194 45 0.12
195 37 0.10
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (190 bp):
TAAAAGGGTGCCACAAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGGTGC
CACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTG
TGGACCTAAAAGGGACCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTGTGGACTT
Found at i:146586 original size:82 final size:82
Alignment explanation
Indices: 145838--146585 Score: 629
Period size: 82 Copynumber: 9.1 Consensus size: 82
145828 CATGGACTTA
* ** *** *
145838 TGGACTTCAAAGGGTGCCATGGAGTTGTGGACTTAAAAA-GGTGCTGTGGAGTTGTGGACTTAAA
1 TGGACTTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGACTTAAA
** *
145902 TA-GGTATCATAGAGTTG
66 -AGGGTGCCACAGAGTTG
* * ** * * *
145919 TTGACCTAAAAGGGTGCCACGGAGTGGTGGACTTTAAAAA-AGTGCCACGAAGTTGTGAACTTAA
1 TGGACTTAAAAGGGTGCCAAAGAGTTGTGGAC-TTAAAAAGGGTGCCACGAAGTTGTGGACTTAA
*
145983 AAAGGTGCCACAGAGTTG
65 AAGGGTGCCACAGAGTTG
** * * * *
146001 TGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAATGGTACCAC-AGAGTTGTGGACCTAA
1 TGGACTTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGA-AGTTGTGGACTTAA
** *
146065 AAGGGCACCGCAGAGTTG
65 AAGGGTGCCACAGAGTTG
*
146083 TGGACTTAAAAGGGTGCCACAA-AGTTGTGGACTTTAAAAAGGGTGCCACAAAGTTGTGGACTTT
1 TGGACTTAAAAGGGTGCCA-AAGAGTTGTGGAC-TTAAAAAGGGTGCCACGAAGTTGTGGAC-TT
* *
146147 AAAAAGGTGTCACAGAGTTG
63 AAAAGGGTGCCACAGAGTTG
* * * *
146167 TGGACCTAAAAGGGCGCCACAA-AGTTGTGGACTT-AAAAGGGTGCCACGAAGTTGTGAACTTTG
1 TGGACTTAAAAGGGTGCCA-AAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGAC-TTA
*
146230 AAAGGGTGCCACAGAGTTA
64 AAAGGGTGCCACAGAGTTG
* * * * *
146249 TGGACCTAAAAGGGTACTATAGAGTTGTGGACTT-AAAAGGGTGCCACGAAGTTGTGGACTTTAA
1 TGGACTTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGACTTAAA
*
146313 AGGGTGCCACGGAGTTG
66 AGGGTGCCACAGAGTTG
** * * * *
146330 TGGACTTCAAAA-GGTGCCACGGAGTTGTTGG-CTTGAAAAGGGGTGCGACTG-ACTTGTGGGCT
1 TGGACTT-AAAAGGGTGCCAAAGAGTTG-TGGACTT-AAAAAGGGTGCCAC-GAAGTTGTGGAC-
** * *
146392 TTGGAAGGGTGCCACTGACTTG
61 TTAAAAGGGTGCCACAGAGTTG
** * * * * * *
146414 TGGACTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGGAGTTATGAACTTAA
1 TGGAC-TTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGACTTAA
*** *
146479 AAAAATGCCACGGAGTTG
65 AAGGGTGCCACAGAGTTG
** * * *
146497 TGGACTTTAAAAGAATGCCAAAGAGTTGTGGACTT-AAATGGATGCCACGGAGTTGTGGACTTAA
1 TGGAC-TTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGACTTAA
* * **
146561 AAGGATGCCACTGAGTCA
65 AAGGGTGCCACAGAGTTG
146579 TGGACTT
1 TGGACTT
146586 TGAAGAGGTC
Statistics
Matches: 552, Mismatches: 96, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
81 77 0.14
82 273 0.49
83 89 0.16
84 95 0.17
85 18 0.03
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (82 bp):
TGGACTTAAAAGGGTGCCAAAGAGTTGTGGACTTAAAAAGGGTGCCACGAAGTTGTGGACTTAAA
AGGGTGCCACAGAGTTG
Found at i:147926 original size:22 final size:22
Alignment explanation
Indices: 147879--147980 Score: 88
Period size: 22 Copynumber: 4.6 Consensus size: 22
147869 ATGTCTTCGT
* *
147879 TTTTTTTTATTTTTG-TTATTCTC
1 TTTTTTGTA-TTTTGCTT-TTCAC
147902 TTTTTT-TATTTTGCTTTTGCAC
1 TTTTTTGTATTTTGCTTTT-CAC
147924 TTTTTTGT-TTTT-CTTTTCA-
1 TTTTTTGTATTTTGCTTTTCAC
* *
147943 TTTTTTGTGCTTTTGCTTTTGAC
1 TTTTTTGT-ATTTTGCTTTTCAC
147966 TTTTTTGTCATTTTG
1 TTTTTTGT-ATTTTG
147981 AAGGGAACTT
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.12
20 2 0.03
21 16 0.24
22 22 0.32
23 20 0.29
ACGTcount: A:0.07, C:0.11, G:0.10, T:0.73
Consensus pattern (22 bp):
TTTTTTGTATTTTGCTTTTCAC
Found at i:147927 original size:21 final size:21
Alignment explanation
Indices: 147903--147971 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
147893 GTTATTCTCT
147903 TTTTTTATTTTGCTTTTGCAC
1 TTTTTTATTTTGCTTTTGCAC
* * *
147924 TTTTTTGTTTTTCTTTT-CAT
1 TTTTTTATTTTGCTTTTGCAC
*
147944 TTTTTGTGCTTTTGCTTTTG-AC
1 TTTTT-T-ATTTTGCTTTTGCAC
147966 TTTTTT
1 TTTTTT
147972 GTCATTTTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 7 0.18
21 17 0.44
22 15 0.38
ACGTcount: A:0.06, C:0.12, G:0.10, T:0.72
Consensus pattern (21 bp):
TTTTTTATTTTGCTTTTGCAC
Found at i:147954 original size:37 final size:37
Alignment explanation
Indices: 147888--147958 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
147878 TTTTTTTTTA
147888 TTTTTGTTATTCTCTTTTTTTATTTTGCTTTTGCACT
1 TTTTTGTTATTCTCTTTTTTTATTTTGCTTTTGCACT
147925 TTTTTGTT-TT-TCTTTTCATTT-TTTGTGCTTTTGC
1 TTTTTGTTATTCTCTTTT--TTTATTT-TGCTTTTGC
147959 TTTTGACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
35 6 0.19
36 5 0.16
37 20 0.65
ACGTcount: A:0.06, C:0.13, G:0.10, T:0.72
Consensus pattern (37 bp):
TTTTTGTTATTCTCTTTTTTTATTTTGCTTTTGCACT
Found at i:154692 original size:52 final size:52
Alignment explanation
Indices: 154614--154742 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
154604 CGAAATATGA
* *
154614 AAATTTACCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
154666 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATAGATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
154718 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
154743 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Done.