Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, whole genome shotgun sequence
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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 74 of 121
Found at i:12793125 original size:17 final size:16
Alignment explanation
Indices: 12793088--12793140 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
12793078 ATCCTTTTAT
12793088 TAAAAAGAAAAAGATAAA
1 TAAAAAGAAAAA-A-AAA
12793106 TAAACAAGAAAAAAAAA
1 TAAA-AAGAAAAAAAAA
*
12793123 TAAAAAGGAAAGAAAAA
1 TAAAAA-GAAAAAAAAA
12793140 T
1 T
12793141 GCTTCCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 2 0.06
17 17 0.53
18 5 0.16
19 8 0.25
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.09
Consensus pattern (16 bp):
TAAAAAGAAAAAAAAA
Found at i:12796581 original size:25 final size:23
Alignment explanation
Indices: 12796525--12796581 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
12796515 GGTGTATGTG
*
12796525 AAGAAAAGAAAAAAGAGAAAAAA
1 AAGAAAAGAAAAAAGAAAAAAAA
*
12796548 AGGCAAAAAGAAAAGCAAGAAAAAAAA
1 AAG--AAAAGAAAA--AAGAAAAAAAA
12796575 AAGAAAA
1 AAGAAAA
12796582 TTTTTGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
23 2 0.07
25 13 0.48
27 12 0.44
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (23 bp):
AAGAAAAGAAAAAAGAAAAAAAA
Found at i:12798904 original size:17 final size:17
Alignment explanation
Indices: 12798882--12798998 Score: 67
Period size: 17 Copynumber: 6.6 Consensus size: 17
12798872 TTTTGAGAAA
12798882 CTTTGAAATTTATAAAT
1 CTTTGAAATTTATAAAT
* **
12798899 CTTTGAACTCTTACGAAT
1 CTTTGAAAT-TTATAAAT
* *
12798917 CTTTGAAATTTGTTAAT
1 CTTTGAAATTTATAAAT
* *
12798934 CTTT-AACTCTTTTTGTGAAA-
1 CTTTGAA----ATTTAT-AAAT
12798954 CTTTGAAATTTATAAAT
1 CTTTGAAATTTATAAAT
** *
12798971 CTTTGACTTTTATGAAT
1 CTTTGAAATTTATAAAT
*
12798988 CTTTAAAATTT
1 CTTTGAAATTT
12798999 GTGAATTTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
16 5 0.07
17 43 0.57
18 14 0.19
20 9 0.12
21 4 0.05
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (17 bp):
CTTTGAAATTTATAAAT
Found at i:12798962 original size:37 final size:36
Alignment explanation
Indices: 12798862--12798974 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 36
12798852 ATTTGTGAAA
*
12798862 CTTTAACCCCTTTTGAGAAACTTTGAAATTTATAAAT
1 CTTTAA-CTCTTTTGAGAAACTTTGAAATTTATAAAT
* * *
12798899 CTTTGAACTC--TT-ACGAATCTTTGAAATTTGTTAAT
1 CTTT-AACTCTTTTGA-GAAACTTTGAAATTTATAAAT
*
12798934 CTTTAACTCTTTTTGTGAAACTTTGAAATTTATAAAT
1 CTTTAACTC-TTTTGAGAAACTTTGAAATTTATAAAT
12798971 CTTT
1 CTTT
12798975 GACTTTTATG
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
34 6 0.10
35 24 0.39
37 30 0.48
38 2 0.03
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (36 bp):
CTTTAACTCTTTTGAGAAACTTTGAAATTTATAAAT
Found at i:12799003 original size:17 final size:17
Alignment explanation
Indices: 12798913--12799010 Score: 52
Period size: 17 Copynumber: 5.6 Consensus size: 17
12798903 GAACTCTTAC
*
12798913 GAATCTTTGAAATTTGT
1 GAATCTTTAAAATTTGT
* **
12798930 TAATCTTTAACTCTTTTTGT
1 GAATCTTTAA---AATTTGT
* * *
12798950 GAAACTTTGAAATTTAT
1 GAATCTTTAAAATTTGT
* * ** *
12798967 AAATCTTTGACTTTTAT
1 GAATCTTTAAAATTTGT
12798984 GAATCTTTAAAATTTGT
1 GAATCTTTAAAATTTGT
*
12799001 GAATTTTTAA
1 GAATCTTTAA
12799011 TCCTTCTTGC
Statistics
Matches: 58, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
17 46 0.79
20 12 0.21
ACGTcount: A:0.32, C:0.08, G:0.10, T:0.50
Consensus pattern (17 bp):
GAATCTTTAAAATTTGT
Found at i:12799010 original size:71 final size:72
Alignment explanation
Indices: 12798852--12799010 Score: 230
Period size: 72 Copynumber: 2.2 Consensus size: 72
12798842 AATGCTACTT
*
12798852 ATTTGTGAAACTTTAACCCCTTTTGAGAAACTTTGAAATTTATAAATCTTTGAACTCTTACGAAT
1 ATTTGTGAATCTTTAACCCCTTTTGAGAAACTTTGAAATTTATAAATCTTTGAACTCTTACGAAT
*
12798917 CTTTGAA
66 CTTTAAA
* * * * * *
12798924 ATTTGTTAATCTTTAACTCTTTTTGTGAAACTTTGAAATTTATAAATCTTTG-ACTTTTATGAAT
1 ATTTGTGAATCTTTAACCCCTTTTGAGAAACTTTGAAATTTATAAATCTTTGAACTCTTACGAAT
12798988 CTTTAAA
66 CTTTAAA
*
12798995 ATTTGTGAATTTTTAA
1 ATTTGTGAATCTTTAA
12799011 TCCTTCTTGC
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
71 30 0.39
72 47 0.61
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (72 bp):
ATTTGTGAATCTTTAACCCCTTTTGAGAAACTTTGAAATTTATAAATCTTTGAACTCTTACGAAT
CTTTAAA
Found at i:12799326 original size:41 final size:41
Alignment explanation
Indices: 12799269--12800013 Score: 371
Period size: 41 Copynumber: 18.1 Consensus size: 41
12799259 TTTGAACTAA
*
12799269 AATCATTTACTCTATTATGAATCCATAGTCTTCCAACTGTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
*** * * *
12799310 AATCATTTACTCTATTATGAATATGGAGTCCTCCCACTCTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * * *
12799351 AATCATTTACTCTGTTGTGAATTCAGAGTCTTTCAATTGTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* *** * * *
12799392 AATCATTTACTCTATTATAAATTTGGAGTCCTCTAATTGTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * ** * *
12799433 AATCGTTTACTCTATTATGAAT-CTGAAGTCTTTTAGCTATG
1 AATCATTTACTCTATTATGAATCCAG-AGTCTTCCAACTGTG
* * * * * *
12799474 AATCATTTACTTTGTTGTGAATCTAGAGTCTTCCAATTATG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * * *
12799515 AATCATTTACTCTAATGTGAAACCAGAGTCTTTCAA-TAGTA
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACT-GTG
* * * *
12799556 AATCATTTACTCTGTTATGAATTCAGAGTTTTCCAATTGTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * * * *
12799597 AATCATTTACTTTGTTGTGAATCCAGAGTCCTCTAACTATG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
** * *
12799638 AATTGTTTACTCTATTGTGAATCCAGAATCCAGAGTCTTCCAATTGTA
1 AATCATTTACTCTA-T-T--AT---GAATCCAGAGTCTTCCAACTGTG
* * * * * * *** *
12799686 AATCGTTTTCTTTATTGTGAATCTAGAATCTTTTGACAGTG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
** * * * * * *
12799727 AATTGTTTACTTTGTCATCAA-CCTAGAGTCCTCCAACTATG
1 AATCATTTACTCTATTATGAATCC-AGAGTCTTCCAACTGTG
** * * ** * * *
12799768 AATTGTTCT-CTCTGTCACAAATCTAGAGTATTCCAACTGTC
1 AATCATT-TACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * *
12799809 AATC-TTTCACTCTATTATGAATCTAGAGTTTTCCAATTGTA
1 AATCATTT-ACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * * *
12799850 AATCGTTTACTCTGTTATGAATCTAGAGTCTTCTAACTATG
1 AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
* * * *
12799891 AATCATTTACTCTGTTATGTATCCAGAATCCTT-CAATTGTG
1 AATCATTTACTCTATTATGAATCCAGAGT-CTTCCAACTGTG
* * * * *
12799932 AAT--TGTA-TACT-TTATGAATCTAGAGTCATCCAACTATA
1 AATCATTTACT-CTATTATGAATCCAGAGTCTTCCAACTGTG
* * * *
12799970 AATCATTTTCTCT-TATGTGAATCCAAAGTCCTT-CAACTATG
1 AATCATTTACTCTAT-TATGAATCCAGAGT-CTTCCAACTGTG
12800011 AAT
1 AAT
12800014 TGTTTTCTCT
Statistics
Matches: 531, Mismatches: 148, Indels: 50
0.73 0.20 0.07
Matches are distributed among these distances:
37 2 0.00
38 21 0.04
39 6 0.01
40 10 0.02
41 445 0.84
42 13 0.02
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 29 0.05
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (41 bp):
AATCATTTACTCTATTATGAATCCAGAGTCTTCCAACTGTG
Found at i:12799670 original size:48 final size:48
Alignment explanation
Indices: 12799615--12799715 Score: 121
Period size: 48 Copynumber: 2.1 Consensus size: 48
12799605 ACTTTGTTGT
* * *
12799615 GAATCCAGAGTCCTCTAACTATGAATTGTTTACTCTATTGTGAATCCA
1 GAATCCAGAGTCCTCCAACTATAAATCGTTTACTCTATTGTGAATCCA
* * * * * *
12799663 GAATCCAGAGTCTTCCAATTGTAAATCGTTTTCTTTATTGTGAATCTA
1 GAATCCAGAGTCCTCCAACTATAAATCGTTTACTCTATTGTGAATCCA
12799711 GAATC
1 GAATC
12799716 TTTTGACAGT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (48 bp):
GAATCCAGAGTCCTCCAACTATAAATCGTTTACTCTATTGTGAATCCA
Found at i:12799732 original size:89 final size:89
Alignment explanation
Indices: 12799574--12799737 Score: 213
Period size: 89 Copynumber: 1.8 Consensus size: 89
12799564 ACTCTGTTAT
* * * * *
12799574 GAATTCAGAGTTTTCCAATTGTGAATCATTTACTTTGTTGTGAATCCAGAGTCCTCTAACTATGA
1 GAATCCAGAGTCTTCCAATTGTAAATCATTTACTTTATTGTGAATCCAGAATCCTCTAACTATGA
12799639 ATTGTTTACTCTATTGTGAATCCA
66 ATTGTTTACTCTATTGTGAATCCA
* * * * * *
12799663 GAATCCAGAGTCTTCCAATTGTAAATCGTTTTCTTTATTGTGAATCTAGAATCTTTTGAC-AGTG
1 GAATCCAGAGTCTTCCAATTGTAAATCATTTACTTTATTGTGAATCCAGAATCCTCTAACTA-TG
12799727 AATTGTTTACT
65 AATTGTTTACT
12799738 TTGTCATCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
88 1 0.02
89 62 0.98
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (89 bp):
GAATCCAGAGTCTTCCAATTGTAAATCATTTACTTTATTGTGAATCCAGAATCCTCTAACTATGA
ATTGTTTACTCTATTGTGAATCCA
Found at i:12799904 original size:123 final size:123
Alignment explanation
Indices: 12799269--12799905 Score: 421
Period size: 123 Copynumber: 5.1 Consensus size: 123
12799259 TTTGAACTAA
* * ** * * *
12799269 AATCATTTACTCTATTATGAATCCATAGTCTTCCAACTGTGAATCATTTACTCTATTATGAATAT
1 AATCATTTACTCTGTAACAAATCCAGAGTCTTCCAACTGTAAATCATTTACTCTATTATGAATCT
* ** * * * * *
12799334 GGAGTCCTCCCACTCTGAATCATTTACTCTGTTGTGAAT-TCAGAGTCTT-TCAATTGTG
66 AGAGTTTTCCAACTGTGAATCATTTACTTTGTTGTGAATCT-AGAGTCTTCT-AACTATG
* * * *** * * * * *
12799392 AATCATTTACTCTATTATAAATTTGGAGTCCTCTAATTGTGAATCGTTTACTCTATTATGAATCT
1 AATCATTTACTCTGTAACAAATCCAGAGTCTTCCAACTGTAAATCATTTACTCTATTATGAATCT
* * * * *
12799457 -GAAGTCTTT-TAGCTATGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCCAATTATG
66 AG-AGT-TTTCCAACTGTGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCTAACTATG
* *** * *
12799515 AATCATTTACTCTAATGTGAAA-CCAGAGTCTTTCAA-TAGTAAATCATTTACTCTGTTATGAAT
1 AATCATTTACTCT-GTAACAAATCCAGAGTCTTCCAACT-GTAAATCATTTACTCTATTATGAAT
* * *
12799578 -TCAGAGTTTTCCAATTGTGAATCATTTACTTTGTTGTGAATCCAGAGTCCTCTAACTATG
64 CT-AGAGTTTTCCAACTGTGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCTAACTATG
** * * * * *
12799638 AATTGTTTACTCTATTGTGAATCCAGAATCCAGAGTCTTCCAATTGTAAATCGTTTTCTTTATTG
1 AATCATTTACTC---TGT-AA--CA-AATCCAGAGTCTTCCAACTGTAAATCATTTACTCTATTA
* ** * ** ** * * * *
12799703 TGAATCTAGAATCTTT-TGACAGTGAATTGTTTACTTTGTCATCAACCTAGAGTCCTCCAACTAT
59 TGAATCTAGAGT-TTTCCAACTGTGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCTAACTAT
12799767 G
123 G
** * * * *
12799768 AATTGTTCT-CTCTGTCACAAATCTAGAGTATTCCAACTGTCAATC-TTTCACTCTATTATGAAT
1 AATCATT-TACTCTGTAACAAATCCAGAGTCTTCCAACTGTAAATCATTT-ACTCTATTATGAAT
* * * * *
12799831 CTAGAGTTTTCCAATTGTAAATCGTTTACTCTGTTATGAATCTAGAGTCTTCTAACTATG
64 CTAGAGTTTTCCAACTGTGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCTAACTATG
12799891 AATCATTTACTCTGT
1 AATCATTTACTCTGT
12799906 TATGTATCCA
Statistics
Matches: 403, Mismatches: 87, Indels: 48
0.75 0.16 0.09
Matches are distributed among these distances:
122 13 0.03
123 281 0.70
124 10 0.02
125 1 0.00
126 2 0.00
127 3 0.01
128 1 0.00
129 2 0.00
130 84 0.21
131 6 0.01
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (123 bp):
AATCATTTACTCTGTAACAAATCCAGAGTCTTCCAACTGTAAATCATTTACTCTATTATGAATCT
AGAGTTTTCCAACTGTGAATCATTTACTTTGTTGTGAATCTAGAGTCTTCTAACTATG
Found at i:12799967 original size:79 final size:78
Alignment explanation
Indices: 12799864--12800016 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 78
12799854 GTTTACTCTG
* * * *
12799864 TTATGAATCTAGAGTCTTCTAACTATGAATCATTTACTCTGTTATGT-ATCCAGAA-TCCTTCAA
1 TTATGAATCTAGAGTCATCCAACTATAAATCATTT--TCTCTTATGTAATCCA-AAGTCCTTCAA
* *
12799927 TTGTGAATTGTATACT
63 CTATGAATTGTATACT
12799943 TTATGAATCTAGAGTCATCCAACTATAAATCATTTTCTCTTATGTGAATCCAAAGTCCTTCAACT
1 TTATGAATCTAGAGTCATCCAACTATAAATCATTTTCTCTTATGT-AATCCAAAGTCCTTCAACT
12800008 ATGAATTGT
65 ATGAATTGT
12800017 TTTCTCTAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
77 9 0.14
78 2 0.03
79 54 0.83
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (78 bp):
TTATGAATCTAGAGTCATCCAACTATAAATCATTTTCTCTTATGTAATCCAAAGTCCTTCAACTA
TGAATTGTATACT
Found at i:12801644 original size:3 final size:3
Alignment explanation
Indices: 12801638--12801680 Score: 59
Period size: 3 Copynumber: 13.3 Consensus size: 3
12801628 TCCTTCTTTC
12801638 TAT TATT TATT TAT TGAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
12801681 TTCCCTTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 28 0.74
4 10 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12802005 original size:58 final size:57
Alignment explanation
Indices: 12801884--12802136 Score: 213
Period size: 60 Copynumber: 4.2 Consensus size: 57
12801874 AATTATCAAT
* * * * *
12801884 TTTTCTCGAAAATAAAATTTTTAAAATAAAAATATTTTGGAAGAAAAGTTGAGAA-TATCAA
1 TTTTCTTGAAAATAAAA-CTTT-CAA-AAAAATATTTT-GAGGAAAAGTTGA-AAGTATTAA
*
12801945 TTTTCATTGAAAATAAAACTTTCAAAAAAATATTTTGAGGAAAAGTTGAAAGTGTTAA
1 TTTTC-TTGAAAATAAAACTTTCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATTAA
* **
12802003 TTTTTCTTGAAAATAAAATTTTCAAAAAATATATTTTG-GAGAGAAAGTTGGGAGTATTAA
1 -TTTTCTTGAAAATAAAACTTTCAAAAAA-ATATTTTGAG-GA-AAAGTTGAAAGTATTAA
* * ** * ***
12802063 TTTTCGTTTAAAATAAAACTTTCAGGAAATGTCTATTTGAGGAAAAGTTGAAAGTCCAAA
1 TTTTC-TTGAAAATAAAACTTTCA-AAAAAATAT-TTTGAGGAAAAGTTGAAAGTATTAA
12802123 TATTTCTTGAAAAT
1 T-TTTCTTGAAAAT
12802137 TTTTAGTGTA
Statistics
Matches: 159, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
57 2 0.01
58 39 0.25
59 31 0.19
60 54 0.34
61 21 0.13
62 12 0.08
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (57 bp):
TTTTCTTGAAAATAAAACTTTCAAAAAAATATTTTGAGGAAAAGTTGAAAGTATTAA
Found at i:12802050 original size:118 final size:122
Alignment explanation
Indices: 12801881--12802136 Score: 324
Period size: 120 Copynumber: 2.1 Consensus size: 122
12801871 GAAAATTATC
*
12801881 AATTTTTCTCGAAAATAAAATTTTTAAAATAAAAATATTTTGGAAGAAAAGTTGAGAATATCAAT
1 AATTTTTCTTGAAAATAAAATTTTTAAAATAAAAATATTTTGGAAGAAAAGTTGAGAATATCAAT
***
12801946 TTTCATTGAAAATAAAACTTTCA-AAAAAATAT-TTTGAGGAAAAGTTGAAAGTGTT
66 TTTCATTGAAAATAAAACTTTCAGAAAAAATATATTTGAGGAAAAGTTGAAAGTCCA
* * * * *
12802001 AATTTTTCTTGAAAATAAAA-TTTTCAAA-AAATATATTTTGG-AGAGAAAGTTGGGAGTATTAA
1 AATTTTTCTTGAAAATAAAATTTTTAAAATAAAAATATTTTGGAAGA-AAAGTTGAGAATATCAA
* * * ** *
12802063 TTTTCGTTTAAAATAAAACTTTCAGGAAATGTCTATTTGAGGAAAAGTTGAAAGTCCA
65 TTTTCATTGAAAATAAAACTTTCAGAAAAAATATATTTGAGGAAAAGTTGAAAGTCCA
*
12802121 AATATTTCTTGAAAAT
1 AATTTTTCTTGAAAAT
12802137 TTTTAGTGTA
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
117 3 0.03
118 48 0.41
119 12 0.10
120 54 0.46
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (122 bp):
AATTTTTCTTGAAAATAAAATTTTTAAAATAAAAATATTTTGGAAGAAAAGTTGAGAATATCAAT
TTTCATTGAAAATAAAACTTTCAGAAAAAATATATTTGAGGAAAAGTTGAAAGTCCA
Found at i:12802078 original size:60 final size:59
Alignment explanation
Indices: 12801884--12802086 Score: 225
Period size: 58 Copynumber: 3.4 Consensus size: 59
12801874 AATTATCAAT
* * * * *
12801884 TTTTCTCGAAAATAAAATTTTTAAAATAAAAATATTTTGGA-AGAAAAGTTGAGAATATCAA
1 TTTTCTTGAAAATAAAA-CTTT-CAA-AAAAATATTTTGGAGAGAAAAGTTGAGAGTATTAA
* *
12801945 TTTTCATTGAAAATAAAACTTTCAAAAAAATATTTT-GAG-GAAAAGTTGAAAGTGTTAA
1 TTTTC-TTGAAAATAAAACTTTCAAAAAAATATTTTGGAGAGAAAAGTTGAGAGTATTAA
* *
12802003 TTTTTCTTGAAAATAAAATTTTCAAAAAATATATTTTGGAGAG-AAAGTTGGGAGTATTAA
1 -TTTTCTTGAAAATAAAACTTTCAAAAAA-ATATTTTGGAGAGAAAAGTTGAGAGTATTAA
*
12802063 TTTTCGTTTAAAATAAAACTTTCA
1 TTTTC-TTGAAAATAAAACTTTCA
12802087 GGAAATGTCT
Statistics
Matches: 122, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
58 39 0.32
59 28 0.23
60 35 0.29
61 9 0.07
62 11 0.09
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (59 bp):
TTTTCTTGAAAATAAAACTTTCAAAAAAATATTTTGGAGAGAAAAGTTGAGAGTATTAA
Found at i:12806012 original size:26 final size:25
Alignment explanation
Indices: 12805944--12806012 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
12805934 TGGGTGAAAG
12805944 AATGAAAG-A-AAGAAAAAAAGAGA
1 AATGAAAGAATAAGAAAAAAAGAGA
*
12805967 AATGAAA-AATAAAATGAAAAAAGAGAA
1 AATGAAAGAATAAGA--AAAAAAGAG-A
12805994 AATGAAAGAATAAGAAAAA
1 AATGAAAGAATAAGAAAAA
12806013 TGAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
23 8 0.21
24 3 0.08
26 13 0.34
27 8 0.21
28 6 0.16
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (25 bp):
AATGAAAGAATAAGAAAAAAAGAGA
Found at i:12807236 original size:21 final size:23
Alignment explanation
Indices: 12807183--12807239 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
12807173 ATACCCAGAG
*
12807183 TTTTTGAATCAGAATCCTGAAAA
1 TTTTTGAATGAGAATCCTGAAAA
* *
12807206 -TTTTGGATGA-AATTCT-AAAA
1 TTTTTGAATGAGAATCCTGAAAA
12807226 TTTTTGAATGAGAA
1 TTTTTGAATGAGAA
12807240 CCATTGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 4 0.14
21 14 0.50
22 10 0.36
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (23 bp):
TTTTTGAATGAGAATCCTGAAAA
Found at i:12807404 original size:26 final size:26
Alignment explanation
Indices: 12807373--12807435 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
12807363 TGAATCTAAA
**
12807373 AATCTTATGAATCTTT-AATTTTTGTG
1 AATCTTATGAATCTTTGAACCTTT-TG
12807399 AATCTTATGAATCTTTGAACCTTTTG
1 AATCTTATGAATCTTTGAACCTTTTG
12807425 AATCTT-TGAAT
1 AATCTTATGAAT
12807436 TGCGAACCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.15
26 24 0.71
27 5 0.15
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (26 bp):
AATCTTATGAATCTTTGAACCTTTTG
Found at i:12807417 original size:17 final size:17
Alignment explanation
Indices: 12807397--12807435 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
12807387 TTAATTTTTG
12807397 TGAATCTTATGAATCTT
1 TGAATCTTATGAATCTT
* *
12807414 TGAACCTTTTGAATCTT
1 TGAATCTTATGAATCTT
12807431 TGAAT
1 TGAAT
12807436 TGCGAACCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (17 bp):
TGAATCTTATGAATCTT
Found at i:12807422 original size:8 final size:8
Alignment explanation
Indices: 12807373--12807435 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 8
12807363 TGAATCTAAA
12807373 AATCTTATG
1 AATCTT-TG
12807382 AATCTTT-
1 AATCTTTG
*
12807389 AATTTTTGTG
1 AA-TCTT-TG
12807399 AATCTTATG
1 AATCTT-TG
12807408 AATCTTTG
1 AATCTTTG
*
12807416 AACCTTTTG
1 AATC-TTTG
12807425 AATCTTTG
1 AATCTTTG
12807433 AAT
1 AAT
12807436 TGCGAACCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
7 2 0.04
8 16 0.36
9 25 0.56
10 2 0.04
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (8 bp):
AATCTTTG
Found at i:12807427 original size:43 final size:45
Alignment explanation
Indices: 12807337--12807436 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 45
12807327 AAATTTTGAA
*
12807337 AATCTTTAATTTTTACGAATCTCTGATGAATCTAAAAATCTTATG
1 AATCTTTAATTTTTACGAATCTCTGATGAATCTAAAAACCTTATG
** *** *
12807382 AATCTTTAATTTTTGTGAATCT-T-ATGAATCTTTGAACCTTTTG
1 AATCTTTAATTTTTACGAATCTCTGATGAATCTAAAAACCTTATG
12807425 AATCTTTGAATT
1 AATCTTT-AATT
12807437 GCGAACCTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
43 22 0.47
44 5 0.11
45 20 0.43
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (45 bp):
AATCTTTAATTTTTACGAATCTCTGATGAATCTAAAAACCTTATG
Found at i:12807690 original size:86 final size:86
Alignment explanation
Indices: 12807585--12807756 Score: 222
Period size: 86 Copynumber: 2.0 Consensus size: 86
12807575 GAAGTCATGA
* *
12807585 CTTCGGCTTACTCCAAGTCATTC-TTTTCAGACTTCAGTTTAATCCAGATCATTATT-TTTTTGG
1 CTTCGGCTTACTCCAAGTCATTCGTTTT-AGACTTCAGTTCAATCCAGATCATT-TTATTTTTGA
**
12807648 ATTTCGGTATATGCCAGATCCTT
64 ATTTCGACATATGCCAGATCCTT
* * ** * *
12807671 CTTCGGCTTAGTCTAAGTCATTCGTTTTAGACTTTGGTTCAGTCCAGGTCATTTTATTTTTGAAT
1 CTTCGGCTTACTCCAAGTCATTCGTTTTAGACTTCAGTTCAATCCAGATCATTTTATTTTTGAAT
12807736 TTCGACATATGCCAGATCCTT
66 TTCGACATATGCCAGATCCTT
12807757 TTTCAACTCA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.03
86 68 0.92
87 4 0.05
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (86 bp):
CTTCGGCTTACTCCAAGTCATTCGTTTTAGACTTCAGTTCAATCCAGATCATTTTATTTTTGAAT
TTCGACATATGCCAGATCCTT
Found at i:12807789 original size:86 final size:86
Alignment explanation
Indices: 12807609--12808073 Score: 366
Period size: 86 Copynumber: 5.4 Consensus size: 86
12807599 AAGTCATTCT
** * * * ** *
12807609 TTTCAGACTTCAGTTTAATCCAGATCATTATT-TTTTTGGATTTCGGTATATGCCAGATCCTTCT
1 TTTCAGACTTTGGTTCAATCCAGGTCATT-TTGTTTTTGAATTTCGACATATGCCAGATCCTTTT
* * ** **
12807673 TCGGCTTAGTCTAAGTCATTCG
65 TCGGCTCAGTCCAAGTTGTTTA
* * *
12807695 TTTTAGACTTTGGTTCAGTCCAGGTCATTTTATTTTTGAATTTCGACATATGCCAGATCCTTTTT
1 TTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGAATTTCGACATATGCCAGATCCTTTTT
**
12807760 CAACTCAGTCCAAGTTGTTTA
66 CGGCTCAGTCCAAGTTGTTTA
* ** * ** * * * * * *
12807781 TTTCAGACTTCGGTTCAATTTAAGTCATTTTGTTTTTGGGTTTTGGCCTAGGTCAGATCTTTTTT
1 TTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGAATTTCGACATATGCCAGATCCTTTTT
*
12807846 TGGCTCAGTCCAAGTTGTTTA
66 CGGCTCAGTCCAAGTTGTTTA
* * * * * * * *
12807867 TTTTAGA-TTTCAGTTCAAT-CAAGTCATTTTGTTTTTAGATTTTAG-CCTATGCTAGATCCTTC
1 TTTCAGACTTT-GGTTCAATCCAGGTCATTTTGTTTTT-GAATTTCGACATATGCCAGATCCTTT
*
12807929 TTCGGCTTAGTCCAAGTTGTTTA
64 TTCGGCTCAGTCCAAGTTGTTTA
* * * ** *
12807952 TTTCAGACTTTGATTCAATCCAGGTCATTTTGTTTTT-AGATTTTGACTTACACCAAAT-CTTTC
1 TTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGA-ATTTCGACATATGCCAGATCCTTT-
* *
12808015 TTCAGTTCAGTCCAAGTTGTTTA
64 TTCGGCTCAGTCCAAGTTGTTTA
* * * *
12808038 TTTCAAACTTTGGTTTAATCTAGGTCATTGTGTTTT
1 TTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTT
12808074 GGGTCTTAGC
Statistics
Matches: 301, Mismatches: 70, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
84 1 0.00
85 72 0.24
86 228 0.76
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (86 bp):
TTTCAGACTTTGGTTCAATCCAGGTCATTTTGTTTTTGAATTTCGACATATGCCAGATCCTTTTT
CGGCTCAGTCCAAGTTGTTTA
Found at i:12808097 original size:171 final size:171
Alignment explanation
Indices: 12807743--12808101 Score: 398
Period size: 171 Copynumber: 2.1 Consensus size: 171
12807733 AATTTCGACA
* * **
12807743 TATGCCAGATCCTTTTTCAACTCAGTCCAAGTTGTTTATTTCAGACTTCGGTTCAATTTAAGTCA
1 TATGCCAGATCCTTCTTCAACTCAGTCCAAGTTGTTTATTTCAGACTTCGATTCAATCCAAGTCA
* * * *** * * ** * *
12807808 TTTTGTTTTTGGGTTTTGGCCTAGGTCAGATCTTTTTTTGGCTCAGTCCAAGTTGTTTATTTTAG
66 TTTTGTTTTTAGATTTTGACCTACACCAAATCTTTCTTCAGCTCAGTCCAAGTTGTTTATTTCAA
* *
12807873 ATTTCAGTTCAATCAAGTCATTTTGTTTTTAGATTTTAGCC
131 ATTTCAGTTCAATCAAGTCATTGTGTTTTTAGATCTTAGCC
* ** * * *
12807914 TATGCTAGATCCTTCTTCGGCTTAGTCCAAGTTGTTTATTTCAGACTTTGATTCAATCCAGGTCA
1 TATGCCAGATCCTTCTTCAACTCAGTCCAAGTTGTTTATTTCAGACTTCGATTCAATCCAAGTCA
* *
12807979 TTTTGTTTTTAGATTTTGACTTACACCAAATCTTTCTTCAGTTCAGTCCAAGTTGTTTATTTCAA
66 TTTTGTTTTTAGATTTTGACCTACACCAAATCTTTCTTCAGCTCAGTCCAAGTTGTTTATTTCAA
* * * * * *
12808044 ACTTT-GGTTTAATCTAGGTCATTGTG-TTTTGGGTCTTAGCT
131 A-TTTCAGTTCAATC-AAGTCATTGTGTTTTTAGATCTTAGCC
12808085 TATGCCAGATCCTTCTT
1 TATGCCAGATCCTTCTT
12808102 TAGGTTATTC
Statistics
Matches: 153, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
171 141 0.92
172 12 0.08
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (171 bp):
TATGCCAGATCCTTCTTCAACTCAGTCCAAGTTGTTTATTTCAGACTTCGATTCAATCCAAGTCA
TTTTGTTTTTAGATTTTGACCTACACCAAATCTTTCTTCAGCTCAGTCCAAGTTGTTTATTTCAA
ATTTCAGTTCAATCAAGTCATTGTGTTTTTAGATCTTAGCC
Found at i:12808647 original size:19 final size:20
Alignment explanation
Indices: 12808623--12808661 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12808613 CCAGAATCAG
*
12808623 ATTGAA-TTTTTCGATGATA
1 ATTGAAGTTTTTCGACGATA
12808642 ATTGAAGTTTTTCGACGATA
1 ATTGAAGTTTTTCGACGATA
12808662 CTCCGACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.44
Consensus pattern (20 bp):
ATTGAAGTTTTTCGACGATA
Found at i:12809187 original size:22 final size:22
Alignment explanation
Indices: 12809145--12809187 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
12809135 TTTTCAATGA
* *
12809145 TTTTTTTAATAAAATTCTAAAT
1 TTTTTTTAAGAAAAGTCTAAAT
12809167 TTTTTTTAAGGAAAAGT-TAAA
1 TTTTTTTAA-GAAAAGTCTAAA
12809188 AGTATCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTTTTAAGAAAAGTCTAAAT
Found at i:12818215 original size:19 final size:18
Alignment explanation
Indices: 12818191--12818234 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
12818181 ACTTAAAAAT
*
12818191 AAAAAACAAACAAAAGAGA
1 AAAAAAAAAACAAAAGA-A
*
12818210 AAAAAAAAAAGAAAAGAA
1 AAAAAAAAAACAAAAGAA
12818228 AAAAAAA
1 AAAAAAA
12818235 TTTAGGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAACAAAAGAA
Found at i:12819034 original size:16 final size:15
Alignment explanation
Indices: 12819013--12819061 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 15
12819003 GTTATTTGGA
12819013 AAATAAAGAGAAAAAG
1 AAAT-AAGAGAAAAAG
12819029 AAATAA-AG-AAAAG
1 AAATAAGAGAAAAAG
*
12819042 AAATGAGAGAAAAAGG
1 AAATAAGAGAAAAA-G
12819058 AAAT
1 AAAT
12819062 GGAAGTTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 10 0.34
14 4 0.14
15 6 0.21
16 9 0.31
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.08
Consensus pattern (15 bp):
AAATAAGAGAAAAAG
Found at i:12819622 original size:51 final size:51
Alignment explanation
Indices: 12819429--12819707 Score: 257
Period size: 50 Copynumber: 5.5 Consensus size: 51
12819419 GATTTTTATG
* * * *
12819429 GATGAGATCTTTTAAAGTTGTCGAGCATTTATTTAAAAGAGCTTCTTCCTAA
1 GATGAGAT-TTTTAAAGTTGTCGAGCCTTTATTTAAAAGAACTTTTTCTTAA
* * * * * *
12819481 TATGAGATTTTTAAA-TTGTCCAGCTTTTGTTTAAAAGAGCTTTTTCTCGAA
1 GATGAGATTTTTAAAGTTGTCGAGCCTTTATTTAAAAGAACTTTTTCT-TAA
* *
12819532 -ATGAG-TTTTTAAAGTTGTTGAGCCTTTATTTAAAGGAACTTTTTCTTAA
1 GATGAGATTTTTAAAGTTGTCGAGCCTTTATTTAAAAGAACTTTTTCTTAA
*
12819581 GATGAGATTTTTAAAGTTGTCAAGCCTTTATTTAAAAGAACTTTTT-TTATTCGA
1 GATGAGATTTTTAAAGTTGTCGAGCCTTTATTTAAAAGAACTTTTTCTTA----A
* * * * * * *
12819635 GATGAAAATTTTAAA-ATATCGAGTCTTTGTTTAAATA-AAC-TTTTCCTAA
1 GATGAGATTTTTAAAGTTGTCGAGCCTTTATTTAAA-AGAACTTTTTCTTAA
*
12819684 GATGAGATTTTGAAAGTTGTCGAG
1 GATGAGATTTTTAAAGTTGTCGAG
12819708 TCATTGTTTA
Statistics
Matches: 186, Mismatches: 30, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
49 23 0.12
50 72 0.39
51 45 0.24
52 11 0.06
53 20 0.11
54 15 0.08
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (51 bp):
GATGAGATTTTTAAAGTTGTCGAGCCTTTATTTAAAAGAACTTTTTCTTAA
Found at i:12819962 original size:46 final size:48
Alignment explanation
Indices: 12819834--12819971 Score: 151
Period size: 46 Copynumber: 3.0 Consensus size: 48
12819824 TAAAAAGAAT
* *
12819834 AGGAGT-TTTTAAATTCATTTTCAAAAGTTGTGGAGCCTCTAAT-AAG
1 AGGAGTATTTTAAATTTATTTTCAAAAGTTGTGGAACCTCTAATGAAG
* * * *
12819880 AGGAGTATTTTCAAATTTGTTTT-TAAAGTTATGGAACTTCTAATGAA-
1 AGGAGTATTTT-AAATTTATTTTCAAAAGTTGTGGAACCTCTAATGAAG
* * *
12819927 ATGAG-CTTTTAAATTTATTTTCAAAAGCTGTGGAACCTCTAATGA
1 AGGAGTATTTTAAATTTATTTTCAAAAGTTGTGGAACCTCTAATGA
12819972 GAAGAGTTTT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
45 10 0.13
46 29 0.39
47 25 0.33
48 11 0.15
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.39
Consensus pattern (48 bp):
AGGAGTATTTTAAATTTATTTTCAAAAGTTGTGGAACCTCTAATGAAG
Found at i:12820985 original size:173 final size:176
Alignment explanation
Indices: 12820617--12821053 Score: 482
Period size: 173 Copynumber: 2.5 Consensus size: 176
12820607 CAGATTTTGA
* *
12820617 ATTGGGATGAGAATTTTAGG-CTT-AATTTTTTCACACATGTG-TGACACTAGATGACCTATGTT
1 ATTGGGATGAGAA-TTTAGGACTTGAATTTTTTCACA-AGGTGCT-ACACTAGATAACCTATGTT
* * * *
12820679 TAAGAATATTTTGGTTATTTTAGAAGCACAAATTGGTGCTCGAAAGAATTAAAAATAGAAGCCAT
63 CAAGAAT-TTTTGGTGATTTTAAAAGCACAAATTGATGCTC-AAAGAA-TAAAAATAGAAGCCAT
* * * * * *
12820744 GTTTAGAATTTCTTAAAGCTACATAGGTAGCATTTCAAGCTAGTTTTGATCC
125 GTTTAGAATTTCATAAAGCTACATAAGCAGCATTTCAAACTAATTTTGAACC
* **
12820796 ATATGGGATGAGAATTT-GGACTTGAGTTTTTTCACATAGGTGCTACACTAGATAATATATGTTC
1 AT-TGGGATGAGAATTTAGGACTTGAATTTTTTCACA-AGGTGCTACACTAGATAACCTATGTTC
* * *
12820860 AAGAATTTTTGGGAGATTTTAAAAGCACAAATTGATGCTC-AA-AA-AAACA-A-AAGCCTTGTT
64 AAGAATTTTT-GGTGATTTTAAAAGCACAAATTGATGCTCAAAGAATAAAAATAGAAGCCATGTT
**
12820920 TAGAATTTCATAAAGCTATGTAAGCAGCATTTCAAACTAATTTTGAACC
128 TAGAATTTCATAAAGCTACATAAGCAGCATTTCAAACTAATTTTGAACC
*
12820969 ACTTGGGATGAGAATTTAGGGA--TGAATTTTTTTCACACGTGTGCTACACTAGATAACCTATGT
1 A-TTGGGATGAGAATTTA-GGACTTGAA-TTTTTTCACAAG-GTGCTACACTAGATAACCTATGT
*
12821032 TCAAGATTTTTTGGTGATTTTA
62 TCAAGAATTTTTGGTGATTTTA
12821054 GAACTTCAAG
Statistics
Matches: 221, Mismatches: 27, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
173 78 0.35
174 44 0.20
175 7 0.03
177 2 0.01
178 4 0.02
179 12 0.05
180 73 0.33
181 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (176 bp):
ATTGGGATGAGAATTTAGGACTTGAATTTTTTCACAAGGTGCTACACTAGATAACCTATGTTCAA
GAATTTTTGGTGATTTTAAAAGCACAAATTGATGCTCAAAGAATAAAAATAGAAGCCATGTTTAG
AATTTCATAAAGCTACATAAGCAGCATTTCAAACTAATTTTGAACC
Found at i:12822719 original size:19 final size:19
Alignment explanation
Indices: 12822697--12822763 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 19
12822687 AACACTAAGT
*
12822697 CAAATCTTAAACCTTAAAA
1 CAAACCTTAAACCTTAAAA
* * * **
12822716 CAAA-CTGAATCCCTAATT
1 CAAACCTTAAACCTTAAAA
*
12822734 CAAACCTTAAACCTTAAGA
1 CAAACCTTAAACCTTAAAA
12822753 CAAACCTTAAA
1 CAAACCTTAAA
12822764 ATCAAAGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
18 13 0.35
19 24 0.65
ACGTcount: A:0.48, C:0.25, G:0.03, T:0.24
Consensus pattern (19 bp):
CAAACCTTAAACCTTAAAA
Found at i:12822720 original size:38 final size:37
Alignment explanation
Indices: 12822678--12822838 Score: 103
Period size: 38 Copynumber: 4.3 Consensus size: 37
12822668 AACTCAAGGT
* * *
12822678 CAAACCCCTAACACTAAGTCAAATCTTAAACCTTAAAA
1 CAAA-CCCTAACACTAAGTCAAACCCTAAACCTTAAGA
* * *
12822716 CAAA--CTGAATCCCTAATTCAAACCTTAAACCTTAAGA
1 CAAACCCT-AA-CACTAAGTCAAACCCTAAACCTTAAGA
* * * * *
12822753 CAAACCTTAAAATCAAAGTCAAATCCC-AAACCTTAGGT
1 CAAACCCTAACA-CTAAGTCAAA-CCCTAAACCTTAAGA
* * * *
12822791 CAAACCCCAAACTCTAAGTCAAACCCTAAACCCTAAGT
1 CAAA-CCCTAACACTAAGTCAAACCCTAAACCTTAAGA
*
12822829 CCAACCCTAA
1 CAAACCCTAA
12822839 ACCAAACCTT
Statistics
Matches: 94, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
35 2 0.02
36 2 0.02
37 35 0.37
38 48 0.51
39 7 0.07
ACGTcount: A:0.44, C:0.31, G:0.05, T:0.20
Consensus pattern (37 bp):
CAAACCCTAACACTAAGTCAAACCCTAAACCTTAAGA
Found at i:12822811 original size:19 final size:18
Alignment explanation
Indices: 12822768--12822841 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 18
12822758 CTTAAAATCA
*
12822768 AAGTCAAATCCCAAACCTT
1 AAGTCAAACCCCAAACC-T
*
12822787 AGGTCAAACCCCAAACTCT
1 AAGTCAAACCCCAAAC-CT
*
12822806 AAGTCAAACCCTAAACCCT
1 AAGTCAAACCCCAAA-CCT
* *
12822825 AAGTCCAACCCTAAACC
1 AAGTCAAACCCCAAACC
12822842 AAACCTTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.04
19 44 0.92
20 2 0.04
ACGTcount: A:0.41, C:0.36, G:0.07, T:0.16
Consensus pattern (18 bp):
AAGTCAAACCCCAAACCT
Found at i:12822846 original size:12 final size:12
Alignment explanation
Indices: 12822818--12822897 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 12
12822808 GTCAAACCCT
*
12822818 AAACCCTAAGTCC
1 AAACCCTAA-ACC
12822831 -AACCCTAAACC
1 AAACCCTAAACC
* * *
12822842 AAACCTTTAATC
1 AAACCCTAAACC
*
12822854 AAACCTTAAACC
1 AAACCCTAAACC
*
12822866 TTAAACCCTAAACT
1 --AAACCCTAAACC
*
12822880 AAACCATAAACC
1 AAACCCTAAACC
12822892 TAAACC
1 -AAACC
12822898 AAACTATAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
11 2 0.04
12 36 0.68
13 5 0.09
14 10 0.19
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (12 bp):
AAACCCTAAACC
Found at i:12822895 original size:18 final size:18
Alignment explanation
Indices: 12822834--12822932 Score: 83
Period size: 18 Copynumber: 5.4 Consensus size: 18
12822824 TAAGTCCAAC
* *
12822834 CCTAAACCAAACCTTTAA
1 CCTAAACCAAACCATAAA
* *
12822852 TC-AAACCTTAAACCTTAAA
1 CCTAAACC--AAACCATAAA
*
12822871 CCCTAAACTAAACCATAAA
1 -CCTAAACCAAACCATAAA
*
12822890 CCTAAACCAAACTATAAA
1 CCTAAACCAAACCATAAA
* * *
12822908 CTTAAACCAAACCTTAAC
1 CCTAAACCAAACCATAAA
12822926 CCTAAAC
1 CCTAAAC
12822933 GATAAGCCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
17 5 0.08
18 37 0.57
19 18 0.28
20 1 0.02
21 4 0.06
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.20
Consensus pattern (18 bp):
CCTAAACCAAACCATAAA
Found at i:12822919 original size:5 final size:6
Alignment explanation
Indices: 12822854--12823027 Score: 65
Period size: 7 Copynumber: 28.0 Consensus size: 6
12822844 ACCTTTAATC
*
12822854 AAACCTT AAACCTT AAACCCT AAA-CT AAACCAT AAACCT AAACC- AAACTAT
1 AAACC-T AAACC-T AAA-CCT AAACCT AAACC-T AAACCT AAACCT AAAC-CT
* * * * *
12822905 AAACTT AAACC- AAACCTT AACCCT AAACGAT AAGCC- AAACCT CGAACCCT
1 AAACCT AAACCT AAACC-T AAACCT AAAC-CT AAACCT AAACCT --AAACCT
* * * * * * *
12822955 AAACTT AACCCT AAGCC- AAACCCC AAACCCT AAACTT AACCCT AAA-CA
1 AAACCT AAACCT AAACCT AAA-CCT AAA-CCT AAACCT AAACCT AAACCT
12823003 AAACCTT AAACCTT AAACC- AAACCT
1 AAACC-T AAACC-T AAACCT AAACCT
12823028 GACGCTAAAG
Statistics
Matches: 128, Mismatches: 23, Indels: 33
0.70 0.12 0.18
Matches are distributed among these distances:
5 29 0.23
6 39 0.30
7 53 0.41
8 7 0.05
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.17
Consensus pattern (6 bp):
AAACCT
Found at i:12822923 original size:12 final size:12
Alignment explanation
Indices: 12822831--12822924 Score: 66
Period size: 12 Copynumber: 7.7 Consensus size: 12
12822821 CCCTAAGTCC
*
12822831 AACCCTAAACCA
1 AACCTTAAACCA
* *
12822843 AACCTTTAATCA
1 AACCTTAAACCA
12822855 AACCTTAAACCTTA
1 AACCTTAAACC--A
* *
12822869 AACCCTAAACTA
1 AACCTTAAACCA
*
12822881 AACCATAAACCTA
1 AACCTTAAACC-A
*
12822894 AACC--AAACTA
1 AACCTTAAACCA
*
12822904 TAAACTTAAACCA
1 -AACCTTAAACCA
12822917 AACCTTAA
1 AACCTTAA
12822925 CCCTAAACGA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
10 1 0.02
11 7 0.11
12 35 0.56
13 10 0.16
14 10 0.16
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (12 bp):
AACCTTAAACCA
Found at i:12822970 original size:31 final size:31
Alignment explanation
Indices: 12822935--12823020 Score: 118
Period size: 31 Copynumber: 2.8 Consensus size: 31
12822925 CCCTAAACGA
*
12822935 TAAGCCAAACCTCGAACCCTAAACTTAACCC
1 TAAGCCAAACCTCAAACCCTAAACTTAACCC
*
12822966 TAAGCCAAACCCCAAACCCTAAACTTAACCC
1 TAAGCCAAACCTCAAACCCTAAACTTAACCC
* * * *
12822997 TAAACAAAACCTTAAACCTTAAAC
1 TAAGCCAAACCTCAAACCCTAAAC
12823021 CAAACCTGAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.44, C:0.36, G:0.03, T:0.16
Consensus pattern (31 bp):
TAAGCCAAACCTCAAACCCTAAACTTAACCC
Found at i:12823395 original size:119 final size:119
Alignment explanation
Indices: 12823184--12823419 Score: 454
Period size: 119 Copynumber: 2.0 Consensus size: 119
12823174 TATAGTTAAA
12823184 CTTAATAAATGGAGTCACCACCAATCCTTTTTAACTAGGTGTGATTGGCCAACTAAGGAATCTAT
1 CTTAATAAATGGAGTCACCACCAATCCTTTTTAACTAGGTGTGATTGGCCAACTAAGGAATCTAT
*
12823249 CCTTTTAAGGAGCTCTTAAGCTTGACTAAGGGTCCCTAAAAGAATAGGTTCAGG
66 CCTTTTAAGGAGCTCTTAAGCTTGACTAAAGGTCCCTAAAAGAATAGGTTCAGG
*
12823303 CTTAATAAATGGAGTCACCACTAATCCTTTTTAACTAGGTGTGATTGGCCAACTAAGGAATCTAT
1 CTTAATAAATGGAGTCACCACCAATCCTTTTTAACTAGGTGTGATTGGCCAACTAAGGAATCTAT
12823368 CCTTTTAAGGAGCTCTTAAGCTTGACTAAAGGTCCCTAAAAGAATAGGTTCA
66 CCTTTTAAGGAGCTCTTAAGCTTGACTAAAGGTCCCTAAAAGAATAGGTTCA
12823420 AGTTTACTAA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (119 bp):
CTTAATAAATGGAGTCACCACCAATCCTTTTTAACTAGGTGTGATTGGCCAACTAAGGAATCTAT
CCTTTTAAGGAGCTCTTAAGCTTGACTAAAGGTCCCTAAAAGAATAGGTTCAGG
Found at i:12823815 original size:53 final size:51
Alignment explanation
Indices: 12823740--12823925 Score: 183
Period size: 53 Copynumber: 3.5 Consensus size: 51
12823730 ATCTAATTAT
* * *
12823740 TCCACCATTTGAGCCAAATTAGAAATATTTTCTCTTTTTGAATCTCTAAATTC
1 TCCACCTTTTG-GCCTATTTAGAAATATTTTCT-TTTTTGAATCTCTAAATTC
* * ** * *
12823793 TCCACCATTTTGGCCTATTTAGAAATTCTTTTTATTTTTTTTTATTTCTAAATTT
1 TCCACC-TTTTGGCCTATTTAGAAA-T-ATTTT-CTTTTTTGAATCTCTAAATTC
* **
12823848 TTCACCTTTTGGGTTAATTTAGAAATATTTTCTTTTCTTGAATCTCTAAATTC
1 TCCACCTTTTGGCCT-ATTTAGAAATATTTTCTTTT-TTGAATCTCTAAATTC
12823901 TCCACCTTTTGGGCCTATTTAGAAA
1 TCCACCTTTT-GGCCTATTTAGAAA
12823926 ATCTTTTTAT
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
52 4 0.04
53 51 0.49
54 16 0.15
55 33 0.31
56 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.09, T:0.48
Consensus pattern (51 bp):
TCCACCTTTTGGCCTATTTAGAAATATTTTCTTTTTTGAATCTCTAAATTC
Found at i:12824007 original size:50 final size:53
Alignment explanation
Indices: 12823934--12824033 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 53
12823924 AAATCTTTTT
* *
12823934 ATTTCTAAATTTTTCACTTTTTGGGTCAATTTA-AAATTT-TTTT-TTTTGAA
1 ATTTCTAAATTTTTCACTATTTGGGCCAATTTAGAAATTTCTTTTATTTTGAA
* *
12823984 ATTTCTAAATTTTTC-GTCATTTGGGCCTATTTAGAAATTTCTTTTATTTT
1 ATTTCTAAATTTTTCACT-ATTTGGGCCAATTTAGAAATTTCTTTTATTTT
12824034 CTTGGAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 1 0.02
50 27 0.64
51 6 0.14
52 4 0.10
53 4 0.10
ACGTcount: A:0.24, C:0.10, G:0.09, T:0.57
Consensus pattern (53 bp):
ATTTCTAAATTTTTCACTATTTGGGCCAATTTAGAAATTTCTTTTATTTTGAA
Found at i:12824032 original size:95 final size:98
Alignment explanation
Indices: 12823831--12824020 Score: 271
Period size: 95 Copynumber: 2.0 Consensus size: 98
12823821 TTTTTATTTT
*
12823831 TTTTTATTTCTAAATTTTTCACCTTTTGGGTTAATTTAGAAATATTTTCTTTTCTTGAATCTCTA
1 TTTTTATTTCTAAATTTTTCACCTTTTGGGTCAATTTAGAAATATTTTCTTTTCTTGAATCTCTA
*
12823896 AATTCTCCACCTTTTGGGCCTATTTAGAAAATC
66 AATTCTCCACCATTTGGGCCTATTTAGAAAATC
* *
12823929 TTTTTATTTCTAAATTTTTCACTTTTTGGGTCAATTTA-AAAT-TTTT-TTTT-TTGAAATTTCT
1 TTTTTATTTCTAAATTTTTCACCTTTTGGGTCAATTTAGAAATATTTTCTTTTCTTG-AATCTCT
* * **
12823990 AAATTTTTCGTCATTTGGGCCTATTTAGAAA
65 AAATTCTCCACCATTTGGGCCTATTTAGAAA
12824021 TTTCTTTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
94 3 0.04
95 36 0.43
96 4 0.05
97 4 0.05
98 36 0.43
ACGTcount: A:0.25, C:0.13, G:0.09, T:0.53
Consensus pattern (98 bp):
TTTTTATTTCTAAATTTTTCACCTTTTGGGTCAATTTAGAAATATTTTCTTTTCTTGAATCTCTA
AATTCTCCACCATTTGGGCCTATTTAGAAAATC
Found at i:12824381 original size:8 final size:8
Alignment explanation
Indices: 12824370--12824414 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
12824360 TAATTCCAAA
12824370 ATTTTTAT
1 ATTTTTAT
12824378 ATTTTTAT
1 ATTTTTAT
*
12824386 GTTTTTAT
1 ATTTTTAT
12824394 ATTTTTAT
1 ATTTTTAT
*
12824402 A-TTATAT
1 ATTTTTAT
12824409 ATTTTT
1 ATTTTT
12824415 TGTGTTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 6 0.19
8 26 0.81
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTTAT
Found at i:12825695 original size:42 final size:42
Alignment explanation
Indices: 12825648--12825860 Score: 161
Period size: 41 Copynumber: 5.1 Consensus size: 42
12825638 AGTAAACAAA
* * ** *
12825648 GCTCCTCTAAATAAAGACTCAATGACTTTTAAAAAATAAATT
1 GCTCCTCTAAACAAAGACACAACAACTTTTAAAAAATAAAAT
* * * *
12825690 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAATAAAAT
1 GCTCCTCTAAACAAAGACACAACAACTTTTAAAAAATAAAAT
* * *
12825732 GCTCCTCTAAACAGAAG-CACCACAAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACA-AAGACACAACAACTTTTAAAAAATAAAAT
* * * * *
12825773 ACTTCT-TAAA-ATAGAGGCATC-ACAAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACA-A-AGACA-CAACAACTTTTAAAAAATAAAAT
* * *
12825814 GCTCCTTTAAACAAAGACACCACAAC-TTTGAAAAATAAAAT
1 GCTCCTCTAAACAAAGACACAACAACTTTTAAAAAATAAAAT
12825855 GCTCCT
1 GCTCCT
12825861 TAATGATCAT
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 2 0.01
40 7 0.05
41 73 0.50
42 61 0.42
43 3 0.02
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.25
Consensus pattern (42 bp):
GCTCCTCTAAACAAAGACACAACAACTTTTAAAAAATAAAAT
Found at i:12825797 original size:41 final size:41
Alignment explanation
Indices: 12825679--12825860 Score: 249
Period size: 41 Copynumber: 4.4 Consensus size: 41
12825669 ATGACTTTTA
12825679 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAAC-TTTG
* *
12825721 AAAAATAAAATGCTCCTCTAAACAGAAGCACCACAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
* * * *
12825762 AAAAATAAATTACTTCT-TAAAATAGAGGCATCACAACTTTG
1 AAAAATAAATTGCTCCTCT-AAACAGAGGCACCACAACTTTG
* * *
12825803 AAAAATAAATTGCTCCTTTAAACAAAGACACCACAACTTTG
1 AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
*
12825844 AAAAATAAAATGCTCCT
1 AAAAATAAATTGCTCCT
12825861 TAATGATCAT
Statistics
Matches: 123, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 86 0.70
42 36 0.29
ACGTcount: A:0.46, C:0.21, G:0.09, T:0.24
Consensus pattern (41 bp):
AAAAATAAATTGCTCCTCTAAACAGAGGCACCACAACTTTG
Found at i:12826340 original size:59 final size:58
Alignment explanation
Indices: 12826265--12826382 Score: 164
Period size: 58 Copynumber: 2.0 Consensus size: 58
12826255 CTTTCATTCT
* * * * *
12826265 AGTTTGAAGATTCACATTCGATGAACTTTAGGGTTGCACATCTTAAAGATTCTCATTTG
1 AGTTCGAAGATTCACATTCGAT-AAATTTAGAGTTGCACACCTCAAAGATTCTCATTTG
* *
12826324 AGTTCGAAGATTCACATTCGATAAATTTTGAGTTTCACACCTCAAAGATTCTCATTTG
1 AGTTCGAAGATTCACATTCGATAAATTTAGAGTTGCACACCTCAAAGATTCTCATTTG
12826382 A
1 A
12826383 AATACAAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
58 31 0.60
59 21 0.40
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (58 bp):
AGTTCGAAGATTCACATTCGATAAATTTAGAGTTGCACACCTCAAAGATTCTCATTTG
Found at i:12827694 original size:22 final size:21
Alignment explanation
Indices: 12827669--12827727 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
12827659 TTCAATTCTT
12827669 TCTTTTATTTTTTTTATTTTCA
1 TCTTTTATTTTTTTT-TTTTCA
*
12827691 TCTTTTGTTTTCTTTTTTTTCA
1 TCTTTTATTTT-TTTTTTTTCA
* * *
12827713 TTTTTTCTTCTTTTT
1 TCTTTTATTTTTTTT
12827728 CATCTTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 24 0.75
23 4 0.12
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.80
Consensus pattern (21 bp):
TCTTTTATTTTTTTTTTTTCA
Found at i:12827706 original size:10 final size:9
Alignment explanation
Indices: 12827641--12827727 Score: 57
Period size: 10 Copynumber: 8.8 Consensus size: 9
12827631 TCAATTTGAG
*
12827641 TCTTTCTTT
1 TCTTTTTTT
12827650 TCTCTTTTTT
1 TCT-TTTTTT
** *
12827660 TCAATTCTT
1 TCTTTTTTT
12827669 TCTTTTATTT
1 TCTTTT-TTT
*
12827679 TTTTTATTTT
1 TCTTT-TTTT
12827689 CATCTTTTGTTT
1 --TCTTTT-TTT
12827701 TCTTTTTTT
1 TCTTTTTTT
12827710 TCATTTTTTCT
1 TC-TTTTTT-T
12827721 TCTTTTT
1 TCTTTTT
12827728 CATCTTTTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
9 16 0.26
10 33 0.54
11 5 0.08
12 7 0.11
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.77
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:12827720 original size:17 final size:18
Alignment explanation
Indices: 12827698--12827737 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
12827688 TCATCTTTTG
*
12827698 TTTTCTTTTTTTTCAT-T
1 TTTTCTTCTTTTTCATCT
12827715 TTTTCTTCTTTTTCATCT
1 TTTTCTTCTTTTTCATCT
12827733 TTTTC
1 TTTTC
12827738 CATCCATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCTTCTTTTTCATCT
Found at i:12827728 original size:39 final size:36
Alignment explanation
Indices: 12827664--12827735 Score: 99
Period size: 39 Copynumber: 1.9 Consensus size: 36
12827654 TTTTTTTCAA
12827664 TTCTTTCTTTTATTTTTTTTATTTTCATCTTTTGTT
1 TTCTTTCTTTTATTTTTTTTATTTTCATCTTTTGTT
* *
12827700 TTCTTTTTTTTCATTTTTTCTTCTTTTTCATCTTTT
1 TTCTTTCTTTT-ATTTTTT-TT-ATTTTCATCTTTT
12827736 TCCATCCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 10 0.32
37 7 0.23
38 2 0.06
39 12 0.39
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.78
Consensus pattern (36 bp):
TTCTTTCTTTTATTTTTTTTATTTTCATCTTTTGTT
Found at i:12827736 original size:20 final size:19
Alignment explanation
Indices: 12827676--12827736 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
12827666 CTTTCTTTTA
*
12827676 TTTTTTTT-ATTTTCATCT
1 TTTTTTTTCTTTTTCATCT
* **
12827694 TTTGTTTTCTTTTTTTTCAT
1 TTTTTTTTCTTTTTCATC-T
*
12827714 TTTTTCTTCTTTTTCATCT
1 TTTTTTTTCTTTTTCATCT
12827733 TTTT
1 TTTT
12827737 CCATCCATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 7 0.21
19 11 0.33
20 15 0.45
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTTTCTTTTTCATCT
Found at i:12828599 original size:17 final size:17
Alignment explanation
Indices: 12828577--12828609 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12828567 TGGTTGAATT
12828577 AAAGAGAAAATGTAATG
1 AAAGAGAAAATGTAATG
12828594 AAAGAGAAAATGTAAT
1 AAAGAGAAAATGTAAT
12828610 AAAATGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (17 bp):
AAAGAGAAAATGTAATG
Found at i:12831961 original size:107 final size:107
Alignment explanation
Indices: 12831850--12832071 Score: 232
Period size: 107 Copynumber: 2.1 Consensus size: 107
12831840 TTTTTTTGGG
* *
12831850 TTTTTTGTCAAAAATATATCT-AATTAATCTA-CTATTTGGGCCAAATTAGAAATATTTTCTCTT
1 TTTTTTATCAAAAATATATCTAAATTAATC-ACCT-GTTGGGCCAAATTAGAAATATTTTCTCTT
* * *
12831913 TTTGAATCTCTGAATTCTCCACCATTTGTGCCTATTTAGAAATT
64 TTTGAATCTCTAAATGCTCCACCATTTGGGCCTATTTAGAAATT
****** * * ** * * *
12831957 TTTTTTATTTTTTTTGTTTCTAAATTTTTCACCTGTTGGGTCAATTTAGAAATATTTTCTTTTTT
1 TTTTTTATCAAAAATATATCTAAATTAATCACCTGTTGGGCCAAATTAGAAATATTTTCTCTTTT
* *
12832022 TTAATCTCTAAATGCTCCACCATTTGGGTCTATTTAGAAATT
66 TGAATCTCTAAATGCTCCACCATTTGGGCCTATTTAGAAATT
12832064 TTTTTTAT
1 TTTTTTAT
12832072 TTTTTTTATT
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
107 85 0.91
108 8 0.09
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (107 bp):
TTTTTTATCAAAAATATATCTAAATTAATCACCTGTTGGGCCAAATTAGAAATATTTTCTCTTTT
TGAATCTCTAAATGCTCCACCATTTGGGCCTATTTAGAAATT
Found at i:12831968 original size:53 final size:54
Alignment explanation
Indices: 12831883--12832124 Score: 222
Period size: 54 Copynumber: 4.5 Consensus size: 54
12831873 TTAATCTACT
* * * * * * *
12831883 ATTTGGGCCAAATTAGAAATATTTTCT-CTTTTTGAATCTCTGAATTCTCCACC
1 ATTTGGGCCTATTTAGAAATTTTTTTTATTTTTTTAATCTCTAAATTCTCCACC
* ** * * *
12831936 ATTTGTGCCTATTTAGAAATTTTTTTTATTTTTTTTGTTTCTAAATTTTTCACC
1 ATTTGGGCCTATTTAGAAATTTTTTTTATTTTTTTAATCTCTAAATTCTCCACC
* * * * *
12831990 -TGTTGGGTCAATTTAGAAATATTTTCT-TTTTTTTAATCTCTAAATGCTCCACC
1 AT-TTGGGCCTATTTAGAAATTTTTTTTATTTTTTTAATCTCTAAATTCTCCACC
* * * *
12832043 ATTTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATT-TTCACC
1 ATTTGGGCCTATTTAGAAATTTTTTTTATTTTTTTAATCTCT-AAATTCTCCACC
*
12832097 ATTTGGGCCTATTTATAAATTCTTTTTT
1 ATTTGGGCCTATTTAGAAATT-TTTTTT
12832125 TTTCTTAGAA
Statistics
Matches: 150, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
53 65 0.43
54 75 0.50
55 10 0.07
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.53
Consensus pattern (54 bp):
ATTTGGGCCTATTTAGAAATTTTTTTTATTTTTTTAATCTCTAAATTCTCCACC
Found at i:12832007 original size:54 final size:54
Alignment explanation
Indices: 12831932--12832124 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 54
12831922 CTGAATTCTC
* * *
12831932 CACCATTTGTGCCTATTTAGAAATTTTTTTTATTTTTTTTGTTTCTAAATTTTT
1 CACCATTTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAATTTTT
* * * * * ** *
12831986 CACC-TGTTGGGTCAATTTAGAAATATTTTCT-TTTTTTTAATCTCTAAATGCTC
1 CACCAT-TTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAATTTTT
*
12832039 CACCATTTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATTTT
1 CACCATTTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAATTTTT
* *
12832093 CACCATTTGGGCCTATTTATAAATTCTTTTTT
1 CACCATTTGGGTCTATTTAGAAATT-TTTTTT
12832125 TTTCTTAGAA
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
53 43 0.38
54 64 0.57
55 6 0.05
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (54 bp):
CACCATTTGGGTCTATTTAGAAATTTTTTTTATTTTTTTTATTTCTAAATTTTT
Found at i:12832111 original size:107 final size:107
Alignment explanation
Indices: 12831883--12832116 Score: 344
Period size: 107 Copynumber: 2.2 Consensus size: 107
12831873 TTAATCTACT
* * * *
12831883 ATTTGGGCCAAATTAGAAATATTTTCTCTTTTTGAATCTCTGAATTCTCCACCATTTGTGCCTAT
1 ATTTGGGCCAATTTAGAAATATTTTCTCTTTTTGAATCTCTAAATGCTCCACCATTTGGGCCTAT
* *
12831948 TTAGAAATTTTTTTTATTTTTTTTGTTTCTAAATTTTTCACC
66 TTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATTTTCACC
* * * *
12831990 -TGTTGGGTCAATTTAGAAATATTTTCTTTTTTTTAATCTCTAAATGCTCCACCATTTGGGTCTA
1 AT-TTGGGCCAATTTAGAAATATTTTCTCTTTTTGAATCTCTAAATGCTCCACCATTTGGGCCTA
12832054 TTTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATTTTCACC
65 TTTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATTTTCACC
* *
12832097 ATTTGGGCCTATTTATAAAT
1 ATTTGGGCCAATTTAGAAAT
12832117 TCTTTTTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
106 1 0.01
107 110 0.98
108 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (107 bp):
ATTTGGGCCAATTTAGAAATATTTTCTCTTTTTGAATCTCTAAATGCTCCACCATTTGGGCCTAT
TTAGAAATTTTTTTTATTTTTTTTATTTCTAAAATTTTCACC
Found at i:12832720 original size:22 final size:22
Alignment explanation
Indices: 12832681--12832735 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
12832671 TTTAATCATG
12832681 CAAAAATACTAAAAAAATAA-ACA
1 CAAAAA-A-TAAAAAAATAATACA
* *
12832704 CATAAAAATAAATAAATAATACC
1 CA-AAAAATAAAAAAATAATACA
12832727 CAAAAAATA
1 CAAAAAATA
12832736 CCAAAAACGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 17 0.61
23 7 0.25
24 4 0.14
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (22 bp):
CAAAAAATAAAAAAATAATACA
Found at i:12836017 original size:19 final size:21
Alignment explanation
Indices: 12835992--12836037 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
12835982 AATTGTTGTA
*
12835992 GAATTTT-TGAAATTGTTACT
1 GAATTTTGTGAAATTGATACT
12836012 -AATTTTGTGAAATTGATACT
1 GAATTTTGTGAAATTGATACT
12836032 GAATTT
1 GAATTT
12836038 GAAATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 12 0.52
21 5 0.22
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (21 bp):
GAATTTTGTGAAATTGATACT
Found at i:12836042 original size:18 final size:18
Alignment explanation
Indices: 12835996--12836043 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
12835986 GTTGTAGAAT
*
12835996 TTTTGAAATTGTTACTAA
1 TTTTGAAATTGATACTAA
12836014 TTTTGTGAAATTGATACTGAA
1 -TTT-TGAAATTGATACT-AA
12836035 -TTTGAAATT
1 TTTTGAAATT
12836044 AATATGCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.27
19 5 0.19
20 12 0.46
21 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (18 bp):
TTTTGAAATTGATACTAA
Found at i:12849755 original size:37 final size:37
Alignment explanation
Indices: 12849714--12849787 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
12849704 TTTTTTCGTT
*
12849714 TTTTTTATTTATCTATGTTGTGATAATGTCTCATTTG
1 TTTTTTATTTATCTACGTTGTGATAATGTCTCATTTG
12849751 TTTTTTATTTATCTACGTTGTGATAATGTCTCATTTG
1 TTTTTTATTTATCTACGTTGTGATAATGTCTCATTTG
12849788 GCCTTTTAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.09, G:0.14, T:0.58
Consensus pattern (37 bp):
TTTTTTATTTATCTACGTTGTGATAATGTCTCATTTG
Found at i:12851232 original size:22 final size:21
Alignment explanation
Indices: 12851198--12851239 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
12851188 ACATTAATAT
12851198 TAAAAGAAAATTTTTAAAAATTC
1 TAAAAGAAAA--TTTAAAAATTC
12851221 TAAAA-AAAATTTAAAAATT
1 TAAAAGAAAATTTAAAAATT
12851240 TTGAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAAGAAAATTTAAAAATTC
Found at i:12851253 original size:18 final size:18
Alignment explanation
Indices: 12851233--12851268 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12851223 AAAAAAATTT
*
12851233 AAAAATTTTGAAATTTTTA
1 AAAAATTAT-AAATTTTTA
12851252 AAAAATTATAAATTTTT
1 AAAAATTATAAATTTTT
12851269 GTTAAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAAAATTATAAATTTTTA
Found at i:12851301 original size:11 final size:10
Alignment explanation
Indices: 12851204--12851308 Score: 79
Period size: 10 Copynumber: 10.6 Consensus size: 10
12851194 ATATTAAAAG
12851204 AAAATTTTTA
1 AAAATTTTTA
* *
12851214 AAAATTCTAA
1 AAAATTTTTA
**
12851224 AAAAAATTTA
1 AAAATTTTTA
12851234 AAAA-TTTT-
1 AAAATTTTTA
*
12851242 GAAATTTTTA
1 AAAATTTTTA
* *
12851252 AAAAATTATA
1 AAAATTTTTA
**
12851262 AATTTTTGTTA
1 AAAATTT-TTA
* * *
12851273 AAAGTTATAA
1 AAAATTTTTA
12851283 AAAATTTTTA
1 AAAATTTTTA
12851293 AAAATTTTTA
1 AAAATTTTTA
12851303 AAAATT
1 AAAATT
12851309 CTAAAAAGTT
Statistics
Matches: 70, Mismatches: 22, Indels: 6
0.71 0.22 0.06
Matches are distributed among these distances:
8 3 0.04
9 7 0.10
10 54 0.77
11 6 0.09
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (10 bp):
AAAATTTTTA
Found at i:12852705 original size:23 final size:23
Alignment explanation
Indices: 12852677--12852729 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
12852667 AGTTTTGAAT
12852677 TTTTTTAGAATTTTTATAAAAA-
1 TTTTTTAGAATTTTTATAAAAAC
12852699 TGTTTTTAGAATTTTTATAAAAAC
1 T-TTTTTAGAATTTTTATAAAAAC
12852723 TTTTTTA
1 TTTTTTA
12852730 CAAAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTTTTAGAATTTTTATAAAAAC
Found at i:12852759 original size:10 final size:11
Alignment explanation
Indices: 12852677--12852766 Score: 60
Period size: 11 Copynumber: 8.0 Consensus size: 11
12852667 AGTTTTGAAT
12852677 TTTTTTAG-AA
1 TTTTTTAGAAA
*
12852687 TTTTTATAAAAA
1 TTTTT-TAGAAA
12852699 TGTTTTTAG-AA
1 T-TTTTTAGAAA
*
12852710 TTTTTATAAAAA
1 TTTTT-TAGAAA
*
12852722 CTTTTTTACAAAA
1 -TTTTTTA-GAAA
** *
12852735 AATTTCA-AAA
1 TTTTTTAGAAA
12852745 TTTTTTAGAAA
1 TTTTTTAGAAA
12852756 TTTTTTAGAAA
1 TTTTTTAGAAA
12852767 ATTTCTTTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 15
0.72 0.10 0.17
Matches are distributed among these distances:
10 16 0.25
11 21 0.33
12 13 0.21
13 13 0.21
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (11 bp):
TTTTTTAGAAA
Found at i:12852768 original size:12 final size:12
Alignment explanation
Indices: 12852741--12852770 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
12852731 AAAAAATTTC
12852741 AAAATTTTTTAG
1 AAAATTTTTTAG
12852753 -AAATTTTTTAG
1 AAAATTTTTTAG
12852764 AAAATTT
1 AAAATTT
12852771 CTTTTAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
AAAATTTTTTAG
Found at i:12854737 original size:22 final size:22
Alignment explanation
Indices: 12854711--12854758 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
12854701 ACTGGGTGAT
12854711 TGTGAATAAGATGGTTGACAGC
1 TGTGAATAAGATGGTTGACAGC
12854733 TGTGAATAAGATGGTTGACAGC
1 TGTGAATAAGATGGTTGACAGC
12854755 TGTG
1 TGTG
12854759 TGCTTGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.29
Consensus pattern (22 bp):
TGTGAATAAGATGGTTGACAGC
Found at i:12856830 original size:28 final size:28
Alignment explanation
Indices: 12856785--12856856 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
12856775 CTATTTCATT
12856785 ATATGATAGAAGCAATAGAAAATGACTAC
1 ATAT-ATAGAAGCAATAGAAAATGACTAC
* * * *
12856814 ATTTATAGAAGTAATAGAAAATGGCTGC
1 ATATATAGAAGCAATAGAAAATGACTAC
12856842 ATATATAGAAGCAAT
1 ATATATAGAAGCAAT
12856857 TTGATAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 34 0.92
29 3 0.08
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (28 bp):
ATATATAGAAGCAATAGAAAATGACTAC
Found at i:12859713 original size:42 final size:42
Alignment explanation
Indices: 12859610--12859706 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
12859600 CATTTCCTAC
* * * * * *
12859610 CCTTGCTACTTCAACTATATCTTTATTTTTTGTCCCTTCATT
1 CCTTACTACCTCAACTACATCTTGATTTTCTATCCCTTCATT
* * *
12859652 CCTTATTGCCTTAACTACATCTTGATTTTCTATCCCTTCATT
1 CCTTACTACCTCAACTACATCTTGATTTTCTATCCCTTCATT
12859694 CCTTACTACCTCA
1 CCTTACTACCTCA
12859707 GTTACATTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.19, C:0.30, G:0.04, T:0.47
Consensus pattern (42 bp):
CCTTACTACCTCAACTACATCTTGATTTTCTATCCCTTCATT
Found at i:12860754 original size:9 final size:10
Alignment explanation
Indices: 12860740--12860771 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
12860730 ATGAAAATTT
12860740 TTTTTTA-TA
1 TTTTTTATTA
12860749 TTTTTTATTA
1 TTTTTTATTA
12860759 -TTTTTATTA
1 TTTTTTATTA
12860768 TTTT
1 TTTT
12860772 ACAAGGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:12862466 original size:99 final size:98
Alignment explanation
Indices: 12862310--12862556 Score: 304
Period size: 99 Copynumber: 2.5 Consensus size: 98
12862300 CTTTTGGTAG
* * * *
12862310 AGGCTCAACAACTTTAAAAGTTTTAT-TTGAAAAGGCTTATCTCAA-CAGA-AGCTCAACAACTT
1 AGGCTCAACAACTTTAAAA-TTCTATCTTAAAAAAGCTTATCT-AAGTAGAGAGCTCAACAACTT
*
12862372 TAAAAGTCTTATATTGAAAAAAGACTTCTCTCAGTAA
64 TAAAAGTCTTATATTG-AAAAAG-CTTCTCTAAGTAA
* *
12862409 AGGCTCAACAACTTTAAAATTCTATCTTAAAAAAGCTTCTCTAAGTAGAGA-TTCAACAACTTTA
1 AGGCTCAACAACTTTAAAATTCTATCTTAAAAAAGCTTATCTAAGTAGAGAGCTCAACAACTTTA
* *
12862473 AAAGTCTTATATTGAAAAAGCTTCTTTAAGTAG
66 AAAGTCTTATATTGAAAAAGCTTCTCTAAGTAA
* * * *
12862506 AGGTTCAATAACTTTAAAAATCTCATCTTAAAAAAGCTTATCTAGGTAGAG
1 AGGCTCAACAACTTTAAAATTCT-ATCTTAAAAAAGCTTATCTAAGTAGAG
12862557 GTTTAACGAA
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
97 30 0.23
98 38 0.29
99 61 0.47
100 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (98 bp):
AGGCTCAACAACTTTAAAATTCTATCTTAAAAAAGCTTATCTAAGTAGAGAGCTCAACAACTTTA
AAAGTCTTATATTGAAAAAGCTTCTCTAAGTAA
Found at i:12862557 original size:49 final size:49
Alignment explanation
Indices: 12862306--12862559 Score: 262
Period size: 49 Copynumber: 5.2 Consensus size: 49
12862296 GTTCCTTTTG
* * * * *
12862306 GTAGAGGCTCAACAACTTTAAAAGTTTTAT-TTGAAAAGGCTTATCTCAA
1 GTAGAGGTTCAACAACTTTAAAAGTCTTATATTAAAAAAGCTTCTCT-AA
* * * *
12862355 -CAGAAGCTCAACAACTTTAAAAGTCTTATATTGAAAAAAGACTTCTCTCA
1 GTAGAGGTTCAACAACTTTAAAAGTCTTATATT-AAAAAAG-CTTCTCTAA
* * * *
12862405 GTAAAGGCTCAACAACTTTAAAATTC-TATCTTAAAAAAGCTTCTCTAA
1 GTAGAGGTTCAACAACTTTAAAAGTCTTATATTAAAAAAGCTTCTCTAA
* * *
12862453 GTAGAGATTCAACAACTTTAAAAGTCTTATATTGAAAAAGCTTCTTTAA
1 GTAGAGGTTCAACAACTTTAAAAGTCTTATATTAAAAAAGCTTCTCTAA
* * * * * *
12862502 GTAGAGGTTCAATAACTTTAAAAATCTCATCTTAAAAAAGCTTATCTAG
1 GTAGAGGTTCAACAACTTTAAAAGTCTTATATTAAAAAAGCTTCTCTAA
12862551 GTAGAGGTT
1 GTAGAGGTT
12862560 TAACGAAGAT
Statistics
Matches: 171, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 56 0.33
49 77 0.45
50 11 0.06
51 27 0.16
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (49 bp):
GTAGAGGTTCAACAACTTTAAAAGTCTTATATTAAAAAAGCTTCTCTAA
Found at i:12862874 original size:99 final size:99
Alignment explanation
Indices: 12862733--12863594 Score: 910
Period size: 99 Copynumber: 8.7 Consensus size: 99
12862723 TAAATAATTT
* * * * * * * *
12862733 TTTAACGCTCGAATATTACTACCGAGAAGATGCAAATGACTTCAGATATTGCCACCGAAAGAAAC
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAGAAAC
* * *
12862798 TCGAATATCACCATTGAGAAAATGTAAATCAAAC
66 TCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * * *
12862832 CTTAACACTCGGATATCACCATCAAGAATATGTAAATGACTTCAGATATCGCCACC-AAAGGAAA
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAA-GAAA
* *
12862896 CTCGAATATCACCATCGAGAAAATGTAATTGAAGC
65 CTCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * *
12862931 TTTAACACTCGGATATCACCACTGAGAATATGTAAATGACTTCGAATATCGCCATCG-AAGAAAA
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAG-AAA
* * * *
12862995 CTCGAATATCATCATCGAGAAAATGCAATTGAAGC
65 CTCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * * * * * **
12863030 TTTAACACTTGAATATCACCACCGAGAATATGCAAATAACTTCGAATATCACCA-TTAAAGGAAA
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAA-GAAA
* * * * * * *
12863094 CTCAAATATCGCCATCGAGGAAATATAAATCAACC
65 CTCGAATATCACCATAGAGAAAATGTAATTCAAGC
** *
12863129 TTTAACACTCGGATATCACCACCGAGAATATACAAATGACTTTGGATATCGCCACC-AAAGGAAA
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAA-GAAA
* * * *
12863193 CTCCAATATCACCATAGAGAAAATATAAATCAACC
65 CTCGAATATCACCATAGAGAAAATGTAATTCAAGC
** * * * *
12863228 TTTAACACTTAGATATCACCACCAAGAATATGTAAATGACTTCGGATGTCACCACCGAAGGAAAC
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAGAAAC
* *
12863293 TCGAATATCACCATAGAAAAAATGTAATTGAAGC
66 TCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * * *
12863327 TTTAACACTCGGATATCACTATCGAGAATATGCAAATGACTTCGGATATCGCCACCAAAAGAAAC
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAGAAAC
* * * *
12863392 TTGAATATCACCA-AAAAAAAATGCAATTCAAGC
66 TCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * * * * * * * *
12863425 TTTAATAATCGGATATTACCACTGAGAAGATGTAAATGACTTTGGATATCACTACTG-AAGAAAA
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAG-AAA
* * *
12863489 CTCGAATATCACCATAAAAAAAATGCAATTCAAGC
65 CTCGAATATCACCATAGAGAAAATGTAATTCAAGC
* * * * *
12863524 TTTAATACTTGGATATCACCACCAAGAAGATGTAAATGACTTCAGATATCGCCACC-AAAGAAAC
1 TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAGAAA-
12863588 CTCGAAT
65 CTCGAAT
12863595 GATTTTTTAG
Statistics
Matches: 647, Mismatches: 105, Indels: 22
0.84 0.14 0.03
Matches are distributed among these distances:
97 3 0.00
98 84 0.13
99 557 0.86
100 3 0.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (99 bp):
TTTAACACTCGGATATCACCACCGAGAATATGTAAATGACTTCGGATATCGCCACCGAAAGAAAC
TCGAATATCACCATAGAGAAAATGTAATTCAAGC
Found at i:12863004 original size:24 final size:23
Alignment explanation
Indices: 12862972--12863017 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
12862962 GTAAATGACT
*
12862972 TCGAATATCGCCATCGAAGAAAAC
1 TCGAATATCACCATCG-AGAAAAC
*
12862996 TCGAATATCATCATCGAGAAAA
1 TCGAATATCACCATCGAGAAAA
12863018 TGCAATTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (23 bp):
TCGAATATCACCATCGAGAAAAC
Found at i:12863245 original size:297 final size:297
Alignment explanation
Indices: 12862733--12863594 Score: 1021
Period size: 297 Copynumber: 2.9 Consensus size: 297
12862723 TAAATAATTT
* * * * * ** *
12862733 TTTAACGCTCGAATATTACTACCGAGAAGATGCAAATGACTTC-AGATATTGCCACCGAAAGAAA
1 TTTAACACTCGAATATCACCACCGAGAATATGCAAATAACTTCGA-ATATCACCACCAAAAGAAA
* * *
12862797 CTCGAATATCACCATTGAGAAAATGTAAATCAAACC-TTAACACTCGGATATCACCATCAAGAAT
65 CTCGAATATCACCATAGAGAAAATGTAAATC-AACCTTTAACACTCGGATATCACCACCGAGAAT
** *
12862861 ATGTAAATGACTTCAGATATCGCCACCAAAGGAAACTCGAATATCACCATCGAGAAAATGTAATT
129 ATGTAAATGACTTTGGATATCGCCACCAAAGGAAACTCGAATATCACCATAGAGAAAATGTAATT
* * ** *
12862926 GAAGCTTTAACACTCGGATATCACCACTGAGAATATGTAAATGACTTCGAATATCGCCATCGAAG
194 CAAGCTTTAACACTTGGATATCACCACCAAGAATATGTAAATGACTTCGAATATCGCCACCGAAG
* * *
12862991 AAAACTCGAATATCATCATCGAGAAAATGCAATTGAAGC
259 AAAACTCGAATATCACCATAGAAAAAATGCAATTGAAGC
* ** *
12863030 TTTAACACTTGAATATCACCACCGAGAATATGCAAATAACTTCGAATATCACCATTAAAGGAAAC
1 TTTAACACTCGAATATCACCACCGAGAATATGCAAATAACTTCGAATATCACCACCAAAAGAAAC
* * * * *
12863095 TCAAATATCGCCATCGAGGAAATATAAATCAACCTTTAACACTCGGATATCACCACCGAGAATAT
66 TCGAATATCACCATAGAGAAAATGTAAATCAACCTTTAACACTCGGATATCACCACCGAGAATAT
** * * *
12863160 ACAAATGACTTTGGATATCGCCACCAAAGGAAACTCCAATATCACCATAGAGAAAATATAAATCA
131 GTAAATGACTTTGGATATCGCCACCAAAGGAAACTCGAATATCACCATAGAGAAAATGTAATTCA
* * * * * *
12863225 ACCTTTAACACTTAGATATCACCACCAAGAATATGTAAATGACTTCGGATGTCACCACCGAAGGA
196 AGCTTTAACACTTGGATATCACCACCAAGAATATGTAAATGACTTCGAATATCGCCACCGAAGAA
*
12863290 AACTCGAATATCACCATAGAAAAAATGTAATTGAAGC
261 AACTCGAATATCACCATAGAAAAAATGCAATTGAAGC
* * * * * *
12863327 TTTAACACTCGGATATCACTATCGAGAATATGCAAATGACTTCGGATATCGCCACCAAAAGAAAC
1 TTTAACACTCGAATATCACCACCGAGAATATGCAAATAACTTCGAATATCACCACCAAAAGAAAC
* * * * * * * * * * *
12863392 TTGAATATCACCA-AAAAAAAATGCAATTCAAGCTTTAATAATCGGATATTACCACTGAGAAGAT
66 TCGAATATCACCATAGAGAAAATGTAAATCAACCTTTAACACTCGGATATCACCACCGAGAATAT
* * ** * * * *
12863456 GTAAATGACTTTGGATATCACTACTGAAGAAAACTCGAATATCACCATAAAAAAAATGCAATTCA
131 GTAAATGACTTTGGATATCGCCACCAAAGGAAACTCGAATATCACCATAGAGAAAATGTAATTCA
* * *
12863521 AGCTTTAATACTTGGATATCACCACCAAGAAGATGTAAATGACTTC-AGATATCGCCACCAAAGA
196 AGCTTTAACACTTGGATATCACCACCAAGAATATGTAAATGACTTCGA-ATATCGCCACCGAAGA
*
12863585 AACCTCGAAT
260 AAACTCGAAT
12863595 GATTTTTTAG
Statistics
Matches: 471, Mismatches: 91, Indels: 7
0.83 0.16 0.01
Matches are distributed among these distances:
296 157 0.33
297 313 0.66
298 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (297 bp):
TTTAACACTCGAATATCACCACCGAGAATATGCAAATAACTTCGAATATCACCACCAAAAGAAAC
TCGAATATCACCATAGAGAAAATGTAAATCAACCTTTAACACTCGGATATCACCACCGAGAATAT
GTAAATGACTTTGGATATCGCCACCAAAGGAAACTCGAATATCACCATAGAGAAAATGTAATTCA
AGCTTTAACACTTGGATATCACCACCAAGAATATGTAAATGACTTCGAATATCGCCACCGAAGAA
AACTCGAATATCACCATAGAAAAAATGCAATTGAAGC
Found at i:12864058 original size:35 final size:35
Alignment explanation
Indices: 12863904--12864058 Score: 169
Period size: 35 Copynumber: 4.6 Consensus size: 35
12863894 CACTATGATA
12863904 CAAATGTCTTTTCTTAAAATGATG---ATGAAATG
1 CAAATGTCTTTTCTTAAAATGATGCACATGAAATG
* * *
12863936 CAACTGTCTTTTCTTAAAATGATGCATATGAGATG
1 CAAATGTCTTTTCTTAAAATGATGCACATGAAATG
* * * * * *
12863971 TAAATATCTTTTC--CAAATGATGTACTTGAAATA
1 CAAATGTCTTTTCTTAAAATGATGCACATGAAATG
12864004 CAAATGTCATTTT-TTAAAATGATGCACATGAAATG
1 CAAATGTC-TTTTCTTAAAATGATGCACATGAAATG
*
12864039 CAAATGTCTTTTCTAAAAAT
1 CAAATGTCTTTTCTTAAAAT
12864059 ACCAATACAC
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
32 23 0.23
33 20 0.20
34 8 0.08
35 47 0.48
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (35 bp):
CAAATGTCTTTTCTTAAAATGATGCACATGAAATG
Found at i:12868921 original size:19 final size:20
Alignment explanation
Indices: 12868893--12868941 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
12868883 TGCATGAAAA
12868893 TTTTTCTTTTCATTT-TTTGG-
1 TTTTT-TTTT-ATTTGTTTGGC
12868913 TTTTTTTTTATTTGTTTGGC
1 TTTTTTTTTATTTGTTTGGC
12868933 TTTTTTTTT
1 TTTTTTTTT
12868942 TTTCTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.15
19 9 0.33
20 14 0.52
ACGTcount: A:0.04, C:0.06, G:0.10, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTATTTGTTTGGC
Found at i:12871293 original size:10 final size:10
Alignment explanation
Indices: 12871247--12871301 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
12871237 TTTTTTGTTT
12871247 TTTTTTTC-A
1 TTTTTTTCTA
*
12871256 TTTTTTTGTA
1 TTTTTTTCTA
*
12871266 --TTTTTCTGC
1 TTTTTTTCT-A
*
12871275 TTGTTTTCTA
1 TTTTTTTCTA
12871285 TTTTTTTCTA
1 TTTTTTTCTA
12871295 TTTTTTT
1 TTTTTTT
12871302 GTGTAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
8 6 0.17
9 7 0.19
10 17 0.47
11 6 0.17
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.78
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:12871627 original size:26 final size:26
Alignment explanation
Indices: 12871577--12871646 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
12871567 TGGGTAGACC
*
12871577 TATTTTATTTTTTATTTTTATTTTTA
1 TATTTTATTTTTTATTTGTATTTTTA
*
12871603 TATTTTATATTTTTGTTTGTA-TTTTA
1 TATTTTAT-TTTTTATTTGTATTTTTA
* *
12871629 TGTATTTATTATTTATTT
1 TAT-TTTATTTTTTATTT
12871647 ATTTATTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (26 bp):
TATTTTATTTTTTATTTGTATTTTTA
Found at i:12871638 original size:4 final size:4
Alignment explanation
Indices: 12871625--12871867 Score: 79
Period size: 4 Copynumber: 63.8 Consensus size: 4
12871615 TTGTTTGTAT
* * *
12871625 TTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTTA CTCA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
12871671 TTTA -CTA TATTA -TTA -TTA -TTA TTTA TATG TTCA TATA TATA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* ** * * * *
12871716 -TTA -TTA CTTA GCTA TTTA TATA TTT- TATA TATA TGTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
12871760 -TTG TTTA TCTA TTTA TATA -TTA -TTA TTTA TCTA -TTA -TTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * *
12871802 TTTA TCTA TTTA TATA TTTTAA TTTA TCTA TTATT TTTA TTTA TCT- GTTA
1 TTTA TTTA TTTA TTTA -TTT-A TTTA TTTA TT-TA TTTA TTTA TTTA TTTA
*
12871852 GTTTT TTTA TTTA TTT
1 -TTTA TTTA TTTA TTT
12871868 GAATATTTTC
Statistics
Matches: 177, Mismatches: 47, Indels: 30
0.70 0.19 0.12
Matches are distributed among these distances:
3 44 0.25
4 120 0.68
5 12 0.07
6 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (4 bp):
TTTA
Found at i:12871658 original size:7 final size:7
Alignment explanation
Indices: 12871580--12871845 Score: 110
Period size: 7 Copynumber: 36.7 Consensus size: 7
12871570 GTAGACCTAT
*
12871580 TTTATTT
1 TTTATTA
12871587 TTTATT-
1 TTTATTA
12871593 TTTATT-
1 TTTATTA
12871599 TTTA-TA
1 TTTATTA
12871605 TTT-TATA
1 TTTAT-TA
*
12871612 TTT-TTG
1 TTTATTA
*
12871618 TTT-GTA
1 TTTATTA
12871624 TTTTATGTA
1 -TTTAT-TA
12871633 TTTATTA
1 TTTATTA
12871640 TTTATTTA
1 TTTA-TTA
12871648 TTTATTA
1 TTTATTA
*
12871655 TTTACTCA
1 TTTA-TTA
12871663 TTTATTTA
1 TTTA-TTA
*
12871671 TTTACTA
1 TTTATTA
12871678 TATTATTA
1 T-TTATTA
12871686 -TTATTA
1 TTTATTA
12871692 TTTA-TA
1 TTTATTA
12871698 TGTTCATATA
1 T-TT-AT-TA
*
12871708 TATATT-
1 TTTATTA
12871714 TATTATTA
1 T-TTATTA
* *
12871722 CTTAGCTA
1 TTTA-TTA
12871730 TTTATATA
1 TTTAT-TA
12871738 TTT-TATA
1 TTTAT-TA
*
12871745 TATATGTA
1 TTTAT-TA
12871753 TTTATTA
1 TTTATTA
12871760 TTGT-TTA
1 TT-TATTA
*
12871767 TCTATTTA
1 TTTA-TTA
*
12871775 TATATTA
1 TTTATTA
12871782 -TTATTTA
1 TTTA-TTA
*
12871789 TCTATTA
1 TTTATTA
12871796 -TTATTA
1 TTTATTA
12871802 TTTATCTA
1 TTTAT-TA
12871810 TTTATATA
1 TTTAT-TA
12871818 TTTTAATTTA
1 -TTT-A-TTA
*
12871828 TCTATTA
1 TTTATTA
12871835 TTT-TTA
1 TTTATTA
12871841 TTTAT
1 TTTAT
12871846 CTGTTAGTTT
Statistics
Matches: 203, Mismatches: 26, Indels: 60
0.70 0.09 0.21
Matches are distributed among these distances:
5 1 0.00
6 42 0.21
7 77 0.38
8 68 0.33
9 8 0.04
10 6 0.03
11 1 0.00
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:12871684 original size:16 final size:16
Alignment explanation
Indices: 12871632--12871676 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
12871622 TATTTTATGT
* *
12871632 ATTTA-TTATTTATTT
1 ATTTATTTATTTACTC
12871647 ATTTA-TTATTTACTC
1 ATTTATTTATTTACTC
12871662 ATTTATTTATTTACT
1 ATTTATTTATTTACT
12871677 ATATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTATTTATTTACTC
Found at i:12871717 original size:30 final size:29
Alignment explanation
Indices: 12871676--12871811 Score: 88
Period size: 30 Copynumber: 4.6 Consensus size: 29
12871666 ATTTATTTAC
12871676 TATATTA-TTATTATTATTTA-TATGTTCA
1 TATATTATTTATTATTATTTACTATGTT-A
*
12871704 TATATATATTTATTATTACTTAGCTAT-TTA
1 TATAT-TATTTATTATTATTTA-CTATGTTA
*
12871734 TATATT-TTATATATATGTATTTATTATTGTTTA
1 TATATTATT-TAT-TAT-TATTTACTA-TG-TTA
* *
12871767 TCTATTTATATATTATTATTTATCTA--TTA
1 TATA-TTATTTATTATTATTTA-CTATGTTA
12871796 T-TATTATTTATCTATT
1 TATATTATTTAT-TATT
12871812 TATATATTTT
Statistics
Matches: 87, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
27 7 0.08
28 13 0.15
29 10 0.11
30 23 0.26
31 8 0.09
32 9 0.10
33 11 0.13
34 5 0.06
35 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (29 bp):
TATATTATTTATTATTATTTACTATGTTA
Found at i:12871780 original size:22 final size:22
Alignment explanation
Indices: 12871626--12871833 Score: 122
Period size: 22 Copynumber: 9.7 Consensus size: 22
12871616 TGTTTGTATT
*
12871626 TTATGTATTTAT-TATTTATTTA
1 TTAT-TATTTATCTATTTATATA
*
12871648 TTTATTATTTA-CTCATTTATTTA
1 -TTATTATTTATCT-ATTTATATA
*
12871671 TTTACTATATTAT-TA-TTAT-TA
1 -TTATTAT-TTATCTATTTATATA
* * *
12871692 TT-TATATGTTCATATATATATTTA
1 TTAT-TAT-TT-ATCTATTTATATA
* *
12871716 TTATTACTTAGCTATTTATATA
1 TTATTATTTATCTATTTATATA
* * *
12871738 TT-TTA--TATATATGTATTTA
1 TTATTATTTATCTATTTATATA
*
12871757 TTATTGTTTATCTATTTATATA
1 TTATTATTTATCTATTTATATA
12871779 TTATTATTTATC----TAT-TA
1 TTATTATTTATCTATTTATATA
12871796 TTATTATTTATCTATTTATATA
1 TTATTATTTATCTATTTATATA
12871818 TT-TTAATTTATCTATT
1 TTATT-ATTTATCTATT
12871834 ATTTTTATTT
Statistics
Matches: 148, Mismatches: 18, Indels: 39
0.72 0.09 0.19
Matches are distributed among these distances:
17 14 0.09
18 3 0.02
19 12 0.08
20 9 0.06
21 12 0.08
22 61 0.41
23 26 0.18
24 10 0.07
25 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATTATTTATCTATTTATATA
Found at i:12871806 original size:63 final size:63
Alignment explanation
Indices: 12871580--12871845 Score: 164
Period size: 68 Copynumber: 4.1 Consensus size: 63
12871570 GTAGACCTAT
* * * *
12871580 TTTATTTTTTATT-TTTA-TTTTTA-TATTT-TATATTTTTGTT-TGTATTT-TATGTATTTATT
1 TTTATTTATTATTATTTACTATTTATTATTTATATATTATTATTAT-TATTTATATG--TTTATT
12871639 A
63 A
*
12871640 TTTATTTATTTATTATTTACTCATTTATTTATTTACTATATTATTATTATTATTTATATGTTCAT
1 TTTATTTA-TTATTATTTACT-ATTTA-TTATTTA-TATATTATTATTATTATTTATATGTTTAT
12871705 ATA
62 -TA
* *
12871708 TATATTTATTATTACTTAGCTATTTATATATTT-TATA-TA-TATGTATT-TATTAT-TGTTTAT
1 TTTATTTATTATTATTTA-CTATTTAT-TATTTATATATTATTAT-TATTAT-TTATATGTTTAT
12871768 CTA
62 -TA
* * * *
12871771 TTTATATATTATTATTTATCTATTATTATTATTTATCTATTTATATATT-TTAATTTATCT-ATT
1 TTTATTTATTATTATTTA-CTA-T-TTATTATTTATATA-TTAT-TATTATT-ATTTATATGTTT
12871834 ATT-
60 ATTA
12871837 TTTATTTAT
1 TTTATTTAT
12871846 CTGTTAGTTT
Statistics
Matches: 165, Mismatches: 16, Indels: 44
0.73 0.07 0.20
Matches are distributed among these distances:
60 7 0.04
61 5 0.03
62 4 0.02
63 31 0.19
64 20 0.12
65 11 0.07
66 14 0.08
67 28 0.17
68 35 0.21
69 10 0.06
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (63 bp):
TTTATTTATTATTATTTACTATTTATTATTTATATATTATTATTATTATTTATATGTTTATTA
Found at i:12871817 original size:39 final size:38
Alignment explanation
Indices: 12871622--12871847 Score: 203
Period size: 39 Copynumber: 5.8 Consensus size: 38
12871612 TTTTTGTTTG
* *
12871622 TATTTTATGTATTTATTATTTATTTATTTAT-TATTTACTCA
1 TATTTTATTTATCTATTA-TTA-TTATTTATCTATTTA-T-A
*
12871663 TTTATTTATTTA-CTA-TATTATTA-TTAT-TATTTATA
1 TAT-TTTATTTATCTATTATTATTATTTATCTATTTATA
* * * * * *
12871698 T-GTTCATATATATATTTATTATTACTTAGCTATTTATA
1 TATTTTATTTATCTA-TTATTATTATTTATCTATTTATA
* *
12871736 TATTTTATATATATGTATTTATTATTGTTTATCTATTTATA
1 TATTTTAT-T-TATCTA-TTATTATTATTTATCTATTTATA
12871777 TATTATTATTTATCTATTATTATTATTTATCTATTTATA
1 TATT-TTATTTATCTATTATTATTATTTATCTATTTATA
*
12871816 TATTTTAATTTATCTATTATTTTTATTTATCT
1 TATTTT-ATTTATCTATTATTATTATTTATCT
12871848 GTTAGTTTTT
Statistics
Matches: 156, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
33 6 0.04
34 2 0.01
35 2 0.01
36 9 0.06
37 13 0.08
38 14 0.09
39 57 0.37
40 7 0.04
41 35 0.22
42 11 0.07
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (38 bp):
TATTTTATTTATCTATTATTATTATTTATCTATTTATA
Found at i:12871856 original size:17 final size:17
Alignment explanation
Indices: 12871782--12871866 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
12871772 TTATATATTA
12871782 TTATTTATCTATTA-TT
1 TTATTTATCTATTAGTT
*
12871798 ATTATTTATCTATTTATATATT
1 -TTATTTATCTA--T-TA-GTT
*
12871820 TTAATTTATCTATTATTT
1 TT-ATTTATCTATTAGTT
*
12871838 TTATTTATCTGTTAGTT
1 TTATTTATCTATTAGTT
*
12871855 TT-TTTATTTATT
1 TTATTTATCTATT
12871867 TGAATATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.14
17 26 0.46
18 4 0.07
19 3 0.05
20 3 0.05
21 2 0.04
22 11 0.19
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (17 bp):
TTATTTATCTATTAGTT
Found at i:12871860 original size:20 final size:20
Alignment explanation
Indices: 12871835--12871906 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 20
12871825 TTATCTATTA
*
12871835 TTTTTATTTATCTGTTAGTT
1 TTTTTATTTATCTGTTAATT
* * *
12871855 TTTTTATTTATTTGAATATTT
1 TTTTTATTTATCTG-TTAATT
* *
12871876 TCTTTTAATTATCTATTAAATT
1 T-TTTTATTTATCTGTT-AATT
12871898 TTTTTATTT
1 TTTTTATTT
12871907 GATTTTTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 14 0.35
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTATTTATCTGTTAATT
Found at i:12872855 original size:12 final size:10
Alignment explanation
Indices: 12872827--12872861 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
12872817 AATATATATT
12872827 TTTATTTTTA
1 TTTATTTTTA
12872837 TTTATTTTTA
1 TTTATTTTTA
12872847 CTTTCATTTTTA
1 -TTT-ATTTTTA
12872859 TTT
1 TTT
12872862 TATTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 6 0.26
12 7 0.30
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:12872954 original size:59 final size:59
Alignment explanation
Indices: 12872891--12873167 Score: 328
Period size: 58 Copynumber: 4.7 Consensus size: 59
12872881 AATAAAATTC
12872891 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCT
* * *
12872950 -AAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGACAATAAGCTTTCT
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCT
* * * * * ** *
12873008 AAAAGAATATTTTTGAGAAAAAGTCGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCG
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCT
*** * * * * *
12873067 AAAGTGA-ACTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCG-AAATCAAAAGTTTCA
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT--AAACTTTCT
12873126 AAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCC
12873168 CTGTACAAAA
Statistics
Matches: 183, Mismatches: 30, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
57 3 0.02
58 86 0.47
59 65 0.36
60 29 0.16
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (59 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCT
Found at i:12873045 original size:117 final size:116
Alignment explanation
Indices: 12872891--12873167 Score: 344
Period size: 117 Copynumber: 2.4 Consensus size: 116
12872881 AATAAAATTC
* * * *
12872891 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAACTTTCTAAA-AA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAACTTTCGAAAGAA
* * *
12872955 ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGACAAT-AAGCTTTCT
66 A-ACTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGA-AATAAAG-TTTCA
* * ** **
12873008 AAAAGAATATTTTTGAGAAAAAGTCGAAAGTATCAATTTTCCTTAAAAACAAGTTTTCGAAAGTG
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAACTTTCGAAAGAA
* *
12873073 AACTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATCAAAAGTTTCA
66 AACTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAT--AAAGTTTCA
12873126 AAAAAAATATTTTT-AGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCC
12873168 CTGTACAAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
116 3 0.02
117 91 0.66
118 41 0.30
119 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.34
Consensus pattern (116 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAACTTTCGAAAGAA
AACTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATAAAGTTTCA
Found at i:12882531 original size:42 final size:40
Alignment explanation
Indices: 12882467--12882805 Score: 360
Period size: 42 Copynumber: 8.2 Consensus size: 40
12882457 AAGATTGTCA
12882467 AGGAGCAATTTATTTTCCAAAGTTGTGATGCCTCTGATTAG
1 AGGAGCAATTTATTTTCCAAAGTTGTGA-GCCTCTGATTAG
* * *
12882508 AGGAGCAATCTATTCTTCCAAAGTTGTGATGCCTTTGTTTAG
1 AGGAGCAATTTATT-TTCCAAAGTTGTGA-GCCTCTGATTAG
* *
12882550 AGGAGCAATTTATTTTTCAAAGTTGTGATGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCCAAAGTTGTGA-GCCTCTGATTAG
*
12882591 AGGAGCAATTTATTTTTCAAAGTTGTCGAGCCTCTGATTAG
1 AGGAGCAATTTATTTTCCAAAGTTGT-GAGCCTCTGATTAG
* *
12882632 AGGAGCTATTTACTTTTCAAAAGTCAT-TGAGCCTCTGATTAG
1 AGGAGCAATTTA-TTTTCCAAAGT--TGTGAGCCTCTGATTAG
* * *
12882674 AGGAGCCATTTACTTTCCAAAAGTTGTTGAGTCTCTGATTAG
1 AGGAGCAATTTATTTTCC-AAAGTTG-TGAGCCTCTGATTAG
* * * *
12882716 AGGAGCTTTAGTTATTTTCC-AAGTCGTTGAGCCTCTTATTAG
1 AGGAGC--AATTTATTTTCCAAAGTTG-TGAGCCTCTGATTAG
* *
12882758 AGGAGCTTTATTTATTTT-CAAAGTTATTGAGCCTCTGATTAG
1 AGGAGC--AATTTATTTTCCAAAGTT-GTGAGCCTCTGATTAG
12882800 AGGAGC
1 AGGAGC
12882806 TTTGTTTATG
Statistics
Matches: 262, Mismatches: 24, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.00
41 91 0.35
42 159 0.61
43 1 0.00
44 10 0.04
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.38
Consensus pattern (40 bp):
AGGAGCAATTTATTTTCCAAAGTTGTGAGCCTCTGATTAG
Found at i:12882806 original size:42 final size:41
Alignment explanation
Indices: 12882467--12882846 Score: 356
Period size: 42 Copynumber: 9.0 Consensus size: 41
12882457 AAGATTGTCA
* *
12882467 AGGAGCAATTTATTTTCCAAAGTTG-TGATGCCTCTGATTAG
1 AGGAGCTATTTATTTTTCAAAGTTGTTGA-GCCTCTGATTAG
* * * * *
12882508 AGGAGCAATCTATTCTTCCAAAGTTG-TGATGCCTTTGTTTAG
1 AGGAGCTATTTATT-TTTCAAAGTTGTTGA-GCCTCTGATTAG
* *
12882550 AGGAGCAATTTATTTTTCAAAGTTG-TGATGCCTCTGTTTAG
1 AGGAGCTATTTATTTTTCAAAGTTGTTGA-GCCTCTGATTAG
* *
12882591 AGGAGCAATTTATTTTTCAAAGTTGTCGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* **
12882632 AGGAGCTATTTACTTTTCAAAAGTCATTGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAG
* * * *
12882674 AGGAGCCATTTACTTTCCAAAAGTTGTTGAGTCTCTGATTAG
1 AGGAGCTATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAG
* * * *
12882716 AGGAGCTTTAGTTA-TTTTCCAAGTCGTTGAGCCTCTTATTAG
1 AGGAGC--TATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
*
12882758 AGGAGCTTTATTTA-TTTTCAAAGTTATTGAGCCTCTGATTAG
1 AGGAGC--TATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
* * **
12882800 AGGAGCTTTGTTTATGTTTTTCAAAGTCGTCAAGCCTCTGATTAG
1 AGGAGC--TATTTA--TTTTTCAAAGTTGTTGAGCCTCTGATTAG
12882845 AG
1 AG
12882847 AAGTTTTGAT
Statistics
Matches: 296, Mismatches: 35, Indels: 12
0.86 0.10 0.03
Matches are distributed among these distances:
41 90 0.30
42 172 0.58
43 4 0.01
44 4 0.01
45 26 0.09
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCTATTTATTTTTCAAAGTTGTTGAGCCTCTGATTAG
Found at i:12883040 original size:6 final size:6
Alignment explanation
Indices: 12883029--12883194 Score: 59
Period size: 6 Copynumber: 26.3 Consensus size: 6
12883019 GGTAGGCCCA
* * * * * *
12883029 TTTTAT TTTTAT TTATAT TTTATAT TTATAT ATTTAT ATTTAT ATAT-T
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
12883077 TTTTCT TTTTCT TTGTA- TTTTAT GTATTTAT TATTTATT TATTTAT TATTACT
1 TTTTAT TTTTAT TTTTAT TTTTAT -T-TTTAT T-TTTA-T T-TTTAT TTTTA-T
* ** * *
12883130 ATTTAT TAATATT TATTTAT TTATTAT TTATTAT TTATAT ATTTA- TTTTAT
1 TTTTAT TTTTA-T T-TTTAT TT-TTAT TT-TTAT TTTTAT TTTTAT TTTTAT
* *
12883181 TATTAT TATTAT TT
1 TTTTAT TTTTAT TT
12883195 ATATGTTCAT
Statistics
Matches: 124, Mismatches: 25, Indels: 22
0.73 0.15 0.13
Matches are distributed among these distances:
5 11 0.09
6 64 0.52
7 35 0.28
8 14 0.11
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (6 bp):
TTTTAT
Found at i:12883066 original size:14 final size:14
Alignment explanation
Indices: 12883032--12883330 Score: 122
Period size: 14 Copynumber: 20.5 Consensus size: 14
12883022 AGGCCCATTT
*
12883032 TATTTTTATTTATA
1 TATTTATATTTATA
12883046 T-TTTATATTTATA
1 TATTTATATTTATA
12883059 TATTTATATTTATA
1 TATTTATATTTATA
* *
12883073 TATTT-T-TTCTTTT
1 TATTTATATT-TATA
* * *
12883086 TCTTTGTATTTTATG
1 TATTTATA-TTTATA
*
12883101 TATTTATTATTTATT
1 TATTTA-TATTTATA
*
12883116 TATTTATTATTACTATT
1 TATTTA-TATT--TATA
* *
12883133 TATTAATATTTATT
1 TATTTATATTTATA
12883147 TATTTATTATTTAT-
1 TATTTA-TATTTATA
12883161 TATTTATATATT-TA
1 TATTTATAT-TTATA
12883175 T-TTTAT-TATTATTA
1 TATTTATAT-TTA-TA
12883189 TTATTTATATGTTCATA
1 -TATTTATAT-TT-ATA
12883206 TA--TATATTTATTA
1 TATTTATATTTA-TA
*
12883219 TTACTTAGCTATTTATA
1 -TATTTA--TATTTATA
*
12883236 TATTATTATATATGTATT
1 TA-T-TTATAT-T-TATA
*
12883254 TA-TTATTATTTATC
1 TATTTA-TATTTATA
12883268 TATTTATATATTAT-
1 TATTTATAT-TTATA
*
12883282 TATTTATCTATTAT-
1 TATTTATAT-TTATA
*
12883296 TA-TTATTATTTATC
1 TATTTA-TATTTATA
*
12883310 TATTTATCTATTATA
1 TATTTATAT-TTATA
12883325 -ATTTAT
1 TATTTAT
12883331 CTATTATTTT
Statistics
Matches: 232, Mismatches: 19, Indels: 68
0.73 0.06 0.21
Matches are distributed among these distances:
12 7 0.03
13 39 0.17
14 81 0.35
15 48 0.21
16 25 0.11
17 17 0.07
18 15 0.06
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (14 bp):
TATTTATATTTATA
Found at i:12883147 original size:42 final size:41
Alignment explanation
Indices: 12883104--12883349 Score: 204
Period size: 36 Copynumber: 6.3 Consensus size: 41
12883094 TTTTATGTAT
* *
12883104 TTATTATTTATTTATTTAT-TATTACTATTTATTAATATTTA
1 TTATTATTTATCTATTTATATATTA-TATATATTAATATTTA
*
12883145 -T-TTATTTAT-TATTTAT-TATT-TATATATTTAT-TTTA
1 TTATTATTTATCTATTTATATATTATATATATTAATATTTA
* *
12883180 TTATTA-TTAT-TATTTATATGTT-CATATA-T-ATATTTA
1 TTATTATTTATCTATTTATATATTATATATATTAATATTTA
* * *
12883216 TTATTACTTAGCTATTTATATATTAT-TATA-TATGTATTTA
1 TTATTATTTATCTATTTATATATTATATATATTA-ATATTTA
* *
12883256 TTATTATTTATCTATTTATATATTATTATTTATCTATTA-TTA
1 TTATTATTTATCTATTTATATATTA-TATATAT-TAATATTTA
* *
12883298 TTATTATTTATCTATTTATCTATTATA-AT-TT-ATCTATTA
1 TTATTATTTATCTATTTATATATTATATATATTAATAT-TTA
*
12883337 TTTTTATTTATCT
1 TTATTATTTATCT
12883350 GTTAGTATTT
Statistics
Matches: 173, Mismatches: 17, Indels: 32
0.78 0.08 0.14
Matches are distributed among these distances:
35 6 0.03
36 32 0.18
37 15 0.09
38 28 0.16
39 24 0.14
40 31 0.18
41 3 0.02
42 30 0.17
43 2 0.01
44 2 0.01
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (41 bp):
TTATTATTTATCTATTTATATATTATATATATTAATATTTA
Found at i:12883331 original size:14 final size:14
Alignment explanation
Indices: 12883092--12883343 Score: 130
Period size: 14 Copynumber: 18.9 Consensus size: 14
12883082 TTTTTCTTTG
* *
12883092 TATT-TTATGTATT
1 TATTATTATTTATC
*
12883105 TATTATTTATTTATT
1 TATTA-TTATTTATC
* *
12883120 TATTATTA-CTATT
1 TATTATTATTTATC
* *
12883133 TATTAATATTTATT
1 TATTATTATTTATC
12883147 TATTTATTATTTAT-
1 TA-TTATTATTTATC
* *
12883161 TA-T-TTATATATT
1 TATTATTATTTATC
12883173 TATT-TTA-TTAT-
1 TATTATTATTTATC
*
12883184 TATTATTATTTATA
1 TATTATTATTTATC
* * *
12883198 TGTTCATATATATATT
1 TATT-AT-TATTTATC
* *
12883214 TATTATTACTTAGC
1 TATTATTATTTATC
*
12883228 TA-T-TTATATAT-
1 TATTATTATTTATC
* *
12883239 TATTATATATGTATT
1 TATTAT-TATTTATC
12883254 TATTATTATTTATC
1 TATTATTATTTATC
12883268 TA-T-TTA--TA--
1 TATTATTATTTATC
12883276 TATTATTATTTATC
1 TATTATTATTTATC
12883290 TATTATTA-TTAT-
1 TATTATTATTTATC
12883302 TATTTATCTATTTATC
1 TA-TTAT-TATTTATC
*
12883318 TATTATAATTTATC
1 TATTATTATTTATC
12883332 TATTATT-TTTAT
1 TATTATTATTTAT
12883344 TTATCTGTTA
Statistics
Matches: 191, Mismatches: 23, Indels: 50
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.01
9 1 0.01
10 5 0.03
11 13 0.07
12 22 0.12
13 39 0.20
14 57 0.30
15 41 0.21
16 11 0.06
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATTATTTATC
Found at i:12883331 original size:22 final size:21
Alignment explanation
Indices: 12883095--12883394 Score: 194
Period size: 22 Copynumber: 14.1 Consensus size: 21
12883085 TTCTTTGTAT
*
12883095 TTTATGTATTTATTATTTATTTA
1 TTTAT-TA-TTATTATTTATCTA
* *
12883118 TTTATTATTACTATTTATTAATA
1 TTTATTATTATTATTTA-T-CTA
12883141 TTTATTTATTTATTATTTAT-TA
1 TTTA-TTA-TTATTATTTATCTA
*
12883163 TTTATATATTTATTTTATTAT-TA
1 TTTAT-TA-TTATTAT-TTATCTA
*
12883186 -TTATTATT-TATATGTTCATATA
1 TTTATTATTAT-TAT-TT-ATCTA
* * *
12883208 TATATTTATTATTACTTAGCTA
1 TTTA-TTATTATTATTTATCTA
*
12883230 TTTA-TA-TATTA-TTATATA
1 TTTATTATTATTATTTATCTA
*
12883248 TGTATTTATTATTATTTATCTA
1 TTTA-TTATTATTATTTATCTA
12883270 TTTATATATTATTATTTATCTA
1 TTTAT-TATTATTATTTATCTA
12883292 -TTATTATTATTATTTATCTA
1 TTTATTATTATTATTTATCTA
*
12883312 TTTATCTATTATAATTTATCTA
1 TTTAT-TATTATTATTTATCTA
12883334 -TTA-T-TT-TTATTTATCT-
1 TTTATTATTATTATTTATCTA
* * *
12883350 GTTAGTATTTTTATTTATCTA
1 TTTATTATTATTATTTATCTA
* * * *
12883371 ATTATTTTCTTTTAATTATCTA
1 TTTATTAT-TATTATTTATCTA
12883393 TT
1 TT
12883395 AAAATTTTTT
Statistics
Matches: 229, Mismatches: 23, Indels: 51
0.76 0.08 0.17
Matches are distributed among these distances:
17 12 0.05
18 11 0.05
19 9 0.04
20 36 0.16
21 36 0.16
22 83 0.36
23 21 0.09
24 11 0.05
25 10 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATTATTATTATTTATCTA
Found at i:12883366 original size:4 final size:4
Alignment explanation
Indices: 12883036--12883347 Score: 118
Period size: 4 Copynumber: 81.2 Consensus size: 4
12883026 CCATTTTATT
* * *
12883036 TTTA TTTA TATT- TTATA TTTA TATA TTTA --TA TTTA TATA TTT- TTTC
1 TTTA TTTA T-TTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
12883082 TTT- TTCT- TTGTA TTTTA TGTA TTTA -TTA TTTA TTTA TTTA -TTA TTACTA
1 TTTA TT-TA TT-TA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT--TA
*
12883131 TTTA TTAATA TTTA TTTA TTTA -TTA TTTA -TTA TTTA TATA TTTA TTT-
1 TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * *
12883178 TATTA -TTA -TTA -TTA TTTA TATG TTCA TATA TATA TTTA -TTA -TTA
1 T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* ** * * *
12883222 CTTA GCTA TTTA TATA -TTA -TTA TATA TGTA TTTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
12883266 TCTA TTTA TATA -TTA -TTA TTTA TCTA -TTA -TTA -TTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
12883308 TCTA TTTA TCTA TTATAA TTTA TCTA TTATT TTTA TTTA T
1 TTTA TTTA TTTA TT-T-A TTTA TTTA TT-TA TTTA TTTA T
12883348 CTGTTAGTAT
Statistics
Matches: 240, Mismatches: 40, Indels: 56
0.71 0.12 0.17
Matches are distributed among these distances:
2 2 0.01
3 61 0.25
4 153 0.64
5 11 0.05
6 13 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:12883395 original size:59 final size:59
Alignment explanation
Indices: 12883213--12883375 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 59
12883203 ATATATATAT
* * * * * * * * *
12883213 TTATTATTACTTAGCTATTTATATATTATTATATATGTATTTAT-TATTATTTATCTATTTA
1 TTATTATTATTTATCTA-TTA-GTATTATTATTTATCTAATTATCTATTA-TAATTTATCTA
* *
12883274 TATATTATTATTTATCTATTATTATTATTATTTATCTATTTATCTATTATAATTTATCTA
1 T-TATTATTATTTATCTATTAGTATTATTATTTATCTAATTATCTATTATAATTTATCTA
* * *
12883334 TTATTTTTATTTATCTGTTAGTATTTTTATTTATCTAATTAT
1 TTATTATTATTTATCTATTAGTATTATTATTTATCTAATTAT
12883376 TTTCTTTTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
59 36 0.41
60 28 0.32
61 9 0.10
62 14 0.16
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (59 bp):
TTATTATTATTTATCTATTAGTATTATTATTTATCTAATTATCTATTATAATTTATCTA
Found at i:12883406 original size:59 final size:59
Alignment explanation
Indices: 12883281--12883406 Score: 139
Period size: 59 Copynumber: 2.1 Consensus size: 59
12883271 TTATATATTA
* * **
12883281 TTATTTATCTATTATTATTATTATTTATCTATTTATCTATTATAATTTATCTATTATTT
1 TTATTTATCTATTAGTATTATTATTTATCTAATTATCTATTATAATTTATCTATTAAAT
* * * * *
12883340 TTATTTATCTGTTAGTATTTTTATTTATCTAATTATTTTCTTTTAA-TTATCTATTAAAAT
1 TTATTTATCTATTAGTATTATTATTTATCTAATTA-TCTATTATAATTTATCTATT-AAAT
12883400 TT-TTTAT
1 TTATTTAT
12883407 TTGATTTTTA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 45 0.80
60 11 0.20
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (59 bp):
TTATTTATCTATTAGTATTATTATTTATCTAATTATCTATTATAATTTATCTATTAAAT
Found at i:12884465 original size:58 final size:56
Alignment explanation
Indices: 12884351--12884465 Score: 126
Period size: 58 Copynumber: 2.0 Consensus size: 56
12884341 ATAAAATTCA
* * * *
12884351 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTC
1 AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAACTTTCC-T-AAAAGAAATTTTTC
12884409 AAAAAATAATTTTGAGGAAAAGTTGAAAGTTAAT-AAGCTTTCC-AAAAGAATATTTTT
1 AAAAAATAATTTTGAGGAAAAGTTGAAAG-T-ATCAA-CTTTCCTAAAAGAA-ATTTTT
12884466 GGGGAAAAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
57 6 0.12
58 33 0.67
59 3 0.06
60 7 0.14
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (56 bp):
AAAAAATAATTTTGAGGAAAAGTTGAAAGTATCAACTTTCCTAAAAGAAATTTTTC
Found at i:12884486 original size:102 final size:101
Alignment explanation
Indices: 12884349--12884540 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 101
12884339 AAATAAAATT
** * *
12884349 CAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCAAAAA
1 CAAAAAAATATTTTTGAGGAAAAGGCGAAAATATCAATTTTCCTTAAAAATAAG-TTTTC-AAAA
12884414 AT-AATTTTGAGGAAAAGTTGAAAGTTAATAAGCTTTC
64 ATGAATTTTGAGGAAAAGTTGAAAGTTAATAAGCTTTC
* * *
12884451 CAAAAGAATATTTTTGGGGAAAAGGCGAAAATATCAATTTTTCTTAAAAATAAGTTTTCAAAAAT
1 CAAAAAAATATTTTTGAGGAAAAGGCGAAAATATCAATTTTCCTTAAAAATAAGTTTTCAAAAAT
*
12884516 GGATTTTTGAGGAAAAGTTGAAAGT
66 -GAATTTTGAGGAAAAGTTGAAAGT
12884541 ATCAATTTTC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
100 6 0.08
101 5 0.06
102 69 0.86
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (101 bp):
CAAAAAAATATTTTTGAGGAAAAGGCGAAAATATCAATTTTCCTTAAAAATAAGTTTTCAAAAAT
GAATTTTGAGGAAAAGTTGAAAGTTAATAAGCTTTC
Found at i:12885438 original size:33 final size:33
Alignment explanation
Indices: 12885396--12885459 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
12885386 AATTCAAGAA
* *
12885396 ATGAAGAACAATAGAACCATAAAATGCCTAACT
1 ATGAAGAACAACAGAACCACAAAATGCCTAACT
*
12885429 ATGAAGAACAACAGAATCACAAAATGCCTAA
1 ATGAAGAACAACAGAACCACAAAATGCCTAA
12885460 ATATTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.53, C:0.19, G:0.12, T:0.16
Consensus pattern (33 bp):
ATGAAGAACAACAGAACCACAAAATGCCTAACT
Found at i:12885618 original size:18 final size:18
Alignment explanation
Indices: 12885595--12885632 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
12885585 AAAACTCCAA
12885595 AATCAATGATTGAAACAG
1 AATCAATGATTGAAACAG
12885613 AATCAATGATTGAAACAG
1 AATCAATGATTGAAACAG
12885631 AA
1 AA
12885633 ACAGATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.21
Consensus pattern (18 bp):
AATCAATGATTGAAACAG
Found at i:12886429 original size:32 final size:31
Alignment explanation
Indices: 12886388--12886458 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
12886378 TTGCTTAAAC
* * *
12886388 CAAAAACCCATCTTTCTTTGCACTATAAAAT
1 CAAAAACCCACCTCTCTTTGCACTACAAAAT
* *
12886419 CAAAAGACCCACCTCTCTTTGTACTGCAAAAT
1 CAAAA-ACCCACCTCTCTTTGCACTACAAAAT
12886451 CAAGAAAC
1 CAA-AAAC
12886459 TCATAAACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
31 5 0.15
32 26 0.79
33 2 0.06
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.25
Consensus pattern (31 bp):
CAAAAACCCACCTCTCTTTGCACTACAAAAT
Found at i:12891768 original size:37 final size:36
Alignment explanation
Indices: 12891698--12891776 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 36
12891688 TAGAAAATAT
12891698 ATGCATGATATGCATAAACATAATGATAATATGATGA
1 ATGCATGATA-GCATAAACATAATGATAATATGATGA
*
12891735 ATGCATGATA-C-TAAACATGAATGATAATGT-ATGA
1 ATGCATGATAGCATAAACAT-AATGATAATATGATGA
*
12891769 TTGCATGA
1 ATGCATGA
12891777 CAATATGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 18 0.46
35 11 0.28
37 10 0.26
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (36 bp):
ATGCATGATAGCATAAACATAATGATAATATGATGA
Found at i:12891963 original size:7 final size:7
Alignment explanation
Indices: 12891914--12892000 Score: 55
Period size: 7 Copynumber: 13.4 Consensus size: 7
12891904 GGGTCTAAGC
12891914 TAGGG-T
1 TAGGGTT
12891920 TAGGG-T
1 TAGGGTT
12891926 TAGGGTT
1 TAGGGTT
*
12891933 TA-GGTG
1 TAGGGTT
*
12891939 TAGAG-T
1 TAGGGTT
12891945 TA-GGTT
1 TAGGGTT
12891951 TAGGGTT
1 TAGGGTT
*
12891958 TGGGGTT
1 TAGGGTT
*
12891965 TAAGGTT
1 TAGGGTT
*
12891972 T--GATT
1 TAGGGTT
*
12891977 TAAGGTT
1 TAGGGTT
12891984 T-GGAGTT
1 TAGG-GTT
12891991 TAGGGTT
1 TAGGGTT
12891998 TAG
1 TAG
12892001 TTTTTTACAT
Statistics
Matches: 63, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.08
6 22 0.35
7 34 0.54
8 2 0.03
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:12891985 original size:26 final size:26
Alignment explanation
Indices: 12891949--12891998 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
12891939 TAGAGTTAGG
* *
12891949 TTTAGGGTTTGGGGTTTAAGGTTTGA
1 TTTAAGGTTTGGAGTTTAAGGTTTGA
*
12891975 TTTAAGGTTTGGAGTTTAGGGTTT
1 TTTAAGGTTTGGAGTTTAAGGTTT
12891999 AGTTTTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (26 bp):
TTTAAGGTTTGGAGTTTAAGGTTTGA
Found at i:12891997 original size:33 final size:33
Alignment explanation
Indices: 12891914--12891999 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
12891904 GGGTCTAAGC
*
12891914 TAGGGTTAGGG-TTAGGGTTT-AGGTGTAGAGT
1 TAGGTTTAGGGTTTAGGGTTTAAGGTGTAGAGT
* * *
12891945 TAGGTTTAGGGTTTGGGGTTTAAGGT-TTGATT
1 TAGGTTTAGGGTTTAGGGTTTAAGGTGTAGAGT
12891977 TAAGGTTT-GGAGTTTAGGGTTTA
1 T-AGGTTTAGG-GTTTAGGGTTTA
12892000 GTTTTTTACA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
31 10 0.22
32 15 0.33
33 21 0.46
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.42
Consensus pattern (33 bp):
TAGGTTTAGGGTTTAGGGTTTAAGGTGTAGAGT
Found at i:12894367 original size:4 final size:4
Alignment explanation
Indices: 12894358--12894401 Score: 70
Period size: 4 Copynumber: 10.8 Consensus size: 4
12894348 TTTTACTTGC
*
12894358 TTTG TTTG TTTG TTTA TTTG TTTG TTTG TTTG TTTG TTTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG -TTTG TTT
12894402 CTGTTTCTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.02, C:0.00, G:0.20, T:0.77
Consensus pattern (4 bp):
TTTG
Found at i:12894597 original size:49 final size:49
Alignment explanation
Indices: 12894499--12894608 Score: 134
Period size: 49 Copynumber: 2.2 Consensus size: 49
12894489 CAGAAGTTTT
* * * *
12894499 GAAACTTTAAAAATCTTAAATTTGAAAAGCTGCTTTAAATAAAGGCTAA
1 GAAACTTTAAAAATCTTAAATTAGAAAAGCTCCTTGAAATAAAGACTAA
*
12894548 GAAACTTTAAAAATCTTAATATTAG-AAAGCTCCTATGAAA-ATAGACTAA
1 GAAACTTTAAAAATCTTAA-ATTAGAAAAGCTCCT-TGAAATAAAGACTAA
*
12894597 GACACTTTAAAA
1 GAAACTTTAAAA
12894609 TCTCTTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
49 45 0.85
50 8 0.15
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.29
Consensus pattern (49 bp):
GAAACTTTAAAAATCTTAAATTAGAAAAGCTCCTTGAAATAAAGACTAA
Found at i:12894653 original size:49 final size:49
Alignment explanation
Indices: 12894600--12894808 Score: 199
Period size: 50 Copynumber: 4.3 Consensus size: 49
12894590 AGACTAAGAC
** *
12894600 ACTTT-AAAATCTCTTTTTAAAAAGGGCTTTTATAAAGATAGGTTAGGGA
1 ACTTTAAAAATCTCTTTTTAAAAA-GGCTCCTATAAACATAGGTTAGGGA
* * ** * * * * * *
12894649 ACTTTAAAAATCCCATTTTGGAAAGAACTCCTATAAAGACAAGTTAAGAA
1 ACTTTAAAAATCTCTTTTTAAAAAG-GCTCCTATAAACATAGGTTAGGGA
* * * *
12894699 ACTTTAAAAATTTATTTTTGAAAAGGCTCCTATAAACATAGGCTA-GGA
1 ACTTTAAAAATCTCTTTTTAAAAAGGCTCCTATAAACATAGGTTAGGGA
* *
12894747 ACTTTAAAAAT-TCATTTTGAAAAAGGCTTCTATAAACATAGGTTAGGGA
1 ACTTTAAAAATCTC-TTTTTAAAAAGGCTCCTATAAACATAGGTTAGGGA
12894796 ACTTTAAAAATCT
1 ACTTTAAAAATCT
12894809 TATTTTGAAA
Statistics
Matches: 128, Mismatches: 27, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
47 1 0.01
48 40 0.31
49 35 0.27
50 52 0.41
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (49 bp):
ACTTTAAAAATCTCTTTTTAAAAAGGCTCCTATAAACATAGGTTAGGGA
Found at i:12895334 original size:16 final size:13
Alignment explanation
Indices: 12895300--12895335 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
12895290 TTACTCATCA
12895300 TTTCATCATTATT
1 TTTCATCATTATT
12895313 TTTCATCATTATT
1 TTTCATCATTATT
12895326 TTTCATCATT
1 TTTCATCATT
12895336 TCATCCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTCATCATTATT
Found at i:12895395 original size:15 final size:16
Alignment explanation
Indices: 12895357--12895396 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
12895347 TCCCATTGCA
*
12895357 TTCATTTCCTCATTCT
1 TTCATTTCATCATTCT
12895373 TTCA-TTCATCATT-T
1 TTCATTTCATCATTCT
12895387 TTCATTTCAT
1 TTCATTTCAT
12895397 ACATCATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.57
Consensus pattern (16 bp):
TTCATTTCATCATTCT
Found at i:12895396 original size:19 final size:19
Alignment explanation
Indices: 12895372--12895433 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
12895362 TTCCTCATTC
12895372 TTTCATTCATCATTTTTCA
1 TTTCATTCATCATTTTTCA
*
12895391 TTTCATACATCATTTTT--
1 TTTCATTCATCATTTTTCA
*
12895408 TTTCATT-TTCA-TTTTCA
1 TTTCATTCATCATTTTTCA
12895425 -TTCATTCAT
1 TTTCATTCAT
12895434 TTTTTTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
15 4 0.11
16 9 0.25
17 7 0.19
19 16 0.44
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTCATTCATCATTTTTCA
Found at i:12895423 original size:29 final size:29
Alignment explanation
Indices: 12895385--12895440 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
12895375 CATTCATCAT
12895385 TTTTCATTTCATACA-TCATTTTTTTTCA
1 TTTTCATTTCATACATTCATTTTTTTTCA
*
12895413 TTTTCATTTTCATTCATTCATTTTTTTT
1 TTTTCA-TTTCATACATTCATTTTTTTT
12895441 TTCATGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 6 0.24
29 8 0.32
30 11 0.44
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTTCATTTCATACATTCATTTTTTTTCA
Found at i:12903197 original size:69 final size:69
Alignment explanation
Indices: 12903112--12903249 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
12903102 TTTGGGGATG
12903112 TCCTACAAAAGTTAAAATCTATAACCTTTCTAAAAGAAAGATTGAACCTAGGAGTACTCATTGCT
1 TCCTACAAAAGTTAAAATCTATAACCTTTCTAAAAGAAAGATTGAACCTAGGAGTACTCATTGCT
12903177 TTTA
66 TTTA
12903181 TCCTACAAAAGTTAAAATCTATAACCTTTCTAAAAGAAAGATTGAACCTAGGAGTACTCATTGCT
1 TCCTACAAAAGTTAAAATCTATAACCTTTCTAAAAGAAAGATTGAACCTAGGAGTACTCATTGCT
12903246 TTTA
66 TTTA
12903250 ATAGGATATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (69 bp):
TCCTACAAAAGTTAAAATCTATAACCTTTCTAAAAGAAAGATTGAACCTAGGAGTACTCATTGCT
TTTA
Found at i:12904683 original size:210 final size:212
Alignment explanation
Indices: 12904321--12904823 Score: 563
Period size: 210 Copynumber: 2.4 Consensus size: 212
12904311 AAATGCAATA
** * * * * * *
12904321 TTTAACTTGATGGCAATTGATTT-ATAAGTATTTATTATGGGAATAGCAATTAGTGCATTTTTTT
1 TTTAACTTGATGGCTTTTAATTTAATAAGCATTTATTATGGGTATGGCAATTACTGCATTTCTTT
* * *
12904385 AAACAAAAACATAGTATTTGGCATTTAATTATTTTTTATCTGTTTGACTTGATGGCTTTTGATTT
66 GAACAAAAACATAGTATTTGGCATTTAATTATTCTTTATCTGTTTGACTTGATGGCTTTTAATTT
* * * *
12904450 AATGAGCATTTATTATGGGTATGGCAATTACTGCT-CTTCTTTTA-ACATAAACATAGTATTTGG
131 AATGAGCATTTATTATGGGTATGGAAATTACT-ATATTTC-TTTAGACAGAAACATAGTATTTGG
*
12904513 C-TTTTAATTTTTTATC-TG
194 CATTTAAATTTTTT-TCATG
* * * * *
12904531 TTTAACTTGATGGTTTTTTATTTAATGAGCGTTTATTATGGGTATGGCAATTACTACATTTCTTT
1 TTTAACTTGATGGCTTTTAATTTAATAAGCATTTATTATGGGTATGGCAATTACTGCATTTCTTT
* * * *
12904596 GAACAGAAACATAGTATTTGGCATTTCATT-TTACTTT-TGTGTTTGACTTTATGGCTTTTAATT
66 GAACAAAAACATAGTATTTGGCATTTAATTATT-CTTTATCTGTTTGACTTGATGGCTTTTAATT
* * ** *
12904659 TAATGAGTATTTATTATGGGTATGGAAATTACTATATTTCTTTAGATAGAAATGTAGTGTTTGGC
130 TAATGAGCATTTATTATGGGTATGGAAATTACTATATTTCTTTAGACAGAAACATAGTATTTGGC
12904724 ATTTAAATTTTTTTCTATG
195 ATTTAAATTTTTTTC-ATG
* * * * * *
12904743 TTTAACTTGATGGCTTTTAATTTACTAAGTATTTATTATGGGTTTGTCAATTATTGCGTTTCTTT
1 TTTAACTTGATGGCTTTTAATTTAATAAGCATTTATTATGGGTATGGCAATTACTGCATTTCTTT
*
12904808 GAAGC-TAAACATAGTA
66 GAA-CAAAAACATAGTA
12904824 ATTGTTCATT
Statistics
Matches: 244, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
209 5 0.02
210 95 0.39
211 74 0.30
212 69 0.28
213 1 0.00
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (212 bp):
TTTAACTTGATGGCTTTTAATTTAATAAGCATTTATTATGGGTATGGCAATTACTGCATTTCTTT
GAACAAAAACATAGTATTTGGCATTTAATTATTCTTTATCTGTTTGACTTGATGGCTTTTAATTT
AATGAGCATTTATTATGGGTATGGAAATTACTATATTTCTTTAGACAGAAACATAGTATTTGGCA
TTTAAATTTTTTTCATG
Done.