Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, 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: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 15 of 22
Found at i:7530579 original size:362 final size:344
Alignment explanation
Indices: 7530063--7531061 Score: 1129
Period size: 362 Copynumber: 2.9 Consensus size: 344
7530053 GTGTGCAAGT
* * ** *
7530063 GTATATATATTATAATTAATAATTTTATAAGTTATAACTTTCATAATGTTAACAC-AAATAAAAA
1 GTATATATATTATAATTAATAATTTTATAAGTTAAAATTTTTGTAATGTTAACACAAAATAGAAA
* *
7530127 GTAAATATATTTATATTTAAAGTATATATATTAAAA-T----TATTTTACTATATATATAAAAAT
66 GTAAATATATTTATATTTAAAGTATATATA-TAAAACTAAAGTATTTTACTATATATATAATAGT
*
7530187 AATTATATTCTTTATAAATGAACCCAATATATATAAAGTATAGATATTAAAAGATATTACAAGTC
130 AATTATATTCTTTATAAATGAACCCAATATATATAAAGTATA-ATATTAAAAGAAATTACAAGT-
* * *
7530252 AATTAATAATCATAGTTTCATTAATTAATTTAATTAATTATATGAGTTTATCCTTAATTACATGA
193 AATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTACATGA
*
7530317 AATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTTTTTAAATAATTAAG
258 AATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTC--TCT---T-A--AAG
*
7530382 TTTATATATTATAAGTTTATATAAACAAAG
315 TTTATATATTATAAATTTATATAAACAAAG
* *
7530412 GTATATATATTTTAATTAATAGTTTTATAAGTTAAAATTTTTGTAATGTTAACACAAAATAGAAA
1 GTATATATATTATAATTAATAATTTTATAAGTTAAAATTTTTGTAATGTTAACACAAAATAGAAA
* *
7530477 GTAAATATGTTTATATTTAAAGTGTATATATATACACACACACTGAAAGTATTTTACTATATGTA
66 GTAAATATATTTATATTTAAA--GTATATATAT--A-A-A-ACT-AAAGTATTTTACTATATATA
* * *
7530542 TAATAGTAATTATATTCTTTATAAATGAACTCAATATATATAAAGTAAATATATTAAAAGACATT
123 TAATAGTAATTATATTCTTTATAAATGAACCCAATATATATAAAGTATA-ATATTAAAAGAAATT
* * * * *
7530607 ATAAGGTAACTAATAATCATAATTTTATGAATTAATTTAATTAATTATATGAGTTTGTCCTTAAT
187 ACAA-GTAATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAAT
* ** * * * *
7530672 TACTTGAAATTAAAAAAAATAACTAGGTCTCAAAATTATTCTAATCTCACAACTTCTCTTAAGGT
251 TACATGAAATTAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTTAAAGT
*
7530737 TTGTATATTATAAATTTATATAAACAAAG
316 TTATATATTATAAATTTATATAAACAAAG
* * * * *
7530766 ATGTATATATTATAATTAATAACTTTACAAG-TAATAATTTTTGTAATGTTAATACAAAATAGAA
1 GTATATATATTATAATTAATAATTTTATAAGTTAA-AATTTTTGTAATGTTAACACAAAATAGAA
*
7530830 AGTAAATATATTTA-ATTTAAAGTATAT-T-T-ATACTAAAAGTA--TTAGC-ATATATATAATA
65 AGTAAATATATTTATATTTAAAGTATATATATAAAACT-AAAGTATTTTA-CTATATATAT-A-A
* *
7530888 TAGTAATTATATT-TCTTATAAATGAACCCAATATATATGATGTAT-ATA-TAAAA-AAATT-CA
126 TAGTAATTATATTCT-TTATAAATGAACCCAATATATATAAAGTATAATATTAAAAGAAATTAC-
** * * * *
7530948 AAGTTAATTAATAATTTTAGTTTAATAAATTAAGTTAATTAACTATATGGGTTTGTCTTTAATTA
189 AAG-TAATTAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTA
* *
7531013 CATGAAATTTAAAAAAAAATAGTT-AGATTCCAAAACTATTATAATCTCA
253 CATGAAA-TT-AAAAAAAATAGTTAAG-TTTCAAAACTATTCTAATCTCA
7531062 AAAACTCCTT
Statistics
Matches: 559, Mismatches: 66, Indels: 58
0.82 0.10 0.08
Matches are distributed among these distances:
338 1 0.00
339 63 0.11
340 8 0.01
341 42 0.08
342 3 0.01
343 49 0.09
345 1 0.00
349 50 0.09
350 29 0.05
351 7 0.01
352 9 0.02
353 11 0.02
354 97 0.17
355 1 0.00
356 2 0.00
357 2 0.00
360 2 0.00
362 180 0.32
363 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (344 bp):
GTATATATATTATAATTAATAATTTTATAAGTTAAAATTTTTGTAATGTTAACACAAAATAGAAA
GTAAATATATTTATATTTAAAGTATATATATAAAACTAAAGTATTTTACTATATATATAATAGTA
ATTATATTCTTTATAAATGAACCCAATATATATAAAGTATAATATTAAAAGAAATTACAAGTAAT
TAATAATCATAGTTTAATAAATTAATTTAATTAATTATATGAGTTTGTCCTTAATTACATGAAAT
TAAAAAAAATAGTTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTTAAAGTTTATATATTA
TAAATTTATATAAACAAAG
Found at i:7536786 original size:53 final size:52
Alignment explanation
Indices: 7536706--7536807 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 52
7536696 TGCTTTTGCA
* * *
7536706 CTTTAAAGAAGTGGTTTGGGTAAATCTTACTCACCTTGTAAAATTTGACTCGT
1 CTTTAAAGAAGTAGCTTAGGTAAATCTTACTCACCTTG-AAAATTTGACTCGT
** *
7536759 CTTTAAAGAAGTAGCTTAGGTAAATCTTTTTCACCTTGCAAATTTGACT
1 CTTTAAAGAAGTAGCTTAGGTAAATCTTACTCACCTTGAAAATTTGACT
7536808 TGACTCAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 10 0.23
53 33 0.77
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
CTTTAAAGAAGTAGCTTAGGTAAATCTTACTCACCTTGAAAATTTGACTCGT
Found at i:7541684 original size:41 final size:41
Alignment explanation
Indices: 7541625--7541707 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
7541615 ATTACACCTT
* *
7541625 GGAGATTGAGGAGCATCATCCATCATATTAACAATCTTAAA
1 GGAGACTGAGGAACATCATCCATCATATTAACAATCTTAAA
*
7541666 GGAGACTGAGGAATATCATCCATCATATTAACAATCTTAAA
1 GGAGACTGAGGAACATCATCCATCATATTAACAATCTTAAA
7541707 G
1 G
7541708 CTAAGTTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (41 bp):
GGAGACTGAGGAACATCATCCATCATATTAACAATCTTAAA
Found at i:7544752 original size:30 final size:30
Alignment explanation
Indices: 7544709--7544785 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
7544699 CATTCAAATG
* * *
7544709 TAACAAAACTTTTTTAAACATAACGTATAA
1 TAACAATATTTTTTTAAACATAACGTACAA
*** *
7544739 TAACAATATTTTTTT-AACATGGTGTGCAA
1 TAACAATATTTTTTTAAACATAACGTACAA
7544768 TAACAATATTTTTTTAAA
1 TAACAATATTTTTTTAAA
7544786 TTTTTTTCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 24 0.62
30 15 0.38
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.40
Consensus pattern (30 bp):
TAACAATATTTTTTTAAACATAACGTACAA
Found at i:7553613 original size:3 final size:3
Alignment explanation
Indices: 7553605--7553639 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7553595 GGTAATTTAC
7553605 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7553640 CAATTGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7565150 original size:23 final size:24
Alignment explanation
Indices: 7565120--7565188 Score: 95
Period size: 23 Copynumber: 2.9 Consensus size: 24
7565110 ACAAAGAACT
7565120 TCATTTAATTTATCTAATAAGTA-
1 TCATTTAATTTATCTAATAAGTAG
7565143 TCATTTAATTTATCTAATAAGTAG
1 TCATTTAATTTATCTAATAAGTAG
** * *
7565167 TTTTTTTATTTATCCAATAAGT
1 TCATTTAATTTATCTAATAAGT
7565189 GTAGTTCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 23 0.56
24 18 0.44
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.51
Consensus pattern (24 bp):
TCATTTAATTTATCTAATAAGTAG
Found at i:7567782 original size:72 final size:72
Alignment explanation
Indices: 7567706--7567844 Score: 179
Period size: 72 Copynumber: 1.9 Consensus size: 72
7567696 TGAAAATGAG
*** *
7567706 TCTCAAGACTTTGGTACTTGCTCTATGGAAATTGAAATCTAAAGATGAAGTCTCAATACTTTGAA
1 TCTCAAGACTTTCAAACTTGCTCTATGGAAATTGAAATCTAAAGATGAAGTCTCAATACATTGAA
7567771 GCATAAT
66 GCATAAT
* * * * * **
7567778 TCTCAATATTTTCAAACTTGCTCTATGGAATTTGCAATCTAAAGGTGAAGTCTTGATACATTGAA
1 TCTCAAGACTTTCAAACTTGCTCTATGGAAATTGAAATCTAAAGATGAAGTCTCAATACATTGAA
7567843 GC
66 GC
7567845 TTTGGTGTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Consensus pattern (72 bp):
TCTCAAGACTTTCAAACTTGCTCTATGGAAATTGAAATCTAAAGATGAAGTCTCAATACATTGAA
GCATAAT
Found at i:7575219 original size:28 final size:29
Alignment explanation
Indices: 7575187--7575249 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
7575177 TGGATCAAGC
7575187 ATAACCACTCTACCTTTT-CTAAAGAGGT
1 ATAACCACTCTACCTTTTGCTAAAGAGGT
** *
7575215 ATAACCTTTCTACCTTTTGCTATAGAGGT
1 ATAACCACTCTACCTTTTGCTAAAGAGGT
7575244 ATAACC
1 ATAACC
7575250 TTCCAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (29 bp):
ATAACCACTCTACCTTTTGCTAAAGAGGT
Found at i:7575248 original size:29 final size:28
Alignment explanation
Indices: 7575195--7575251 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
7575185 GCATAACCAC
7575195 TCTACCTTTTCTAAAGAGGTATAACCTT
1 TCTACCTTTTCTAAAGAGGTATAACCTT
*
7575223 TCTACCTTTTGCTATAGAGGTATAACCTT
1 TCTACCTTTT-CTAAAGAGGTATAACCTT
7575252 CCAACAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (28 bp):
TCTACCTTTTCTAAAGAGGTATAACCTT
Found at i:7577592 original size:31 final size:31
Alignment explanation
Indices: 7577554--7577616 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
7577544 GAGGGCATTG
7577554 CACTATTGGTCAGGGTAGAATGTCACAAATC
1 CACTATTGGTCAGGGTAGAATGTCACAAATC
* * *
7577585 CACTATTGGTTAGGGTAGAATGTTACAGATC
1 CACTATTGGTCAGGGTAGAATGTCACAAATC
7577616 C
1 C
7577617 TACGGTAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (31 bp):
CACTATTGGTCAGGGTAGAATGTCACAAATC
Found at i:7578547 original size:41 final size:41
Alignment explanation
Indices: 7578479--7578664 Score: 140
Period size: 41 Copynumber: 4.7 Consensus size: 41
7578469 TTTATTACCT
* * * *
7578479 TATTAAAA-ATATTTTATAATGTTATAATTAAAATAAAAAA
1 TATTAAAATATAATATATAATATAATAATTAAAATAAAAAA
* *
7578519 TATTAAAATATAATATATAATATAATAATCAAAA-ATTAAAA
1 TATTAAAATATAATATATAATATAATAATTAAAATA-AAAAA
*
7578560 TA--AAAA-A-AAT-TAAAATATATATAA-TAAAATAAAAAA
1 TATTAAAATATAATATATAATATA-ATAATTAAAATAAAAAA
* * * *
7578596 -ATTAAAATATAATATATAATATAAAAATATATATTAAAGAA
1 TATTAAAATATAATATATAATATAATAAT-TAAAATAAAAAA
* * * *
7578637 -ATGAAAATAAAATATATAAGATTATAAT
1 TATTAAAATATAATATATAATATAATAAT
7578665 AATAAATGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 21
0.74 0.12 0.13
Matches are distributed among these distances:
35 1 0.01
36 16 0.14
37 12 0.10
38 2 0.02
39 10 0.09
40 17 0.15
41 58 0.50
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (41 bp):
TATTAAAATATAATATATAATATAATAATTAAAATAAAAAA
Found at i:7578620 original size:33 final size:29
Alignment explanation
Indices: 7578555--7578622 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
7578545 AATCAAAAAT
7578555 TAAAATAAAAAAAATTAAAATATATATAA
1 TAAAATAAAAAAAATTAAAATATATATAA
7578584 TAAAAT-AAAAAAATTAAAATATA-ATATA
1 TAAAATAAAAAAAATTAAAATATATATA-A
*
7578612 TAATATAAAAA
1 TAAAATAAAAA
7578623 TATATATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 3 0.08
28 23 0.64
29 10 0.28
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (29 bp):
TAAAATAAAAAAAATTAAAATATATATAA
Found at i:7578623 original size:48 final size:45
Alignment explanation
Indices: 7578504--7578629 Score: 141
Period size: 48 Copynumber: 2.7 Consensus size: 45
7578494 ATAATGTTAT
*
7578504 AATTAAAAT-AAAAAATATTAAAATATAATATATAATATAATAATCAAA
1 AATTAAAATAAAAAAATA-TAAAA-AT-ATATATAATAAAATAA-CAAA
*
7578552 AATTAAAATAAAAAAA-ATTAAAATATATATAATAAAATAA-AAA
1 AATTAAAATAAAAAAATATAAAAATATATATAATAAAATAACAAA
7578595 AATTAAAATATAATATATAATATAAAAATATATAT
1 AATTAAAATA-AA-A-A-AATATAAAAATATATAT
7578630 TAAAGAAATG
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
43 13 0.19
44 2 0.03
45 16 0.23
46 3 0.04
47 6 0.09
48 23 0.33
49 6 0.09
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (45 bp):
AATTAAAATAAAAAAATATAAAAATATATATAATAAAATAACAAA
Found at i:7578684 original size:74 final size:75
Alignment explanation
Indices: 7578501--7578706 Score: 208
Period size: 74 Copynumber: 2.7 Consensus size: 75
7578491 TTTATAATGT
* * * *
7578501 TATAATTAAAATAAAAAATATTAAAATATAATATATAATATAATAATCAAAAATTAAAATAAAAA
1 TATAA-TAAAATAAAAAA-ATGAAAATATAATATATAATATAAAAAT-ATATATTAAAATAAAAA
7578566 AAATTAAAATATA
63 AAATTAAAATATA
* **
7578579 TATAATAAAATAAAAAAATTAAAATATAATATATAATATAAAAATATATATTAAAGA-AATGAAA
1 TATAATAAAATAAAAAAATGAAAATATAATATATAATATAAAAATATATATTAAA-ATAAAAAAA
7578643 A-TAAAATATA
65 ATTAAAATATA
* * *
7578653 TA-AGATTATAAT-AATAAATGAAAATAAAATATATGACAT-TAAAAATATAT-TTAA
1 TATA-A-TAAAATAAAAAAATGAAAATATAATATAT-A-ATATAAAAATATATATTAA
7578707 GAGATGATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
73 1 0.01
74 35 0.31
75 31 0.27
76 30 0.26
77 12 0.11
78 5 0.04
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (75 bp):
TATAATAAAATAAAAAAATGAAAATATAATATATAATATAAAAATATATATTAAAATAAAAAAAA
TTAAAATATA
Found at i:7578698 original size:49 final size:49
Alignment explanation
Indices: 7578637--7578815 Score: 148
Period size: 49 Copynumber: 3.4 Consensus size: 49
7578627 TATTAAAGAA
*
7578637 ATGAAAAT-AAAATATATAAGATTATAATAATAAATGAAAATAAAATAT
1 ATGAAATTAAAAATATATAAGATTATAATAATAAATGAAAATAAAATAT
* *
7578685 ATGACATTAAAAATATATTTAAGAGATGATATTATATAA-AAATTAATAATAAAAATAT
1 ATGAAATTAAAAATATA--T-A-AGAT--TA-TA-ATAATAAATGAA-AAT-AAAATAT
*
7578743 AAAT-ATATTAAAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATAT
1 --ATGAAATT----A-AAAATATATAAGATTATAATAATAAATGAAAATAAAATAT
7578798 ATGAAATTAAAAATATAT
1 ATGAAATTAAAAATATAT
7578816 TTAAGAGATG
Statistics
Matches: 105, Mismatches: 6, Indels: 39
0.70 0.04 0.26
Matches are distributed among these distances:
48 6 0.06
49 17 0.16
50 1 0.01
51 1 0.01
52 1 0.01
53 6 0.06
54 4 0.04
55 9 0.09
56 15 0.14
57 15 0.14
58 9 0.09
59 4 0.04
60 6 0.06
61 1 0.01
62 1 0.01
63 1 0.01
64 8 0.08
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.32
Consensus pattern (49 bp):
ATGAAATTAAAAATATATAAGATTATAATAATAAATGAAAATAAAATAT
Found at i:7578752 original size:23 final size:23
Alignment explanation
Indices: 7578718--7578814 Score: 85
Period size: 23 Copynumber: 4.2 Consensus size: 23
7578708 AGATGATATT
7578718 ATATAAA-A-ATTAATAATAAAA
1 ATATAAATATATTAATAATAAAA
*
7578739 ATATAAATATATTAAAAATAAAA
1 ATATAAATATATTAATAATAAAA
* *
7578762 TATATAAGATTATAATAATAAATGAAA
1 -ATATAA-A-TATATTAAT-AATAAAA
* *
7578789 ATA-AAATATATGAA-ATTAAAA
1 ATATAAATATATTAATAATAAAA
7578810 ATATA
1 ATATA
7578815 TTTAAGAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
21 15 0.25
22 2 0.03
23 18 0.30
24 7 0.11
25 3 0.05
26 10 0.16
27 6 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (23 bp):
ATATAAATATATTAATAATAAAA
Found at i:7578762 original size:16 final size:17
Alignment explanation
Indices: 7578734--7578868 Score: 65
Period size: 16 Copynumber: 8.2 Consensus size: 17
7578724 AAATTAATAA
7578734 TAAAAATATAAATATAT
1 TAAAAATATAAATATAT
7578751 TAAAAATA-AAATATA-
1 TAAAAATATAAATATAT
* * *
7578766 TAAGATTAT-AATAATAAA
1 TAAAAATATAAAT-AT-AT
*
7578784 TGAAAATA-AAATATA-
1 TAAAAATATAAATATAT
* * *
7578799 TGAAATTAAAAATATATT
1 TAAAAATATAAATATA-T
* *
7578817 TAAGAGATGAT-ATTATA-
1 TAA-AAAT-ATAAATATAT
7578834 TAAAAAT-T-AATA-AT
1 TAAAAATATAAATATAT
*
7578848 AAAAAATATAAATATAT
1 TAAAAATATAAATATAT
7578865 TAAA
1 TAAA
7578869 CTTATATTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 28
0.67 0.11 0.21
Matches are distributed among these distances:
13 1 0.01
14 10 0.11
15 17 0.19
16 24 0.27
17 19 0.21
18 10 0.11
19 7 0.08
20 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
TAAAAATATAAATATAT
Found at i:7578772 original size:113 final size:114
Alignment explanation
Indices: 7578640--7578868 Score: 442
Period size: 113 Copynumber: 2.0 Consensus size: 114
7578630 TAAAGAAATG
*
7578640 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGACATTAAAAATATATTT
1 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGAAATTAAAAATATATTT
7578705 AAGAGATGATATTATATAAAAATTAATAAT-AAAAATATAAATATATTA
66 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
7578753 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGAAATTAAAAATATATTT
1 AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGAAATTAAAAATATATTT
7578818 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
66 AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
7578867 AA
1 AA
7578869 CTTATATTTT
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
113 94 0.82
114 20 0.18
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (114 bp):
AAAATAAAATATATAAGATTATAATAATAAATGAAAATAAAATATATGAAATTAAAAATATATTT
AAGAGATGATATTATATAAAAATTAATAATAAAAAATATAAATATATTA
Found at i:7578813 original size:14 final size:15
Alignment explanation
Indices: 7578637--7578815 Score: 78
Period size: 16 Copynumber: 11.1 Consensus size: 15
7578627 TATTAAAGAA
7578637 ATGAAAATAAAATAT
1 ATGAAAATAAAATAT
*
7578652 AT-AAGATTATAATAATAA
1 ATGAA-A--ATAA-AATAT
7578670 ATGAAAATAAAATAT
1 ATGAAAATAAAATAT
* *
7578685 ATGACATTAAAAATAT
1 ATGAAAAT-AAAATAT
* * *
7578701 ATTTAAGAGATGATATTAT
1 A-TGAA-A-AT-AAAATAT
* *
7578720 ATAAAAAT-TAATA-
1 ATGAAAATAAAATAT
*
7578733 ATAAAAATATAAATAT
1 ATGAAAATA-AAATAT
*
7578749 ATTAAAAATAAAATAT
1 A-TGAAAATAAAATAT
*
7578765 AT-AAGATTATAATAATAA
1 ATGAA-A--ATAA-AATAT
7578783 ATGAAAATAAAATAT
1 ATGAAAATAAAATAT
*
7578798 ATGAAATTAAAAATAT
1 ATGAAAAT-AAAATAT
7578814 AT
1 AT
7578816 TTAAGAGATG
Statistics
Matches: 129, Mismatches: 16, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
13 8 0.06
14 8 0.06
15 30 0.23
16 35 0.27
17 19 0.15
18 18 0.14
19 11 0.09
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.32
Consensus pattern (15 bp):
ATGAAAATAAAATAT
Found at i:7579057 original size:15 final size:15
Alignment explanation
Indices: 7579018--7579046 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7579008 TGTTTTCTGT
7579018 AATCACATTACTTAC
1 AATCACATTACTTAC
7579033 AATCACATTACTTA
1 AATCACATTACTTA
7579047 TAATTATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (15 bp):
AATCACATTACTTAC
Found at i:7582497 original size:29 final size:28
Alignment explanation
Indices: 7582482--7582613 Score: 85
Period size: 28 Copynumber: 4.8 Consensus size: 28
7582472 TCTTCATGAT
7582482 ATGTAATAATTAAATTTTTTAATATAAG
1 ATGTAATAATTAAATTTTTTAATATAAG
* **
7582510 GTGTAATAATTAAA-TTTTTAACCTAATG
1 ATGTAATAATTAAATTTTTTAATATAA-G
* * * * *
7582538 -TATAACAATTACATTTTTTCAA-ATGAC
1 ATGTAATAATTAAATTTTTT-AATATAAG
* *
7582565 ATGTAATAACTAAA-TTTTTAACATAACG
1 ATGTAATAATTAAATTTTTTAATATAA-G
* * *
7582593 A-ATAATAATTATACTTTTTAA
1 ATGTAATAATTAAATTTTTTAA
7582614 AACAACGTGC
Statistics
Matches: 79, Mismatches: 18, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
26 2 0.03
27 37 0.47
28 38 0.48
29 2 0.03
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (28 bp):
ATGTAATAATTAAATTTTTTAATATAAG
Found at i:7582547 original size:27 final size:27
Alignment explanation
Indices: 7582489--7582555 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
7582479 GATATGTAAT
* * *
7582489 AATTAAATTTTTTAATATAAGGTGTAAT
1 AATTAAA-TTTTTAACATAAGGTATAAC
* *
7582517 AATTAAATTTTTAACCTAATGTATAAC
1 AATTAAATTTTTAACATAAGGTATAAC
*
7582544 AATTACATTTTT
1 AATTAAATTTTT
7582556 TCAAATGACA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (27 bp):
AATTAAATTTTTAACATAAGGTATAAC
Found at i:7582555 original size:55 final size:54
Alignment explanation
Indices: 7582489--7582642 Score: 137
Period size: 55 Copynumber: 2.8 Consensus size: 54
7582479 GATATGTAAT
** * * * *
7582489 AATTAAATTTTTTAATATAAGGTGTAATAATTAAATTTTTAACCTAATGTATAAC
1 AATTAAATTTTTTAA-ATAACATGTAATAACTAAATTTTTAACATAACGAATAAC
* * *
7582544 AATTACATTTTTTCAAATGACATGTAATAACTAAATTTTTAACATAACGAATAAT
1 AATTAAATTTTTT-AAATAACATGTAATAACTAAATTTTTAACATAACGAATAAC
* * * * * * *
7582599 AATTATACTTTTTAAAACAACGTGCAACAACTAAAATTTTAACA
1 AATTA-AATTTTTTAAATAACATGTAATAACTAAATTTTTAACA
7582643 ATTAAATTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
55 72 0.91
56 7 0.09
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (54 bp):
AATTAAATTTTTTAAATAACATGTAATAACTAAATTTTTAACATAACGAATAAC
Found at i:7582687 original size:27 final size:27
Alignment explanation
Indices: 7582638--7582707 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
7582628 ACTAAAATTT
*
7582638 TAACAATTAAATTTTTCAATATAACGTG
1 TAACAATTAAA-TTTTCAATATAACGTA
* *
7582666 TAATAATTAAATTTTCAATATAATGTA
1 TAACAATTAAATTTTCAATATAACGTA
*
7582693 TAACAATTATATTTT
1 TAACAATTAAATTTT
7582708 TTAAAATGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 27 0.73
28 10 0.27
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (27 bp):
TAACAATTAAATTTTCAATATAACGTA
Found at i:7582726 original size:98 final size:98
Alignment explanation
Indices: 7582540--7582738 Score: 229
Period size: 98 Copynumber: 2.0 Consensus size: 98
7582530 ACCTAATGTA
* * * *
7582540 TAACAATTACATTTTTTCAAATGACATGTAATAACTAAATTTTTAACATAACGAATAATAATTAT
1 TAACAATTACAATTTTTCAAATAACATGTAATAACTAAATTTTCAACATAACGAATAACAATTAT
* *
7582605 ACTTTTTAAAACAACGTGCAACAACTAAAATTT
66 ACTTTTTAAAACAACATACAACAACTAAAATTT
* * * * *
7582638 TAACAATTA-AATTTTTCAATATAACGTGTAATAATTAAATTTTCAATATAATGTATAACAATTA
1 TAACAATTACAATTTTTCAA-ATAACATGTAATAACTAAATTTTCAACATAACGAATAACAATTA
* ** * * *
7582702 TATTTTTTAAAATGATATATAACAACTAAATTTT
65 TACTTTTTAAAACAACATACAACAACTAAAATTT
7582736 TAA
1 TAA
7582739 TAGAGTAACA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
97 9 0.11
98 74 0.89
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (98 bp):
TAACAATTACAATTTTTCAAATAACATGTAATAACTAAATTTTCAACATAACGAATAACAATTAT
ACTTTTTAAAACAACATACAACAACTAAAATTT
Found at i:7582757 original size:51 final size:51
Alignment explanation
Indices: 7582693--7582791 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
7582683 ATATAATGTA
7582693 TAACAATTATATTTTTTAAAATGATATATAACAACT-AAATTTTTAATAGAG
1 TAACAATTATATTTTTTAAAATGATATATAACAACTGAAA-TTTTAATAGAG
* * *
7582744 TAACAATTATATTTTTTAAAATGATGTGTAATAACTGAAATTTTAATA
1 TAACAATTATATTTTTTAAAATGATATATAACAACTGAAATTTTAATA
7582792 TGATTTATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 41 0.93
52 3 0.07
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (51 bp):
TAACAATTATATTTTTTAAAATGATATATAACAACTGAAATTTTAATAGAG
Found at i:7582806 original size:27 final size:26
Alignment explanation
Indices: 7582673--7582810 Score: 77
Period size: 28 Copynumber: 5.2 Consensus size: 26
7582663 GTGTAATAAT
* * *
7582673 TAAATTTTCAATATAATGTATAACAAT
1 TAAATTTT-AAAATGATGTATAACAAC
* *
7582700 TATATTTTTTAAAATGATATATAACAAC
1 TA-A-ATTTTAAAATGATGTATAACAAC
* *
7582728 TAAATTTT-TAAT-A-G-AGTAACAAT
1 TAAATTTTAAAATGATGTA-TAACAAC
* * *
7582751 TATATTTTTTAAAATGATGTGTAATAAC
1 TA-A-ATTTTAAAATGATGTATAACAAC
* *
7582779 TGAAATTTTAATATGATTTATAACAAC
1 T-AAATTTTAAAATGATGTATAACAAC
7582806 TAAAT
1 TAAAT
7582811 CAATATAGCG
Statistics
Matches: 82, Mismatches: 19, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
22 1 0.01
23 8 0.10
24 2 0.02
25 7 0.09
26 11 0.13
27 23 0.28
28 25 0.30
29 5 0.06
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.42
Consensus pattern (26 bp):
TAAATTTTAAAATGATGTATAACAAC
Found at i:7582885 original size:27 final size:27
Alignment explanation
Indices: 7582821--7583018 Score: 89
Period size: 27 Copynumber: 7.3 Consensus size: 27
7582811 CAATATAGCG
* * *
7582821 TGTAATAATTATATTTTTCAATATGATA
1 TGTAATAATTAAATTTTT-AACATAATA
* * *
7582849 TATAACAATTAAATTTTTAACATAATT
1 TGTAATAATTAAATTTTTAACATAATA
* * **
7582876 TGTAATAATTAAA---TCAATATAACG
1 TGTAATAATTAAATTTTTAACATAATA
* * * *
7582900 TGCAATAATTATATTTTTTAATATAA-C
1 TGTAATAATTA-AATTTTTAACATAATA
* * * *
7582927 GGATAACAAGTAAATTTTTAACATAATT
1 TG-TAATAATTAAATTTTTAACATAATA
* * * * *
7582955 TATAACAACTAAATCTTTAACATAACA
1 TGTAATAATTAAATTTTTAACATAATA
* * *
7582982 CGTAATAATTATATTTTTCAACTTAATA
1 TGTAATAATTAAATTTTT-AACATAATA
*
7583010 TATAATAAT
1 TGTAATAAT
7583019 AACATTTCAA
Statistics
Matches: 124, Mismatches: 39, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
24 17 0.14
25 1 0.01
27 63 0.51
28 43 0.35
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (27 bp):
TGTAATAATTAAATTTTTAACATAATA
Found at i:7582889 original size:79 final size:79
Alignment explanation
Indices: 7582653--7583002 Score: 330
Period size: 79 Copynumber: 4.4 Consensus size: 79
7582643 ATTAAATTTT
* * * *
7582653 TCAATATAACGTGTAATAATTA-AATTTTCAATATAATGTATAACAATTATATTTTTTAAAATGA
1 TCAATATAACGTGTAATAATTATATTTTTCAATATAATGTATAACAATTA-AATTTTTAACATAA
*
7582717 TATATAACAACTAAA
65 TTTATAACAACTAAA
* * * * * * * * * * * * *
7582732 T--TTTTAATAGAGTAACAATTATATTTTTTAAAATGATGTGTAATAACTGAAA-TTTTAATATG
1 TCAATATAA-CGTGTAATAATTATATTTTTCAATATAATGTATAACAA-TTAAATTTTTAACATA
7582794 ATTTATAACAACTAAA
64 ATTTATAACAACTAAA
* * *
7582810 TCAATATAGCGTGTAATAATTATATTTTTCAATATGATATATAACAATTAAATTTTTAACATAAT
1 TCAATATAACGTGTAATAATTATATTTTTCAATATAATGTATAACAATTAAATTTTTAACATAAT
* * *
7582875 TTGTAATAATTAAA
66 TTATAACAACTAAA
* * * * *
7582889 TCAATATAACGTGCAATAATTATATTTTTTAATATAACGGATAACAAGTAAATTTTTAACATAAT
1 TCAATATAACGTGTAATAATTATATTTTTCAATATAATGTATAACAATTAAATTTTTAACATAAT
7582954 TTATAACAACTAAA
66 TTATAACAACTAAA
* **
7582968 TCTTTAACATAACACGTAATAATTATATTTTTCAA
1 TC---AATATAACGTGTAATAATTATATTTTTCAA
7583003 CTTAATATAT
Statistics
Matches: 214, Mismatches: 48, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
77 4 0.02
78 39 0.18
79 141 0.66
80 5 0.02
82 25 0.12
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (79 bp):
TCAATATAACGTGTAATAATTATATTTTTCAATATAATGTATAACAATTAAATTTTTAACATAAT
TTATAACAACTAAA
Found at i:7584539 original size:21 final size:22
Alignment explanation
Indices: 7584488--7584541 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
7584478 TGATATATAA
7584488 TAATATTTTCTCAACATGGCACG
1 TAATATTTT-TCAACATGGCACG
* **
7584511 TAACATTTTT-AACATGGCGTG
1 TAATATTTTTCAACATGGCACG
7584532 TAATATTTTT
1 TAATATTTTT
7584542 TTTTAACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.67
22 1 0.04
23 8 0.30
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (22 bp):
TAATATTTTTCAACATGGCACG
Found at i:7584558 original size:26 final size:25
Alignment explanation
Indices: 7584516--7584569 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
7584506 GCACGTAACA
* * *
7584516 TTTTTAACATGGCGTGTAATATTTT
1 TTTTTAACATAGCGTGTAACATGTT
*
7584541 TTTTTAACTATAGTGTGTAACATGTT
1 TTTTTAAC-ATAGCGTGTAACATGTT
7584567 TTT
1 TTT
7584570 GCGCATAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.54
Consensus pattern (25 bp):
TTTTTAACATAGCGTGTAACATGTT
Found at i:7588740 original size:45 final size:45
Alignment explanation
Indices: 7588687--7588798 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
7588677 GAAACATGTT
7588687 ACACGTCATGGTTAGGTTGTTACACACCATGTACAAAAACGTAGG
1 ACACGTCATGGTTAGGTTGTTACACACCATGTACAAAAACGTAGG
* * * * * *
7588732 ATATGTCATGGTTAGATTGTTACACGCCATGTACAAAAATGTATG
1 ACACGTCATGGTTAGGTTGTTACACACCATGTACAAAAACGTAGG
*
7588777 ACACGTCATGGTTAAGTTGTTA
1 ACACGTCATGGTTAGGTTGTTA
7588799 AAAAAAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (45 bp):
ACACGTCATGGTTAGGTTGTTACACACCATGTACAAAAACGTAGG
Found at i:7593648 original size:13 final size:14
Alignment explanation
Indices: 7593623--7593651 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7593613 TTGTATAAAT
7593623 ACAAAGCAAAAAAA
1 ACAAAGCAAAAAAA
7593637 ACAAAG-AAAAAAA
1 ACAAAGCAAAAAAA
7593650 AC
1 AC
7593652 TGCAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (14 bp):
ACAAAGCAAAAAAA
Found at i:7614911 original size:10 final size:10
Alignment explanation
Indices: 7614896--7614921 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7614886 TTACCACATT
7614896 TGACTTATCA
1 TGACTTATCA
7614906 TGACTTATCA
1 TGACTTATCA
7614916 TGACTT
1 TGACTT
7614922 TTGTCGTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (10 bp):
TGACTTATCA
Found at i:7621701 original size:2 final size:2
Alignment explanation
Indices: 7621694--7621753 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
7621684 CTGGGAATAA
* * *
7621694 TC TC TC TC TC TC TC TC CC CC TT TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7621736 TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
7621754 GCAGGAGGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:7635586 original size:2 final size:2
Alignment explanation
Indices: 7635579--7635604 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7635569 GCTTCGTAAT
7635579 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7635605 GCAGTTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7641105 original size:121 final size:121
Alignment explanation
Indices: 7640891--7641133 Score: 477
Period size: 121 Copynumber: 2.0 Consensus size: 121
7640881 AATCTCCTTG
7640891 GAAGTTTTGCAACATTATCAGACAAATTGAGAATCTCAAATCTAAGGTTGGTCCTTGGAAAATTT
1 GAAGTTTTGCAACATTATCAGACAAATTGAGAATCTCAAATCTAAGGTTGGTCCTTGGAAAATTT
*
7640956 AACATTTTCTCAGATCTGGTAACAGTCTTGCTGATAAGCTGGCCAAAGATGGTATT
66 AACATTTTCTCAGATCTGGTAACAGTCTTGCTGATAAGCTGGCCAAAAATGGTATT
7641012 GAAGTTTTGCAACATTATCAGACAAATTGAGAATCTCAAATCTAAGGTTGGTCCTTGGAAAATTT
1 GAAGTTTTGCAACATTATCAGACAAATTGAGAATCTCAAATCTAAGGTTGGTCCTTGGAAAATTT
7641077 AACATTTTCTCAGATCTGGTAACAGTCTTGCTGATAAGCTGGCCAAAAATGGTATT
66 AACATTTTCTCAGATCTGGTAACAGTCTTGCTGATAAGCTGGCCAAAAATGGTATT
7641133 G
1 G
7641134 GAAGGGAATG
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.32
Consensus pattern (121 bp):
GAAGTTTTGCAACATTATCAGACAAATTGAGAATCTCAAATCTAAGGTTGGTCCTTGGAAAATTT
AACATTTTCTCAGATCTGGTAACAGTCTTGCTGATAAGCTGGCCAAAAATGGTATT
Found at i:7647879 original size:20 final size:20
Alignment explanation
Indices: 7647833--7647879 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
7647823 ATTTTTATTG
7647833 ATTAA-TTTAAATGAATCCA
1 ATTAATTTTAAATGAATCCA
* *
7647852 ATTCATTTTAAATTAAT-CA
1 ATTAATTTTAAATGAATCCA
7647871 ATTTAATTT
1 A-TTAATTT
7647880 CATAGACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.47
Consensus pattern (20 bp):
ATTAATTTTAAATGAATCCA
Found at i:7650731 original size:20 final size:21
Alignment explanation
Indices: 7650693--7650731 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7650683 TATAGAATTA
7650693 ATATCCATATAATTCTTCAAG
1 ATATCCATATAATTCTTCAAG
7650714 ATATCTCATA-AATT-TTCA
1 ATATC-CATATAATTCTTCA
7650732 TTTATCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (21 bp):
ATATCCATATAATTCTTCAAG
Found at i:7652012 original size:28 final size:28
Alignment explanation
Indices: 7651980--7652034 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
7651970 CAAGAACGCA
*
7651980 AGGATATCTTCTTTTATCACATGTATTG
1 AGGATATCTTCTTTTATCACATCTATTG
7652008 AGGATATCTTCTTTTATCACATCTATT
1 AGGATATCTTCTTTTATCACATCTATT
7652035 CTCAATAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (28 bp):
AGGATATCTTCTTTTATCACATCTATTG
Found at i:7652896 original size:28 final size:27
Alignment explanation
Indices: 7652857--7652916 Score: 111
Period size: 28 Copynumber: 2.2 Consensus size: 27
7652847 CTGCATTGAT
7652857 ACTAATTTCCTTGAGCCATCGAAGGAA
1 ACTAATTTCCTTGAGCCATCGAAGGAA
7652884 ACTAAGTTTCCTTGAGCCATCGAAGGAA
1 ACTAA-TTTCCTTGAGCCATCGAAGGAA
7652912 ACTAA
1 ACTAA
7652917 CTTAGTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (27 bp):
ACTAATTTCCTTGAGCCATCGAAGGAA
Found at i:7657148 original size:20 final size:21
Alignment explanation
Indices: 7657110--7657149 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7657100 TCACTTTCGT
*
7657110 AGTCATCTTCTAATCGATTAA
1 AGTCATCCTCTAATCGATTAA
*
7657131 AGTCATCCT-TAATTGATTA
1 AGTCATCCTCTAATCGATTA
7657150 CTAAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
AGTCATCCTCTAATCGATTAA
Found at i:7667801 original size:18 final size:18
Alignment explanation
Indices: 7667775--7667819 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7667765 AAAAGAGTTC
* * *
7667775 AACAAATAATTTATAAGT
1 AACACATAATTCATAAAT
7667793 AACACATAATTCATAAAT
1 AACACATAATTCATAAAT
*
7667811 AACTCATAA
1 AACACATAA
7667820 ACCAACAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (18 bp):
AACACATAATTCATAAAT
Found at i:7678715 original size:17 final size:17
Alignment explanation
Indices: 7678685--7678718 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7678675 TCTGTTATCT
*
7678685 GAAAATATGATTTTGGA
1 GAAAACATGATTTTGGA
*
7678702 GAAAACATGTTTTTGGA
1 GAAAACATGATTTTGGA
7678719 TAAGGTTACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (17 bp):
GAAAACATGATTTTGGA
Found at i:7679518 original size:28 final size:27
Alignment explanation
Indices: 7679482--7679583 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 27
7679472 AAAATTTAAT
*
7679482 TGTTAAAAAATATAGTTGTTACACACTA
1 TGTTGAAAAAT-TAGTTGTTACACACTA
* * * * *
7679510 TGTTG-AAAATTTGGTGTTACATATTG
1 TGTTGAAAAATTAGTTGTTACACACTA
*
7679536 TGTTGAAAAATGTATTTGTTACACACTA
1 TGTTGAAAAAT-TAGTTGTTACACACTA
7679564 TGTT-AAAAATTTAGTTGTTA
1 TGTTGAAAAA-TTAGTTGTTA
7679584 TACGTCATAG
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
26 16 0.28
27 23 0.40
28 19 0.33
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (27 bp):
TGTTGAAAAATTAGTTGTTACACACTA
Found at i:7679571 original size:27 final size:27
Alignment explanation
Indices: 7679482--7679583 Score: 98
Period size: 28 Copynumber: 3.7 Consensus size: 27
7679472 AAAATTTAAT
7679482 TGTTAAAAAATATAGTTGTTACACACTA
1 TGTTAAAAAAT-TAGTTGTTACACACTA
* * * * * *
7679510 TGTT-GAAAATTTGGTGTTACATATTG
1 TGTTAAAAAATTAGTTGTTACACACTA
* *
7679536 TGTTGAAAAATGTATTTGTTACACACTA
1 TGTTAAAAAAT-TAGTTGTTACACACTA
*
7679564 TGTTAAAAATTTAGTTGTTA
1 TGTTAAAAAATTAGTTGTTA
7679584 TACGTCATAG
Statistics
Matches: 56, Mismatches: 16, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
26 15 0.27
27 18 0.32
28 23 0.41
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (27 bp):
TGTTAAAAAATTAGTTGTTACACACTA
Found at i:7688285 original size:21 final size:21
Alignment explanation
Indices: 7688259--7688298 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7688249 TATGTATTTA
7688259 AATTTGAATGGATTTGCTTAT
1 AATTTGAATGGATTTGCTTAT
* *
7688280 AATTTGATTTGATTTGCTT
1 AATTTGAATGGATTTGCTT
7688299 TGATTGGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.05, G:0.17, T:0.53
Consensus pattern (21 bp):
AATTTGAATGGATTTGCTTAT
Found at i:7692982 original size:3 final size:3
Alignment explanation
Indices: 7692976--7693008 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7692966 ATAATAATAA
7692976 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7693009 GTAAACGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7696209 original size:27 final size:27
Alignment explanation
Indices: 7696179--7696230 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
7696169 TCTTATGGGA
7696179 CTCATCAAATATAGGATTCAAGATTAC
1 CTCATCAAATATAGGATTCAAGATTAC
* *
7696206 CTCATCAGATATGGGATTCAAGATT
1 CTCATCAAATATAGGATTCAAGATT
7696231 GCTTTGGGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (27 bp):
CTCATCAAATATAGGATTCAAGATTAC
Found at i:7700985 original size:22 final size:20
Alignment explanation
Indices: 7700951--7700992 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
7700941 TAATATTTCG
7700951 TTAGTTTAGGATTTTATTTTTT
1 TTAGTTTAGGA--TTATTTTTT
7700973 TTAGTTT-GAGATTATTTTTT
1 TTAGTTTAG-GATTATTTTTT
7700993 CCATCTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 9 0.47
21 1 0.05
22 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (20 bp):
TTAGTTTAGGATTATTTTTT
Found at i:7705456 original size:17 final size:17
Alignment explanation
Indices: 7705434--7705466 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7705424 AGTCAATATG
7705434 GAAGGCACCTGAACAGT
1 GAAGGCACCTGAACAGT
7705451 GAAGGCACCTGAACAG
1 GAAGGCACCTGAACAG
7705467 GAGCTTGAGA
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:0.36, C:0.24, G:0.30, T:0.09
Consensus pattern (17 bp):
GAAGGCACCTGAACAGT
Found at i:7727452 original size:6 final size:6
Alignment explanation
Indices: 7727441--7727467 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7727431 TCATCCGGCT
7727441 CTGCCA CTGCCA CTGCCA CTGCCA CTG
1 CTGCCA CTGCCA CTGCCA CTGCCA CTG
7727468 GCTCCCCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.48, G:0.19, T:0.19
Consensus pattern (6 bp):
CTGCCA
Found at i:7733913 original size:11 final size:11
Alignment explanation
Indices: 7733899--7733945 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
7733889 TTATTATTTA
7733899 ATTATTTAATT
1 ATTATTTAATT
7733910 ATTATTTAATT
1 ATTATTTAATT
*
7733921 -TT-TATAGATAT
1 ATTATTTA-AT-T
7733932 ATTATTTAATT
1 ATTATTTAATT
7733943 ATT
1 ATT
7733946 TAATTTTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
9 3 0.10
10 4 0.13
11 16 0.53
12 4 0.13
13 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
ATTATTTAATT
Found at i:7742862 original size:2 final size:2
Alignment explanation
Indices: 7742855--7742893 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7742845 TGCATGCTAC
7742855 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7742894 GATAGATAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7776694 original size:32 final size:33
Alignment explanation
Indices: 7776643--7776707 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
7776633 TCTTTTCATG
*
7776643 TGCATTTCACTTACATTTCATTCCATTTGCATT
1 TGCATATCACTTACATTTCATTCCATTTGCATT
* *
7776676 TGCATATCATTTAC-TTTCATTTCATTTGCATT
1 TGCATATCACTTACATTTCATTCCATTTGCATT
7776708 CCACTCGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.51
Consensus pattern (33 bp):
TGCATATCACTTACATTTCATTCCATTTGCATT
Found at i:7778248 original size:39 final size:39
Alignment explanation
Indices: 7778194--7778268 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
7778184 TTGGTGCTAA
* *
7778194 AGCCACCAATCGAATACTCATGTCATCATCTAGTGCCAT
1 AGCCACCAACCGAATAATCATGTCATCATCTAGTGCCAT
* *
7778233 AGCCACTAACCGAATAATCATGTCATCATCTGGTGC
1 AGCCACCAACCGAATAATCATGTCATCATCTAGTGC
7778269 TGTAACCACT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (39 bp):
AGCCACCAACCGAATAATCATGTCATCATCTAGTGCCAT
Found at i:7778278 original size:39 final size:39
Alignment explanation
Indices: 7778204--7778278 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
7778194 AGCCACCAAT
* *
7778204 CGAATACTCATGTCATCATCTAGTGCCATAGCCACTAAC
1 CGAATAATCATGTCATCATCTAGTGCCATAACCACTAAC
* **
7778243 CGAATAATCATGTCATCATCTGGTGCTGTAACCACT
1 CGAATAATCATGTCATCATCTAGTGCCATAACCACT
7778279 GACGAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (39 bp):
CGAATAATCATGTCATCATCTAGTGCCATAACCACTAAC
Found at i:7779471 original size:29 final size:28
Alignment explanation
Indices: 7779432--7779601 Score: 144
Period size: 29 Copynumber: 5.9 Consensus size: 28
7779422 CAGCTTTAAC
*
7779432 ATGTTTGTCTTAATTCAGACAAGAAAAT
1 ATGTTTGTCTTAATTAAGACAAGAAAAT
* *
7779460 ATGTTTGATCTTAATTTAGACAAAAAAAT
1 ATGTTTG-TCTTAATTAAGACAAGAAAAT
7779489 ATGTTTGTCTTAATTTAAGACAAGAAAATT
1 ATGTTTGTCTTAA-TTAAGACAAGAAAA-T
* * *
7779519 ATTTTTTGTCTTAATCTAA-ACAAAAAAAC
1 A-TGTTTGTCTTAAT-TAAGACAAGAAAAT
* ** * * * *
7779548 ATATTCATCTCAATTTAGATAAGATAAGT
1 ATGTTTGTCTTAATTAAGACAAGA-AAAT
*
7779577 ATTTTTGTCTTAATTAAAGACAAGA
1 ATGTTTGTCTTAATT-AAGACAAGA
7779602 GTTATTTTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.02
28 26 0.23
29 52 0.46
30 18 0.16
31 14 0.12
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (28 bp):
ATGTTTGTCTTAATTAAGACAAGAAAAT
Found at i:7779495 original size:57 final size:59
Alignment explanation
Indices: 7779432--7779594 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 59
7779422 CAGCTTTAAC
* * *
7779432 ATGTTTGTCTTAA-TTCAGACAAGAAAA-TA-TGTTTGATCTTAATTTAGACAAAAAAAT
1 ATGTTTGTCTTAATTTAAGACAAGAAAATTATTGTTTG-TCTTAATCTAAACAAAAAAAT
* *
7779489 ATGTTTGTCTTAATTTAAGACAAGAAAATTATTTTTTGTCTTAATCTAAACAAAAAAAC
1 ATGTTTGTCTTAATTTAAGACAAGAAAATTATTGTTTGTCTTAATCTAAACAAAAAAAT
* ** * * * *
7779548 ATATTCATCTCAATTT-AGATAAGATAAGTATT-TTTGTCTTAAT-TAAA
1 ATGTTTGTCTTAATTTAAGACAAGAAAATTATTGTTTGTCTTAATCTAAA
7779595 GACAAGAGTT
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
56 4 0.04
57 24 0.26
58 26 0.29
59 32 0.35
60 5 0.05
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (59 bp):
ATGTTTGTCTTAATTTAAGACAAGAAAATTATTGTTTGTCTTAATCTAAACAAAAAAAT
Found at i:7783896 original size:56 final size:56
Alignment explanation
Indices: 7783806--7783943 Score: 136
Period size: 57 Copynumber: 2.4 Consensus size: 56
7783796 AACAAAATCA
* * * ** **
7783806 CAAAAACACATTCATGTCCAA-ATCATCACCCAAAAT-TTTTCATTGGGTGGACTCC
1 CAAAAACACTTTCATGT-TAACATCACCACCCAAAATATGCTCATTGGGCAGACTCC
*
7783861 CAAAAACACTTTCAGTGTTAACATCACCACCCAAAATATGCTCATTGGGCAGACTCT
1 CAAAAACACTTTCA-TGTTAACATCACCACCCAAAATATGCTCATTGGGCAGACTCC
* * *
7783918 TAGAAACACTTACAATGTTAACATCA
1 CAAAAACACTTTC-ATGTTAACATCA
7783944 TCGTCTAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
55 15 0.22
56 17 0.25
57 35 0.51
58 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (56 bp):
CAAAAACACTTTCATGTTAACATCACCACCCAAAATATGCTCATTGGGCAGACTCC
Found at i:7785140 original size:21 final size:22
Alignment explanation
Indices: 7785111--7785163 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
7785101 TTTTCATATG
7785111 CATTTCATTTAAATTT-CACTC
1 CATTTCATTTAAATTTGCACTC
* * *
7785132 CATTACATTT-CATTTGCACTG
1 CATTTCATTTAAATTTGCACTC
7785153 CATTTCATTTA
1 CATTTCATTTA
7785164 CGTTCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.47
Consensus pattern (22 bp):
CATTTCATTTAAATTTGCACTC
Found at i:7788179 original size:21 final size:21
Alignment explanation
Indices: 7788153--7788193 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7788143 GGATGGAGTG
*
7788153 AAGTGAACATTGCACCAAATA
1 AAGTGAACATTGAACCAAATA
*
7788174 AAGTGAACGTTGAACCAAAT
1 AAGTGAACATTGAACCAAAT
7788194 TAAGGAGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (21 bp):
AAGTGAACATTGAACCAAATA
Found at i:7800251 original size:2 final size:2
Alignment explanation
Indices: 7800244--7800268 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7800234 TGACATGCAC
7800244 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
7800269 TTTATACCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7806490 original size:2 final size:2
Alignment explanation
Indices: 7806479--7806513 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
7806469 TTGGTATTAG
*
7806479 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7806514 GTTTGGCAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7810831 original size:15 final size:15
Alignment explanation
Indices: 7810811--7810844 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7810801 TTTTAAATAA
7810811 AAAATAATAATAATT
1 AAAATAATAATAATT
* *
7810826 AAAATAATTATATTT
1 AAAATAATAATAATT
7810841 AAAA
1 AAAA
7810845 ATTGACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATAATAATAATT
Found at i:7811047 original size:495 final size:490
Alignment explanation
Indices: 7809232--7814185 Score: 4654
Period size: 495 Copynumber: 10.0 Consensus size: 490
7809222 ATTGAAATAA
* * * * *
7809232 TTAATTAAATAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTTTCAGACCAA
1 TTAATTAAGTAAAAAAAACTAATTTTA-TGAAAAATAAATATTTAAATATATATTCTC-GACTAA
* * * *
7809297 AAGTGTTTAAAACGATATACAAATTTTAATTTTTAGATAAAGAATAATAAGGATTAAAATAATTA
64 AA-TGTTT--AACGATATATAAATTTTAATTTTTAAAT-AA-AATAATAA-TAATAAAATAATTA
* * * * * * *
7809362 TAGTTTAAAATAGATATAGAAAAATCTTGACGTAAAATTATAAGAATTGACGT-AAAACTTAT-A
123 TAG-TAAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAA
* * * * * * * *
7809425 AAGATAAAATAATTAAATTTTAAATTTTAACATAAATGTATAAGAGTTAACATAGCAAGTCAATT
187 AAG-TAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATT
* * * * * * *
7809490 AAGGAAAAAATTTAA-TTTATTAAAAAATAAATATTTAAATTTATATTCT-TAGAATAAAAGTAT
251 AAGTAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAG-CTAAAAGTAT
* * *
7809553 TTAACGATATATAAGTTTTAATTTTTAAATAAAAATAATAAAGATAAAAACAATTATAGTTTAAA
315 TTAACGATATATAAATTTTAATTTTTAAAT-AAAATAATAAAAATAAAAATAATTATAG-TTAAA
** * * * *
7809618 ATTGACATAGATAAGCCTTGACGTAAAATTGTAAGAATTAATGTAAAAACTTATAAAAGT-GAAA
378 ATT-ACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAG-AA
* * * *
7809682 TAACTAAATTTTAAATATTAACGTAAATGTGTGAGAGTTAACGTAATAAG
441 TAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * * * * *
7809732 TTAATTAAGTAAAAAAGTCTAATTTTAATAAAAAAATAAGTATTTATATTTATATTATCAAGCTA
1 TTAATTAAGTAAAAAAAACTAATTTT-AT-GAAAAATAAATATTTAAATATATATTCTCGA-CTA
* * **
7809797 AAA-GAATGTAACGATATACAAATTTTAATTTTTAAATAAAATAATAAGGATAAAATAATTATAG
63 AAATG--TTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAATAAAATAATTATAG
* * * * *
7809861 TATAAATTGATA-AGATAAGTCTTAACGTAAAACTGTAAAAATTGACGTAAAAATTTATAAAAGT
126 TAAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGT
**
7809925 AG-ATAA-TAAA-TTTAAATC-TAACGTAAATGTATGAGAGTTAACGTAACAAGTCCATTAAGTA
191 AGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAGT-
* * * * *
7809986 AAAAAATTTTAATTTTAGTGTAAAATAAATATTT-AATATTATATTTCTCGA-CTAAAAATGTTT
255 AAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAAT-TTATA-TTATCGAGCTAAAAGTATTT
* * *
7810049 AACGATATAT-AATTTT-ATTTTTAAATAAACAAAATAATAATAAAAATAA-TATTGTTCAAAAT
317 AACGATATATAAATTTTAATTTTTAAATAAA-ATAATAAAAATAAAAATAATTATAGTT-AAAAT
* * * * *
7810111 TAGTATAGATAAATCTTGACGTAAAACTGTAACAGTTGACGTAAAAACTTATAAAGGTAGAATAA
380 TA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAA
* ** * * * *
7810176 TTAAATTTTAAATCTTAATATAAATTTGTGAGAATTAACATAACAAG
444 CTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7810223 TCAATTGAGTAAAAAAAATTCTAATTTTAGTGAAAAACAAATATCTGAATATA-ATTCTTCGGCT
1 TTAATTAAGTAAAAAAAA--CTAATTTTA-TGAAAAATAAATATTTAAATATATATTC-TCGACT
* *
7810287 AAATTG-TTAACAATATAT-AATTTTAA-TTTTAAAT-AAA-AATAATAATAAAAATAATTATTA
62 AAAATGTTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAAT-AAAATAATTA-TA
* * ** * * *
7810347 CTCAAAATTTTCATACATAAAT-TTGACGTAAAACTGTAAGAATTGACATAAAAACTTAT-AAAG
125 GTAAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAG
* * * *
7810410 ATAGAATAACTAAATTTTAAATCTTAACATAAAT-TGTGACAGTTAACGTAA-AAATTAATTAAG
190 -TAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAG
* * * * * * *
7810473 TAAAAACATCTAATTTTAATGAAAAATAAGTGTTTATATTTTTATTATCGAACTAAAAGTATGTA
254 TAAAAA-ATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTATTTA
** *
7810538 ACGATATATAAATTTTAATTTTTAAATAAAATAATAAGGATAAAATTAATTATAGTATAAAATTG
318 ACGATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAGT-TAAAATT-
* * *
7810603 ACATAGATAAGTCCTAACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACT
381 ACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACT
* **
7810668 AAATTTTAAATCTTAATGTAAACGTATGAGAGTT-ACGTAACAAG
446 AAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * *
7810712 TCCATTAAGTAAAAAAAAATAATTTTA-GATAAATAAATA-TTAAATATATATTCTCGGACTAAA
1 TTAATTAAGTAAAAAAAACTAATTTTATGAAAAATAAATATTTAAATATATATTCTC-GACTAAA
* *
7810775 ATGTTTAACGATATATAAATTTTATTTTTTAAATAAAAAATAATAATAATTAAAATAATTATATT
65 ATGTTTAACGATATATAAATTTTAATTTTTAAAT--AAAATAATAATAA-TAAAATAATTATA-G
* * * * *
7810840 TAAAAATTGACATAAATAAATCTTAACGTAAAACTATAATAGTTGACTTAAAAACTTATAAAAGT
126 TAAAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGT
* * * * * *
7810905 GGAATAACTAAATTTTAAATATTAACGTAAATGTGTCAGAGTTAAAGTAATAAGTTAATTAAGTA
191 AGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAGTA
* * * * *
7810970 AAACAATCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAAAAGTATGTAAC
256 AAA-AATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTATTTAAC
* *
7811035 GATATATAAATTTTAATTTTTAAATAAAATAATAAAGATAAAAATAATTATAGTATAAAGATGAC
320 GATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAGT-TAAA-ATTAC
* * * ** *
7811100 ATAGATAAGTTTTAATATAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACTGA
383 ATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACTAA
* * **
7811165 ATTTTAAATCTTAACATAAATATAT-AAAGCCAACGTAACAAG
448 ATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * *
7811207 TCCATTAAGAAAAAAAAAATATAATTTTAGTGAAAAATAAATATTT-AATATATATTCTTGGACT
1 TTAATTAAG-TAAAAAAAA-CTAATTTTA-TGAAAAATAAATATTTAAATATATATTC-TCGACT
* * * *
7811271 AAAAGTTTTTAACAATATATAAATTTTATTTTTTAAAT-AAATAATAATAATAATAATAATTATT
62 AAAA-TGTTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAATAA-AATAATTATA
* * * * * * * *
7811335 GCTCAAAATT-ATAATAGGTAAATCTTGACATAAAACTATAACAGTTGACGTAAAAACTTATAAA
125 G-TAAAAATTGA-CATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAA
* * * * * * * * *
7811399 TGTGGCATAATTAAATTTTACATCTTAACGTAAATATGTGAGAGTTAACGTAACAAATTAATTGA
188 AGTAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAA
** * * * * *
7811464 GTAAAATTTTTTTAATTTTAGTGAAAAATAAATATTTAAATATATACTCT-TCCA-CTAAATGTG
253 GTAAAA--AATCTAATTTTAGTGAAAAATAAATATTTAAATTTATA-T-TATCGAGCTAAAAGTA
** * **
7811527 TTTAAAAATATATAAATTTTAATTTTTAAAT-AAATAATAATAATAAAAATAATTATTTTTCAAA
314 TTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAGTT-AAA
* * * * * * *
7811591 ATTATTATAGATAAATTTTGACATAAAACTGTAAGAATTGACATAAAAACTTATAAAGGTGGAAT
378 ATTA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAAT
* * *
7811656 AACTAAATTTTAAATCTTAACGCAAATATATGAGAGTTAATGTAATAAG
442 AACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * * * *
7811705 TTAATTAAGTAAAAAAGTCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAA
1 TTAATTAAGTAAAAAAAACTAATTTT-ATGAAAAATAAATATTTAAATATATATTCTCGA-CTAA
*
7811770 AA-GTATGTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAGAATAAAATTAATTATAG
64 AATGT-T-TAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAATAAAA-TAATTATAG
* * * * *
7811834 TATAAAATTGATATAGATAAGTCTTAACATAAAACTGTAAGAAATGACGTAAAAATTTATAAAAG
126 TA-AAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAG
* * * * ** **
7811899 TAGAAT-ACTGAATTTTAAATC-TAACAT-AATATATAAGAGCCAACGTAACAAGTCCATTAAGA
190 TAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAG-
* * * * * *
7811961 AAAAAAATATTAATTTTAGTGAAAAATAAATATTT-AATATATATTTTGGA-CTAAAAGTTTTTA
254 TAAAAAAT-CTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTATTTA
* * * * *
7812024 ACAATATA-AAATTTTATTTTTTAAAT--AATAATAATAATAATAATAATTAT-GCTCAAAATTA
318 ACGATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAG-TTAAAATTA
* * ** * * * * * * * *
7812085 TAATAGGTAAATCTTGACAAAAAACTATAACAGTTGACGTAAAAACTTAT-AATGTGGCATAATT
382 -CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACT
* * *
7812149 AAA-TTTACATCTTAACGTAAATATGTGAGAGTTAACGTAACAAA
446 AAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* ***** * *
7812193 TTAATTGAGTAAAATTTTTTTAATTTTAGTGAAAAATAAATATTTAAATATATACTCTTCCACTA
1 TTAATTAAGTAAAA-AAAACTAATTTTA-TGAAAAATAAATATTTAAATATATATTC-TCGACTA
* ** * **
7812258 AATGTGTTTAAAAATATATAAATTTTAATTTTTAAATAATAATAATAATAAAAAAATAATT-TTT
63 AA-ATGTTTAACGATATATAAATTTTAATTTTTAAATAA-AATAATAATAATAAAATAATTATAG
* * * * * * *
7812322 TCAAAATT-ATTATAGATATAATTTTGACATAAAACTGTAAGAATTGACATAAAAACTTATAAAG
126 TAAAAATTGA-CATAGATA-AATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAA
* * * * * *
7812386 GTGGAATAACTAAATTTTAAATCTTAACGCAAATATATGAGGGTTAATGTAATAAGTTAATTAAG
189 GTAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAG
* * * * *
7812451 TAAAAAAGTCTAA-TTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAAAAGTATGTA
254 TAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTATTTA
* *
7812515 ACGATA-ATAAATTTTAATTTTT-AATAAAAATAATAAGAATAAAATTAATTATAGTATAAAATT
318 ACGATATATAAATTTTAATTTTTAAAT-AAAATAATAAAAATAAAAATAATTATAGT-TAAAATT
* * * *
7812578 GATATAGATAAGTCTTAACATAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAAC
381 -ACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAAC
* *
7812643 TAAATTTTAAATCTTAATGTAAACATATGAGAGTTAACGTAACAAG
445 TAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* *
7812689 TTCATTAAGTAAAAAAAAATCTAATTTTACTGAAAAATAAATATTTAAATATATATTCTCAGCCT
1 TTAATTAAGT-AAAAAAAA-CTAATTTTA-TGAAAAATAAATATTTAAATATATATTCTC-GACT
* * **
7812754 AAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAAGTAAT-AGGATAAAATTAATTA-A
62 AAAA-TGTTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAATAAAA-TAATTATA
* * *
7812817 GTATAAAATTGACATAGATAAGTCTTAACCTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
125 GTA-AAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAA
* * * ** * **
7812882 GTAAAACAGCTAAATTTTAAATCTTAATATAAATGTATGAGAGTTAATGTAACAAGTCCATTAAG
189 GTAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAG
* * * *
7812947 TAAAAAAAATCTAATTTTAGTGACAAATAAATATTTAAATATATATTCTCG-GACTAAAAGTGTT
254 T--AAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAG-CTAAAAGTATT
* * *
7813011 TAACAATATATAAATTTTAATTTTTAAAT-AAATAAT---AAT-AAAATAATTATTGCTCAAAAT
316 TAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAG-TTAAAAT
* * * * *
7813071 TATCATAGTTAAATTTTGACGTAAAACTGTAAGAATTGTCGTAAAAATTTATAAAGGTGGAATAA
380 TA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAA
* * * * *
7813136 CTAAATTTTAAATTTTAATGTAAATGTGTGAGAGTTAACGTAATAAG
444 CTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * * * *
7813183 TTAATTAAGTAAGAAAAGTCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTA
1 TTAATTAAGTAA-AAAAAACTAATTTT-ATGAAAAATAAATATTTAAATATATATTCTCGA-CTA
* * *
7813248 AAA-GTATGTAATGATATATAAATTTTAACTTTTAAATAAAATAATGAA-GATAAAATTAATTAT
63 AAATGT-T-TAACGATATATAAATTTTAATTTTTAAATAAAATAAT-AATAATAAAA-TAATTAT
* * * *
7813311 AGTATAAAATTGGCATAGATAAGTCTTAATGTAAAACTGTAAGAATTGACGTAAAAATTTATAAA
124 AGTA-AAAATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAA
* * * * *
7813376 AGTAGAATAATTAAATTTTAAATCTTAACCTAAACGTATGAGAGTTAGCGTAATAAGTCT-ATTA
188 AGTAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGT-TAATTA
* * * * *
7813440 AGTAAAAAAAAGTCTAATTTTAGTGAAAAATAAATATTTAAATATATATTCTTGGGCTAAAAGTG
252 AGT--AAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTA
* * * * * *
7813505 TTGAACGATATATAGATTTTATTTTTTAAATAAAAAAATAATAATAAAAATAATTATAGCTCAAA
314 TTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAG-TTAAA
* * * * * *
7813570 ATTGATATTGATAAATCTTGACGTAAAACTGTAACAGTTGACGTAAATATTTATAAAGGT-GAAA
378 ATT-ACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAG-AA
* *
7813634 TAATTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAA
441 TAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * *
7813684 TCAATTGAGTAGAAAAAAATTCTAATTTTAGTAAAAAATAAATATTTAAATATATATTCTTCGGC
1 TTAATTAAGTA-AAAAAAA--CTAATTTTA-TGAAAAATAAATATTTAAATATATATTC-TCGAC
* *
7813749 TAAATGTGTTTAA-TATTATATAAATTTTAATTTTTAAATAAAA-AATAATAATGAAAATAATTA
61 TAAA-ATGTTTAACGA-TATATAAATTTTAATTTTTAAATAAAATAATAATAAT-AAAATAATTA
* * * * * *
7813812 GTACTCAAAATT-ATCATAGATAAATTTTGACGTAAAACTGTAAGAATTTACGTAAAAATTTATA
123 -TAGTAAAAATTGA-CATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATA
* * * * **
7813876 AAGGTTGAATAACTAAATTTTAAATTTTAACGTAAATGTATTAGAGTTAACGTATTAAGTTAATT
186 AAAGTAGAATAACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATT
* * *** * * **
7813941 AAGTAAAAAAGTCTAATTTTAATGTAAAATATGCATTTATATTTATATTATCGGGCTAAAAACAT
251 AAGTAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTAT
* * * * * *
7814006 ATAACGATAT-TCAAAATTTT-ATGTTAAAAAAAGAATAATAAAGATAAATATAATTATAGTTAA
315 TTAACGATATAT--AAATTTTAATTTTTAAATAA-AATAATAAAAATAAAAATAATTATAGTTAA
* * * *
7814069 AAGTTACTATTGAAAAGAT-TTGACGTAAAATTGTAAGAATTAACGT-AAAATCTTATAAAAGT-
377 AA-TTAC-ATAGATAA-ATCTTGACGTAAAACTGTAAGAATTGACGTAAAAAT-TTATAAAAGTA
** * * *
7814131 GAAATAAAAAAAGTTAAAATCTTAACGTAAATATATGAGAGTTAATGTAACAAG
438 G-AATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
7814185 T
1 T
7814186 GATAATAATA
Statistics
Matches: 3722, Mismatches: 570, Indels: 323
0.81 0.12 0.07
Matches are distributed among these distances:
484 9 0.00
485 29 0.01
486 29 0.01
487 88 0.02
488 171 0.05
489 187 0.05
490 229 0.06
491 261 0.07
492 113 0.03
493 207 0.06
494 293 0.08
495 457 0.12
496 298 0.08
497 422 0.11
498 221 0.06
499 80 0.02
500 143 0.04
501 280 0.08
502 126 0.03
503 73 0.02
504 4 0.00
505 2 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (490 bp):
TTAATTAAGTAAAAAAAACTAATTTTATGAAAAATAAATATTTAAATATATATTCTCGACTAAAA
TGTTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAATAATAAAATAATTATAGTAAAA
ATTGACATAGATAAATCTTAACGTAAAACTGTAAGAATTGACGTAAAAACTTATAAAAGTAGAAT
AACTAAATTTTAAATCTTAACGTAAATGTATGAGAGTTAACGTAACAAGTTAATTAAGTAAAAAA
TCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTATCGAGCTAAAAGTATTTAACGATATA
TAAATTTTAATTTTTAAATAAAATAATAAAAATAAAAATAATTATAGTTAAAATTACATAGATAA
ATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAGAATAACTAAATTTTAAA
TCTTAACGTAAATATATGAGAGTTAACGTAACAAG
Found at i:7811150 original size:249 final size:247
Alignment explanation
Indices: 7809232--7814185 Score: 4613
Period size: 249 Copynumber: 20.0 Consensus size: 247
7809222 ATTGAAATAA
* * * *
7809232 TTAATTAAATAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTTTC-AGACCA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-CTA
* * * * *
7809296 AAAGTGTTTAAAACGATATACAAATTTTAATTTTTAGATAAAGAATAATAAGGATTAAAATAATT
65 AAAGTATTT--AACGATATATAAATTTTAATTTTTAAAT-AA-AATAATAA-AATAAAAATAATT
* * * * * *
7809361 ATAGTTTAAAATAGATATAGAAAAATCTTGACGTAAAATTATAAGAATTGACGT-AAAACTTAT-
125 ATAGTATAAAAT-GACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATA
* * * * * * * *
7809424 AAAGATAAAATAATTAAATTTTAAATTTTAACATAAATGTATAAGAGTTAACATAGCAAG
189 AAAG-TAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * * * * *
7809484 TCAATTAAG-GAAAAAATTTAA-TTTATTAAAAAATAAATATTTAAATTTATATTCT-TAGAATA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-CTA
* *
7809546 AAAGTATTTAACGATATATAAGTTTTAATTTTTAAATAAAAATAATAAAGATAAAAACAATTATA
65 AAAGTATTTAACGATATATAAATTTTAATTTTTAAAT-AAAATAATAAA-ATAAAAATAATTATA
* ** * * * *
7809611 GTTTAAAATTGACATAGATAAGCCTTGACGTAAAATTGTAAGAATTAATGTAAAAACTTATAAAA
128 GTATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
* * * *
7809676 GT-GAAATAACTAAATTTTAAATATTAACGTAAATGTGTGAGAGTTAACGTAATAAG
192 GTAG-AATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * * *
7809732 TTAATTAAGTAAAAAAGTCTAATTTTAATAAAAAAATAAGTATTTATATTTATATTATCAAGCTA
1 TTAATTAAGTAAAAAAATCTAATTTTAGT-GAAAAATAAATATTTAAATATATATTATCGAGCTA
* * * *
7809797 AAAGAATGTAACGATATACAAATTTTAATTTTTAAATAAAATAATAAGGAT-AAAATAATTATAG
65 AAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTATAG
* * * * *
7809861 TATAAATTGATA-AGATAAGTCTTAACGTAAAACTGTAAAAATTGACGTAAAAATTTATAAAAGT
129 TATAAAATGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
*
7809925 AG-ATAA-TAAA-TTTAAATC-TAACGTAAATGTATGAGAGTTAACGTAACAAG
194 AGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * *
7809975 TCCATTAAGTAAAAAAATTTTAATTTTAGTGTAAAATAAATATTT-AATATTATATTTCTCGA-C
1 TTAATTAAGTAAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATA-TATA-TTATCGAGC
* * *
7810038 TAAAAATGTTTAACGATATAT-AATTTT-ATTTTTAAATAAACAAAATAATAATAAAAATAA-TA
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAA-ATAATAA-AATAAAAATAATTA
* * * * * *
7810100 TTGT-TCAAAATTAGTATAGATAAATCTTGACGTAAAACTGTAACAGTTGACGTAAAAACTTATA
126 TAGTAT-AAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATA
* * ** * * * *
7810164 AAGGTAGAATAATTAAATTTTAAATCTTAATATAAATTTGTGAGAATTAACATAACAAG
189 AAAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7810223 TCAATTGAGTAAAAAAAATTCTAATTTTAGTGAAAAACAAATATCTGAATATA-ATTCTTCG-GC
1 TTAATTAAGT-AAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATATATATT-ATCGAGC
*
7810286 T-AAA-T-TGTTAACAATATAT-AATTTTAA-TTTTAAAT-AAA-AATAATAATAAAAATAATTA
63 TAAAAGTAT-TTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTA
** * * *
7810344 T--TACTCAAAATTTTCATACATAAAT-TTGACGTAAAACTGTAAGAATTGACATAAAAACTTAT
126 TAGTA-T-AAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTAT
* * * *
7810406 -AAAGATAGAATAACTAAATTTTAAATCTTAACATAAAT-TGTGACAGTTAACGTAA-AAA
188 AAAAG-TAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * * * *
7810464 TTAATTAAGTAAAAACATCTAATTTTAATGAAAAATAAGTGTTTATATTTTTATTATCGAACTAA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
* * *
7810529 AAGTATGTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAGGATAAAATTAATTATAGT
66 AAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTATAGT
* * *
7810594 ATAAAATTGACATAGATAAGTCCTAACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
130 ATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
* **
7810659 AGAATAACTAAATTTTAAATCTTAATGTAAACGTATGAGAGTT-ACGTAACAAG
194 AGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** ** * *
7810712 TCCATTAAGTAAAAAAAAATAATTTTA--GATAAATAAATA-TTAAATATATATTCTCG-GACTA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-CTA
* * *
7810773 AAA-TGTTTAACGATATATAAATTTTATTTTTTAAATAAAAAATAATAATAATTAAAATAATTAT
65 AAAGTATTTAACGATATATAAATTTTAATTTTTAAAT--AAAATAATAA-AATAAAAATAATTAT
* * * * * * * *
7810837 A-TTTAAAAATTGACATAAATAAATCTTAACGTAAAACTATAATAGTTGACTTAAAAACTTATAA
127 AGTAT-AAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAA
* * * * * * *
7810901 AAGTGGAATAACTAAATTTTAAATATTAACGTAAATGTGTCAGAGTTAAAGTAATAAG
190 AAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7810959 TTAATTAAGTAAAACAATCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
*
7811024 AAGTATGTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAGATAAAAATAATTATAGT
66 AAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAA-ATAAAAATAATTATAGT
* * * **
7811089 ATAAAGATGACATAGATAAGTTTTAATATAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
130 ATAAA-ATGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
* * * **
7811154 AGAATAACTGAATTTTAAATCTTAACATAAATATAT-AAAGCCAACGTAACAAG
194 AGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * * *
7811207 TCCATTAAGAAAAAAAAAATATAATTTTAGTGAAAAATAAATATTT-AATATATATTCTTG-GAC
1 TTAATTAAG--TAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-C
* * * *
7811270 TAAAAGTTTTTAACAATATATAAATTTTATTTTTTAAAT-AAATAATAATAATAATAATAATTAT
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTAT
* * * * * * * * * *
7811334 TGCT-CAAAATTATAATAGGTAAATCTTGACATAAAACTATAACAGTTGACGTAAAAACTTATAA
127 AG-TATAAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAA
* * * * * * *
7811398 ATGTGGCATAATTAAATTTTACATCTTAACGTAAATATGTGAGAGTTAACGTAACAAA
190 AAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* *** * *
7811456 TTAATTGAGTAAAATTTTTTTAATTTTAGTGAAAAATAAATATTTAAATATATACTCT-TCCA-C
1 TTAATTAAGTAAAA-AAATCTAATTTTAGTGAAAAATAAATATTTAAATATATA-T-TATCGAGC
* * **
7811519 TAAATGTGTTTAAAAATATATAAATTTTAATTTTTAAAT-AAATAATAATAATAAAAATAATTAT
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTAT
* * * * * * * *
7811583 -TTTTCAAAATTATTATAGATAAATTTTGACATAAAACTGTAAGAATTGACATAAAAACTTATAA
127 AGTAT-AAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAA
* * * * *
7811647 AGGTGGAATAACTAAATTTTAAATCTTAACGCAAATATATGAGAGTTAATGTAATAAG
190 AAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7811705 TTAATTAAGTAAAAAAGTCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
* *
7811770 AAGTATGTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAGAATAAAATTAATTATAGT
66 AAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTATAGT
* * * * *
7811835 ATAAAATTGATATAGATAAGTCTTAACATAAAACTGTAAGAAATGACGTAAAAATTTATAAAAGT
130 ATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGT
* * * **
7811900 AGAAT-ACTGAATTTTAAATC-TAACAT-AATATATAAGAGCCAACGTAACAAG
194 AGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * * * *
7811951 TCCATTAAGAAAAAAAATATTAATTTTAGTGAAAAATAAATATTT-AATATATATTTTGGA-CTA
1 TTAATTAAGTAAAAAAAT-CTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTA
* * * *
7812014 AAAGTTTTTAACAATATA-AAATTTTATTTTTTAAAT--AATAATAATAATAATAATAATTAT-G
65 AAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTATAG
* * * * ** * * * * *
7812075 CT-CAAAATTATAATAGGTAAATCTTGACAAAAAACTATAACAGTTGACGTAAAAACTTAT-AAT
129 -TATAAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
* * * * * *
7812138 GTGGCATAATTAAA-TTTACATCTTAACGTAAATATGTGAGAGTTAACGTAACAAA
192 GTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* *** * *
7812193 TTAATTGAGTAAAATTTTTTTAATTTTAGTGAAAAATAAATATTTAAATATATACTCT-TCCA-C
1 TTAATTAAGTAAAA-AAATCTAATTTTAGTGAAAAATAAATATTTAAATATATA-T-TATCGAGC
* * **
7812256 TAAATGTGTTTAAAAATATATAAATTTTAATTTTTAAATAATAATAATAATAA-AAAAATAATT-
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAA-AATAATAA-AATAAAAATAATTA
* * * * * * *
7812319 T--TTTCAAAATTATTATAGATATAATTTTGACATAAAACTGTAAGAATTGACATAAAAACTTAT
126 TAGTAT-AAAATGA-CATAGATA-AATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTAT
* * * * * *
7812382 AAAGGTGGAATAACTAAATTTTAAATCTTAACGCAAATATATGAGGGTTAATGTAATAAG
188 AAAAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7812442 TTAATTAAGTAAAAAAGTCTAA-TTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTAA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
* *
7812506 AAGTATGTAACGATA-ATAAATTTTAATTTTT-AATAAAAATAATAAGAATAAAATTAATTATAG
66 AAGTATTTAACGATATATAAATTTTAATTTTTAAAT-AAAATAATAA-AATAAAAATAATTATAG
* * * *
7812569 TATAAAATTGATATAGATAAGTCTTAACATAAAACTGTAAGAATTGACGTAAAAATTTATAAAAG
129 TATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAG
* *
7812634 TAGAATAACTAAATTTTAAATCTTAATGTAAACATATGAGAGTTAACGTAACAAG
193 TAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * *
7812689 TTCATTAAGTAAAAAAAAATCTAATTTTACTGAAAAATAAATATTTAAATATATATTCTC-AGCC
1 TTAATTAAGT--AAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-C
* * * ** *
7812753 TAAAAGTGTTTAACGATATATAAATTTTATTTTTTAAATAAAGTAATAGGATAAAATTAATTA-A
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAATAAAAATAATTATA
* * *
7812817 GTATAAAATTGACATAGATAAGTCTTAACCTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
128 GTATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
* * * ** * *
7812882 GTAAAACAGCTAAATTTTAAATCTTAATATAAATGTATGAGAGTTAATGTAACAAG
192 GTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
** * *
7812938 TCCATTAAGTAAAAAAAATCTAATTTTAGTGACAAATAAATATTTAAATATATATTCTCG-GACT
1 TTAATTAAGT-AAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAG-CT
* * *
7813002 AAAAGTGTTTAACAATATATAAATTTTAATTTTTAAAT-AAATAAT--AAT-AAAATAATTATTG
64 AAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAATAAAAATAATTATAG
* * * * * *
7813063 CT-CAAAATTATCATAGTTAAATTTTGACGTAAAACTGTAAGAATTGTCGTAAAAATTTATAAAG
129 -TATAAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAA
* * * * * *
7813127 GTGGAATAACTAAATTTTAAATTTTAATGTAAATGTGTGAGAGTTAACGTAATAAG
192 GTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * * * *
7813183 TTAATTAAGTAAGAAAAGTCTAATTTTAATAAAAAATAAGTATTTATATTTATATTATCGAGCTA
1 TTAATTAAGTAA-AAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTA
* * * * *
7813248 AAAGTATGTAATGATATATAAATTTTAACTTTTAAATAAAATAATGAAGATAAAATTAATTATAG
65 AAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAAT-AAAATAAAAATAATTATAG
* * * *
7813313 TATAAAATTGGCATAGATAAGTCTTAATGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAG
129 TATAAAA-TGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAG
* * ** * *
7813378 TAGAATAATTAAATTTTAAATCTTAACCTAAACGTATGAGAGTTAGCGTAATAAG
193 TAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * *
7813433 TCT-ATTAAGTAAAAAAAAGTCTAATTTTAGTGAAAAATAAATATTTAAATATATATTCTTGGGC
1 T-TAATTAAGT-AAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGC
* * * * *
7813497 TAAAAGTGTTGAACGATATATAGATTTTATTTTTTAAATAAAAAAATAATAATAAAAATAATTAT
63 TAAAAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATTAT
* * * * * *
7813562 AGCTCA-AAATTGATATTGATAAATCTTGACGTAAAACTGTAACAGTTGACGTAAATATTTATAA
127 AG-T-ATAAAATGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAA
* * *
7813626 AGGT-GAAATAATTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAA
190 AAGTAG-AATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * *
7813684 TCAATTGAGTAGAAAAAAATTCTAATTTTAGTAAAAAATAAATATTTAAATATATATTCTTCG-G
1 TTAATTAAGT--AAAAAAA-TCTAATTTTAGTGAAAAATAAATATTTAAATATATATT-ATCGAG
* * * *
7813748 CTAAATGTGTTTAA-TATTATATAAATTTTAATTTTTAAATAAAA-AATAATAATGAAAATAA-T
62 CTAAAAGTATTTAACGA-TATATAAATTTTAATTTTTAAATAAAATAATAA-AATAAAAATAATT
* * *
7813810 -TAGTACTCAAAATTATCATAGATAAATTTTGACGTAAAACTGTAAGAATTTACGTAAAAATTTA
125 ATAGTA-T-AAAATGA-CATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTA
* * * * * **
7813874 TAAAGGTTGAATAACTAAATTTTAAATTTTAACGTAAATGTATTAGAGTTAACGTATTAAG
187 TAAAAGTAGAATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
* * * *** * * *
7813935 TTAATTAAGTAAAAAAGTCTAATTTTAATGTAAAATATGCATTTATATTTATATTATCGGGCTAA
1 TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
** * * * * *
7814000 AAACATATAACGATAT-TCAAAATTTT-ATGTTAAAAAAAGAATAATAAAGATAAATATAATTAT
66 AAGTATTTAACGATATAT--AAATTTTAATTTTTAAATAA-AATAATAAA-ATAAAAATAATTAT
* * * * *
7814063 AGT-TAAAAGTTACTATTGAAAAGAT-TTGACGTAAAATTGTAAGAATTAACGT-AAAATCTTAT
127 AGTATAAAA-TGAC-ATAGATAA-ATCTTGACGTAAAACTGTAAGAATTGACGTAAAAAT-TTAT
** * * *
7814125 AAAAGT-GAAATAAAAAAAGTTAAAATCTTAACGTAAATATATGAGAGTTAATGTAACAAG
188 AAAAGTAG-AATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
7814185 T
1 T
7814186 GATAATAATA
Statistics
Matches: 3909, Mismatches: 635, Indels: 318
0.80 0.13 0.07
Matches are distributed among these distances:
239 28 0.01
240 27 0.01
241 80 0.02
242 133 0.03
243 186 0.05
244 179 0.05
245 269 0.07
246 292 0.07
247 452 0.12
248 579 0.15
249 725 0.19
250 411 0.11
251 442 0.11
252 103 0.03
253 3 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (247 bp):
TTAATTAAGTAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAAATATATATTATCGAGCTAA
AAGTATTTAACGATATATAAATTTTAATTTTTAAATAAAATAATAAAATAAAAATAATTATAGTA
TAAAATGACATAGATAAATCTTGACGTAAAACTGTAAGAATTGACGTAAAAATTTATAAAAGTAG
AATAACTAAATTTTAAATCTTAACGTAAATATATGAGAGTTAACGTAACAAG
Found at i:7814326 original size:21 final size:20
Alignment explanation
Indices: 7814285--7814324 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7814275 AATAAAATTA
* *
7814285 AAACTTAAATAACTTTTAAAT
1 AAAC-TAAATAAATTTAAAAT
7814306 AAACTAAATAAATTTAAAA
1 AAACTAAATAAATTTAAAA
7814325 ATTATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AAACTAAATAAATTTAAAAT
Found at i:7814606 original size:2 final size:2
Alignment explanation
Indices: 7814599--7814634 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
7814589 GGAATACAAC
*
7814599 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7814635 GTGCTAGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7820513 original size:97 final size:102
Alignment explanation
Indices: 7820325--7820638 Score: 296
Period size: 97 Copynumber: 3.2 Consensus size: 102
7820315 CAGGCCCCCA
* * * * ** * * *
7820325 AGCGAGCCAGCCCGACAGGGAGCCAACAA-GGCGCACATCACAGGCCC-TGGGCGAGCC-GTCCC
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCTCAGGCCCATGAGAGAGCCAG-CCC
* *
7820387 GAC-GGAATGCCAG-TAGGG-GCACGGC-CAGGCCCTTG
65 GACAGGAA-GCTAGCAAGGGCGCACGGCGCAGGCCCTTG
* * *
7820422 GGCGAGCTAGCCCGACAGGAAGCTAGC-AGGG-GC-CGGCTCAGGCCCATGGGCGAGCCAG-CC-
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCTCAGGCCCATGAGAGAGCCAGCCCG
* *
7820482 ACAGGATGCTGGCAAGGGCGCACGGCGCAGGCCCTTG
66 ACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCTTG
* * *
7820519 TGCGAGCTAGCCCGACAGGATGCTAGCAAGGGCGCACGGCTCGGGCCCATGAGAGAGCCAGCCCG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCTCAGGCCCATGAGAGAGCCAGCCCG
* * *
7820584 ACTGGAAGCTAGCAGGGGCGCAAGGCGCAGGACCC-TG
66 ACAGGAAGCTAGCAAGGGCGCACGGCGCAGG-CCCTTG
7820621 AGCGAG-TCAGCCCGACAG
1 AGCGAGCT-AGCCCGACAG
7820639 AACGCGTGCA
Statistics
Matches: 180, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
94 5 0.03
95 18 0.10
96 20 0.11
97 60 0.33
98 4 0.02
99 2 0.01
100 22 0.12
101 3 0.02
102 43 0.24
103 3 0.02
ACGTcount: A:0.22, C:0.32, G:0.38, T:0.08
Consensus pattern (102 bp):
AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCTCAGGCCCATGAGAGAGCCAGCCCG
ACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCTTG
Found at i:7820548 original size:51 final size:51
Alignment explanation
Indices: 7820325--7820638 Score: 242
Period size: 51 Copynumber: 6.4 Consensus size: 51
7820315 CAGGCCCCCA
* * * * ** *
7820325 AGCGAGCCAGCCCGACAGGGAGCCAACAA-GGCGCACATCACAGGCCC-TG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCATG
* * * * *
7820374 GGCGAGC-CGTCCCGAC-GGAATGCCAG-TAGGG-GCACGGC-CAGGCCCTTG
1 AGCGAGCTAG-CCCGACAGGAA-GCTAGCAAGGGCGCACGGCGCAGGCCCATG
* *
7820422 GGCGAGCTAGCCCGACAGGAAGCTAGC-AGGG-GC-CGGCTCAGGCCCATG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCATG
* * * * *
7820470 GGCGAGCCAG-CC-ACAGGATGCTGGCAAGGGCGCACGGCGCAGGCCCTTG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCATG
* * * *
7820519 TGCGAGCTAGCCCGACAGGATGCTAGCAAGGGCGCACGGCTCGGGCCCATG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCATG
* * * * *
7820570 AGAGAGCCAGCCCGACTGGAAGCTAGCAGGGGCGCAAGGCGCAGGACCC-TG
1 AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGG-CCCATG
7820621 AGCGAG-TCAGCCCGACAG
1 AGCGAGCT-AGCCCGACAG
7820639 AACGCGTGCA
Statistics
Matches: 217, Mismatches: 33, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
46 11 0.05
47 17 0.08
48 55 0.25
49 44 0.20
50 2 0.01
51 85 0.39
52 3 0.01
ACGTcount: A:0.22, C:0.32, G:0.38, T:0.08
Consensus pattern (51 bp):
AGCGAGCTAGCCCGACAGGAAGCTAGCAAGGGCGCACGGCGCAGGCCCATG
Found at i:7820634 original size:102 final size:97
Alignment explanation
Indices: 7820412--7820638 Score: 278
Period size: 102 Copynumber: 2.3 Consensus size: 97
7820402 GGGGCACGGC
* * *
7820412 CAGGCCCTTGGGCGAGCTAGCCCGACAGGAAGCTAGCAGGGGCCGGCTCAGGCCCATGGGCGAGC
1 CAGGCCCTTGAGCGAGCTAGCCCGACAGGAAGCTAGCAGGGGCCGGCTCAGGCCCATGAGAGAGC
* * *
7820477 CAGCCACAGGATGCTGGCAAGGGCGCACGGCG
66 CAGCCACAGGAAGCTAGCAAGGGCGCAAGGCG
* * *
7820509 CAGGCCCTTGTGCGAGCTAGCCCGACAGGATGCTAGCAAGGGCGCACGGCTCGGGCCCATGAGAG
1 CAGGCCCTTGAGCGAGCTAGCCCGACAGGAAGCTAGC-AGGG-GC-CGGCTCAGGCCCATGAGAG
* *
7820574 AGCCAGCCCGACTGGAAGCTAGCAGGGGCGCAAGGCG
63 AGCCAG-CC-ACAGGAAGCTAGCAAGGGCGCAAGGCG
7820611 CAGGACCC-TGAGCGAG-TCAGCCCGACAG
1 CAGG-CCCTTGAGCGAGCT-AGCCCGACAG
7820639 AACGCGTGCA
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
97 35 0.31
98 4 0.04
99 2 0.02
100 22 0.20
101 3 0.03
102 43 0.38
103 3 0.03
ACGTcount: A:0.21, C:0.32, G:0.38, T:0.09
Consensus pattern (97 bp):
CAGGCCCTTGAGCGAGCTAGCCCGACAGGAAGCTAGCAGGGGCCGGCTCAGGCCCATGAGAGAGC
CAGCCACAGGAAGCTAGCAAGGGCGCAAGGCG
Found at i:7821161 original size:15 final size:15
Alignment explanation
Indices: 7821141--7821197 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
7821131 TCCCAAATGG
7821141 TTTTGGAGGGAAAAC
1 TTTTGGAGGGAAAAC
*
7821156 TTTTGGAGGGAAATC
1 TTTTGGAGGGAAAAC
* *
7821171 CTTTGGAGGG-AAAG
1 TTTTGGAGGGAAAAC
7821185 TTTTGGAGGGAAA
1 TTTTGGAGGGAAA
7821198 TGGGTGGGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (15 bp):
TTTTGGAGGGAAAAC
Found at i:7821196 original size:29 final size:30
Alignment explanation
Indices: 7821142--7821198 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
7821132 CCCAAATGGT
7821142 TTTGGAGGGAAAACTTTTGGAGGGAAATCC
1 TTTGGAGGGAAAACTTTTGGAGGGAAATCC
*
7821172 TTTGGAGGG-AAAGTTTTGGAGGGAAAT
1 TTTGGAGGGAAAACTTTTGGAGGGAAAT
7821199 GGGTGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (30 bp):
TTTGGAGGGAAAACTTTTGGAGGGAAATCC
Found at i:7821841 original size:31 final size:30
Alignment explanation
Indices: 7821753--7821843 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
7821743 TGGAAACAGA
* *
7821753 AGCTGCAGCACTGCAACGCCAATTTCCCAGC
1 AGCTGCAGCGCTGC-ACACCAATTTCCCAGC
* * **
7821784 -GCTGTAGCGCTGCCAAACTC-CCTTCCCAGC
1 AGCTGCAGCGCTG-CACAC-CAATTTCCCAGC
7821814 AGCTGCAGCGCTGCAGCACCAATTTCCCAG
1 AGCTGCAGCGCTGCA-CACCAATTTCCCAG
7821844 TGTTGCCAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 10
0.69 0.15 0.15
Matches are distributed among these distances:
30 23 0.51
31 22 0.49
ACGTcount: A:0.22, C:0.40, G:0.21, T:0.18
Consensus pattern (30 bp):
AGCTGCAGCGCTGCACACCAATTTCCCAGC
Found at i:7822124 original size:10 final size:10
Alignment explanation
Indices: 7822109--7822133 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7822099 AGGGAAAAAG
7822109 AAGAGGAATC
1 AAGAGGAATC
7822119 AAGAGGAATC
1 AAGAGGAATC
7822129 AAGAG
1 AAGAG
7822134 CTGGAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.32, T:0.08
Consensus pattern (10 bp):
AAGAGGAATC
Found at i:7844001 original size:3 final size:3
Alignment explanation
Indices: 7843993--7844017 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7843983 AAGAGAATGG
7843993 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
7844018 AGAAAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:7856107 original size:30 final size:30
Alignment explanation
Indices: 7856048--7856110 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
7856038 GTCAACGATA
* **
7856048 GCACTTTTATAGTACATCATTTGTTATGTG
1 GCACTTTTATAGTACATCATATGCCATGTG
*
7856078 GCACTTTTATAGTACGTCATATGCCATGTG
1 GCACTTTTATAGTACATCATATGCCATGTG
7856108 GCA
1 GCA
7856111 TGTCAATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (30 bp):
GCACTTTTATAGTACATCATATGCCATGTG
Found at i:7867702 original size:15 final size:15
Alignment explanation
Indices: 7867682--7867717 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
7867672 TTTTCCAAGG
7867682 TCTTTCATCTCAAAT
1 TCTTTCATCTCAAAT
7867697 TCTTTCATCTCAAAT
1 TCTTTCATCTCAAAT
7867712 TCTTTC
1 TCTTTC
7867718 TTTAAGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (15 bp):
TCTTTCATCTCAAAT
Found at i:7872113 original size:65 final size:67
Alignment explanation
Indices: 7872037--7872164 Score: 215
Period size: 66 Copynumber: 1.9 Consensus size: 67
7872027 TAGATTTTGA
7872037 GTTTTGATTGATCTCGTG-AAAACTATTGTTAAAGGTTGTGGTTAAGCCT-TGAAAAACCATTAC
1 GTTTTGATTGATCTCGTGAAAAACTATTGTTAAAGGTTGTGGTTAAGCCTATGAAAAACCATTAC
7872100 AG
66 AG
* * *
7872102 GTTTTGGTTGATCTCGTGAAAAACTATTGTTAAAGGTTGTGGTTGAGCTTATGAAAAACCATT
1 GTTTTGATTGATCTCGTGAAAAACTATTGTTAAAGGTTGTGGTTAAGCCTATGAAAAACCATT
7872165 GTAAAAGCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 17 0.29
66 29 0.50
67 12 0.21
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (67 bp):
GTTTTGATTGATCTCGTGAAAAACTATTGTTAAAGGTTGTGGTTAAGCCTATGAAAAACCATTAC
AG
Found at i:7872145 original size:35 final size:35
Alignment explanation
Indices: 7872044--7872171 Score: 122
Period size: 35 Copynumber: 3.8 Consensus size: 35
7872034 TGAGTTTTGA
* *
7872044 TTGATCTCGTG-AAAACTATTGTTAAAGGTTGTGG
1 TTGAGCTCGTGAAAAACCATTGTTAAAGGTTGTGG
* * * *
7872078 TTAAGC-CTTGAAAAACCA---TTACAGGTTTTGG
1 TTGAGCTCGTGAAAAACCATTGTTAAAGGTTGTGG
* *
7872109 TTGATCTCGTGAAAAACTATTGTTAAAGGTTGTGG
1 TTGAGCTCGTGAAAAACCATTGTTAAAGGTTGTGG
** *
7872144 TTGAGCTTATGAAAAACCATTGTAAAAG
1 TTGAGCTCGTGAAAAACCATTGTTAAAG
7872172 CTTAGTGAAA
Statistics
Matches: 72, Mismatches: 17, Indels: 9
0.73 0.17 0.09
Matches are distributed among these distances:
31 15 0.21
32 10 0.14
33 3 0.04
34 10 0.14
35 34 0.47
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
TTGAGCTCGTGAAAAACCATTGTTAAAGGTTGTGG
Found at i:7876936 original size:26 final size:26
Alignment explanation
Indices: 7876892--7876948 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 26
7876882 TATTTTATTT
7876892 TATTT-TTTAAATATTAATAATTGA-
1 TATTTATTTAAATATTAATAATTGAC
7876916 TATTTATTTAAAATATTAATAATTGAC
1 TATTTATTT-AAATATTAATAATTGAC
7876943 TATTTA
1 TATTTA
7876949 AATATTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 5 0.17
25 3 0.10
26 16 0.53
27 6 0.20
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
TATTTATTTAAATATTAATAATTGAC
Found at i:7876961 original size:41 final size:41
Alignment explanation
Indices: 7876915--7877009 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
7876905 TTAATAATTG
*
7876915 ATATTTATTTAAAATATTAATAATTGACTA-TTT-AAATATTA
1 ATATTTATTTAAAA-ATTAATAATT-AATATTTTGAAATATTA
* * * *
7876956 ATATTTATTTATAACTTAGTCATTAATATTTTGAAATATTA
1 ATATTTATTTAAAAATTAATAATTAATATTTTGAAATATTA
7876997 ATATTTTATTTAA
1 ATA-TTTATTTAA
7877010 TTTAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.07
40 10 0.22
41 24 0.53
42 8 0.18
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (41 bp):
ATATTTATTTAAAAATTAATAATTAATATTTTGAAATATTA
Found at i:7877438 original size:19 final size:21
Alignment explanation
Indices: 7877357--7877438 Score: 77
Period size: 19 Copynumber: 4.0 Consensus size: 21
7877347 NNNNNNNTTT
7877357 TATTAATAATTTATAATTT-AAA
1 TATTAAT-ATTTAT-ATTTAAAA
*
7877379 TATTAATATTT-TATTTATAA
1 TATTAATATTTATATTTAAAA
7877399 T-TTAAT-TTTAATATGTTAAAA
1 TATTAATATTT-ATAT-TTAAAA
7877420 TATTAATATTT-TA-TTAAAA
1 TATTAATATTTATATTTAAAA
7877439 GTTGGAATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
18 3 0.06
19 15 0.29
20 7 0.13
21 12 0.23
22 12 0.23
23 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (21 bp):
TATTAATATTTATATTTAAAA
Found at i:7883831 original size:73 final size:73
Alignment explanation
Indices: 7883648--7883832 Score: 219
Period size: 73 Copynumber: 2.5 Consensus size: 73
7883638 GACGGAGAAG
* *
7883648 ACTTACTCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTGTCAGAAACTTCAGTTACAAG
1 ACTTAATCGACTAAGAAGCAT-GTTAGTCAACTAAGAGCTCACTGTCAAAAACTTCAGTTACAAG
* **
7883713 ACAGAGATG
65 ACAAAGACA
* * ** * *
7883722 ACTTAATCGACTGAGAAGTATACTAGTCAACTAAGAGCTTC-TTGTCAAAAACTTCAGTTGCAAG
1 ACTTAATCGACTAAGAAGCATGTTAGTCAACTAAGAGC-TCACTGTCAAAAACTTCAGTTACAAG
7883786 ACAAAGACA
65 ACAAAGACA
* * *
7883795 ACTTAATCGACTAAAAAGCATGTTAGTTAACAAAGAGC
1 ACTTAATCGACTAAGAAGCATGTTAGTCAACTAAGAGC
7883833 ACTCTATCTG
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
73 72 0.78
74 20 0.22
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (73 bp):
ACTTAATCGACTAAGAAGCATGTTAGTCAACTAAGAGCTCACTGTCAAAAACTTCAGTTACAAGA
CAAAGACA
Found at i:7902466 original size:18 final size:18
Alignment explanation
Indices: 7902443--7902478 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
7902433 TTCCTTATCA
7902443 AATATGATTAA-CATATTT
1 AATATG-TTAATCATATTT
7902461 AATATGTTAATCATATTT
1 AATATGTTAATCATATTT
7902479 GATAAAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
AATATGTTAATCATATTT
Found at i:7919611 original size:2 final size:2
Alignment explanation
Indices: 7919604--7919634 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7919594 ATGAATAATT
7919604 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7919635 GTAGATTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7920168 original size:20 final size:20
Alignment explanation
Indices: 7920143--7920198 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
7920133 GTAAAAGGTG
* *
7920143 AAAATATAAAA-AATTAATTA
1 AAAATATAAAACAAATAA-CA
*
7920163 AAAATAAAAAACAAATAACA
1 AAAATATAAAACAAATAACA
*
7920183 AAAATATAAATCAAAT
1 AAAATATAAAACAAAT
7920199 TTAGATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATATAAAACAAATAACA
Found at i:7933916 original size:33 final size:33
Alignment explanation
Indices: 7933852--7933916 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
7933842 GGAAAATTTA
*
7933852 ATTTTTTAGTTATTTGGATAAACTATTGAAAAC
1 ATTTTTTAGTTATTTGGATAAACTATAGAAAAC
* * *
7933885 ATTTTTT-GTTGTTTGGATCATCTTATAGAAAA
1 ATTTTTTAGTTATTTGGATAAAC-TATAGAAAA
7933917 TATTGTTCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (33 bp):
ATTTTTTAGTTATTTGGATAAACTATAGAAAAC
Found at i:7934440 original size:13 final size:13
Alignment explanation
Indices: 7934418--7934456 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
7934408 TAATTTAAAT
*
7934418 ATTAATATTTTAA
1 ATTAAAATTTTAA
7934431 ATTAAAATTTTAA
1 ATTAAAATTTTAA
7934444 AGTTAAATATTTT
1 A-TTAAA-ATTTT
7934457 TATTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.57
14 5 0.22
15 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
ATTAAAATTTTAA
Found at i:7948890 original size:2 final size:2
Alignment explanation
Indices: 7948883--7948918 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7948873 GGGGATGAGA
*
7948883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7948919 GAAACTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7951229 original size:4 final size:4
Alignment explanation
Indices: 7951220--7951244 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7951210 CTATACATGG
7951220 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
7951245 TGTTGATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:7953413 original size:40 final size:41
Alignment explanation
Indices: 7953369--7953463 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 41
7953359 CTCATCTTTT
* *
7953369 TCTCTCTCCAACTC-CATTTTCATCTCCTCCTCTTCCATTA
1 TCTCTCTCCAACTCTAATCTTCATCTCCTCCTCTTCCATTA
* **
7953409 TCTCTCTCCAAACTCTTAATCTTCTTCTCCTTGTCTTCCATTA
1 TCTCTCTCC-AACTC-TAATCTTCATCTCCTCCTCTTCCATTA
*
7953452 TCTCTTTCCAAC
1 TCTCTCTCCAAC
7953464 CCCTTCATCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 9 0.20
41 5 0.11
42 3 0.07
43 29 0.63
ACGTcount: A:0.16, C:0.39, G:0.01, T:0.44
Consensus pattern (41 bp):
TCTCTCTCCAACTCTAATCTTCATCTCCTCCTCTTCCATTA
Found at i:7953451 original size:43 final size:43
Alignment explanation
Indices: 7953399--7953493 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
7953389 CATCTCCTCC
*
7953399 TCTTCCATTATCTCTCTCCAAACTCTTAATCTTCTTCTCCTTG
1 TCTTCCATTATCTCTCTCCAAACCCTTAATCTTCTTCTCCTTG
* * * *
7953442 TCTTCCATTATCTCTTTCCAACCCCTTCATCTTCTTCTCCTTT
1 TCTTCCATTATCTCTCTCCAAACCCTTAATCTTCTTCTCCTTG
7953485 TCTTCCATT
1 TCTTCCATT
7953494 GAAATTAAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.14, C:0.37, G:0.01, T:0.48
Consensus pattern (43 bp):
TCTTCCATTATCTCTCTCCAAACCCTTAATCTTCTTCTCCTTG
Found at i:7970088 original size:22 final size:22
Alignment explanation
Indices: 7970030--7970097 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 22
7970020 TTGAAAAAAT
* *
7970030 AAATCAACAACTAAATATTAAGG
1 AAATCAA-AACTAAAAATTAAGA
* *
7970053 AAGTC-AAACAAAAAATTAAGA
1 AAATCAAAACTAAAAATTAAGA
7970074 AAATCAAAACT-AAAATTAAAGA
1 AAATCAAAACTAAAAATT-AAGA
7970096 AA
1 AA
7970098 CAATTTGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
21 22 0.59
22 11 0.30
23 4 0.11
ACGTcount: A:0.65, C:0.10, G:0.07, T:0.18
Consensus pattern (22 bp):
AAATCAAAACTAAAAATTAAGA
Found at i:7973955 original size:26 final size:26
Alignment explanation
Indices: 7973926--7973979 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
7973916 CTAAGGTGGA
7973926 TTTTGAAAAGATATTTGACAATAGTT
1 TTTTGAAAAGATATTTGACAATAGTT
7973952 TTTTGAAAAGATATTTGACAATAGTT
1 TTTTGAAAAGATATTTGACAATAGTT
7973978 TT
1 TT
7973980 AGAGAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTTGAAAAGATATTTGACAATAGTT
Found at i:7974261 original size:26 final size:26
Alignment explanation
Indices: 7974224--7974277 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
7974214 TTAGGTTGTT
*
7974224 TTTAATTTAAGTT-GTTTTATTTTAG
1 TTTAATTTAAGTTAGTTTTAATTTAG
*
7974249 TTTAATGTTAAGTTATTTTTAATTTAG
1 TTTAAT-TTAAGTTAGTTTTAATTTAG
7974276 TT
1 TT
7974278 AGTATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 7 0.28
27 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (26 bp):
TTTAATTTAAGTTAGTTTTAATTTAG
Found at i:7979775 original size:122 final size:122
Alignment explanation
Indices: 7979552--7979797 Score: 411
Period size: 122 Copynumber: 2.0 Consensus size: 122
7979542 CGGAGACATA
*
7979552 TACTATAACTTTTTGTTAATAAACTATAAATTTTGGGTCAAAGATCATACAATATAAATGATCTT
1 TACTATAACTTTTTGTTAATAAACTATAAATTGTGGGTCAAAGATCATACAATATAAATGATCTT
* ** **
7979617 AATTAGGTCAGTCCAAATCATAAGATTCCTTGTTTAAACAAATTTGGTTGTTCCTCC
66 AATTAGGTCAGTCCAAATCAGAAGATTCCTCATTTAAACAAATTTGGTTCCTCCTCC
*
7979674 TACTATAACTTTTTGTTAATAAACTATAAATTGTGGGTCAAGGATCATACAATATAAATGATCTT
1 TACTATAACTTTTTGTTAATAAACTATAAATTGTGGGTCAAAGATCATACAATATAAATGATCTT
* *
7979739 AATTAGGTCGGTCGAAATCAGAAGATTCCTCATTTAAACAAATTTGGTTCCTCCTCC
66 AATTAGGTCAGTCCAAATCAGAAGATTCCTCATTTAAACAAATTTGGTTCCTCCTCC
7979796 TA
1 TA
7979798 TTCAATAGGA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 115 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (122 bp):
TACTATAACTTTTTGTTAATAAACTATAAATTGTGGGTCAAAGATCATACAATATAAATGATCTT
AATTAGGTCAGTCCAAATCAGAAGATTCCTCATTTAAACAAATTTGGTTCCTCCTCC
Found at i:7987389 original size:27 final size:28
Alignment explanation
Indices: 7987340--7987393 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
7987330 TACCTGATGA
7987340 ACAAGTATCGATACTTGAAACCTAAAAAC
1 ACAAGTATCGATACTT-AAACCTAAAAAC
*
7987369 ACAAGTATCGATACTT-TACCTAAAA
1 ACAAGTATCGATACTTAAACCTAAAA
7987394 GTATTGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 8 0.33
29 16 0.67
ACGTcount: A:0.46, C:0.20, G:0.09, T:0.24
Consensus pattern (28 bp):
ACAAGTATCGATACTTAAACCTAAAAAC
Found at i:7991671 original size:20 final size:21
Alignment explanation
Indices: 7991646--7991686 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
7991636 AAAGAGGTAC
*
7991646 AAAAAAGGAGACAG-GAAAAG
1 AAAAAAGCAGACAGAGAAAAG
*
7991666 AAAAAAGCTGACAGAGAAAAG
1 AAAAAAGCAGACAGAGAAAAG
7991687 CAACTCGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.63, C:0.07, G:0.27, T:0.02
Consensus pattern (21 bp):
AAAAAAGCAGACAGAGAAAAG
Found at i:7996085 original size:19 final size:19
Alignment explanation
Indices: 7996063--7996099 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7996053 TTCTAATTTG
7996063 TATATTTATAATAAATTAA
1 TATATTTATAATAAATTAA
* *
7996082 TATATTTTTAATATATTA
1 TATATTTATAATAAATTA
7996100 TATTAATAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTATAATAAATTAA
Found at i:7996428 original size:22 final size:21
Alignment explanation
Indices: 7996402--7996458 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
7996392 ATTTAATTTT
*
7996402 ATTAATATATTTCTTATAAATG
1 ATTAATATATTT-TTAAAAATG
* *
7996424 ATTAATAAAATTTTTAAAAATT
1 ATTAAT-ATATTTTTAAAAATG
*
7996446 CTTAATATATTTT
1 ATTAATATATTTT
7996459 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 6 0.21
22 18 0.62
23 5 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAATATATTTTTAAAAATG
Found at i:7998555 original size:26 final size:25
Alignment explanation
Indices: 7998526--7998601 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 25
7998516 AAAAATTAGT
7998526 TATAAATTTTAAAATATTAATATTTA
1 TATAAA-TTTAAAATATTAATATTTA
*
7998552 TATATAATTTAAATATTATTAATATTAA
1 TATA-AATTTAAA-A-TATTAATATTTA
*
7998580 TAT-GA-TTAAAATATTAATATTT
1 TATAAATTTAAAATATTAATATTT
7998602 TAAAATAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.23
24 1 0.02
25 5 0.11
26 11 0.25
27 3 0.07
28 14 0.32
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
TATAAATTTAAAATATTAATATTTA
Found at i:7998581 original size:15 final size:15
Alignment explanation
Indices: 7998540--7998604 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
7998530 AATTTTAAAA
*
7998540 TATTAATATTTATA-
1 TATTAATATTAATAT
7998554 TA-TAAT-TTAAATAT
1 TATTAATATT-AATAT
7998568 TATTAATATTAATAT
1 TATTAATATTAATAT
*
7998583 GATTAAAATATTAATAT
1 TATT--AATATTAATAT
7998600 T-TTAA
1 TATTAA
7998605 AATAGTAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.05
13 7 0.17
14 6 0.14
15 12 0.29
16 4 0.10
17 11 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTAATATTAATAT
Found at i:7998673 original size:6 final size:7
Alignment explanation
Indices: 7998659--7998692 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
7998649 TAATGAATAT
7998659 AAATAAA
1 AAATAAA
7998666 AAATAAA
1 AAATAAA
7998673 AAATAAA
1 AAATAAA
7998680 AAATAAA
1 AAATAAA
7998687 AAATAA
1 AAATAA
7998693 TTAATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAATAAA
Found at i:7998751 original size:15 final size:14
Alignment explanation
Indices: 7998707--7998787 Score: 68
Period size: 15 Copynumber: 6.1 Consensus size: 14
7998697 TATTTTAATC
7998707 ATATTAATATTAAA
1 ATATTAATATTAAA
* *
7998721 TTA-TAA-A-TACA
1 ATATTAATATTAAA
7998732 ATATTAATATTTAAA
1 ATATTAATA-TTAAA
7998747 ATATTAATAATTAAA
1 ATATTAAT-ATTAAA
7998762 ATA-T-A-A-TAAA
1 ATATTAATATTAAA
*
7998772 ATATTAATATTTAA
1 ATATTAATATTAAA
7998786 AT
1 AT
7998788 TATAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
10 7 0.13
11 7 0.13
12 5 0.09
13 6 0.11
14 8 0.15
15 19 0.36
16 1 0.02
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAATATTAAA
Found at i:7998772 original size:25 final size:25
Alignment explanation
Indices: 7998743--7998830 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
7998733 TATTAATATT
7998743 TAAAATATTAATAATTAAAATATAA
1 TAAAATATTAATAATTAAAATATAA
*
7998768 TAAAATATTAAT-ATTTAAAT-T-A
1 TAAAATATTAATAATTAAAATATAA
* * *
7998790 TAAATTATTAATATTTAACAAATAAAA
1 TAAAATATTAATAATT-A-AAATATAA
*
7998817 TAAAA-ATAAATAAT
1 TAAAATATTAATAAT
7998831 CTTATATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
22 12 0.24
23 3 0.06
24 7 0.14
25 16 0.32
26 7 0.14
27 5 0.10
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATATTAATAATTAAAATATAA
Found at i:7998775 original size:40 final size:39
Alignment explanation
Indices: 7998676--7998800 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 39
7998666 AAATAAAAAA
* *
7998676 TAAAAAATAA-AAAATAATTAATATTTTAATCATATTAATAT
1 TAAAATATAATAAAAT-ATTAATA-TTTAA-AATATTAATAT
* *
7998717 TAAATTATAAATACAATATTAATATTTAAAATATTAATAAT
1 TAAAATAT-AATAAAATATTAATATTTAAAATATTAAT-AT
* *
7998758 TAAAATATAATAAAATATTAATATTTAAATTATAAATTAT
1 TAAAATATAATAAAATATTAATATTTAAAATATTAA-TAT
7998798 TAA
1 TAA
7998801 TATTTAACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
40 38 0.53
41 21 0.29
42 9 0.12
43 4 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (39 bp):
TAAAATATAATAAAATATTAATATTTAAAATATTAATAT
Found at i:7998814 original size:22 final size:22
Alignment explanation
Indices: 7998707--7998818 Score: 83
Period size: 22 Copynumber: 5.1 Consensus size: 22
7998697 TATTTTAATC
*
7998707 ATATTAATA-TTAAATTAT-AA
1 ATATTAATATTTAAATAATAAA
* *
7998727 ATA-CAATA-TT-AATATTTAAA
1 ATATTAATATTTAAATA-ATAAA
*
7998747 ATATTAATAATTAAAATATAATAAA
1 ATATTAAT-ATT-TAA-ATAATAAA
*
7998772 ATATTAATATTTAAATTATAAA
1 ATATTAATATTTAAATAATAAA
*
7998794 TTATTAATATTTAACA-AATAAA
1 ATATTAATATTTAA-ATAATAAA
7998816 ATA
1 ATA
7998819 AAAATAAATA
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
18 3 0.04
19 7 0.10
20 8 0.11
21 3 0.04
22 28 0.39
23 4 0.06
24 3 0.04
25 13 0.18
26 3 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATTAATATTTAAATAATAAA
Found at i:7999038 original size:32 final size:32
Alignment explanation
Indices: 7999002--7999104 Score: 161
Period size: 32 Copynumber: 3.1 Consensus size: 32
7998992 ATTTTCAACT
*
7999002 CATTCTATTCCCACGTAATAACTATTCTATTC
1 CATTCTATTCCCACATAATAACTATTCTATTC
7999034 CATTCTATTCCCACATAATAACTATTCTATTC
1 CATTCTATTCCCACATAATAACTATTCTATTC
*
7999066 CATTACCCTATTCCCACATAATAACTATTCTATTT
1 CATT---CTATTCCCACATAATAACTATTCTATTC
7999101 CATT
1 CATT
7999105 ACTCTAAGGA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
32 35 0.53
35 31 0.47
ACGTcount: A:0.30, C:0.28, G:0.01, T:0.41
Consensus pattern (32 bp):
CATTCTATTCCCACATAATAACTATTCTATTC
Found at i:7999084 original size:35 final size:34
Alignment explanation
Indices: 7999006--7999106 Score: 161
Period size: 35 Copynumber: 3.0 Consensus size: 34
7998996 TCAACTCATT
*
7999006 CTATTCCCACGTAATAACTATTCTATTCCATT--
1 CTATTCCCACATAATAACTATTCTATTCCATTAC
7999038 CTATTCCCACATAATAACTATTCTATTCCATTACC
1 CTATTCCCACATAATAACTATTCTATTCCATTA-C
*
7999073 CTATTCCCACATAATAACTATTCTATTTCATTAC
1 CTATTCCCACATAATAACTATTCTATTCCATTAC
7999107 TCTAAGGAAG
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
32 31 0.48
34 1 0.02
35 32 0.50
ACGTcount: A:0.31, C:0.29, G:0.01, T:0.40
Consensus pattern (34 bp):
CTATTCCCACATAATAACTATTCTATTCCATTAC
Found at i:7999247 original size:129 final size:130
Alignment explanation
Indices: 7999034--7999273 Score: 374
Period size: 129 Copynumber: 1.8 Consensus size: 130
7999024 TATTCTATTC
7999034 CATTCTATTCCCACATAATAACTATTCTATTCCATTACCCTATTCCCACATAATAACTATTCTAT
1 CATTCTATTCCCACATAATAACTATTCTATTCCATT--CCTATTCCCACATAATAACTATTCTAT
* * *
7999099 TTCATTACTCTAAGGAAGATGCAAGGAACCTTTTTGAAGGATGAACTATTCTATTCTATTTTCAC
64 TCCATTACCCTAAGGAAGATGCAAGGAACCTTCTTGAAGGATGAACTATTCTATTCTATTTTCAC
7999164 CT
129 CT
* ** *
7999166 CATTTTATTCCCACATAATAACTATTCTATTCCATT-CTATTTGCACGTAATAACTATTCTATTC
1 CATTCTATTCCCACATAATAACTATTCTATTCCATTCCTATTCCCACATAATAACTATTCTATTC
* *
7999230 CATTACCCTAAGTAAGATGCAAGGAACCTTCTTGAAGGGTGAAC
66 CATTACCCTAAGGAAGATGCAAGGAACCTTCTTGAAGGATGAAC
7999274 GTGCAATTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
129 64 0.65
132 35 0.35
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (130 bp):
CATTCTATTCCCACATAATAACTATTCTATTCCATTCCTATTCCCACATAATAACTATTCTATTC
CATTACCCTAAGGAAGATGCAAGGAACCTTCTTGAAGGATGAACTATTCTATTCTATTTTCACCT
Found at i:8009932 original size:2 final size:2
Alignment explanation
Indices: 8009925--8009949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8009915 TTCACAATCA
8009925 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8009950 AAGCTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8015601 original size:31 final size:31
Alignment explanation
Indices: 8015563--8015625 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
8015553 AAAGTGAAAC
8015563 TAAACCAAAATGAACTAGAGATTTAATTGTT
1 TAAACCAAAATGAACTAGAGATTTAATTGTT
8015594 TAAACCAAAATGAACTAGAGATTTAATTGTT
1 TAAACCAAAATGAACTAGAGATTTAATTGTT
8015625 T
1 T
8015626 TTAGAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (31 bp):
TAAACCAAAATGAACTAGAGATTTAATTGTT
Found at i:8020165 original size:26 final size:27
Alignment explanation
Indices: 8020117--8020180 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
8020107 TCATAATAAC
* * *
8020117 ATTTCAATTATAATTTAAAATATTAGT
1 ATTTAAATTATAATATAAAATATTAAT
8020144 GA-TTAAATTATAA-ATAAAATATTAAT
1 -ATTTAAATTATAATATAAAATATTAAT
8020170 ATTTAAATTAT
1 ATTTAAATTAT
8020181 CAATTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.03
26 20 0.62
27 10 0.31
28 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
ATTTAAATTATAATATAAAATATTAAT
Found at i:8020473 original size:159 final size:153
Alignment explanation
Indices: 8020301--8020609 Score: 397
Period size: 159 Copynumber: 2.0 Consensus size: 153
8020291 AATATCATTG
* * * *
8020301 AAATTATAAATAAAATATTAATATTTAAATTATCAATGACT-AATATTTTAAATTAATTA-AAAA
1 AAATTATAAATAAAACATTAATATTTAAATTATAAATGA-TGAATATATT-AATAAATTATAAAA
* **
8020364 TTATTAATATTTAAAAATAAAATAAAATAAAAATAAATAATCATAATAACATTTAAATTATCAAT
64 -TATTAATATTTAAAAAT----TAAAATAAAAATAAATAATCATAATAACATTCAAATTAAAAAT
*
8020429 AGAATATTAATATCTTAAAATATTAATTGTT
124 A-AAAATTAATATCTTAAAATATTAATTGTT
* * *
8020460 AAATTATATATAAAACATTAATATTTAAATTATAAATTATGTATATATTAATAAATTATAAAATA
1 AAATTATAAATAAAACATTAATATTTAAATTATAAATGATGAATATATTAATAAATTATAAAATA
* *
8020525 TTAATATTTTAAAATTAAAATAAAAATAGATAATCATAATAACATTCAAATTAAAAATAAAAATT
66 TTAATATTTAAAAATTAAAATAAAAATAAATAATCATAATAACATTCAAATTAAAAATAAAAATT
* *
8020590 AGTATTTTAAAATATTAATT
131 AATATCTTAAAATATTAATT
8020610 TAGAAATTAT
Statistics
Matches: 133, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
153 23 0.17
154 40 0.30
158 25 0.19
159 45 0.34
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (153 bp):
AAATTATAAATAAAACATTAATATTTAAATTATAAATGATGAATATATTAATAAATTATAAAATA
TTAATATTTAAAAATTAAAATAAAAATAAATAATCATAATAACATTCAAATTAAAAATAAAAATT
AATATCTTAAAATATTAATTGTT
Found at i:8020479 original size:26 final size:26
Alignment explanation
Indices: 8020444--8020493 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
8020434 ATTAATATCT
*
8020444 TAAAATATTAAT-TGTTAAATTATATA
1 TAAAACATTAATAT-TTAAATTATATA
8020470 TAAAACATTAATATTTAAATTATA
1 TAAAACATTAATATTTAAATTATA
8020494 AATTATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TAAAACATTAATATTTAAATTATATA
Found at i:8020480 original size:42 final size:41
Alignment explanation
Indices: 8020416--8020497 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
8020406 ATAATAACAT
* * *
8020416 TTAAATTATCAATAGAATATTAATATCTTAAAATATTAATTG
1 TTAAATTATCAATAAAACATTAATAT-TTAAAATATAAATTG
*
8020458 TTAAATTAT-ATATAAAACATTAATATTTAAATTATAAATT
1 TTAAATTATCA-ATAAAACATTAATATTTAAAATATAAATT
8020498 ATGTATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (41 bp):
TTAAATTATCAATAAAACATTAATATTTAAAATATAAATTG
Found at i:8020531 original size:26 final size:26
Alignment explanation
Indices: 8020485--8020532 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8020475 CATTAATATT
*
8020485 TAAATTATAAATTATGTATATATTAA
1 TAAATTATAAAATATGTATATATTAA
8020511 TAAATTATAAAATAT-TA-ATATT
1 TAAATTATAAAATATGTATATATT
8020533 TTAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAATTATAAAATATGTATATATTAA
Found at i:8020963 original size:23 final size:22
Alignment explanation
Indices: 8020933--8020992 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
8020923 CTTTAATCAT
*
8020933 AATT-ATATTTAAATTATAAAAA
1 AATTAATATTTAAATGAT-AAAA
* *
8020955 AATTAATATATAAATGATCAAA
1 AATTAATATTTAAATGATAAAA
*
8020977 TATTAATATTTTAAAT
1 AATTAATA-TTTAAAT
8020993 AAGTTATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 14 0.45
23 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AATTAATATTTAAATGATAAAA
Done.