Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001520.1 Hibiscus syriacus cultivar Beakdansim tig00002968_pilon, 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: 65276
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Found at i:348 original size:21 final size:22
Alignment explanation
Indices: 311--429 Score: 140
Period size: 21 Copynumber: 5.6 Consensus size: 22
301 AATTCACCTG
* *
311 TCATCGTTTAAAAGGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
* *
333 T-ATCATTCAAGTGGCCCCT-C
1 TCATCGTTCAAGAGGCCCCTCC
353 TCATCGTTCAAGAGGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
*
375 -CACCGTTCAAGAGGCCCCT-C
1 TCATCGTTCAAGAGGCCCCTCC
395 TCATCGTTCAAGAGGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
* *
417 -CACCGATCAAGAG
1 TCATCGTTCAAGAG
430 CCCGATTCAC
Statistics
Matches: 83, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
20 3 0.04
21 77 0.93
22 3 0.04
ACGTcount: A:0.22, C:0.39, G:0.18, T:0.22
Consensus pattern (22 bp):
TCATCGTTCAAGAGGCCCCTCC
Found at i:370 original size:42 final size:42
Alignment explanation
Indices: 311--429 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
301 AATTCACCTG
* * * * *
311 TCATCGTTTAAAAGGCCCCTCCTATCATTCAAGTGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
*
353 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
395 TCATCGTTCAAGAGGCCCCTCCCACCGA-TCAAGAG
1 TCATCGTTCAAGAGGCCCCTCCCACC-ATTCAAGAG
430 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.22, C:0.39, G:0.18, T:0.22
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCACCATTCAAGAGGCCCCTC
Found at i:1161 original size:17 final size:18
Alignment explanation
Indices: 1136--1197 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
1126 TTGGAGTGCA
1136 AAAAG-AAAGAAAAG-AC
1 AAAAGAAAAGAAAAGAAC
*
1152 AAAAGAAAAG-AAAGAAG
1 AAAAGAAAAGAAAAGAAC
*
1169 AAAAGAAAGGAAAAAGAATTC
1 AAAAGAAAAG-AAAAGAA--C
1190 AAAAGAAA
1 AAAAGAAA
1198 GCAAAGCCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 9 0.24
17 14 0.38
19 6 0.16
21 8 0.22
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAGAAAAGAAC
Found at i:1177 original size:12 final size:12
Alignment explanation
Indices: 1137--1186 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
1127 TGGAGTGCAA
1137 AAAGAAAGAAAAG
1 AAAG-AAGAAAAG
1150 ACAA-AAGAAAAG
1 A-AAGAAGAAAAG
1162 AAAGAAGAAAAG
1 AAAGAAGAAAAG
*
1174 AAAGGA-AAAAG
1 AAAGAAGAAAAG
1185 AA
1 AA
1187 TTCAAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
11 9 0.26
12 22 0.65
13 1 0.03
14 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAG
Found at i:5856 original size:13 final size:13
Alignment explanation
Indices: 5840--5873 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
5830 TTGCTTAAAT
5840 TTTGGTTTGGTAC
1 TTTGGTTTGGTAC
5853 TTTGGTTTGGTAC
1 TTTGGTTTGGTAC
5866 TTTGGTTT
1 TTTGGTTT
5874 CAACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.06, G:0.29, T:0.59
Consensus pattern (13 bp):
TTTGGTTTGGTAC
Found at i:5908 original size:7 final size:7
Alignment explanation
Indices: 5896--5921 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5886 GTTGTTGTCA
5896 ATTTATT
1 ATTTATT
5903 ATTTATT
1 ATTTATT
5910 ATTTATT
1 ATTTATT
5917 ATTTA
1 ATTTA
5922 CGTTACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
ATTTATT
Found at i:5934 original size:16 final size:16
Alignment explanation
Indices: 5913--5947 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5903 ATTTATTATT
5913 TATTATTTACGTTACA
1 TATTATTTACGTTACA
* *
5929 TATTATTTGCGTTATA
1 TATTATTTACGTTACA
5945 TAT
1 TAT
5948 AACTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (16 bp):
TATTATTTACGTTACA
Found at i:8317 original size:5 final size:5
Alignment explanation
Indices: 8307--8395 Score: 50
Period size: 4 Copynumber: 18.8 Consensus size: 5
8297 ATAAAAATTA
* *
8307 AAAAT AAAAT AAAAT -AAAT -GAAT AATAAT AATAAT AAACT AAAACT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAAT AAAA-T
* * *
8353 AAAAC AAAA- CAAAT -AAAT -AAAT -AAAT AAAA- CAAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
8396 AATGAGAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
4 29 0.41
5 25 0.36
6 16 0.23
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:8389 original size:13 final size:13
Alignment explanation
Indices: 8352--8395 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
8342 AAACTAAAAC
*
8352 TAAAACAAAACAAA
1 TAAAAC-AAATAAA
*
8366 T-AAATAAATAAA
1 TAAAACAAATAAA
8378 TAAAACAAATAAA
1 TAAAACAAATAAA
8391 TAAAA
1 TAAAA
8396 AATGAGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 7 0.27
13 18 0.69
14 1 0.04
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAACAAATAAA
Found at i:8418 original size:3 final size:3
Alignment explanation
Indices: 8410--8461 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
8400 AGAAAAAGAA
* * *
8410 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAGG ACA- AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T A-AT AAT AAT AAT AAT
8456 AAT AAT
1 AAT AAT
8462 TAAGGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
2 1 0.02
3 38 0.93
4 1 0.02
5 1 0.02
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:18814 original size:24 final size:24
Alignment explanation
Indices: 18786--18864 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
18776 TGCGATGAGT
18786 AAGTGACAGAGTTACTATGGTAAG
1 AAGTGACAGAGTTACTATGGTAAG
18810 AAGTGACAGAGTTACTATGGTAAG
1 AAGTGACAGAGTTACTATGGTAAG
*
18834 AAGTGACGGAGTTACTATGGTAAG
1 AAGTGACAGAGTTACTATGGTAAG
18858 AAGTGAC
1 AAGTGAC
18865 TCCTAAAATG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.37, C:0.09, G:0.30, T:0.24
Consensus pattern (24 bp):
AAGTGACAGAGTTACTATGGTAAG
Found at i:19311 original size:22 final size:22
Alignment explanation
Indices: 19283--19328 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
19273 GTTTACGCGT
* *
19283 TCCTTCGAGACATATGCATAGG
1 TCCTTCGAGACAAATACATAGG
*
19305 TCCTTCGGGACAAATACATAGG
1 TCCTTCGAGACAAATACATAGG
19327 TC
1 TC
19329 TTTCAGGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (22 bp):
TCCTTCGAGACAAATACATAGG
Found at i:19341 original size:22 final size:22
Alignment explanation
Indices: 19299--19341 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19289 GAGACATATG
*
19299 CATAGGTCCTTCGGGACAAATA
1 CATAGGTCCTTCAGGACAAATA
* *
19321 CATAGGTCTTTCAGGATAAAT
1 CATAGGTCCTTCAGGACAAAT
19342 TTCACATGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
CATAGGTCCTTCAGGACAAATA
Found at i:24654 original size:3 final size:3
Alignment explanation
Indices: 24646--24676 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
24636 AAAAAACTAA
24646 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24677 ATAGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:24659 original size:11 final size:11
Alignment explanation
Indices: 24643--24676 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
24633 ACTAAAAAAC
24643 TAAAATAATAA
1 TAAAATAATAA
24654 TAAAATAATAA
1 TAAAATAATAA
24665 TAATAATAATAA
1 TAA-AATAATAA
24677 ATAGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 14 0.64
12 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:24754 original size:3 final size:3
Alignment explanation
Indices: 24748--24896 Score: 87
Period size: 3 Copynumber: 50.3 Consensus size: 3
24738 AAATTATTAT
* * * * * *
24748 TAA TAA TAA TAA TAA TAA TAA -AA CAA AAA CAA AAA TAA AAA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
24795 CAA -AA CAA -AA TAA -AA TAA -AA TAAA TAAA TAAA TAA AAA TAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TAA TAA TAA TAA
* *
24839 -AA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA GGACA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TA-A TAA TAA
*
24884 TAA TAA AAA TAA T
1 TAA TAA TAA TAA T
24897 TAAGGGGAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
2 13 0.11
3 94 0.78
4 12 0.10
5 1 0.01
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.21
Consensus pattern (3 bp):
TAA
Found at i:24790 original size:23 final size:22
Alignment explanation
Indices: 24758--24840 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
24748 TAATAATAAT
*
24758 AATAATAATAAAACAAAAACAAA
1 AATAAAAATAAAA-AAAAACAAA
24781 AATAAAAATAAAAACAAAAC-AA
1 AATAAAAATAAAAA-AAAACAAA
*
24803 AAT-AAAATAAAATAAATAA-ATA
1 AATAAAAATAAAA-AAA-AACAAA
*
24825 AATAAAAATAAGAAAA
1 AATAAAAATAAAAAAA
24841 TAATAATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
21 11 0.21
22 16 0.31
23 25 0.48
ACGTcount: A:0.80, C:0.05, G:0.01, T:0.14
Consensus pattern (22 bp):
AATAAAAATAAAAAAAAACAAA
Found at i:24815 original size:5 final size:5
Alignment explanation
Indices: 24779--24855 Score: 54
Period size: 5 Copynumber: 15.4 Consensus size: 5
24769 AACAAAAACA
* *
24779 AAAAT AAAAAT AAAAAC AAAAC AAAAT AAAAT AAAAT -AAAT -AAAT -AAAT
1 AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* *
24828 AAAA- ATAAG AAAAT AATAAT AATAAT AA
1 AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
24856 TAGTAATAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 15 0.24
5 27 0.43
6 21 0.33
ACGTcount: A:0.78, C:0.03, G:0.01, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:26038 original size:18 final size:18
Alignment explanation
Indices: 26012--26047 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26002 GCAATATATT
*
26012 ATATTGAACGTAATATAA
1 ATATAGAACGTAATATAA
26030 ATATAGAACGTAATATAA
1 ATATAGAACGTAATATAA
26048 TATTAATCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
ATATAGAACGTAATATAA
Found at i:31637 original size:23 final size:23
Alignment explanation
Indices: 31611--31658 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
31601 ATAAAGTACA
*
31611 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
31634 ATAATATAATAGGTAGCGTTTAT
1 ATAACATAATAGGTAGCGCTTAT
31657 AT
1 AT
31659 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:31902 original size:30 final size:29
Alignment explanation
Indices: 31862--31928 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
31852 TCATTTGCAC
* * *
31862 AAAAAATTATTT-GATTTTTTGATATTTTAT
1 AAAATATTATTTAGAATTTTT-A-ATTTAAT
31892 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
31921 AATAATAT
1 AA-AATAT
31929 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:32114 original size:23 final size:23
Alignment explanation
Indices: 32088--32146 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
32078 AACCACTACC
32088 TATTACATTATATAAACGATACA
1 TATTACATTATATAAACGATACA
* * *
32111 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACA
*
32134 TATTACATCATAT
1 TATTACATTATAT
32147 GTTTACCTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACA
Found at i:32623 original size:39 final size:39
Alignment explanation
Indices: 32569--32654 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
32559 CAAGTTGTAG
*
32569 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
32608 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
32647 ATTTTGAT
1 ATTTTGAT
32655 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:32966 original size:23 final size:24
Alignment explanation
Indices: 32912--32956 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
32902 CGAAATATAT
32912 ATTGAAATTCAAACTCAAATTAAA
1 ATTGAAATTCAAACTCAAATTAAA
* *
32936 ATTTAAATTC-AACTCCAATTA
1 ATTGAAATTCAAACTCAAATTA
32957 CATATGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTAAA
Found at i:33407 original size:23 final size:23
Alignment explanation
Indices: 33381--33443 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
33371 ATATAACCAC
33381 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
33404 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
33427 TACCTATTACATCATAT
1 TACCTATTACATTATAT
33444 GCTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:33452 original size:20 final size:22
Alignment explanation
Indices: 33380--33455 Score: 75
Period size: 23 Copynumber: 3.5 Consensus size: 22
33370 AATATAACCA
* *
33380 CTACCTATTACATTATATAAACG
1 CTACCTATTACATCATAT-AGCG
* *
33403 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATCATAT-AGCG
33426 CTACCTATTACATCATAT-GC-
1 CTACCTATTACATCATATAGCG
*
33446 TTACCTATTA
1 CTACCTATTA
33456 TATTGAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.19
21 2 0.04
23 37 0.77
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (22 bp):
CTACCTATTACATCATATAGCG
Found at i:33840 original size:25 final size:25
Alignment explanation
Indices: 33783--33848 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
33773 CACTCAAAAG
*
33783 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
33808 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
33833 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
33849 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:36627 original size:183 final size:182
Alignment explanation
Indices: 36315--36804 Score: 847
Period size: 183 Copynumber: 2.7 Consensus size: 182
36305 TTAAAATTAC
36315 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
36380 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
36445 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
* *
36498 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
36563 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
36628 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
130 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
36681 CGACA-TTTTTTAACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCAACACAA
1 CGACACTTTTTT-A-AATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* * *
36745 GATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAAAAAACTGGTATATTTATA
64 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATA
36805 ATATGTTGAA
Statistics
Matches: 292, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
182 6 0.02
183 283 0.97
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (182 bp):
CGACACTTTTTTAAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:38793 original size:17 final size:18
Alignment explanation
Indices: 38771--38813 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
38761 ATATATCCGA
38771 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
38788 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
38808 TATCAT
1 TATCAT
38814 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:38831 original size:20 final size:19
Alignment explanation
Indices: 38776--38822 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
38766 TCCGATATCA
38776 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
38795 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
38816 TTTTACC
1 TTTTACC
38823 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:38984 original size:20 final size:20
Alignment explanation
Indices: 38957--39003 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
38947 TCCGGTAATG
38957 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
38976 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
38997 TTTTACC
1 TTTTACC
39004 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:39186 original size:183 final size:181
Alignment explanation
Indices: 38743--39216 Score: 682
Period size: 181 Copynumber: 2.6 Consensus size: 181
38733 CGTACTTACG
* * * *
38743 AAAGTATCGACACTTTCAATATATCCGATATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
38808 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCAACACATTAT
* *
38873 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * *
38924 AAAGTATCGACACTTTTAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
38989 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTTAAAAGTATCAACACTTTA
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTT-AAAGTATCAACACATTA
**
39054 TAGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAA-TGTCGATCCTTATATT
130 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCAC-AAAGTGTCGATCCTTATA-T
* * * * *
39107 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
39171 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
39217 AATTTGGATC
Statistics
Matches: 262, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
181 103 0.39
182 58 0.22
183 100 0.38
184 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTTAAAGTATCAACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:39668 original size:222 final size:222
Alignment explanation
Indices: 39282--39724 Score: 796
Period size: 222 Copynumber: 2.0 Consensus size: 222
39272 GACCTATTTT
*
39282 ATAAGTATGGACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGAACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
39347 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
39412 ATATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
39477 CAAATATAATAATAAATATGTTTTCAA
196 CAAAGATAATAATAAATATATTTTCAA
*
39504 ATAAGTATGAACACTTTTATAAAAATGATATATACTTTTTTGAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGAACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
* * *
39569 ATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTTATTTACACAAA
66 ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
*
39634 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGATTTTAAATTTAACAATATTAAC
131 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
*
39699 TAAAGATAATAATAAATATATTTTCA
196 CAAAGATAATAATAAATATATTTTCA
39725 CAATGAAATA
Statistics
Matches: 211, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
222 211 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (222 bp):
ATAAGTATGAACACTTTTATAAAAATGATATATACTTCTTTGAAAGTTATGTAATTTATGTTTCA
ATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTAATTTACACAAA
AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATATTTTCAA
Found at i:41289 original size:57 final size:57
Alignment explanation
Indices: 41228--41340 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
41218 GGAGAAAAGC
*
41228 AAGAGCCCGAGATGAACAATGAAGAGCTGCCCAAGGTCTCAAAGCCAGAACAAGAAG
1 AAGAGCCCGAGATGAACAATGAAGAGCTGCCCAAGGTCCCAAAGCCAGAACAAGAAG
* ** * * *
41285 AAGAGCCTGAGATGATTACTGAAGAGCTGCCCAAGGTCCCAAGGCCAGAACCAGAA
1 AAGAGCCCGAGATGAACAATGAAGAGCTGCCCAAGGTCCCAAAGCCAGAACAAGAA
41341 CACGAACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.27, T:0.11
Consensus pattern (57 bp):
AAGAGCCCGAGATGAACAATGAAGAGCTGCCCAAGGTCCCAAAGCCAGAACAAGAAG
Found at i:41450 original size:75 final size:74
Alignment explanation
Indices: 41366--41728 Score: 210
Period size: 75 Copynumber: 4.8 Consensus size: 74
41356 GAAGAGCTTA
* *
41366 AGATGATTAATGAAGAGCTTCCCGAGGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACA-
1 AGATGATTAATGAAGAGCTTCCCAAGGA-AATGAAGAGGTTTCAAAGCCAGAACGAGAACGACAG
41430 ACAGCAGCCTG
65 ACAG-AGCCTG
* * * *
41441 AGATGATTAATGAAGTA-CTGCCCAAGGAAGATGAAGA-GTTCCCAAAGACAGAACCAGAAC-A-
1 AGATGATTAATGAAG-AGCTTCCCAAGGAA-ATGAAGAGGTT-TCAAAGCCAGAACGAGAACGAC
*
41502 AGA-AGAGCATG
63 AGACAGAGCCTG
* * * ** * * * *
41513 AGATGATCAATGAAGAGCTGCCCAAGG--TTCCA-AGG--CCAGAACGTGAACACGAACAAGAAG
1 AGATGATTAATGAAGAGCTTCCCAAGGAAATGAAGAGGTTTCA-AA---G-CCA-GAACGAGAAC
* *
41573 GACAAGA-GGAGCCTA
60 GAC-AGACAGAGCCTG
* * * * ** *
41588 AGATGATTAACGAAGAGCTTCCCGAGGATGATGAAGGGGTTTTGAATCCAGAACGAGAACGACAA
1 AGATGATTAATGAAGAGCTTCCCAAGGA-AATGAAGAGGTTTCAAAGCCAGAACGAGAACGAC-A
41653 GGACAAGAAGAACCTG
64 -GAC-AG-AG--CCTG
* **
41669 AGATGATTAATGAAGTGCTTCCCAAGGAAGATGAAGAGGTCCCAAAGCCAGAACGAGAAC
1 AGATGATTAATGAAGAGCTTCCCAAGGAA-ATGAAGAGGTTTCAAAGCCAGAACGAGAAC
41729 AAGAGCCTGA
Statistics
Matches: 217, Mismatches: 43, Indels: 50
0.70 0.14 0.16
Matches are distributed among these distances:
66 3 0.01
67 2 0.01
68 1 0.00
69 3 0.01
70 1 0.00
71 4 0.02
72 37 0.17
73 4 0.02
74 6 0.03
75 90 0.41
76 5 0.02
78 3 0.01
79 4 0.02
80 2 0.01
81 52 0.24
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.14
Consensus pattern (74 bp):
AGATGATTAATGAAGAGCTTCCCAAGGAAATGAAGAGGTTTCAAAGCCAGAACGAGAACGACAGA
CAGAGCCTG
Found at i:41720 original size:81 final size:81
Alignment explanation
Indices: 41570--41728 Score: 201
Period size: 81 Copynumber: 2.0 Consensus size: 81
41560 CACGAACAAG
* * * * * **** *
41570 AAGGACAAGAGGAGCCTAAGATGATTAACGAAGAGCTTCCCGAGGATGATGAAGGGGTTTTGAAT
1 AAGGACAAGAAGAACCTAAGATGATTAACGAAGAGCTTCCCAAGGAAGATGAAGAGGTCCCAAAG
41635 CCAGAACGAGAACGAC
66 CCAGAACGAGAACGAC
* * *
41651 AAGGACAAGAAGAACCTGAGATGATTAATGAAGTGCTTCCCAAGGAAGATGAAGAGGTCCCAAAG
1 AAGGACAAGAAGAACCTAAGATGATTAACGAAGAGCTTCCCAAGGAAGATGAAGAGGTCCCAAAG
41716 CCAGAACGAGAAC
66 CCAGAACGAGAAC
41729 AAGAGCCTGA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.40, C:0.17, G:0.29, T:0.14
Consensus pattern (81 bp):
AAGGACAAGAAGAACCTAAGATGATTAACGAAGAGCTTCCCAAGGAAGATGAAGAGGTCCCAAAG
CCAGAACGAGAACGAC
Found at i:41722 original size:222 final size:214
Alignment explanation
Indices: 41261--41754 Score: 628
Period size: 222 Copynumber: 2.2 Consensus size: 214
41251 GAGCTGCCCA
* * *
41261 AGGTCTCAAAGCCAGAACAAGAAGAAGAGCCTGAGATGATTACTGAAGAGCTGCCCAAGGTCCCA
1 AGGTCCCAAAGCCAGAAC-A-AAGAAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTCCCA
* *
41326 AGGCCAGAACCAGAACACGAACGAAGACAAGAAGAGCTTAAGATGATTAATGAAGAGCTTCCCGA
64 AGGCCAGAACCAGAACACGAACGAAGACAAGAAGAGCCTAAGATGATTAACGAAGAGCTTCCCGA
*
41391 GGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGCAGCCTGAGATGATTAATGAAG
129 GGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGAAGCCTGAGATGATTAATGAAG
41456 TACTGCCCAAGGAAGATGAAG
194 TACTGCCCAAGGAAGATGAAG
* * * *
41477 AGTTCCCAAAGACAGAACCAGAACAAGAAGAGCATGAGATGATCAATGAAGAGCTGCCCAAGGTT
1 AGGTCCCAAAGCCAGAA-C---A-AAGAAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTC
** *
41542 CCAAGGCCAGAACGTGAACACGAACAAGAAGGACAAGAGGAGCCTAAGATGATTAACGAAGAGCT
61 CCAAGGCCAGAACCAGAACACGAAC--GAA-GACAAGAAGAGCCTAAGATGATTAACGAAGAGCT
** * **
41607 TCCCGAGGATGATGAAGGGGTTTTGAATCCAGAACGAGAACGACAAGGACAAGAAGAACCTGAGA
123 TCCCGAGGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGAC-A--AC-AGAAG--CCTGAGA
* *
41672 TGATTAATGAAGTGCTTCCCAAGGAAGATGAAG
182 TGATTAATGAAGTACTGCCCAAGGAAGATGAAG
* *
41705 AGGTCCCAAAGCCAGAACGAGAACAAGAGCCTGAGATGATCCATGAAGAG
1 AGGTCCCAAAGCCAGAAC-A-AAGAAGAGCCTGAGATGATCAATGAAGAG
41755 GAAGAGGAAG
Statistics
Matches: 238, Mismatches: 28, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
216 14 0.06
217 1 0.00
219 62 0.26
221 3 0.01
222 70 0.29
223 1 0.00
225 29 0.12
226 4 0.02
227 1 0.00
228 53 0.22
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (214 bp):
AGGTCCCAAAGCCAGAACAAAGAAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTCCCAAG
GCCAGAACCAGAACACGAACGAAGACAAGAAGAGCCTAAGATGATTAACGAAGAGCTTCCCGAGG
ACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGAAGCCTGAGATGATTAATGAAGTA
CTGCCCAAGGAAGATGAAG
Found at i:41816 original size:222 final size:214
Alignment explanation
Indices: 41261--41818 Score: 641
Period size: 228 Copynumber: 2.5 Consensus size: 214
41251 GAGCTGCCCA
* * * *
41261 AGGTCTCAAAGCCAGAACAAGAAGAAGAGCCTGAGATGATTACTGAAGAGCTGCCCAAGGTCCCA
1 AGGTCCCAAAGCCAGAACAAGAACAAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTCCCA
* * * *
41326 AGGCCAGAACCAGAACACGAACGAAGACAAGAAGAGCTTAAGATGATTAATGAAGAGCTTCCCGA
66 AGGCCAGAACGAGAACACGAAC-AAGA-AACAAGAGCCTAAGATGATTAACGAAGAGCTTCCCGA
*
41391 GGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGCAGCCTGAGATGATTAATGAAG
129 GGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGAAGCCTGAGATGATTAATGAAG
41456 TACTGCCCAAGGAAGATGAAG
194 TACTGCCCAAGGAAGATGAAG
* * * * *
41477 AGTTCCCAAAGACAGAACCAGAACAAGAAGAGCATGAGATGATCAATGAAGAGCTGCCCAAGGTT
1 AGGTCCCAAAGCCAGAACAAGAAC---AAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTC
*
41542 CCAAGGCCAGAACGTGAACACGAACAAGAAGGACAAGAGGAGCCTAAGATGATTAACGAAGAGCT
63 CCAAGGCCAGAACGAGAACACGAACAAGAA--AC-A-A-GAGCCTAAGATGATTAACGAAGAGCT
** * **
41607 TCCCGAGGATGATGAAGGGGTTTTGAATCCAGAACGAGAACGACAAGGACAAGAAGAACCTGAGA
123 TCCCGAGGACAATGAAGAGGTTTCAAATCCAGAACGAGAACGAC-A--AC-AGAAG--CCTGAGA
* *
41672 TGATTAATGAAGTGCTTCCCAAGGAAGATGAAG
182 TGATTAATGAAGTACTGCCCAAGGAAGATGAAG
* * ** ***
41705 AGGTCCCAAAGCCAGAACGAGAACAAGAGCCTGAGATGATCCATGAAGAGGAAGAGGAAGATGTC
1 AGGTCCCAAAGCCAGAACAAGAACAAGAGCCTGAGATGATCAATGAAGA-GCTGCCCAAG--GTC
* * * *
41770 CCAAAGCCTGAACGAGAACAAGAACAAG-AACAAGAGCCTGAGATGATTA
63 CCAAGGCCAGAACGAGAACACGAACAAGAAACAAGAGCCTAAGATGATTA
41819 GTGAGGAGCT
Statistics
Matches: 287, Mismatches: 38, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
216 19 0.07
217 1 0.00
218 4 0.01
219 58 0.20
220 1 0.00
221 1 0.00
222 78 0.27
223 2 0.01
224 1 0.00
225 27 0.09
226 9 0.03
227 1 0.00
228 85 0.30
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (214 bp):
AGGTCCCAAAGCCAGAACAAGAACAAGAGCCTGAGATGATCAATGAAGAGCTGCCCAAGGTCCCA
AGGCCAGAACGAGAACACGAACAAGAAACAAGAGCCTAAGATGATTAACGAAGAGCTTCCCGAGG
ACAATGAAGAGGTTTCAAATCCAGAACGAGAACGACAACAGAAGCCTGAGATGATTAATGAAGTA
CTGCCCAAGGAAGATGAAG
Found at i:41877 original size:69 final size:69
Alignment explanation
Indices: 41660--41907 Score: 238
Period size: 69 Copynumber: 3.6 Consensus size: 69
41650 CAAGGACAAG
* * * * *
41660 AAGAACCTGAGATGATTAATGAAGTGCTTCCCAAGGAAGATGAAGAGGTCCCAAAGCCAGAACGA
1 AAGAGCCTGAGATGATTAATGAAGAGCTGCCCAAGGAAGATGAAAAGGTCCCAAAGCCAGAACAA
41725 GAAC
66 GAAC
** * * *
41729 AAGAGCCTGAGATGATCCATGAAGAG--G--AAGAGGAAGATGTCCCAAA-G-CCTGAACGAGAA
1 AAGAGCCTGAGATGATTAATGAAGAGCTGCCCA-AGGAAGATG---AAAAGGTCC-CAA--AG--
*
41788 CAAGAACAAGAAC
57 CCAGAACAAGAAC
* *
41801 AAGAGCCTGAGATGATTAGTGAGGAGCTGCCCAAGGAAGATGAAAAGGTCCCAAAGCCAGAACAA
1 AAGAGCCTGAGATGATTAATGAAGAGCTGCCCAAGGAAGATGAAAAGGTCCCAAAGCCAGAACAA
41866 GAAC
66 GAAC
* *
41870 AAGAGCCTAAGATGATTAATGAAGAGCTGTCCAAGGAA
1 AAGAGCCTGAGATGATTAATGAAGAGCTGCCCAAGGAA
41908 AAATTAGCTG
Statistics
Matches: 141, Mismatches: 23, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
65 1 0.01
66 9 0.06
67 2 0.01
68 3 0.02
69 70 0.50
70 2 0.01
71 2 0.01
72 36 0.26
73 3 0.02
74 3 0.02
75 9 0.06
76 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (69 bp):
AAGAGCCTGAGATGATTAATGAAGAGCTGCCCAAGGAAGATGAAAAGGTCCCAAAGCCAGAACAA
GAAC
Found at i:42052 original size:81 final size:81
Alignment explanation
Indices: 41947--42121 Score: 300
Period size: 81 Copynumber: 2.2 Consensus size: 81
41937 GGAACGGGTG
* *
41947 GAAAAGAAGGAACTTGGAGCTGAAATGGTACCAAAATCAAAGT-TGGTTGATAAGAAGGAACATG
1 GAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCT-GTTGATAAGAAGGAACATG
42011 TGAAGGAACAACAAGCTA
65 TGAAGGAACAACAAGC-A
42029 -AAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCTGTTGATAAGAAGGAACATGT
1 GAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCTGTTGATAAGAAGGAACATGT
42093 GAAGGAACAACAAGCA
66 GAAGGAACAACAAGCA
42109 GAAAAGAAGGAAC
1 GAAAAGAAGGAAC
42122 ATGTGAAGGA
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
80 1 0.01
81 87 0.98
82 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.26, T:0.15
Consensus pattern (81 bp):
GAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCTGTTGATAAGAAGGAACATGT
GAAGGAACAACAAGCA
Found at i:42121 original size:33 final size:33
Alignment explanation
Indices: 42079--42154 Score: 152
Period size: 33 Copynumber: 2.3 Consensus size: 33
42069 GTCTGTTGAT
42079 AAGAAGGAACATGTGAAGGAACAACAAGCAGAA
1 AAGAAGGAACATGTGAAGGAACAACAAGCAGAA
42112 AAGAAGGAACATGTGAAGGAACAACAAGCAGAA
1 AAGAAGGAACATGTGAAGGAACAACAAGCAGAA
42145 AAGAAGGAAC
1 AAGAAGGAAC
42155 CTGAAACTGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.55, C:0.12, G:0.28, T:0.05
Consensus pattern (33 bp):
AAGAAGGAACATGTGAAGGAACAACAAGCAGAA
Found at i:42139 original size:114 final size:114
Alignment explanation
Indices: 41998--42204 Score: 364
Period size: 114 Copynumber: 1.8 Consensus size: 114
41988 GTTGGTTGAT
*
41998 AAGAAGGAACATGTGAAGGAACAACAAGCTA-AAAAGAAGGAACCTGAAGCTGAAATGGTACCAA
1 AAGAAGGAACATGTGAAGGAACAACAAGC-AGAAAAGAAGGAACCTGAAACTGAAATGGTACCAA
*
42062 AATCAAAGTCTGTTGATAAGA-AGGAACATGTGAAGGAACAACAAGCAGAA
65 AATCAAAGCCTGTTGATAAGACA-GAACATGTGAAGGAACAACAAGCAGAA
42112 AAGAAGGAACATGTGAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATGGTACCAAA
1 AAGAAGGAACATGTGAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATGGTACCAAA
42177 ATCAAAGCCTGTTGATAAGACAGAACAT
66 ATCAAAGCCTGTTGATAAGACAGAACAT
42205 ACAAAGGAAC
Statistics
Matches: 89, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
113 1 0.01
114 87 0.98
115 1 0.01
ACGTcount: A:0.49, C:0.14, G:0.24, T:0.13
Consensus pattern (114 bp):
AAGAAGGAACATGTGAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATGGTACCAAA
ATCAAAGCCTGTTGATAAGACAGAACATGTGAAGGAACAACAAGCAGAA
Found at i:42426 original size:72 final size:72
Alignment explanation
Indices: 42151--42418 Score: 439
Period size: 72 Copynumber: 3.7 Consensus size: 72
42141 AGAAAAGAAG
*
42151 GAACCTGAAACTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGACA-GAACATACAAAGGAAC
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGA-AGGAACATACAAAGGAAC
*
42215 ATGCTGAA
65 ATGTTGAA
* *
42223 GAACCTGAAGCTGAAACGGTACCAAAATCAAAGCCTGTTGATAAGCAGGAACATACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
42288 TGTTGAA
66 TGTTGAA
*
42295 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATCCAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
42360 TGTTGAA
66 TGTTGAA
* * * *
42367 GAACCTGAAGCTGAAATGGTATCAAAATCAAAGTCGGTTGAAAAGAAGGAAC
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAAC
42419 CTGCAAAGAA
Statistics
Matches: 184, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
71 1 0.01
72 183 0.99
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (72 bp):
GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
TGTTGAA
Found at i:42480 original size:81 final size:81
Alignment explanation
Indices: 42365--42595 Score: 268
Period size: 81 Copynumber: 2.9 Consensus size: 81
42355 GAACATGTTG
* * *
42365 AAGAACCTGAAGCTGAAATGGTATCAAAATCAAAGTCGGTTGAAAAGAAGGAACCTGCAAAGAAA
1 AAGAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGAAA
42430 CAACTAG-CCGAAAAGA
66 CAAC-AGTCCGAAAAGA
* * * * *
42446 AAGAACCTAAATCTGAAATGATACCAAAACCAAAGTCGGTTGATAAGAAGGAACATACAAA-AGA
1 AAGAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGA-A
* ** *
42510 TCAACAGTTTGAAAAGC
65 ACAACAGTCCGAAAAGA
* * * * * *
42527 AGGAACTTGAAGCCGAAACGATACCAAAATCAAAGTCAGTTGATAAGAAGGAACCTGCAAAGGAA
1 AAGAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGAAA
42592 CAAC
66 CAAC
42596 GGGTCAAAAA
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 3 0.02
81 120 0.98
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (81 bp):
AAGAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGAAA
CAACAGTCCGAAAAGA
Found at i:42610 original size:21 final size:21
Alignment explanation
Indices: 42586--42634 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
42576 GGAACCTGCA
** *
42586 AAGGAACAACGGGTCAAAAAG
1 AAGGAACAACAAGCCAAAAAG
* *
42607 AAGGATCAACAAGCCGAAAAG
1 AAGGAACAACAAGCCAAAAAG
42628 AAGGAAC
1 AAGGAAC
42635 CTGAAACTGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.27, T:0.04
Consensus pattern (21 bp):
AAGGAACAACAAGCCAAAAAG
Found at i:42621 original size:81 final size:80
Alignment explanation
Indices: 42389--42625 Score: 242
Period size: 81 Copynumber: 2.9 Consensus size: 80
42379 GAAATGGTAT
* * * *
42389 CAAAATCAAAGTCGGTTGAAAAGAAGGAACCTGCAAAGAAACAACTA-GCCGAAAAGAAAGAACC
1 CAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAAC-AGGTCGAAAAGAAGGAA-C
* * *
42453 TAAATCTGAAATGATAC
64 TAAAGCCGAAACGATAC
* * * * * * * *
42470 CAAAACCAAAGTCGGTTGATAAGAAGGAACATACAAAAGATCAACAGTTTGAAAAGCAGGAACTT
1 CAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAAC-T
*
42535 GAAGCCGAAACGATAC
65 AAAGCCGAAACGATAC
* * * * *
42551 CAAAATCAAAGTCAGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTCAAAAAGAAGGATCAA
1 CAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAACTA
42616 CAAGCCGAAA
66 -AAGCCGAAA
42626 AGAAGGAACC
Statistics
Matches: 123, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
80 2 0.02
81 121 0.98
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (80 bp):
CAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAACTA
AAGCCGAAACGATAC
Found at i:42718 original size:72 final size:72
Alignment explanation
Indices: 42631--42828 Score: 342
Period size: 72 Copynumber: 2.8 Consensus size: 72
42621 CGAAAAGAAG
* * * *
42631 GAACCTGAAACTGAAATAGTACCAGAATCAAAACCTGTTGATAAGAAGGAACATACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
42696 TGTTGAA
66 TGTTGAA
* *
42703 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCTGTTGATAAGAAGGAGCATACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
42768 TGTTGAA
66 TGTTGAA
42775 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACAT
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACAT
42829 GTTGAAGAAC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 118 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (72 bp):
GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
TGTTGAA
Found at i:42898 original size:480 final size:477
Alignment explanation
Indices: 42126--43114 Score: 1305
Period size: 480 Copynumber: 2.0 Consensus size: 477
42116 AGGAACATGT
* *
42126 GAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATGGTACCAAAATCAAAGCCTGTTG
1 GAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATAGTACCAAAATCAAAACCTGTTG
42191 ATAAGACAGAACATACAAAGGAACATGCTGAAGAACCTGAAGCTGAAACGGTACCAAAATCAAAG
66 ATAAGACAGAACATACAAAGGAACATGCTGAAGAACCTGAAGCTGAAACGGTACCAAAATCAAAG
*
42256 CCTGTTGATAAGCAGGAACATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAA
131 CCTGTTGATAAGAAGGAACATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAA
42321 ATCAAAGCCTGTTGATAAGAAGGAACATCCAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGG
196 ATCAAAGCCTGTTGAT-A-AAGG-------AAAGGAACATGTTGAAGAACCTGAAGCTGAAATGG
* * *
42386 TATCAAAATCAAAGTCGGTTGAAAAGAAGGAAC-C-TGCAAAG-A-AA-C-AACTAGCCGAAAAG
252 TACCAAAATCAAAGTCGGTTGAAAAGAAGGAACACGTGCAAAGAAGAAGCAAACAAGCAGAAAAG
42445 AAAGAACCTAAATCTGAAATGATACCAAAACCAAAGTCGGTTGATAAGAAGGAACATACAAAAGA
317 AAAGAACCTAAATCTGAAATGATACCAAAACCAAAGTCGGTTGATAAGAAGGAACATACAAAAGA
*
42510 TCAACAGTTTGAAAAGCAGGAACTTGAAGCCGAAACGATACCAAAATCAAAGTCAGTTGATAAGA
382 TCAACAGTTCGAAAAGCAGGAACTTGAAGCCGAAACGATACCAAAATCAAAGTCAGTTGATAAGA
42575 AGGAACCTGCAAAGGAACAACGGGTCAAAAA
447 AGGAACCTGCAAAGGAACAACGGGTCAAAAA
* * *
42606 GAAGGATCAACAAGCCGAAAAGAAGGAACCTGAAACTGAAATAGTACCAGAATCAAAACCTGTTG
1 GAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATAGTACCAAAATCAAAACCTGTTG
* *
42671 ATAAGA-AGGAACATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAAATCAAA
66 ATAAGACA-GAACATACAAAGGAACATGCTGAAGAACCTGAAGCTGAAACGGTACCAAAATCAAA
* *
42735 GTCTGTTGATAAGAAGGAGCATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAA
130 GCCTGTTGATAAGAAGGAACATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAA
*
42800 AATCAAAGCCTGTTGAT-AA-G-AAGGAACATGTTGAAGAACCTGAAGCTGAAATTGTACCAAAA
195 AATCAAAGCCTGTTGATAAAGGAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAAA
** *
42862 TTGAAGTTGGTTGAAAAGAAAGAACCTGCAAAGGAACAATGGTCGGTTGCAAAGAAGGAAGCTGC
260 TCAAAGTCGGTT-----G-AA-AA---G--AAGGAAC-A----C-G-TGCAAAGAA-GAA---GC
*
42927 AAAGGAACAAGTAGAAAAGAAAGAACCTAAATCTGAAATGATACCAAAACCAAAGTCGGTTGATA
302 --A--AACAAGCAGAAAAGAAAGAACCTAAATCTGAAATGATACCAAAACCAAAGTCGGTTGATA
** * * ** * ** *
42992 AGAAGGAATGTGCAAAGGATCAATGGTTCGAAAAGCAGGGACTTGAAGCCGTGATGATACCAAAA
363 AGAAGGAACATACAAAAGATCAACAGTTCGAAAAGCAGGAACTTGAAGCCGAAACGATACCAAAA
*
43057 TCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTCAAAAA
428 TCAAAGTCAGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTCAAAAA
43107 GAAGGAAC
1 GAAGGAAC
43115 CTGAAGCTGA
Statistics
Matches: 444, Mismatches: 31, Indels: 47
0.85 0.06 0.09
Matches are distributed among these distances:
468 49 0.11
473 1 0.00
474 2 0.00
475 2 0.00
476 1 0.00
477 2 0.00
478 1 0.00
479 1 0.00
480 206 0.46
486 1 0.00
489 7 0.02
490 1 0.00
492 2 0.00
496 1 0.00
501 167 0.38
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.16
Consensus pattern (477 bp):
GAAGGAACAACAAGCAGAAAAGAAGGAACCTGAAACTGAAATAGTACCAAAATCAAAACCTGTTG
ATAAGACAGAACATACAAAGGAACATGCTGAAGAACCTGAAGCTGAAACGGTACCAAAATCAAAG
CCTGTTGATAAGAAGGAACATACAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAA
ATCAAAGCCTGTTGATAAAGGAAAGGAACATGTTGAAGAACCTGAAGCTGAAATGGTACCAAAAT
CAAAGTCGGTTGAAAAGAAGGAACACGTGCAAAGAAGAAGCAAACAAGCAGAAAAGAAAGAACCT
AAATCTGAAATGATACCAAAACCAAAGTCGGTTGATAAGAAGGAACATACAAAAGATCAACAGTT
CGAAAAGCAGGAACTTGAAGCCGAAACGATACCAAAATCAAAGTCAGTTGATAAGAAGGAACCTG
CAAAGGAACAACGGGTCAAAAA
Found at i:43065 original size:81 final size:80
Alignment explanation
Indices: 42903--43255 Score: 408
Period size: 81 Copynumber: 4.4 Consensus size: 80
42893 AGGAACAATG
* * * * * *
42903 GTCGGTTGCA-AAGAAGGAAGCTGCAAAGGAAC-AA-GTAGAAAAGAAAGAACCTAAATCTGAAA
1 GTCGGTTG-ATAAGAAGGAACCTGCAAAGGAACAAAGGTCGAAAAGAAGGAACTTGAAGCTGAAA
*
42965 TGATACCAAAACCAAA
65 TGATACCAAAATCAAA
** * * * * * **
42981 GTCGGTTGATAAGAAGGAATGTGCAAAGGATCAATGGTTCGAAAAGCAGGGACTTGAAGCCGTGA
1 GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAAAGG-TCGAAAAGAAGGAACTTGAAGCTGAAA
43046 TGATACCAAAATCAAA
65 TGATACCAAAATCAAA
* * *
43062 GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTCAAAAAGAAGGAACCTGAAGCTGAAA
1 GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAA-AGGTCGAAAAGAAGGAACTTGAAGCTGAAA
* * *
43127 TGGTATCAAAATCAGA
65 TGATACCAAAATCAAA
43143 GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAACTTGAAGCTGAAA
1 GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAA-AGGTCGAAAAGAAGGAACTTGAAGCTGAAA
*
43208 TGGTA-CAAAGATCAAA
65 TGATACCAAA-ATCAAA
* *
43224 GTCGGTTGATAAGAAAGAACCTACAAAGGAAC
1 GTCGGTTGATAAGAAGGAACCTGCAAAGGAAC
43256 CCGAAGCTGA
Statistics
Matches: 234, Mismatches: 35, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.00
78 27 0.12
79 1 0.00
80 5 0.02
81 198 0.85
82 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.26, T:0.16
Consensus pattern (80 bp):
GTCGGTTGATAAGAAGGAACCTGCAAAGGAACAAAGGTCGAAAAGAAGGAACTTGAAGCTGAAAT
GATACCAAAATCAAA
Found at i:43282 original size:60 final size:60
Alignment explanation
Indices: 43189--43315 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
43179 GGTCGAAAAG
** * * *
43189 AAGGAACTTGAAGCTGAAATGGTACAAAGATCAAAGTCGGTTGATAAGAAAGAACCTACA
1 AAGGAACCCGAAGCTGAAATGGTACAAAGATCAAAATCGATTGAAAAGAAAGAACCTACA
* *
43249 AAGGAACCCGAAGCTGAAATGGTATCAAA-ATCAAAATTGATTGAAAAGAAGGAACCTACA
1 AAGGAACCCGAAGCTGAAATGGTA-CAAAGATCAAAATCGATTGAAAAGAAAGAACCTACA
43309 AAGGAAC
1 AAGGAAC
43316 GACGGGACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 55 0.93
61 4 0.07
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (60 bp):
AAGGAACCCGAAGCTGAAATGGTACAAAGATCAAAATCGATTGAAAAGAAAGAACCTACA
Found at i:43336 original size:222 final size:221
Alignment explanation
Indices: 43052--43477 Score: 627
Period size: 222 Copynumber: 1.9 Consensus size: 221
43042 GTGATGATAC
* * * * *
43052 CAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTCAAAAAGAAGGAACCT
1 CAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAACGGGACAAAAAGAAGGAACCT
* *
43117 GAAGCTGAAATGGTATCAAAATCAGAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGT
66 GAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGT
*
43182 CGAAAAGAAGGAACTTGAAGCTGAAATGGTACAAAGATCAAAGTCGGTTGATAAGAAAGAACCTA
131 CGAAAAGAAGGAACCTGAAGCTGAAATGGTACAAA-ATCAAAGTCGGTTGATAAGAAAGAACCTA
43247 CAAAGGAACCCGAAGCTGAAATGGTAT
195 CAAAGGAACCCGAAGCTGAAATGGTAT
* * *
43274 CAAAATCAAAATTGATTGAAAAGAAGGAACCTACAAAGGAACGACGGGACAAAAAGAAGGAACCC
1 CAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAACGGGACAAAAAGAAGGAACCT
* * * * * * *
43339 GAAGCTGAAATGATACCAAAATCTAATTCGGTTGATACGAAAGAACCTGGAAATGAACAACAGGT
66 GAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGT
* * ** *
43404 CGAAAAGAAGGAACCTGAAGCCGAAATGATACTAAAATCAAAACCGGTTGATAAGAAGGAACCTA
131 CGAAAAGAAGGAACCTGAAGCTGAAATGGTAC-AAAATCAAAGTCGGTTGATAAGAAAGAACCTA
43469 CAAAGGAAC
195 CAAAGGAAC
43478 AACCGATAAA
Statistics
Matches: 180, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
222 177 0.98
223 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.15
Consensus pattern (221 bp):
CAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAACGGGACAAAAAGAAGGAACCT
GAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACAGGT
CGAAAAGAAGGAACCTGAAGCTGAAATGGTACAAAATCAAAGTCGGTTGATAAGAAAGAACCTAC
AAAGGAACCCGAAGCTGAAATGGTAT
Found at i:43348 original size:81 final size:79
Alignment explanation
Indices: 43249--43924 Score: 382
Period size: 81 Copynumber: 8.7 Consensus size: 79
43239 AGAACCTACA
* * *
43249 AAGGAACCCGAAGCTGAAATGGTATCAAAATCAAAATTGATTGAAAAGAAGGAACCTACAAAGGA
1 AAGGAACCCGAAGCTGAAATGATA-CAAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGA
*
43314 ACGACGGGACAAAAAG
65 ACAAC-GGACAAAAAG
* * * ** *
43330 AAGGAACCCGAAGCTGAAATGATACCAAAATC-TAATTCGGTTGATACGAAAGAACCTGGAAATG
1 AAGGAACCCGAAGCTGAAATGATA-CAAAATCAAAATT-GGTTGATAAGAAGGAACCTACAAAGG
* *
43394 AACAACAGGTCGAAAAG
64 AACAAC-GGACAAAAAG
* * **
43411 AAGGAACCTGAAGCCGAAATGATACTAAAATCAAAACCGGTTGATAAGAAGGAACCTACAAAGGA
1 AAGGAACCCGAAGCTGAAATGATAC-AAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGA
* *
43476 ACAACCGATAAAAAAG
65 ACAACGGA-CAAAAAG
* * * ** * *
43492 AAGGAACCTGAAGCT---ATGGTTCCAAAATCAATGTTGGTTGATAACG-ATGAACCTGCAAAGG
1 AAGGAACCCGAAGCTGAAAT-GATACAAAATCAAAATTGGTTGATAA-GAAGGAACCTACAAAGG
*
43553 AACAACTGATCAAAAAG
64 AACAACGGA-CAAAAAG
* * * * *
43570 AA-G-----GAA-TTG----GATCCAAAATCAAAGTCGATTGATAAGAAGGAACCTACAAAGGAA
1 AAGGAACCCGAAGCTGAAATGATACAAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGAA
***
43624 CAACGAGTTGAAAAG
66 CAACG-GACAAAAAG
** * * ** * * *
43639 AAGGAA--C-TTGC--AAA-G---GAAATTC--GGTCGGTTGA-AAGGAAGGAACTTGCAAAGGA
1 AAGGAACCCGAAGCTGAAATGATACAAAATCAAAATTGGTTGATAA-GAAGGAACCTACAAAGGA
***
43692 ACAACAGGTGGAAAAG
65 ACAAC-GGACAAAAAG
* * * * *
43708 AAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGAAACCTGCAAAGGA
1 AAGGAACCCGAAGCTGAAATGATA-CAAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGA
*** *
43773 ACAACGGGTTGAAAGG
65 ACAAC-GGACAAAAAG
* * * **
43789 AATGAACCTGAAGCTGAAATGATACTAAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGGA
1 AAGGAACCCGAAGCTGAAATGATAC-AAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGA
** * *
43854 ACAAAAAGTCGAAAAG
65 AC-AACGGACAAAAAG
* * * *
43870 AAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAAC
1 AAGGAACCCGAAGCTGAAATGATA-CAAAATCAAAATTGGTTGATAAGAAGGAAC
43925 AACCGATCGA
Statistics
Matches: 475, Mismatches: 85, Indels: 70
0.75 0.13 0.11
Matches are distributed among these distances:
68 3 0.01
69 91 0.19
70 3 0.01
71 6 0.01
72 5 0.01
74 4 0.01
75 1 0.00
77 1 0.00
78 49 0.10
79 9 0.02
80 7 0.01
81 289 0.61
82 7 0.01
ACGTcount: A:0.46, C:0.15, G:0.24, T:0.16
Consensus pattern (79 bp):
AAGGAACCCGAAGCTGAAATGATACAAAATCAAAATTGGTTGATAAGAAGGAACCTACAAAGGAA
CAACGGACAAAAAG
Found at i:43370 original size:141 final size:141
Alignment explanation
Indices: 43108--43386 Score: 389
Period size: 141 Copynumber: 2.0 Consensus size: 141
43098 GGTCAAAAAG
* * * * * *
43108 AAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGGTTGATAAGAAGGAACCTGCAAAGGA
1 AAGGAACCCGAAGCTGAAATGGTATCAAAATCAAAATCGATTGAAAAGAAGGAACCTACAAAGGA
* * ** *
43173 ACAACAGGTCGAAAAGAAGGAACTTGAAGCTGAAATGGTACAAAGATCAAAGTCGGTTGATAAGA
66 ACAACAGGACAAAAAGAAGGAACCCGAAGCTGAAATGATACAAAGATCAAAGTCGGTTGATAAGA
43238 AAGAACCTACA
131 AAGAACCTACA
*
43249 AAGGAACCCGAAGCTGAAATGGTATCAAAATCAAAATTGATTGAAAAGAAGGAACCTACAAAGGA
1 AAGGAACCCGAAGCTGAAATGGTATCAAAATCAAAATCGATTGAAAAGAAGGAACCTACAAAGGA
* * * * *
43314 ACGACGGGACAAAAAGAAGGAACCCGAAGCTGAAATGATACCAAA-ATCTAATTCGGTTGATACG
66 ACAACAGGACAAAAAGAAGGAACCCGAAGCTGAAATGATA-CAAAGATCAAAGTCGGTTGATAAG
43378 AAAGAACCT
130 AAAGAACCT
43387 GGAAATGAAC
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
141 116 0.97
142 4 0.03
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (141 bp):
AAGGAACCCGAAGCTGAAATGGTATCAAAATCAAAATCGATTGAAAAGAAGGAACCTACAAAGGA
ACAACAGGACAAAAAGAAGGAACCCGAAGCTGAAATGATACAAAGATCAAAGTCGGTTGATAAGA
AAGAACCTACA
Found at i:43623 original size:69 final size:69
Alignment explanation
Indices: 43512--43644 Score: 171
Period size: 69 Copynumber: 1.9 Consensus size: 69
43502 AAGCTATGGT
* * * * *
43512 TCCAAAATCAATGTTGGTTGATAACGATGAACCTGCAAAGGAACAACTGA-TCAAAAAGAAGGAA
1 TCCAAAATCAAAGTCGATTGATAACGAGGAACCTACAAAGGAACAAC-GAGTCAAAAAGAAGGAA
43576 TTGGA
65 TTGGA
**
43581 TCCAAAATCAAAGTCGATTGATAA-GAAGGAACCTACAAAGGAACAACGAGTTGAAAAGAAGGAA
1 TCCAAAATCAAAGTCGATTGATAACG-AGGAACCTACAAAGGAACAACGAGTCAAAAAGAAGGAA
43645 CTTGCAAAGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
68 3 0.05
69 52 0.95
ACGTcount: A:0.47, C:0.14, G:0.22, T:0.17
Consensus pattern (69 bp):
TCCAAAATCAAAGTCGATTGATAACGAGGAACCTACAAAGGAACAACGAGTCAAAAAGAAGGAAT
TGGA
Found at i:43644 original size:33 final size:33
Alignment explanation
Indices: 43598--43717 Score: 109
Period size: 33 Copynumber: 3.5 Consensus size: 33
43588 TCAAAGTCGA
* *
43598 TTGATAAGAAGGAACCTACAAAGGAACAACGAG
1 TTGAAAAGAAGGAACCTGCAAAGGAACAACGAG
* * *
43631 TTGAAAAGAAGGAACTTGCAAAGGAA-ATTCGGTCGG
1 TTGAAAAGAAGGAACCTGCAAAGGAACA-AC-G--AG
* *
43667 TTGAAAGGAAGGAACTTGCAAAGGAACAAC-AGG
1 TTGAAAAGAAGGAACCTGCAAAGGAACAACGA-G
*
43700 TGGAAAAGAAGGAACCTG
1 TTGAAAAGAAGGAACCTG
43718 AAGCTGAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
32 1 0.01
33 40 0.57
34 1 0.01
36 27 0.39
37 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.14
Consensus pattern (33 bp):
TTGAAAAGAAGGAACCTGCAAAGGAACAACGAG
Found at i:43844 original size:231 final size:227
Alignment explanation
Indices: 43448--44560 Score: 624
Period size: 216 Copynumber: 4.9 Consensus size: 227
43438 AAATCAAAAC
* * * * **
43448 CGGTTGATAAGAAGGAACCTACAAAGGAACAACCGATAAAAAAGAAGGAACCTGAAGCT---ATG
1 CGGTTGA-AAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATG
* * * * * *
43510 GTTCCAAAATCAATGTTGGTTGATAACG-ATGAACCTGCAAAGGAACAAC-TGATCAAA-AAGAA
65 GTACCAAAATCAAAGTTGGTTGATAA-GAAGGAACCTGCAAAGGAACAACGGGTTGAAAGAAGAA
* * *
43572 --GGAA-TTG----GAT-CCAAAATCAAAGTCGATTGATAAGAAGGAACCTACAAAGGAACAACG
129 CCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAACG
*
43629 AGTTGAAAAGAAGGAACTTGCAAAGGAAATTCGGT
194 AGTTGAAAAGAAGGAACCTGCAAAGGAAA-TCGGT
*
43664 CGGTTGAAAGGAAGGAACTTGCAAAGGAACAACAGGTGGAAAAGAAGGAACCTGAAGCTGAAATG
1 CGGTTGAAA-GAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATG
*
43729 GTACCAAAATCAAAGTTGGTTGATAAGAAGAAACCTGCAAAGGAACAACGGGTTGAAAGGAATGA
65 GTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAA-GAA-GA
* * *
43794 ACCTGAAGCTGAAATGATACTAAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGGAACAAA
128 ACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAAC
* *
43859 AAGTCGAAAAGAAGGAACCTG--AAGCTGAAAT-GGT
193 GAGTTGAAAAGAAGGAACCTGCAAAG--GAAATCGGT
*** * ** * * * *
43893 ACCAAAATCAAAGTCGG---TTGATAAGAAGGAACAACCGATCGAAAAGAAGGAACCTGAAGCTC
1 --C-GGTTGAAAGAAGGAACTTG--CA-AAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTG
* * * ** * * *
43955 AAATGGTTCCCAAATCAAAGTCGACTGATAAGAAGGAACATACAAAGGAAC-A--TGTT----GA
60 AAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAGA
* * * *
44013 AGAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAAC
125 AGAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAAC
* * * * *
44078 -A--TGTT--AAAGAACCTGAAGCTG-AAATGGTACCAAAATCAAAGC
190 AACGAGTTGAAAAGAA--GGAACCTGCAAA-GG-----AAATC--GGT
* * **
44120 CTGTTGATAAGAAGGAAC-AGACAAAGG---AACA--T-G--TTGAA-GAACCTGAAGCTGAAAT
1 CGGTTGA-AAGAAGGAACTTG-CAAAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAAT
*** * *
44175 GGTACCAAAATCAAAGCCAGTTGATAAGAAGGAA-CAGACAAAGGAAC-A--TGTTG--A-AA-A
64 GGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTG-CAAAGGAACAACGGGTTGAAAGAAGA
** * * *
44232 ACCTGAAGCTGAAATTG-TACCAAAATTGAAGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAA
128 ACCTGAAGCTGAAA-TGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAA
* * *
44296 CAGTCGGTTGCAAAGAAGGAACCTGCAAAGGAACAACGAGT
192 C-G--AGTTGAAAAGAAGGAACCTGCAAAGGAA-ATCG-GT
*** ** * * * *
44337 CGAAAAGAAAGAACCTAAATCTG-AAATGACACCAAAACCAAAGTCGGTTGATAAGAAGGAACCT
1 CG-GTTGAAAGAA-GGAACT-TGCAAAGGA-A-C--AA-C--A---GGTCGAAAAGAAGGAACCT
* * *
44401 GAAGCTGAAATTGTATCAAAATCAGAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGT
53 GAAGCTGAAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGT
** * * * * *
44466 CAAAAAGAAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGATTGATAAGAAGGAACCTG
118 -TGAAAGAA-GAACCTGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTA
*
44531 CAAAGGAACAAC-AGGTCGAAAAGAAGGAAC
181 CAAAGGAACAACGA-GTTGAAAAGAAGGAAC
44561 TTGAAGCTGA
Statistics
Matches: 686, Mismatches: 120, Indels: 155
0.71 0.12 0.16
Matches are distributed among these distances:
215 2 0.00
216 160 0.23
217 23 0.03
218 11 0.02
219 56 0.08
220 9 0.01
221 2 0.00
222 75 0.11
223 9 0.01
224 12 0.02
225 15 0.02
226 4 0.01
227 2 0.00
228 7 0.01
229 6 0.01
230 6 0.01
231 144 0.21
232 4 0.01
233 1 0.00
234 1 0.00
236 3 0.00
237 54 0.08
238 3 0.00
240 2 0.00
243 15 0.02
244 2 0.00
245 2 0.00
246 56 0.08
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (227 bp):
CGGTTGAAAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATGG
TACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAGAAGAACC
TGAAGCTGAAATGATACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAACGAG
TTGAAAAGAAGGAACCTGCAAAGGAAATCGGT
Found at i:44045 original size:72 final size:71
Alignment explanation
Indices: 43873--44294 Score: 539
Period size: 72 Copynumber: 5.9 Consensus size: 71
43863 CGAAAAGAAG
* **
43873 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACA-ACCGATCGAA-
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTC-GTTGATAAGAAGGAACATA-CAAAGGAAC
*
43936 A---AGAA
64 ATGTTGAA
* * * *
43941 GGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGACTGATAAGAAGGAACATACAAAGGAAC
1 -GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCG-TTGATAAGAAGGAACATACAAAGGAAC
44006 ATGTTGAA
64 ATGTTGAA
*
44014 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTC-GTTGATAAGAAGGAACATACAAAGGAACA
*
44079 TGTTAAA
65 TGTTGAA
* *
44086 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCTGTTGATAAGAAGGAACAGACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTC-GTTGATAAGAAGGAACATACAAAGGAACA
44151 TGTTGAA
65 TGTTGAA
* *
44158 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCAGTTGATAAGAAGGAACAGACAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTC-GTTGATAAGAAGGAACATACAAAGGAACA
44223 TGTTGAA
65 TGTTGAA
* * ** * * * *
44230 AAACCTGAAGCTGAAATTGTACCAAAATTGAAGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACA
1 GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTC-GTTGATAAGAAGGAACATACAAAGGAACA
44295 ACAGTCGGTT
Statistics
Matches: 318, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
68 1 0.00
69 52 0.16
70 2 0.01
72 259 0.81
73 4 0.01
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.17
Consensus pattern (71 bp):
GAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGTTGATAAGAAGGAACATACAAAGGAACAT
GTTGAA
Found at i:44311 original size:36 final size:37
Alignment explanation
Indices: 44261--44352 Score: 131
Period size: 36 Copynumber: 2.6 Consensus size: 37
44251 CCAAAATTGA
44261 AGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAAC-
1 AGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAACG
* *
44297 AGTCGGTTGCAAAGAAGGAACCTGCAAAGGAACAACG
1 AGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAACG
44334 AGTC----GAAAAGAAAGAACCT
1 AGTCGGTTGAAAAGAAAGAACCT
44353 AAATCTGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
33 13 0.25
36 34 0.67
37 4 0.08
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (37 bp):
AGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAACG
Found at i:44409 original size:48 final size:48
Alignment explanation
Indices: 44341--44449 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 48
44331 ACGAGTCGAA
* * *
44341 AAGAAAGAACCTAAATCTGAAA-TGACACCAAAACCAAAGTCGGTTGAT
1 AAGAAGGAACCTGAAGCTGAAATTG-CACCAAAACCAAAGTCGGTTGAT
* * * * *
44389 AAGAAGGAACCTGAAGCTGAAATTGTATCAAAATCAGAGTTGGTTGAT
1 AAGAAGGAACCTGAAGCTGAAATTGCACCAAAACCAAAGTCGGTTGAT
44437 AAGAAGGAACCTG
1 AAGAAGGAACCTG
44450 CAAAGGAACA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 50 0.96
49 2 0.04
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (48 bp):
AAGAAGGAACCTGAAGCTGAAATTGCACCAAAACCAAAGTCGGTTGAT
Found at i:44616 original size:81 final size:81
Alignment explanation
Indices: 44389--44603 Score: 351
Period size: 81 Copynumber: 2.7 Consensus size: 81
44379 GTCGGTTGAT
* *
44389 AAGAAGGAACCTGAAGCTGAAATTGTATCAAAATCAGAGTTGGTTGATAAGAAGGAACCTGCAAA
1 AAGAAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGGTTGATAAGAAGGAACCTGCAAA
*
44454 GGAACAACGGGTCAAA
66 GGAACAACAGGTCAAA
*
44470 AAGAAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGATTGATAAGAAGGAACCTGCAAA
1 AAGAAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGGTTGATAAGAAGGAACCTGCAAA
*
44535 GGAACAACAGGTCGAA
66 GGAACAACAGGTCAAA
* *
44551 AAGAAGGAACTTGAAGCTGAAATGGTA-CAAATATCAAAGTCGGTTGATAAGAA
1 AAGAAGGAACCTGAAGCTGAAATGGTATCAAA-ATCAGAGTCGGTTGATAAGAA
44604 ACAACCTACA
Statistics
Matches: 125, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 4 0.03
81 121 0.97
ACGTcount: A:0.44, C:0.13, G:0.26, T:0.17
Consensus pattern (81 bp):
AAGAAGGAACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGGTTGATAAGAAGGAACCTGCAAA
GGAACAACAGGTCAAA
Found at i:44647 original size:60 final size:60
Alignment explanation
Indices: 44562--44676 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
44552 AGAAGGAACT
* *
44562 TGAAGCTGAAATGGTACAAATATCAAAGTCGGTTGATAAGAAACAACCTACAAAGAAACC
1 TGAAGCTGAAATGGTACAAATATCAAAATCGATTGATAAGAAACAACCTACAAAGAAACC
* **
44622 TGAAGCTGAAATGGTATCAAA-ATCAAAATTGATTGATAAGAAGGAACCTACAAAG
1 TGAAGCTGAAATGGTA-CAAATATCAAAATCGATTGATAAGAAACAACCTACAAAG
44677 GAACAACGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 45 0.92
61 4 0.08
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (60 bp):
TGAAGCTGAAATGGTACAAATATCAAAATCGATTGATAAGAAACAACCTACAAAGAAACC
Found at i:44701 original size:222 final size:219
Alignment explanation
Indices: 44396--44822 Score: 608
Period size: 222 Copynumber: 1.9 Consensus size: 219
44386 GATAAGAAGG
* * * * *
44396 AACCTGAAGCTGAAATTGTATCAAAATCAGAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAA
1 AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAA
* * * * * *
44461 CGGGTCAAAAAGAAGGAACCTGAAGCTGAAATGGTATCAAAATC-AGAGTCGATTGATA-AGAAG
66 CGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACCAAAATCTA-AGTCGATTGATACA-AAA
* *
44524 GAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAACTTGAAGCTGAAATGGTAC-AAATATCAA
129 GAACCTGCAAAGG---AACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATGATACTAAA-ATCAA
*
44588 AGTCGGTTGATAAGAAACAACCTACAAAGA
190 AATCGGTTGATAAGAAACAACCTACAAAGA
44618 AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAA
1 AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAA
*
44683 CGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACCAAAATCTAAGTCGGTTGATACAAAAGA
66 CGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACCAAAATCTAAGTCGATTGATACAAAAGA
* * **
44748 ACCTGGAAATGAACAGGTCGAAAAGAAGGAACCTGACTCTGAAATGATACTAAAATCAAAATCGG
131 ACCTGCAAAGGAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATGATACTAAAATCAAAATCGG
44813 TTGATAAGAA
196 TTGATAAGAA
44823 GGAACTTACA
Statistics
Matches: 183, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
219 55 0.30
220 3 0.02
222 123 0.67
223 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (219 bp):
AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAA
CGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACCAAAATCTAAGTCGATTGATACAAAAGA
ACCTGCAAAGGAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATGATACTAAAATCAAAATCGG
TTGATAAGAAACAACCTACAAAGA
Found at i:44726 original size:81 final size:79
Alignment explanation
Indices: 44613--45450 Score: 280
Period size: 81 Copynumber: 10.9 Consensus size: 79
44603 AACAACCTAC
* * * * *
44613 AAAGAAACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
44678 AACAACGGGACAAAAA
66 AACAA--GGACAAAAA
* * * * ** *
44694 AAAGGAACCCGAAGCTGAAATGATACCAAAATCTAAGTCGGTTGATACA-AAAGAACCTGGAAAT
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATA-AGAAGGAACCTACAAAG
* *
44758 GAAC-AGGTCGAAAA
65 GAACAAGGACAAAAA
* ** * *
44772 GAAGGAACCTGACTCTGAAATGATACTAAAATCAAAATCGGTTGATAAGAAGGAACTTACAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
** *
44837 AACAATCTATAAAAA
66 AACAA-GGACAAAAA
* * * * * * *
44852 AGAAGGAACCTGAAGCT---ATGGTTCCAAAACCAAAGTTGGTTGATAATG-ATGAACCTGCAAA
1 A-AAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAA-GAAGGAACCTACAAA
* *
44913 GGAACAACTGATCGAAAA
64 GGAACAA-GGA-CAAAAA
* * *
44931 GAAGGAA--T-----TG----G-TTCCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
** *
44984 AACAACGGGTTGAAAAG
66 AACAA--GG-ACAAAAA
* * ** * *
45001 AAA-GAACTTGCAAAG--GAAACACGGTCGGT-TGAAAA-GAAGGAA-C--TTG--CA-AAGGAA
1 AAAGGAACCTG--AAGCTG-AA-A---T-GATACCAAAATCAA--AATCGGTTGATAAGAAGGAA
* * * *
45055 -C-A-ACAGG----TGGAAAACAA
56 CCTACAAAGGAACAAGGACAAAAA
** * * * *
45072 GGA---ACCTGAAGCTGAAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
*** *
45134 AACAACGGGTTGAAAG
66 AACAA--GGACAAAAA
* * * * *
45150 GAATGAACCTGAAGCTGAAATGATACTAAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
* *
45215 AACAACAGGTCGAAAA
66 AAC-A-AGGACAAAAA
* * * **
45231 GAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGG-A---ACAACCG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
*
45292 ATC---G---AAAA
66 AACAAGGACAAAAA
* * * * * * * *
45300 GAAGGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGATTGATAAGAAGAAACCTACAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
***
45365 AACAACAGGTTGAAAA
66 AAC-A-AGGACAAAAA
* * * * * * * **
45381 GAAGGAACCTGAAGCTGAAATAATACCAAAATCAAAGTCGATTGAAAAGGAGGAACTTGTAAAGG
1 AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
45446 AACAA
66 AACAA
45451 CGGTCGGTTG
Statistics
Matches: 567, Mismatches: 122, Indels: 138
0.69 0.15 0.17
Matches are distributed among these distances:
63 4 0.01
64 5 0.01
65 2 0.00
66 3 0.01
67 4 0.01
68 4 0.01
69 107 0.19
70 9 0.02
71 6 0.01
72 7 0.01
73 7 0.01
76 2 0.00
77 8 0.01
78 119 0.21
79 8 0.01
80 8 0.01
81 247 0.44
82 3 0.01
83 1 0.00
84 3 0.01
85 2 0.00
86 6 0.01
87 2 0.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.16
Consensus pattern (79 bp):
AAAGGAACCTGAAGCTGAAATGATACCAAAATCAAAATCGGTTGATAAGAAGGAACCTACAAAGG
AACAAGGACAAAAA
Found at i:44751 original size:141 final size:141
Alignment explanation
Indices: 44477--44740 Score: 404
Period size: 141 Copynumber: 1.9 Consensus size: 141
44467 AAAAAGAAGG
* * *
44477 AACCTGAAGCTGAAATGGTATCAAAATCAGAGTCGATTGATAAGAAGGAACCTGCAAAGGAACAA
1 AACCTGAAGCTGAAATGGTATCAAAATCAAAATCGATTGATAAGAAGGAACCTACAAAGGAACAA
* * * ** *
44542 CAGGTCGAAAAGAAGGAACTTGAAGCTGAAATGGTACAAATATCAAAGTCGGTTGATAAGAAACA
66 CAGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACAAATATCAAAGTCGGTTGATAAGAAACA
44607 ACCTACAAAGA
131 ACCTACAAAGA
*
44618 AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAACAA
1 AACCTGAAGCTGAAATGGTATCAAAATCAAAATCGATTGATAAGAAGGAACCTACAAAGGAACAA
* *
44683 CGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACCAAA-ATCTAAGTCGGTTGATA
66 CAGGACAAAAAAAAGGAACCCGAAGCTGAAATGATA-CAAATATCAAAGTCGGTTGATA
44741 CAAAAGAACC
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
141 106 0.96
142 4 0.04
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (141 bp):
AACCTGAAGCTGAAATGGTATCAAAATCAAAATCGATTGATAAGAAGGAACCTACAAAGGAACAA
CAGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACAAATATCAAAGTCGGTTGATAAGAAACA
ACCTACAAAGA
Found at i:45002 original size:33 final size:33
Alignment explanation
Indices: 44958--45079 Score: 129
Period size: 33 Copynumber: 3.6 Consensus size: 33
44948 AATCAAAGTC
* *
44958 GGTTGATAAGAAGGAACCTACAAAGGAACAACG
1 GGTTGAAAAGAAGGAACCTGCAAAGGAACAACG
* *
44991 GGTTGAAAAGAAAGAACTTGCAAAGGAA-ACACGG
1 GGTTGAAAAGAAGGAACCTGCAAAGGAACA-AC-G
* *
45025 TCGGTTGAAAAGAAGGAACTTGCAAAGGAACAACA
1 --GGTTGAAAAGAAGGAACCTGCAAAGGAACAACG
* *
45060 GGTGGAAAACAAGGAACCTG
1 GGTTGAAAAGAAGGAACCTG
45080 AAGCTGAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
32 1 0.01
33 43 0.57
34 1 0.01
36 29 0.39
37 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (33 bp):
GGTTGAAAAGAAGGAACCTGCAAAGGAACAACG
Found at i:45132 original size:150 final size:152
Alignment explanation
Indices: 44939--45610 Score: 620
Period size: 150 Copynumber: 4.4 Consensus size: 152
44929 AAGAAGGAAT
* *
44939 TGGTTCCAAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAA
1 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAAGAAA
** * * *
45004 GAACTTGCAAA-GGAAA-CACGGTCGGTTGAAAAGAAGGAACTTGCAAAGGAACAACAGGTGGAA
66 GAACTTGCAAATGGAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACAGGTCGAA
*
45067 AACAAGGAACCTGAAGCTGAAA
131 AAGAAGGAACCTGAAGCTGAAA
* * *
45089 TGGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAGGAAT
1 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAAGAAA
* * * *
45154 GAACCTGAAGCTGAAATGATACTAAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGGAACA
66 GAA-CT--TGC--AAATG-----GAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACA
45219 ACAGGTCGAAAAGAAGGAACCTGAAGCTGAAA
121 ACAGGTCGAAAAGAAGGAACCTGAAGCTGAAA
*** * ** * **
45251 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACAACCGATCGAA-AA-GAAG--GAACCTG-
1 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACG-GGTTGAA-AAGA
* * *
45311 AAG--C-T-CAAATGGTTCCCAAATCAAAGTCGATTGATAAGAAGAAACCTACAAAGGAACAACA
64 AAGAACTTGCAAATGG-----AAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACA
*
45372 GGTTGAAAAGAAGGAACCTGAAGCTGAAA
124 GGTCGAAAAGAAGGAACCTGAAGCTGAAA
** * * * * *
45401 TAATACCAAAATCAAAGTCGATTGAAAAGGAGGAACTTGTAAAGGAACAACGGTCGGTTGAAAAG
1 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAAC-G--GGTTGAAAAG
* * * * * *
45466 AAGGAACTTGCAAAT-G-AA-C-AA-TGGGTGGAAAAGAAGGAACCTGCAAAAGAACAACGGGTC
63 AAAGAACTTGCAAATGGAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACAGGTC
* *
45526 AAAAAGAAGAAACCTGAAGCTGAAA
128 GAAAAGAAGGAACCTGAAGCTGAAA
** * * *
45551 TGGTACCTGAATTAAAGTCGGTTGATAAGAAGGAACCTGCAATGGAACAACGGGTCGAAA
1 TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAA
45611 CAAAGAAATT
Statistics
Matches: 420, Mismatches: 72, Indels: 63
0.76 0.13 0.11
Matches are distributed among these distances:
147 7 0.02
149 1 0.00
150 265 0.63
151 6 0.01
152 2 0.00
153 5 0.01
154 1 0.00
155 4 0.01
156 7 0.02
158 1 0.00
159 7 0.02
160 7 0.02
161 6 0.01
162 101 0.24
ACGTcount: A:0.45, C:0.15, G:0.25, T:0.15
Consensus pattern (152 bp):
TGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTGAAAAGAAA
GAACTTGCAAATGGAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACAGGTCGAA
AAGAAGGAACCTGAAGCTGAAA
Found at i:45217 original size:231 final size:225
Alignment explanation
Indices: 43584--45669 Score: 1133
Period size: 231 Copynumber: 9.1 Consensus size: 225
43574 AATTGGATCC
* * *
43584 AAAATCAAAGTCGATTGATAAGAAGGAACCTACAAAGGAACAACGAGTTGAAAAGAAGGAACTTG
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTTG
* *
43649 CAAAGGAA-ATTCGGTCGGTTGAAAGGAAGGAACTTGCAAAGGAACAACAGGTGGAAAAGAAGGA
66 CAAAGGAACA-T-GGTC----GAAAAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGA
* *
43713 ACCTGAAGCTGAAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGAAACCTGCAAAGGAACAAC
125 ACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAAC
*
43778 GGGTTGAAAGGAATGAACCTGAAGCTGAAATGATACT
190 GGGTTGAAA-GAAAGAACCTGAAGCTGAAATGATACT
* * *** * *
43815 AAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGGAACAAAAAGTCGAAAAGAAGGAACCTG
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTTG
* * * * * * *
43880 --AAGCTGAA-ATGGTACCAAAATCAAAG-TCGGTTGATAAGAAGGAACAACCGATCGAAAAGAA
66 CAAAG--GAACATGGT-CGAAAA-GAAGGAAC--TTG--CA-AAGGAACAACAGGTCGAAAAGAA
* * * ** * *
43941 GGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGACTGATAAGAAGGAACATACAAAGGAAC
122 GGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAAC
* * *
44006 -A--TGTT----G-AAGAACCTGAAGCTGAAATGGTACC
187 AACGGGTTGAAAGAAAGAACCTGAAGCTGAAATGATACT
* * * * * *
44037 AAAATCAAAGCCTGTTGATAAGAAGGAACATACAAAGGAAC-A--TGTTAAAGAACCTGAAGCTG
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAA-AA---GAAG--G
* * ** * * * * *
44099 AAATGGTACCAAAATCAAAGCCT-GTTGATAAGAAGGAAC-AGACAAAGG---AACA--T-G--T
60 AACT--T-GC-AAA-GGAA-CATGGTCGAAAAGAAGGAACTTG-CAAAGGAACAACAGGTCGAAA
* * * *
44154 TGAA-GAACCTGAAGCTGAAATGGTACCAAAATCAAAGCCAGTTGATAAGAAGGAA-CAGACAAA
118 AGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTG-CAAA
* *
44217 GGAAC-A--TGTT----GAAA-AACCTGAAGCTGAAATTG-TACC
182 GGAACAACGGGTTGAAAGAAAGAACCTGAAGCTGAAA-TGATACT
** * * *
44253 AAAATTGAAGTCGGTTGAAAAGAAAGAACCTGCAAAGGAACAACAGTCGGTTGCAAAGAAGGAAC
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAAC-G--GGTTGAAAAGAAGGAAC
* * * *
44318 CTGCAAAGGAACAACGAGTCGAAAAGAAAGAACCTAAAT-CTGAAATGACACCAAAACCAAAGTC
63 TTGCAAAGGAAC-ATG-GTCGAAAAGAAGGAA-CT---TGC--AAAGGA-A-C--AA-C--A---
* * * * * *
44382 GGTTGATAAGAAGGAACCTGAAGCTGAAATTGTATCAAAATCAGAGTTGGTTGATAAGAAGGAAC
110 GGTCGAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAAC
** * *
44447 CTGCAAAGGAACAACGGGTCAAAAAGAAGGAACCTGAAGCTGAAATGGTA-T
175 CTGCAAAGGAACAACGGGT-TGAAAGAAAGAACCTGAAGCTGAAATGATACT
* * * * * *
44498 CAAAATCAGAGTCGATTGATAAGAAGGAACCTGCAAAGGAACAACAGGTCGAAAAGAAGGAACTT
1 -AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTT
* * * * *
44563 G--AAGCTGAA-ATGGTAC-AAATATCAAAG-TCGGTTG-ATAAGAAACAAC----CTACAAAG-
65 GCAAAG--GAACATGGT-CGAAA-A-GAAGGAAC--TTGCA-AAGGAACAACAGGTCGA-AAAGA
* * * * *
44617 A--AACCTGAAGCTGAAATGGTATCAAAATCAAAATTGATTGATAAGAAGGAACCTACAAAGGAA
121 AGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAA
*** * * *
44680 CAACGGGACAAAAAAAAGGAACCCGAAGCTGAAATGATACC
186 CAACGGGTTGAAAGAAA-GAACCTGAAGCTGAAATGATACT
* ** * * *
44721 AAAATCTAAGTCGGTTGATACAA-AA-GAACCTGGAAATGAAC-A--GGTCGAAAAGAAGGAACC
1 AAAATCAAAGTCGGTTGA-A-AAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACT
* * * *
44781 TGACTCTGAAATGATACTAAAATCAAAATCGGTTGATAAGAAGGAACTTACAAAGGAACAATCTA
64 TG---C--AAA-G------GAA-C---AT-GGTCGAAAAGAAGGAACTTGCAAAGGAACAA-C-A
** * * * *
44846 --TAAAAAAGAAGGAACCTGAAGCT---ATGGTTCCAAAACCAAAGTTGGTTGATAATG-ATGAA
110 GGTCGAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAA-GAAGGAA
** * * * *
44905 CCTGCAAAGGAACAAC----TGATCG-AA-AA---GAAG--GAATTGGTTCC
174 CCTGCAAAGGAACAACGGGTTGAAAGAAAGAACCTGAAGCTGAAATGATACT
* *
44946 AAAATCAAAGTCGGTTGATAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAAGAACTTG
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTTG
* * *
45011 CAAAGGAAACACGGTCGGTTGAAAAGAAGGAACTTGCAAAGGAACAACAGGTGGAAAACAAGGAA
66 CAAAGG-AACA---T-GGTCGAAAAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAA
*
45076 CCTGAAGCTGAAATGGTACCAAAATCAAAGTTGGTTGATAAGAAGGAACCTGCAAAGGAACAACG
126 CCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACG
*
45141 GGTTGAAAGGAATGAACCTGAAGCTGAAATGATACT
191 GGTTGAAA-GAAAGAACCTGAAGCTGAAATGATACT
* * * * *
45177 AAAATCAAAGTCAGTTGATAAGAAGGAACCTACAAAGGAACAACAGGTCGAAAAGAAGGAACCTG
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTTG
* * * * * * *
45242 --AAGCTGAA-ATGGTACCAAAATCAAAG-TCGGTTGATAAGAAGGAACAACCGATCGAAAAGAA
66 CAAAG--GAACATGGT-CGAAAA-GAAGGAAC--TTG--CA-AAGGAACAACAGGTCGAAAAGAA
* * * * * *
45303 GGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGATTGATAAGAAGAAACCTACAAAGGAAC
122 GGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAAC
* * * *
45368 AACAGGTTGAAAAGAAGGAACCTGAAGCTGAAATAATACC
187 AACGGGTTG-AAAGAAAGAACCTGAAGCTGAAATGATACT
* * * **
45408 AAAATCAAAGTCGATTGAAAAGGAGGAACTTGTAAAGGAACAACGGTCGGTTGAAAAGAAGGAAC
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAAC-G--GGTTGAAAAGAAGGAAC
* * * * * * *
45473 TTGCAAATGAACAATGGGTGGAAAAGAAGGAACCTGCAAAAGAACAACGGGTCAAAAAGAAGAAA
63 TTGCAAAGGAAC-AT-GGTCGAAAAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAA
** * *
45538 CCTGAAGCTGAAATGGTACCTGAATTAAAGTCGGTTGATAAGAAGGAACCTGCAATGGAACAACG
126 CCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACG
* * ** * *
45603 GGTCGAAACAAAGAAATTTGAAGCTGAAATGGTATT
191 GGTTGAAAGAAAG-AACCTGAAGCTGAAATGATACT
* *
45639 AAAATCAAATTTGGTTGAAAAGAAGGAACCT
1 AAAATCAAAGTCGGTTGAAAAGAAGGAACCT
45670 GAAGTGGAAG
Statistics
Matches: 1431, Mismatches: 259, Indels: 330
0.71 0.13 0.16
Matches are distributed among these distances:
210 1 0.00
211 2 0.00
212 3 0.00
213 14 0.01
214 3 0.00
215 1 0.00
216 167 0.12
217 10 0.01
218 9 0.01
219 71 0.05
220 3 0.00
221 10 0.01
222 180 0.13
223 15 0.01
224 7 0.00
225 55 0.04
226 17 0.01
227 13 0.01
228 27 0.02
229 17 0.01
230 21 0.01
231 482 0.34
232 7 0.00
233 3 0.00
234 36 0.03
235 8 0.01
236 17 0.01
237 111 0.08
238 9 0.01
239 1 0.00
240 19 0.01
241 7 0.00
242 5 0.00
243 20 0.01
245 5 0.00
246 55 0.04
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (225 bp):
AAAATCAAAGTCGGTTGAAAAGAAGGAACCTACAAAGGAACAACGGGTTGAAAAGAAGGAACTTG
CAAAGGAACATGGTCGAAAAGAAGGAACTTGCAAAGGAACAACAGGTCGAAAAGAAGGAACCTGA
AGCTGAAATGGTACCAAAATCAAAGTCGGTTGATAAGAAGGAACCTGCAAAGGAACAACGGGTTG
AAAGAAAGAACCTGAAGCTGAAATGATACT
Found at i:45322 original size:69 final size:69
Alignment explanation
Indices: 45211--45351 Score: 228
Period size: 69 Copynumber: 2.0 Consensus size: 69
45201 GGAACCTACA
* * *
45211 AAGGAACAACAGGTCGAAAAGAAGGAACCTGAAGCTGAAATGGTACCAAAATCAAAGTCGGTTGA
1 AAGGAACAACAGATCGAAAAGAAGGAACCTGAAGCTCAAATGGTACCAAAATCAAAGTCGATTGA
45276 TAAG
66 TAAG
* * *
45280 AAGGAACAACCGATCGAAAAGAAGGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGATTGA
1 AAGGAACAACAGATCGAAAAGAAGGAACCTGAAGCTCAAATGGTACCAAAATCAAAGTCGATTGA
45345 TAAG
66 TAAG
45349 AAG
1 AAG
45352 AAACCTACAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (69 bp):
AAGGAACAACAGATCGAAAAGAAGGAACCTGAAGCTCAAATGGTACCAAAATCAAAGTCGATTGA
TAAG
Found at i:45451 original size:81 final size:81
Alignment explanation
Indices: 45280--45472 Score: 233
Period size: 81 Copynumber: 2.3 Consensus size: 81
45270 GGTTGATAAG
* * ** * *
45280 AAGGAACAACCGATCGAAAAGAAGGAACCTGAAGCTCAAATGGTTCCCAAATCAAAGTCGATTGA
1 AAGGAACAACCGGTTGAAAAGAAGGAACCTGAAGCTCAAATAATACCAAAATCAAAGTCGATTGA
*
45345 TAAGAAGAAACCTACA
66 AAAGAAGAAACCTACA
* *
45361 AAGGAACAACAGGTTGAAAAGAAGGAACCTGAAGCTGAAATAATACCAAAATCAAAGTCGATTGA
1 AAGGAACAACCGGTTGAAAAGAAGGAACCTGAAGCTCAAATAATACCAAAATCAAAGTCGATTGA
* * * **
45426 AAAGGAGGAACTTGTA
66 AAAGAAGAAACCTACA
45442 AAGGAACAACGGTCGGTTGAAAAGAAGGAAC
1 AAGGAACAAC---CGGTTGAAAAGAAGGAAC
45473 TTGCAAATGA
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 77 0.82
84 17 0.18
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.15
Consensus pattern (81 bp):
AAGGAACAACCGGTTGAAAAGAAGGAACCTGAAGCTCAAATAATACCAAAATCAAAGTCGATTGA
AAAGAAGAAACCTACA
Found at i:45471 original size:36 final size:36
Alignment explanation
Indices: 45417--45522 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
45407 CAAAATCAAA
* * * *
45417 GTCGATTGAAAAGGAGGAACTTGTAAAGGAACAACG
1 GTCGGTTGAAAAGAAGGAACTTGCAAAAGAACAACG
*
45453 GTCGGTTGAAAAGAAGGAACTTGCAAATGAACAA--
1 GTCGGTTGAAAAGAAGGAACTTGCAAAAGAACAACG
* * *
45487 -TGGGTGGAAAAGAAGGAACCTGCAAAAGAACAACG
1 GTCGGTTGAAAAGAAGGAACTTGCAAAAGAACAACG
45522 G
1 G
45523 GTCAAAAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
33 29 0.49
36 30 0.51
ACGTcount: A:0.43, C:0.12, G:0.30, T:0.14
Consensus pattern (36 bp):
GTCGGTTGAAAAGAAGGAACTTGCAAAAGAACAACG
Found at i:45502 original size:33 final size:33
Alignment explanation
Indices: 45424--45534 Score: 105
Period size: 33 Copynumber: 3.3 Consensus size: 33
45414 AAAGTCGATT
* * * * *
45424 GAAAAGGAGGAACTTGTAAAGGAACAACGGTCGGTT
1 GAAAAGAAGGAACTTGCAAAAGAACAA---TGGGTC
* *
45460 GAAAAGAAGGAACTTGCAAATGAACAATGGGTG
1 GAAAAGAAGGAACTTGCAAAAGAACAATGGGTC
* *
45493 GAAAAGAAGGAACCTGCAAAAGAACAACGGGTC
1 GAAAAGAAGGAACTTGCAAAAGAACAATGGGTC
*
45526 AAAAAGAAG
1 GAAAAGAAG
45535 AAACCTGAAG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 41 0.63
36 24 0.37
ACGTcount: A:0.47, C:0.12, G:0.30, T:0.12
Consensus pattern (33 bp):
GAAAAGAAGGAACTTGCAAAAGAACAATGGGTC
Found at i:45540 original size:33 final size:33
Alignment explanation
Indices: 45461--45541 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
45451 CGGTCGGTTG
* * * **
45461 AAAAGAAGGAACTTGCAAATGAACAATGGGTGG
1 AAAAGAAGGAACCTGCAAAAGAACAACGGGTCA
45494 AAAAGAAGGAACCTGCAAAAGAACAACGGGTCA
1 AAAAGAAGGAACCTGCAAAAGAACAACGGGTCA
*
45527 AAAAGAAGAAACCTG
1 AAAAGAAGGAACCTG
45542 AAGCTGAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.10
Consensus pattern (33 bp):
AAAAGAAGGAACCTGCAAAAGAACAACGGGTCA
Found at i:45655 original size:81 final size:81
Alignment explanation
Indices: 45493--45678 Score: 225
Period size: 81 Copynumber: 2.3 Consensus size: 81
45483 ACAATGGGTG
**
45493 GAAAAGAAGGAACCTGCAAAAGAACAACGGGTCAAAAAGAAGAAACCTGAAGCTGAAATGGTACC
1 GAAAAGAAGGAACCTGCAATGGAACAACGGGTCAAAAAGAAGAAACCTGAAGCTGAAATGGTACC
* *
45558 TGAATTAAAGTCGGTT
66 TAAATCAAAGTCGGTT
* * **
45574 GATAAGAAGGAACCTGCAATGGAACAACGGGTCGAAACA-AAGAAATTTGAAGCTGAAATGGTA-
1 GAAAAGAAGGAACCTGCAATGGAACAACGGGTC-AAAAAGAAGAAACCTGAAGCTGAAATGGTAC
* * *
45637 TTAAAATCAAATTTGGTT
65 CT-AAATCAAAGTCGGTT
45655 GAAAAGAAGGAACCTG-AAGTGGAA
1 GAAAAGAAGGAACCTGCAA-TGGAA
45679 GCTGAAAAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
80 3 0.03
81 83 0.92
82 4 0.04
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (81 bp):
GAAAAGAAGGAACCTGCAATGGAACAACGGGTCAAAAAGAAGAAACCTGAAGCTGAAATGGTACC
TAAATCAAAGTCGGTT
Found at i:45708 original size:54 final size:54
Alignment explanation
Indices: 45622--45727 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
45612 AAAGAAATTT
* ** * * *
45622 GAAGCTGAAATGGTATTAAAATCAAATTTGGTTGAAAAGAAGGAACCTGAAGTG
1 GAAGCTGAAAAGGTACCAAAACCAAAGTTGGTTGAAAAGAAGAAACCTGAAGTG
45676 GAAGCTGAAAAGGTACCAAAACCAAAGTTGGTTGAAAAGAAGAAACCTGAAG
1 GAAGCTGAAAAGGTACCAAAACCAAAGTTGGTTGAAAAGAAGAAACCTGAAG
45728 AGGTACCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.19
Consensus pattern (54 bp):
GAAGCTGAAAAGGTACCAAAACCAAAGTTGGTTGAAAAGAAGAAACCTGAAGTG
Found at i:49621 original size:57 final size:57
Alignment explanation
Indices: 49533--49648 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
49523 CAAATGAAAA
49533 GCTTCTATATATGGTGTGAAAGAGGTGGGAGTGGTAGAGGAGATGGAGATAGAGGCG
1 GCTTCTATATATGGTGTGAAAGAGGTGGGAGTGGTAGAGGAGATGGAGATAGAGGCG
49590 GCTTCTATATATGGTGTGAAAGAGGTGGGAGTGGTAGAGGAGATGGAGATAGAGGCG
1 GCTTCTATATATGGTGTGAAAGAGGTGGGAGTGGTAGAGGAGATGGAGATAGAGGCG
49647 GC
1 GC
49649 GGTTGTGAGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.28, C:0.06, G:0.44, T:0.22
Consensus pattern (57 bp):
GCTTCTATATATGGTGTGAAAGAGGTGGGAGTGGTAGAGGAGATGGAGATAGAGGCG
Found at i:57691 original size:2 final size:2
Alignment explanation
Indices: 57684--57732 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
57674 AATCACCTAA
57684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57726 AT AT AT A
1 AT AT AT A
57733 AAATTTAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.