Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 4 of 27
Found at i:519114 original size:13 final size:13
Alignment explanation
Indices: 519096--519120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
519086 ACATAAGTTT
519096 TGTATCGATACAA
1 TGTATCGATACAA
519109 TGTATCGATACA
1 TGTATCGATACA
519121 TAAGTATTGT
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:519200 original size:13 final size:13
Alignment explanation
Indices: 519182--519207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
519172 CATTTTTGTG
519182 TGTATCGATACAT
1 TGTATCGATACAT
519195 TGTATCGATACAT
1 TGTATCGATACAT
519208 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:521628 original size:51 final size:53
Alignment explanation
Indices: 521562--521906 Score: 198
Period size: 52 Copynumber: 6.6 Consensus size: 53
521552 TTGAGTTTCT
* *
521562 CAATTT-TTCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACAC
1 CAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
* * *
521613 TAA-TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACAC
* * * *** * *
521666 CAATTTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTC
1 CAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACAC
*** *** * * * *
521719 CAACCCCGTT-ATTTTCGAGGAGATACTCTAACCCCGGTTTTA--TCGCTAAAACAC
1 CAATTTC-TTCACAATCG-GG-GATACTCCAACTCCGATTTTATTTC-CAAAAACAC
* * * *
521773 TAATTT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGC
1 CAATTTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACAC
* * *
521825 CAATTTTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAATAC
1 CAA-TTT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
*
521878 CAATTT-TTCACAATCGAGGATACTCCAAC
1 CAATTTCTTCACAATCGGGGATACTCCAAC
521907 CTCGTTATTT
Statistics
Matches: 221, Mismatches: 49, Indels: 47
0.70 0.15 0.15
Matches are distributed among these distances:
50 7 0.03
51 33 0.15
52 80 0.36
53 38 0.17
54 41 0.19
55 19 0.09
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
CAATTTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
Found at i:521890 original size:104 final size:103
Alignment explanation
Indices: 521562--521907 Score: 324
Period size: 104 Copynumber: 3.3 Consensus size: 103
521552 TTGAGTTTCT
* * * *
521562 CAATTTTTCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAA
1 CAATTTTTCACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAA
*
521626 TCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACAC
65 TCGGGGATACTCTAACTCCGATTTTATTT-CTAAAAACAC
* * ** * * * **
521666 CAATTTCTTCACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGT
1 CAATTT-TTCACAATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCC-T
** * * **
521728 TATTTTCGAGGAGATACTCTAACCCCGGTTTTATCGCT-AAAACAC
61 T-TAATCG-GG-GATACTCTAACTCCGATTTTATTTCTAAAAACAC
* *
521773 TAATTTTTCCACAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTA
1 CAATTTTT-CACAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
* *
521838 ATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAATAC
64 ATCGGGGATACTCTAACTCCGATTTTATTTCTAAAAACAC
*
521878 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCACAATCGGGGATACTCCAACC
521908 TCGTTATTTC
Statistics
Matches: 187, Mismatches: 40, Indels: 31
0.72 0.16 0.12
Matches are distributed among these distances:
103 8 0.04
104 48 0.26
105 38 0.20
106 20 0.11
107 38 0.20
108 9 0.05
109 26 0.14
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAAT
CGGGGATACTCTAACTCCGATTTTATTTCTAAAAACAC
Found at i:521926 original size:28 final size:28
Alignment explanation
Indices: 521890--521966 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
521880 ATTTTTCACA
* * *
521890 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
521918 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
* *
521946 -TGTGGGGATACTCCAATCCCG
1 AT-CGGGGATACTCCAACCCCG
521967 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:521958 original size:212 final size:211
Alignment explanation
Indices: 521563--521946 Score: 594
Period size: 212 Copynumber: 1.8 Consensus size: 211
521553 TGAGTTTCTC
* *
521563 AATTTTTCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATC
1 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATC
* *
521628 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
66 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCC
*
521693 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACTCTAACCCCGGTT
131 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCTCGAGGAGATACTCTAACCCCGGTT
521758 TTATCGCTAAAACACT
196 TTATCGCTAAAACACT
* * *
521774 AATTTTTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTA
1 AATTTTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATA
* *
521838 ATCGGGGATACTCCAACTCCGATTTTATTT-CTAAAAATACCAATTT-TTCACAATCGAGGATAC
63 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
* *
521901 TCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCT
128 TCCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCT
521947 GTGGGGATAC
Statistics
Matches: 156, Mismatches: 12, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
211 36 0.23
212 84 0.54
213 36 0.23
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (211 bp):
AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATC
GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCC
AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCTCGAGGAGATACTCTAACCCCGGTT
TTATCGCTAAAACACT
Found at i:527568 original size:34 final size:35
Alignment explanation
Indices: 527530--527596 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
527520 CCTTACAACA
527530 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
527564 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
527597 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:528072 original size:13 final size:13
Alignment explanation
Indices: 528054--528079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
528044 CAATTTTTTG
528054 TGTATCGATACAT
1 TGTATCGATACAT
528067 TGTATCGATACAT
1 TGTATCGATACAT
528080 ACTTTGTGTA
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:528091 original size:32 final size:33
Alignment explanation
Indices: 528034--528097 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
528024 TACAAGCCAA
**
528034 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
528067 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
528098 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:530006 original size:13 final size:13
Alignment explanation
Indices: 529988--530012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
529978 ACTGAAGTAA
529988 TGTATCGATACAT
1 TGTATCGATACAT
530001 TGTATCGATACA
1 TGTATCGATACA
530013 ATCTGGAAAA
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:533219 original size:34 final size:35
Alignment explanation
Indices: 533181--533247 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
533171 CCTTACAACA
533181 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
533215 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
533248 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:533723 original size:13 final size:13
Alignment explanation
Indices: 533705--533730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
533695 CAATTTTTTG
533705 TGTATCGATACAT
1 TGTATCGATACAT
533718 TGTATCGATACAT
1 TGTATCGATACAT
533731 ACTTTGTGTA
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:533742 original size:32 final size:33
Alignment explanation
Indices: 533685--533748 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
533675 TACAAGCCAA
**
533685 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
533718 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
533749 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:541307 original size:5 final size:5
Alignment explanation
Indices: 541293--541343 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
541283 ACCTTCTCTT
*
541293 AAAA- AAAAC AAAAC AAAAA AAAAGC AAAA- AAAA- AAAAC AAAAC AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC
541341 AAA
1 AAA
541344 GAAAAAGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
4 12 0.29
5 26 0.62
6 4 0.10
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:541320 original size:11 final size:11
Alignment explanation
Indices: 541295--541349 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
541285 CTTCTCTTAA
541295 AAAAAACAAAAC
1 AAAAAA-AAAAC
*
541307 AAAAAAAAAGC
1 AAAAAAAAAAC
541318 AAAAAAAAAA-
1 AAAAAAAAAAC
541328 AACAAAACAAAAC
1 AA-AAAA-AAAAC
541341 AAAGAAAAA
1 AAA-AAAAA
541350 GAGAGAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 2 0.05
11 17 0.46
12 13 0.35
13 5 0.14
ACGTcount: A:0.85, C:0.11, G:0.04, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:542535 original size:59 final size:59
Alignment explanation
Indices: 542355--543491 Score: 1491
Period size: 59 Copynumber: 19.5 Consensus size: 59
542345 AGCAGGACAC
* * **
542355 CTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCAGTCCTCAAAAAGCAGGG-CGCCTTCCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGC-GGGACGCCTT-TT
**
542416 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
542476 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
542535 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * * * * *
542594 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTTCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
542653 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC-TTT
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * *
542713 C----AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * **
542764 CTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
542824 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
542883 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
542942 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * * * * *
543001 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
543060 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACC-TTT
1 C-TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * *
543120 C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
* * ** *
543171 CTTTTAAAGCCCACACAGGTTGTTGGCATTTTCCAGTCCTAAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
543231 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
543290 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * ** * *
543349 CTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
543408 CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
543467 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
543492 TTTTTACTCC
Statistics
Matches: 976, Mismatches: 72, Indels: 62
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.00
54 8 0.01
55 195 0.20
56 2 0.00
59 508 0.52
60 171 0.18
61 88 0.09
62 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
Found at i:542710 original size:26 final size:26
Alignment explanation
Indices: 542680--542767 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
542670 AAGTTGGTGG
542680 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
* * * **
542706 CACCTTTCAAAGCCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCTCA-AAG-AGCAGGA
**
542735 CATTTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCTCAAAGAGCAGGA
542761 CACCTTT
1 CACCTTT
542768 TAAAGCCCAC
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 6 0.14
28 6 0.14
29 9 0.21
30 3 0.07
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (26 bp):
CACCTTTCAGTCCTCAAAGAGCAGGA
Found at i:542985 original size:348 final size:348
Alignment explanation
Indices: 542334--543495 Score: 1732
Period size: 348 Copynumber: 3.3 Consensus size: 348
542324 TCCGCTTTTT
* * *
542334 AGTCCTCAAAGAGCAGGA-CACCTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCAGTCCTCA
1 AGTCCTCAAAGAGCAGGAGCACCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCA
* * * *
542397 AAAAGCAGGGCGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
65 AAGAGCA--G-G---ACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
542462 GCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGA
124 GCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGA
542527 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTT
189 CGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTT
* * * *
542592 TTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTTCTCAAAGAGCAGGATGCTTTTTCTTT
254 TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTT
*
542657 TCAAAGCCCACACAAGTTGGTGGCACCTTTC
319 T-AAAGCCCACCCAAGTTGGTGGCACCTTTC
**
542688 AGTCCTCAAAGAGCAGGA-CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGAGCACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
* * *
542752 AGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTCCTCAAAGAGCGGGAC
66 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGAC
542817 GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTT
131 GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTT
*
542882 TCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
196 TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
542947 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCC
261 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCC
543012 CACCCAAGTTGGTGGCACCTTT-
326 CACCCAAGTTGGTGGCACCTTTC
* * * *
543034 AATCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 AGTCCTCAAAGAGCAGGA-GC----ACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
543099 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
61 CTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * * * ** *
543164 AGGAC-AC----CTTTTAAAGCCCACACAGGTTGTTGGCATTTTCCAGTCCTAAAAGAGCGGGAC
126 GGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGAC
543224 GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTT
190 GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTT
* * *
543289 TCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
255 TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTT
*
543354 AAAGCCCACCCGAGTTGGTGGCACC-TTC
320 AAAGCCCACCCAAGTTGGTGGCACCTTTC
* ***
543382 AGTCCTCAAAGAGTAGGATGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 AGTCCTCAAAGAGCAGGA-GCACCTT-TC--AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* *
543447 TCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
62 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
543496 TACTCCTCAA
Statistics
Matches: 753, Mismatches: 42, Indels: 32
0.91 0.05 0.04
Matches are distributed among these distances:
344 4 0.01
345 1 0.00
346 17 0.02
347 133 0.18
348 430 0.57
351 2 0.00
352 102 0.14
354 62 0.08
355 2 0.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (348 bp):
AGTCCTCAAAGAGCAGGAGCACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAA
AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGAC
GCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTT
TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTT
AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCC
CACCCAAGTTGGTGGCACCTTTC
Found at i:543091 original size:407 final size:407
Alignment explanation
Indices: 542329--543514 Score: 2001
Period size: 407 Copynumber: 2.9 Consensus size: 407
542319 CTCCCTCCGC
* * * * *
542329 TTTTT-AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGATGGTGGCACTTCCCAGTC
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTC
* ** **
542393 CTCAAAAAGCAGGG-CGCCTTCCCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
66 CTCAAAGAGC-GGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
*
542457 AAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
128 AAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAG
* *
542522 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGAC
193 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGAT
*
542587 GCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTTCTCAAAGAGCAGGATGCTTTT
258 GCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTT
542652 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAA
323 TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAA
542717 GCCCACACAAGTTGGTGGCA
388 GCCCACACAAGTTGGTGGCA
542737 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTC
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTC
542802 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
66 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
542867 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
131 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
542932 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCC
196 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCC
*
542997 TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAATCCTCAAAGAGCAGGATGCTTTTTCT
261 TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCT
*
543062 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
326 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
543127 CACACAAGTTGGTGGCA
391 CACACAAGTTGGTGGCA
* *
543144 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGTTGGCATTTTCCAGTC
1 TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTC
*
543209 CTAAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
66 CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
543274 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
131 GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
* * * *
543339 GACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGTAGGATGCT
196 GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCC
* * *
543404 TTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-----C
261 TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAGGATGCTTTTTC
* * * * *
543464 -TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCTCAATGAGCAGGA
325 TTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
543515 TACACTTTAT
Statistics
Matches: 742, Mismatches: 33, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
402 45 0.06
403 1 0.00
407 570 0.77
408 57 0.08
409 69 0.09
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (407 bp):
TTTTTCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGATGGCATTTTCCAGTC
CTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAA
GAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGG
GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCC
TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCTTTTTCT
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCC
CACACAAGTTGGTGGCA
Found at i:544259 original size:21 final size:21
Alignment explanation
Indices: 544233--544290 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
544223 AAAAATTTTC
*
544233 CAAATGTATCGATACATTTGTA
1 CAAATGTATCGATACA-TTCTA
* *
544255 -GAATGTATCAATACATTCTA
1 CAAATGTATCGATACATTCTA
544275 CAAATGTATCGATACA
1 CAAATGTATCGATACA
544291 GGGTCCCAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:544353 original size:19 final size:19
Alignment explanation
Indices: 544326--544393 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
544316 AATTCAACGA
*
544326 TTTGCATCGATACATAAGT
1 TTTGTATCGATACATAAGT
544345 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
544360 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
544377 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
544394 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:544365 original size:13 final size:13
Alignment explanation
Indices: 544347--544371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
544337 ACATAAGTTT
544347 TGTATCGATACAA
1 TGTATCGATACAA
544360 TGTATCGATACA
1 TGTATCGATACA
544372 TAAGTATTGT
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:544451 original size:13 final size:13
Alignment explanation
Indices: 544433--544458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
544423 CATTTTTCTG
544433 TGTATCGATACAT
1 TGTATCGATACAT
544446 TGTATCGATACAT
1 TGTATCGATACAT
544459 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:544455 original size:33 final size:33
Alignment explanation
Indices: 544413--544479 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
544403 GCCAAGGAAA
***
544413 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
544446 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
544479 T
1 T
544480 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:546879 original size:51 final size:54
Alignment explanation
Indices: 546815--547156 Score: 173
Period size: 52 Copynumber: 6.5 Consensus size: 54
546805 AGTTTCTCAA
* * * *
546815 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-A-AAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
* *
546866 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAACAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
* * * **** * * *
546920 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTCCAACAAACACCAAT
** ** * * * *
546973 CCCGTT-A-TTTCCGAGGAGATACTCCAACCCCTATTTTA--TCGCTA-AAACACTAAT
1 TTC-TTCACAAT-CG-GG-GATACTCCAACTCCGATTTTATTTC-CAACAAACACCAAT
* * *
547027 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-A-AAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAACAAACACCAA-T
* * *
547080 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCTAA-AAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
*
547132 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
547157 CTCGTTATTT
Statistics
Matches: 216, Mismatches: 49, Indels: 51
0.68 0.16 0.16
Matches are distributed among these distances:
50 4 0.02
51 33 0.15
52 81 0.38
53 36 0.17
54 39 0.18
55 20 0.09
57 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (54 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAACAAACACCAAT
Found at i:547002 original size:28 final size:26
Alignment explanation
Indices: 546931--547003 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 26
546921 TCTTCACAAT
546931 CGGGGATACTCCAACCCCGTTAATCA
1 CGGGGATACTCCAACCCCGTTAATCA
*
546957 TCGGGGATACTCCAACCCCGTTATTTC-
1 -CGGGGATACTCCAACCCCGTTA-ATCA
546984 CGAGGAGATACTCCAACCCC
1 CG-GG-GATACTCCAACCCC
547004 TATTTTATCG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.05
27 24 0.57
28 16 0.38
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.21
Consensus pattern (26 bp):
CGGGGATACTCCAACCCCGTTAATCA
Found at i:547140 original size:104 final size:103
Alignment explanation
Indices: 546820--547157 Score: 308
Period size: 104 Copynumber: 3.2 Consensus size: 103
546810 CTCAATTCTC
* * * *
546820 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* *
546884 ACTCTAACTCCGATTTTATTTCCAACAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCTAA-AAACACCAATTT-TT
* * ** * * * ** * *
546925 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-CG-
* * ** *
546987 GGAGATACTCCAACCCCTATTTTATCGCT-AAAACACTAATTTTT
60 GG-GATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTT
*
547031 CCACAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
547096 TACTCCAACTCCGATTTTATTTCTAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTT
*
547136 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
547158 TCGTTATTTC
Statistics
Matches: 179, Mismatches: 40, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
103 8 0.04
104 43 0.24
105 38 0.21
106 18 0.10
107 34 0.19
108 12 0.07
109 26 0.15
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTT
Found at i:547176 original size:28 final size:28
Alignment explanation
Indices: 547140--547216 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
547130 ATTTTTCACA
* * *
547140 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
547168 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
*** *
547196 CGAGGGGATACTCCAATCCCG
1 ATCGGGGATACTCCAACCCCG
547217 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:547185 original size:212 final size:212
Alignment explanation
Indices: 546818--547221 Score: 625
Period size: 212 Copynumber: 1.9 Consensus size: 212
546808 TTCTCAATTC
* *
546818 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
546883 TACTCTAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
546948 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGAGATACTCCAACCCCTATTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGATTTTATC
547013 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
547030 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* *
547094 GATACTCCAACTCCGATTTTATTTCTAA-AAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
547157 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCCGATTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGATTTT
547222 TTTTTTCTTC
Statistics
Matches: 174, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 109 0.63
213 36 0.21
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAACAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGAGATACTCCAACCCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:563128 original size:15 final size:15
Alignment explanation
Indices: 563094--563131 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
563084 AAATTAATTT
563094 AATATTATAATTTTC
1 AATATTATAATTTTC
* *
563109 TATATTATAATTTTG
1 AATATTATAATTTTC
563124 AATATTAT
1 AATATTAT
563132 TAAACATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
AATATTATAATTTTC
Found at i:563180 original size:29 final size:29
Alignment explanation
Indices: 563148--563204 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
563138 TACATATTTA
563148 TATTTTAATAAT-ATATAATATAATATTAT
1 TATTTTAATAATAAT-TAATATAATATTAT
563177 TATTTTAATAATAATTAATATAATATTA
1 TATTTTAATAATAATTAATATAATATTA
563205 ATATAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 25 0.93
30 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TATTTTAATAATAATTAATATAATATTAT
Found at i:563421 original size:21 final size:21
Alignment explanation
Indices: 563381--563431 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
563371 TATTTAACAT
**
563381 TAATATAATATTTTAATATTA
1 TAATATAATATTAAAATATTA
563402 -AATATAATCATTAAAATATTA
1 TAATATAAT-ATTAAAATATTA
563423 TAAT-TAATA
1 TAATATAATA
563432 ATTATTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATATAATATTAAAATATTA
Found at i:563591 original size:24 final size:20
Alignment explanation
Indices: 563534--563588 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 20
563524 TAAATAGCAA
563534 TTTAATAATAATGATAATAT
1 TTTAATAATAATGATAATAT
*
563554 TTTAAATATTAATGTAATTAATAT
1 TTT-AATAATAATG--A-TAATAT
563578 TTTAATAATAA
1 TTTAATAATAA
563589 ATGAGTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 3 0.10
21 9 0.31
23 8 0.28
24 9 0.31
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTAATAATAATGATAATAT
Found at i:565192 original size:15 final size:14
Alignment explanation
Indices: 565172--565212 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
565162 TTCAAATGAA
565172 TTTAAATTTAATTAT
1 TTTAAATTTAATT-T
565187 TTTAAATTTAAATTT
1 TTTAAATTT-AATTT
565202 TATTAAATTTA
1 T-TTAAATTTA
565213 GGTGATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAAATTTAATTT
Found at i:565207 original size:16 final size:16
Alignment explanation
Indices: 565172--565212 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
565162 TTCAAATGAA
565172 TTTAAATTT-AATTAT
1 TTTAAATTTAAATTAT
565187 TTTAAATTTAAATT-T
1 TTTAAATTTAAATTAT
565202 TATTAAATTTA
1 T-TTAAATTTA
565213 GGTGATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTAAATTTAAATTAT
Found at i:567973 original size:24 final size:22
Alignment explanation
Indices: 567938--567983 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
567928 TTTAAAATTA
567938 TTATTTAATTAATTAAAAAAAT
1 TTATTTAATTAATTAAAAAAAT
*
567960 TTATTTAAATTTAATTATAAAAAT
1 TTATTT-AA-TTAATTAAAAAAAT
567984 AAAAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 2 0.10
24 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATTTAATTAATTAAAAAAAT
Found at i:568892 original size:17 final size:17
Alignment explanation
Indices: 568870--568903 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
568860 ATTATCATTG
*
568870 ATATTTGATATTTAAAT
1 ATATTTGAAATTTAAAT
*
568887 ATATTTTAAATTTAAAT
1 ATATTTGAAATTTAAAT
568904 TTAAATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTTGAAATTTAAAT
Found at i:569152 original size:73 final size:72
Alignment explanation
Indices: 568998--569176 Score: 211
Period size: 73 Copynumber: 2.5 Consensus size: 72
568988 TTGTATAAGT
* * *
568998 TTAAATTTTTAAGG-TATGATTTATTTATATTTGTAAAAATTTCAATTTATCTTTTGGTTTAATT
1 TTAAATTTTTAAGGATATGATTTATTTTTATTTGTAAAAATTTAAATTTATCTTTTGGGTTAATT
*
569062 ATACAAG
66 ATACAAA
* * * *
569069 TCTAAATTTTTAAGGATATGATTTATTTTTATTTGTAGAAGTTTAAATTTGTTTTTTGGGTTAAT
1 T-TAAATTTTTAAGGATATGATTTATTTTTATTTGTAAAAATTTAAATTTATCTTTTGGGTTAAT
569134 TATA-AGAA
65 TATACA-AA
* *
569142 TTAAATTTTTTTAA-TATATGATTTTTTTTTATTTG
1 TTAAA--TTTTTAAGGATATGATTTATTTTTATTTG
569177 CAAGATTAGT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 18 0.19
73 67 0.72
74 7 0.08
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.55
Consensus pattern (72 bp):
TTAAATTTTTAAGGATATGATTTATTTTTATTTGTAAAAATTTAAATTTATCTTTTGGGTTAATT
ATACAAA
Found at i:569868 original size:13 final size:13
Alignment explanation
Indices: 569850--569876 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
569840 ACATGCTGCT
569850 TTGTATCGATACA
1 TTGTATCGATACA
569863 TTGTATCGATACA
1 TTGTATCGATACA
569876 T
1 T
569877 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:569873 original size:33 final size:32
Alignment explanation
Indices: 569831--569895 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
569821 CACACCCAGA
*
569831 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATG-TGCATTGTATCGATACAT
*
569864 TGTATCGATACATGTTCATTGTATCGATACAT
1 TGTATCGATACATGTGCATTGTATCGATACAT
569896 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGTGCATTGTATCGATACAT
Found at i:569907 original size:21 final size:19
Alignment explanation
Indices: 569860--569917 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
569850 TTGTATCGAT
*
569860 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
569879 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
569898 ACAAATTGTATCGATACATG
1 AC--ATTGTATCGATACATG
569918 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:569988 original size:33 final size:32
Alignment explanation
Indices: 569946--570012 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
569936 CTATCACTAT
569946 TTATATCGATACATG-GTACAATGTATCGATACA
1 TTATATCGATACATGAG-A-AATGTATCGATACA
569979 TTATATCGATACATGAAGAAATGTATCGATACA
1 TTATATCGATACATG-AGAAATGTATCGATACA
570012 T
1 T
570013 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (32 bp):
TTATATCGATACATGAGAAATGTATCGATACA
Found at i:581644 original size:13 final size:13
Alignment explanation
Indices: 581626--581650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581616 CAAAGATCAG
581626 TGTATCGATACAA
1 TGTATCGATACAA
581639 TGTATCGATACA
1 TGTATCGATACA
581651 TTTGAGTAAT
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:581728 original size:33 final size:33
Alignment explanation
Indices: 581691--581757 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
581681 AGTAGCTTAA
581691 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
581724 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
581757 A
1 A
581758 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:581731 original size:13 final size:13
Alignment explanation
Indices: 581713--581737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
581703 CAAAAAAATA
581713 TGTATCGATACAT
1 TGTATCGATACAT
581726 TGTATCGATACA
1 TGTATCGATACA
581738 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:583097 original size:6 final size:6
Alignment explanation
Indices: 583082--583121 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
583072 ATGTTCACAG
583082 AAAT-A AAATAA AAATAA AAATAA AAATATA AAGATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATA-A AA-ATAA AAA
583122 ACCATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.12
6 19 0.59
7 6 0.19
8 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:583118 original size:20 final size:17
Alignment explanation
Indices: 583082--583121 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 17
583072 ATGTTCACAG
583082 AAATAAAATAAAAATAA
1 AAATAAAATAAAAATAA
583099 AAATAAAAATATAAAGATAA
1 AAAT-AAAATA-AAA-ATAA
583119 AAA
1 AAA
583122 ACCATAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 3 0.15
20 7 0.35
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:586644 original size:2 final size:2
Alignment explanation
Indices: 586597--586631 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
586587 GTTGATGATC
* *
586597 AT AT AC AT AT AT AT AT AT AT AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
586632 CATCTACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:587068 original size:2 final size:2
Alignment explanation
Indices: 587056--587085 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
587046 TGAAAGCTAT
*
587056 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
587086 ATTAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:587491 original size:22 final size:20
Alignment explanation
Indices: 587463--587520 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 20
587453 TATGTGGTTT
587463 TTTTTTATAAAAAATGAAGAGA
1 TTTTTTA-AAAAAAT-AAGAGA
*
587485 TTTTTTAAAAATAAATAAGATA
1 TTTTTT-AAAA-AAATAAGAGA
*
587507 TTTTGTAAAAAAAT
1 TTTTTTAAAAAAAT
587521 TTTAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 4 0.12
22 19 0.59
23 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTTTAAAAAAATAAGAGA
Found at i:587520 original size:20 final size:22
Alignment explanation
Indices: 587471--587519 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
587461 TTTTTTTTAT
*
587471 AAAAAATGAAGAGATTTTTTAA
1 AAAAAATGAAGAGATTTTGTAA
*
587493 AAATAAAT-AAGATATTTTGTAA
1 AAA-AAATGAAGAGATTTTGTAA
587515 AAAAA
1 AAAAA
587520 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 18 0.75
23 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAAATGAAGAGATTTTGTAA
Found at i:587681 original size:2 final size:2
Alignment explanation
Indices: 587676--587700 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
587666 TTAAAAAAAC
587676 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
587701 AAAGTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:587833 original size:18 final size:19
Alignment explanation
Indices: 587800--587841 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
587790 TTGTGAGTGG
587800 TAAAAAGTGAAAATTTTTT
1 TAAAAAGTGAAAATTTTTT
*
587819 TAAAGAGTG-AAATTTTTT
1 TAAAAAGTGAAAATTTTTT
587837 TAAAA
1 TAAAA
587842 GTTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
TAAAAAGTGAAAATTTTTT
Found at i:596256 original size:58 final size:58
Alignment explanation
Indices: 596049--596280 Score: 259
Period size: 58 Copynumber: 4.0 Consensus size: 58
596039 GCATACTTTT
* * * * * * *
596049 TGTCATTTAGGTCATTTTTCATAATTTAAAGACTATGAAGCAATTTTTTGAATGTTGA
1 TGTCATTTAGGTCATTTTTCATGATCTAAGGACTTTGATGCAATTTTATAAATGTTGA
* *
596107 TGTCATTTAGGTCATTTTTCATGATCTAAGGATTTTGATGCAATTTTATAAATTTTGA
1 TGTCATTTAGGTCATTTTTCATGATCTAAGGACTTTGATGCAATTTTATAAATGTTGA
* ** * *
596165 TATCATTTAGGTCATTTTTCATGATCTGGGGACTTTGATGCAATTTTATAAACGGTGA
1 TGTCATTTAGGTCATTTTTCATGATCTAAGGACTTTGATGCAATTTTATAAATGTTGA
* * * * * * * *
596223 TGTCCTTTAGATCATTTTCCATGCTTTAAGGACTTGGATG-TATTTTATAAATTTTGA
1 TGTCATTTAGGTCATTTTTCATGATCTAAGGACTTTGATGCAATTTTATAAATGTTGA
596280 T
1 T
596281 ATTACGCAAT
Statistics
Matches: 145, Mismatches: 29, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
57 14 0.10
58 131 0.90
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (58 bp):
TGTCATTTAGGTCATTTTTCATGATCTAAGGACTTTGATGCAATTTTATAAATGTTGA
Found at i:596327 original size:114 final size:116
Alignment explanation
Indices: 596104--596327 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 116
596094 TTTTGAATGT
* * * *
596104 TGATGTCATTTAGGTCATTTTTCATGATCTAAGGATTTTGATGCAATTTTATAAATTTTGATATC
1 TGATGTCATTTAGATCATTTTCCATGATCTAAGGACTTGGATGCAATTTTATAAATTTTGATATC
*** * * *
596169 ATTTAGGTCATTTTTCATGATCTGGGGACTTTGATGCAATTTTATAAACGG
66 ACGCAGATCATTTTTCATGATCTAGGGACTTTGATACAATTTTATAAACGG
* * * * *
596220 TGATGTCCTTTAGATCATTTTCCATGCTTTAAGGACTTGGATG-TATTTTATAAATTTTGATATT
1 TGATGTCATTTAGATCATTTTCCATGATCTAAGGACTTGGATGCAATTTTATAAATTTTGATATC
*
596284 ACGCA-ATCATTTTTCATGATCTAGGGAC-TTGCATATAATTTTAT
66 ACGCAGATCATTTTTCATGATCTAGGGACTTTG-ATACAATTTTAT
596328 GTATTTTAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
113 3 0.03
114 31 0.34
115 21 0.23
116 36 0.40
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (116 bp):
TGATGTCATTTAGATCATTTTCCATGATCTAAGGACTTGGATGCAATTTTATAAATTTTGATATC
ACGCAGATCATTTTTCATGATCTAGGGACTTTGATACAATTTTATAAACGG
Found at i:597443 original size:18 final size:17
Alignment explanation
Indices: 597417--597479 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
597407 ATAAAATTTG
* *
597417 ATAAGATAAAAAGTAATT
1 ATAAAATAAAAA-TAATA
597435 ATAAAATAAAAATAATA
1 ATAAAATAAAAATAATA
* * *
597452 ATAATATTAGAAATAAAA
1 ATAA-AATAAAAATAATA
597470 AT-AAATAAAA
1 ATAAAATAAAA
597480 TAAAAAACTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 5 0.14
17 9 0.24
18 23 0.62
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
ATAAAATAAAAATAATA
Found at i:597449 original size:24 final size:24
Alignment explanation
Indices: 597422--597474 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
597412 ATTTGATAAG
597422 ATAAAAAGTAAT-TATA-AAATAAAA
1 ATAAAAA-TAATAT-TAGAAATAAAA
*
597446 ATAATAATAATATTAGAAATAAAA
1 ATAAAAATAATATTAGAAATAAAA
597470 ATAAA
1 ATAAA
597475 TAAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
ATAAAAATAATATTAGAAATAAAA
Found at i:597480 original size:15 final size:15
Alignment explanation
Indices: 597438--597485 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 15
597428 AGTAATTATA
*
597438 AAATAAAAATAATAAT
1 AAAT-AAAATAAAAAT
597454 AATATTAGAAATAAAAAT
1 AA-A-TA-AAATAAAAAT
597472 AAATAAAATAAAAA
1 AAATAAAATAAAAA
597486 ACTTTGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 3 0.11
18 12 0.43
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:598137 original size:24 final size:25
Alignment explanation
Indices: 598087--598137 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
598077 TATCTCATAT
* *
598087 ATTAAATAAATGTTATAATTTTAAA
1 ATTAAATAAATATTATAACTTTAAA
* *
598112 ATTAAAT-AATATTATAGCTTTGAA
1 ATTAAATAAATATTATAACTTTAAA
598136 AT
1 AT
598138 AGTATCTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (25 bp):
ATTAAATAAATATTATAACTTTAAA
Found at i:598275 original size:6 final size:7
Alignment explanation
Indices: 598256--598296 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
598246 GGAATTTGTC
598256 CCTTTTT
1 CCTTTTT
598263 CCTTTTT
1 CCTTTTT
598270 CCTTTTT
1 CCTTTTT
*
598277 TCTTTTT
1 CCTTTTT
*
598284 CTTTTTGT
1 CCTTTT-T
598292 CCTTT
1 CCTTT
598297 CATCTTTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (7 bp):
CCTTTTT
Found at i:598302 original size:22 final size:21
Alignment explanation
Indices: 598257--598303 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
598247 GAATTTGTCC
**
598257 CTTTTTCCTTTTTCCTTTTTT
1 CTTTTTCCTTTTTCCTTTCAT
*
598278 CTTTTTCTTTTTGTCCTTTCAT
1 CTTTTTCCTTTT-TCCTTTCAT
598300 CTTT
1 CTTT
598304 CTCTCCGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.72
Consensus pattern (21 bp):
CTTTTTCCTTTTTCCTTTCAT
Found at i:599093 original size:15 final size:16
Alignment explanation
Indices: 599068--599098 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
599058 TTTTTTTTAA
599068 TTAATTCATTTTAATT
1 TTAATTCATTTTAATT
599084 TTAATT-ATTTTAATT
1 TTAATTCATTTTAATT
599099 AATTTTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTAATTCATTTTAATT
Found at i:599095 original size:9 final size:10
Alignment explanation
Indices: 599078--599111 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
599068 TTAATTCATT
599078 TTAATTTTAA
1 TTAATTTTAA
599088 TT-ATTTTAA
1 TTAATTTTAA
599097 TTAATTTTAA
1 TTAATTTTAA
599107 GTTAA
1 -TTAA
599112 AAAAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:599164 original size:15 final size:15
Alignment explanation
Indices: 599139--599167 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
599129 TTTAATTTAA
599139 ATTTGATTAAATTTG
1 ATTTGATTAAATTTG
599154 ATTTGATTAAATTT
1 ATTTGATTAAATTT
599168 TATCCGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTGATTAAATTTG
Found at i:599612 original size:92 final size:93
Alignment explanation
Indices: 599444--599619 Score: 273
Period size: 92 Copynumber: 1.9 Consensus size: 93
599434 ACATTGTCAC
* * * *
599444 ATTTCTCTGCTGAAGCTTTGCCAATGAACGACACTTCTAATCAAAAACGACAAATGAGAACGACA
1 ATTTCTCTGCTCAAGCTTTGCCAATGAACGACACTACGAATCAAAAACGACAAATGAGAACAACA
*
599509 CTACACGAACTTAAGTAATACATCTCAG
66 CTACACAAACTTAAGTAATACATCTCAG
* * *
599537 ATTTCTCTGCTCAAGCTTTGCCAATGAACGATACTACGAAT-GACAACGACAAATGAGAACAACA
1 ATTTCTCTGCTCAAGCTTTGCCAATGAACGACACTACGAATCAAAAACGACAAATGAGAACAACA
599601 CTACACAAACTTAAGTAAT
66 CTACACAAACTTAAGTAAT
599620 GGAGAAACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
92 38 0.51
93 37 0.49
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (93 bp):
ATTTCTCTGCTCAAGCTTTGCCAATGAACGACACTACGAATCAAAAACGACAAATGAGAACAACA
CTACACAAACTTAAGTAATACATCTCAG
Found at i:600005 original size:4 final size:4
Alignment explanation
Indices: 599996--600038 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
599986 GGAAACGTAA
* * *
599996 AAAT AAAT AAAT AAAT AAAT AAGT AAAT AAAT GAAT GAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
600039 CGACACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:600392 original size:34 final size:34
Alignment explanation
Indices: 600353--600418 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
600343 TTTTATTAAG
*
600353 TGTGTTAGGTAAATATATTAAGTGTGTTAAGTAA
1 TGTGTTAGGTAAATATATTAAGTATGTTAAGTAA
*
600387 TGTGTTATGTAAATATATTAAGTATGTTAAGT
1 TGTGTTAGGTAAATATATTAAGTATGTTAAGT
600419 GAAATTATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (34 bp):
TGTGTTAGGTAAATATATTAAGTATGTTAAGTAA
Found at i:601247 original size:2 final size:2
Alignment explanation
Indices: 601240--601276 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
601230 TCTTATACAT
601240 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
601277 TATATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:604065 original size:21 final size:21
Alignment explanation
Indices: 604039--604097 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
604029 AAATGTATAT
*
604039 TTGAATGAAATAATATATTGA
1 TTGAATGAAAAAATATATTGA
* * **
604060 TTGAATGAAAGAATGTATTTT
1 TTGAATGAAAAAATATATTGA
*
604081 TTGGATGAAAAAATATA
1 TTGAATGAAAAAATATA
604098 ACTTTTATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.37
Consensus pattern (21 bp):
TTGAATGAAAAAATATATTGA
Found at i:606199 original size:36 final size:37
Alignment explanation
Indices: 606134--606209 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
606124 TAAATTTGAA
606134 GTAAAAAATTTACATGAAAAGAAATTTAAAATTCTTT
1 GTAAAAAATTTACATGAAAAGAAATTTAAAATTCTTT
**
606171 GTAAAAAATTTGTATGAAAAGAAA-TTAAAATTCTTT
1 GTAAAAAATTTACATGAAAAGAAATTTAAAATTCTTT
606207 GTA
1 GTA
606210 GTGGTAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
36 15 0.41
37 22 0.59
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.36
Consensus pattern (37 bp):
GTAAAAAATTTACATGAAAAGAAATTTAAAATTCTTT
Found at i:611450 original size:156 final size:154
Alignment explanation
Indices: 611159--611550 Score: 448
Period size: 156 Copynumber: 2.5 Consensus size: 154
611149 AAAGTCACAT
* * * * * *
611159 TTTATAATCTTTTTTAAATCCTTTAGGGGTATCA-GACACTTCTACGTCGAAGGTATTCTCTAG-
1 TTTATAATCTTTTTTAAGTCCTTTAGGGGTAT-AGGGCACTTCTACGTCAAAGATATCCCCTAGA
* * *
611222 GATATTTTAGTAATTTTTCAAAATCGAGCCTAGGTTATCACTAGGTCTACTTTTATGCCGAAAGT
65 GACATTTTAGTAATTTTTCAAAATCGAGCCTAGGTTACCACCAGGTCTACTTTTATGCCGAAAGT
*
611287 GGGTATTTAGGATAAGTTCACCCCA
130 GGGTATTTAGGATAAGATCACCCCA
* *
611312 TTTATAATCTTTTTTAAGTCTTTTAGGGGTATAGGGCACTTCTATGTCAAAGATATCCCCTAGAG
1 TTTATAATCTTTTTTAAGTCCTTTAGGGGTATAGGGCACTTCTACGTCAAAGATATCCCCTAGAG
* * * * ** *
611377 ACATTTTGGTAAATTTTTTAGAATCGAGTCCTAGGTTACCACCGGGTCT-CTTTTTATGTTGAAG
66 ACATTTTAGT-AATTTTTCAAAATCGAG-CCTAGGTTACCACCAGGTCTAC-TTTTATGCCGAAA
* **
611441 GTGGGTATTTAGGATAGGATCGTCCCA
128 GTGGGTATTTAGGATAAGATCACCCCA
* * * * * * *
611468 TTTATAATCCTTTTTAAGTCCTTTAGGAGTATCGGGTATTTTTACGTCAAAGATATCTCCTAGAG
1 TTTATAATCTTTTTTAAGTCCTTTAGGGGTATAGGGCACTTCTACGTCAAAGATATCCCCTAGAG
* *
611533 GCATTTTTGTAATTTTTC
66 ACATTTTAGTAATTTTTC
611551 TTTAACTTAG
Statistics
Matches: 200, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
152 1 0.00
153 53 0.26
154 9 0.05
155 23 0.12
156 114 0.57
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (154 bp):
TTTATAATCTTTTTTAAGTCCTTTAGGGGTATAGGGCACTTCTACGTCAAAGATATCCCCTAGAG
ACATTTTAGTAATTTTTCAAAATCGAGCCTAGGTTACCACCAGGTCTACTTTTATGCCGAAAGTG
GGTATTTAGGATAAGATCACCCCA
Found at i:612735 original size:21 final size:19
Alignment explanation
Indices: 612711--612765 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
612701 TTCTACAATT
612711 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
612732 TGTATCGATACATAAGTTT
1 TGTATCGATACAAAAGTAA
612751 TGTATCGATACAAAA
1 TGTATCGATACAAAA
612766 CCACCCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:612756 original size:19 final size:21
Alignment explanation
Indices: 612708--612764 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
612698 AATTTCTACA
612708 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** *
612729 AAATGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
612749 -TTTGTATCGATACAAA
1 ATTTGTATCGATACAAA
612765 ACCACCCTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:613774 original size:21 final size:18
Alignment explanation
Indices: 613747--613869 Score: 68
Period size: 19 Copynumber: 7.1 Consensus size: 18
613737 TTTCAACAAT
613747 TTGTATCGATACAATGTA
1 TTGTATCGATACAATGTA
* *
613765 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACA-ATGTA
613787 TTGTATCGATAC-A---A
1 TTGTATCGATACAATGTA
* *
613801 -TGTATCGATACATAAGTT
1 TTGTATCGATACA-ATGTA
613819 TTGTATCGATACAATGTA
1 TTGTATCGATACAATGTA
* *
613837 TCGCTA-C-AT--AA-GTT
1 TTG-TATCGATACAATGTA
613851 TTGTATCGATACAATGTA
1 TTGTATCGATACAATGTA
613869 T
1 T
613870 CGCTACGAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 32
0.65 0.08 0.26
Matches are distributed among these distances:
13 13 0.16
14 5 0.06
15 5 0.06
17 5 0.06
18 10 0.13
19 25 0.32
21 12 0.15
22 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTGTATCGATACAATGTA
Found at i:613793 original size:19 final size:18
Alignment explanation
Indices: 613769--613863 Score: 84
Period size: 19 Copynumber: 5.7 Consensus size: 18
613759 AATGTATAAC
613769 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
613788 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
613801 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
613820 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
613833 TGTATCGCTACATAAGTTT
1 TGTATCGATACATAAG-TT
613852 TGTATCGATACA
1 TGTATCGATACA
613864 ATGTATCGCT
Statistics
Matches: 62, Mismatches: 2, Indels: 24
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.34
15 4 0.06
17 4 0.06
19 33 0.53
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:613806 original size:13 final size:13
Alignment explanation
Indices: 613788--613844 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
613778 ACATAAGTGT
613788 TGTATCGATACAA
1 TGTATCGATACAA
613801 TGTATCGATACATAA
1 TGTATCGATAC--AA
613816 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
613833 TGTATCGCTACA
1 TGTATCGATACA
613845 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:613875 original size:32 final size:32
Alignment explanation
Indices: 613769--613871 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
613759 AATGTATAAC
*
613769 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
613801 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
*
613833 TGTATCGCTACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
613865 TGTATCG
1 TGTATCG
613872 CTACGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:613943 original size:21 final size:21
Alignment explanation
Indices: 613919--613963 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
613909 ACTCAAATGT
613919 ATTGATAC-ATTGTATCGATAC
1 ATTGAT-CTATTGTATCGATAC
* *
613940 ATTGATCTTTTGTATTGATAC
1 ATTGATCTATTGTATCGATAC
613961 ATT
1 ATT
613964 TGGGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (21 bp):
ATTGATCTATTGTATCGATAC
Found at i:614635 original size:148 final size:148
Alignment explanation
Indices: 614367--614646 Score: 497
Period size: 148 Copynumber: 1.9 Consensus size: 148
614357 TCTTGCCTAT
*
614367 AAAAGGCTGATTTTGTTCTCAGCAAAAGGCTTGGAAAAAACACTTCTCCAACACCTTCCAGCTCC
1 AAAAGGCTGATCTTGTTCTCAGCAAAAGGCTTGGAAAAAACACTTCTCCAACACCTTCCAGCTCC
* * *
614432 CAAAAATACTTTTCCATTTCAGAAAACAAAAAATCTCGTAGCTCCTCCTTCCTTCCCACAAAAAC
66 CAAAAACACTTCTCCATTTCAGAAAACAAAAAATCCCGTAGCTCCTCCTTCCTTCCCACAAAAAC
614497 ACTTGTGGGAAGGCTTGG
131 ACTTGTGGGAAGGCTTGG
614515 AAAAGGCTGATCTTGTTCTCAGCAAAAGGCTTGGAAAAAACACTTCTCCAACACCTTCCAGCTCC
1 AAAAGGCTGATCTTGTTCTCAGCAAAAGGCTTGGAAAAAACACTTCTCCAACACCTTCCAGCTCC
* * *
614580 CAAAAACACTTCTCCATTTTAGAAAACACAAAATCCCGTAGCTCCTCTTTCCTTCCCACAAAAAC
66 CAAAAACACTTCTCCATTTCAGAAAACAAAAAATCCCGTAGCTCCTCCTTCCTTCCCACAAAAAC
614645 AC
131 AC
614647 CTCAAAACAC
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 125 1.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (148 bp):
AAAAGGCTGATCTTGTTCTCAGCAAAAGGCTTGGAAAAAACACTTCTCCAACACCTTCCAGCTCC
CAAAAACACTTCTCCATTTCAGAAAACAAAAAATCCCGTAGCTCCTCCTTCCTTCCCACAAAAAC
ACTTGTGGGAAGGCTTGG
Found at i:622098 original size:35 final size:33
Alignment explanation
Indices: 622033--622099 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
622023 CTCTAAATAA
*
622033 GAAAACAAAAAAAAAAAGAGAGAAAAGAAAAAG
1 GAAAACAAAAAAAAAAAAAGAGAAAAGAAAAAG
*
622066 GAAAA-AAAAAAGAAAAAAAGTATGAAATGAAAAA
1 GAAAACAAAAAA-AAAAAAAG-A-GAAAAGAAAAA
622100 AGTGCAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 6 0.21
33 12 0.41
34 1 0.03
35 10 0.34
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.04
Consensus pattern (33 bp):
GAAAACAAAAAAAAAAAAAGAGAAAAGAAAAAG
Found at i:622399 original size:15 final size:16
Alignment explanation
Indices: 622379--622408 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
622369 AGGAATATGA
622379 AAAAAG-AAAAAAAAG
1 AAAAAGCAAAAAAAAG
622394 AAAAAGCAAAAAAAA
1 AAAAAGCAAAAAAAA
622409 AAAGGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAGCAAAAAAAAG
Found at i:624527 original size:96 final size:96
Alignment explanation
Indices: 624397--624807 Score: 427
Period size: 97 Copynumber: 4.2 Consensus size: 96
624387 CCTTTTAAAG
* * * * * *
624397 GAATAGGGTTGGAGTATCCCCAATAATGATAATTTGGAC-AAAATAAGACTTAAATTTAGATGAG
1 GAATAGGGTTGGAGTGTCCCCGATGATGATAATTT-AACAAAAATAAGATTTAAATTTAGATAAG
*
624461 TTTAAAAACGGGGTTGGAGTATCCCCTTGGAA
65 TTTAAAAACGGGGTTGGAGTATCCCCTCGGAA
* * * * *
624493 GAATAGGGTTGGAGTGTCCCTGATGATGACAATTTAATCGAAAATAAGATTTAAATTTTGATAAT
1 GAATAGGGTTGGAGTGTCCCCGATGATGATAATTTAA-CAAAAATAAGATTTAAATTTAGATAAG
* * * *
624558 TTTAAAAAATGGAGTTGGAGTATCCCTTCAG-A
65 TTT-AAAAACGGGGTTGGAGTATCCCCTCGGAA
* * * *
624590 GAAATGGGGTTGGA-TGTCCCCGATGATGATAATCTAACTAAAAATAAGATTTAAATTTTGATTA
1 G-AATAGGGTTGGAGTGTCCCCGATGATGATAATTTAAC-AAAAATAAGATTTAAATTTAGATAA
* * * *
624654 GTTTAAAAACAGGGTCGGAGTATCCTCTCGGAG
64 GTTTAAAAACGGGGTTGGAGTATCCCCTCGGAA
* * *
624687 GAATGGGGTTGGAGTGTCCCCGGTGATGATAATTTAACTAAAAATAAGATTTAAATTTTA-ACAA
1 GAATAGGGTTGGAGTGTCCCCGATGATGATAATTTAAC-AAAAATAAGATTTAAA-TTTAGATAA
* * *
624751 GTTTAAAAGCGGGGTTGGAGTATTCCCTCGGAG
64 GTTTAAAAACGGGGTTGGAGTATCCCCTCGGAA
* *
624784 GAAT-GAGGTTGGTGTATCCCCGAT
1 GAATAG-GGTTGGAGTGTCCCCGAT
624808 AAACAAAATT
Statistics
Matches: 263, Mismatches: 43, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
95 1 0.00
96 65 0.25
97 161 0.61
98 36 0.14
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (96 bp):
GAATAGGGTTGGAGTGTCCCCGATGATGATAATTTAACAAAAATAAGATTTAAATTTAGATAAGT
TTAAAAACGGGGTTGGAGTATCCCCTCGGAA
Found at i:624807 original size:194 final size:194
Alignment explanation
Indices: 624436--624795 Score: 483
Period size: 194 Copynumber: 1.9 Consensus size: 194
624426 TAATTTGGAC
* * *
624436 AAAATAAGACTTAAATTTAGATGAGTTTAAAAACGGGGTTGGAGTATCCCCTTGGAAGAATAGGG
1 AAAATAAGACTTAAATTTAGATGAGTTTAAAAACAGGGTCGGAGTATCCCCTCGGAAGAATAGGG
* * * * *
624501 TTGGAGTGTCCCTGATGATGACAATTTAATCGAAAATAAGATTTAAATTTTGATAATTTTAAAAA
66 TTGGAGTGTCCCCGATGATGACAATTTAATCAAAAATAAGATTTAAATTTTAACAAGTTTAAAAA
* *
624566 ATGGAGTTGGAGTATCCCTTCAGAGAAATGGGGTTGGATGTCCCCGATGATGATAATCTAACTA
131 ACGGAGTTGGAGTATCCCTTCAGAGAAATGAGGTTGGATGTCCCCGATGATGATAATCTAACTA
* * * * * *
624630 AAAATAAGATTTAAATTTTGATTAGTTTAAAAACAGGGTCGGAGTATCCTCTCGGAGGAATGGGG
1 AAAATAAGACTTAAATTTAGATGAGTTTAAAAACAGGGTCGGAGTATCCCCTCGGAAGAATAGGG
* *
624695 TTGGAGTGTCCCCGGTGATGATAATTTAA-CTAAAAATAAGATTTAAATTTTAACAAGTTT-AAA
66 TTGGAGTGTCCCCGATGATGACAATTTAATC-AAAAATAAGATTTAAATTTTAACAAGTTTAAAA
* * * *
624758 AGCGGGGTTGGAGTATTCCC-TCGGAGGAATGAGGTTGG
130 AACGGAGTTGGAGTA-TCCCTTCAGAGAAATGAGGTTGG
624796 TGTATCCCCG
Statistics
Matches: 142, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
193 31 0.22
194 111 0.78
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (194 bp):
AAAATAAGACTTAAATTTAGATGAGTTTAAAAACAGGGTCGGAGTATCCCCTCGGAAGAATAGGG
TTGGAGTGTCCCCGATGATGACAATTTAATCAAAAATAAGATTTAAATTTTAACAAGTTTAAAAA
ACGGAGTTGGAGTATCCCTTCAGAGAAATGAGGTTGGATGTCCCCGATGATGATAATCTAACTA
Found at i:626088 original size:9 final size:9
Alignment explanation
Indices: 626071--626111 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
626061 AATGTAAATA
*
626071 TTTTCCTTT
1 TTTTTCTTT
626080 TTTTTC-TT
1 TTTTTCTTT
626088 TTTTTCTTT
1 TTTTTCTTT
626097 TTTTTCCTTT
1 TTTTT-CTTT
626107 TTTTT
1 TTTTT
626112 AGCTGAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
10 9 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:626090 original size:10 final size:10
Alignment explanation
Indices: 626071--626111 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
626061 AATGTAAATA
*
626071 TTTTCCTTTT
1 TTTTCTTTTT
626081 TTTTC--TTT
1 TTTTCTTTTT
626089 TTTTCTTTTT
1 TTTTCTTTTT
*
626099 TTTCCTTTTT
1 TTTTCTTTTT
626109 TTT
1 TTT
626112 AGCTGAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.29
10 20 0.71
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:627158 original size:15 final size:15
Alignment explanation
Indices: 627140--627171 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
627130 TCATTACATG
*
627140 CCATTTCATTGTTGT
1 CCATTTCATTGATGT
627155 CCATTTCATTGATGT
1 CCATTTCATTGATGT
627170 CC
1 CC
627172 CCCTCATTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.47
Consensus pattern (15 bp):
CCATTTCATTGATGT
Found at i:628223 original size:62 final size:62
Alignment explanation
Indices: 628109--628826 Score: 445
Period size: 62 Copynumber: 11.7 Consensus size: 62
628099 AGATGAGAAG
* * ** * * * *
628109 AGTGCCAATGTGTTGATTCAAGATTAGTGACTTTGGA-CTT-AAAGATGCGAAGAATGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGA-TATCGAGCTTGAAAGATGAGAAGAACGATAAA
* ** * *
628170 AGTACCGCTATACTGATTCATGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * **
628232 AGTGCCAATATGCTGATTCAAGGCCAGTGATAT-TAGGCTTGAAAGA-AAGAAG-A-TTTGAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGA-GCTTGAAAGATGAGAAGAACGAT-AAA
* * * * * *
628292 AGTGCCAATGTGCTGATTCGAGATCAGTGACTTTGGA-CTT-AAAGATGCGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGA-TATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * * * *
628353 GGTGTCGATGTGCTGATTCATGACCAGTGATATCGGGCTTGAAAGATGAGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * * * * * **
628415 GGT-CTCAATATGCTGATTCAAGGCCAGCGATAT-TAGGCTCGAAAGA-AAGATG-A-TTTGAAA
1 AGTGC-CAATATGCTGATTCAAGACCAGTGATATCGA-GCTTGAAAGATGAGAAGAACGAT-AAA
* * * * *
628475 AGTGCCAATATGCTGATTCAAGATCAGTGACTTTGGA-CTT-AAAGATGCGAAGAATGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGA-TATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * * *
628536 GGTGCCGATATGCTGATTCATGGCCAGCGATATC-AGGCTTGAAAGATGAGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGA-GCTTGAAAGATGAGAAGAACGATAAA
* * ** * * * **
628598 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTGAAAGA-AAGAAG-A-TTTGAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGAT-AAA
* * * * * **
628658 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGA-CTT-AAAGATGCGAAGAATAATAAA
1 AGTGCCAATATGCTGATTCAAGACCAGTGA-TATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * * * * * * *
628719 GGTGCCGATATGATAATTTACA-ACCAGCGATATTGGGCTCGAAAGATGAGAAGAACGATAAA
1 AGTGCCAATATGCTGATTCA-AGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAA
* * * ** * *
628781 AGTGCCAATATGCCGATTTAAGGCCAACGATATTGGGCTTGAAAGA
1 AGTGCCAATATGCTGATTCAAGACCAGTGATATCGAGCTTGAAAGA
628827 AAAAAAATTT
Statistics
Matches: 502, Mismatches: 122, Indels: 65
0.73 0.18 0.09
Matches are distributed among these distances:
59 19 0.04
60 117 0.23
61 136 0.27
62 230 0.46
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (62 bp):
AGTGCCAATATGCTGATTCAAGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAA
Found at i:628367 original size:121 final size:121
Alignment explanation
Indices: 628110--628826 Score: 528
Period size: 121 Copynumber: 5.9 Consensus size: 121
628100 GATGAGAAGA
* * ** * **
628110 GTGCCAATGTGTTGATTCAAGATTAGTGACT-TTGGACTT-AAAGATGCGAAGAATGATAAAAGT
1 GTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGCTTGAAAGATAAGAAGAATGAT-AAAGT
* ** * * * * *
628173 ACCGCTATACTGATTCATGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAAA
64 GCCAATATGCTGATTCAAGACCAGCGATATTG-GCTT-AAAGATGAGAAGAACGATAAAG
* * *
628233 GTGCCAATATGCTGATTCAAGGCCAGTGATATTAGGCTTGAAAGA-AAGAAGATTTGA-AAAGTG
1 GTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAAGATAAGAAGA-ATGATAAAGTG
* * * * *
628296 CCAATGTGCTGATTCGAGATCAGTGACT-TTGGACTTAAAGATGCGAAGAACGATAAAG
65 CCAATATGCTGATTCAAGACCAGCGA-TATTGG-CTTAAAGATGAGAAGAACGATAAAG
* * * * * * *
628354 GTGTCGATGTGCTGATTCATGACCAGTGATATCGGGCTTGAAAGATGAGAAGAACGATAAAG-GT
1 GTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAAGATAAGAAGAATGATAAAGTG-
* * * * **
628418 CTCAATATGCTGATTCAAGGCCAGCGATATTAGGCTCGAAAGA-AAGATGATTTGA-AAA-
65 C-CAATATGCTGATTCAAGACCAGCGATATT-GGCT-TAAAGATGAGAAGA-ACGATAAAG
* * **
628476 GTGCCAATATGCTGATTCAAGATCAGTGACT-TTGGACTT-AAAGATGCGAAGAATGATAAAGGT
1 GTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGCTTGAAAGATAAGAAGAATGATAAA-GT
* * * *
628539 GCCGATATGCTGATTCATGGCCAGCGATATCAGGCTTGAAAGATGAGAAGAACGATAAAG
64 GCCAATATGCTGATTCAAGACCAGCGATAT-TGGCTT-AAAGATGAGAAGAACGATAAAG
* ** *
628599 GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTGAAAGA-AAGAAGATTTGA-AAAGTG
1 GTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAAGATAAGAAGA-ATGATAAAGTG
* * * * **
628662 CCAATGTGCTGATTCAAGATCAGTGACT-TTGGACTTAAAGATGCGAAGAATAATAAAG
65 CCAATATGCTGATTCAAGACCAGCGA-TATTGG-CTTAAAGATGAGAAGAACGATAAAG
* * * * * * * *
628720 GTGCCGATATGATAATTTACA-ACCAGCGATATTGGGCTCGAAAGATGAGAAGAACGATAAAAGT
1 GTGCCAATATGCTGATTCA-AGACCAGTGATATTGGGCTTGAAAGATAAGAAGAATGAT-AAAGT
* * * *
628784 GCCAATATGCCGATTTAAGGCCAACGATATTGGGCTTGAAAGA
64 GCCAATATGCTGATTCAAGACCAGCGATATT-GGCTT-AAAGA
628827 AAAAAAATTT
Statistics
Matches: 467, Mismatches: 94, Indels: 65
0.75 0.15 0.10
Matches are distributed among these distances:
121 177 0.38
122 118 0.25
123 140 0.30
124 32 0.07
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (121 bp):
GTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAAGATAAGAAGAATGATAAAGTGC
CAATATGCTGATTCAAGACCAGCGATATTGGCTTAAAGATGAGAAGAACGATAAAG
Found at i:628426 original size:183 final size:183
Alignment explanation
Indices: 628109--628921 Score: 1241
Period size: 183 Copynumber: 4.4 Consensus size: 183
628099 AGATGAGAAG
* * * *
628109 AGTGCCAATGTGTTGATTCAAGATTAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAAGTA
1 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
* * * *
628174 CCGCTATACTGATTCATGACCAGTGATATCGAGCTTGAAAGATGAGAAGAACGATAAAAGTGCCA
66 CCGATATGCTGATTCATGACCAGCGATATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGCCA
*
628239 ATATGCTGATTCAAGGCCAGTGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
131 ATATGCTGATTCAAGGCCAGCGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
* *
628292 AGTGCCAATGTGCTGATTCGAGATCAGTGACTTTGGACTTAAAGATGCGAAGAACGATAAAGGTG
1 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
* * * *
628357 TCGATGTGCTGATTCATGACCAGTGATATCGGGCTTGAAAGATGAGAAGAACGATAAAGGT-CTC
66 CCGATATGCTGATTCATGACCAGCGATATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGC-C
* *
628421 AATATGCTGATTCAAGGCCAGCGATATTAGGCTCGAAAGAAAGATGATTTGAAA
130 AATATGCTGATTCAAGGCCAGCGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
*
628475 AGTGCCAATATGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
1 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
* * *
628540 CCGATATGCTGATTCATGGCCAGCGATATCAGGCTTGAAAGATGAGAAGAACGATAAAGGTGCCA
66 CCGATATGCTGATTCATGACCAGCGATATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGCCA
* *
628605 ATATGCTGATTCAAGGCCAGCAATATTGGGCTTGAAAGAAAGAAGATTTGAAA
131 ATATGCTGATTCAAGGCCAGCGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
*
628658 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATAATAAAGGTG
1 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
* * * ** * *
628723 CCGATATGATAATTTACAACCAGCGATATTGGGCTCGAAAGATGAGAAGAACGATAAAAGTGCCA
66 CCGATATGCTGATTCATGACCAGCGATATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGCCA
* * * * * *
628788 ATATGCCGATTTAAGGCCAACGATATTGGGCTTGAAAGAAAAAAAATTTGAAA
131 ATATGCTGATTCAAGGCCAGCGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
* * * *
628841 AGTGCAAATGTGTTGATTTAAGATCAGTGACTTTGGACTTAAAGATGCAAAGAATGATAAAGGTG
1 AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
628906 CCGATATGCTGATTCA
66 CCGATATGCTGATTCA
628922 CAGCTGTCGT
Statistics
Matches: 575, Mismatches: 53, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
182 1 0.00
183 573 1.00
184 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (183 bp):
AGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGATGCGAAGAATGATAAAGGTG
CCGATATGCTGATTCATGACCAGCGATATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGCCA
ATATGCTGATTCAAGGCCAGCGATATTAGGCTTGAAAGAAAGAAGATTTGAAA
Found at i:632260 original size:52 final size:53
Alignment explanation
Indices: 632158--633213 Score: 439
Period size: 49 Copynumber: 21.1 Consensus size: 53
632148 GATATTGGGT
* * * * *
632158 TTAAAGATGAGGAAAAGGATGTCAATGTGCTGATTCACGGTCAGCGACATTAGAC
1 TTAAAGATGAGGAAAA--ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * **
632213 TTGAAGATGA-GAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTT
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGAC
* ** * *
632266 TTAAAGATGATG-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * * *
632318 TTAAAGATGAAGATGAGAAAAGTGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGG
1 TT----A--AAGAT--G---AG-GA-AAA-ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGG
*
632383 GC
52 AC
* * * * * *
632385 TTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCAAGACCAGCTACATTGAAC
1 TTAAAGATGAGGAAAA--ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * *
632440 TTAAAGAT--GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGGAAAA-ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* *
632492 TT--A-A--A-G----ATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * *
632535 TTAAAGATGAAGG-----TACCAATATGCTGATTGAAGGCCAGCGATATTGGAC
1 TTAAAGATG-AGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* *** * * *
632584 TTAAAGATGA-TAAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * *
632636 TTAAAAGATGAGG----GTGCCAATATGCTGATTCAAGGCCAACGATATTGGA-
1 TT-AAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
** *
632685 TT-----T--GG--AGTTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * * *
632729 TTAAAGAT--GGAAAATGTGCCAATATGATGATTCAAGGCCAGCTATATTGGAG
1 TTAAAGATGAGGAAAA-ATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
*
632781 TT--A-A--AGG-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * *
632824 TTAAAGAT---G-AAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
*
632873 TT--A-A--AGG-----TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * *
632916 TTAAAGAT---G-AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * *
632965 TTAAAGGTGAAGG-----TGCCAATATGTTGATTCAAGGCCAGCTACATTGGGC
1 TTAAAGATG-AGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
* * * * * *
633014 TTAAAGAT---G-AAGATGCCAATATACTGATTCAAGGCTAGCGATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
** * * *
633063 TTAAAGAT----AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
** * *
633112 TT--A-ATG-GTG-AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAG-GAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
** * * *
633161 TTAAAGAT----AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
633210 TTAA
1 TTAA
633214 TGGTGCTAAT
Statistics
Matches: 809, Mismatches: 112, Indels: 166
0.74 0.10 0.15
Matches are distributed among these distances:
41 2 0.00
43 136 0.17
44 2 0.00
45 6 0.01
46 6 0.01
47 3 0.00
48 2 0.00
49 319 0.39
50 35 0.04
51 2 0.00
52 134 0.17
53 55 0.07
54 9 0.01
55 45 0.06
56 3 0.00
58 5 0.01
59 1 0.00
60 1 0.00
61 5 0.01
63 2 0.00
64 1 0.00
66 2 0.00
67 33 0.04
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
TTAAAGATGAGGAAAAATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGAC
Found at i:632390 original size:67 final size:68
Alignment explanation
Indices: 632268--632394 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
632258 ATTGGGTTTT
* * *
632268 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
632333 AGA
66 AGA
* * * *
632336 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
632395 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:632462 original size:227 final size:228
Alignment explanation
Indices: 632066--632479 Score: 593
Period size: 227 Copynumber: 1.8 Consensus size: 228
632056 CCACTGTGCA
* * * *
632066 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
* * * *
632131 GTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGGAAAAGGATGTCAATGTGCTGATTCAC
66 GTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCAA
** * *
632196 GGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATT
131 GACCAGCGACATTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACAACATT
632261 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
196 GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
* * * * *
632294 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
*
632357 TGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCA
65 CGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCA
* *
632422 AGACCAGCTACATT-GAACTTAAAGATG-GAAAAGGTGCCAATATGCTGATTCAAGGCCA
130 AGACCAGCGACATTAG-ACTTAAAGATGAGAAAA-ATGCCAATATGCTGATTCAAGGCCA
632480 GCTATATTGG
Statistics
Matches: 163, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
226 6 0.04
227 121 0.74
228 36 0.22
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.23
Consensus pattern (228 bp):
GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTAATTCAA
GACCAGCGACATTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACAACATT
GGGTTTTAAAGATGATGAAGGTGCCAATATGCT
Found at i:632573 original size:49 final size:49
Alignment explanation
Indices: 632349--633213 Score: 932
Period size: 49 Copynumber: 17.8 Consensus size: 49
632339 GTGATAAAGA
* * * * *
632349 TGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * * * *
632403 ATGTCAATGTGCTAATTCAAGACCAGCTACATTGAACTTAAAGATGGAAAAGG
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
632456 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G-A--
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
632499 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
632548 TACCAATATGCTGATTGAAGGCCAGCGATATTGGACTTAAAGATGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG---AAGG
* * * * *
632600 CGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAGATGAAGG
* * * *
632650 TGCCAATATGCTGATTCAAGGCCAACGATATTGGA-TT-----TGGAGT
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
632693 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAATG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
* *
632745 TGCCAATATGATGATTCAAGGCCAGCTATATTGGAGTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
632788 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
*
632837 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
632880 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
632929 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
632978 TGCCAATATGTTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
633027 TGCCAATATACTGATTCAAGGCTAGCGATATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
633076 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
633125 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
633174 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAA
633214 TGGTGCTAAT
Statistics
Matches: 680, Mismatches: 99, Indels: 68
0.80 0.12 0.08
Matches are distributed among these distances:
43 144 0.21
44 4 0.01
45 3 0.00
46 1 0.00
47 3 0.00
48 2 0.00
49 334 0.49
50 36 0.05
51 2 0.00
52 104 0.15
53 13 0.02
54 1 0.00
55 33 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:633425 original size:34 final size:35
Alignment explanation
Indices: 633348--633778 Score: 414
Period size: 34 Copynumber: 12.7 Consensus size: 35
633338 TTGTGGACTT
* *
633348 AAAAGGGTGCCACGGAATTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
*
633382 ---AAGGTGCCACGGAGTTATGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * ** *
633413 AACAAGGTGCCACGGGGTCATGGAC-TTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GG
*
633448 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
* *
633484 -AAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
633517 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * * *
633551 AACAAGGTGCCACGGGGTCGTGGAC-TTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GG
* *
633586 AAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
* * * *
633622 -AAAAGGTGCCATGAAGTTGTGGGCTTT-AAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
633655 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
* * * *
633688 AACAAGATGCCAC-GAGGTCGTGGAC-TT-AGAAGG
1 AAAAAGGTGCCACGGA-GTTGTGGACTTTGAAAAGG
* * *
633721 AAAAAGAGTGCCACAGAGTTGTGGGC-TT-AGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGG
633755 AAAAAGAGTGCCACGGAGTTGTGG
1 AAAAAG-GTGCCACGGAGTTGTGG
633779 GCTTAAACGG
Statistics
Matches: 341, Mismatches: 39, Indels: 34
0.82 0.09 0.08
Matches are distributed among these distances:
31 28 0.08
32 2 0.01
33 60 0.18
34 177 0.52
35 28 0.08
36 34 0.10
37 12 0.04
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (35 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGG
Found at i:633527 original size:104 final size:102
Alignment explanation
Indices: 633348--633839 Score: 435
Period size: 104 Copynumber: 4.9 Consensus size: 102
633338 TTGTGGACTT
* * * *
633348 AAAAGGGTGCCACGGAATTGTGGACTTTGAAAA-G--AAGGTGCCACGGAGTTATGGACTTTGAA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAA
* * **
633410 AAGAACAAGGTGCCACGGGGTCATGGAC-TTAAAAAGGG
66 AAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAA--G
* *
633448 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAA
*
633513 AAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
65 AAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* * * * * *
633551 AACAAGGTGCCACGGGGTCGTGGAC-TTAAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-GG-AAAAG-GTGCCACGGAGTTGTGGACTTT
* * * * *
633615 GAAAAGGAAAAGGTGCCATGAAGTTGTGGGCTTTAAAAAG
63 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
* *
633655 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGATGCCAC-GAGGTCGTGGAC-TTA
1 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAA-AAGGTGCCACGGA-GTTGTGGACTTTA
* * * * * *
633716 GAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGG
64 AAAAGAAAAAG-GTGCCACGGAGTTGTGGACTTTAAAAAG
* * *
633755 AAAAAGAGTGCCACGGAGTTGTGGGC-TT--AAACG----GGTGCCACGGAGTTGTGGAC-TTAG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAA
* **
633812 AAGGAAAAAGAGTGCCATAGAGTTGTGG
65 AAAGAAAAAG-GTGCCACGGAGTTGTGG
633840 GCTTAGAAGA
Statistics
Matches: 335, Mismatches: 44, Indels: 31
0.82 0.11 0.08
Matches are distributed among these distances:
95 46 0.14
96 2 0.01
100 32 0.10
101 82 0.24
102 24 0.07
103 15 0.04
104 128 0.38
105 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (102 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTTAAA
AAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAG
Found at i:633541 original size:138 final size:138
Alignment explanation
Indices: 633348--633782 Score: 654
Period size: 138 Copynumber: 3.2 Consensus size: 138
633338 TTGTGGACTT
* * * *
633348 AAAAGGGTGCCACGGAATTGTGGACTTTGAAAAG---AAGGTGCCACGGAGTTATGGACTTTGAA
1 AAAA-GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAA
*
633410 AAGAACAAGGTGCCACGGGGTCATGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
65 AAGAACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
633475 TTGAAAAGG
130 TTGAAAAGG
633484 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
*
633549 AGAACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
66 AGAACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
633614 TGAAAAGG
131 TGAAAAGG
* *
633622 AAAAGGTGCCATGAAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAA
1 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
* * * *
633685 AGGAACAAGATGCCACGAGGTCGTGGACTT-AGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGC-
66 A-GAACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
*
633747 TT-AGAAGG
130 TTGAAAAGG
633755 AAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -AAAAG-GTGCCACGGAGTTGTGGGCTT
633783 AAACGGGTGC
Statistics
Matches: 277, Mismatches: 16, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
133 5 0.02
134 7 0.03
135 71 0.26
136 11 0.04
137 28 0.10
138 155 0.56
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (138 bp):
AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAA
AGAACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
TGAAAAGG
Found at i:633779 original size:34 final size:33
Alignment explanation
Indices: 633348--633844 Score: 408
Period size: 34 Copynumber: 14.8 Consensus size: 33
633338 TTGTGGACTT
* * **
633348 AAAAGGGTGCCACGGAATTGTGGACTTTGAA--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
633379 AAGAAGGTGCCACGGAGTTATGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * **
633413 AACAAGGTGCCACGGGGTCATGGACTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAA-GG
*
633448 AAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
633484 -AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
633517 AAAAAGGTGCCACGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * *
633551 AACAAGGTGCCACGGGGTCGTGGACTTAAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAA-GG
* *
633586 AAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * * *
633622 -AAAAGGTGCCATGAAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
633655 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
633688 AACAAGATGCCAC-GAGGTCGTGGACTTAGAAGG
1 AAAAAGGTGCCACGGA-GTTGTGGACTTAAAAGG
* * *
633721 AAAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* *
633755 AAAAAGAGTGCCACGGAGTTGTGGGCTT-AAACG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
*
633788 -----GGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
633816 AAAAAGAGTGCCATAGAGTTGTGGGCTTA
1 AAAAAG-GTGCCACGGAGTTGTGGACTTA
633845 GAAGAGATTG
Statistics
Matches: 391, Mismatches: 51, Indels: 45
0.80 0.10 0.09
Matches are distributed among these distances:
27 20 0.05
28 4 0.01
31 21 0.05
32 4 0.01
33 66 0.17
34 202 0.52
35 28 0.07
36 34 0.09
37 12 0.03
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:633810 original size:95 final size:94
Alignment explanation
Indices: 633586--633848 Score: 291
Period size: 95 Copynumber: 2.7 Consensus size: 94
633576 TTAAAAAGGG
* * * * *
633586 AAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGG-AAAAG-GTGCCATGAAGTTGTGGGCTTT
1 AAAAGGAGTGCCACGGAGTTGTGGAC-TT-AGAAGGAAAAAGAGTGCCAAG-AGTTGTGGGC-TT
* *
633649 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
62 AGAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
633682 AAAAGGAACAAGATGCCAC-GAGGTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGG
1 AAAAGG----AG-TGCCACGGA-GTTGTGGACTTAGAAGGAAAAAGAGTGCCA-AGAGTTGTGGG
*
633746 CTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
59 CTTAGAAGGAAAAAG-GTGCCACGGAGTTGTGGACTT
*
633783 AAACGG-GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTAGA
1 AAAAGGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCA-AGAGTTGTGGGCTTAGA
633847 AG
65 AG
633849 AGATTGCCAC
Statistics
Matches: 144, Mismatches: 12, Indels: 23
0.80 0.07 0.13
Matches are distributed among these distances:
95 54 0.38
96 8 0.06
99 5 0.03
100 22 0.15
101 54 0.38
102 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (94 bp):
AAAAGGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCAAGAGTTGTGGGCTTAGAA
GGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:633823 original size:61 final size:61
Alignment explanation
Indices: 633728--633844 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
633718 AGGAAAAAGA
* *
633728 GTGCCACAGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAACGG
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAACGG
* *
633789 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCATAGAGTTGTGGGCTTA
1 GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTA
633845 GAAGAGATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.28, C:0.14, G:0.37, T:0.21
Consensus pattern (61 bp):
GTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAACGG
Found at i:635207 original size:12 final size:12
Alignment explanation
Indices: 635188--635212 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
635178 GTTTTGTTTA
635188 TTTTTTGACTTT
1 TTTTTTGACTTT
635200 TTTTTTGACTTT
1 TTTTTTGACTTT
635212 T
1 T
635213 GTTTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTGACTTT
Found at i:638566 original size:52 final size:52
Alignment explanation
Indices: 638480--638604 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
638470 ATATGAAAAG
* * *
638480 TTGCTTGCATGTATCGATAAATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
* *
638532 TTGCCTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
638584 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
638605 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:638617 original size:52 final size:52
Alignment explanation
Indices: 638505--638624 Score: 179
Period size: 52 Copynumber: 2.3 Consensus size: 52
638495 GATAAATTTA
***
638505 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCAATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCAATACATAAG
* *
638557 ATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAG
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCAATACATAAG
638608 ATCAGTGTATCGATACA
1 AT-AGTGTATCGATACA
638625 ATGTATCGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCAATACATAAG
Found at i:638631 original size:13 final size:13
Alignment explanation
Indices: 638613--638637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
638603 CAAAGATCAG
638613 TGTATCGATACAA
1 TGTATCGATACAA
638626 TGTATCGATACA
1 TGTATCGATACA
638638 TTCGAGTAAT
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:638705 original size:20 final size:20
Alignment explanation
Indices: 638676--638733 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
638666 GCAGTAGCTT
638676 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
638695 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
638715 CTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
638734 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:639250 original size:62 final size:62
Alignment explanation
Indices: 639032--639553 Score: 434
Period size: 62 Copynumber: 8.6 Consensus size: 62
639022 GAAATCAGGT
* * * * *
639032 TTGAAAGATGAGAAGAACGATAAAGGTGCCAATATGCTGATTTAAGGCCAGTGATATTGGGC
1 TTGAAAGATAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGC
* * *
639094 TTGAAAGA-AAGAAGATATGA-AAA-GTGCCAATATGCTGATTCAAGATCAGTGACT-TTGGAC
1 TTGAAAGATAAGAA-AAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGC
* ** * * * *
639154 AT-AAAGATGCGAAGAATGATAAAGGTGCCGATATGCTGATTCACGACCAGTGATATCGGGC
1 TTGAAAGATAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGC
* * * *
639215 TTGAAAGATGAGAAAAATGATAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTGAAAGATAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGC
** * * * *
639277 TTGAAAGA-AAGAAGATTTGA-AAA-GTGCCAATGTGCTGATTTAAGATCAGTGACT-TTGGAC
1 TTGAAAGATAAGAA-AAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGC
* * * * ***
639337 AT-AAAGATACA-AAGAATGATAAAGGTGCCGATATGCTGATTCACAG-CCAATGATATCAAGC
1 TTGAAAGATA-AGAAAAATGATAAAGGTGCCAATATGCTGATTCA-AGACCAGTGATATTGGGC
* ** *
639398 TTGAAAGATAAGAAGAACAATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGC
1 TTGAAAGATAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGC
** * * * *
639460 TTGAAAGA-AAGAAGATTTGA-AAA-GTGCTAATGTGCTGATTCAAGATCAGTGACT-TTGGAC
1 TTGAAAGATAAGAA-AAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGC
*
639520 TT-AAAGAT--GCAAAGAATGATAAAGGTGCCGATAT
1 TTGAAAGATAAG-AAA-AATGATAAAGGTGCCAATAT
639554 ATTGAGTTAC
Statistics
Matches: 362, Mismatches: 73, Indels: 51
0.74 0.15 0.10
Matches are distributed among these distances:
58 2 0.01
59 27 0.07
60 110 0.30
61 91 0.25
62 132 0.36
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.24
Consensus pattern (62 bp):
TTGAAAGATAAGAAAAATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGC
Found at i:639548 original size:121 final size:122
Alignment explanation
Indices: 639035--639553 Score: 474
Period size: 121 Copynumber: 4.3 Consensus size: 122
639025 ATCAGGTTTG
* *
639035 AAAGATGAGAAGAACGATAAAGGTGCCAATATGCTGATTTAAGGCCAGTGATATTGGGCTTGAAA
1 AAAGATGA-AAGAACGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAA
* *
639100 GA-AAGAAGATATGA-AAA-GTGCCAATATGCTGATTCAAGATCAGTGACTTTGGACAT
65 GATAAGAAGATATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TTTGGACTT
* * * * *
639156 AAAGATGCGAAGAATGATAAAGGTGCCGATATGCTGATTCACGACCAGTGATATCGGGCTTGAAA
1 AAAGATG-AAAGAACGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAA
* * * * * *
639221 GATGAGAA-AAATGATAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
65 GATAAGAAGATATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGAT-TTGGACTT
* * * * * * *
639279 GAA-A-GAAAGAA-GATTTGAAAAGTGCCAATGTGCTGATTTAAGATCAGTGACT-TTGGACAT-
1 AAAGATGAAAGAACGA--T-AAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TATTGGGCTTG
* * * **
639339 AAAGATACA-AAGA-ATGATAAAGGTGCCGATATGCTGATTCACAG-CCAATGATATCAAGCTT
62 AAAGATA-AGAAGATATGATAAAGGTGCCAATATGCTGATTCA-AGACCAGTGATTTGGA-CTT
* * *
639400 GAAAGATAAGAAGAACAATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTGAA
1 -AAAGATGA-AAGAACGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAA
* * * *
639465 AGA-AAGAAGATTTGA-AAA-GTGCTAATGTGCTGATTCAAGATCAGTGACTTTGGACTT
64 AGATAAGAAGATATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGA-TTTGGACTT
* *
639522 AAAGATGCAAAGAATGATAAAGGTGCCGATAT
1 AAAGATG-AAAGAACGATAAAGGTGCCAATAT
639554 ATTGAGTTAC
Statistics
Matches: 315, Mismatches: 58, Indels: 50
0.74 0.14 0.12
Matches are distributed among these distances:
119 2 0.01
120 6 0.02
121 137 0.43
122 74 0.23
123 80 0.25
124 10 0.03
125 5 0.02
126 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.24
Consensus pattern (122 bp):
AAAGATGAAAGAACGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAAG
ATAAGAAGATATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATTTGGACTT
Found at i:639584 original size:183 final size:183
Alignment explanation
Indices: 639032--639593 Score: 876
Period size: 183 Copynumber: 3.1 Consensus size: 183
639022 GAAATCAGGT
* *
639032 TTGAAAGATGAGAAGAACGATAAAGGTGCCAATATGCTGATTTAAGGCCAGTGATATTGGGCTTG
1 TTGAAAGATAAGAAGAACGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTG
* *
639097 AAAGAAAGAAGATATGAAAAGTGCCAATATGCTGATTCAAGATCAGTGACTTTGGACATAAAGAT
66 AAAGAAAGAAGATTTGAAAAGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACATAAAGAT
* * *
639162 GCGAAGAATGATAAAGGTGCCGATATGCTGATTCACGACCAGTGATATCGGGC
131 GCAAAGAATGATAAAGGTGCCGATATGCTGATTCACGGCCAGTGATATCGAGC
* * * * *
639215 TTGAAAGATGAGAAAAATGATAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTG
1 TTGAAAGATAAGAAGAACGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTG
*
639280 AAAGAAAGAAGATTTGAAAAGTGCCAATGTGCTGATTTAAGATCAGTGACTTTGGACATAAAGAT
66 AAAGAAAGAAGATTTGAAAAGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACATAAAGAT
* * * *
639345 ACAAAGAATGATAAAGGTGCCGATATGCTGATTCACAGCCAATGATATCAAGC
131 GCAAAGAATGATAAAGGTGCCGATATGCTGATTCACGGCCAGTGATATCGAGC
*
639398 TTGAAAGATAAGAAGAACAATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTG
1 TTGAAAGATAAGAAGAACGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTG
* *
639463 AAAGAAAGAAGATTTGAAAAGTGCTAATGTGCTGATTCAAGATCAGTGACTTTGGACTTAAAGAT
66 AAAGAAAGAAGATTTGAAAAGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACATAAAGAT
** * *
639528 GCAAAGAATGATAAAGGTGCCGATATATTGAGTT-ACGGCCAGCGTTATCGAGC
131 GCAAAGAATGATAAAGGTGCCGATATGCTGA-TTCACGGCCAGTGATATCGAGC
639581 TTG-AAGATGAAGA
1 TTGAAAGAT-AAGA
639594 TTTAACGAGT
Statistics
Matches: 345, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
182 5 0.01
183 338 0.98
184 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (183 bp):
TTGAAAGATAAGAAGAACGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTTG
AAAGAAAGAAGATTTGAAAAGTGCCAATGTGCTGATTCAAGATCAGTGACTTTGGACATAAAGAT
GCAAAGAATGATAAAGGTGCCGATATGCTGATTCACGGCCAGTGATATCGAGC
Found at i:639783 original size:28 final size:28
Alignment explanation
Indices: 639748--639939 Score: 125
Period size: 29 Copynumber: 6.7 Consensus size: 28
639738 GACTTGTGTA
*
639748 GGCTTTAAAAGGGTGCCACTAACTTATG
1 GGCTTTGAAAGGGTGCCACTAACTTATG
* * * *
639776 GGCTTTAAAAGGGTTGCCACCAGCTTTTG
1 GGCTTTGAAAGGG-TGCCACTAACTTATG
* * * *
639805 TGTTTGTGAAAGGATGCCACTGACTTATG
1 GGCTT-TGAAAGGGTGCCACTAACTTATG
* * * * *
639834 GGCTTTGAAAGAGTGCCATTGACTTGTA
1 GGCTTTGAAAGGGTGCCACTAACTTATG
* * * *
639862 GGCTTTTGAAAGGATGCGATTAACTTGTG
1 GGC-TTTGAAAGGGTGCCACTAACTTATG
* *
639891 GGCTTTTTGAAAGGATGCAACTAA-TTGATG
1 GGC--TTTGAAAGGGTGCCACTAACTT-ATG
* *
639921 GGTTTTGAAAGGGTACCAC
1 GGCTTTGAAAGGGTGCCAC
639940 CGACTTGTGT
Statistics
Matches: 129, Mismatches: 30, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
28 47 0.36
29 54 0.42
30 28 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (28 bp):
GGCTTTGAAAGGGTGCCACTAACTTATG
Found at i:639960 original size:30 final size:29
Alignment explanation
Indices: 639924--640026 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 29
639914 ATTGATGGGT
639924 TTTGAAAGGGTACCACCGACTTGTGTTGGC
1 TTTGAAAGGGTACCACC-ACTTGTGTTGGC
* * *
639954 TTTGAAAAGGTTGCCACCAGCTCGTG-TGGTC
1 TTTG-AAAGGGTACCACCA-CTTGTGTTGG-C
* *
639985 TTTGAGAGGGTTACCACCAACTTGTGTGGGC
1 TTTGAAAGGG-TACCACC-ACTTGTGTTGGC
*
640016 TTTGAGAGGGT
1 TTTGAAAGGGT
640027 TGGCACCGGC
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
30 13 0.22
31 43 0.73
32 3 0.05
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.30
Consensus pattern (29 bp):
TTTGAAAGGGTACCACCACTTGTGTTGGC
Found at i:639971 original size:31 final size:31
Alignment explanation
Indices: 639936--640034 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
639926 TGAAAGGGTA
* *
639936 CCACCGACTTGTGTTGGCTTTGAAAAGGTTG
1 CCACCGACTTGTGTTGGCTTTGAGAGGGTTG
* *
639967 CCACC-AGCTCGTG-TGGTCTTTGAGAGGGTTA
1 CCACCGA-CTTGTGTTGG-CTTTGAGAGGGTTG
* *
639998 CCACCAACTTGTGTGGGCTTTGAGAGGGTTG
1 CCACCGACTTGTGTTGGCTTTGAGAGGGTTG
*
640029 GCACCG
1 CCACCG
640035 GCCCGTTTGG
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
30 4 0.07
31 48 0.87
32 3 0.05
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.28
Consensus pattern (31 bp):
CCACCGACTTGTGTTGGCTTTGAGAGGGTTG
Found at i:640008 original size:62 final size:61
Alignment explanation
Indices: 639919--640233 Score: 231
Period size: 62 Copynumber: 5.1 Consensus size: 61
639909 AACTAATTGA
* * * * *
639919 TGGGTTTTGAAAGGGTACCACCGACTTGTGTTGGCTTTGAAAAGGTTGCCACCAGCTCGTG
1 TGGGCTTTGAAAGGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
* * * * * * * *
639980 TGGTCTTTGAGAGGGTTACCACCAACTTGTGTGGGCTTTGAGAGGGTTGGCACCGGCCCGTT
1 TGGGCTTTGAAAGGG-TGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
* * * * *** * * *
640042 TGGGCTTTTAAAAGGGTGCCACTAAC-T-TATGGGCTTTAACTCGGGTGCTACCAACTCGTG
1 TGGGC-TTTGAAAGGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
* * *** * * **
640102 CGGGCTTTGACTAGGGTGCCATTGACTTGTGTGAGCTTTGAGAAGGTTGCCACCAACTCGCA
1 TGGGCTTTGA-AAGGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
* * * * *
640164 TGGGCCTTT-AGAGGGTTGCCACCAACTCGTGTGGGTTTTTAGAAGGTTGCCACTAGCTCGTG
1 TGGG-CTTTGAAAGGG-TGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
640226 TGGGCTTT
1 TGGGCTTT
640234 AACTCGGGTA
Statistics
Matches: 191, Mismatches: 56, Indels: 14
0.73 0.21 0.05
Matches are distributed among these distances:
59 4 0.02
60 37 0.19
61 22 0.12
62 116 0.61
63 12 0.06
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (61 bp):
TGGGCTTTGAAAGGGTGCCACCAACTTGTGTGGGCTTTGAGAAGGTTGCCACCAGCTCGTG
Found at i:640224 original size:31 final size:31
Alignment explanation
Indices: 639960--640234 Score: 120
Period size: 31 Copynumber: 9.0 Consensus size: 31
639950 TGGCTTTGAA
* *
639960 AAGGTTGCCACCAGCTCGTGT-GGTCTTTGAG
1 AAGGTTGCCACCAACTCGTGTGGGCCTTT-AG
* * *
639991 AGGGTTACCACCAACTTGTGTGGG-CTTTGAG
1 AAGGTTGCCACCAACTCGTGTGGGCCTTT-AG
* * ** * * * *
640022 AGGGTTGGCACCGGCCCGTTTGGGCTTTTAA
1 AAGGTTGCCACCAACTCGTGTGGGCCTTTAG
* * *
640053 AAGGGTGCCACTAACT--TATGGG-CTTTA-
1 AAGGTTGCCACCAACTCGTGTGGGCCTTTAG
* * * *
640080 ACTCGGGTGCTACCAACTCGTGCGGG-CTTT-G
1 A--AGGTTGCCACCAACTCGTGTGGGCCTTTAG
* *** * *
640111 ACTAGGGTGCCATTGACTTGTGTGAG-CTTTGAG
1 A--AGGTTGCCACCAACTCGTGTGGGCCTTT-AG
**
640144 AAGGTTGCCACCAACTCGCATGGGCCTTTAG
1 AAGGTTGCCACCAACTCGTGTGGGCCTTTAG
* **
640175 AGGGTTGCCACCAACTCGTGTGGGTTTTTAG
1 AAGGTTGCCACCAACTCGTGTGGGCCTTTAG
* *
640206 AAGGTTGCCACTAGCTCGTGTGGG-CTTTA
1 AAGGTTGCCACCAACTCGTGTGGGCCTTTA
640235 ACTCGGGTAT
Statistics
Matches: 182, Mismatches: 52, Indels: 21
0.71 0.20 0.08
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
29 17 0.09
30 4 0.02
31 145 0.80
32 9 0.05
33 2 0.01
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.29
Consensus pattern (31 bp):
AAGGTTGCCACCAACTCGTGTGGGCCTTTAG
Found at i:640294 original size:31 final size:31
Alignment explanation
Indices: 640220--640295 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
640210 TTGCCACTAG
* * *
640220 CTCGTGTGGGCTTTAACTCGGGTATCGCCAA
1 CTCGTGCGGGCTTTAACTCGGGTACCCCCAA
** * *
640251 CTCGCACAGGCTTTAACTTGGGTACCCCCAA
1 CTCGTGCGGGCTTTAACTCGGGTACCCCCAA
640282 CTCGTGCGGGCTTT
1 CTCGTGCGGGCTTT
640296 TACTAGAGTG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (31 bp):
CTCGTGCGGGCTTTAACTCGGGTACCCCCAA
Found at i:640366 original size:30 final size:31
Alignment explanation
Indices: 640344--640424 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
640334 GCCACAGACT
640344 TGTGGGCTTTTAACTAGGGTGCCACCAACTTA
1 TGTGGGC-TTTAACTAGGGTGCCACCAACTTA
* * *
640376 TGTGGGCTTTAA-TTGGGTGCCATCAACTTG
1 TGTGGGCTTTAACTAGGGTGCCACCAACTTA
640406 TGTGGGCTTTAACTAGGGT
1 TGTGGGCTTTAACTAGGGT
640425 TGGGCTTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
30 27 0.61
31 10 0.23
32 7 0.16
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.35
Consensus pattern (31 bp):
TGTGGGCTTTAACTAGGGTGCCACCAACTTA
Found at i:640392 original size:61 final size:60
Alignment explanation
Indices: 640258--640597 Score: 171
Period size: 61 Copynumber: 5.8 Consensus size: 60
640248 CAACTCGCAC
* ** * * * * *
640258 AGGCTTTAACTTGGGTACCCCCAACTCGTGCGGGCTTTT-ACTAGAGTGCTACTAACTTGT
1 AGGCTTTAA-TTGGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTGCCACCAACTTGT
**
640318 AGGCTTTGTTTGGGGTGCCA-CAGAC-T-TGTGGGCTTTTAACTAGGGTGCCACCAACTTATGT
1 AGGCTTTAATT-GGGTGCCATCA-ACTTGTGTGGGCTTTTAACTAGGGTGCCACCAAC-T-TGT
*
640379 GGGCTTTAATTGGGTGCCATCAACTTGTGTGGGC-TTTAACTA-GG-G--------TTG-
1 AGGCTTTAATTGGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTGCCACCAACTTGT
* * * * * *
640427 -GGCTTTGATTAGGGTGCCACCAACTTGTATGGGCTTTTGACTGGGGTGCCGCCAACTCGTGT
1 AGGCTTTAATT-GGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTGCCACCAACT--TGT
* * *** * * * *
640489 GGGCTTTAATAGGGGTGCTGCCAACTTGTGT-GGCCTTTGACAAGGGTACCACCAACTTTGT
1 AGGCTTTAAT-TGGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTGCCACCAAC-TTGT
* * *
640550 AGGCTTTGACA-AGGGTGCAATCAACTAGTGTGGGCTTTT-ACTAGGGTG
1 AGGCTTT-A-ATTGGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTG
640598 TCGCTAATTT
Statistics
Matches: 215, Mismatches: 36, Indels: 57
0.70 0.12 0.19
Matches are distributed among these distances:
47 9 0.04
48 21 0.10
49 8 0.04
50 3 0.01
51 1 0.00
58 10 0.05
59 20 0.09
60 28 0.13
61 55 0.26
62 34 0.16
63 26 0.12
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (60 bp):
AGGCTTTAATTGGGTGCCATCAACTTGTGTGGGCTTTTAACTAGGGTGCCACCAACTTGT
Found at i:640463 original size:31 final size:31
Alignment explanation
Indices: 640425--640641 Score: 161
Period size: 31 Copynumber: 7.0 Consensus size: 31
640415 TAACTAGGGT
* *
640425 TGGGCTTTGATTAGGGTGCCACCAACTTGTA
1 TGGGCTTTGACTAGGGTGCCACCAACTTGTG
* * *
640456 TGGGCTTTTGACTGGGGTGCCGCCAACTCGTG
1 TGGGC-TTTGACTAGGGTGCCACCAACTTGTG
* **
640488 TGGGCTTT-AATAGGGGTGCTGCCAACTTGTG
1 TGGGCTTTGACTA-GGGTGCCACCAACTTGTG
* * *
640519 TGGCCTTTGACAAGGGTACCACCAACTT-TG
1 TGGGCTTTGACTAGGGTGCCACCAACTTGTG
* * * * *
640549 TAGGCTTTGACAAGGGTGCAATCAACTAGTG
1 TGGGCTTTGACTAGGGTGCCACCAACTTGTG
* * * * *
640580 TGGGCTTTTACTAGGGTGTCGCTAATTTGTG
1 TGGGCTTTGACTAGGGTGCCACCAACTTGTG
* * * *
640611 TAGGCTTTGGA-AAGGATGCCACTAACTTGTG
1 TGGGCTTT-GACTAGGGTGCCACCAACTTGTG
640642 GGCTATGAAA
Statistics
Matches: 143, Mismatches: 38, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
30 26 0.18
31 88 0.62
32 29 0.20
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (31 bp):
TGGGCTTTGACTAGGGTGCCACCAACTTGTG
Found at i:640575 original size:30 final size:31
Alignment explanation
Indices: 640509--640596 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
640499 AGGGGTGCTG
*
640509 CCAACTTGTGTGGCCTTTGACAAGGGTACCA
1 CCAACTTGTGTGGCCTTTGACAAGGGTACAA
*
640540 CCAACTT-TGTAGG-CTTTGACAAGGGTGCAA
1 CCAACTTGTGT-GGCCTTTGACAAGGGTACAA
* * * * *
640570 TCAACTAGTGTGGGCTTTTACTAGGGT
1 CCAACTTGTGTGGCCTTTGACAAGGGT
640597 GTCGCTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 25 0.52
31 23 0.48
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (31 bp):
CCAACTTGTGTGGCCTTTGACAAGGGTACAA
Found at i:640652 original size:28 final size:28
Alignment explanation
Indices: 640613--641604 Score: 553
Period size: 28 Copynumber: 35.1 Consensus size: 28
640603 AATTTGTGTA
640613 GGCTTTGGAAAGGATGCCACTAACTTGTG
1 GGCTTT-GAAAGGATGCCACTAACTTGTG
* * * *
640642 GGCTATGAAAGGAAGCCATTGACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * *
640670 GGTTTTGAAA-TAGTGCCAGTAACTTGTG
1 GGCTTTGAAAGGA-TGCCACTAACTTGTG
* * *
640698 GGCTTTAAAAGGATGCCATTTACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * * *
640726 GGCTTCGGAGGGATGCCACTAACTTGTA
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * * *
640754 GGCTTTGGAGGGTTGCCACTAACTTGTA
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* **
640782 AGCTTT-ACAA-GATGCCACTAACTCATG
1 GGCTTTGA-AAGGATGCCACTAACTTGTG
* * ** *
640809 GGGTTT-ACAAGG-TGCCAGTAGTTTATG
1 GGCTTTGA-AAGGATGCCACTAACTTGTG
* * *
640836 GGCTTTGAAAAGAGTGCTACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTAACTTGTG
* * *
640865 GGCTTTGAAAAGGGTGTCACTAACTCGTG
1 GGCTTTG-AAAGGATGCCACTAACTTGTG
** * * * *
640894 GGCTTT-AAAAAAGTACCACTGA-TTCATA
1 GGCTTTGAAAGGA-TGCCACTAACTT-GTG
* * * * *
640922 GGCTTT-AAAAGAGGACCACTGA-TTCATA
1 GGCTTTGAAAGGATG-CCACTAACTT-GTG
* * *
640950 GGCTTTAAAAGGGTGCC-CTGACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * * *
640977 GGCATTTAAAAGGGTGCCACTGACTTATG
1 GGC-TTTGAAAGGATGCCACTAACTTGTG
* *
641006 GGCTTTTGAAAGGGTGCCACTGACTTGTG
1 GGC-TTTGAAAGGATGCCACTAACTTGTG
* **
641035 GGCTTTGAAAGGGTGCCACTAACTCATG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
** * **
641063 GGCTTTGAAAATATGCCACTGACTCATG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * * *
641091 GGCTTTAAAAGGGTGCCACTGACTTGTA
1 GGCTTTGAAAGGATGCCACTAACTTGTG
*
641119 GGCTTTTGAAAGGATGCCACTAACTCGTG
1 GGC-TTTGAAAGGATGCCACTAACTTGTG
*
641148 GGCTTTGAAAGGATGCCACTAACTCGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* *
641176 GGCTTTGAAAGGGTGCCACTGACTTGTGCG
1 GGCTTTGAAAGGATGCCACTAACTTGT--G
* * * *
641206 GGCTTTGACTGAGG-TGTCGCCAACTTGTG
1 GGCTTTGA--AAGGATGCCACTAACTTGTG
*
641235 CAGGCTTTGGAAAGGGTGCCACTAACTTGTG
1 --GGCTTT-GAAAGGATGCCACTAACTTGTG
*
641266 GGCTTTGGAAGGATGCCACTAACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * *
641294 GGCTTTGGAGGGATGCCACTAACTTATG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * *
641322 GGCTTTGGAGGGTTGCCACTAACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * **
641350 GGGTTT-ACAAGG-TGCCACTGACTCATG
1 GGCTTTGA-AAGGATGCCACTAACTTGTG
* ** **
641377 GGGTTT-ACAAGG-TGCCACTAGTTTAAG
1 GGCTTTGA-AAGGATGCCACTAACTTGTG
* * *
641404 GGCTTTGAAAAGAGTGTCACTGACTTGTG
1 GGCTTTGAAAGGA-TGCCACTAACTTGTG
* * * *
641433 GGCTTTGAAAAGGGTGCCATTAACTCGTA
1 GGCTTTG-AAAGGATGCCACTAACTTGTG
* * * **
641462 GGCTTT-AAAAGAGTACCACTGACTCATG
1 GGCTTTGAAAGGA-TGCCACTAACTTGTG
* * * * * *
641490 GGCTTT-AAAAGAGGACCGCT-ATTTCATA
1 GGCTTTGAAAGGATG-CCACTAACTT-GTG
* * *
641518 GGCTTTAAAAGGGTGCCACTAACTTATG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
* * * * *
641546 AGCCTTTAAAAGGGTGCCACTGACTCGTG
1 -GGCTTTGAAAGGATGCCACTAACTTGTG
* *
641575 GGCTTTGAAAGGGTGCCTCTAACTTGTG
1 GGCTTTGAAAGGATGCCACTAACTTGTG
641603 GG
1 GG
641605 TGCCACTGAC
Statistics
Matches: 765, Mismatches: 163, Indels: 71
0.77 0.16 0.07
Matches are distributed among these distances:
27 101 0.13
28 435 0.57
29 176 0.23
30 20 0.03
31 28 0.04
32 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCTTTGAAAGGATGCCACTAACTTGTG
Found at i:640985 original size:56 final size:57
Alignment explanation
Indices: 640831--642076 Score: 438
Period size: 56 Copynumber: 22.2 Consensus size: 57
640821 TGCCAGTAGT
* * * * ** *
640831 TTATGGGCTTTGAAAAGAGTGCTACTGACTTGTGGGCTTTGAAAAGGGTGTCACTAAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGGTACCACTGAC
** * ** * * *
640889 TCGTGGGC-TTTAAAAAAGTACCACTGA-TTCATAGGCTTTAAAAGAGG-ACCACTGA-
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTT-GTGGGCTTTAAAAG-GGTACCACTGAC
*
640944 TTCATAGGC-TTTAAAAGGGTGCC-CTGACTTGTGGGCATTTAAAAGGGTGCCACTGAC
1 TT-ATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGC-TTTAAAAGGGTACCACTGAC
* * * * *
641001 TTATGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * ** ** *
641058 TCATGGGCTTTGAAAA-TATGCCACTGACTCATGGGCTTTAAAAGGGTGCCACTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * * * * * * *
641114 TTGTAGGCTTTTGAAAGGATGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTAAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
** * * * ** ** * **
641171 TCGTGGGC-TTTGAAAGGGTGCCACTGACTTGTGCGGGCTTTGACTGAGGTGTCGCCAAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGT--GGGCTTTAAAAG-GGTACCACTGAC
* ** * ** * * *
641230 TTGTGCAGGCTTTGGAAAGGGTGCCACTAACTTGTGGGCTTTGGAAGGATGCCACTAAC
1 TTAT--AGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * ** * * ** * *
641289 TTGTGGGC-TTT-GGAGGGATGCCACTAACTTATGGGCTTT-GGAGGGTTGCCACTAAC
1 TTATAGGCTTTTAAAAGGG-TGCCACTGACTTGTGGGCTTTAAAAGGG-TACCACTGAC
* ** * ** * * * *
641345 TTGT-GGGGTTTACAA-GGTGCCACTGACTCATGGGGTTTACAA-GGTGCCACT-AG
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * * * *
641398 TT-TAAGGGCTTTGAAAAGAGTGTCACTGACTTGTGGGCTTTGAAAAGGGTGCCATTAAC
1 TTAT-A-GGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGGTACCACTGAC
** * * ** * *
641457 TCGTAGGC-TTTAAAAGAGTACCACTGACTCATGGGCTTTAAAAGAGG-ACCGCT-AT
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG-GGTACCACTGAC
* * * *
641512 TTCATAGGC-TTTAAAAGGGTGCCACTAACTTATGAGCCTTTAAAAGGGTGCCACTGAC
1 TT-ATAGGCTTTTAAAAGGGTGCCACTGACTTGTG-GGCTTTAAAAGGGTACCACTGAC
** * * * *
641570 TCGTGGGC-TTTGAAAGGGTGCCTCTAACTTGTGGG---T------G--CCACTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
** * * * * * * * *
641615 TCGTGGGC-TTTGAAAGGGTGCCGCTGACTCGTGAGCTTTGAAAGGGTGCCTCTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * * * * * *
641671 TTTTGGGC-TCTGAAAGGGTGCCACTAACTTATGGGCTTTGAAAGGGTGCCACTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * ** * ** * * *
641727 TTGTGGGC-TTTGCAAGGGTGCCACTGACTCGTGGGCTTTGCAAGGATGCCACTAAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * * * * * * *
641783 TTGTGGGCTTTGAAAAGAGTGACACT-AGCTTATGGGATTTGAAAAGAGTGCCACTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGA-CTTGTGGGCTTT-AAAAGGGTACCACTGAC
* * * * * ** *
641841 TTGTGGGCTTTGAAAAGGGTGCCATTAACTCATGGGCTTTAAAAGAGG-ACCACT-AA
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAG-GGTACCACTGAC
** * * * *
641897 TTCATAGGCTTTTGGAAGGGTGCTC-CTAACTCGTGGGCTTTGAAAGGGTGCCACTGAC
1 TT-ATAGGCTTTTAAAAGGGTGC-CACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* * * * * *
641955 TTGT-GCGC-TTTGAAAGGGTGCCATTGACTTATGGGCTTTGAAAA-GGTGCCATTGAC
1 TTATAG-GCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTT-AAAAGGGTACCACTGAC
* * * * * * *
642011 TTATGGGC-TTT-AAAGGGTGCCACAGAGTCGTGGACTTTGAAAGGGTGCCACTGAC
1 TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
* *
642066 TTGTGGGCTTT
1 TTATAGGCTTT
642077 AGGAAAAAGT
Statistics
Matches: 935, Mismatches: 193, Indels: 122
0.75 0.15 0.10
Matches are distributed among these distances:
45 39 0.04
47 1 0.00
48 1 0.00
52 1 0.00
53 4 0.00
54 11 0.01
55 90 0.10
56 373 0.40
57 261 0.28
58 92 0.10
59 27 0.03
60 10 0.01
61 3 0.00
62 22 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (57 bp):
TTATAGGCTTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTACCACTGAC
Found at i:641642 original size:28 final size:28
Alignment explanation
Indices: 641602--642076 Score: 474
Period size: 28 Copynumber: 16.9 Consensus size: 28
641592 TCTAACTTGT
*
641602 GGGTGCCACTGACTCGTGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
641630 GGGTGCCGCTGACTCGTGAGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
641658 GGGTGCCTCTGACTTTTGGGCTCTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* *
641686 GGGTGCCACTAACTTATGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
*
641714 GGGTGCCACTGACTTGTGGGCTTTGCAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* *
641742 GGGTGCCACTGACTCGTGGGCTTTGCAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* *
641770 GGATGCCACTAACTTGTGGGCTTTGAAAA
1 GGGTGCCACTGACTTGTGGGCTTTG-AAA
* * * *
641799 GAGTGACACT-AGCTTATGGGATTTGAAAA
1 GGGTGCCACTGA-CTTGTGGGCTTTG-AAA
*
641828 GAGTGCCACTGACTTGTGGGCTTTGAAAA
1 GGGTGCCACTGACTTGTGGGCTTTG-AAA
* * ** *
641857 GGGTGCCATTAACTCATGGGCTTTAAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * * * *
641885 GAGG-ACCACT-AATTCATAGGCTTTTGGAA
1 G-GGTGCCACTGACTT-GTGGGC-TTTGAAA
* *
641914 GGGTGCTC-CTAACTCGTGGGCTTTGAAA
1 GGGTGC-CACTGACTTGTGGGCTTTGAAA
*
641942 GGGTGCCACTGACTTGTGCGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* *
641970 GGGTGCCATTGACTTATGGGCTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * *
641998 AGGTGCCATTGACTTATGGGCTTT-AAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
* * * *
642025 GGGTGCCACAGAGTCGTGGACTTTGAAA
1 GGGTGCCACTGACTTGTGGGCTTTGAAA
642053 GGGTGCCACTGACTTGTGGGCTTT
1 GGGTGCCACTGACTTGTGGGCTTT
642077 AGGAAAAAGT
Statistics
Matches: 372, Mismatches: 64, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.06
28 263 0.71
29 82 0.22
30 4 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (28 bp):
GGGTGCCACTGACTTGTGGGCTTTGAAA
Done.