Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold409
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: 3905031
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 6 of 25
Found at i:835646 original size:20 final size:20
Alignment explanation
Indices: 835621--835712 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
835611 CTAAAAAAAT
*
835621 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAATTGAA
* * **
835641 TGTATCAATATATGCTTGCAA
1 TGTATCGATACATAATTG-AA
* * *
835662 TGTATCGATACATTATTCAT
1 TGTATCGATACATAATTGAA
** *
835682 TGTATCGATACATCCTTTAA
1 TGTATCGATACATAATTGAA
835702 TGTATCGATAC
1 TGTATCGATAC
835713 GTTCAATTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
20 41 0.73
21 15 0.27
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATAATTGAA
Found at i:835686 original size:41 final size:40
Alignment explanation
Indices: 835621--835712 Score: 103
Period size: 41 Copynumber: 2.3 Consensus size: 40
835611 CTAAAAAAAT
* * *
835621 TGTATCGATACATAAGTGAATGTATCAATATATGCTTGCAA
1 TGTATCGATACATAAGTCAATGTATCAATACATCCTT-CAA
* * * * *
835662 TGTATCGATACATTATTCATTGTATCGATACATCCTTTAA
1 TGTATCGATACATAAGTCAATGTATCAATACATCCTTCAA
835702 TGTATCGATAC
1 TGTATCGATAC
835713 GTTCAATTAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 13 0.30
41 30 0.70
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (40 bp):
TGTATCGATACATAAGTCAATGTATCAATACATCCTTCAA
Found at i:841333 original size:9 final size:9
Alignment explanation
Indices: 841319--841349 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
841309 AATAATTTCT
841319 AAAAGTTTG
1 AAAAGTTTG
841328 AAAAGTTTG
1 AAAAGTTTG
841337 AAAAGTTTG
1 AAAAGTTTG
841346 AAAA
1 AAAA
841350 AATCCATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (9 bp):
AAAAGTTTG
Found at i:846897 original size:13 final size:13
Alignment explanation
Indices: 846879--846904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
846869 CAATTTTTTG
846879 TGTATCGATACAT
1 TGTATCGATACAT
846892 TGTATCGATACAT
1 TGTATCGATACAT
846905 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:847652 original size:21 final size:21
Alignment explanation
Indices: 847611--847654 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
847601 CTCCCCTTTA
* *
847611 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
847632 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
847653 TC
1 TC
847655 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:849478 original size:13 final size:13
Alignment explanation
Indices: 849460--849485 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
849450 ATAATCACCC
849460 TGTATCGATACAA
1 TGTATCGATACAA
849473 TGTATCGATACAA
1 TGTATCGATACAA
849486 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:853422 original size:21 final size:21
Alignment explanation
Indices: 853393--853437 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
853383 AAGTTTTCAT
*
853393 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
853413 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
853435 TTT
1 TTT
853438 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:856577 original size:36 final size:36
Alignment explanation
Indices: 856530--856598 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
856520 TGAGTATCCG
856530 CTCGGAGGAATGGGGTTGAAGTGTCCCCGATAACCC
1 CTCGGAGGAATGGGGTTGAAGTGTCCCCGATAACCC
856566 CTCGGAGGAATGGGGTTGAAGTGTCCCCGATAA
1 CTCGGAGGAATGGGGTTGAAGTGTCCCCGATAA
856599 ATAAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (36 bp):
CTCGGAGGAATGGGGTTGAAGTGTCCCCGATAACCC
Found at i:859007 original size:45 final size:45
Alignment explanation
Indices: 858934--859091 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 45
858924 AGAGGATTGC
** *
858934 CAATGTGCCAATTCAAGGCCAACGACATTGGGCTAATAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAATAAAGTGGA
* * * * *
858979 CAATGTGCTGATTCAAGGCTAGCAACATTGAGCTAAGGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA--TAAAGTGGA
* *
859026 CAATGTGCTGATTCAAGGCCAACGACAGTGAGCTAATAAAG-GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAATAAAGTG-GA
* *
859071 CAATATGCTGATTCAATGCCA
1 CAATGTGCTGATTCAAGGCCA
859092 GTGATATCGA
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
44 1 0.01
45 53 0.57
47 39 0.42
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.22
Consensus pattern (45 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAATAAAGTGGA
Found at i:859058 original size:47 final size:45
Alignment explanation
Indices: 858934--859061 Score: 157
Period size: 47 Copynumber: 2.8 Consensus size: 45
858924 AGAGGATTGC
** * * *
858934 CAATGTGCCAATTCAAGGCCAACGACATTGGGCTAATAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGAAAATGGA
* * *
858979 CAATGTGCTGATTCAAGGCTAGCAACATTGAGCTAAGGGAAAATGGA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA--GAAAATGGA
*
859026 CAATGTGCTGATTCAAGGCCAACGACAGTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAA
859062 TAAAGGTGCC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
45 30 0.43
47 39 0.57
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.20
Consensus pattern (45 bp):
CAATGTGCTGATTCAAGGCCAACGACATTGAGCTAAGAAAATGGA
Found at i:859223 original size:28 final size:28
Alignment explanation
Indices: 859167--860022 Score: 578
Period size: 28 Copynumber: 29.4 Consensus size: 28
859157 CTTTTTAAAA
* * *
859167 AAAAGGTGCCACTAACTTCTGTGGCCTTTG
1 AAAAGATGCCACTGAC-T-TGTGGGCTTTG
*
859197 AAGAGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * * *
859225 GAAGGATGGCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859253 AAAAGTTGCCACTGACTCGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859281 AAAAGTTGCCACTGACTTGTGGGCTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * *
859309 AAAAGATACCATTGACTTGTGGGCTTGG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
** * *
859337 AAAAGATGCCACCAACTTGTGGACATTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * *
859365 AAAGGATGCCACTGACTTATAGGCTTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859392 AAAAGGGTGCCATTGACTTGTGGGCTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTG
* *
859421 AAAAGATGTCC-CCGACTTATGTGGACTTTG
1 AAAAGATG-CCACTGAC-T-TGTGGGCTTTG
* * **
859451 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--AGATGCCACTGAC-T-TGTGGGCTTTG
* * * *
859483 CAATGAGTTGCCACCGACTTGTGTGGGCTTTC
1 -AA-AAGATGCCACTGAC-T-TGTGGGCTTTG
* * **
859515 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAA--AGATGCCACTGAC-T-TGTGGGCTTTG
* ** *
859547 AAATAGGTTGCCACCAACTTGTGTGGGCTGTG
1 AAA-A-GATGCCACTGAC-T-TGTGGGCTTTG
* * ** *
859579 AAATGGGTTGCCACCAACTTGTGTGGGCTTTC
1 AAA--AGATGCCACTGAC-T-TGTGGGCTTTG
* **
859611 AAATGAGTTGCCACCAACTTGTGTGAGCTTTG
1 AAA--AGATGCCACTGACTTGTG-G-GCTTTG
* * * *
859643 AAAGGGTGCCACCGACTTGTGTGAGCTTTA
1 AAAAGATGCCACTGACTTGTG-G-GCTTTG
*
859673 AAAAGATGCCACCGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* * *
859701 AAATG-GGCTACCATCGACTTGTGTGGGCTTT-
1 AAAAGATGCCA-C-T-GAC-T-TGTGGGCTTTG
* *
859732 AAAAGGGTGCTACTGACTTGTGGGCTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTG
*
859761 -AAAGAATGCCACTAACTTGTGGGCTTTG
1 AAAAG-ATGCCACTGACTTGTGGGCTTTG
* * *
859789 AAATGGTGCCACTAACTTGTGGGCTTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859816 AAAATGATACCACTAACTTGTGGGCTTTG
1 AAAA-GATGCCACTGACTTGTGGGCTTTG
*
859845 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859873 AAATGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
* *
859901 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
859929 AAAAGATGCCACTAACTTGTGGGCTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTG
*
859957 AGAAGGATGCCACTGACTTGTGGGCTTTG
1 A-AAAGATGCCACTGACTTGTGGGCTTTG
* * * *
859986 -AAAGGTGCCACGGAGTTGT-GGATTT-
1 AAAAGATGCCACTGACTTGTGGGCTTTG
860011 AAAAGGATGCCA
1 AAAA-GATGCCA
860023 TGGAGTTTTG
Statistics
Matches: 692, Mismatches: 103, Indels: 65
0.80 0.12 0.08
Matches are distributed among these distances:
26 8 0.01
27 31 0.04
28 358 0.52
29 41 0.06
30 78 0.11
31 11 0.02
32 159 0.23
33 6 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
AAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:859508 original size:64 final size:63
Alignment explanation
Indices: 859432--859731 Score: 353
Period size: 64 Copynumber: 4.8 Consensus size: 63
859422 AAAGATGTCC
*
859432 CCGACTTATGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGCAATGAGTTGCCA
1 CCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-CAATGAGTTGCCA
* * *
859496 CCGACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAAT-AGGTTGCCA
1 CCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT-CAATGA-GTTGCCA
* * *
859560 CCAACTTGTGTGGGCTGTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCA
1 CCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTC-AATGAGTTGCCA
* * * ** *
859624 CCAACTTGTGT-GAGCTTTGAAA-GGG-TGCCACCGACTTGTGTGAGCTTT-AAAAAGATGCCA
1 CCGACTTGTGTGGA-CTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAATGAGTTGCCA
* * * *
859684 CCGACTTGTG-GG-CTTTGAAATGGGCTACCATCGACTTGTGTGGGCTTT
1 CCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT
859732 AAAAGGGTGC
Statistics
Matches: 210, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
58 8 0.04
59 3 0.01
60 39 0.19
62 21 0.10
63 5 0.02
64 133 0.63
65 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (63 bp):
CCGACTTGTGTGGACTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAATGAGTTGCCA
Found at i:860004 original size:27 final size:28
Alignment explanation
Indices: 859632--860369 Score: 496
Period size: 28 Copynumber: 26.5 Consensus size: 28
859622 CACCAACTTG
* * * *
859632 TGTGAGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * * *
859660 TGTGTGAGCTTTAAAAAGATGCCACCGACT
1 TGTG-G-GCTTTAAAAGGGTGCCACGGAGT
* * *
859690 TGTGGGCTTTGAAATGGGCTACCATC-GACTT
1 TGTGGGCTTT-AAAAGGG-TGCCA-CGGA-GT
* * *
859721 GTGTGGGCTTTAAAAGGGTGCTACTGACT
1 -TGTGGGCTTTAAAAGGGTGCCACGGAGT
* ** ** *
859750 TGTGGGCTTTGAAAGAATGCCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * ** *
859778 TGTGGGCTTTGAAATGGTGCCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * * ** *
859806 TGTGGGCTTTAAAATGATACCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * * *
859834 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * * *
859862 TGTGGGCTTTGAAATGGTGCCACTGACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * ** *
859890 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* ** *
859918 TGTGGGCTTTGAAAA-GATGCCACTAACT
1 TGTGGGCTTT-AAAAGGGTGCCACGGAGT
* * * *
859946 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTT-AAAAGGGTGCCACGGAGT
*
859975 TGTGGGCTTTGAAA-GGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * *
860002 TGT-GGATTTAAAAGGATGCCATGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * * *
860029 T-TTGGATTTCAAAAGAGTGCCATGGAGT
1 TGTGGGCTTT-AAAAGGGTGCCACGGAGT
*
860057 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
860084 TGTGGAC-TTAAAAGGGTGCCACGGGGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * *
860111 TGTGGAC-TTAAAAGGGTACCACGGAAT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
860138 TGTGGAC-TT-AAAGGGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
860164 TGTGGAC-TTAAAAGGGTGCCATGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
*
860191 TGTGGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
**
860218 TGTGGATTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * *
860246 TTTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * **
860274 TGTGGAC-TTAAAAGGATGCCATTGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * *
860301 TGTGGACTTTAAAAGGATGCCACGAAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* * *
860329 TATGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
860356 TATGGACTTTAAAA
1 TGTGGGCTTTAAAA
860370 AGAAATACCA
Statistics
Matches: 617, Mismatches: 74, Indels: 38
0.85 0.10 0.05
Matches are distributed among these distances:
26 32 0.05
27 204 0.33
28 294 0.48
29 34 0.06
30 35 0.06
31 8 0.01
32 10 0.02
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGGTGCCACGGAGT
Found at i:860005 original size:56 final size:57
Alignment explanation
Indices: 859171--860323 Score: 687
Period size: 56 Copynumber: 20.1 Consensus size: 57
859161 TTAAAAAAAA
* * * *
859171 GGTGCCACTAACTTCTGTGGCCTTTGAAGA-GATGCCACTGACTTGTGGGCTTTGGAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
859229 GATGGCACTAACTTGTGGGCTTTGAAAA-GTTGCCACTGACTCGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
859285 GTTGCCACTGACTTGTGGGCTTGGAAAA-GATACCATTGACTTGTGGGCTTGGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* ** * * * * *
859341 GATGCCACCAACTTGTGGACATTG-AAAGGATGCCACTGACTTATAGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * *
859397 GGTGCCATTGACTTGTGGGCTTTGAAAA-GATGTCC-CCGACTTATGTGGACTTTGAAATG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATG-CCACTGAC-T-TGTGGGCTTTGAAA-G
** * * * * *
859456 GGTTGCCACCAACTTGTGTGGGCTTTGCAATGAGTTGCCACCGACTTGTGTGGGCTTTCAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAA-G
** * ** *
859520 GGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTGTGAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA-G
** * * * **
859584 GGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGAGCTTTGAAAG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAAAG-GATGCCACTGACTTGTG-G-GCTTTGAAAG
* * *
859647 GGTGCCACCGACTTGTGTGAGCTTT-AAAAAGATGCCACCGACTTGTGGGCTTTGAAATG
1 GGTGCCACTGACTTGTG-G-GCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA-G
* * *
859706 GGCTACCA-TCGACTTGTGTGGGCTTT-AAAAGGGTGCTACTGACTTGTGGGCTTTGAAAG
1 GG-TGCCACT-GAC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
** * * * * *
859765 AATGCCACTAACTTGTGGGCTTTGAAATGG-TGCCACTAACTTGTGGGCTTTAAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * *
859821 GATACCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* *
859877 GGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAA
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * *
859933 GATGCCACTAACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAA-
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * *
859989 GGTGCCACGGAGTTGT-GGATTT-AAAAGGATGCCA-TGGAGTT-TTGGATTTCAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACT-GACTTGTGGGCTTT-GAAAG
* * * * * * * *
860044 AGTGCCA-TGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACT-GACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* ** * * * * * *
860098 GGTGCCACGGGGTTGTGGAC-TT-AAAAGGGTACCACGGAATTGTGGAC-TT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
860151 GGTGCCACAGAGTTGTGGAC-TT-AAAAGGGTGCCA-TGGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACT-GACTTGTGGGCTTTGAAAG
* * * * * * * * * *
860205 GGTGCCACGGAGTTGT-GGATTTTAAAAGGGTGCCACGGAGTTTTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * * *
860261 GATGCCACGGAGTTGTGGAC-TT-AAAAGGATGCCATTGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
*
860316 GATGCCAC
1 GGTGCCAC
860324 GAAGTTATGG
Statistics
Matches: 920, Mismatches: 133, Indels: 87
0.81 0.12 0.08
Matches are distributed among these distances:
53 53 0.06
54 89 0.10
55 107 0.12
56 336 0.37
57 43 0.05
58 35 0.04
59 9 0.01
60 66 0.07
61 8 0.01
62 35 0.04
63 8 0.01
64 130 0.14
65 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (57 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
Found at i:860051 original size:28 final size:27
Alignment explanation
Indices: 859989--860369 Score: 494
Period size: 27 Copynumber: 14.0 Consensus size: 27
859979 GGCTTTGAAA
*
859989 GGTGCCACGGAGTTGTGGATTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
860016 GATGCCATGGAGTTTTGGATTTCAAAAG
1 GGTGCCACGGAGTTGTGGACTT-AAAAG
* *
860044 AGTGCCATGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
860071 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
860098 GGTGCCACGGGGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
860125 GGTACCACGGAATTGTGGACTT-AAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
860151 GGTGCCACAGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
860178 GGTGCCATGGAGTTGTGGACTTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
*
860205 GGTGCCACGGAGTTGTGGATTTTAAAAG
1 GGTGCCACGGAGTTGTGGA-CTTAAAAG
*
860233 GGTGCCACGGAGTTTTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
*
860261 GATGCCACGGAGTTGTGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* **
860288 GATGCCATTGAGTTGTGGACTTTAAAAG
1 GGTGCCACGGAGTTGTGGAC-TTAAAAG
* * *
860316 GATGCCACGAAGTTATGGACTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAG
* *
860343 GATGCCACGGAGTTATGGACTTTAAAA
1 GGTGCCACGGAGTTGTGGAC-TTAAAA
860370 AGAAATACCA
Statistics
Matches: 315, Mismatches: 33, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
26 23 0.07
27 191 0.61
28 101 0.32
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAAAG
Found at i:860056 original size:55 final size:54
Alignment explanation
Indices: 859845--860369 Score: 516
Period size: 55 Copynumber: 9.6 Consensus size: 54
859835 GTGGGCTTTG
* * * * * * * * *
859845 AAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGTGCCACGGAGTTGTGGAC-TTA
* ** * * * ** * *
859901 AAAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGTGCCACGGAGTTGTGGAC-TT-A
* * * * * * *
859958 GAAGGATGCCACTGACTTGTGGGCTTTGAAAGGTGCCACGGAGTTGTGGATTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGACTTA
* * * *
860012 AAAGGATGCCATGGAGTTTTGGA-TTTCAAAAGAGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTT-AAAAG-GTGCCACGGAGTTGTGGACTTA
*
860067 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGGGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGACTTA
* * * *
860121 AAAGGGTACCACGGAATTGTGGAC-TTAAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGACTTA
* * *
860174 AAAGGGTGCCATGGAGTTGTGGACTTTAAAGGGTGCCACGGAGTTGTGGATTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGA-CTTA
*
860229 AAAGGGTGCCACGGAGTTTTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGGAGTTGTGGACTTA
* ** * *
860284 AAAGGATGCCATTGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGG-TGCCACGGAGTTGTGGACTTA
* *
860339 AAAGGATGCCACGGAGTTATGGACTTTAAAA
1 AAAGGGTGCCACGGAGTTGTGGACTTTAAAA
860370 AGAAATACCA
Statistics
Matches: 410, Mismatches: 51, Indels: 17
0.86 0.11 0.04
Matches are distributed among these distances:
53 45 0.11
54 97 0.24
55 158 0.39
56 85 0.21
57 25 0.06
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (54 bp):
AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGTGCCACGGAGTTGTGGACTTA
Found at i:861752 original size:16 final size:17
Alignment explanation
Indices: 861711--861755 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
861701 CCTTTTTTTA
861711 TTTTGCTTTTGCACTTT
1 TTTTGCTTTTGCACTTT
*
861728 TTTTTCTTTT-CA-TTT
1 TTTTGCTTTTGCACTTT
861743 TTTGTGCTTTTGC
1 TTT-TGCTTTTGC
861756 TTTTGACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.04, C:0.16, G:0.11, T:0.69
Consensus pattern (17 bp):
TTTTGCTTTTGCACTTT
Found at i:868844 original size:20 final size:20
Alignment explanation
Indices: 868814--868868 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
868804 AAAAAGACAT
* *
868814 AATGTATCGATACATTCATA
1 AATGCATCGATACATTCAAA
* * *
868834 CATGCATCGATATATTGAAA
1 AATGCATCGATACATTCAAA
*
868854 AATGTATCGATACAT
1 AATGCATCGATACAT
868869 CTGGGTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGCATCGATACATTCAAA
Found at i:872682 original size:20 final size:19
Alignment explanation
Indices: 872636--872689 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
872626 ATGTATCCAT
*
872636 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
872655 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
872674 ACAATTGTATCGATAC
1 AC-ATTGTATCGATAC
872690 GTGAAACTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 18 0.58
20 13 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:879688 original size:49 final size:50
Alignment explanation
Indices: 879573--879743 Score: 190
Period size: 51 Copynumber: 3.4 Consensus size: 50
879563 CCTCGAAAAT
* *
879573 AATAG-GGTTGGAGTATCCCCGATTATGGAAAA-TCGATGCTTTAGAAATAA
1 AATAGAGGTTGGAGTATCCCCGATTATGAAAAATTGGAT--TTTAGAAATAA
** * * *
879623 GACCAG-GGTTGGAGTATCCCCGATTGTGAGAAATTGG-TTTTGGAAATAA
1 -AATAGAGGTTGGAGTATCCCCGATTATGAAAAATTGGATTTTAGAAATAA
*
879672 AATCG-GAGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAA
1 AATAGAG-GTTGGAGTATCCCCGATTATGAAAAATTGG-ATTTTAGAAATAA
879723 AATAGAGGTTGGAGTATCCCC
1 AATAGAGGTTGGAGTATCCCC
879744 TCAAAAATAA
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
48 3 0.03
49 38 0.38
51 57 0.56
52 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (50 bp):
AATAGAGGTTGGAGTATCCCCGATTATGAAAAATTGGATTTTAGAAATAA
Found at i:879820 original size:107 final size:107
Alignment explanation
Indices: 879679--879919 Score: 292
Period size: 107 Copynumber: 2.3 Consensus size: 107
879669 TAAAATCGGA
*** *
879679 GTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAA-ATAGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGAT-GAGGTTAGAGTATCCC
* * *
879743 CTCAAAAATAA-CGGGATTGGAGTAT-CCTCGATGACATAACGGG
65 CTCAAAAATAATAGGG-TTAGAGTATCCCT-GATGAAATAACGGG
* * * *
879786 GTTGGAGTA-CCCACGATTATGAAAAATCAATATTTTAGATATAAAGCTGGGGTTAGAGTATCCT
1 GTTGGAGTATCCC-CGATTATGAAAAATCAATATTTTAGAAATAAAGATGAGGTTAGAGTATCCC
*
879850 CTCGAAAATAATAGGGTTAGAGTATCCCTGATGAAATAACGGG
65 CTCAAAAATAATAGGGTTAGAGTATCCCTGATGAAATAACGGG
* *
879893 GTTGGAGTATCCCCAATTGTGAAAAAT
1 GTTGGAGTATCCCCGATTATGAAAAAT
879920 TTAGAAATTT
Statistics
Matches: 115, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
106 3 0.03
107 102 0.89
108 10 0.09
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.28
Consensus pattern (107 bp):
GTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGATGAGGTTAGAGTATCCCC
TCAAAAATAATAGGGTTAGAGTATCCCTGATGAAATAACGGG
Found at i:879886 original size:28 final size:27
Alignment explanation
Indices: 879835--879905 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
879825 TATAAAGCTG
*
879835 GGGTTAGAGTATCCTCTCGAAAATAATA
1 GGGTTAGAGTATCC-CTCGAAAATAACA
*
879863 GGGTTAGAGTATCCCT-GATGAAATAACG
1 GGGTTAGAGTATCCCTCGA--AAATAACA
*
879891 GGGTTGGAGTATCCC
1 GGGTTAGAGTATCCC
879906 CAATTGTGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 34 0.89
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (27 bp):
GGGTTAGAGTATCCCTCGAAAATAACA
Found at i:882227 original size:20 final size:19
Alignment explanation
Indices: 882202--882268 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 19
882192 AAAATGCCTG
* *
882202 AATGTATCCATACATTGTAA
1 AATGTATCGATACAATG-AA
882222 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGA-A
882242 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
882262 AATGTAT
1 AATGTAT
882269 TGATGCATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.02
20 41 0.95
21 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:882309 original size:13 final size:13
Alignment explanation
Indices: 882291--882320 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
882281 GTAAACCCAG
882291 AATGTATCGATAC
1 AATGTATCGATAC
*
882304 AATGTATCGATAT
1 AATGTATCGATAC
882317 AATG
1 AATG
882321 AACAATGTAT
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:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:882327 original size:20 final size:20
Alignment explanation
Indices: 882302--882358 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
882292 ATGTATCGAT
*
882302 ACAATGTATCGATATAATGA
1 ACAATGTATCGATACAATGA
*
882322 ACAATGTATTGATACAATGA
1 ACAATGTATCGATACAATGA
*
882342 ACAATGTATCGACACAA
1 ACAATGTATCGATACAA
882359 ATTGTGAAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:883043 original size:42 final size:43
Alignment explanation
Indices: 882969--883128 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 43
882959 AAAGAGTACT
* * *
882969 TCCTACTTTTCGAGGACAAAGGAAAAAAGGAAAACGAAA-TGCG
1 TCCTGCTTTTTGAGGACAAAAGAAAAAAGGAAAA-GAAAGTGCG
* * *
883012 TCCTGCTTTTTGAAGACAAAAG-AAAGAGGAAAATAAAGTGCG
1 TCCTGCTTTTTGAGGACAAAAGAAAAAAGGAAAAGAAAGTGCG
* * * * *
883054 TGCTGCTCTTTGAGGACAAAAAGGAAAAGAAGGGAATG-AAGTGTG
1 TCCTGCTTTTTGAGGAC-AAAA-GAAAA-AAGGAAAAGAAAGTGCG
* * *
883099 TCATGCTCTTTGAGGACAAAAAAAAAAAGG
1 TCCTGCTTTTTGAGGACAAAAGAAAAAAGG
883129 CACCCTGCTC
Statistics
Matches: 95, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.03
42 32 0.34
43 26 0.27
44 5 0.05
45 24 0.25
46 5 0.05
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.19
Consensus pattern (43 bp):
TCCTGCTTTTTGAGGACAAAAGAAAAAAGGAAAAGAAAGTGCG
Found at i:883143 original size:77 final size:81
Alignment explanation
Indices: 883056--883237 Score: 237
Period size: 77 Copynumber: 2.3 Consensus size: 81
883046 AAAGTGCGTG
* * *
883056 CTGCTCTTTGAGGACAAAAAGGAAAAGAAGGGAATGAAGTGTGTCATGCTCTTTGAGG-ACA-A-
1 CTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCATGCTCTTTGAGGAAAAGAG
883118 AAAA-AAAAAGGCACC
66 AAAAGAAAAAGGCACC
* * *
883133 CTGCTCTTTGAGGACTAAAGGGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGATAAAGG
1 CTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCATGCTCTTTGAGGA-AAA-G
**
883198 AGAAAAGAAAAAGGCGTC
64 AGAAAAGAAAAAGGCACC
883216 CTGCTCTTTGAGGACTAAAAAG
1 CTGCTCTTTGAGGAC-AAAAAG
883238 TGCCACCAAC
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
77 53 0.60
79 2 0.02
81 1 0.01
82 4 0.05
83 24 0.27
84 4 0.05
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (81 bp):
CTGCTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAATGTGTCATGCTCTTTGAGGAAAAGAG
AAAAGAAAAAGGCACC
Found at i:883302 original size:61 final size:60
Alignment explanation
Indices: 883200--883504 Score: 345
Period size: 61 Copynumber: 5.1 Consensus size: 60
883190 GATAAAGGAG
**
883200 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT
* * * *
883261 GAAAAGAAAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT
* * * * *
883322 AAAAGGAGAAA-ACATCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAA-GA-AAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT
* * *
883383 ----G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT
* * *
883438 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACAT-GTGTGAGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAAC-TCGTGTGGGCTTT
883500 AAAAG
1 AAAAG
883505 GCATCCTGCT
Statistics
Matches: 208, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.01
55 46 0.22
56 1 0.00
60 5 0.02
61 117 0.56
62 35 0.17
63 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:883438 original size:116 final size:116
Alignment explanation
Indices: 883200--883526 Score: 379
Period size: 116 Copynumber: 2.8 Consensus size: 116
883190 GATAAAGGAG
* * * * * *
883200 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAA
1 AAAAGGAAAAGACATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----
* * ** *
883265 AGAAAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGAGTGGTCTTT
62 -G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGAGTGGGCTTT
883322 AAAAGGAGAAA-ACATCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGA
1 AAAAGGA-AAAGACATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGA
* *
883385 AAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
64 AAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGAGTGGGCTTT
* * * * *
883438 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGAGCTTTAAA
1 AAAAGGAAAAGACATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAA
* *
883503 AGGCATCCTGCTTTTTGAGGACTA
65 AGGCGTCCTGCTCTTTGAGGACTA
883527 AAGGGCGAAA
Statistics
Matches: 180, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
115 3 0.02
116 78 0.43
117 46 0.26
122 46 0.26
123 7 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (116 bp):
AAAAGGAAAAGACATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
GGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGAGTGGGCTTT
Found at i:883799 original size:62 final size:62
Alignment explanation
Indices: 883550--883845 Score: 499
Period size: 61 Copynumber: 4.8 Consensus size: 62
883540 GAGAACACCT
* * *
883550 TGCTTTTTGAGGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
883611 TGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
883672 TGCTCTTTGAGGATTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
883733 TGCTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
883795 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
883846 CATCCTACTC
Statistics
Matches: 222, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
61 134 0.60
62 88 0.40
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (62 bp):
TGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:883901 original size:340 final size:333
Alignment explanation
Indices: 883176--884179 Score: 1330
Period size: 340 Copynumber: 3.0 Consensus size: 333
883166 ATGAAATGTG
* * * * **
883176 TCCTGCTCTTTGAGGA-T-AAAGGAGAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGT
1 TCCTGCTCTTTGAGGACTAAAAGGCGAAAGGAGAGA-GCGTCCTGCTCTTTGAGGACTAGGAAGT
* * **
883239 GCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCGTCTTGCTCTTTGAGGACTGGAAGGTGCCA
65 GCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCA
* * * * *
883304 CCAACTCGAGTGGTCTTTAAAAGGAGAAAACATCCTACTCTTTGAGGACTGGAAAATGCCACCAA
128 CCAACTTGTGTGGGCTTTAAAAGGA-AAAGCGTCCTACTCTTTGAGGACT-GAAAATGCCACCAA
883369 CTTGTGTGGGCTTT---GAAAGGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTG
191 CTTGTGTGGGCTTTAAAGAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTG
* *
883430 TGGGCTTTAAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGA
256 TGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGA
883495 GCTTTAAAAGGCA
321 GCTTTAAAAGGCA
* * * * *
883508 TCCTGCTTTTTGAGGACTAAAGGGCGAAAGGAGAGAAC-ACCTTGCTTTTTGAGGACTAGGAAGT
1 TCCTGCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCGTCC-TGCTCTTTGAGGACTAGGAAGT
*
883572 GCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGAAAATGCCA
65 GCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAATGCCA
* * *
883637 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGAGGATTAGAAAATGCCACCAA
128 CCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCTACTCTTTGAGGACT-GAAAATGCCACCAA
* *
883702 CTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCTACCAACTT
191 CTTGTGTGGGCTTT-AAA-G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTT
*
883767 GTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTG
253 GTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTG
*
883832 TGGGCTTTAAAAGGCA
318 TGAGCTTTAAAAGGCA
*
883848 TCCTACTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
1 TCCTGCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
*
883913 CCACCAACTTGTGTGGGCTTTAAAACGAAAAGGCATCCTGCTCTTT-ATGGACTGAAAATGCCAC
66 CCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCTGCTCTTTGA-GGACTGAAAATGCCAC
* * * **
883977 CAGCTTGTGTGGGCTTTAAAAGGCGAAAGTGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACT
129 CAACTTGTGTGGGCTTTAAAAGG-AAAAGCGTCCTACTCTTTGAGGACTGAAAATGCCACCAACT
* * * *
884042 TGTGTGGGCTTTGAAACGCGAAGGCGTCCTACTCTTTGAAGACT--AAAGGTGCCACCAACTTGT
193 TGTGTGGGCTTT-AAA-G-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGT
* ** **
884105 GTGGGCTTTGAAAGGCGAAGGCGTCCTGCTCTTTGAGGACT-G-AGGGTGCCACCAACTTGTGTG
255 GTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTG
884168 AGCTTTGAAAAG
320 AGCTTT-AAAAG
884180 CGAAGGCATC
Statistics
Matches: 591, Mismatches: 65, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
332 24 0.04
333 141 0.24
334 36 0.06
335 6 0.01
336 54 0.09
338 52 0.09
339 81 0.14
340 195 0.33
341 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (333 bp):
TCCTGCTCTTTGAGGACTAAAAGGCGAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAAGTG
CCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAATGCCACCA
ACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTACTCTTTGAGGACTGAAAATGCCACCAACTTGT
GTGGGCTTTAAAGAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGC
TTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGAGCTTT
AAAAGGCA
Found at i:883987 original size:60 final size:60
Alignment explanation
Indices: 883884--884332 Score: 487
Period size: 60 Copynumber: 7.4 Consensus size: 60
883874 AAAGGAGAGA
*
883884 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
* * *
883945 GCATCCTGCTCTTT-ATGGACTGAAAATGCCACCAGCTTGTGTGGGCTTTAAAAGGCG-AAA-
1 GCGTCCTGCTCTTTGA-GGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAA--CGAAAAG
* * * * **
884005 GTGTCCTACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAACGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
* * * * **
884065 GCGTCCTACTCTTTGAAGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
** *
884125 GCGTCCTGCTCTTTGAGGACTGAGGGTGCCACCAACTTGTGTGAGCTTTGAAAAGCG--AAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAA-CGAAAAG
* * * * * * *
884185 GCATCCTACTCTTTGACGACTGGAAAATGCCACAAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
*
884246 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-G-AAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
* * * *
884308 GTGTCTTGTTCTTTGAGCACTGAAA
1 GCGTCCTGCTCTTTGAGGACTGAAA
884333 AGTGAAAGGA
Statistics
Matches: 330, Mismatches: 44, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
58 2 0.01
59 5 0.02
60 196 0.59
61 72 0.22
62 55 0.17
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAAACGAAAAG
Found at i:884095 original size:120 final size:121
Alignment explanation
Indices: 883873--884296 Score: 563
Period size: 120 Copynumber: 3.5 Consensus size: 121
883863 ACTAAAAGGC
* * *
883873 GAAAGGAGAGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 GAAAGGCGAAAGCGTCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGGCTTTGAA
** * * *
883937 ACGAAAAGGCATCCTGCTCTTT-ATGGACTGAAAATGCCACCAGCTTGTGTGGGCTTT
65 ACGCGAAGGCATCCTACTCTTTGA-AGACTGAAAATGCCACCAACTTGTGTGGGCTTT
* * *
883994 AAAAGGCGAAAGTGTCCTACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
1 GAAAGGCGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* *
884058 CGCGAAGGCGTCCTACTCTTTGAAGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT
66 CGCGAAGGCATCCTACTCTTTGAAGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT
* * *
884114 GAAAGGCGAAGGCGTCCTGCTCTTTGAGGACT-GAGGGTGCCACCAACTTGTGTGAGCTTTGAAA
1 GAAAGGCGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
* * *
884178 AGCGAAGGCATCCTACTCTTTGACGACTGGAAAATGCCACAAACTTGTGTGGGCTTT
66 CGCGAAGGCATCCTACTCTTTGAAGACT-GAAAATGCCACCAACTTGTGTGGGCTTT
* *
884235 GAAAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCGAAA-GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT
884297 AAAAGGAAAA
Statistics
Matches: 266, Mismatches: 29, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
119 6 0.02
120 155 0.58
121 77 0.29
122 4 0.02
123 24 0.09
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (121 bp):
GAAAGGCGAAAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
CGCGAAGGCATCCTACTCTTTGAAGACTGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:890966 original size:17 final size:17
Alignment explanation
Indices: 890946--890983 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
890936 AATCCTGACC
890946 ACTTATGATGCAAAAAA
1 ACTTATGATGCAAAAAA
890963 ACTTATGATGCAAAAAA
1 ACTTATGATGCAAAAAA
890980 ACTT
1 ACTT
890984 GTTTGGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
ACTTATGATGCAAAAAA
Found at i:891107 original size:52 final size:51
Alignment explanation
Indices: 891027--891145 Score: 195
Period size: 52 Copynumber: 2.3 Consensus size: 51
891017 AAAAGTTGTT
* *
891027 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAA-TTGCC
891079 TGCATGTATCGATACATTTTAA-AATGTATCGATACATCTAGGCAAATTGCC
1 TGCATGTATCGATACA-TTTAATAATGTATCGATACATCTAGGCAAATTGCC
891130 TGCATGTATCGATACA
1 TGCATGTATCGATACA
891146 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.33
52 38 0.59
53 5 0.08
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTGCC
Found at i:891158 original size:51 final size:50
Alignment explanation
Indices: 891027--891165 Score: 167
Period size: 52 Copynumber: 2.7 Consensus size: 50
891017 AAAAGTTGTT
* *
891027 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA--AAATAGTGTATCGATACATCTAGGCAAATTTGCC
891079 TGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTAGGCAAA-TTGCC
1 TGCATGTATCGATACA----AAATAGTGTATCGATACATCTAGGCAAATTTGCC
891130 TGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TGCATGTATCGATACAAA-AT-AGTGTATCGATACA
891166 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 2, Indels: 13
0.84 0.02 0.14
Matches are distributed among these distances:
47 2 0.03
48 1 0.01
50 1 0.01
51 33 0.42
52 37 0.47
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (50 bp):
TGCATGTATCGATACAAAATAGTGTATCGATACATCTAGGCAAATTTGCC
Found at i:891172 original size:13 final size:13
Alignment explanation
Indices: 891154--891178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
891144 CAAAGATCAG
891154 TGTATCGATACAA
1 TGTATCGATACAA
891167 TGTATCGATACA
1 TGTATCGATACA
891179 TTTGAGTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:891256 original size:33 final size:33
Alignment explanation
Indices: 891219--891285 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
891209 AGTAGCTTAA
891219 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
891252 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
891285 A
1 A
891286 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:891259 original size:13 final size:13
Alignment explanation
Indices: 891241--891265 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
891231 CAAAAAAATA
891241 TGTATCGATACAT
1 TGTATCGATACAT
891254 TGTATCGATACA
1 TGTATCGATACA
891266 ACATTTTATG
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:891487 original size:49 final size:49
Alignment explanation
Indices: 891415--891953 Score: 694
Period size: 49 Copynumber: 11.4 Consensus size: 49
891405 TATCTCGACT
*
891415 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891464 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGTCAATGTGCTGAGTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
*
891513 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
891562 AGGCCAGCTACATTGGACTT-AA-A-G-A--TGCCAATGTGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891605 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891654 AGGCCAGCGATATTGGACTT-AA-A-G-A--TGCCAATGTGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891697 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891746 AGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
*
891789 AGGCCAGCTACATTGGACTTAAAGATGAAGATGGTGCCAATATGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATG-A-A-GGTGCCAATGTGCTGATTCA
* * *
891841 AGGCCAGCGATATTGGACTT----A--AAGGTGCCAATGTGCTGAGTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* * *
891884 AGGCAAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
1 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* *
891933 AGGCCAGCTATATTGGGCTTA
1 AGGCCAGCTACATTGGACTTA
891954 GAAGGGTTGC
Statistics
Matches: 433, Mismatches: 30, Indels: 54
0.84 0.06 0.10
Matches are distributed among these distances:
43 145 0.33
44 5 0.01
45 6 0.01
46 4 0.01
47 6 0.01
48 5 0.01
49 223 0.52
50 1 0.00
51 1 0.00
52 37 0.09
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
Found at i:891655 original size:92 final size:92
Alignment explanation
Indices: 891415--891953 Score: 835
Period size: 92 Copynumber: 5.8 Consensus size: 92
891405 TATCTCGACT
* * * * *
891415 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
1 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
* *
891480 ACTTAAAGATGAAGGTGTCAATGTGCTGAGTCA
66 ACTT-AA-A-G-A--TGCCAATGTGCTGATTCA
* * * * *
891513 AGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGG
1 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
891578 ACTTAAAGATGCCAATGTGCTGATTCA
66 ACTTAAAGATGCCAATGTGCTGATTCA
891605 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
891670 ACTTAAAGATGCCAATGTGCTGATTCA
66 ACTTAAAGATGCCAATGTGCTGATTCA
891697 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
1 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
*
891762 ACTTAAAGGTGCCAATGTGCTGATTCA
66 ACTTAAAGATGCCAATGTGCTGATTCA
891789 AGGCCAGCTACATTGGACTTAAAGATGAAGATGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
1 AGGCCAGCTACATTGGACTTAAAGATGAAGA---TGCCAATATGCTGATTCAAGGCCAGCGATAT
* *
891854 TGGACTTAAAGGTGCCAATGTGCTGAGTCA
63 TGGACTTAAAGATGCCAATGTGCTGATTCA
* *
891884 AGGCAAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGG
1 AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
*
891949 GCTTA
66 ACTTA
891954 GAAGGGTTGC
Statistics
Matches: 426, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
92 262 0.62
94 1 0.00
95 91 0.21
96 1 0.00
97 2 0.00
98 69 0.16
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
AGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGG
ACTTAAAGATGCCAATGTGCTGATTCA
Found at i:891997 original size:33 final size:33
Alignment explanation
Indices: 891953--892190 Score: 365
Period size: 33 Copynumber: 7.2 Consensus size: 33
891943 TATTGGGCTT
*
891953 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
891986 AGAATGGTTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
892018 GGAAGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
892050 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
892084 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
892117 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
*
892151 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
892184 A-AAGGGT
1 AGAAGGGT
892191 GAAAGATGCC
Statistics
Matches: 190, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
32 42 0.22
33 110 0.58
34 38 0.20
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:892030 original size:65 final size:67
Alignment explanation
Indices: 891953--892189 Score: 374
Period size: 67 Copynumber: 3.6 Consensus size: 67
891943 TATTGGGCTT
*
891953 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAATGG-TTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGGATTGCCACCAACTTGTGTGGGCTTT
892017 -G
66 AG
*
892018 GGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG-GAAGGGATTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGGATTGCCACCAACTTGTGTGGGCTTT
892082 AG
66 AG
* * * *
892084 AGAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGGATTGCCACCAACTTGTGTGGGCTTT
892149 AG
66 AG
* *
892151 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGG
892190 TGAAAGATGC
Statistics
Matches: 160, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
64 5 0.03
65 56 0.35
66 36 0.22
67 63 0.39
ACGTcount: A:0.19, C:0.18, G:0.36, T:0.28
Consensus pattern (67 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGAGAAGGGATTGCCACCAACTTGTGTGGGCTTT
AG
Found at i:892302 original size:34 final size:34
Alignment explanation
Indices: 892192--892723 Score: 628
Period size: 34 Copynumber: 15.8 Consensus size: 34
892182 AGAAAGGGTG
* * * *
892192 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
892225 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAA-GG-AA
892261 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
892295 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
892329 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
892363 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
892397 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
892431 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
*
892464 AAAGAGTGCCACGTAGTTGTGGGCTTTA-AAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* * *
892497 AAAGAGTGCCACGTAGTCGTGGACTT-------A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
892524 AAAGGGTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
* *
892556 GAAG-GTGCCACGGAGTTGTGGGCTTTAACAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AGAA-GGAA
* *
892592 AAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAGAAGGAA
*
892627 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AGAA-GGAA
** * *
892663 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
* *
892698 AAAGTGTGCCACAGAGTTGTGGGCTT
1 AAAGAGTGCCACGGAGTTGTGGGCTT
892724 TAAAGAAAAA
Statistics
Matches: 450, Mismatches: 27, Indels: 43
0.87 0.05 0.08
Matches are distributed among these distances:
27 23 0.05
31 19 0.04
32 8 0.02
33 72 0.16
34 199 0.44
35 40 0.09
36 30 0.07
37 59 0.13
ACGTcount: A:0.33, C:0.13, G:0.35, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
Found at i:892629 original size:35 final size:34
Alignment explanation
Indices: 892523--892727 Score: 254
Period size: 37 Copynumber: 5.9 Consensus size: 34
892513 TCGTGGACTT
* *
892523 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
892557 ---AAGGTGCCACGGAGTTGTGGGCTTTAACAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAA-AA-AG
*
892590 AAAAAGAGTGCCACGGAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
892625 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AG
**
892661 AAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
*
892696 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAA
892728 GAAAAAATGC
Statistics
Matches: 150, Mismatches: 12, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
31 25 0.17
32 2 0.01
33 1 0.01
34 21 0.14
35 42 0.28
36 16 0.11
37 43 0.29
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
Found at i:892766 original size:30 final size:30
Alignment explanation
Indices: 892731--892787 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
892721 CTTTAAAGAA
892731 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
892761 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
892788 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:894103 original size:10 final size:10
Alignment explanation
Indices: 894082--894150 Score: 77
Period size: 10 Copynumber: 6.7 Consensus size: 10
894072 GCCTTTGCAC
*
894082 TTTTTTTTTG
1 TTTTTTTGTG
*
894092 TTTTTGTGTG
1 TTTTTTTGTG
*
894102 TTTTTTTTTG
1 TTTTTTTGTG
894112 TTTTTTTGTG
1 TTTTTTTGTG
894122 TTTTTTTTTGTG
1 --TTTTTTTGTG
894134 TTTTTTT-TG
1 TTTTTTTGTG
894143 TTTGTTTT
1 TTT-TTTT
894151 TTTTTCATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
9 5 0.10
10 36 0.71
12 10 0.20
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:894107 original size:20 final size:20
Alignment explanation
Indices: 894082--894152 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
894072 GCCTTTGCAC
*
894082 TTTTTTTTTGTTTTTGTGTG
1 TTTTTTTTTGTTTTTTTGTG
894102 TTTTTTTTTGTTTTTTTGTG
1 TTTTTTTTTGTTTTTTTGTG
*
894122 TTTTTTTTTGTGTTTTTTTTG
1 TTTTTTTTTGT-TTTTTTGTG
894143 TTTGTTTTTT
1 TTT-TTTTTT
894153 TTTCATCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 30 0.64
21 11 0.23
22 6 0.13
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTGTTTTTTTGTG
Found at i:894107 original size:22 final size:22
Alignment explanation
Indices: 894082--894155 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
894072 GCCTTTGCAC
894082 TTTTTTTTTG--TTTTTGTGTG
1 TTTTTTTTTGTTTTTTTGTGTG
894102 TTTTTTTTTGTTTTTTTGTGT-
1 TTTTTTTTTGTTTTTTTGTGTG
*
894123 TTTTTTTTGTGTTTTTTTTGTTTG
1 TTTTTTTT-TG-TTTTTTTGTGTG
894147 TTTTTTTTT
1 TTTTTTTTT
894156 CATCACTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
20 10 0.21
21 8 0.17
22 11 0.23
23 11 0.23
24 8 0.17
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (22 bp):
TTTTTTTTTGTTTTTTTGTGTG
Found at i:894151 original size:10 final size:10
Alignment explanation
Indices: 894082--894151 Score: 60
Period size: 9 Copynumber: 7.5 Consensus size: 10
894072 GCCTTTGCAC
*
894082 TTTTTTTTTG
1 TTTTTGTTTG
*
894092 TTTTTGTGTG
1 TTTTTGTTTG
*
894102 TTTTTTTTTG
1 TTTTTGTTTG
894112 -TTTT-TTTG
1 TTTTTGTTTG
*
894120 TGTTT-TTT-
1 TTTTTGTTTG
*
894128 TTTGTGTTT-
1 TTTTTGTTTG
894137 TTTTTGTTTG
1 TTTTTGTTTG
894147 TTTTT
1 TTTTT
894152 TTTTCATCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
8 7 0.14
9 21 0.43
10 21 0.43
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (10 bp):
TTTTTGTTTG
Found at i:901122 original size:52 final size:51
Alignment explanation
Indices: 901037--901160 Score: 196
Period size: 52 Copynumber: 2.4 Consensus size: 51
901027 ATATGAAAAG
* *
901037 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGACACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGACACATCTGGGCAAA
*
901088 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGACACATCTGGGCAAA
901140 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
901161 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 21 0.31
52 42 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGACACATCTGGGCAAA
Found at i:901173 original size:51 final size:50
Alignment explanation
Indices: 901037--901180 Score: 168
Period size: 52 Copynumber: 2.8 Consensus size: 50
901027 ATATGAAAAG
* * *
901037 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGACACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
901089 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
901140 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
901181 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.40
52 41 0.49
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:901187 original size:13 final size:13
Alignment explanation
Indices: 901169--901193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
901159 CAAAGATCAG
901169 TGTATCGATACAA
1 TGTATCGATACAA
901182 TGTATCGATACA
1 TGTATCGATACA
901194 TTTGAGTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:901271 original size:33 final size:33
Alignment explanation
Indices: 901234--901300 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
901224 AGTAGCTTAA
901234 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
901267 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
901300 A
1 A
901301 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:901274 original size:13 final size:13
Alignment explanation
Indices: 901256--901280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
901246 CAAAAAAATA
901256 TGTATCGATACAT
1 TGTATCGATACAT
901269 TGTATCGATACA
1 TGTATCGATACA
901281 ACATTTTATG
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:907703 original size:51 final size:51
Alignment explanation
Indices: 907638--907805 Score: 228
Period size: 51 Copynumber: 3.3 Consensus size: 51
907628 GAAAATAACA
* * * * **
907638 GGGTTGGAGTATCCCTGATTGTGAAAAATCGATGCTTTAGAAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
* *
907689 GGGTTGGAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
* * * *
907740 GAGTTAGAGTATCCCCGATTGTGGAAAATTGGTATTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
907791 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
907806 ATAGGAAATA
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 101 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG
Found at i:907820 original size:28 final size:28
Alignment explanation
Indices: 907789--907857 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
907779 GAAATAAAAT
907789 CGGGGTTGGAGTATCC-CATAGGAAATAA
1 CGGGGTTGGAGTATCCTCA-AGGAAATAA
* * *
907817 CGGGATTGGAGTATCCTCAATGACATAA
1 CGGGGTTGGAGTATCCTCAAGGAAATAA
*
907845 TGGGGTTGGAGTA
1 CGGGGTTGGAGTA
907858 CCCCCGATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCAAGGAAATAA
Found at i:910303 original size:20 final size:20
Alignment explanation
Indices: 910278--910413 Score: 193
Period size: 20 Copynumber: 6.8 Consensus size: 20
910268 AAAAATGCCT
910278 AAATGTATCGATACATTGTA
1 AAATGTATCGATACATTGTA
910298 AAATGTATCGATACATTGTA
1 AAATGTATCGATACATTGTA
910318 AAATGTATCGATACATTGTA
1 AAATGTATCGATACATTGTA
* *
910338 AAATGTATCGATATAATG-A
1 AAATGTATCGATACATTGTA
* * *
910357 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACATTGTA
* *
910378 AAATGTATCGATACAATGCA
1 AAATGTATCGATACATTGTA
910398 AAATGTATCGATACAT
1 AAATGTATCGATACAT
910414 CTGCATAAAC
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
19 1 0.01
20 106 0.98
21 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
AAATGTATCGATACATTGTA
Found at i:910475 original size:13 final size:13
Alignment explanation
Indices: 910428--910457 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
910418 ATAAACCCAT
910428 AATGTATCGATAC
1 AATGTATCGATAC
910441 AATGTATCGATAC
1 AATGTATCGATAC
910454 AATG
1 AATG
910458 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:911195 original size:20 final size:20
Alignment explanation
Indices: 911157--911196 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
911147 TTACAAATTT
911157 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
911178 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
911197 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:912937 original size:13 final size:13
Alignment explanation
Indices: 912919--912945 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
912909 TACAATGAAC
912919 ATGTATCGATACA
1 ATGTATCGATACA
912932 ATGTATCGATACA
1 ATGTATCGATACA
912945 A
1 A
912946 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:915203 original size:19 final size:19
Alignment explanation
Indices: 915160--915232 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
915150 CACACCCAAA
*
915160 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
915180 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
915199 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
915219 TGTATCGATACATG
1 TGTATCGATACATG
915233 AAACTAGCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 17 0.35
20 30 0.62
21 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:915300 original size:13 final size:13
Alignment explanation
Indices: 915282--915306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
915272 CATGGAACAT
915282 TGTATCGATACAA
1 TGTATCGATACAA
915295 TGTATCGATACA
1 TGTATCGATACA
915307 TGATGAGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:915306 original size:33 final size:33
Alignment explanation
Indices: 915262--915326 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
915252 TACCACTGTT
915262 TGTATCAATACATGGAACA-TTGTATCGATACAA
1 TGTATCAATACAT-GAACAGTTGTATCGATACAA
* **
915295 TGTATCGATACATGATGAGTTGTATCGATACA
1 TGTATCAATACATGAACAGTTGTATCGATACA
915327 TTGCTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (33 bp):
TGTATCAATACATGAACAGTTGTATCGATACAA
Found at i:917083 original size:80 final size:79
Alignment explanation
Indices: 916937--917339 Score: 316
Period size: 80 Copynumber: 5.1 Consensus size: 79
916927 TGAAAACCAA
* * * * * *
916937 GGTTGGAGTATCCCCTCGAAGATAGTGGAGTTGGAGTATCCCCAAAAATGAAGAA-TTCAAAGTT
1 GGTTGAAGTATCCCCTCGAAGATAGTGG-GTTGGAGTATCCCTAAAGATGAAAAATTTGACA-TT
**
917001 TTGGAAGTAAAAACGG
64 TTGGAAGTAAAAATAG
* * *
917017 GGTTGAAGTATCCCCACGAAGATGGTGGGCTTGGAGTATCCCTAGAGATGAAAAATTTGACATTT
1 GGTTGAAGTATCCCCTCGAAGATAGTGGG-TTGGAGTATCCCTAAAGATGAAAAATTTGACATTT
* *
917082 TGAAAGTAAAAAAATGG
65 TGGAAGT--AAAAATAG
* * * * *
917099 GGTTGTAGTATCCCTTCGAAGATAGTAAGGTTGCA-T-CCCCT-AAGATGAAAAATTTTG-CATT
1 GGTTGAAGTATCCCCTCGAAGATAGT-GGGTTGGAGTATCCCTAAAGATGAAAAA-TTTGACATT
* *
917160 TTGGAAGTAAAATTAA
64 TTGGAAGTAAAAATAG
* * * * * * *
917176 GATT-AGAGTATCTCCTCAAAGATGGTGGGGTTGAAGTATCCCCAAAAATGAAAAATTT-AGCAT
1 GGTTGA-AGTATCCCCTCGAAGATAGT-GGGTTGGAGTATCCCTAAAGATGAAAAATTTGA-CAT
**
917239 TTCAGAAGTAAAAATAG
63 TTTGGAAGTAAAAATAG
* * * * ** *
917256 GGTTGGAGTATCCCCTCGGAGATAGTGGGGTTAGAGTATCCCTAAAGATAAAAAAAATGGCATTT
1 GGTTGAAGTATCCCCTCGAAGATAGT-GGGTTGGAGTATCCCTAAAGATGAAAAATTTGACATTT
**
917321 TAAAAGTAAAAATAG
65 TGGAAGTAAAAATAG
917336 GGTT
1 GGTT
917340 AGAGTACCCT
Statistics
Matches: 254, Mismatches: 55, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
77 30 0.12
78 1 0.00
79 28 0.11
80 155 0.61
81 5 0.02
82 33 0.13
83 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.27
Consensus pattern (79 bp):
GGTTGAAGTATCCCCTCGAAGATAGTGGGTTGGAGTATCCCTAAAGATGAAAAATTTGACATTTT
GGAAGTAAAAATAG
Found at i:917299 original size:159 final size:159
Alignment explanation
Indices: 916937--917310 Score: 348
Period size: 159 Copynumber: 2.3 Consensus size: 159
916927 TGAAAACCAA
* * * *
916937 GGTTGGAGTATCCCCTCGAAGATAGTGGAGTTGGAGTATCCCCAAAAATGAAGAATTCAAAGTTT
1 GGTTGGAGTATCCCCTCGAAGATAGTGGGGTT-GAGTAT-CCCTAAGATGAAAAATTCAAAGTTT
** * * * * * *
917002 TGGAAGTAAAAACGGGGTTGAAGTATCCCCACGAAGATGGTGGGCTTGGAGTATCCCTAGAGATG
64 TGGAAGTAAAAACAAGATTGAAGTATCCCCACAAAGATGGTGGGCTTGAAGTATCCCCAAAAATG
* *
917067 AAAAATTTGACATTTTGAAAGTAAAAAAATGG
129 AAAAATTTGACATTTAGAAAGT-AAAAAATAG
* * ** * ***
917099 GGTTGTAGTATCCCTTCGAAGATAGTAAGGTTGCA-T-CCCCTAAGATGAAAAATTTTGCA-TTT
1 GGTTGGAGTATCCCCTCGAAGATAGTGGGGTTG-AGTATCCCTAAGATGAAAAA-TTCAAAGTTT
** * * *
917161 TGGAAGTAAAATTAAGATT-AGAGTATCTCCTCAAAGATGGTGGGGTTGAAGTATCCCCAAAAAT
64 TGGAAGTAAAAACAAGATTGA-AGTATCCCCACAAAGATGGTGGGCTTGAAGTATCCCCAAAAAT
917225 GAAAAATTT-AGCATTTCAG-AAGT-AAAAATAG
128 GAAAAATTTGA-CATTT-AGAAAGTAAAAAATAG
* *
917256 GGTTGGAGTATCCCCTCGGAGATAGTGGGGTTAGAGTATCCCTAAAGATAAAAAA
1 GGTTGGAGTATCCCCTCGAAGATAGTGGGGTT-GAGTATCCCT-AAGATGAAAAA
917311 AATGGCATTT
Statistics
Matches: 169, Mismatches: 34, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
157 35 0.21
158 4 0.02
159 86 0.51
160 14 0.08
161 2 0.01
162 28 0.17
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (159 bp):
GGTTGGAGTATCCCCTCGAAGATAGTGGGGTTGAGTATCCCTAAGATGAAAAATTCAAAGTTTTG
GAAGTAAAAACAAGATTGAAGTATCCCCACAAAGATGGTGGGCTTGAAGTATCCCCAAAAATGAA
AAATTTGACATTTAGAAAGTAAAAAATAG
Found at i:920625 original size:69 final size:68
Alignment explanation
Indices: 920428--921262 Score: 423
Period size: 69 Copynumber: 12.5 Consensus size: 68
920418 AGATAGGTGT
* * * *
920428 CACCAACTTGTGTGGGTTTTGAGAAAG-AAAAGAT-TCTTGCTCTTTGAGGAC-AAAAGGGATAA
1 CACCAGCTTATGTGGGCTTTGA-AAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGG-T-A
920490 AAGGTGC
63 AA-GTGC
* * * *
920497 TACCAGCTTATGTGGGCTTT-AAAAGATAAAAAGATATCCTACTCTTTGAGGACTAAAAAGGATA
1 CACCAGCTTATGTGGGCTTTGAAAAG--AAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGG-TA
920561 AATGTGC
63 AA-GTGC
* **
920568 CATCAGCTTATGTGGGCTTT-AAAAGAAAAATG-TGTCTTATTCTTTGAGGACTAAAAAGGTAAA
1 CACCAGCTTATGTGGGCTTTGAAAAGAAAAA-GATGTCTTGCTCTTTGAGGACTAAAAAGGT-AA
920631 GAGTGC
64 -AGTGC
* * * * * *
920637 CACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAAGACT---AA---AAAG
1 CACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGTAAAG
*
920696 TGA
66 TGC
* * * *
920699 CACCAGCTTGTGTGAGCTTTGAAAAAGAAAAAGATGTCCTGCTTTTTGAGGACT-AAAA-G----
1 CACCAGCTTATGTGGGCTTTG-AAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGTAAA
920758 GTGC
65 GTGC
* * * *
920762 CACCAGCTTGTGTGGGCTTT-AAAAGAAATAGGTGTCTTGCTCTTTGAAGACTAAAAAGGTAAAG
1 CACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGTAAA-
*
920826 GGTAC
65 -GTGC
*
920831 CACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATATCTTGCTCTTTGAGGACT---AA---AAAG
1 CACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGTAAAG
920890 TGC
66 TGC
* * * *
920893 CACCAACTTGTGTGGGTTTTGAAAAAGAAAAAAACT-TCTT-CAT-TTTGAGGACT-AAAA-G--
1 CACCAGCTTATGTGGGCTTTG-AAAAGAAAAAGA-TGTCTTGC-TCTTTGAGGACTAAAAAGGTA
920951 --GTGC
63 AAGTGC
* * * ** * *
920955 CACCAACTTATGTGGGCTTTAAAAAAGAAAAAAAAACATCCTGTTCTTTGAGGACTAAAAA--TA
1 CACCAGCTTATGTGGGCTTT-GAAAAG--AAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGT-
*
921018 AAAGGTGT
62 AAA-GTGC
** * * * * * * * * *
921026 TGCCAACTTGTGTGGGCTTTAAAAAAGAAAAAG-CGTCTTGCTTTTTAATGATTAAAAAGTTAAA
1 CACCAGCTTATGTGGGCTTT-GAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGT-AA
*
921090 ACTTGC
64 A-GTGC
* * * * * * * *
921096 CACCAGCTTATGTGAGCTTTAAAAAAGAAAAACA--TCATACTTTTTTAGGACTAAAATA--AAA
1 CACCAGCTTATGTGGGCTTT-GAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAA-AGGTAA
921157 AGTGC
64 AGTGC
* * * * * *
921162 CACTAGCTTATGTAGGCTTCTAATAAAG-AAAAGCA--TCCTGCTCTTTAAGGA-TTAAAA--TA
1 CACCAGCTTATGTGGGCTT-TGA-AAAGAAAAAG-ATGTCTTGCTCTTTGAGGACTAAAAAGGT-
921221 AAAGGTGC
62 AAA-GTGC
* * *
921229 CACTAGCTTGTGTTGGCTTTGAAAAAGAAAAAGA
1 CACCAGCTTATGTGGGCTTTG-AAAAGAAAAAGA
921263 AAGCGTCATG
Statistics
Matches: 619, Mismatches: 94, Indels: 109
0.75 0.11 0.13
Matches are distributed among these distances:
61 27 0.04
62 86 0.14
63 69 0.11
64 17 0.03
65 13 0.02
66 42 0.07
67 56 0.09
68 20 0.03
69 113 0.18
70 96 0.16
71 72 0.12
72 8 0.01
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (68 bp):
CACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGGACTAAAAAGGTAAAG
TGC
Found at i:920709 original size:62 final size:62
Alignment explanation
Indices: 920627--921015 Score: 352
Period size: 62 Copynumber: 6.1 Consensus size: 62
920617 ACTAAAAAGG
* *
920627 TAAAGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAAGAC
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAGGAC
* * * * *
920689 TAAAAAGTGACACCAGCTTGTGTGAGCTTTGAAAAAGAAAAAGATGTCCTGCTTTTTGAGGAC
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAA-AAAAAGACGTCCTGCTCTTTGAGGAC
* * * * ** * *
920752 TAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGAAATAGGTGTCTTGCTCTTTGAAGAC
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAGGAC
* * * ** *
920813 TAAAAAGGTAAAGGGTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATATCTTGCTCTTTG
1 TAAAAA-GT-----G--CCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTG
920878 AGGAC
58 AGGAC
* * * *
920883 TAAAAAGTGCCACCAACTTGTGTGGGTTTTGAAAAAGAAAAAAAC-TTCTTCAT-TTTGAGGAC
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAA-AAAAAGACGTCCTGC-TCTTTGAGGAC
* * * * * *
920945 TAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAGAAAAAAAAACATCCTGTTCTTTGAGGAC
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTT--GAAA-AAAAAAAGACGTCCTGCTCTTTGAGGAC
921010 TAAAAA
1 TAAAAA
921016 TAAAAGGTGT
Statistics
Matches: 271, Mismatches: 39, Indels: 31
0.79 0.11 0.09
Matches are distributed among these distances:
61 26 0.10
62 100 0.37
63 57 0.21
64 13 0.05
65 19 0.07
67 1 0.00
69 22 0.08
70 33 0.12
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (62 bp):
TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAGGAC
Found at i:920847 original size:194 final size:193
Alignment explanation
Indices: 920564--920978 Score: 589
Period size: 194 Copynumber: 2.1 Consensus size: 193
920554 AAGGATAAAT
* * * *
920564 GTGCCATCAGCTTATGTGGGCTTTAAAAGAAAAATGTGTCTTATTCTTTGAGGACTAAAAAGGTA
1 GTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGTGTCTTACTCTTTGAAGACTAAAAAGGTA
* * *
920629 AAGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTGAAGACTAAAA
66 AAGAGTACCACCAACTTATGTGGGCTTTGAAAAAAAAAAGACATCCTGCTCTTTGAAGACTAAAA
* * *
920694 AGTGACACCAGCTTGTGTGAGCTTTGAAAAAGAAAAAGA-TGTCCTGCTTTTTGAGGACTAAAAG
131 AGTGACACCAACTTGTGTGAGCTTTGAAAAAGAAAAAAACT-T-CTGCATTTTGAGGACTAAAAG
* * *
920758 GTGCCACCAGCTTGTGTGGGCTTTAAAAGAAATAGGTGTCTTGCTCTTTGAAGACTAAAAAGGTA
1 GTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGTGTCTTACTCTTTGAAGACTAAAAAGGTA
* * * * * *
920823 AAGGGTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATATCTTGCTCTTTGAGGACTAAAA
66 AAGAGTACCACCAACTTATGTGGGCTTTGAAAAAAAAAAGACATCCTGCTCTTTGAAGACTAAAA
* * * *
920888 AGTGCCACCAACTTGTGTGGGTTTTGAAAAAGAAAAAAACTTCTTCATTTTGAGGACTAAAAG
131 AGTGACACCAACTTGTGTGAGCTTTGAAAAAGAAAAAAACTTCTGCATTTTGAGGACTAAAAG
*
920951 GTGCCACCAACTTATGTGGGCTTTAAAA
1 GTGCCACCAGCTTATGTGGGCTTTAAAA
920979 AAGAAAAAAA
Statistics
Matches: 195, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
193 45 0.23
194 149 0.76
195 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (193 bp):
GTGCCACCAGCTTATGTGGGCTTTAAAAGAAAAAGGTGTCTTACTCTTTGAAGACTAAAAAGGTA
AAGAGTACCACCAACTTATGTGGGCTTTGAAAAAAAAAAGACATCCTGCTCTTTGAAGACTAAAA
AGTGACACCAACTTGTGTGAGCTTTGAAAAAGAAAAAAACTTCTGCATTTTGAGGACTAAAAG
Found at i:920893 original size:131 final size:130
Alignment explanation
Indices: 920487--920924 Score: 437
Period size: 131 Copynumber: 3.3 Consensus size: 130
920477 ACAAAAGGGA
* * * * * * *
920487 TAAAAGGTGCTACCAGCTTATGTGGGCTTT-AAAAGATAAAAAGATATCCTACTCTTTGAGGACT
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG--AAAAAGATGTCCTGCTCTTTGAAGACT
* * **
920551 AAAAAGGATAAATGTGCCATCAGCTTATGTGGGCTTT-AAAAGAAAAATG-TGTCTTATTCTTTG
64 AAAAAGG-TAAA-GTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAA-GATGTCTTGCTCTTTG
920614 AGGAC
126 AGGAC
* *
920619 TAAAAAGGTAAAGAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGACGTCCTGCTCTTTG
1 T----A---AAA-AGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCTCTTTG
* * * *
920684 AAGACTAAAAA-GT---G-A-CACCAGCTTGTGTGAGCTTTGAAAAAGAAAAAGATGTCCTGCTT
58 AAGACTAAAAAGGTAAAGTACCACCAGCTTATGTGGGCTTTG-AAAAGAAAAAGATGTCTTGCTC
920743 TTTGAGGAC
122 TTTGAGGAC
* * * * *
920752 TAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAAAGAAATAGGTGTCTTGCTCTTTGAAGACTAA
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCTCTTTGAAGACTAA
*
920816 AAAGGTAAAGGGTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATATCTTGCTCTTTGAGG
66 AAAGGTAAA--GTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGG
920881 AC
129 AC
*
920883 TAAAAAGTGCCACCAACTTGTGTGGGTTTTGAAAAAGAAAAA
1 TAAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAAAAA
920925 AACTTCTTCA
Statistics
Matches: 251, Mismatches: 33, Indels: 43
0.77 0.10 0.13
Matches are distributed among these distances:
124 32 0.13
125 25 0.10
126 3 0.01
129 1 0.00
130 1 0.00
131 73 0.29
132 21 0.08
133 36 0.14
136 1 0.00
137 1 0.00
138 1 0.00
139 31 0.12
140 21 0.08
141 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (130 bp):
TAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGATGTCCTGCTCTTTGAAGACTAA
AAAGGTAAAGTACCACCAGCTTATGTGGGCTTTGAAAAGAAAAAGATGTCTTGCTCTTTGAGGAC
Found at i:921224 original size:66 final size:65
Alignment explanation
Indices: 921040--921259 Score: 224
Period size: 67 Copynumber: 3.3 Consensus size: 65
921030 AACTTGTGTG
* * * * *
921040 GGCTTTAAAAAAGAAAAAGCGTCTTGCTTTTTAATGATTAAAAAGTTAAAACTTGCCACCAGCTT
1 GGCTTTAAAAAAG-AAAAGCATCATGCTTTTTAAGGATT-AAAA--TAAAACGTGCCACTAGCTT
921105 ATGT
62 ATGT
* * * * *
921109 GAGCTTTAAAAAAGAAAAACATCATACTTTTTTAGGACTAAAATAAAAAGTGCCACTAGCTTATG
1 G-GCTTTAAAAAAGAAAAGCATCATGCTTTTTAAGGATTAAAATAAAACGTGCCACTAGCTTATG
921174 T
65 T
* * * * *
921175 AGGCTTCTAATAAAGAAAAGCATCCTGCTCTTTAAGGATTAAAATAAAAGGTGCCACTAGCTTGT
1 -GGCTT-TAAAAAAGAAAAGCATCATGCTTTTTAAGGATTAAAATAAAACGTGCCACTAGCTTAT
921240 GTT
64 G-T
*
921243 GGCTTTGAAAAAGAAAA
1 GGCTTTAAAAAAGAAAA
921260 AGAAAGCGTC
Statistics
Matches: 126, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
66 34 0.27
67 56 0.44
68 5 0.04
69 19 0.15
70 12 0.10
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (65 bp):
GGCTTTAAAAAAGAAAAGCATCATGCTTTTTAAGGATTAAAATAAAACGTGCCACTAGCTTATGT
Found at i:921261 original size:67 final size:67
Alignment explanation
Indices: 920486--921261 Score: 324
Period size: 62 Copynumber: 11.7 Consensus size: 67
920476 GACAAAAGGG
* * * * * *
920486 ATAAAAGGTGCTACCAGCTTATGTGGGCTTTAAAAGATAAAAAGATATCCTACTCTTTGAGGACT
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAG-CATCCTGCTCTTTAAGGA-T
*
920551 AAAA
64 TAAA
* * * ** * ** *
920555 AGGATAAATGTGCCATCAGCTTATGTGGGCTTT--AAAAGAAAAATGTGTCTTATTCTTTGAGGA
1 A-TA-AAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAA-GCATCCTGCTCTTTAAGGA
*
920618 CTAAA
63 TTAAA
* * * *
920623 A-AGGTAAAGAGTGCCACCAACTTGTGTGGGCTTTGAAAAA-AAAAAGACGTCCTGCTCTTTGAA
1 ATA---AAAG-GTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAG-CATCCTGCTCTTT-AA
*
920686 -GACT---
60 GGATTAAA
* * * * * *
920690 A-AAAA-GTGACACCAGCTTGTGTGAGCTTTGAAAAAGAAAAAG-ATGTCCTGCTTTTTGAGG--
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAGCA--TCCTGCTCTTTAAGGAT
920750 ---A
64 TAAA
* * * ** *
920751 CTAAAAGGTGCCACCAGCTTGTGTGGGCTTT--AAAAGAAATAGGTGTCTTGCTCTTTGAA-GAC
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAA-AAGCATCCTGCTCTTT-AAGGA-
*
920813 TAAAA
63 TTAAA
* * * * * *
920818 AGGTAAAGGGTACCACCAGCTTATGTGGGCTTT-GAAAAGAAAAAGATATCTTGCTCTTTGAGGA
1 A--TAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAG-CATCCTGCTCTTTAAGGA
*
920882 CT---
63 TTAAA
* * * * * * * *
920884 A-AAAA-GTGCCACCAACTTGTGTGGGTTTTGAAAAAGAAAAA-AACTTCTTCAT-TTTGAGG--
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAGCA-TCCTGC-TCTTTAAGGAT
920943 ---A
64 TAAA
* * * * *
920944 CTAAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAAGAAAAAAAAACATCCTGTTCTTTGAGGA
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAG---AAAAAGCATCCTGCTCTTTAAGGA
*
921009 CTAAAA
63 -TTAAA
*** * * * * * *
921015 ATAAAAGGTGTTGCCAACTTGTGTGGGCTTTAAAAAAGAAAAAGCGTCTTGCTTTTTAATGATTA
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAGCATCCTGCTCTTTAAGGATT-
921080 AAA
65 AAA
** * * * * * *
921083 AGTTAAAACTTGCCACCAGCTTATGTGAGCTTTAAAAAAGAAAAA-CATCATACTTTTTTAGGAC
1 A--TAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAGCATCCTGCTCTTTAAGGAT
921147 TAAA
64 TAAA
* * * *
921151 ATAAAAAGTGCCACTAGCTTATGTAGGCTTCTAATAAAG-AAAAGCATCCTGCTCTTTAAGGATT
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTT-TAAAAAAGAAAAAGCATCCTGCTCTTTAAGGATT
921215 AAA
65 AAA
* * * *
921218 ATAAAAGGTGCCACTAGCTTGTGTTGGCTTTGAAAAAGAAAAAG
1 ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAG
921262 AAAGCGTCAT
Statistics
Matches: 549, Mismatches: 104, Indels: 110
0.72 0.14 0.14
Matches are distributed among these distances:
61 23 0.04
62 93 0.17
63 53 0.10
64 4 0.01
65 15 0.03
66 37 0.07
67 61 0.11
68 33 0.06
69 90 0.16
70 76 0.14
71 64 0.12
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.28
Consensus pattern (67 bp):
ATAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAAAGAAAAAGCATCCTGCTCTTTAAGGATTA
AA
Found at i:921958 original size:120 final size:120
Alignment explanation
Indices: 921745--921984 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
921735 ATGACGTTAT
*
921745 TGCCATGTTCTATCATTCTTAGTAATATTATGAAATCCTGTTATCATTTTTTTATTCATTTATCA
1 TGCCAAGTTCTATCATTCTTAGTAATATTATGAAATCCTGTTATCATTTTTTTATTCATTTATCA
921810 AACATTATCAATTAAATGATAAACATGATGCACCATAGCATGCAGGGTTATGTAA
66 AACATTATCAATTAAATGATAAACATGATGCACCATAGCATGCAGGGTTATGTAA
921865 TGCCAAGTTCTATCATTCTTAGTAATATTATGAAATCCTGTTATCATTTTTTTATTCATTTATCA
1 TGCCAAGTTCTATCATTCTTAGTAATATTATGAAATCCTGTTATCATTTTTTTATTCATTTATCA
921930 AACATTATCAATTAAATGATAAACATGATGCACCATAGCATGCAGGGTTATGTAA
66 AACATTATCAATTAAATGATAAACATGATGCACCATAGCATGCAGGGTTATGTAA
921985 GGATTTTGCA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.40
Consensus pattern (120 bp):
TGCCAAGTTCTATCATTCTTAGTAATATTATGAAATCCTGTTATCATTTTTTTATTCATTTATCA
AACATTATCAATTAAATGATAAACATGATGCACCATAGCATGCAGGGTTATGTAA
Found at i:923502 original size:13 final size:13
Alignment explanation
Indices: 923484--923509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
923474 CAATTTTTTG
923484 TGTATCGATACAT
1 TGTATCGATACAT
923497 TGTATCGATACAT
1 TGTATCGATACAT
923510 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:928164 original size:15 final size:15
Alignment explanation
Indices: 928128--928165 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
928118 TTCATCAATT
* *
928128 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
928143 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
928158 TCATTTTG
1 TCATTTTG
928166 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:929998 original size:21 final size:21
Alignment explanation
Indices: 929969--930013 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
929959 AAGTTTTCAT
*
929969 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
929989 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
930011 TTT
1 TTT
930014 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:932244 original size:13 final size:13
Alignment explanation
Indices: 932226--932251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
932216 CAATTTTTTG
932226 TGTATCGATACAT
1 TGTATCGATACAT
932239 TGTATCGATACAT
1 TGTATCGATACAT
932252 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:940162 original size:52 final size:53
Alignment explanation
Indices: 940078--940215 Score: 163
Period size: 52 Copynumber: 2.6 Consensus size: 53
940068 ATGAAGATGA
* * * *
940078 GAAGAGTGATAAAGGCGCCAATATGCTAATTCAAAAGT-AGTGATATTGGGCTT
1 GAAGA-TGACAAAGGCGCCAATATGCTGATTCAAAAGTCAGCGATATTGGACTT
* **
940131 GAAGATGACAAAGGCGCCAATATGCCGATTC-AGGGTCAGCGATATTGGACTT
1 GAAGATGACAAAGGCGCCAATATGCTGATTCAAAAGTCAGCGATATTGGACTT
* * *
940183 AAAGATGACAAAGGTGCCAATATGTTGATTCAA
1 GAAGATGACAAAGGCGCCAATATGCTGATTCAA
940216 GGCCAACAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
51 3 0.04
52 63 0.88
53 6 0.08
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (53 bp):
GAAGATGACAAAGGCGCCAATATGCTGATTCAAAAGTCAGCGATATTGGACTT
Found at i:940230 original size:52 final size:52
Alignment explanation
Indices: 940122--940326 Score: 214
Period size: 52 Copynumber: 3.9 Consensus size: 52
940112 AAGTAGTGAT
* * * * * * * * *
940122 ATTGGGCTTGAAGATGACAAAGGCGCCAATATGCCGATTCAGGGTCAGCGAT
1 ATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAAA
*
940174 ATTGGACTTAAAGATGACAAAGGTGCCAATATGTTGATTCAAGGCCAACAAA
1 ATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAAA
* * * * * * *
940226 ATTGGACAT-AAGAAAGAAAAAGGTGCTAATGTGCTGATTCAAGGCCAGCAAC
1 ATTGGACTTAAAG-ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAAA
* **
940278 ATTGCACTTAAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGCCAAC
1 ATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAAC
940327 GATATTGGGC
Statistics
Matches: 125, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
51 3 0.02
52 119 0.95
53 3 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (52 bp):
ATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACAAA
Found at i:940521 original size:27 final size:27
Alignment explanation
Indices: 940480--940545 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
940470 TTTTGAAAAC
* *
940480 AAAAAGGTGCAATAGAGTTGTCGACTT
1 AAAAGGGTGCCATAGAGTTGTCGACTT
*
940507 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCATAGAGTTGTCGACTT
940534 AAAAGGGTGCCA
1 AAAAGGGTGCCA
940546 CAAAGTTATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCATAGAGTTGTCGACTT
Found at i:940552 original size:27 final size:27
Alignment explanation
Indices: 940495--940688 Score: 100
Period size: 27 Copynumber: 6.7 Consensus size: 27
940485 GGTGCAATAG
* * *
940495 AGTTGTCGACTTAAAAGGGTGCCATAG
1 AGTTGTGGACTTAAAAGGGTGCCACAA
940522 AGTTGTGGACTTAAAAGGGTGCCACAA
1 AGTTGTGGACTTAAAAGGGTGCCACAA
* * * *
940549 AGTTATGGGCTTTGAAAGGAAATAGGTGCCACTA
1 AGTTGTGGAC-TT---A--AAA-GGGTGCCACAA
* * *
940583 AGTTATGGACTTGAAAGGGTGCCACGA
1 AGTTGTGGACTTAAAAGGGTGCCACAA
* * **
940610 AGTTGTGGGCTTTGAAAAGAAACAAGTGCCACTG
1 AGTTGTGGAC-TT-AAAAG-----GGTGCCACAA
* * *
940644 AGTTGTGAACTTAAAAGGGTACCACAG
1 AGTTGTGGACTTAAAAGGGTGCCACAA
*
940671 AGTTGTGGACTTCAAAGG
1 AGTTGTGGACTTAAAAGG
940689 AAAAAAGGTG
Statistics
Matches: 129, Mismatches: 24, Indels: 28
0.71 0.13 0.15
Matches are distributed among these distances:
27 72 0.56
28 7 0.05
29 4 0.03
31 1 0.01
32 5 0.04
33 7 0.05
34 33 0.26
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGGTGCCACAA
Found at i:940607 original size:61 final size:61
Alignment explanation
Indices: 940507--940916 Score: 298
Period size: 61 Copynumber: 6.6 Consensus size: 61
940497 TTGTCGACTT
* *
940507 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGGCTTTGAAAGG
1 AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
* * * * *
940568 AAATAGGTGCCACTA-AGTTATGGACTTGAAAGGGTGCCACGAAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCA-TAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
* * * * *
940629 AAACAA-GTGCCACT-GAGTTGTGAACTTAAAAGGGTACCACAGAGTTGTGGAC-TTCAAAGG
1 AAA-AAGGTGCCA-TAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
* * *** ** *
940689 AAAAAAGGTGCCATAGAGTTGTGGGCTTAAAAAGGTGCCATGGAGTTGTGAAC-TTAAAAGG
1 -AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
** * * * *
940750 AAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGAC-TTAA
1 AAAAA-GGTGCCATAGAGTTGTGGAC-TT-AAAAG-----GGTGCCACAAAGTTGTGGGCTTTGA
940814 AAGG
58 AAGG
* * * * ** * *
940818 AAAAGGGTGCCACAAAGTTGGTGG-CTTAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
1 AAAAAGGTGCCATAGAGTT-GTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
* * *
940878 -AAAAGGTTGCCATAAAGTTATGGGCTTAAAAGGGTGCCA
1 AAAAAGG-TGCCATAGAGTTGTGGACTTAAAAGGGTGCCA
940917 TGGAGTTGTG
Statistics
Matches: 292, Mismatches: 40, Indels: 35
0.80 0.11 0.10
Matches are distributed among these distances:
59 8 0.03
60 66 0.23
61 157 0.54
62 5 0.02
63 4 0.01
65 4 0.01
66 2 0.01
67 13 0.04
68 33 0.11
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (61 bp):
AAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTGTGGGCTTTGAAAGG
Found at i:940728 original size:27 final size:27
Alignment explanation
Indices: 940690--940747 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
940680 CTTCAAAGGA
**
940690 AAAAAGGTGCCATAGAGTTGTGGGCTT
1 AAAAAGGTGCCATAGAGTTGTGAACTT
*
940717 AAAAAGGTGCCATGGAGTTGTGAACTT
1 AAAAAGGTGCCATAGAGTTGTGAACTT
940744 AAAA
1 AAAA
940748 GGAAAAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCATAGAGTTGTGAACTT
Found at i:940754 original size:33 final size:33
Alignment explanation
Indices: 940656--940889 Score: 183
Period size: 34 Copynumber: 7.4 Consensus size: 33
940646 TTGTGAACTT
* * * *
940656 AAAAGGGTACCACAGAGTTGTGGACTTCAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
940689 AAAAAAGGTGCCATAGAGTTGTGGGCTT------
1 -AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
940717 AAAAAGGTGCCATGGAGTTGTGAACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
940750 AAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
940785 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* **
940818 AAAAGGGTGCCACAAAGTTGGTGG-CTT------
1 AAAAAGGTGCCACGGAGTT-GTGGACTTAAAAGG
940845 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
940878 -AAAAGGTTGCCA
1 AAAAAGG-TGCCA
940890 TAAAGTTATG
Statistics
Matches: 164, Mismatches: 17, Indels: 39
0.75 0.08 0.18
Matches are distributed among these distances:
26 4 0.02
27 43 0.26
32 10 0.06
33 33 0.20
34 62 0.38
35 8 0.05
36 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:940856 original size:27 final size:27
Alignment explanation
Indices: 940785--940935 Score: 88
Period size: 27 Copynumber: 5.1 Consensus size: 27
940775 CTTTGAAAAG
*
940785 AAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTGTGGACTT
940812 AAAAGGAAAAGGGTGCCACAAAGTTGGTGG-CTT
1 ---A--AAAA-GGTGCCACAAAGTT-GTGGACTT
**
940845 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTGTGGACTT
* * *
940872 AAAAGGAAAAGGTTGCCATAAAGTTATGGGCTT
1 ---A--AAAAGG-TGCCACAAAGTTGTGGACTT
* ***
940905 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAAGGTGCCACAAAGTTGTGGACTT
940932 AAAA
1 AAAA
940936 TTGTGCCATG
Statistics
Matches: 97, Mismatches: 13, Indels: 25
0.72 0.10 0.19
Matches are distributed among these distances:
26 4 0.04
27 35 0.36
28 9 0.09
30 4 0.04
32 10 0.10
33 31 0.32
34 4 0.04
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (27 bp):
AAAAAGGTGCCACAAAGTTGTGGACTT
Found at i:940857 original size:60 final size:60
Alignment explanation
Indices: 940785--940935 Score: 232
Period size: 60 Copynumber: 2.5 Consensus size: 60
940775 CTTTGAAAAG
* *
940785 AAAAAGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAGGGTGCCACAAAGTT-GGTGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGGTGCCACAAAGTTATG-GGCTT
* *
940845 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTTGCCATAAAGTTATGGGCTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGGTGCCACAAAGTTATGGGCTT
* *
940905 AAAAGGGTGCCATGGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA
940936 TTGTGCCATG
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 83 0.99
61 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (60 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGGTGCCACAAAGTTATGGGCTT
Found at i:940906 original size:33 final size:32
Alignment explanation
Indices: 940534--940910 Score: 174
Period size: 34 Copynumber: 12.0 Consensus size: 32
940524 TTGTGGACTT
* * *
940534 AAAAGGGTGCCACAAAGTTATGGGCTTTGAAAGG
1 AAAA-GGTGCCACGAAGTTGTGGGC-TTAAAAGG
* * *
940568 AAATAGGTGCCACTAAGTTATGGACTT-----G
1 AAA-AGGTGCCACGAAGTTGTGGGCTTAAAAGG
*
940596 AAAGGGTGCCACGAAGTTGTGGGCTTTGAAAA-G
1 AAAAGGTGCCACGAAGTTGTGGGC-TT-AAAAGG
* **
940629 AAACAAGTGCCACTG-AGTTGTGAACTTAAAA-G
1 AAA-AGGTGCCAC-GAAGTTGTGGGCTTAAAAGG
* * *
940661 ----GGTACCAC-AGAGTTGTGGACTTCAAAGG
1 AAAAGGTGCCACGA-AGTTGTGGGCTTAAAAGG
*
940689 AAAAAAGGTGCCA-TAGAGTTGTGGGCTT---A--
1 --AAAAGGTGCCACGA-AGTTGTGGGCTTAAAAGG
* * **
940718 AAAAGGTGCCATGGAGTTGTGAACTTAAAAGG
1 AAAAGGTGCCACGAAGTTGTGGGCTTAAAAGG
* *
940750 AAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGA
1 -AAAA-GGTGCCACGAAGTTGTGGGC-TT-AAAAGG
*
940786 AAAAGGTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGAAGTTGTGGGCTTAAAAGG
*
940818 AAAAGGGTGCCACAAAGTTG-GTGGCTT---A--
1 AAAA-GGTGCCACGAAGTTGTG-GGCTTAAAAGG
* *
940846 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAGGTGCCACGAAGTTGTGGGCTTAAAAGG
** *
940878 AAAAGGTTGCCATAAAGTTATGGGCTTAAAAGG
1 AAAAGG-TGCCACGAAGTTGTGGGCTTAAAAGG
940911 GTGCCATGGA
Statistics
Matches: 268, Mismatches: 37, Indels: 77
0.70 0.10 0.20
Matches are distributed among these distances:
27 75 0.28
28 12 0.04
30 3 0.01
31 1 0.00
32 21 0.08
33 53 0.20
34 90 0.34
35 8 0.03
36 5 0.02
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (32 bp):
AAAAGGTGCCACGAAGTTGTGGGCTTAAAAGG
Found at i:940941 original size:27 final size:27
Alignment explanation
Indices: 940878--940958 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
940868 ACTTAAAAGG
* ** *
940878 AAAAGGTTGCCATAAAGTTATGGGCTT
1 AAAAGGGTGCCATGGAGTTATGGACTT
*
940905 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCATGGAGTTATGGACTT
**
940932 AAAATTGTGCCATGGAGTTATGGACTT
1 AAAAGGGTGCCATGGAGTTATGGACTT
940959 TTGGAGGAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (27 bp):
AAAAGGGTGCCATGGAGTTATGGACTT
Found at i:941037 original size:31 final size:31
Alignment explanation
Indices: 940972--941088 Score: 128
Period size: 30 Copynumber: 3.7 Consensus size: 31
940962 GAGGAAAATG
* * *
940972 GATGCCACTGAGTCGTGGACTTAGAG-TAGA
1 GATGCCACTGAGTCGTGGACTTTGGGAAAGA
*
941002 GATGCCACTGAGTTGTGGACTTTGGGAAAGA
1 GATGCCACTGAGTCGTGGACTTTGGGAAAGA
* * *
941033 GATGCCATTGAATCGTGGACTTTGGGAGAAAAAA
1 GATGCCACTGAGTCGTGGACTTT-GG-G-AAAGA
*
941067 GATGCCACTAAGTCGTGGACTT
1 GATGCCACTGAGTCGTGGACTT
941089 AGAAGAAAAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
30 23 0.32
31 23 0.32
32 2 0.03
33 1 0.01
34 23 0.32
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (31 bp):
GATGCCACTGAGTCGTGGACTTTGGGAAAGA
Found at i:941083 original size:34 final size:33
Alignment explanation
Indices: 940952--941106 Score: 115
Period size: 31 Copynumber: 4.8 Consensus size: 33
940942 CATGGAGTTA
** *
940952 TGGACTTTTGGAGGAAAATGGATGCCACTGAGTCG
1 TGGAC-TTTGGA-GAAAAAAGATGCCACTAAGTCG
** * * *
940987 TGGAC-TT--AGAGTAGAGATGCCACTGAGTTG
1 TGGACTTTGGAGAAAAAAGATGCCACTAAGTCG
* *
941017 TGGACTTTGG-G-AAAGAGATGCCATTGAA-TCG
1 TGGACTTTGGAGAAAAAAGATGCCACT-AAGTCG
941048 TGGACTTTGGGAGAAAAAAGATGCCACTAAGTCG
1 TGGACTTT-GGAGAAAAAAGATGCCACTAAGTCG
* * *
941082 TGGACTTAGAAGAAAAATGATGCCA
1 TGGACTTTGGAGAAAAAAGATGCCA
941107 TTGAGTCATG
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
30 22 0.23
31 24 0.25
32 4 0.04
33 20 0.21
34 22 0.23
35 5 0.05
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (33 bp):
TGGACTTTGGAGAAAAAAGATGCCACTAAGTCG
Found at i:941168 original size:22 final size:22
Alignment explanation
Indices: 941140--941189 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
941130 AGATTTGAAA
*
941140 GATTGAGATGTAGTTCACTGGG
1 GATTGAGATGTAGTTCACTAGG
941162 GATTGAGATGTAGTTCACTAGG
1 GATTGAGATGTAGTTCACTAGG
941184 GATTGA
1 GATTGA
941190 TGGGAGCAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.26, C:0.08, G:0.34, T:0.32
Consensus pattern (22 bp):
GATTGAGATGTAGTTCACTAGG
Found at i:949435 original size:22 final size:22
Alignment explanation
Indices: 949407--949461 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
949397 AAAAACCCAA
*
949407 ATGTATCGATACAATTTGAAGC
1 ATGTATCGATACAATTTGAAAC
949429 ATGTATCGATACAATTTGAAAC
1 ATGTATCGATACAATTTGAAAC
*
949451 ATGTATTGATA
1 ATGTATCGATA
949462 TATTTATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (22 bp):
ATGTATCGATACAATTTGAAAC
Found at i:949535 original size:19 final size:20
Alignment explanation
Indices: 949511--949564 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
949501 AAAGTAGTTT
949511 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
949530 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
949551 TGTATCGATACAAA
1 TGTATCGATACAAA
949565 TTGTAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:949556 original size:21 final size:19
Alignment explanation
Indices: 949508--949564 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
949498 TGTAAAGTAG
949508 TTTTGTATCGATACAAAAC
1 TTTTGTATCGATACAAAAC
* **
949527 TTATGTATCGATACATTTAC
1 TTTTGTATCGATACA-AAAC
949547 TGTTTGTATCGATACAAA
1 T-TTTGTATCGATACAAA
949565 TTGTAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (19 bp):
TTTTGTATCGATACAAAAC
Found at i:953021 original size:79 final size:80
Alignment explanation
Indices: 952915--953083 Score: 250
Period size: 80 Copynumber: 2.1 Consensus size: 80
952905 AGAGTTAGAA
* * * * * *
952915 TATCCCCGATTGTGGAGAATTGGTGTTTTAGAAAGAAAACC-GAGGTTTGAGTATCCCCTCGAGA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAAGAAAACCGGAGGTTAGAGTATCCCCTCGAAA
952979 ATAACGGGGTTGGAG
66 ATAACGGGGTTGGAG
* * *
952994 TATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGGTTAGAGTATCCCCTCGAAA
1 TATCCCCGATTATGAAAAATTGATGTTTTAGAAAGAAAACCGGAGGTTAGAGTATCCCCTCGAAA
953059 ATAACGGGGTTGGAG
66 ATAACGGGGTTGGAG
953074 TATCCCCGAT
1 TATCCCCGAT
953084 GATTAACGGG
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 35 0.44
80 44 0.56
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (80 bp):
TATCCCCGATTATGAAAAATTGATGTTTTAGAAAGAAAACCGGAGGTTAGAGTATCCCCTCGAAA
ATAACGGGGTTGGAG
Found at i:953068 original size:28 final size:28
Alignment explanation
Indices: 953036--953107 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
953026 AATAAAACCG
*
953036 GGGGTTAGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCC-CGATAAATAAC
* *
953064 GGGGTTGGAGTAT-CCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCGATAAATAAC
953091 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
953108 GATTGATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 21 0.54
28 15 0.38
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGATAAATAAC
Found at i:953182 original size:51 final size:52
Alignment explanation
Indices: 953094--953264 Score: 149
Period size: 51 Copynumber: 3.3 Consensus size: 52
953084 GATTAACGGG
* ** *
953094 GTTGGAGTATCCCCGATTGATAAAAATTGATGTTTTTGGTAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAAAATTGATGTTTTTGAAAATAAAACCGGA
* *
953146 GTTGGAG-ATCCCCGATT-AAAGGAAAATTGCTG-TTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGAAA--AAAATTGATGTTTTTGAAAATAAAACCGGA
* *** *
953197 GTTAGAGTATCCCCGATTG-TGGAAATT-AGTGTTTTAG-AAATAAAACCAGG-
1 GTTGGAGTATCCCCGATTGAAAAAAATTGA-TGTTTTTGAAAATAAAACC-GGA
*
953247 GTTGGAGTATCCTCGATT
1 GTTGGAGTATCCCCGATT
953265 ATGAAAAATT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
50 35 0.36
51 37 0.38
52 26 0.27
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGAAAAAAATTGATGTTTTTGAAAATAAAACCGGA
Found at i:953209 original size:238 final size:237
Alignment explanation
Indices: 952583--953211 Score: 591
Period size: 237 Copynumber: 2.6 Consensus size: 237
952573 TGTTGGAGAT
* * * *
952583 AATAACGGGGTTGGAGTATCCCC-TTGAAAATAACAAGGTTGGAGAATCCCCGATTGTGAAAAA-
1 AATAACGGGGTTGGAGTATCCCCAATG-AAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAAT
* * * * * * *
952646 TCG-ATGATTTAGAAATAAGA-CAAGGGTT-GAAGTGTCCCCGATTATA-GAAAATAGATGTTTC
65 TAGTAT--TTTGGAAATAAAATC-AGAGTTAGAAG-ATCCCCGATTAAAGGAAAATTGATGTTT-
* ** * * *
952707 AAAAATAAAGTCGGGATTGGAGTATCCCCGTGAAAATAATAGGGTTGGAATATCTCCAATTATGA
125 TAAAATAAAACCGGGGTTAGAGTATCCCCGTGAAAATAACAGGGTTGGAATATCTCCAATTATGA
* * * * *
952772 GAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGA
190 AAAATCAATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGAA
* * * *
952820 AGTAACGGGGTTGGAGTATCCTCAATGAAATAATGAGGTTAGAGTATCCTCGATTGTGAAAAATT
1 AATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAATT
* * ** * *
952885 AGTATTTTGGAAATAAAATTAGAGTTAGAATATCCCCGATT-GTGGAGAATTGGTGTTTTAGAAA
66 AGTATTTTGGAAATAAAATCAGAGTTAGAAGATCCCCGATTAAAGGAAAATTGATGTTTTA-AAA
* * * * * * *
952949 GAAAACCGAGGTTTGAGTATCCCC-TCGAGAATAACGGGGTTGGAGTATC-CTCGATTATGAAAA
130 TAAAACCGGGGTTAGAGTATCCCCGT-GAAAATAACAGGGTTGGAATATCTC-CAATTATGAAAA
** *
953012 ATTGATGTTTTAGAAATAAAACCGGGGGTTAGAGTATCCCCTCGAA
193 ATCAATATTTTAGAAATAAAACC-GGGGTTAGAGTATCCCCTCGAA
* * * *
953058 AATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTGAT-AAAAAT
1 AATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATTG-TGAAAAAT
* * * *
953121 TGATGT-TTTTGGTAATAAAATCGGAGTT-GGAGATCCCCGATTAAAGGAAAATTGCTGTTTTGA
65 T-A-GTATTTTGGAAATAAAATCAGAGTTAGAAGATCCCCGATTAAAGGAAAATTGATGTTTT-A
953184 AAATAAAACCGGGGTTAGAGTATCCCCG
127 AAATAAAACCGGGGTTAGAGTATCCCCG
953212 ATTGTGGAAA
Statistics
Matches: 316, Mismatches: 60, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
236 3 0.01
237 198 0.63
238 110 0.35
239 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (237 bp):
AATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTAGAGTATCCCCGATTGTGAAAAATT
AGTATTTTGGAAATAAAATCAGAGTTAGAAGATCCCCGATTAAAGGAAAATTGATGTTTTAAAAT
AAAACCGGGGTTAGAGTATCCCCGTGAAAATAACAGGGTTGGAATATCTCCAATTATGAAAAATC
AATATTTTAGAAATAAAACCGGGGTTAGAGTATCCCCTCGAA
Found at i:953238 original size:50 final size:49
Alignment explanation
Indices: 953090--953264 Score: 165
Period size: 50 Copynumber: 3.4 Consensus size: 49
953080 CGATGATTAA
** * *
953090 CGGGGTTGGAGTATCCCCGATTGATAAAAATTGATGTTTTTGGTAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTG-TGGAAATTGATG-TTTT-GAAATAAAAC
* ** *
953142 CGGAGTTGGAG-ATCCCCGATTAAAGGAAAATTGCTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATT-GTGG-AAATTGATGTTTTG-AAATAAAAC
*
953193 CGGGGTTAGAGTATCCCCGATTGTGGAAATT-AGTGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTGTGGAAATTGA-TGTTTT-GAAATAAAAC
* *
953243 CAGGGTTGGAGTATCCTCGATT
1 CGGGGTTGGAGTATCCCCGATT
953265 ATGAAAAATT
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
50 40 0.40
51 33 0.33
52 28 0.28
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (49 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAATTGATGTTTTGAAATAAAAC
Found at i:955648 original size:13 final size:13
Alignment explanation
Indices: 955630--955655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
955620 ACAAAGATCG
955630 ATGTATCGATACA
1 ATGTATCGATACA
955643 ATGTATCGATACA
1 ATGTATCGATACA
955656 TTCTACAAAT
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:955732 original size:19 final size:21
Alignment explanation
Indices: 955708--955759 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
955698 AGCGATACAC
*
955708 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
955727 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
955748 TGTATCGATACA
1 TGTATCGATACA
955760 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:961023 original size:20 final size:20
Alignment explanation
Indices: 960995--961033 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
960985 CTACCACGGT
*
960995 TTGTTTCGATACATGGTATA
1 TTGTATCGATACATGGTATA
*
961015 TTGTATCGATACATTGTAT
1 TTGTATCGATACATGGTAT
961034 CGATACATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (20 bp):
TTGTATCGATACATGGTATA
Found at i:961032 original size:13 final size:13
Alignment explanation
Indices: 961014--961041 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
961004 TACATGGTAT
961014 ATTGTATCGATAC
1 ATTGTATCGATAC
961027 ATTGTATCGATAC
1 ATTGTATCGATAC
961040 AT
1 AT
961042 AGTAAAAAGT
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:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:966939 original size:20 final size:20
Alignment explanation
Indices: 966914--966987 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
966904 GAATGTATTG
*
966914 ATGTATCGATACAATGAAAA
1 ATGTATCGATACATTGAAAA
* * *
966934 ATGTATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
966954 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
966974 ATGTATCGATACAT
1 ATGTATCGATACAT
966988 CTGGGTAGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:967794 original size:28 final size:26
Alignment explanation
Indices: 967752--967804 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
967742 GGAAGTAAAA
967752 TGGGGTTGAAGTATCCCCTTAGAGATGG
1 TGGGGTTGAAGTAT-CCC-TAGAGATGG
967780 TGGGGTTGGAA-TATCCCTAGAGATG
1 TGGGGTT-GAAGTATCCCTAGAGATG
967805 AAAAATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.33
27 3 0.12
28 10 0.42
29 3 0.12
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (26 bp):
TGGGGTTGAAGTATCCCTAGAGATGG
Found at i:967868 original size:80 final size:80
Alignment explanation
Indices: 967676--968130 Score: 412
Period size: 80 Copynumber: 5.7 Consensus size: 80
967666 TGAAAACTAA
* * * * * * *
967676 GGTTGAAGTATCCCTTTGGAGATGGTGGGGTTGGAGTATCCCCAAATATGAAGAA-TTCAATGTT
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTTC-ATGTT
967740 TTGGAAGT-AAAATGG
65 TTGGAAGTAAAAATGG
* * *
967755 GGTTGAAGTATCCCCT-TAGAGATGGTGGGGTTGGAATATCCCTAGAGATGAAAAATTTGATGTT
1 GGTTGAAGTATCCCCTCGA-AGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTTCATGTT
967819 TTGGAAGTAAAAATGG
65 TTGGAAGTAAAAATGG
* * * *
967835 GGTTGGAGTATCCCCTCGAAGATGGTGGGGTTGGAGGTATCACTAGAGATGAAAAA-TTCGATGT
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGA-ATATCCCTAAAGATGAAAAATTTC-ATGT
967899 TTTGGAAGTAAAAATGG
64 TTTGGAAGTAAAAATGG
* * * *
967916 GATT-AGAGTATCCCTTCAAAGATGGTGGGGTT-GAAGTATCCCCTAAA-ATGAAGAA-TTCAGT
1 GGTTGA-AGTATCCCCTCGAAGATGGTGGGGTTGGAA-TAT-CCCTAAAGATGAAAAATTTCA-T
**
967977 GTTTTGGAAGTAAAAACAG
62 GTTTTGGAAGTAAAAATGG
* * ** * *
967996 GCTTGAAATATCTTCTCGAAGATGATGGGGTTGGAGTAT-CCTCAAAGATGAAAAA-TTCA-GCA
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAATATCCCT-AAAGATGAAAAATTTCATG--
*
968058 TTTTGGAAGTAAAAATAG
63 TTTTGGAAGTAAAAATGG
* ** * * * *
968076 AGTCAAAGTATGCCCTCAAAGATAGTGGGGTTGGAATATCTCC-AAAGATAAAAAA
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAATATC-CCTAAAGATGAAAAA
968131 ATCGGCATTT
Statistics
Matches: 311, Mismatches: 47, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
78 4 0.01
79 63 0.20
80 167 0.54
81 75 0.24
82 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (80 bp):
GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAATATCCCTAAAGATGAAAAATTTCATGTTT
TGGAAGTAAAAATGG
Found at i:967948 original size:161 final size:158
Alignment explanation
Indices: 967676--968115 Score: 466
Period size: 160 Copynumber: 2.8 Consensus size: 158
967666 TGAAAACTAA
* * * * * *
967676 GGTTGAAGTATCCCTTTGGAGATGGTGGGGTTGGAGTATCCCCAAATATGAAGAATTCAATGTTT
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAGTAT-CCTAAAGATGAAAAATTC-ATGTTT
* * *
967741 TGGAAGT-AAAATGGGGTT-GAAGTATCCCCTT-AGAGATGGTGGGGTTGGAATATCCCTAGAGA
64 TGGAAGTAAAAATGGGATTAG-AGTATCCCCTTCAAAGATGGTGGGGTTGGAATATCCCTA-AAA
* **
967803 TGAAAAATT-TGATGTTTTGGAAGTAAAAATGG
127 TGAAAAATTCAG-TGTTTTGGAAGTAAAAACAG
* *
967835 GGTTGGAGTATCCCCTCGAAGATGGTGGGGTTGGAGGTATCACTAGAGATGAAAAATTCGATGTT
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGA-GTATC-CTAAAGATGAAAAATTC-ATGTT
967900 TTGGAAGTAAAAATGGGATTAGAGTAT-CCCTTCAAAGATGGTGGGGTT-GAAGTATCCCCTAAA
63 TTGGAAGTAAAAATGGGATTAGAGTATCCCCTTCAAAGATGGTGGGGTTGGAA-TAT-CCCTAAA
*
967963 ATGAAGAATTCAGTGTTTTGGAAGTAAAAACAG
126 ATGAAAAATTCAGTGTTTTGGAAGTAAAAACAG
* * ** *
967996 GCTTGAAATATCTTCTCGAAGATGATGGGGTTGGAGTATCCTCAAAGATGAAAAATTCA-GCATT
1 GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAGTATCCT-AAAGATGAAAAATTCATG--TT
* * * * *
968060 TTGGAAGTAAAAAT-AGAGTCAAAGTATGCCC-TCAAAGATAGTGGGGTTGGAATATC
63 TTGGAAGTAAAAATGGGA-TTAGAGTATCCCCTTCAAAGATGGTGGGGTTGGAATATC
968116 TCCAAAGATA
Statistics
Matches: 240, Mismatches: 27, Indels: 28
0.81 0.09 0.09
Matches are distributed among these distances:
158 1 0.00
159 38 0.16
160 99 0.41
161 95 0.40
162 7 0.03
ACGTcount: A:0.32, C:0.11, G:0.28, T:0.28
Consensus pattern (158 bp):
GGTTGAAGTATCCCCTCGAAGATGGTGGGGTTGGAGTATCCTAAAGATGAAAAATTCATGTTTTG
GAAGTAAAAATGGGATTAGAGTATCCCCTTCAAAGATGGTGGGGTTGGAATATCCCTAAAATGAA
AAATTCAGTGTTTTGGAAGTAAAAACAG
Found at i:970098 original size:26 final size:26
Alignment explanation
Indices: 970062--970112 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
970052 AAGTGGCTGA
970062 GGAACTCTTAGGGGATCTCTATCTTT
1 GGAACTCTTAGGGGATCTCTATCTTT
*
970088 GGAACTCTTAGGGGGTCTCTATCTT
1 GGAACTCTTAGGGGATCTCTATCTT
970113 ATTTTTGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (26 bp):
GGAACTCTTAGGGGATCTCTATCTTT
Found at i:970636 original size:20 final size:21
Alignment explanation
Indices: 970609--970665 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
970599 TCAAAAATCC
970609 AGAATGTATCGATACAATG-A
1 AGAATGTATCGATACAATGCA
* * *
970629 ATAATGTATCAATACATTGCA
1 AGAATGTATCGATACAATGCA
*
970650 AGCATGTATCGATACA
1 AGAATGTATCGATACA
970666 TTCACTTATG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
AGAATGTATCGATACAATGCA
Found at i:970678 original size:20 final size:20
Alignment explanation
Indices: 970611--970685 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
970601 AAAAATCCAG
* *
970611 AATGTATCGATACAATGAAT
1 AATGTATCGATACATTCAAT
* *
970631 AATGTATCAATACATTGCAAG
1 AATGTATCGATACATT-CAAT
* *
970652 CATGTATCGATACATTCACT
1 AATGTATCGATACATTCAAT
* *
970672 TATGTATTGATACA
1 AATGTATCGATACA
970686 ATTTTTTACT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAT
Found at i:971487 original size:13 final size:14
Alignment explanation
Indices: 971469--971497 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
971459 AACTTTTTCA
971469 ATAAAGTA-AAACT
1 ATAAAGTAGAAACT
971482 ATAAAGTAGAAACT
1 ATAAAGTAGAAACT
971496 AT
1 AT
971498 GAATAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.59, C:0.07, G:0.10, T:0.24
Consensus pattern (14 bp):
ATAAAGTAGAAACT
Found at i:981589 original size:29 final size:29
Alignment explanation
Indices: 981557--981641 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
981547 TCATTTTAGT
981557 AATTTTTTATGATTTAGGATCATTTATAC
1 AATTTTTTATGATTTAGGATCATTTATAC
** * *
981586 AATTTCATAT-ATGTTAGGGTCATCTTA-AT
1 AATTTTTTATGAT-TTAGGATCAT-TTATAC
* * *
981615 AATTTTTCAAGATTTAGGATTATTTAT
1 AATTTTTTATGATTTAGGATCATTTAT
981642 GCATTTTCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
28 5 0.12
29 32 0.76
30 5 0.12
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (29 bp):
AATTTTTTATGATTTAGGATCATTTATAC
Found at i:981632 original size:58 final size:58
Alignment explanation
Indices: 981542--981652 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
981532 TAAGAAGCAC
* * * *
981542 TAGGGTCATTTTAGTAATTTTTTATGATTTAGGATCATTTATACAATTTCATATATGT
1 TAGGGTCATCTTAATAATTTTTCAAGATTTAGGATCATTTATACAATTTCATATATGT
* * *
981600 TAGGGTCATCTTAATAATTTTTCAAGATTTAGGATTATTTATGCATTTTCATA
1 TAGGGTCATCTTAATAATTTTTCAAGATTTAGGATCATTTATACAATTTCATA
981653 CATTTTAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (58 bp):
TAGGGTCATCTTAATAATTTTTCAAGATTTAGGATCATTTATACAATTTCATATATGT
Found at i:985642 original size:13 final size:13
Alignment explanation
Indices: 985624--985651 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
985614 ATATAAAGAT
985624 CAATGTATCGATA
1 CAATGTATCGATA
985637 CAATGTATCGATA
1 CAATGTATCGATA
985650 CA
1 CA
985652 TTTGAGTAAT
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:986166 original size:33 final size:33
Alignment explanation
Indices: 986129--986195 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
986119 TTCAACGATT
986129 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
986162 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
986195 T
1 T
986196 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:986167 original size:13 final size:13
Alignment explanation
Indices: 986149--986173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986139 CATAAAATGT
986149 TGTATCGATACAA
1 TGTATCGATACAA
986162 TGTATCGATACA
1 TGTATCGATACA
986174 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:986258 original size:13 final size:13
Alignment explanation
Indices: 986240--986264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986230 ATTACTCACA
986240 TGTATCGATACAT
1 TGTATCGATACAT
986253 TGTATCGATACA
1 TGTATCGATACA
986265 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:986401 original size:52 final size:52
Alignment explanation
Indices: 986273--986393 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
986263 CACTGATCTT
*
986273 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
986325 TGTATCGATATATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
986377 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
986394 ATAAATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:993603 original size:16 final size:16
Alignment explanation
Indices: 993582--993617 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
993572 TTCCAAACAC
*
993582 AAAAAAAAGAAAAAAG
1 AAAAAAAACAAAAAAG
*
993598 AAAAAAAACAAAACAG
1 AAAAAAAACAAAAAAG
993614 AAAA
1 AAAA
993618 TCTCGGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:994786 original size:27 final size:27
Alignment explanation
Indices: 994749--994997 Score: 156
Period size: 27 Copynumber: 8.1 Consensus size: 27
994739 TTTTTTCATC
* *
994749 TTTAAGTCCACGACTCCGTGGCACTCT
1 TTTAAGCCCACAACTCCGTGGCACTCT
994776 TTTAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTAAGCCCACAACTCCGTGGCA-C----TCT
*
994808 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 TTT-AAGCCCACAACTCCGTGGCA--C----T--CT
*
994844 TTTCAAAGCCCACAACTCCGTGGCACCCT
1 TTT-AA-GCCCACAACTCCGTGGCACTCT
*
994873 TTTGAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 TTT-AAGCCCACAACTCCGTGGCAC-----TC-T
* *
994907 CTTTAAGTCCACGACTCCGTGGCACTCT
1 -TTTAAGCCCACAACTCCGTGGCACTCT
994935 TTTAAGCCCACAACTCCGTGGCACCTTTTTCT
1 TTTAAGCCCACAACTCCGTGGCA-C----TCT
*
994967 TTTAAAGCCCACAACTCTGTGGCACTCT
1 TTT-AAGCCCACAACTCCGTGGCACTCT
994995 TTT
1 TTT
994998 TCCCTTTTCA
Statistics
Matches: 183, Mismatches: 16, Indels: 45
0.75 0.07 0.18
Matches are distributed among these distances:
27 42 0.23
28 27 0.15
29 9 0.05
32 13 0.07
33 39 0.21
34 25 0.14
35 4 0.02
36 7 0.04
37 17 0.09
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACTCT
Done.