Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold144
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: 3311329
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
File 18 of 21
Found at i:2724927 original size:105 final size:104
Alignment explanation
Indices: 2724712--2724993 Score: 313
Period size: 105 Copynumber: 2.7 Consensus size: 104
2724702 CAATTCTCCA
* ** * *
2724712 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTATAATCGGGGATAC
1 CAATCGGGGATACTCCAACTCCGATTTTATCCT-AAAACACTAATTTTTCCACAATCGGGGATAC
* *
2724776 TCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCG
65 TCCAACCCCGATTTTATTTCC-AAAAACACCAATTTCTTCG
* *
2724817 CAATCGGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATCGGGGATAC
1 CAATCGGGGATACTCCAACTCCGATTTTATC-CTAAAACACTAATTTTTCCACAATCGGGGATAC
* *
2724882 TCCAACCCCGGTTTTATTTTC-AAAACACCAATTT-TTC-
65 TCCAACCCCGATTTTATTTCCAAAAACACCAATTTCTTCG
* * * * *
2724919 CTTTAATCGGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATCGAGG
1 C---AATCGGGGATACTCCAACTCCGATTTTA--TCCTAAAACACTAATTTTTCCACAATCGGGG
2724983 ATACTCCAACC
61 ATACTCCAACC
2724994 TCGTTATCTC
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
102 1 0.01
103 3 0.02
104 13 0.09
105 83 0.55
106 50 0.33
107 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (104 bp):
CAATCGGGGATACTCCAACTCCGATTTTATCCTAAAACACTAATTTTTCCACAATCGGGGATACT
CCAACCCCGATTTTATTTCCAAAAACACCAATTTCTTCG
Found at i:2724950 original size:53 final size:53
Alignment explanation
Indices: 2724708--2724992 Score: 298
Period size: 52 Copynumber: 5.4 Consensus size: 53
2724698 TTCTCAATTC
* * * *
2724708 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-TTT
1 TCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
* *
2724759 TCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCT
1 TCCATAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-T
* * * *
2724814 TCGC--AATCGGGGATACTCCAACCCCGGTTTTA--TCGCTAAAACACTAATTTT
1 TC-CATAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTT
* * * *
2724865 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTT
1 TCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
* * *
2724917 TCCTTTAATCGGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTT
1 TCC-ATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
* *
2724971 T-CACAATCGAGGATACTCCAAC
1 TCCATAATCGGGGATACTCCAAC
2724993 CTCGTTATCT
Statistics
Matches: 197, Mismatches: 25, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
50 1 0.01
51 36 0.18
52 74 0.38
53 41 0.21
54 42 0.21
55 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.33
Consensus pattern (53 bp):
TCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
Found at i:2724978 original size:157 final size:157
Alignment explanation
Indices: 2724708--2724993 Score: 450
Period size: 157 Copynumber: 1.8 Consensus size: 157
2724698 TTCTCAATTC
* * *
2724708 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* * *
2724773 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCGCAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
2724838 CGGTTTTATCGCTAAAACACTAATTTT
131 CGGTTTTATCGCTAAAACACTAATTTT
* *
2724865 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA-TTTT-CTATAATCGGG
* *
2724930 GATACTCCAATTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
2724993 C
129 C
2724994 TCGTTATCTC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
157 66 0.56
158 17 0.15
159 34 0.29
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (157 bp):
TCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGGTTTTATCGCTAAAACACTAATTTT
Found at i:2725038 original size:28 final size:28
Alignment explanation
Indices: 2724981--2725080 Score: 98
Period size: 28 Copynumber: 3.6 Consensus size: 28
2724971 TCACAATCGA
*
2724981 GGATACTCCAACCTCGTTA-TCTCATCG-GG
1 GGATACTCCAACCCCGTTACT-TC--CGAGG
2725010 GG-TACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
* * * *
2725037 GGATACTCCAACCCCATTATTTTCGAAG
1 GGATACTCCAACCCCGTTACTTCCGAGG
*
2725065 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
2725081 ATTTTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 2 0.03
27 4 0.07
28 52 0.85
29 3 0.05
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:2725393 original size:60 final size:60
Alignment explanation
Indices: 2725321--2725439 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
2725311 GAATCCAATC
2725321 AAGTCTCAACATTGTTATCACGATTATACATCATTAATCGAAAACAATCATGAGACATAA
1 AAGTCTCAACATTGTTATCACGATTATACATCATTAATCGAAAACAATCATGAGACATAA
2725381 AAGTCTCAACATTGTTATCACGATTATACATCATTAATCGAAAACAATCATGAGACATA
1 AAGTCTCAACATTGTTATCACGATTATACATCATTAATCGAAAACAATCATGAGACATA
2725440 CTTTGATTGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (60 bp):
AAGTCTCAACATTGTTATCACGATTATACATCATTAATCGAAAACAATCATGAGACATAA
Found at i:2737645 original size:17 final size:16
Alignment explanation
Indices: 2737614--2737663 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
2737604 ACCTTTTCTT
*
2737614 CAAAAAAGAAAAAAAA
1 CAAAAAACAAAAAAAA
2737630 CAAAAAACAAACAAAAA
1 CAAAAAACAAA-AAAAA
2737647 -AACAAAACAAAGAAAAA
1 CAA-AAAACAAA-AAAAA
2737664 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (16 bp):
CAAAAAACAAAAAAAA
Found at i:2738849 original size:59 final size:59
Alignment explanation
Indices: 2738669--2739570 Score: 1207
Period size: 59 Copynumber: 15.5 Consensus size: 59
2738659 AGCAGGACAC
* * * **
2738669 CTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCATTCCTCAAAGAGCAGGACGCCTTCCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCGGGACGCCTT-TT
** *
2738730 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
*
2738790 CTTTTAAAGCCCACACGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
2738849 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
2738908 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
2738967 CTTTTAAAGCCCATACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2739026 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2739085 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGAGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
2739144 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * *
2739203 CTTTTAAAGCCCACACCAGTTGGTGGCACTTTTAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* ** * *
2739262 CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCATGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * *
2739321 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGAC-CC----
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** ** * ** *
2739377 CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCCCAAAGAGCAAGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * *
2739432 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
* *
2739489 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2739546 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
2739571 TTTTTACTCC
Statistics
Matches: 773, Mismatches: 58, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
54 4 0.01
55 156 0.20
56 7 0.01
57 3 0.00
59 479 0.62
60 54 0.07
61 68 0.09
62 2 0.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
Found at i:2740340 original size:21 final size:21
Alignment explanation
Indices: 2740316--2740421 Score: 99
Period size: 21 Copynumber: 5.0 Consensus size: 21
2740306 ATAAAAAAAA
*
2740316 ATTTCCCAAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
**
2740337 ATTT-GAAGAATGTATCGATAC
1 ATTTCTCA-AATGTATCGATAC
* **
2740358 ATTTGTGGAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
* **
2740379 ATTTGTGGAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
2740400 A-TTCTACAAATGTATCGATAC
1 ATTTCT-CAAATGTATCGATAC
2740421 A
1 A
2740422 GGGTCCCAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.05
21 70 0.95
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (21 bp):
ATTTCTCAAATGTATCGATAC
Found at i:2740412 original size:42 final size:42
Alignment explanation
Indices: 2740322--2740421 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
2740312 AAAAATTTCC
*
2740322 CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGA
** **
2740364 GGAATGTATCGATACATTTGTGGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATTTGAAGAATGTATCGATACATT-TGA
2740406 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2740422 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (42 bp):
CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGA
Found at i:2740481 original size:19 final size:19
Alignment explanation
Indices: 2740457--2740524 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2740447 AATTCAACAA
2740457 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2740476 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2740491 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2740508 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2740525 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2740496 original size:13 final size:13
Alignment explanation
Indices: 2740478--2740502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2740468 ACATAAGTTT
2740478 TGTATCGATACAA
1 TGTATCGATACAA
2740491 TGTATCGATACA
1 TGTATCGATACA
2740503 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:2740500 original size:32 final size:32
Alignment explanation
Indices: 2740459--2740521 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2740449 TTCAACAATT
*
2740459 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2740491 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2740522 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2740582 original size:13 final size:13
Alignment explanation
Indices: 2740564--2740589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2740554 CATTTTTCTG
2740564 TGTATCGATACAT
1 TGTATCGATACAT
2740577 TGTATCGATACAT
1 TGTATCGATACAT
2740590 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:2740586 original size:33 final size:33
Alignment explanation
Indices: 2740544--2740610 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2740534 GCCAAGGAAA
***
2740544 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2740577 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2740610 T
1 T
2740611 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:2743018 original size:51 final size:53
Alignment explanation
Indices: 2742949--2743079 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
2742939 AGTTTCTCAA
* * * * *
2742949 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
2743000 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
2743054 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2743080 CCCGTTAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2743168 original size:52 final size:51
Alignment explanation
Indices: 2743090--2743264 Score: 190
Period size: 52 Copynumber: 3.4 Consensus size: 51
2743080 CCCGTTAATC
*
2743090 ATCGGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTTCCACA
1 ATCGGGGATACTCCAACCCCGGTTTTATC-CTAAAACACCAATTTTTCCACA
** ***
2743142 ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTTCTTTA
1 ATCGGGGATACTCCAACCCCGGTTTTATCCT-AAAACACCAA-TTTTTCCACA
** * * *
2743195 ATCGGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTT-CACA
1 ATCGGGGATACTCCAACCCCGGTTTTA--TCCTAAAACACCAATTTTTCCACA
*
2743247 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
2743265 TCGTTATCTC
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 1 0.01
52 53 0.53
53 36 0.36
54 9 0.09
55 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGGTTTTATCCTAAAACACCAATTTTTCCACA
Found at i:2743261 original size:184 final size:185
Alignment explanation
Indices: 2742952--2743295 Score: 523
Period size: 184 Copynumber: 1.9 Consensus size: 185
2742942 TTCTCAATTC
* * *
2742952 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
2743017 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
2743082 CGTTA-ATCATCGGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTT
131 CGTTATATCATCGGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTT
* * *
2743136 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTTCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAA--TTTTCTATAATCGGG
* *
2743201 GATACTCCAATTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
2743264 CTCGTTATCTCATCGGGGGTATTCCAACCCCG
129 CCCGTTATATCATCGGGGATACTCCAACCCCG
2743296 TTACTTCCGA
Statistics
Matches: 143, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
184 71 0.50
185 34 0.24
186 38 0.27
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (185 bp):
TCCACAATCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTATATCATCGGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTT
Found at i:2743342 original size:28 final size:28
Alignment explanation
Indices: 2743286--2743351 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
2743276 TCGGGGGTAT
*
2743286 TCCAACCCCGTTACTTCCGAGGGGATAC
1 TCCAACCCCGTTACTTCCGAAGGGATAC
* * *
2743314 TCCAACCCCGTTATTTTCGAAGGGTTAC
1 TCCAACCCCGTTACTTCCGAAGGGATAC
*
2743342 TCCAATCCCG
1 TCCAACCCCG
2743352 ATTTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (28 bp):
TCCAACCCCGTTACTTCCGAAGGGATAC
Found at i:2744690 original size:19 final size:19
Alignment explanation
Indices: 2744664--2744702 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2744654 ATTCAATGAG
*
2744664 ATGCTGG-ACATATTAAAA
1 ATGCTGGAACATAATAAAA
2744682 ATGCATGGAACATAATAAAA
1 ATGC-TGGAACATAATAAAA
2744702 A
1 A
2744703 AATGCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
ATGCTGGAACATAATAAAA
Found at i:2748183 original size:52 final size:52
Alignment explanation
Indices: 2748041--2748169 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
2748031 CAAAATATGA
2748041 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
2748093 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2748145 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2748170 AAGATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2754356 original size:17 final size:16
Alignment explanation
Indices: 2754325--2754374 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
2754315 ACCTTCTCTT
*
2754325 CAAAAAAGAAAAAAAA
1 CAAAAAACAAAAAAAA
2754341 CAAAAAACAAACAAAAA
1 CAAAAAACAAA-AAAAA
2754358 -AACAAAACAAAGAAAAA
1 CAA-AAAACAAA-AAAAA
2754375 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (16 bp):
CAAAAAACAAAAAAAA
Found at i:2755562 original size:59 final size:59
Alignment explanation
Indices: 2755380--2756281 Score: 1234
Period size: 59 Copynumber: 15.5 Consensus size: 59
2755370 AGCAGGACAC
* * * * * **
2755380 CTTTTAAAGCCCACACAAGATGGTGGCA-CTTCCCATTCTTCAAAGAGCAGGACACCTTCCC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCTCAAAGAGCGGGACGCCTT-TT
** * *
2755441 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCGGGACGTCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGACGCCTTTT
2755501 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
2755560 CTTTTAAAACCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
2755619 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2755678 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGATGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2755737 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACACCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
2755796 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
2755855 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2755914 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCGGGACGCCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* * ** * *
2755973 CTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCTCAAAGAGCATGATGCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
* *
2756032 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-CC----
1 CTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
** ** * * *
2756088 CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCCCAAAGAGCAGGAC-AC----
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
** * *
2756143 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACC---T
1 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCGGGACGCCTTTT
* *
2756200 C--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCC-TTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTT
*
2756257 C----AAAGCCCACACGAGTTGGTGGCAC
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC
2756282 TTTTTACTCC
Statistics
Matches: 781, Mismatches: 50, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
54 5 0.01
55 157 0.20
56 8 0.01
57 3 0.00
59 486 0.62
60 54 0.07
61 66 0.08
62 2 0.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (59 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCGGGACGCCTTTT
Found at i:2757053 original size:21 final size:21
Alignment explanation
Indices: 2757029--2757134 Score: 99
Period size: 21 Copynumber: 5.0 Consensus size: 21
2757019 AAAAAAAAAA
*
2757029 ATTTCCCAAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
**
2757050 ATTT-GAAGAATGTATCGATAC
1 ATTTCTCA-AATGTATCGATAC
* **
2757071 ATTTGTGGAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
* **
2757092 ATTTGTGGAATGTATCGATAC
1 ATTTCTCAAATGTATCGATAC
2757113 A-TTCTACAAATGTATCGATAC
1 ATTTCT-CAAATGTATCGATAC
2757134 A
1 A
2757135 GGGTCCCAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
20 4 0.05
21 70 0.95
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (21 bp):
ATTTCTCAAATGTATCGATAC
Found at i:2757125 original size:42 final size:42
Alignment explanation
Indices: 2757035--2757134 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
2757025 AAAAATTTCC
*
2757035 CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGA
** **
2757077 GGAATGTATCGATACATTTGTGGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATTTGAAGAATGTATCGATACATT-TGA
2757119 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2757135 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (42 bp):
CAAATGTATCGATACATTTGAAGAATGTATCGATACATTTGA
Found at i:2757194 original size:19 final size:19
Alignment explanation
Indices: 2757170--2757237 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
2757160 AATTCAACAA
2757170 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2757189 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2757204 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
* *
2757221 ATTGTTTCGATACATAA
1 TTTGTATCGATACATAA
2757238 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:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2757209 original size:13 final size:13
Alignment explanation
Indices: 2757191--2757215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2757181 ACATAAGTTT
2757191 TGTATCGATACAA
1 TGTATCGATACAA
2757204 TGTATCGATACA
1 TGTATCGATACA
2757216 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:2757213 original size:32 final size:32
Alignment explanation
Indices: 2757172--2757234 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
2757162 TTCAACAATT
*
2757172 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
2757204 TGTATCGATACATAAGTATTGTTTCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2757235 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2757295 original size:13 final size:13
Alignment explanation
Indices: 2757277--2757302 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2757267 CATTTTTCTG
2757277 TGTATCGATACAT
1 TGTATCGATACAT
2757290 TGTATCGATACAT
1 TGTATCGATACAT
2757303 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:2757298 original size:33 final size:33
Alignment explanation
Indices: 2757257--2757323 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2757247 GCCAAGGAAA
***
2757257 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2757290 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2757323 T
1 T
2757324 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:2759729 original size:51 final size:53
Alignment explanation
Indices: 2759660--2759790 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
2759650 AGTTTCTCAA
* * * * *
2759660 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
2759711 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
2759765 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2759791 CCCGTTAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2759862 original size:79 final size:80
Alignment explanation
Indices: 2759720--2759873 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
2759710 ATTTTCTATA
*
2759720 ATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATAC
1 ATCGGGGATACTCTAACCCCGATTTTA-TTCCAAAAAACACCAATTTCTTCACAATCGGGGATAC
2759785 TCCAACCCCGTTAATC
65 TCCAACCCCGTTAATC
* * * *
2759801 ATCGGGGATACTCTAACCCCGGTTTTA-TCGC-TAAAACACTAATTT-TTCCATAATCGGGGATA
1 ATCGGGGATACTCTAACCCCGATTTTATTC-CAAAAAACACCAATTTCTT-CACAATCGGGGATA
2759863 CTCCAACCCCG
64 CTCCAACCCCG
2759874 GTTTTATTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 1 0.02
81 25 0.38
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (80 bp):
ATCGGGGATACTCTAACCCCGATTTTATTCCAAAAAACACCAATTTCTTCACAATCGGGGATACT
CCAACCCCGTTAATC
Found at i:2759932 original size:53 final size:53
Alignment explanation
Indices: 2759801--2759975 Score: 203
Period size: 52 Copynumber: 3.3 Consensus size: 53
2759791 CCCGTTAATC
* * ** * *
2759801 ATCGGGGATACTCTAACCCCGGTTTTA-TCGCTAAAACACTAATTTTTCCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCCATA
* *
2759853 ATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCC-ATA
** * *
2759906 ATCGGGGATACTCCAATTCCGATTTTATTTTCAAAAATACCAATTTTT-CACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCCATA
*
2759958 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
2759976 TCGTTATCTC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
52 58 0.55
53 34 0.32
54 14 0.13
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (53 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAAACACCAATTTTTCCATA
Found at i:2760053 original size:28 final size:28
Alignment explanation
Indices: 2759997--2760062 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
2759987 TCGGGGGTAT
*
2759997 TCCAACCCCGTTACTTCCGAGGGGATAC
1 TCCAACCCCGTTACTTCCGAAGGGATAC
* * *
2760025 TCCAACCCCGTTATTTTCGAAGGGTTAC
1 TCCAACCCCGTTACTTCCGAAGGGATAC
*
2760053 TCCAATCCCG
1 TCCAACCCCG
2760063 ATTTTTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (28 bp):
TCCAACCCCGTTACTTCCGAAGGGATAC
Found at i:2761401 original size:19 final size:19
Alignment explanation
Indices: 2761375--2761413 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
2761365 ATTCAATGAG
*
2761375 ATGCTGG-ACATATTAAAA
1 ATGCTGGAACATAATAAAA
2761393 ATGCATGGAACATAATAAAA
1 ATGC-TGGAACATAATAAAA
2761413 A
1 A
2761414 AATGCATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (19 bp):
ATGCTGGAACATAATAAAA
Found at i:2764899 original size:52 final size:52
Alignment explanation
Indices: 2764750--2764878 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
2764740 CAAAATATGA
*
2764750 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
*
2764802 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATATGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
2764854 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2764879 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATATGGGC
Found at i:2764966 original size:19 final size:18
Alignment explanation
Indices: 2764942--2765039 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
2764932 TAGCTTACAT
2764942 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2764961 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2764974 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2764993 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2765006 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
2765026 TGTATCGATACAAA
1 TGTATCGATACAAA
2765040 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2764978 original size:32 final size:32
Alignment explanation
Indices: 2764937--2765037 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
2764927 GGCAGTAGCT
*
2764937 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2764969 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
2765001 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
2765034 TACA
1 TACA
2765038 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:2764979 original size:13 final size:13
Alignment explanation
Indices: 2764961--2765017 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2764951 ACAAAACTTA
2764961 TGTATCGATACAT
1 TGTATCGATACAT
2764974 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
2764992 ATGTATCGATACAT
1 -TGTATCGATACAT
2765006 TGTATCGATACA
1 TGTATCGATACA
2765018 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2765936 original size:20 final size:20
Alignment explanation
Indices: 2765911--2766015 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
2765901 TTTTAACTAG
2765911 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2765931 ATGTATCGATACATCTTGGTAAAAA
1 ATGTATCGATACA--TT-G--AAAA
* * *
2765956 GATAGAATGCATCGATACATTCATAC
1 -AT-G--T--ATCGATACATTGAAAA
2765982 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2766002 ATGTATCGATACAT
1 ATGTATCGATACAT
2766016 CTGGGTACTT
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
20 40 0.59
22 3 0.04
23 1 0.01
24 1 0.01
25 6 0.09
26 4 0.06
27 1 0.01
29 3 0.04
31 9 0.13
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2767113 original size:32 final size:32
Alignment explanation
Indices: 2767077--2767277 Score: 232
Period size: 32 Copynumber: 6.4 Consensus size: 32
2767067 CTGACTTGTA
* * * *
2767077 GGCTTTGAAATGTGTTGCCAGCAATTTGTGTG
1 GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
* *
2767109 GGCTTTCAAATGAGTTGCCATCGACTTGTGTG
1 GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
***
2767141 GGCTTTGAAATGA--TGCCATTAAC-T-TGTG
1 GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
*
2767169 GGCTTTGAAATGGGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
*
2767201 GGCTTTGAAA-CAGGTTGCCACCGACTTGTGTG
1 GGCTTTGAAATGA-GTTGCCACCGACTTGTGTG
* *
2767233 GGCTTTCAAATGAGTTGCCACCGACTTGCGTG
1 GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
*
2767265 GGCTTTAAAATGA
1 GGCTTTGAAATGA
2767278 TGCCACTAAC
Statistics
Matches: 145, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.11
29 1 0.01
30 15 0.10
31 1 0.01
32 111 0.77
33 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (32 bp):
GGCTTTGAAATGAGTTGCCACCGACTTGTGTG
Found at i:2767309 original size:28 final size:28
Alignment explanation
Indices: 2766568--2767729 Score: 625
Period size: 28 Copynumber: 40.9 Consensus size: 28
2766558 CACCGACTTG
2766568 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * ** * * *
2766596 TATAGATTTTGAGAA-GATGCCTCTGAAT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
2766624 TATGGGCTTT-GAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAG-GATGCCACTGACT
**
2766652 TGTGGGCTTTGGAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
2766680 TATGGGCTTT-GAAGAGATGCCACTGACT
1 TGTGGGCTTTAAAAG-GATGCCACTGACT
* * *
2766708 TGTGGGCTTTGAACGGATGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
*
2766736 CGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * * *
2766764 TGTGAGCTTGGAAAA-GATGTCATTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACT
* *
2766792 TGTGGGCTTTAAAAAGATGCCACCGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
*
2766820 TGTGGGCTTTAAAAAGGATGCCACTAACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* * *
2766849 TGTAGACTTTGAAAA-AATGCCACTGA-T
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
2766876 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
2766904 TGTTGGCTTTGAAAGGGTGCCACTAATT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
2766932 TGTGGGCTTTGAAAGGGATGCCATTGACT
1 TGTGGGCTTT-AAAAGGATGCCACTGACT
* *
2766961 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
2766989 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
2767017 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
2767045 TTTTGGCTTGGAAAA-GATGCCACTGACT
1 TGTGGGCTT-TAAAAGGATGCCACTGACT
* * * * *
2767073 TGTAGGCTTTGAAATGTGTTGCCAGC-AATTT
1 TGTGGGCTTT-AAAAG-GATGCCA-CTGA-CT
* *
2767104 GTGTGGGCTTTCAAATGAGTTGCCA-TCGACTT
1 -TGTGGGCTTT-AAAAG-GATGCCACT-GAC-T
* * * *
2767136 GTGTGGGCTTTGAAATGATGCCATTAACT
1 -TGTGGGCTTTAAAAGGATGCCACTGACT
* * *
2767165 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTT-AAA-AGGATGCCACTGAC-T
* *
2767196 GTGTGGGCTTTGAAACAGGTTGCCACCGACTT
1 -TGTGGGCTTT-AAA-AGGATGCCACTGAC-T
* * *
2767228 GTGTGGGCTTTCAAATGAGTTGCCACCGACT
1 -TGTGGGCTTT-AAAAG-GATGCCACTGACT
* *
2767259 TGCGTGGGCTTTAAAATGATGCCACTAACT
1 T--GTGGGCTTTAAAAGGATGCCACTGACT
* * *
2767289 TGTGGGCTTTAAAAGGGTGCCGCCACGGAGT
1 TGTGGGCTTTAAAAGGAT---GCCACTGACT
* * *
2767320 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
2767347 TATGGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
2767374 TGTGGAC-TTAAAATGG-TGCCA-TGGAGT
1 TGTGGGCTTTAAAA-GGATGCCACT-GACT
* ** * *
2767401 GGTGCACTTTAAAA-GAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGA-TGCCACTGACT
* * *
2767429 TGTGGAC-TTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * * * *
2767456 TATGGAC-TTAAAAGGGTACCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * * *
2767483 TGTGGACTTTAAAAGGGT-CCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
2767510 TGTGGACTTTAAAAGGATGGCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * * *
2767538 TATGGAC-TTAAAAGGATGCTACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
2767565 TGT-GGATTTAAAAAGATGCCACAGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* * * *
2767592 TGTAGACTTTAAAAAGATGCCAC-GAAGT
1 TGTGGGCTTTAAAAGGATGCCACTG-ACT
* *
2767620 TGTGGAC-TTAAAAGGATGCCA-TAGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* *
2767647 TGTGGACTTTAAAAGGATGCCA-TGGAGT
1 TGTGGGCTTTAAAAGGATGCCACT-GACT
* * *
2767675 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTAAAAGGATGCCACTGACT
* *
2767702 TGTGGACTTTGAAAAGAAATGCCACTGA
1 TGTGGGCTTT-AAAAG-GATGCCACTGA
2767730 ATCGTGGACT
Statistics
Matches: 934, Mismatches: 144, Indels: 110
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.01
27 246 0.26
28 432 0.46
29 72 0.08
30 53 0.06
31 24 0.03
32 98 0.10
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTAAAAGGATGCCACTGACT
Found at i:2767344 original size:27 final size:27
Alignment explanation
Indices: 2767310--2767710 Score: 502
Period size: 27 Copynumber: 14.7 Consensus size: 27
2767300 AAAGGGTGCC
2767310 GCCACGGAGTTGTGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
*
2767337 GCCACGGAGTTATGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
*
2767364 GCCACAGAGTTGTGGACTTAAAATGG-T
1 GCCACGGAGTTGTGGACTTAAAA-GGAT
* * *
2767391 GCCATGGAGTGGTGCACTTTAAAA-GAGT
1 GCCACGGAGTTGTGGAC-TTAAAAGGA-T
*
2767419 GCCACGGAGTTGTGGACTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
* * *
2767446 GCCATGGAGTTATGGACTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
* * *
2767473 ACCATGGAGTTGTGGACTTTAAAAGGGT
1 GCCACGGAGTTGTGGAC-TTAAAAGGAT
2767501 -CCACGGAGTTGTGGACTTTAAAAGGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGAT
* *
2767528 GGCACGGAGTTATGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
* * *
2767555 GCTACGGAGTTGTGGATTTAAAAAGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
* * *
2767582 GCCACAGAGTTGTAGACTTTAAAAAGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGAT
*
2767610 GCCACGAAGTTGTGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
**
2767637 GCCATAGAGTTGTGGACTTTAAAAGGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGAT
*
2767665 GCCATGGAGTTGTGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGAT
2767692 GCCACGGAGTTGTGGACTT
1 GCCACGGAGTTGTGGACTT
2767711 TGAAAAGAAA
Statistics
Matches: 328, Mismatches: 37, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
26 1 0.00
27 229 0.70
28 98 0.30
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (27 bp):
GCCACGGAGTTGTGGACTTAAAAGGAT
Found at i:2767435 original size:82 final size:82
Alignment explanation
Indices: 2767310--2767710 Score: 533
Period size: 82 Copynumber: 4.9 Consensus size: 82
2767300 AAAGGGTGCC
* * *
2767310 GCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTATGGACTTAAAAGGATGCCACAGAGT
1 GCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
2767374 TGTGGACTTAAAATGG-T
66 TGTGGACTTAAAA-GGAT
* * * *
2767391 GCCATGGAGTGGTGCACTTTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAG
1 GCCATGGAGTTGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAG
* *
2767455 TTATGGACTTAAAAGGGT
65 TTGTGGACTTAAAAGGAT
* * *
2767473 ACCATGGAGTTGTGGACTTTAAAAGGGT-CCACGGAGTTGTGGACTTTAAAAGGATGGCACGGAG
1 GCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAG
*
2767537 TTATGGACTTAAAAGGAT
65 TTGTGGACTTAAAAGGAT
* * * * * * *
2767555 GCTACGGAGTTGTGGA-TTTAAAAAGATGCCACAGAGTTGTAGACTTTAAAAAGATGCCACGAAG
1 GCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAG
2767619 TTGTGGACTTAAAAGGAT
65 TTGTGGACTTAAAAGGAT
* *
2767637 GCCATAGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
1 GCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
2767702 TGTGGACTT
66 TGTGGACTT
2767711 TGAAAAGAAA
Statistics
Matches: 277, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
81 43 0.16
82 209 0.75
83 25 0.09
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (82 bp):
GCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGT
TGTGGACTTAAAAGGAT
Found at i:2767711 original size:55 final size:54
Alignment explanation
Indices: 2767310--2767710 Score: 502
Period size: 55 Copynumber: 7.4 Consensus size: 54
2767300 AAAGGGTGCC
*
2767310 GCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTATGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
* * * *
2767364 GCCACAGAGTTGTGGACTTAAAATGG-TGCCATGGAGTGGTGCACTTTAAAA-GAGT
1 GCCACGGAGTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGAC-TTAAAAGGA-T
* * * *
2767419 GCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTATGGACTTAAAAGGGT
1 GCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
* * *
2767473 ACCATGGAGTTGTGGACTTTAAAAGGGT-CCACGGAGTTGTGGACTTTAAAAGGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGAT
* * * * *
2767528 GGCACGGAGTTATGGACTTAAAAGGATGCTACGGAGTTGTGGATTTAAAAAGAT
1 GCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
* * * *
2767582 GCCACAGAGTTGTAGACTTTAAAAAGATGCCACGAAGTTGTGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
** *
2767637 GCCATAGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGGAT
1 GCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
2767692 GCCACGGAGTTGTGGACTT
1 GCCACGGAGTTGTGGACTT
2767711 TGAAAAGAAA
Statistics
Matches: 299, Mismatches: 39, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
54 109 0.36
55 190 0.64
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.25
Consensus pattern (54 bp):
GCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGAT
Found at i:2772917 original size:15 final size:16
Alignment explanation
Indices: 2772897--2772930 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2772887 AATATTAGCT
2772897 AAAAATT-TAAAAAAA
1 AAAAATTATAAAAAAA
2772912 AAAAATTATAAAAAAA
1 AAAAATTATAAAAAAA
2772928 AAA
1 AAA
2772931 CATAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAATTATAAAAAAA
Found at i:2772924 original size:14 final size:14
Alignment explanation
Indices: 2772897--2772930 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2772887 AATATTAGCT
*
2772897 AAAAATTTAAAAAA
1 AAAAAATTAAAAAA
2772911 AAAAAATTATAAAAA
1 AAAAAATTA-AAAAA
2772926 AAAAA
1 AAAAA
2772931 CATAAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (14 bp):
AAAAAATTAAAAAA
Found at i:2778867 original size:13 final size:13
Alignment explanation
Indices: 2778849--2778875 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2778839 ACATTATGCT
2778849 TTGTATCGATACA
1 TTGTATCGATACA
2778862 TTGTATCGATACA
1 TTGTATCGATACA
2778875 T
1 T
2778876 GCACAATTGT
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:2785117 original size:13 final size:13
Alignment explanation
Indices: 2785099--2785135 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2785089 ATGTTCTTTG
*
2785099 TATCGATACATTT
1 TATCGATACATTA
*
2785112 TATCGATACAATA
1 TATCGATACATTA
2785125 TATCGATACAT
1 TATCGATACAT
2785136 GGGTTACTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:2785258 original size:21 final size:21
Alignment explanation
Indices: 2785229--2785268 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2785219 CATAACATTA
2785229 CTTTATCAAACTTTC-TCAAAT
1 CTTTATCAAA-TTTCATCAAAT
*
2785250 CTTTTTCAAATTTCATCAA
1 CTTTATCAAATTTCATCAA
2785269 TTTTATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (21 bp):
CTTTATCAAATTTCATCAAAT
Found at i:2787421 original size:21 final size:22
Alignment explanation
Indices: 2787384--2787431 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
2787374 TTTCAATAAG
*
2787384 TGTTTTTGAGTTATAAA-CAAA
1 TGTTTTCGAGTTATAAATCAAA
*
2787405 TGTTTTCGAGCTT-TAAATCGAA
1 TGTTTTCGAG-TTATAAATCAAA
2787427 TGTTT
1 TGTTT
2787432 ATAAGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (22 bp):
TGTTTTCGAGTTATAAATCAAA
Found at i:2790563 original size:18 final size:16
Alignment explanation
Indices: 2790540--2790580 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
2790530 AAATTATTAA
2790540 AAAAAATCAAAAAGAATT
1 AAAAAATC--AAAGAATT
*
2790558 AAAAAATCTAAGAATT
1 AAAAAATCAAAGAATT
2790574 AAAAAAT
1 AAAAAAT
2790581 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
18 8 0.36
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.20
Consensus pattern (16 bp):
AAAAAATCAAAGAATT
Found at i:2791776 original size:48 final size:49
Alignment explanation
Indices: 2791673--2791776 Score: 165
Period size: 50 Copynumber: 2.1 Consensus size: 49
2791663 CATGAGGTTA
*
2791673 ACCATACGTTGCAAGAACTAATATGGATTGTTAGCATGAGTAGACACTAT
1 ACCATAAGTTGCAAGAACTAATATGGATTG-TAGCATGAGTAGACACTAT
* *
2791723 ACCATAAGTTGTAAGAACTAATATGGATTG-AGCATGAGTAGTCACTAT
1 ACCATAAGTTGCAAGAACTAATATGGATTGTAGCATGAGTAGACACTAT
2791771 ACCATA
1 ACCATA
2791777 CTCATGGCTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
48 23 0.45
50 28 0.55
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (49 bp):
ACCATAAGTTGCAAGAACTAATATGGATTGTAGCATGAGTAGACACTAT
Found at i:2797926 original size:16 final size:16
Alignment explanation
Indices: 2797904--2797945 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2797894 ATTTCTATTT
2797904 TTTTTGAAATTTTGA-
1 TTTTTGAAATTTTGAC
*
2797919 TCTTTTGAAAATTTGAC
1 T-TTTTGAAATTTTGAC
2797936 TTTTTGAAAT
1 TTTTTGAAAT
2797946 AGTTAGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.04
16 21 0.91
17 1 0.04
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.55
Consensus pattern (16 bp):
TTTTTGAAATTTTGAC
Found at i:2801040 original size:79 final size:77
Alignment explanation
Indices: 2800908--2801062 Score: 190
Period size: 78 Copynumber: 2.0 Consensus size: 77
2800898 TTTGTCAAAA
*
2800908 CCAAGTCTTTTAGGTTGATTTCATACCTTCTATCGAGACCAAGCCATTTTAAGTTTACTTTTGTA
1 CCAAGTCTTTTAGGTTGATTTCAAACCTTCTATCGAGACCAAGCCATTTTAAG-TTACTTTTGTA
2800973 CCTTCCATTGAAG
65 CCTTCCATTGAAG
* * *
2800986 CCAAGT-TTATTAGGTTTAGTTTCAAACCTTCTATCGA-ACTTAAGCC-TTTCTAAGTTAGTTTT
1 CCAAGTCTT-TTAGGTTGA-TTTCAAACCTTCTATCGAGAC-CAAGCCATTT-TAAGTTACTTTT
* *
2801048 TTACCTTCCTTTGAA
62 GTACCTTCCATTGAA
2801063 TTTGAATCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
77 2 0.03
78 39 0.58
79 26 0.39
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.42
Consensus pattern (77 bp):
CCAAGTCTTTTAGGTTGATTTCAAACCTTCTATCGAGACCAAGCCATTTTAAGTTACTTTTGTAC
CTTCCATTGAAG
Found at i:2802423 original size:137 final size:137
Alignment explanation
Indices: 2802177--2802448 Score: 415
Period size: 137 Copynumber: 2.0 Consensus size: 137
2802167 TTAATTTGTG
* * ** * *
2802177 GCATTTTGCTCCTAAATCGCTAATAATCTTTTTCATGATTTTTTTCATATTTTTTGCTTTAAAAT
1 GCATTTTACTCCTAAATCACTAATAATCTTTTTCAAAATTTTTTTCATATTTTTTGCTCTAAAAA
*
2802242 TCATTTAATTTAAGGGTAGGCAATATGTGATCAATTTTAAAAGATTTTCCTTGATGTTTTGCTTC
66 TCATTTAATTTAAAGGTAGGCAATATGTGATCAATTTTAAAAGATTTTCCTTGATGTTTTGCTTC
2802307 ATTTCTA
131 ATTTCTA
2802314 GCATTTTACT-CTCAAATCACTAATAATCTTTTTCACAAATTTTTTT-ATATTTTTTGCTCTAAA
1 GCATTTTACTCCT-AAATCACTAATAATCTTTTTCA-AAATTTTTTTCATATTTTTTGCTCTAAA
* *
2802377 AATCATTTAATTTAAAGGTCA-GCACTATGTGATCAATTTTTAAAGATTTTCCTTGATGTTTTGC
64 AATCATTTAATTTAAAGGT-AGGCAATATGTGATCAATTTTAAAAGATTTTCCTTGATGTTTTGC
2802441 TTCATTTC
128 TTCATTTC
2802449 CACGATTTAT
Statistics
Matches: 123, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
136 2 0.02
137 112 0.91
138 9 0.07
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (137 bp):
GCATTTTACTCCTAAATCACTAATAATCTTTTTCAAAATTTTTTTCATATTTTTTGCTCTAAAAA
TCATTTAATTTAAAGGTAGGCAATATGTGATCAATTTTAAAAGATTTTCCTTGATGTTTTGCTTC
ATTTCTA
Found at i:2805183 original size:2 final size:2
Alignment explanation
Indices: 2805176--2805205 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2805166 AAATATTTTC
2805176 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2805206 TAAAAAGCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2808007 original size:108 final size:107
Alignment explanation
Indices: 2807767--2808191 Score: 646
Period size: 106 Copynumber: 4.0 Consensus size: 107
2807757 CAGGGAGTCC
* * *
2807767 TTGCATGAGATTTTGCCATTCCTTAGACTAGCGGTTCCCTCCGCTGTAATGGTCTGGTAAG-TCA
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTAA
*
2807831 CCACATCTCAGTGCTTTAAACCATCAA-ATAAAGTTTAAAGGA
66 CCACATCTCAGTGCTTTAAACCATCAACAT-AAGGTTAAAGGA
* *
2807873 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTATTCCTTCCGCTGTAATGGGCTGGTAAGTTAA
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTAA
2807938 CACACATCTCAGTGCTTTAAACCATCAACATAAGGTT-AAGGTA
66 C-CACATCTCAGTGCTTTAAACCATCAACATAAGGTTAAAGG-A
*
2807981 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCTTTCCGCTGTAATGGTCTGGTAAGTT-A
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTAA
* *
2808045 CCACATCTCAGTGCTTTAAACCATCAACAAAAGGTTGAAA-AA
66 CCACATCTCAGTGCTTTAAACCATCAACATAAGGTT-AAAGGA
* *
2808087 TTGCGTGAGATTTTGCCATTTCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTT-A
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTAA
*
2808151 CCACATCTCTCAGTGCTTTAAACCATCAACAGAAGGTTAAA
66 CCACA--TCTCAGTGCTTTAAACCATCAACATAAGGTTAAA
2808192 CTAACAATAG
Statistics
Matches: 296, Mismatches: 15, Indels: 15
0.91 0.05 0.05
Matches are distributed among these distances:
106 158 0.53
107 12 0.04
108 124 0.42
109 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (107 bp):
TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTAA
CCACATCTCAGTGCTTTAAACCATCAACATAAGGTTAAAGGA
Found at i:2808136 original size:214 final size:214
Alignment explanation
Indices: 2807767--2808190 Score: 692
Period size: 214 Copynumber: 2.0 Consensus size: 214
2807757 CAGGGAGTCC
2807767 TTGCATGAGATTTTGCCATTCCTTAGACTAGCGGTTCCCTCCGCTGTAATGGTCTGGTAAGTCAC
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCGGTTCCCTCCGCTGTAATGGTCTGGTAAGTCAC
* *
2807832 CACATCTCAGTGCTTTAAACCATCAAATAAAGTTTAAAGGATTGCATGAGATTTTGCCATTCCTT
66 CACATCTCAGTGCTTTAAACCATCAAATAAAGTTGAAAGAATTGCATGAGATTTTGCCATTCCTT
2807897 AGACTAGCTATTCCTTCCGCTGTAATGGGCTGGTAAGTTAACACA-CATCTCAGTGCTTTAAACC
131 AGACTAGCTATTCCTTCCGCTGTAATGGGCTGGTAAGTTAACACATC-TCTCAGTGCTTTAAACC
*
2807961 ATCAACATAAGGTTAAGGTA
195 ATCAACAGAAGGTTAAGGTA
* ** *
2807981 TTGCATGAGATTTTGCCATTCCTTAGACTAGCTGTTCTTTCCGCTGTAATGGTCTGGTAAGTTAC
1 TTGCATGAGATTTTGCCATTCCTTAGACTAGCGGTTCCCTCCGCTGTAATGGTCTGGTAAGTCAC
* *
2808046 CACATCTCAGTGCTTTAAACCATCAACA-AAAGGTTGAAA-AATTGCGTGAGATTTTGCCATTTC
66 CACATCTCAGTGCTTTAAACCATCAA-ATAAA-GTTGAAAGAATTGCATGAGATTTTGCCATTCC
* * *
2808109 TTAGACTAGCTGTTCCTTCCGCTGTAATGGTCTGGTAAGTTACCACATCTCTCAGTGCTTTAAAC
129 TTAGACTAGCTATTCCTTCCGCTGTAATGGGCTGGTAAGTTAACACATCTCTCAGTGCTTTAAAC
2808174 CATCAACAGAAGGTTAA
194 CATCAACAGAAGGTTAA
2808191 ACTAACAATA
Statistics
Matches: 195, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
214 187 0.96
215 8 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (214 bp):
TTGCATGAGATTTTGCCATTCCTTAGACTAGCGGTTCCCTCCGCTGTAATGGTCTGGTAAGTCAC
CACATCTCAGTGCTTTAAACCATCAAATAAAGTTGAAAGAATTGCATGAGATTTTGCCATTCCTT
AGACTAGCTATTCCTTCCGCTGTAATGGGCTGGTAAGTTAACACATCTCTCAGTGCTTTAAACCA
TCAACAGAAGGTTAAGGTA
Found at i:2810166 original size:196 final size:196
Alignment explanation
Indices: 2809832--2810225 Score: 734
Period size: 196 Copynumber: 2.0 Consensus size: 196
2809822 TACATTTGAC
2809832 TTGCTGGGCTTAAGCCCCACTTTGTTCTTAATGTATTATTTAGAGCTGTACTTGAAATATTAGGA
1 TTGCTGGGCTTAAGCCCCACTTTGTTCTTAATGTATTATTTAGAGCTGTACTTGAAATATTAGGA
*
2809897 AACAAAGAAAATCGAACCTTAAATATATCAACTATTCTCAGGAACAGTTCTTAAGGGGTGGTGCT
66 AACAAAGAAAATCGAACCTTAAATATAGCAACTATTCTCAGGAACAGTTCTTAAGGGGTGGTGCT
*
2809962 CTTTGCCTTGTGTTTTCTAGTGTTCCTTTCCCATTATATGTGATAAATTGTAACAGTCCAGGCTA
131 CTTTGCCTTGTGTTTTCTAGTGTTCCTTTCCCATTATATGTGATAAATTGTAACACTCCAGGCTA
2810027 G
196 G
2810028 TTGCTGGGCTTAAGCCCCACTTTGTTCTTAATGTATTATTTAGAGCTGTACTTGAAATATTAGGA
1 TTGCTGGGCTTAAGCCCCACTTTGTTCTTAATGTATTATTTAGAGCTGTACTTGAAATATTAGGA
* * *
2810093 AACGAGGAAAATCGAACCTTAAATATGGCAACTATTCTCAGGAACAGTTCTTAAGGGGTGGTGCT
66 AACAAAGAAAATCGAACCTTAAATATAGCAACTATTCTCAGGAACAGTTCTTAAGGGGTGGTGCT
*
2810158 CTTTGCCTTGTGTTTTCTAGTGTTCCTTTCCCATTATATGTGATAAATTGTAACACTCCATGCTA
131 CTTTGCCTTGTGTTTTCTAGTGTTCCTTTCCCATTATATGTGATAAATTGTAACACTCCAGGCTA
2810223 G
196 G
2810224 TT
1 TT
2810226 TCTACCTTAT
Statistics
Matches: 192, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
196 192 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (196 bp):
TTGCTGGGCTTAAGCCCCACTTTGTTCTTAATGTATTATTTAGAGCTGTACTTGAAATATTAGGA
AACAAAGAAAATCGAACCTTAAATATAGCAACTATTCTCAGGAACAGTTCTTAAGGGGTGGTGCT
CTTTGCCTTGTGTTTTCTAGTGTTCCTTTCCCATTATATGTGATAAATTGTAACACTCCAGGCTA
G
Found at i:2813215 original size:36 final size:36
Alignment explanation
Indices: 2813167--2813236 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
2813157 AAAGATTTTT
*
2813167 TAATATTCTGATTACGATTATAAGAT-AGTAATCTCC
1 TAATATTCTGATTACGATTACAAGATCA-TAATCTCC
* *
2813203 TAATATTTTGATTATGATTACAAGATCATAATCT
1 TAATATTCTGATTACGATTACAAGATCATAATCT
2813237 TCATAATTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 29 0.97
37 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (36 bp):
TAATATTCTGATTACGATTACAAGATCATAATCTCC
Found at i:2813369 original size:2 final size:2
Alignment explanation
Indices: 2813362--2813412 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2813352 TCTATGCCAT
2813362 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2813404 TC TC TC TC T
1 TC TC TC TC T
2813413 TATAACTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2815045 original size:19 final size:19
Alignment explanation
Indices: 2815021--2815083 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
2815011 TACAAGCCAA
2815021 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2815040 TGTATCGATACA-----T-
1 TGTATCGATACATCTTGTG
2815053 TGTATCGATACATCTTGTG
1 TGTATCGATACATCTTGTG
2815072 TGTATCGATACA
1 TGTATCGATACA
2815084 AACAGTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
18 1 0.03
19 24 0.63
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATCTTGTG
Found at i:2815058 original size:13 final size:13
Alignment explanation
Indices: 2815040--2815065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2815030 ACATCTTGTG
2815040 TGTATCGATACAT
1 TGTATCGATACAT
2815053 TGTATCGATACAT
1 TGTATCGATACAT
2815066 CTTGTGTGTA
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:2815062 original size:32 final size:32
Alignment explanation
Indices: 2815021--2815083 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2815011 TACAAGCCAA
2815021 TGTATCGATACATCTTGTGTGTATCGATACAT
1 TGTATCGATACATCTTGTGTGTATCGATACAT
2815053 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGTGTGTATCGATACA
2815084 AACAGTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATCTTGTGTGTATCGATACAT
Found at i:2815172 original size:20 final size:21
Alignment explanation
Indices: 2815125--2815177 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2815115 GCCAATGACC
**
2815125 TGTATCGATACATTTTTTACA
1 TGTATCGATACATTTGGTACA
*
2815146 AGTATCGATACATTTGGT-CA
1 TGTATCGATACATTTGGTACA
2815166 TGTATCGATACA
1 TGTATCGATACA
2815178 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTTGGTACA
Found at i:2815183 original size:13 final size:13
Alignment explanation
Indices: 2815165--2815189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2815155 ACATTTGGTC
2815165 ATGTATCGATACA
1 ATGTATCGATACA
2815178 ATGTATCGATAC
1 ATGTATCGATAC
2815190 TGTACAATCT
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):
ATGTATCGATACA
Found at i:2815773 original size:22 final size:22
Alignment explanation
Indices: 2815746--2815790 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
2815736 TTTTCTTTTC
2815746 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
2815768 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
2815790 T
1 T
2815791 AACAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:2817177 original size:21 final size:21
Alignment explanation
Indices: 2817148--2817197 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2817138 TGCTAGTGTA
* *
2817148 GGGGCTGCCCGGTTGCGACCT
1 GGGGGTGCCCGGTCGCGACCT
2817169 GGGGGTG-CCGGTCGCGACCT
1 GGGGGTGCCCGGTCGCGACCT
2817189 GGTGGGTGC
1 GG-GGGTGC
2817198 TGCTTAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.04, C:0.28, G:0.50, T:0.18
Consensus pattern (21 bp):
GGGGGTGCCCGGTCGCGACCT
Found at i:2817185 original size:20 final size:21
Alignment explanation
Indices: 2817156--2817197 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
2817146 TAGGGGCTGC
*
2817156 CCGGTTGCGACCTGG-GGGTG
1 CCGGTCGCGACCTGGTGGGTG
2817176 CCGGTCGCGACCTGGTGGGTG
1 CCGGTCGCGACCTGGTGGGTG
2817197 C
1 C
2817198 TGCTTAGAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.05, C:0.29, G:0.48, T:0.19
Consensus pattern (21 bp):
CCGGTCGCGACCTGGTGGGTG
Found at i:2817717 original size:20 final size:21
Alignment explanation
Indices: 2817692--2817730 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2817682 GTTTTCCAGA
2817692 TGTATCGATACATT-TAAACC
1 TGTATCGATACATTCTAAACC
2817712 TGTATCGATACATTCTAAA
1 TGTATCGATACATTCTAAA
2817731 ATTTTTCCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTAAACC
Found at i:2823214 original size:13 final size:13
Alignment explanation
Indices: 2823196--2823221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2823186 CATTTTGGGA
2823196 TGTATCGATACAT
1 TGTATCGATACAT
2823209 TGTATCGATACAT
1 TGTATCGATACAT
2823222 CTTGTGTGTA
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:2823219 original size:33 final size:32
Alignment explanation
Indices: 2823176--2823239 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
2823166 TACAAGCCAA
* *
2823176 TGTATTGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
2823209 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
2823240 AATAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:2823328 original size:20 final size:21
Alignment explanation
Indices: 2823281--2823333 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2823271 GCCAATGACT
*
2823281 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
2823302 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
2823322 TGTATCGATACA
1 TGTATCGATACA
2823334 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:2823339 original size:13 final size:13
Alignment explanation
Indices: 2823321--2823345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2823311 ACATTTGGTC
2823321 ATGTATCGATACA
1 ATGTATCGATACA
2823334 ATGTATCGATAC
1 ATGTATCGATAC
2823346 TGTACAATCT
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):
ATGTATCGATACA
Found at i:2824351 original size:27 final size:27
Alignment explanation
Indices: 2824319--2824378 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
2824309 ATCATATAAA
*
2824319 AATTTTTAACTAGA-TTTTTATAAATAG
1 AATTTTT-ACTAAACTTTTTATAAATAG
* *
2824346 AATTTTTATTAAACTTTTTATATATAG
1 AATTTTTACTAAACTTTTTATAAATAG
2824373 AATTTT
1 AATTTT
2824379 CATTTAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (27 bp):
AATTTTTACTAAACTTTTTATAAATAG
Found at i:2824386 original size:28 final size:27
Alignment explanation
Indices: 2824333--2824388 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
2824323 TTTAACTAGA
*
2824333 TTTTTATAAATAGAATTTTTATTAAAC
1 TTTTTATAAATAGAATTTTCATTAAAC
*
2824360 TTTTTATATATAGAATTTTCATTTAAAC
1 TTTTTATAAATAGAATTTTCA-TTAAAC
2824388 T
1 T
2824389 CTTACAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTTTATAAATAGAATTTTCATTAAAC
Found at i:2824536 original size:27 final size:28
Alignment explanation
Indices: 2824502--2824660 Score: 118
Period size: 27 Copynumber: 5.8 Consensus size: 28
2824492 ACCTTTTTAC
* *
2824502 TAAACTTTCT-CATATGGAATTTTTAAT
1 TAAACTTTCTACATATAGAATTTTCAAT
* * *
2824529 TGATCTTTTTACATATAG-ATTTTCAAT
1 TAAACTTTCTACATATAGAATTTTCAAT
2824556 TAAACTTT-TCACATATAGAATTTT-AAT
1 TAAACTTTCT-ACATATAGAATTTTCAAT
* *
2824583 TAAACTTTTTGCATAT-GAAATTTTCAATT
1 TAAACTTTCTACATATAG-AATTTTCAA-T
* * **
2824612 TAACCTTT-TACATGT-CCATTATT-AAT
1 TAAACTTTCTACATATAGAATT-TTCAAT
*
2824638 TAAACTTTCTACATATAAAATTT
1 TAAACTTTCTACATATAGAATTT
2824661 AGCTAAACTT
Statistics
Matches: 105, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
26 10 0.10
27 63 0.60
28 24 0.23
29 8 0.08
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (28 bp):
TAAACTTTCTACATATAGAATTTTCAAT
Found at i:2824606 original size:55 final size:54
Alignment explanation
Indices: 2824502--2824656 Score: 154
Period size: 55 Copynumber: 2.8 Consensus size: 54
2824492 ACCTTTTTAC
* * * *
2824502 TAAAC-TTTCTCATATGGAATTTTTAATTGATCTTTTTACATATAGATTTTCAA-T
1 TAAACTTTTCACATAT-GAA-TTTTAATTAAACTTTTTACATATAAATTTTCAATT
*
2824556 TAAACTTTTCACATATAGAATTTTAATTAAACTTTTTGCATATGAAATTTTCAATT
1 TAAACTTTTCACATAT-GAATTTTAATTAAACTTTTTACATAT-AAATTTTCAATT
* * ** *
2824612 TAACCTTTT-ACATGTCCATTATTAATTAAACTTTCTACATATAAA
1 TAAACTTTTCACATATGAATT-TTAATTAAACTTTTTACATATAAA
2824657 ATTTAGCTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
54 31 0.36
55 45 0.53
56 9 0.11
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.46
Consensus pattern (54 bp):
TAAACTTTTCACATATGAATTTTAATTAAACTTTTTACATATAAATTTTCAATT
Found at i:2824621 original size:82 final size:80
Alignment explanation
Indices: 2824500--2824673 Score: 190
Period size: 82 Copynumber: 2.1 Consensus size: 80
2824490 AAACCTTTTT
* * * * * *
2824500 ACTAAACTTTCTCATATGGAATTTTTAATTGATCTTTTTACATATAGATT-TTCAATTAAACTTT
1 ACTAAACTTTTTCATATGAAATTTTCAATTGAACCTTTTACATATACATTATT-AATTAAACTTT
*
2824564 -TCACATATAGAATTTTA
65 CT-ACATATA-AAATTTA
* * * *
2824581 ATTAAACTTTTTGCATATGAAATTTTCAATTTAACCTTTTACATGTCCATTATTAATTAAACTTT
1 ACTAAACTTTTT-CATATGAAATTTTCAATTGAACCTTTTACATATACATTATTAATTAAACTTT
2824646 CTACATATAAAATTTA
65 CTACATATAAAATTTA
*
2824662 GCTAAACTTTTT
1 ACTAAACTTTTT
2824674 ATAATTAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
81 26 0.34
82 48 0.62
83 3 0.04
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (80 bp):
ACTAAACTTTTTCATATGAAATTTTCAATTGAACCTTTTACATATACATTATTAATTAAACTTTC
TACATATAAAATTTA
Found at i:2833739 original size:72 final size:76
Alignment explanation
Indices: 2833570--2833740 Score: 208
Period size: 77 Copynumber: 2.3 Consensus size: 76
2833560 GTCAAATCTC
* *
2833570 AAGGTTAGTTTTGCACTTTCATATTAAAACCAAACCTTTAAAGTCATTTAGTATTTTTTTATTAA
1 AAGGTTAGTTTTGCACTTTCATATTAAAACCAAAACTTTAAAGTCATTTACTATTTTTTTATT-A
2833635 AATTAAGCCTTT
65 AATTAAGCCTTT
* * * * *
2833647 AAGATTAGTTTTGCATTTTCATATTAGAATCAAAAC-TTAAGGCTCA-TT-CTATTTTTTT-TT-
1 AAGGTTAGTTTTGCACTTTCATATTAAAACCAAAACTTTAAAG-TCATTTACTATTTTTTTATTA
2833707 AATTAAGCCTTT
65 AATTAAGCCTTT
**
2833719 GGGGTTAGTTTTGCACTTTCAT
1 AAGGTTAGTTTTGCACTTTCAT
2833741 GTCGAAACCA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
72 30 0.37
74 2 0.02
75 9 0.11
76 7 0.09
77 34 0.41
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (76 bp):
AAGGTTAGTTTTGCACTTTCATATTAAAACCAAAACTTTAAAGTCATTTACTATTTTTTTATTAA
ATTAAGCCTTT
Found at i:2833766 original size:72 final size:74
Alignment explanation
Indices: 2833570--2833766 Score: 195
Period size: 72 Copynumber: 2.6 Consensus size: 74
2833560 GTCAAATCTC
** *
2833570 AAGGTTAGTTTTGCACTTTCATATTA-AAACCAAACCTTTAAAGTCATTTAGTATTTTTTTATTA
1 AAGGTTAGTTTTGCACTTTCATA-TAGAAACCAAA-CTTTAGGGTCA-TTACTATTTTTTTATT-
2833634 AAATTAAGCCTTT
62 AAATTAAGCCTTT
* * * * * *
2833647 AAGATTAGTTTTGCATTTTCATATTAGAATCAAAACTTAAGGCTCATT-CTATTTTTTT-TT-AA
1 AAGGTTAGTTTTGCACTTTCATA-TAGAAACCAAACTTTAGGGTCATTACTATTTTTTTATTAAA
2833709 TTAAGCCTTT
65 TTAAGCCTTT
** * *
2833719 GGGGTTAGTTTTGCACTTTCATGTCGAAACCAAACTTTCAGGGTCATT
1 AAGGTTAGTTTTGCACTTTCATATAGAAACCAAACTTT-AGGGTCATT
2833767 TTAGCATTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
71 11 0.11
72 38 0.38
74 2 0.02
75 9 0.09
76 2 0.02
77 31 0.31
78 6 0.06
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (74 bp):
AAGGTTAGTTTTGCACTTTCATATAGAAACCAAACTTTAGGGTCATTACTATTTTTTTATTAAAT
TAAGCCTTT
Found at i:2838489 original size:21 final size:21
Alignment explanation
Indices: 2838465--2838520 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
2838455 TAGTGCCAAA
*
2838465 GTATTAATACATTAACACAAT
1 GTATCAATACATTAACACAAT
* *
2838486 GTATCGATACATTAACATAAT
1 GTATCAATACATTAACACAAT
* *
2838507 GTATCGATATATTA
1 GTATCAATACATTA
2838521 GCCTAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (21 bp):
GTATCAATACATTAACACAAT
Found at i:2838527 original size:21 final size:21
Alignment explanation
Indices: 2838475--2838538 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
2838465 GTATTAATAC
* *
2838475 ATTAACACAATGTATCGATAC
1 ATTAACATAATGTATCGATAT
2838496 ATTAACATAATGTATCGATAT
1 ATTAACATAATGTATCGATAT
* * *
2838517 ATTAGCCTAATATATCGATAT
1 ATTAACATAATGTATCGATAT
2838538 A
1 A
2838539 CTAAGCAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (21 bp):
ATTAACATAATGTATCGATAT
Found at i:2839751 original size:2 final size:2
Alignment explanation
Indices: 2839744--2839785 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
2839734 ATTAAATAAA
2839744 AT AT AT AT AT A- AT AT AT AT AT AT AT A- AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2839783 AT A
1 AT A
2839786 ATAAAAAATC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:2839759 original size:11 final size:10
Alignment explanation
Indices: 2839744--2839785 Score: 63
Period size: 9 Copynumber: 4.5 Consensus size: 10
2839734 ATTAAATAAA
2839744 ATATATATAT
1 ATATATATAT
2839754 A-ATATATAT
1 ATATATATAT
2839763 ATATATA-AT
1 ATATATATAT
2839772 ATATATATA-
1 ATATATATAT
2839781 ATATA
1 ATATA
2839786 ATAAAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 23 0.77
10 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
ATATATATAT
Found at i:2839760 original size:13 final size:13
Alignment explanation
Indices: 2839739--2839785 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
2839729 TCATAATTAA
*
2839739 ATAAAATATATAT
1 ATAATATATATAT
2839752 ATAATATATATAT
1 ATAATATATATAT
2839765 AT-ATAATATATAT
1 ATAAT-ATATATAT
2839778 ATAATATA
1 ATAATATA
2839786 ATAAAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:2840416 original size:57 final size:56
Alignment explanation
Indices: 2840328--2840448 Score: 190
Period size: 57 Copynumber: 2.2 Consensus size: 56
2840318 TGCAAACCGC
* *
2840328 AGCAATAAAGAAAGTAATGAAGATACCAACGTGCTGCAATGAAAAAAAAGAAACAGT
1 AGCAATGAAGAAAGTAATGAAGACACCAACGTGCTGCAATGAAAAAAAA-AAACAGT
* *
2840385 AGCAATGAAGAAAGTAATGAAGACACCAACGTGCTGCAATGAAAAGAAAAAACGGT
1 AGCAATGAAGAAAGTAATGAAGACACCAACGTGCTGCAATGAAAAAAAAAAACAGT
2840441 AGC-ATGAA
1 AGCAATGAA
2840449 ATCAAAGCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
55 5 0.08
56 9 0.15
57 46 0.77
ACGTcount: A:0.52, C:0.13, G:0.21, T:0.13
Consensus pattern (56 bp):
AGCAATGAAGAAAGTAATGAAGACACCAACGTGCTGCAATGAAAAAAAAAAACAGT
Found at i:2840766 original size:30 final size:26
Alignment explanation
Indices: 2840731--2840798 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
2840721 GAGAAGAGAG
*
2840731 GAATCGAAACAAGAAAAAGAAACAAAGTA
1 GAATCGAAACAA-AAAAA-AAA-AAAGCA
*
2840760 GCAATCGAAACAAAAAAAACAAAAGCA
1 G-AATCGAAACAAAAAAAAAAAAAGCA
2840787 GAATCGAAACAA
1 GAATCGAAACAA
2840799 CAAGAAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 11 0.31
27 6 0.17
28 2 0.06
29 6 0.17
30 11 0.31
ACGTcount: A:0.65, C:0.15, G:0.15, T:0.06
Consensus pattern (26 bp):
GAATCGAAACAAAAAAAAAAAAAGCA
Found at i:2840940 original size:21 final size:21
Alignment explanation
Indices: 2840914--2840966 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2840904 AATAGCAAAC
2840914 ATCAAGCAA-AGACAGCAAAAT
1 ATCAAGCAACAG-CAGCAAAAT
* *
2840935 ATCAAGCAACAGTAGCAAGAT
1 ATCAAGCAACAGCAGCAAAAT
*
2840956 ATCAAGAAACA
1 ATCAAGCAACA
2840967 AACACCAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.55, C:0.19, G:0.15, T:0.11
Consensus pattern (21 bp):
ATCAAGCAACAGCAGCAAAAT
Found at i:2844655 original size:23 final size:24
Alignment explanation
Indices: 2844629--2844682 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 24
2844619 TAAACAAGTT
* *
2844629 TTAAATGAA-ATTTAAGTGATTTA
1 TTAAATGAAGATTTAAATGATTCA
*
2844652 TTAAAT-AAGCTTTAAATGATTCA
1 TTAAATGAAGATTTAAATGATTCA
2844675 -TAAATGAA
1 TTAAATGAA
2844683 CTTGTTCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (24 bp):
TTAAATGAAGATTTAAATGATTCA
Found at i:2849520 original size:51 final size:51
Alignment explanation
Indices: 2849414--2849531 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
2849404 GAAAAAAATG
* * ***
2849414 GGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAGGTTG
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGCCA
* * *
2849465 GGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAGCCA
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGCCA
2849516 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
2849532 TCTGAAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAGCCA
Found at i:2849550 original size:28 final size:28
Alignment explanation
Indices: 2849516--2849590 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
2849506 AATAAAGCCA
**
2849516 GGGTTGGAGTATCCCCTCTGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
* *
2849544 GGGTTGGAGTATCCTCGATGAGATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
2849572 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
2849591 TGTGAGAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:2849601 original size:107 final size:107
Alignment explanation
Indices: 2849464--2849671 Score: 337
Period size: 107 Copynumber: 1.9 Consensus size: 107
2849454 AAATAAGGTT
* *
2849464 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAGCCAGGGTTGGAGTATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGACAGGGTTGGAGTATC
*
2849529 CCCTCT-GAAATAACGGGGTTGGAGTATCCTCGATGAGATAAC
66 CCCT-TGGAAATAACGGGGTTGGAGTATCCCCGATGAGATAAC
* * * *
2849571 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGACGGGGTTGGAGTATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGACAGGGTTGGAGTATC
2849636 CCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGA
66 CCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGA
2849672 AAAATTGATG
Statistics
Matches: 93, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
106 1 0.01
107 92 0.99
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (107 bp):
GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAGACAGGGTTGGAGTATC
CCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGAGATAAC
Found at i:2852180 original size:19 final size:21
Alignment explanation
Indices: 2852156--2852207 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2852146 AGTGATACAC
2852156 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGTA
* *
2852175 TGTATCAATACATTTACTGTT
1 TGTATCGATACATTTACTGTA
2852196 TGTATCGATACA
1 TGTATCGATACA
2852208 AATTATTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 11 0.39
20 5 0.18
21 12 0.43
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTTACTGTA
Found at i:2853748 original size:51 final size:50
Alignment explanation
Indices: 2853688--2853863 Score: 185
Period size: 51 Copynumber: 3.7 Consensus size: 50
2853678 TTTTAACTAG
*
2853688 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAAAGAGAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGTAAAAAGA-AGA
*
2853739 ATGTATCGATACATTGAAGAATGTATCGATACAT-TCA--T-------A-C
1 ATGTATCGATACATTGAAGAATGTATCGATACATCT-AGGTAAAAAGAAGA
* * *
2853779 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGTAAAAAGA-AGA
* *
2853830 ATGTATCAACACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAGAATGTATCGATACAT
2853864 TCATACATGT
Statistics
Matches: 102, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
40 32 0.31
41 2 0.02
42 1 0.01
49 1 0.01
50 2 0.02
51 64 0.63
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCTAGGTAAAAAGAAGA
Found at i:2853761 original size:20 final size:20
Alignment explanation
Indices: 2853736--2853903 Score: 115
Period size: 20 Copynumber: 7.8 Consensus size: 20
2853726 GTAAAAAGAG
2853736 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
2853756 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
2853776 TA-CATGTATCGATACATTAA
1 -AGAATGTATCGATACATTGA
*
2853796 AAAATGTATCGATACATCTGGGTAAAAAGA
1 AGAATGTATCGATACA--T---T-----GA
* *
2853826 CAGAATGTATCAACACATTGA
1 -AGAATGTATCGATACATTGA
*
2853847 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
2853867 TA-CATGTATCAATACATTGA
1 -AGAATGTATCGATACATTGA
*
2853887 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
2853904 CTGGGTAAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.02
20 93 0.79
21 4 0.03
22 1 0.01
25 1 0.01
26 1 0.01
29 1 0.01
30 1 0.01
31 13 0.11
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:2853844 original size:91 final size:91
Alignment explanation
Indices: 2853688--2853914 Score: 391
Period size: 91 Copynumber: 2.5 Consensus size: 91
2853678 TTTTAACTAG
* * * * *
2853688 ATGTATCGATACATTGAATAATGTATCGATACATCTAGGTAAAAAGAGAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCAACACAT
2853753 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATGTATCGATACATTCATAC
*
2853779 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCAACACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCAACACAT
2853844 TGAAGAATGTATCGATACATTCATAC
66 TGAAGAATGTATCGATACATTCATAC
*
2853870 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
2853915 TATGACTTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 128 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (91 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCAACACAT
TGAAGAATGTATCGATACATTCATAC
Found at i:2863218 original size:23 final size:23
Alignment explanation
Indices: 2863191--2863236 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2863181 AATATTTCAA
*
2863191 ATAAAAATTATTAATTATATAAT
1 ATAAAAAATATTAATTATATAAT
**
2863214 ATAAAAAATATTTTTTATATAAT
1 ATAAAAAATATTAATTATATAAT
2863237 TTATTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAAAAATATTAATTATATAAT
Found at i:2863415 original size:18 final size:18
Alignment explanation
Indices: 2863392--2863451 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
2863382 CGTGGTTGGC
2863392 ATTTTATTTTTTTATTTT
1 ATTTTATTTTTTTATTTT
** *
2863410 ATTTTAAATTTTTATTTCA
1 ATTTTATTTTTTTATTT-T
*
2863429 ACTTTAATTTTTTTA-TTT
1 A-TTTTATTTTTTTATTTT
2863447 ATTTT
1 ATTTT
2863452 TAAATAATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
17 3 0.09
18 16 0.50
19 3 0.09
20 10 0.31
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
ATTTTATTTTTTTATTTT
Found at i:2863574 original size:23 final size:22
Alignment explanation
Indices: 2863544--2863598 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
2863534 TAAAAATATA
2863544 ATTTTTTATTAATTATTTTTATT
1 ATTTTTTATT-ATTATTTTTATT
*
2863567 ATTTTTTAATTTTTATTTTTATT
1 ATTTTTT-ATTATTATTTTTATT
*
2863590 TTATTTTTA
1 AT-TTTTTA
2863599 AATGATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTTATTATTATTTTTATT
Found at i:2863577 original size:20 final size:21
Alignment explanation
Indices: 2863547--2863594 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
2863537 AAATATAATT
2863547 TTTTATTAATTATTT-TTATTA
1 TTTTATTAATT-TTTATTATTA
*
2863568 TTTT-TTAATTTTTATTTTTA
1 TTTTATTAATTTTTATTATTA
2863588 TTTTATT
1 TTTTATT
2863595 TTTAAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.12
20 15 0.62
21 6 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTATTAATTTTTATTATTA
Found at i:2863580 original size:17 final size:17
Alignment explanation
Indices: 2863558--2863598 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
2863548 TTTATTAATT
2863558 ATTTTTATTATTT-TTTA
1 ATTTTTATT-TTTATTTA
*
2863575 ATTTTTATTTTTATTTT
1 ATTTTTATTTTTATTTA
2863592 ATTTTTA
1 ATTTTTA
2863599 AATGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTATTTTTATTTA
Found at i:2863607 original size:25 final size:23
Alignment explanation
Indices: 2863555--2863609 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
2863545 TTTTTTATTA
* *
2863555 ATTATTTTTATTATTTTTTAATT
1 ATTATTTTTATTATTTTTAAATG
*
2863578 TTTATTTTTATTTTATTTTTAAATG
1 ATTATTTTTA--TTATTTTTAAATG
2863603 ATTATTT
1 ATTATTT
2863610 AAAACGATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 9 0.35
25 17 0.65
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTATTTTTATTATTTTTAAATG
Found at i:2864018 original size:24 final size:25
Alignment explanation
Indices: 2863957--2864030 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 25
2863947 AAAAATTATA
*
2863957 AATTATTTTAACATAATCAATTTT-TTT
1 AATT-TTTTAA-ATAAT-ATTTTTATTT
2863984 AATTTTATTAAATAATATTTTTATTT
1 AATTTT-TTAAATAATATTTTTATTT
* *
2864010 AA-TTTTTAAATATTATATTTA
1 AATTTTTTAAATAATATTTTTA
2864031 AAAAAATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 14 0.33
25 8 0.19
26 12 0.29
27 8 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
AATTTTTTAAATAATATTTTTATTT
Found at i:2864765 original size:3 final size:3
Alignment explanation
Indices: 2864759--2864783 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2864749 TGAAAAATTC
2864759 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
2864784 GATTCTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2865674 original size:4 final size:4
Alignment explanation
Indices: 2865665--2865701 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
2865655 AATGTTTTAA
*
2865665 TATT TATT TATT TATA TATT TATT TATT TATAT TATT
1 TATT TATT TATT TATT TATT TATT TATT TAT-T TATT
2865702 AATAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 26 0.87
5 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:2865685 original size:16 final size:16
Alignment explanation
Indices: 2865660--2865697 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
2865650 CAATTAATGT
2865660 TTTA-ATATTTATTTA
1 TTTATATATTTATTTA
2865675 TTTATATATTTATTTA
1 TTTATATATTTATTTA
2865691 TTTATAT
1 TTTATAT
2865698 TATTAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATATATTTATTTA
Found at i:2865686 original size:12 final size:12
Alignment explanation
Indices: 2865669--2865711 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
2865659 TTTTAATATT
2865669 TATTTATTTATA
1 TATTTATTTATA
*
2865681 TATTTATTTATT
1 TATTTATTTATA
*
2865693 TATATTATTAATAA
1 TAT-TTATTTAT-A
2865707 TATTT
1 TATTT
2865712 TTAATTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 14 0.54
13 9 0.35
14 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTATTTATA
Found at i:2865730 original size:14 final size:14
Alignment explanation
Indices: 2865711--2865761 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
2865701 TAATAATATT
2865711 TTTAATTAATTAAA
1 TTTAATTAATTAAA
2865725 TTTAA-T-ATTATAA
1 TTTAATTAATTA-AA
* *
2865738 ATTAAATAATATAAA
1 TTTAATTAAT-TAAA
2865753 TTTAATTAA
1 TTTAATTAA
2865762 AAAATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
12 4 0.13
13 7 0.23
14 6 0.20
15 11 0.37
16 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:2865925 original size:25 final size:25
Alignment explanation
Indices: 2865854--2865927 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 25
2865844 TTTTTTAAAT
2865854 TTTTTTAATTATATTTGTATTTATTTTAA
1 TTTTTT-ATTAT-TTT-T-TTTATTTTAA
*
2865883 TTTTTTAATATTACTTTTTT-TTTT-A
1 TTTTTTATTATT--TTTTTTATTTTAA
2865908 TTTTTTATTATTTTTTTTAT
1 TTTTTTATTATTTTTTTTAT
2865928 ATATTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
23 6 0.15
24 1 0.03
25 12 0.30
26 4 0.10
27 4 0.10
28 5 0.12
29 8 0.20
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.76
Consensus pattern (25 bp):
TTTTTTATTATTTTTTTTATTTTAA
Found at i:2865934 original size:19 final size:18
Alignment explanation
Indices: 2865883--2865936 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
2865873 TTTATTTTAA
2865883 TTTTTTA-ATATTACTTTT
1 TTTTTTATATATTA-TTTT
* *
2865901 TTTTTTATTTTTTATTATT
1 TTTTTTATATATTATT-TT
2865920 TTTTTTATATATTATTT
1 TTTTTTATATATTATTT
2865937 AATTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTATATATTATTTT
Found at i:2865946 original size:41 final size:38
Alignment explanation
Indices: 2865844--2865948 Score: 92
Period size: 39 Copynumber: 2.7 Consensus size: 38
2865834 ATACCGTTAC
* *
2865844 TTTTTTAA-ATTTTTTTAATTATATTTGTATTTATTTTAA
1 TTTTTTAATA-TTATTTAATTAT-TTTTTATTTATTTTAA
* * *
2865883 TTTTTTAATATTACTT--TT-TTTTTTATTTTTTATTATT
1 TTTTTTAATATTATTTAATTATTTTTTATTTATT-TTA-A
2865920 TTTTTTATATATTATTTAATTATTTTTTA
1 TTTTTTA-ATATTATTTAATTATTTTTTA
2865949 ATTTCACCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
35 10 0.19
36 4 0.08
37 9 0.17
38 8 0.15
39 12 0.23
40 3 0.06
41 7 0.13
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (38 bp):
TTTTTTAATATTATTTAATTATTTTTTATTTATTTTAA
Found at i:2866146 original size:52 final size:52
Alignment explanation
Indices: 2866068--2866167 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
2866058 CAAGGTAACT
*
2866068 TGTCATAAGCTTAGATTGCTATTAAACTCCATTTTAATCACACATGATAGCC
1 TGTCATAAGCTTAGATTACTATTAAACTCCATTTTAATCACACATGATAGCC
* * *
2866120 TGTCATAAGTTTGGATTATTATTAAACTCCATTTTAATCACACATGAT
1 TGTCATAAGCTTAGATTACTATTAAACTCCATTTTAATCACACATGAT
2866168 TTCTTCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (52 bp):
TGTCATAAGCTTAGATTACTATTAAACTCCATTTTAATCACACATGATAGCC
Found at i:2866386 original size:21 final size:19
Alignment explanation
Indices: 2866362--2866463 Score: 65
Period size: 17 Copynumber: 5.5 Consensus size: 19
2866352 CTTGTACTTA
2866362 TTTTAATTTTTTTAACATTAT
1 TTTTAATTTTTTT-A-ATTAT
*
2866383 TTTTTATTTTTTTAATTA-
1 TTTTAATTTTTTTAATTAT
*
2866401 TTTT-ATTTTTAT-A-TAT
1 TTTTAATTTTTTTAATTAT
*
2866417 TATTTAATTATTTT-ATT-T
1 T-TTTAATTTTTTTAATTAT
* *
2866435 TTAT-ATATTATTTAATTATT
1 TTTTAAT-TTTTTTAATTA-T
2866455 TTTTAATTT
1 TTTTAATTT
2866464 CACTCATATA
Statistics
Matches: 64, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.03
16 4 0.06
17 16 0.25
18 16 0.25
19 5 0.08
20 7 0.11
21 14 0.22
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTTTTAATTAT
Found at i:2866421 original size:13 final size:13
Alignment explanation
Indices: 2866378--2866447 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
2866368 TTTTTTTAAC
2866378 ATTATTTTT-TAT
1 ATTATTTTTATAT
*
2866390 -TT-TTTTAATTAT
1 ATTATTTTTA-TAT
*
2866402 TTTATTTTTATAT
1 ATTATTTTTATAT
2866415 ATTATTTAATTAT-T
1 ATTATTT--TTATAT
2866429 -TTATTTTTATAT
1 ATTATTTTTATAT
2866441 ATTATTT
1 ATTATTT
2866448 AATTATTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
10 4 0.09
11 6 0.13
12 4 0.09
13 23 0.49
14 6 0.13
15 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
ATTATTTTTATAT
Found at i:2866426 original size:26 final size:26
Alignment explanation
Indices: 2866402--2866456 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
2866392 TTTTAATTAT
2866402 TTTATTTTTATATATTATTTAATTAT
1 TTTATTTTTATATATTATTTAATTAT
2866428 TTTATTTTTATATATTATTTAATTAT
1 TTTATTTTTATATATTATTTAATTAT
2866454 TTT
1 TTT
2866457 TTAATTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTATTTTTATATATTATTTAATTAT
Found at i:2866454 original size:8 final size:8
Alignment explanation
Indices: 2866393--2866455 Score: 54
Period size: 8 Copynumber: 7.4 Consensus size: 8
2866383 TTTTTATTTT
2866393 TTTAATTA
1 TTTAATTA
* *
2866401 TTTTATTT
1 TTTAATTA
2866409 TTATATATTA
1 TT-TA-ATTA
2866419 TTTAATTA
1 TTTAATTA
* *
2866427 TTTTATTT
1 TTTAATTA
2866435 TTATATATTA
1 TT-TA-ATTA
2866445 TTTAATTA
1 TTTAATTA
2866453 TTT
1 TTT
2866456 TTTAATTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
8 27 0.63
9 6 0.14
10 10 0.23
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTAATTA
Found at i:2866465 original size:511 final size:506
Alignment explanation
Indices: 2865877--2866815 Score: 1519
Period size: 511 Copynumber: 1.8 Consensus size: 506
2865867 TTTGTATTTA
2865877 TTTTAATTTTTTAATATTACTTTTTTTTTTATTTTTTATTATTTTTTTTATATATTATTTAATTA
1 TTTTAATTTTTTAATATTACTTTTTTTTTTATTTTTTATTATTTTTTTTATATATTATTTAATTA
* *
2865942 TTTTTTAATTTCACCCATATAGTAAGTGGGTGTAAAGTTAATATATAAAAATTTTATAATCTCTT
66 TTTTTTAATTTCACCCATATAGTAAGTGCGTGTAAAGTTAATATATAAAAATTTTATAACCTCTT
** * * **
2866007 TATGTAATTTTACTTTATTATTAATAATACCTAAATGAATCTTTTGCTTTAC-AAGGTAACTTGT
131 TATACAATTTCACCTTATTATTAATAATACCTAAATGAATC-TTTGCTTTACGAAAATAACTTGT
* *
2866071 CATAAGCTTAGATTGCTATTAAACTCCATTTTAATCACACATGATAGCCTGTCATAAGTTTGGAT
195 CATAAGCTTAGATTGCTATTAAACTCCATTTTAATCACACATGATAACCTGTCATAAGCTTGGAT
*
2866136 TATTATTAAACTCCATTTTAATCACACATGATTTCTTCATAAGGGAGGAAAGAAAAAAAAACCTA
260 TATTATTAAACTCCATTTTAATCACACATGATTTCTTCACAAGGGAGGAAAG--AAAAAAACCTA
* * *
2866201 AGATTGATTTTTCTCAAAATTTTATATTATGACTTAAT-TTTTTTATTATCATTTTTTTAGATTT
323 AGATTGATTTTCCTCAAAATTTTATATTATGACTTAATGTTTTTTATTAACAATTTTTTAGATTT
* *
2866265 ACATCGTATATATCATATAATGAATG-ATATGTATAATTTTTAAATAAAATCATATTATTACCTT
388 ACATCATACATATCATATAATGAATGCATATGTATAATTTTTAAATAAAATCATATTATTACCTT
2866329 TTTAGATTTTTTTTAAAATTATACTTGTACTTATTTTAATTTTTTTAACATTAT
453 TTTAGATTTTTTTTAAAATTATACTTGTACTTATTTTAATTTTTTTAACATTAT
* *
2866383 TTTTTATTTTTTTA-ATTA-TTTTATTTTTATATATTATTTAATTATTTTATTTTTATATATTAT
1 TTTTAATTTTTTAATATTACTTTT-TTTTT-TAT-TT-TTT-ATTA-TTT-TTTTTATATATTAT
* * * *
2866446 TTAATTATTTTTTAATTTCACTCATATATTGAGTGCGTGTAAAGTTAATATATATAAATTTTATA
59 TTAATTATTTTTTAATTTCACCCATATAGTAAGTGCGTGTAAAGTTAATATATAAAAATTTTATA
2866511 ACCTCTTTATACAATTTCACCTTATTATTAATAATACCTAAATGAATCTTTGCTTTACGAAAATA
124 ACCTCTTTATACAATTTCACCTTATTATTAATAATACCTAAATGAATCTTTGCTTTACGAAAATA
* * * *
2866576 ACTTTTCATAAGCTTGGATTGTTATTAAACTCCATTTTAATCCCACATGATAACCTGTCATAAGC
189 ACTTGTCATAAGCTTAGATTGCTATTAAACTCCATTTTAATCACACATGATAACCTGTCATAAGC
2866641 TTGGATTATTATTAAACTCCATTTTAATCACACATGATTTCTTCACAAGGGAGGAAAGAAAAAAA
254 TTGGATTATTATTAAACTCCATTTTAATCACACATGATTTCTTCACAAGGGAGGAAAGAAAAAAA
2866706 CCTAAGATTGATTTTCCTCAAAATTTTATATTATGACTTAATGTTTTTTATTAACAATTTTTTAG
319 CCTAAGATTGATTTTCCTCAAAATTTTATATTATGACTTAATGTTTTTTATTAACAATTTTTTAG
2866771 ATTTACATCATACATATCATATAATGAATGCATATGTATAATTTT
384 ATTTACATCATACATATCATATAATGAATGCATATGTATAATTTT
2866816 ATAATTTATT
Statistics
Matches: 397, Mismatches: 26, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
504 4 0.01
505 9 0.02
506 15 0.04
507 2 0.01
508 3 0.01
509 52 0.13
510 61 0.15
511 251 0.63
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.48
Consensus pattern (506 bp):
TTTTAATTTTTTAATATTACTTTTTTTTTTATTTTTTATTATTTTTTTTATATATTATTTAATTA
TTTTTTAATTTCACCCATATAGTAAGTGCGTGTAAAGTTAATATATAAAAATTTTATAACCTCTT
TATACAATTTCACCTTATTATTAATAATACCTAAATGAATCTTTGCTTTACGAAAATAACTTGTC
ATAAGCTTAGATTGCTATTAAACTCCATTTTAATCACACATGATAACCTGTCATAAGCTTGGATT
ATTATTAAACTCCATTTTAATCACACATGATTTCTTCACAAGGGAGGAAAGAAAAAAACCTAAGA
TTGATTTTCCTCAAAATTTTATATTATGACTTAATGTTTTTTATTAACAATTTTTTAGATTTACA
TCATACATATCATATAATGAATGCATATGTATAATTTTTAAATAAAATCATATTATTACCTTTTT
AGATTTTTTTTAAAATTATACTTGTACTTATTTTAATTTTTTTAACATTAT
Found at i:2871262 original size:17 final size:17
Alignment explanation
Indices: 2871242--2871276 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
2871232 TGCCCATTGG
2871242 ATTAAAGGTGAGCTATT
1 ATTAAAGGTGAGCTATT
2871259 ATTAAAGGTGAGCTATT
1 ATTAAAGGTGAGCTATT
2871276 A
1 A
2871277 AGCTATGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.34
Consensus pattern (17 bp):
ATTAAAGGTGAGCTATT
Found at i:2876669 original size:21 final size:20
Alignment explanation
Indices: 2876624--2876669 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2876614 ATCGATATAT
**
2876624 TGTATTGATACATGACCAAA
1 TGTATTGATACATGAAAAAA
*
2876644 TGTATTGATACTTGAAAAAGA
1 TGTATTGATACATGAAAAA-A
2876665 TGTAT
1 TGTAT
2876670 CAATACAGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTATTGATACATGAAAAAA
Done.