Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold826
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: 341534
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:216 original size:21 final size:22
Alignment explanation
Indices: 192--234 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
182 TCATTTTCAA
*
192 TTTTTA-ATTTTGAAATCATTT
1 TTTTTATATTTAGAAATCATTT
*
213 TTTTTATATTTAGAATTCATTT
1 TTTTTATATTTAGAAATCATTT
235 CCTTAAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (22 bp):
TTTTTATATTTAGAAATCATTT
Found at i:2809 original size:14 final size:15
Alignment explanation
Indices: 2785--2814 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2775 AAATAAGAAA
2785 AAAATTATAAATTTT
1 AAAATTATAAATTTT
2800 AAAATT-TAAATTTT
1 AAAATTATAAATTTT
2814 A
1 A
2815 GATATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTATAAATTTT
Found at i:3121 original size:3 final size:3
Alignment explanation
Indices: 3113--3148 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
3103 GATTTTAAAT
3113 TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
3149 GTATAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3383 original size:2 final size:2
Alignment explanation
Indices: 3378--3404 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3368 ATTTAAATTT
3378 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 T
3405 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3814 original size:30 final size:29
Alignment explanation
Indices: 3780--3874 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 29
3770 TAAAGACATC
3780 TTATTCTCTTAAAATTTATAAAAAATATAT
1 TTATTCTCTTAAAATTT-TAAAAAATATAT
* * * *
3810 TTATTCCCTTAACA-TTTAAAAAATACCCAC
1 TTATTCTCTTAAAATTTTAAAAAATA--TAT
* *
3840 TTAATCTCTTAAAATTTGGTCAAAAATATAT
1 TTATTCTCTTAAAATTT--TAAAAAATATAT
3871 TTAT
1 TTAT
3875 CTCCTAAGTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
28 9 0.18
29 2 0.04
30 24 0.49
31 6 0.12
33 8 0.16
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (29 bp):
TTATTCTCTTAAAATTTTAAAAAATATAT
Found at i:3987 original size:16 final size:15
Alignment explanation
Indices: 3958--3989 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3948 TTTTTTCATC
*
3958 ATTTTTACTCAAAAA
1 ATTTTTAATCAAAAA
3973 ATTTTTAATCAAAAA
1 ATTTTTAATCAAAAA
3988 AT
1 AT
3990 AATGAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTTAATCAAAAA
Found at i:11049 original size:12 final size:13
Alignment explanation
Indices: 11032--11060 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
11022 TACAGACAGG
11032 AAGTTA-CAAAGA
1 AAGTTACCAAAGA
11044 AAGTTACCAAAGA
1 AAGTTACCAAAGA
11057 AAGT
1 AAGT
11061 AAGCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (13 bp):
AAGTTACCAAAGA
Found at i:12491 original size:16 final size:17
Alignment explanation
Indices: 12472--12510 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
12462 GGTTATGGTT
12472 ATTTTGAAA-TTGAGTC
1 ATTTTGAAATTTGAGTC
12488 ATTTT-AAATTTGAGTC
1 ATTTTGAAATTTGAGTC
12504 ATTTTGA
1 ATTTTGA
12511 GGTTTAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 17 0.81
17 1 0.05
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (17 bp):
ATTTTGAAATTTGAGTC
Found at i:19172 original size:32 final size:33
Alignment explanation
Indices: 19113--19192 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
19103 ATGTCTTATG
* *
19113 TATTTTTATTTATTTAAATTTTAATATATTGATA
1 TATTTTTA-TTATATAAATTTTAATATATTCATA
*
19147 -ATTTTTATTATATAAATTTTGATATATTCATA
1 TATTTTTATTATATAAATTTTAATATATTCATA
*
19179 TATTTATATTATAT
1 TATTTTTATTATAT
19193 TAACATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
32 22 0.54
33 19 0.46
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (33 bp):
TATTTTTATTATATAAATTTTAATATATTCATA
Found at i:20364 original size:2 final size:2
Alignment explanation
Indices: 20353--20398 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
20343 AGTTTATTAG
20353 AT AT -T 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
20394 AT AT A
1 AT AT A
20399 AACATTCCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26483 original size:13 final size:13
Alignment explanation
Indices: 26465--26489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26455 TTTGAACTCA
26465 AATTAACTTAAAT
1 AATTAACTTAAAT
26478 AATTAACTTAAA
1 AATTAACTTAAA
26490 ATGTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAACTTAAAT
Found at i:29295 original size:20 final size:21
Alignment explanation
Indices: 29255--29295 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
29245 TGTTTGTATA
*
29255 TTCATGTCATACTCATCTTTT
1 TTCATGTCATACTCATATTTT
*
29276 TTCATGTCGTA-TCATATTTT
1 TTCATGTCATACTCATATTTT
29296 AATTATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.54
Consensus pattern (21 bp):
TTCATGTCATACTCATATTTT
Found at i:30831 original size:155 final size:154
Alignment explanation
Indices: 30684--31241 Score: 680
Period size: 154 Copynumber: 3.6 Consensus size: 154
30674 CTTTAGTCAT
*
30684 ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAATTCATATTAATTTAGT
1 ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAATTCATATTAAATTAGT
*
30749 TTTAAAAAATTAAATTTATTTTATGAGTTTTAAAATTTTTTCCTATTATCGAGATATGAAGTTTT
66 TTTAAAAAATTAAATTTATTTTATGAGTTTTAAAATTTTTTCCTATTATCAAGATAT-AAGTTTT
*
30814 CTACTCCATAAATTTCTTCAGTAGG
130 CTACTCCATAAATTTCTCCAGTAGG
* * *
30839 ATTTTTCTTAGTTTATAATTTTTAAAATTCTTCAAATATTATTGTTTAATTTATATTAAATTAGT
1 ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAATTCATATTAAATTAGT
* *
30904 TTTAAAAAATTCAATTTATTTTATGAGTTTTAAAA-TTTTTCCTATTATTAAGATACATAA-TTT
66 TTTAAAAAATTAAATTTATTTTATGAGTTTTAAAATTTTTTCCTATTATCAAGAT--ATAAGTTT
* *
30967 TCTATTCCATAAATTCCTCCAGTAGG
129 TCTACTCCATAAATTTCTCCAGTAGG
* * * * * ** *
30993 ATTTTTCTAATTTTATAATTTTCATAATTCTTCAACTATTATTATTTAACCCATATTAAATTTGT
1 ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAATTCATATTAAATTAGT
* * * * *
31058 TTTGAAAAATTAAATCTATTTTATGAGTTTTAGAATTTGTTT--GA-TACCAAGATATAGAGTTT
66 TTTAAAAAATTAAATTTATTTTATGAGTTTTAAAATTT-TTTCCTATTATCAAGATATA-AGTTT
* ** *
31120 TTTACTCCATAAATTTCTCTGGTTGG
129 TCTACTCCATAAATTTCTCCAGTAGG
* * * ** * *
31146 ATTTTTCTTAGTCTAAAATTTTTAAAATTGATGAAATATT-TTTATTAATTTCATATTAAATTAG
1 ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAA-TTCATATTAAATTAG
* *
31210 -TTTAGGAAAATTTAATTTATTTTATGAGTTTT
65 TTTTA-AAAAATTAAATTTATTTTATGAGTTTT
31242 GCATTTATAT
Statistics
Matches: 343, Mismatches: 52, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
151 3 0.01
152 10 0.03
153 96 0.28
154 130 0.38
155 99 0.29
156 5 0.01
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (154 bp):
ATTTTTCTAAGTTTATAATTTTTAAAATTCTTCAAATATTATTTTTTAATTCATATTAAATTAGT
TTTAAAAAATTAAATTTATTTTATGAGTTTTAAAATTTTTTCCTATTATCAAGATATAAGTTTTC
TACTCCATAAATTTCTCCAGTAGG
Found at i:31325 original size:3 final size:3
Alignment explanation
Indices: 31317--31351 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
31307 TTGTAAAGTT
31317 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
31352 GGATAATAGA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32229 original size:35 final size:36
Alignment explanation
Indices: 32171--32241 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
32161 TATGAAATTC
32171 ATAATGAAAAAAAACTTGCTTTAGTGTTGTATTTGT
1 ATAATGAAAAAAAACTTGCTTTAGTGTTGTATTTGT
*
32207 ATAATG-AAAAAAACTTGTTTTAGTGTTGTATTTGT
1 ATAATGAAAAAAAACTTGCTTTAGTGTTGTATTTGT
32242 TTGGCTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 28 0.82
36 6 0.18
ACGTcount: A:0.35, C:0.04, G:0.17, T:0.44
Consensus pattern (36 bp):
ATAATGAAAAAAAACTTGCTTTAGTGTTGTATTTGT
Found at i:37551 original size:25 final size:25
Alignment explanation
Indices: 37513--37562 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
37503 TGATAAGCCC
*
37513 TTTTGTATATATTTATTTG-TATTA
1 TTTTGTATAAATTTATTTGATATTA
*
37537 TTTTGTTATAAATTTCTTTGATATTA
1 TTTTG-TATAAATTTATTTGATATTA
37563 CATTAATGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 12 0.55
26 5 0.23
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.64
Consensus pattern (25 bp):
TTTTGTATAAATTTATTTGATATTA
Found at i:37898 original size:140 final size:140
Alignment explanation
Indices: 37664--37917 Score: 334
Period size: 140 Copynumber: 1.8 Consensus size: 140
37654 TAGTTGTTAG
* * * *
37664 TATTACTTTGTTATACCTTTTCATCGATATTGCATTAATTTCATCTTTGCAGTCATTTACGTATG
1 TATTACTTTGTTATAACTTTTCATCGACATTGCATTAATTTCATCTTTGCACTCATTTACATATG
* *
37729 AATACATACATGCATTCACTCATGTCATACAT-TTTTAGAAAGCCCTTGTTTCTAGATCTTTTGT
66 AATACATACATGCATTCACTCATGGCATACATATTTT-GAAAGACCTTGTTTCTAGATCTTTTGT
37793 ATGTTCGTTTA
130 ATGTTCGTTTA
* * * * *
37804 TATTA-TTTGTTATAACTTTTCTTTGGCATTGGATTAATTTCAT-TTTGCACTCATTTGCATATG
1 TATTACTTTGTTATAACTTTTCATCGACATTGCATTAATTTCATCTTTGCACTCATTTACATA--
* * *
37867 TGAATACATATATGCATTCATTCTTGGCATACATATTTTGAAAGACCTTGT
64 TGAATACATACATGCATTCACTCATGGCATACATATTTTGAAAGACCTTGT
37918 CTTAGAACCT
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 15 0.15
139 32 0.33
140 46 0.47
141 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (140 bp):
TATTACTTTGTTATAACTTTTCATCGACATTGCATTAATTTCATCTTTGCACTCATTTACATATG
AATACATACATGCATTCACTCATGGCATACATATTTTGAAAGACCTTGTTTCTAGATCTTTTGTA
TGTTCGTTTA
Found at i:50575 original size:80 final size:80
Alignment explanation
Indices: 50442--50771 Score: 405
Period size: 80 Copynumber: 4.1 Consensus size: 80
50432 TTGAAAATCA
* * *
50442 GGGTTGGAGTATCCCTTCAGAGATGGTGGTGTTGGTGTATCCTCAGAAATGAAGAATTCAATGTT
1 GGGTTGGAGTATCCCTTCAGAGATGGTGGTGTTGGAGTATCCCCAGAAATGAAGAATTCAACGTT
*
50507 TTGGAAGTAAAAATG
66 TTGGAAGTAAAAACG
* * *
50522 GGGTTGGATTATCCTTTCAGAGATGGTGGTGTTGGAGTATCCCCAGAAATGAAGAATTCAATGTT
1 GGGTTGGAGTATCCCTTCAGAGATGGTGGTGTTGGAGTATCCCCAGAAATGAAGAATTCAACGTT
50587 TTGGAAGTAAAAACG
66 TTGGAAGTAAAAACG
* * * *
50602 GGGTTGGAGTATCCCTTCGGAGAAT-GTGGGGTTGGAGTATCCCTAGAAATGAAAAATTCAACGT
1 GGGTTGGAGTATCCCTTCAGAG-ATGGTGGTGTTGGAGTATCCCCAGAAATGAAGAATTCAACGT
*
50666 TTTGAAAGTAAAAACG
65 TTTGGAAGTAAAAACG
* ** * * * * * *
50682 AGGTTAAAGTTTCTCTTCAAAGATGGTGAG-GTTGGAGTATCCCCAGCAATGAA-ACATTCGACA
1 GGGTTGGAGTATCCCTTCAGAGATGGTG-GTGTTGGAGTATCCCCAGAAATGAAGA-ATTCAACG
*
50745 TTTTGGAAGTAAAAATG
64 TTTTGGAAGTAAAAACG
*
50762 AGGTTGGAGT
1 GGGTTGGAGT
50772 CCTCATCGAA
Statistics
Matches: 218, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
79 3 0.01
80 212 0.97
81 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (80 bp):
GGGTTGGAGTATCCCTTCAGAGATGGTGGTGTTGGAGTATCCCCAGAAATGAAGAATTCAACGTT
TTGGAAGTAAAAACG
Found at i:53256 original size:32 final size:32
Alignment explanation
Indices: 53215--53290 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
53205 TACATTGAAG
* *
53215 AATGTATCGATATATTTGGGTCAAAAACTTAA
1 AATGTATCGATATATTTAGGTCAAAAACCTAA
53247 AATGTATCGATATATTTAGGTCAAAAACCTAA
1 AATGTATCGATATATTTAGGTCAAAAACCTAA
53279 AATGTATCGATA
1 AATGTATCGATA
53291 CAATGAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (32 bp):
AATGTATCGATATATTTAGGTCAAAAACCTAA
Found at i:53765 original size:21 final size:21
Alignment explanation
Indices: 53741--53823 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
53731 CTACAATAAA
* *
53741 AAATGTATTTTTTCATCTAAT
1 AAATGCATTTTTTCATCTAAC
*
53762 AAATGCATATTTTCATCTAAC
1 AAATGCATTTTTTCATCTAAC
53783 AAATGCATTTTTTCAT-TCAACC
1 AAATGCATTTTTTCATCT-AA-C
* *
53805 AATTG-ATCTTTTCATCTAA
1 AAATGCATTTTTTCATCTAA
53824 ATGTTTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 46 0.87
22 6 0.11
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.45
Consensus pattern (21 bp):
AAATGCATTTTTTCATCTAAC
Found at i:54577 original size:23 final size:23
Alignment explanation
Indices: 54548--54595 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
54538 GTGATTATAC
*
54548 TATATTTTATTAACTACCTTACA
1 TATATTTTATTAACTACCTAACA
54571 TATATTTTATTAACTACCTAACA
1 TATATTTTATTAACTACCTAACA
54594 TA
1 TA
54596 CTTATCTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.46
Consensus pattern (23 bp):
TATATTTTATTAACTACCTAACA
Found at i:58334 original size:41 final size:41
Alignment explanation
Indices: 58272--58354 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
58262 TAACAATAGA
* *
58272 TAGAAAAGTAATGAAAGGAGCTGGATCCTTTCAAACTTTGG
1 TAGAAAAGTAATGAAAAGAGCTAGATCCTTTCAAACTTTGG
58313 TAGAAAAGTAATGAAAAGAGCTAGATCCTTTCAAACTTTGG
1 TAGAAAAGTAATGAAAAGAGCTAGATCCTTTCAAACTTTGG
58354 T
1 T
58355 TTGGATTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.28
Consensus pattern (41 bp):
TAGAAAAGTAATGAAAAGAGCTAGATCCTTTCAAACTTTGG
Found at i:58552 original size:16 final size:16
Alignment explanation
Indices: 58508--58555 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
58498 ATCAAAAAAA
* *
58508 TACTTAAATTCAAAAT
1 TACTTAAAATCAAATT
*
58524 GA-TTAAAATTCAAATT
1 TACTTAAAA-TCAAATT
58540 TACTTAAAATCAAATT
1 TACTTAAAATCAAATT
58556 ACCTTGGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (16 bp):
TACTTAAAATCAAATT
Found at i:61868 original size:52 final size:52
Alignment explanation
Indices: 61790--61990 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
61780 CGAAATATGA
*
61790 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
*
61842 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
* *
61894 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
**
61946 AAATTTGCCTGCATGTATCGATACAAAG-ATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGTAT-AGTGTATCGATACA
61991 ATATATCGAT
Statistics
Matches: 141, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
51 2 0.01
52 139 0.99
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGTATAGTGTATCGATACATCTGGGC
Found at i:62189 original size:21 final size:21
Alignment explanation
Indices: 62148--62189 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62138 GTTGGGACCT
*
62148 TGTATCGATACATTTTAACAA
1 TGTATCGATACATTTGAACAA
*
62169 TGTATCGATACATTTGGACAA
1 TGTATCGATACATTTGAACAA
62190 AAATGTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTTGAACAA
Found at i:62855 original size:22 final size:22
Alignment explanation
Indices: 62827--62869 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62817 GACTATTGGA
62827 GGTAAGGTATCAATACCCTTAG
1 GGTAAGGTATCAATACCCTTAG
* *
62849 GGTAAGGTATCGATAGCCTTA
1 GGTAAGGTATCAATACCCTTA
62870 ATAGATTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (22 bp):
GGTAAGGTATCAATACCCTTAG
Found at i:63419 original size:11 final size:11
Alignment explanation
Indices: 63400--63431 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
63390 AATTAATTAA
*
63400 TTATATTACTT
1 TTATCTTACTT
63411 TTATCTTACTT
1 TTATCTTACTT
63422 TTATCTTACT
1 TTATCTTACT
63432 AGCTTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATCTTACTT
Found at i:63965 original size:2 final size:2
Alignment explanation
Indices: 63958--63989 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
63948 GAGATTGAAG
63958 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
63990 GTAAACAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:67903 original size:14 final size:14
Alignment explanation
Indices: 67884--67911 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67874 CTAAATTTGT
67884 ATTAAATAATAATG
1 ATTAAATAATAATG
67898 ATTAAATAATAATG
1 ATTAAATAATAATG
67912 GAGGGGAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
ATTAAATAATAATG
Found at i:68037 original size:277 final size:277
Alignment explanation
Indices: 67538--68045 Score: 901
Period size: 277 Copynumber: 1.8 Consensus size: 277
67528 ACTAATAATT
* * *
67538 ATTATTTACATGCGTAAAATTTATTTATAAATTATAAAAATTATGCTTGTGAATGCTAATTAAAT
1 ATTATTTACATGCGTAAAATTTATTTATAAATTATAAAAATTATGCTCGTAAATGCTAACTAAAT
67603 TTGTATTAAATAATAATGATTAAAAATTAATGGAGGGGAGCTAGTTCCTATTTGCTAAGCTTTAA
66 TTGTATTAAATAATAATGATTAAAAATTAATGGAGGGGAGCTAGTTCCTATTTGCTAAGCTTTAA
* *
67668 ATTTTTTATAATTTTATATATTTTTACTTATTAAAAATTAATTTTAAGTAAAATGATAAACTGTA
131 ATTTTTTATAATTTTATATATTTTTACTTATTAAAAATTAATTTTAAATAAAATGATAAACTATA
* *
67733 TAAAATATTAATGATGGTTGGATTGTTAAACCACTTCGAAGAGATGTTCTTTAACTACAATATAT
196 TAAAATATTAATAATGGTTGAATTGTTAAACCACTTCGAAGAGATGTTCTTTAACTACAATATAT
67798 ATAAATTATATATTATC
261 ATAAATTATATATTATC
* *
67815 ATTATTTATATGCGTAAAATTTATTTATAAATTATAAAAATTATGCTCGTAAATGTTAACTAAAT
1 ATTATTTACATGCGTAAAATTTATTTATAAATTATAAAAATTATGCTCGTAAATGCTAACTAAAT
67880 TTGTATTAAATAATAATGATTAAATAA-TAATGGAGGGGAGCTAGTTCCTATTTGCTAAGCTTTA
66 TTGTATTAAATAATAATGATTAAA-AATTAATGGAGGGGAGCTAGTTCCTATTTGCTAAGCTTTA
*
67944 AATTTTTTATAATTTTATATATTTTTACTTATTAAAAATTAATTTTAAATAAAATGATAAATTAT
130 AATTTTTTATAATTTTATATATTTTTACTTATTAAAAATTAATTTTAAATAAAATGATAAACTAT
*
68009 ATAAAATATTAATAATGGTTGAATTGTTAAATCACTT
195 ATAAAATATTAATAATGGTTGAATTGTTAAACCACTT
68046 TAATTACAAT
Statistics
Matches: 219, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
277 217 0.99
278 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (277 bp):
ATTATTTACATGCGTAAAATTTATTTATAAATTATAAAAATTATGCTCGTAAATGCTAACTAAAT
TTGTATTAAATAATAATGATTAAAAATTAATGGAGGGGAGCTAGTTCCTATTTGCTAAGCTTTAA
ATTTTTTATAATTTTATATATTTTTACTTATTAAAAATTAATTTTAAATAAAATGATAAACTATA
TAAAATATTAATAATGGTTGAATTGTTAAACCACTTCGAAGAGATGTTCTTTAACTACAATATAT
ATAAATTATATATTATC
Found at i:68183 original size:2 final size:2
Alignment explanation
Indices: 68176--68217 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
68166 TTGCTTACTT
68176 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
68218 ATAAGTTAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:72439 original size:27 final size:30
Alignment explanation
Indices: 72385--72439 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
72375 TCATCTAAAA
*
72385 TATTATTTAATTAATAAAATATTTTTTATG
1 TATTATTTAATTAATAAAATATTATTTATG
*
72415 TATT-TTTAATTTA-AAAATA-TATTTA
1 TATTATTTAATTAATAAAATATTATTTA
72440 AAATATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 6 0.26
29 8 0.35
30 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTATTTAATTAATAAAATATTATTTATG
Found at i:78471 original size:13 final size:13
Alignment explanation
Indices: 78453--78478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78443 CAATTTTTTG
78453 TGTATCGATACAT
1 TGTATCGATACAT
78466 TGTATCGATACAT
1 TGTATCGATACAT
78479 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:79226 original size:21 final size:21
Alignment explanation
Indices: 79185--79228 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
79175 CTCCCCTTTA
* *
79185 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
79206 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
79227 TC
1 TC
79229 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:81047 original size:13 final size:13
Alignment explanation
Indices: 81029--81067 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
81019 ATAATCACCC
81029 TGTATCGATACAA
1 TGTATCGATACAA
81042 TGTATCGATACAA
1 TGTATCGATACAA
81055 TGTATCGATACAA
1 TGTATCGATACAA
81068 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:83167 original size:15 final size:15
Alignment explanation
Indices: 83147--83177 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
83137 ATTTCGTTTG
*
83147 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
83162 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
83177 G
1 G
83178 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:84986 original size:21 final size:21
Alignment explanation
Indices: 84957--85001 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
84947 AAGTTTTCAT
*
84957 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
84977 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
84999 TTT
1 TTT
85002 CAACTTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:87237 original size:13 final size:13
Alignment explanation
Indices: 87219--87244 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87209 CAATTTTTTG
87219 TGTATCGATACAT
1 TGTATCGATACAT
87232 TGTATCGATACAT
1 TGTATCGATACAT
87245 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:88218 original size:13 final size:13
Alignment explanation
Indices: 88200--88225 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88190 TACACAAAGT
88200 ATGTATCGATACA
1 ATGTATCGATACA
88213 ATGTATCGATACA
1 ATGTATCGATACA
88226 CAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88243 original size:34 final size:32
Alignment explanation
Indices: 88182--88246 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
88172 TAGCCAAACT
**
88182 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
88214 TGTATCGATACACAAAAAAAATGTATCGATACA
1 TGTATCGATACAC--AAAAAATGTATCGATACA
88247 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:96841 original size:20 final size:20
Alignment explanation
Indices: 96816--96866 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
96806 ACCCTTAAAA
96816 GTATCGATACACAATT-CAAT
1 GTATCGATACA-AATTGCAAT
**
96836 GTATCGATACATGTTGCAAT
1 GTATCGATACAAATTGCAAT
96856 GTATCGATACA
1 GTATCGATACA
96867 TGAAAAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
GTATCGATACAAATTGCAAT
Found at i:96956 original size:13 final size:13
Alignment explanation
Indices: 96938--96963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96928 TACACAAAGT
96938 ATGTATCGATACA
1 ATGTATCGATACA
96951 ATGTATCGATACA
1 ATGTATCGATACA
96964 CAAAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:96981 original size:34 final size:32
Alignment explanation
Indices: 96920--96984 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
96910 TAGCCAAACT
**
96920 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
96952 TGTATCGATACACAAAAAAAATGTATCGATACA
1 TGTATCGATACAC--AAAAAATGTATCGATACA
96985 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
34 16 0.55
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:98668 original size:19 final size:19
Alignment explanation
Indices: 98644--98682 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
98634 TAGCTACAAT
98644 TGTGACTTTCAGCAAAATG
1 TGTGACTTTCAGCAAAATG
98663 TGTGACTTTCAGCAAAATG
1 TGTGACTTTCAGCAAAATG
98682 T
1 T
98683 ATTGATGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TGTGACTTTCAGCAAAATG
Found at i:100769 original size:24 final size:24
Alignment explanation
Indices: 100737--100791 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
100727 TTTGCACATG
100737 CTGCCAATGCTAAGACAAATCTAA
1 CTGCCAATGCTAAGACAAATCTAA
*
100761 CTGCTAATGCTAAGACAAATCTAA
1 CTGCCAATGCTAAGACAAATCTAA
*
100785 CTTCCAA
1 CTGCCAA
100792 AAATTAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (24 bp):
CTGCCAATGCTAAGACAAATCTAA
Found at i:102645 original size:27 final size:27
Alignment explanation
Indices: 102588--102645 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
102578 TGCAAAGAAC
** *
102588 TTTTAATATAGAACATTTAATTTAACC
1 TTTTAATATAGAACATTTAATCAAACA
*
102615 TTTTATATATAGAACA-TTGATCAAACA
1 TTTTA-ATATAGAACATTTAATCAAACA
102642 TTTT
1 TTTT
102646 CCTATAGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (27 bp):
TTTTAATATAGAACATTTAATCAAACA
Found at i:102848 original size:28 final size:28
Alignment explanation
Indices: 102811--102882 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
102801 CTTTCCACCC
*
102811 ATGGAATTTTTAATTAAAT-TCTCATAT
1 ATGGAATTTTTAATTAAATCTCTCACAT
*
102838 ATGGAATTTTTAATTAAATCTTTCACAT
1 ATGGAATTTTTAATTAAATCTCTCACAT
102866 AT-GAATTTTTTAATTAA
1 ATGGAA-TTTTTAATTAA
102883 GATTTTACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (28 bp):
ATGGAATTTTTAATTAAATCTCTCACAT
Found at i:102892 original size:27 final size:26
Alignment explanation
Indices: 102811--102892 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
102801 CTTTCCACCC
* *
102811 ATGGAATTTTTAATTAAATTCTCATAT
1 ATGGAATTTTTAATTAAATT-TTACAT
102838 ATGGAATTTTTAATTAAATCTTTCACAT
1 ATGGAATTTTTAATTAAAT-TTT-ACAT
102866 AT-GAATTTTTTAATTAAGATTTTACAT
1 ATGGAA-TTTTTAATTAA-ATTTTACAT
102893 GTTGAAAATA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
27 27 0.55
28 20 0.41
29 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (26 bp):
ATGGAATTTTTAATTAAATTTTACAT
Found at i:102898 original size:28 final size:28
Alignment explanation
Indices: 102817--102882 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
102807 ACCCATGGAA
* *
102817 TTTTTAATTAAAT-TCTCATATATGGAA-
1 TTTTTAATTAAATCTTTCACATAT-GAAT
102844 TTTTTAATTAAATCTTTCACATATGAAT
1 TTTTTAATTAAATCTTTCACATATGAAT
102872 TTTTTAATTAA
1 TTTTTAATTAA
102883 GATTTTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 16 0.46
28 19 0.54
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (28 bp):
TTTTTAATTAAATCTTTCACATATGAAT
Found at i:103506 original size:13 final size:12
Alignment explanation
Indices: 103488--103554 Score: 57
Period size: 12 Copynumber: 5.5 Consensus size: 12
103478 TTTTATTAGA
103488 AAAAAATTAAAAG
1 AAAAAA-TAAAAG
103501 AAAAAA-AAAAG
1 AAAAAATAAAAG
*
103512 AGAAAAATGAAAG
1 A-AAAAATAAAAG
*
103525 AAAAAGAGAAAA-
1 AAAAA-ATAAAAG
**
103537 AAAAAGGAAAAG
1 AAAAAATAAAAG
103549 AAAAAA
1 AAAAAA
103555 AACTCTTTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
11 11 0.24
12 19 0.42
13 15 0.33
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (12 bp):
AAAAAATAAAAG
Found at i:103518 original size:19 final size:19
Alignment explanation
Indices: 103496--103554 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
103486 GAAAAAAATT
*
103496 AAAAGAAAAAAAAAAGAGA
1 AAAAGAAAAGAAAAAGAGA
103515 AAAATG-AAAGAAAAAGAGA
1 AAAA-GAAAAGAAAAAGAGA
*
103534 AAAA-AAAAGGAAAAGA-A
1 AAAAGAAAAGAAAAAGAGA
103551 AAAA
1 AAAA
103555 AACTCTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 20 0.56
20 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAGAGA
Found at i:104163 original size:27 final size:28
Alignment explanation
Indices: 104109--104163 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
104099 TCTTTTATTA
* *
104109 CTATTATTGCTATTTAAATTCTTTTTAT
1 CTATTATTCCTATTTAAATTCTTGTTAT
104137 CTATT-TTCCTATTTAAATAT-TTGTTAT
1 CTATTATTCCTATTTAAAT-TCTTGTTAT
104164 TTAGTTTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.60
Consensus pattern (28 bp):
CTATTATTCCTATTTAAATTCTTGTTAT
Found at i:105517 original size:18 final size:18
Alignment explanation
Indices: 105494--105529 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105484 AGCCTTCTAA
*
105494 GTGTTAGGTTTTTAATAG
1 GTGTTACGTTTTTAATAG
105512 GTGTTACGTTTTTAATAG
1 GTGTTACGTTTTTAATAG
105530 TAATCCTTAT
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:0.22, C:0.03, G:0.25, T:0.50
Consensus pattern (18 bp):
GTGTTACGTTTTTAATAG
Found at i:107637 original size:13 final size:13
Alignment explanation
Indices: 107619--107645 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
107609 ACATTATGCT
107619 TTGTATCGATACA
1 TTGTATCGATACA
107632 TTGTATCGATACA
1 TTGTATCGATACA
107645 T
1 T
107646 GATCATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:107642 original size:33 final size:32
Alignment explanation
Indices: 107600--107663 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
107590 CACACCCAGA
* * *
107600 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTATATCGATACAT
107633 TGTATCGATACATGATCATTATATCGATACA
1 TGTATCGATACATGATCATTATATCGATACA
107664 GGGACAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATGATCATTATATCGATACAT
Found at i:107657 original size:19 final size:18
Alignment explanation
Indices: 107629--107686 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
107619 TTGTATCGAT
107629 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
* *
107647 ATCATTATATCGATACAGGG
1 A-CATTGTATCGATACA-TG
107667 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
107686 A
1 A
107687 AACTGGCAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:112041 original size:201 final size:201
Alignment explanation
Indices: 111685--112084 Score: 764
Period size: 201 Copynumber: 2.0 Consensus size: 201
111675 ATTCTAAAGC
111685 TTATCAAGTGCTTAACAAAAGAACTTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTGATGATT
1 TTATCAAGTGCTTAACAAAAGAACTTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTGATGATT
111750 CTAACTCCTCCGAAAGGAAGGTATCTTTTGTTGATAATGATGTAGAAATTTATGAAGAAAATTTA
66 CTAACTCCTCCGAAAGGAAGGTATCTTTTGTTGATAATGATGTAGAAATTTATGAAGAAAATTTA
*
111815 GAACAAGCATCACACAAGGAGCAAGATGAAAGTTTCCAAAATGAAGAAACTCCAAAAGAAGTTGA
131 GAACAAGCATCACACAAGGAGCAAGATGAAAGTATCCAAAATGAAGAAACTCCAAAAGAAGTTGA
111880 TGAAGT
196 TGAAGT
* *
111886 TTATCGAGTGTTTAACAAAAGAACTTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTGATGATT
1 TTATCAAGTGCTTAACAAAAGAACTTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTGATGATT
*
111951 TTAACTCCTCCGAAAGGAAGGTATCTTTTGTTGATAATGATGTAGAAATTTATGAAGAAAATTTA
66 CTAACTCCTCCGAAAGGAAGGTATCTTTTGTTGATAATGATGTAGAAATTTATGAAGAAAATTTA
112016 GAACAAGCATCACACAAGGAGCAAGATGAAAGTATCCAAAATGAAGAAACTCCAAAAGAAGTTGA
131 GAACAAGCATCACACAAGGAGCAAGATGAAAGTATCCAAAATGAAGAAACTCCAAAAGAAGTTGA
112081 TGAA
196 TGAA
112085 CAAAAGCCAA
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
201 195 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (201 bp):
TTATCAAGTGCTTAACAAAAGAACTTTAGTTGTTGAAGAATCAATCCATGTTGTTTTTGATGATT
CTAACTCCTCCGAAAGGAAGGTATCTTTTGTTGATAATGATGTAGAAATTTATGAAGAAAATTTA
GAACAAGCATCACACAAGGAGCAAGATGAAAGTATCCAAAATGAAGAAACTCCAAAAGAAGTTGA
TGAAGT
Found at i:116099 original size:24 final size:24
Alignment explanation
Indices: 116037--116102 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
116027 TGCTATAACA
116037 AAAAGGGGGAGAAATATTGCTTTG
1 AAAAGGGGGAGAAATATTGCTTTG
***** * *
116061 AAAAATAAAATAAATTTTGCTTTG
1 AAAAGGGGGAGAAATATTGCTTTG
116085 AAAAGGGGGAGAAATATT
1 AAAAGGGGGAGAAATATT
116103 TTTATCTAGG
Statistics
Matches: 28, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.03, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGGGAGAAATATTGCTTTG
Found at i:116737 original size:20 final size:20
Alignment explanation
Indices: 116714--116785 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
116704 CACACCTAGA
*
116714 TGTATCGATACATT-ATGCTT
1 TGTATCGATACATTGAT-CAT
116734 TGTATCGATAC-TTGATCAT
1 TGTATCGATACATTGATCAT
* *
116753 TGTATTGATACATGGA-CAAT
1 TGTATCGATACATTGATC-AT
116773 TGTATCGATACAT
1 TGTATCGATACAT
116786 GAAACTGGCA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTGATCAT
Found at i:116849 original size:13 final size:13
Alignment explanation
Indices: 116831--116883 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
116821 CGATACATGG
116831 TACATTGTATCGA
1 TACATTGTATCGA
*
116844 TACATTATATCGA
1 TACATTGTATCGA
116857 TACA-TG-AT-G-
1 TACATTGTATCGA
116866 -A-ATTGTATCGA
1 TACATTGTATCGA
116877 TACATTG
1 TACATTG
116884 CTTGTAACGG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 2 0.06
13 20 0.62
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:116860 original size:33 final size:33
Alignment explanation
Indices: 116818--116882 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
116808 CCACAGTTTG
*
116818 TATCGATACATGGT-ACATTGTATCGATACATTA
1 TATCGATACATGATGA-ATTGTATCGATACATTA
116851 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAATTGTATCGATACATT
116883 GCTTGTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (33 bp):
TATCGATACATGATGAATTGTATCGATACATTA
Found at i:116968 original size:72 final size:72
Alignment explanation
Indices: 116851--117025 Score: 332
Period size: 72 Copynumber: 2.4 Consensus size: 72
116841 CGATACATTA
* *
116851 TATCGATACATGATGAATTGTATCGATACATTGCTTGTAACGGCTATAAATGGCTATAATTTCAA
1 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
116916 ATCAATG
66 ATCAATG
116923 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
1 TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
116988 ATCAATG
66 ATCAATG
116995 TATCGATACATTATGAATTGTATCGATACAT
1 TATCGATACATTATGAATTGTATCGATACAT
117026 GGCTATGGGA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 101 1.00
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (72 bp):
TATCGATACATTATGAATTGTATCGATACATTACTTGTAACGGCTATAAATGGCTATAATTTCAA
ATCAATG
Found at i:122439 original size:19 final size:19
Alignment explanation
Indices: 122394--122439 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
122384 TCTTTATAAG
122394 AAAAG-AAAAAACAAAACA
1 AAAAGTAAAAAACAAAACA
* *
122412 AAAAATAAAAAAGAAAA-A
1 AAAAGTAAAAAACAAAACA
122430 AGAAAGTAAA
1 A-AAAGTAAA
122440 GGATGTGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.83, C:0.04, G:0.09, T:0.04
Consensus pattern (19 bp):
AAAAGTAAAAAACAAAACA
Found at i:122693 original size:22 final size:22
Alignment explanation
Indices: 122668--122713 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
122658 AAGCAAGCAT
122668 ATGGTAAGATTACTTTCATAAG
1 ATGGTAAGATTACTTTCATAAG
122690 ATGGTAAGATTACTTTCATAAG
1 ATGGTAAGATTACTTTCATAAG
122712 AT
1 AT
122714 TGATTGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGGTAAGATTACTTTCATAAG
Found at i:128643 original size:13 final size:13
Alignment explanation
Indices: 128625--128649 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128615 CATTTTATGG
128625 TGTATCGATACAA
1 TGTATCGATACAA
128638 TGTATCGATACA
1 TGTATCGATACA
128650 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:128665 original size:32 final size:33
Alignment explanation
Indices: 128602--128669 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
128592 CGTTACAAGC
**
128602 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
128635 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
128667 CAA
1 CAA
128670 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:128765 original size:20 final size:20
Alignment explanation
Indices: 128723--128772 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
128713 TCTTTTTCAA
*
128723 GTATCGATACAATGCAACAT
1 GTATCGATACAATGAAACAT
* **
128743 GTATCGATACAATTAAATGT
1 GTATCGATACAATGAAACAT
128763 GTATCGATAC
1 GTATCGATAC
128773 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACAATGAAACAT
Found at i:131047 original size:20 final size:21
Alignment explanation
Indices: 131018--131058 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
131008 TGTTTTTGAA
131018 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
131037 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
131059 AAGAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:131208 original size:13 final size:13
Alignment explanation
Indices: 131192--131228 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
131182 AATCCCCCTA
*
131192 TATCGATACAGTG
1 TATCGATACAATG
131205 TATCGATACAATG
1 TATCGATACAATG
131218 TATCGATACAA
1 TATCGATACAA
131229 AGAATGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:137037 original size:13 final size:13
Alignment explanation
Indices: 137019--137043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
137009 CATTTTATGG
137019 TGTATCGATACAA
1 TGTATCGATACAA
137032 TGTATCGATACA
1 TGTATCGATACA
137044 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:137059 original size:32 final size:33
Alignment explanation
Indices: 136996--137063 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
136986 CGTTACAAGC
**
136996 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
137029 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
137061 CAA
1 CAA
137064 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:146704 original size:52 final size:52
Alignment explanation
Indices: 146619--146743 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
146609 ATATGAAAAG
* *
146619 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
146671 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
146723 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
146744 AAGATCAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:146754 original size:52 final size:52
Alignment explanation
Indices: 146619--146763 Score: 204
Period size: 52 Copynumber: 2.8 Consensus size: 52
146609 ATATGAAAAG
* * *
146619 TTGCTTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAAT
***
146671 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
146723 TTGCCTGCATGTATCGATACA-AAGATCAATGTATCGATACA
1 TTGCCTGCATGTATCGATACATAAGAT-AATGTATCGATACA
146764 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 4 0.05
52 81 0.95
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAAT
Found at i:146767 original size:13 final size:13
Alignment explanation
Indices: 146749--146776 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
146739 ATACAAAGAT
146749 CAATGTATCGATA
1 CAATGTATCGATA
146762 CAATGTATCGATA
1 CAATGTATCGATA
146775 CA
1 CA
146777 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:146874 original size:33 final size:33
Alignment explanation
Indices: 146817--146883 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
146807 AGTAGCTTAA
*
146817 ATTGTATCGATACAAAAAAATATGTATTGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
146850 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
146883 A
1 A
146884 AATCGTTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:158634 original size:20 final size:20
Alignment explanation
Indices: 158611--158677 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
158601 GAATGTATTG
158611 ATACAATAAATAATGTATCA
1 ATACAATAAATAATGTATCA
* * *
158631 ATACAATTGTAAGT-ATTTATCG
1 ATACAA---TAAATAATGTATCA
* *
158653 ATACATTTAATAATGTATCA
1 ATACAATAAATAATGTATCA
158673 ATACA
1 ATACA
158678 TTTCTTTGGT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
19 3 0.09
20 17 0.49
22 11 0.31
23 4 0.11
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.36
Consensus pattern (20 bp):
ATACAATAAATAATGTATCA
Found at i:158678 original size:20 final size:20
Alignment explanation
Indices: 158619--158680 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
158609 TGATACAATA
158619 AATAATGTATCAATACAATTGT
1 AATAATGTATCAATAC-ATT-T
* *
158641 AAGT-ATTTATCGATACATTT
1 AA-TAATGTATCAATACATTT
158661 AATAATGTATCAATACATTT
1 AATAATGTATCAATACATTT
158681 CTTTGGTAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.03
20 17 0.50
21 3 0.09
22 12 0.35
23 1 0.03
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (20 bp):
AATAATGTATCAATACATTT
Found at i:160891 original size:2 final size:2
Alignment explanation
Indices: 160884--160914 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
160874 GGTTTTCAAA
*
160884 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
160915 AATAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:163243 original size:103 final size:103
Alignment explanation
Indices: 163020--163505 Score: 509
Period size: 103 Copynumber: 4.7 Consensus size: 103
163010 TGATAGAAGT
* * * * * *
163020 GCCAATATGCTGATTCAAGGCCAACGATATT-GAGTTTAAAGATGACAAAA-GTGCTAATGTGCT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGA-CTT-AAGA-AAAAAAAGGTGCCAATGTGCT
* * * * *
163083 GATTTAAGACCA-ACGACATTGGATTCGAAA-ATGAG-AAAGGC
63 GATTCAAGGCTAGA-GACATTGGACTC-AAAGATG-GCCAAGGC
* * * * *
163124 ACTAATATACTGATTCAAGGCCAACGATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
* * *
163189 TCAAGGCTAGAGGCATTGGACTTAAAGATGGCCAAGGT
66 TCAAGGCTAGAGACATTGGACTCAAAGATGGCCAAGGC
* * * *
163227 GCCAATATGCTAATTCAAGGCTAGCGATATTAGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
163292 TCAAGGCTAGCA-ACATTGGACTCAAAGATGGCCAAGGC
66 TCAAGGCTAG-AGACATTGGACTCAAAGATGGCCAAGGC
* * * * *
163330 ACCAATATGCTGATTCAAGGCTAGTAATTTTGGACTTAAGAAAGAAAAAGGTGCCAATGTTCTGA
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAA-AAAAAGGTGCCAATGTGCTGA
* * *
163395 TTTAAGGCCA-ACGACATTGAACTCAAAGATGGCCAAGGC
65 TTCAAGGCTAGA-GACATTGGACTCAAAGATGGCCAAGGC
* * * * * *
163434 GCTAATATGTTGATTCAAGGCCAGCAATACTGAACTTAAGAAAAAAAAAGTGCCAATGTGCTAAT
1 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
163499 TCAAGGC
66 TCAAGGC
163506 CAACGACATT
Statistics
Matches: 326, Mismatches: 47, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
102 10 0.03
103 194 0.60
104 120 0.37
105 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (103 bp):
GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGAT
TCAAGGCTAGAGACATTGGACTCAAAGATGGCCAAGGC
Found at i:163246 original size:52 final size:52
Alignment explanation
Indices: 163170--163454 Score: 229
Period size: 52 Copynumber: 5.5 Consensus size: 52
163160 TAAGAAAAAA
* *
163170 AAGGTGCCAATGTGCTGATTCAAGGCTAGAGGCATTGGACTTAAAGATGGCC
1 AAGGTGCCAATATGCTGATTCAAGGCTAGAGACATTGGACTTAAAGATGGCC
* * * * *****
163222 AAGGTGCCAATATGCTAATTCAAGGCTAGCGATATTAGACTT-AAGAAAAAA
1 AAGGTGCCAATATGCTGATTCAAGGCTAGAGACATTGGACTTAAAGATGGCC
* *
163273 AAGGTGCCAATGTGCTGATTCAAGGCTAGCA-ACATTGGACTCAAAGATGGCC
1 AAGGTGCCAATATGCTGATTCAAGGCTAG-AGACATTGGACTTAAAGATGGCC
** ** * ***
163325 AAGGCACCAATATGCTGATTCAAGGCTAGTA-ATTTTGGACTT-AAGAAAGAAA
1 AAGGTGCCAATATGCTGATTCAAGGCTAG-AGACATTGGACTTAAAG-ATGGCC
* * * * * *
163377 AAGGTGCCAATGTTCTGATTTAAGGCCA-ACGACATTGAACTCAAAGATGGCC
1 AAGGTGCCAATATGCTGATTCAAGGCTAGA-GACATTGGACTTAAAGATGGCC
* * *
163429 AAGGCGCTAATATGTTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGC
163455 CAGCAATACT
Statistics
Matches: 174, Mismatches: 53, Indels: 12
0.73 0.22 0.05
Matches are distributed among these distances:
50 1 0.01
51 42 0.24
52 128 0.74
53 3 0.02
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
AAGGTGCCAATATGCTGATTCAAGGCTAGAGACATTGGACTTAAAGATGGCC
Found at i:163426 original size:207 final size:204
Alignment explanation
Indices: 163018--163520 Score: 571
Period size: 207 Copynumber: 2.4 Consensus size: 204
163008 AATGATAGAA
* * * * *
163018 GTGCCAATATGCTGATTCAAGGCCAACGATATTGAGTTTAAAGATGACAAAAGTGCTAATGTGCT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGA-CTT-AAGA-AAAAAAAGTGCCAATGTGCT
* * * * *
163083 GATTTAAGACCAACGACATTGGATTCGAAAATGAGAAAGGCACTAATATACTGATTCAAGGCCAA
63 GATTCAAGGCCAACAACATTGGACTCGAAAATGAGAAAGGCACCAATATACTGATTCAAGGCCAA
* * * * *
163148 CGATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGATTCAAGGCTAGAGGCATTGGACTTA
128 CAATATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGAACTCA
163213 AAGATGGCCAAG
193 AAGATGGCCAAG
* *
163225 GTGCCAATATGCTAATTCAAGGCTAGCGATATTAGACTTAAGAAAAAAAAGGTGCCAATGTGCTG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATT-GACTTAAGAAAAAAAA-GTGCCAATGTGCTG
* * * * *
163290 ATTCAAGGCTAGCAACATTGGACTC-AAAGATG-GCCAAGGCACCAATATGCTGATTCAAGGCTA
64 ATTCAAGGCCAACAACATTGGACTCGAAA-ATGAG-AAAGGCACCAATATACTGATTCAAGGCCA
** * * *
163353 GTAATTTTGGACTTAAGAAAGAAAAAGGTGCCAATGTTCTGATTTAAGGCCA-ACGACATTGAAC
127 ACAATATTGGACTTAAGAAA-AAAAAGGTGCCAATGTGCTGATTCAAGGCCAGA-GACATTGAAC
163417 TCAAAGATGGCCAAG
190 TCAAAGATGGCCAAG
* * * * * *
163432 GCGCTAATATGTTGATTCAAGGCCAGCAATACTGAACTTAAGAAAAAAAAAGTGCCAATGTGCTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTG-ACTTAAG-AAAAAAAAGTGCCAATGTGCTG
* *
163497 ATTCAAGGCCAACGACATTAGACT
64 ATTCAAGGCCAACAACATTGGACT
163521 TAAAAAGAGA
Statistics
Matches: 249, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
205 9 0.04
206 82 0.33
207 148 0.59
208 10 0.04
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.23
Consensus pattern (204 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGACTTAAGAAAAAAAAGTGCCAATGTGCTGAT
TCAAGGCCAACAACATTGGACTCGAAAATGAGAAAGGCACCAATATACTGATTCAAGGCCAACAA
TATTGGACTTAAGAAAAAAAAGGTGCCAATGTGCTGATTCAAGGCCAGAGACATTGAACTCAAAG
ATGGCCAAG
Found at i:163725 original size:60 final size:61
Alignment explanation
Indices: 163659--163863 Score: 193
Period size: 60 Copynumber: 3.3 Consensus size: 61
163649 AAGGAAGAAG
* *
163659 GTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGG-GTTGTAGACTTTGAAAAGAAAAAT
1 GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATAGACTTTGAAAAGAAAAAT
* * * *
163719 GTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAA
1 GTGCCACAGAGTTGTGGACTT-------AAAAAGGTGACACGGAGTTATAGACTTTGAAAAGAAA
163784 AAT
59 AAT
* * * * *
163787 GTGCCACGGAGTTGTGAACTT-AAAAGGTGTCATGGAGTTATAGAC-TT-AAAAGGAAAAAAG
1 GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATAGACTTTGAAAA-G-AAAAAT
*
163847 GTGCCACACAGTTGTGG
1 GTGCCACAGAGTTGTGG
163864 GCTTTGAAAA
Statistics
Matches: 117, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
58 4 0.03
59 3 0.03
60 58 0.50
67 14 0.12
68 38 0.32
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (61 bp):
GTGCCACAGAGTTGTGGACTTAAAAAGGTGACACGGAGTTATAGACTTTGAAAAGAAAAAT
Found at i:163751 original size:34 final size:34
Alignment explanation
Indices: 163680--164844 Score: 357
Period size: 34 Copynumber: 36.0 Consensus size: 34
163670 TTGTGGACTT
* * *
163680 AAAAAGGTGCCAC-GGGTTGTAGACTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
*
163713 AAAAATGTGCCACAGAGTTATGGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * *
163747 AAAAAGGTGACACGGAGTCATGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* * * *
163781 AAAAATGTGCCACGGAGTTGTGAACTT-------
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* ** *
163808 -AAAAGGTGTCATGGAGTTATAGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * *
163841 AAAAAGGTGCCACACAGTTGTGGGCTTTGAAAA-GA
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* * *
163876 AAAAA-ATGCCACGGAGTTATGGACTTAAAACGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * *
163909 AAAAGGGTGTCACAGAGTCATGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
*
163943 AAAAAGGTGCTACAGAGTTATGGACTTAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * * *
163975 -----GGTACCAC-GAATTCGTGGACTTTGAAATG-
1 AAAAAGGTGCCACAGAGTT-ATGGAC-TTAAAAGGA
164004 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * *
164038 AAAAAGGTGCCACAAAGTTGTGGGCTTAAAAGG-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* *
164071 AAAAAGGATGCCACAAAGTTATGGGCTTAAAAGGA
1 AAAAAGG-TGCCACAGAGTTATGGACTTAAAAGGA
** *
164106 AAAAAGGTGCCACAGAGTCGTGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* * * * * *
164140 AAAAAGAGTACCACGGAGTCATGGGCTTCGAAGGGA
1 AAAAAG-GTGCCACAGAGTTATGGACTT-AAAAGGA
* * ** *
164176 AAAAATGTGCTATGGAGTTGTGGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * * *
164210 AAAATGATGCCACAAAGTTGTGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* ** * *
164244 AAAAAGGTGCTAGTGAGTTGTGGACTT-AAATG-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
** *
164276 -----GGTGCTGC-GCAGTTGTAGG-CTTAAAAGGA
1 AAAAAGGTGCCACAG-AGTTAT-GGACTTAAAAGGA
* * *
164305 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGG-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * *
164338 AAAAAGGATGTCACGGAGTTGT-GAGCTTTGAAAA-GA
1 AAAAAGG-TGCCACAGAGTTATGGA-C-TT-AAAAGGA
* * *
164374 AAAAAAGTGTCACGGAGTTGA-GGACTTAAAA-G-
1 AAAAAGGTGCCACAGAGTT-ATGGACTTAAAAGGA
* * * * *
164406 -----GGTGTCATAAAGTTGTGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* *
164435 AAAAAGGTGCCAC-GAAATTGTGGACTTAAAA-G-
1 AAAAAGGTGCCACAG-AGTTATGGACTTAAAAGGA
* *
164467 -----GGTGCCATAGAGTTGTGGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * *
164496 AAAAAGGTGTCACGGAGTTATGGACTTAAAAAGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * **
164530 AAAAGGGTGCCATAGAGTTGCGGACTTAAAA--A
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * ** *
164562 GAAAAGTTACCATGGAGTTGTGGACTTAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * *
164594 ---AA--TGTCACGGAGTTGTAGACTTAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
*
164621 -----GGTGCCACAGAATTATGGACTTAAAAGGA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * *
164650 AAAATGGTGCCACAGAGTTATGAACTT----TG-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * *
164679 --AAGGGT-TCACAGAGTTGTGGACTAAAAAGGAA
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGG-A
* *
164711 AAAAAGGTGCCACGGAGTTATGGGCTTTGAAAA-G-
1 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGA
* * *
164745 AAAAAGGTGCCACGGAATTTTGGACTTAAAAGG-
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
* * * * ** *
164778 AAAAAGGTTGCCACGGAATTGTGGGCTT-TGAGAA
1 AAAAAGG-TGCCACAGAGTTATGGACTTAAAAGGA
164812 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTATGGACTTAAAAGG
164845 GTGCCACAGA
Statistics
Matches: 861, Mismatches: 172, Indels: 197
0.70 0.14 0.16
Matches are distributed among these distances:
26 39 0.05
27 106 0.12
28 16 0.02
29 8 0.01
30 2 0.00
31 3 0.00
32 49 0.06
33 87 0.10
34 415 0.48
35 93 0.11
36 39 0.05
37 4 0.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTATGGACTTAAAAGGA
Found at i:163833 original size:94 final size:94
Alignment explanation
Indices: 163727--163905 Score: 268
Period size: 94 Copynumber: 1.9 Consensus size: 94
163717 ATGTGCCACA
* ** **
163727 GAGTTATGGACTTAAAAGGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAAAATGTGCC
1 GAGTTATAGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
*
163792 ACGGAGTTGTGAACTTAAAAGGTGTCATG
66 ACGGAGTTATGAACTTAAAAGGTGTCATG
* **
163821 GAGTTATAGACTTAAAAGGAAAAAAGGTGCCACACAGTTGTGGGCTTTGAAAAGAAAAAAATGCC
1 GAGTTATAGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
*
163886 ACGGAGTTATGGACTTAAAA
66 ACGGAGTTATGAACTTAAAA
163906 CGAAAAAGGG
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.22
Consensus pattern (94 bp):
GAGTTATAGACTTAAAAGGAAAAAAGGTGACACACAGTCATGGGCTTTGAAAAGAAAAAAATGCC
ACGGAGTTATGAACTTAAAAGGTGTCATG
Found at i:163889 original size:128 final size:129
Alignment explanation
Indices: 163638--163926 Score: 299
Period size: 128 Copynumber: 2.3 Consensus size: 129
163628 CCGACTTGTG
* * * *
163638 TGGGCTTTGAGAAGGAAGAAGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACGGGTTGTAGA
1 TGGGCTTTGAGAAAGAAAAAGGTGCCACAGAGTTGTGAACTTAAAAAGGTGCCACGGGTTATAGA
* * *
163703 CTTTGAAAAGAAAAATGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGACACGGAGTCA
66 CTTTGAAAAGAAAAAGGTGCCACACAGTTATGGACTTAAAAGGAAAAAAGATGACACGGAGTCA
* * * *
163767 TGGGCTTTGA-AAAGAAAAATGTGCCACGGAGTTGTGAACTT-AAAAGGTGTCATGGAGTTATAG
1 TGGGCTTTGAGAAAGAAAAAGGTGCCACAGAGTTGTGAACTTAAAAAGGTGCCACGG-GTTATAG
* * *
163830 AC-TT-AAAAGGAAAAAAGGTGCCACACAGTTGTGGGCTTTGAAAA-GAAAAAA-ATGCCACGGA
65 ACTTTGAAAA-G-AAAAAGGTGCCACACAGTTATGGAC-TT-AAAAGGAAAAAAGATGACACGGA
*
163891 GTTA
126 GTCA
* *
163895 TGGAC-TT-A-AAACGAAAAAGGGTGTCACAGAGT
1 TGGGCTTTGAGAAA-GAAAAA-GGTGCCACAGAGT
163927 CATGGGCTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
126 8 0.06
127 23 0.17
128 80 0.60
129 19 0.14
130 4 0.03
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (129 bp):
TGGGCTTTGAGAAAGAAAAAGGTGCCACAGAGTTGTGAACTTAAAAAGGTGCCACGGGTTATAGA
CTTTGAAAAGAAAAAGGTGCCACACAGTTATGGACTTAAAAGGAAAAAAGATGACACGGAGTCA
Found at i:164023 original size:129 final size:129
Alignment explanation
Indices: 163860--164104 Score: 332
Period size: 129 Copynumber: 1.9 Consensus size: 129
163850 CCACACAGTT
* * * * *
163860 GTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATGGACTTAAAACGAAAAAGGGTGTCACAGA
1 GTGGACTTTGAAAAGAAAAAAATGCCACAGAGTTATGGACTTAAAACGAAAAAAGGTGCCACAAA
* *
163925 GTCATGGGCTTTGAAAA-GAAAAAGG-TGCTACAGAGTTATGGACTTAAAAGGGTACCACGAATT
66 GTCATGGGC-TT-AAAAGGAAAAAGGATGCCACAAAGTTATGGACTTAAAAGGGTACCACGAATT
163988 C
129 C
* ** *
163989 GTGGACTTTGAAATGAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCACAAA
1 GTGGACTTTGAAAAGAAAAAAATGCCACAGAGTTATGGACTTAAAACGAAAAAAGGTGCCACAAA
** *
164054 GTTGTGGGCTTAAAAGGAAAAAGGATGCCACAAAGTTATGGGCTTAAAAGG
66 GTCATGGGCTTAAAAGGAAAAAGGATGCCACAAAGTTATGGACTTAAAAGG
164105 AAAAAAGGTG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
127 4 0.04
128 10 0.10
129 86 0.86
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (129 bp):
GTGGACTTTGAAAAGAAAAAAATGCCACAGAGTTATGGACTTAAAACGAAAAAAGGTGCCACAAA
GTCATGGGCTTAAAAGGAAAAAGGATGCCACAAAGTTATGGACTTAAAAGGGTACCACGAATTC
Found at i:164042 original size:162 final size:162
Alignment explanation
Indices: 163680--164123 Score: 490
Period size: 162 Copynumber: 2.7 Consensus size: 162
163670 TTGTGGACTT
* * *
163680 AAAAAGGTGCCAC-GGGTTGTAGACTTTGAAAAGAAAAATGTGCCACAGAGTTATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACAGAGTTATGGACTTAAAA
* * * * *
163744 GGAAAAAAGGTGACACGGAGTCATGGGCTTTGAAAAGAAAAATGTGCCACGGAGTTGTGAACTTA
66 GGAAAAAGGGTGACACAGAGTCATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGAACTTA
* *
163809 AAAGGTGTCATGGAGTTATAGACTTAAAAGGA
131 AAAGGTGTCATCGAATTATAGACTTAAAAGGA
* * * *
163841 AAAAAGGTGCCACACAGTTGTGGGCTTTGAAAAGAAAAAAATGCCACGGAGTTATGGACTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACAGAGTTATGGACTTAAAA
* * * *
163906 CGAAAAAGGGTGTCACAGAGTCATGGGCTTTGAAAAGAAAAAGGTGCTACAGAGTTATGGACTTA
66 GGAAAAAGGGTGACACAGAGTCATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGAACTTA
* * * *
163971 AAAGG-GTACCA-CGAATTCGTGGACTTTGAAATG-
131 AAAGGTGT--CATCGAATT-ATAGAC-TTAAAAGGA
* * * *
164004 AAAAAGGTGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAAGGTGCCACAAAGTTGTGGGCTTAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAA-GTGCCACAGAGTTATGGACTTAA
* * * *
164067 AAGGAAAAAGGATGCCACAAAGTTATGGGC-TT-AAAAGGAAAAAAGGTGCCACAGAGT
64 AAGGAAAAAGGGTGACACAGAGTCATGGGCTTTGAAAA-G-AAAAAGGTGCCACAGAGT
164124 CGTGGGCTTT
Statistics
Matches: 238, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
161 23 0.10
162 121 0.51
163 88 0.37
164 6 0.03
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.20
Consensus pattern (162 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAGTGCCACAGAGTTATGGACTTAAAA
GGAAAAAGGGTGACACAGAGTCATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTATGAACTTA
AAAGGTGTCATCGAATTATAGACTTAAAAGGA
Found at i:164456 original size:130 final size:128
Alignment explanation
Indices: 164193--164467 Score: 310
Period size: 130 Copynumber: 2.1 Consensus size: 128
164183 TGCTATGGAG
* * *
164193 TTGTGGACTTAAAAGGAAAAATGATGCCACAAAGTTGTGGGCTTTGAAAAGAAAAAGGTGCTAGT
1 TTGTGGACTTAAAAGGAAAAAGGATGCCACAAAGTTGTGAGCTTTGAAAAGAAAAAAGTGCTAGT
* * ** * *
164258 GAGTTGTGGACTTAAATGGGTGCTGCGCAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCATAGAG
66 GAGTTGAGGACTTAAAAGGGTGCT-CAAAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCAGAGAA
* **
164322 TTGTGGACTTAAAAGGAAAAAGGATGTCACGGAGTTGTGAGCTTTGAAAAGAAAAAAAGTG-TCA
1 TTGTGGACTTAAAAGGAAAAAGGATGCCACAAAGTTGTGAGCTTTGAAAAG-AAAAAAGTGCT-A
*
164386 CG-GAGTTGAGGACTTAAAAGGGTG-TCATAAAGTTGTGGGCTTTGAAAA-GAAAAA-GGTGCCA
64 -GTGAGTTGAGGACTTAAAAGGGTGCTC--AAAGTTGTAGGC-TT-AAAAGGAAAAAGGGTGCCA
164447 CGA-AA
124 -GAGAA
164452 TTGTGGACTTAAAAGG
1 TTGTGGACTTAAAAGG
164468 GTGCCATAGA
Statistics
Matches: 125, Mismatches: 13, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
128 1 0.01
129 48 0.38
130 62 0.50
131 10 0.08
132 4 0.03
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (128 bp):
TTGTGGACTTAAAAGGAAAAAGGATGCCACAAAGTTGTGAGCTTTGAAAAGAAAAAAGTGCTAGT
GAGTTGAGGACTTAAAAGGGTGCTCAAAGTTGTAGGCTTAAAAGGAAAAAGGGTGCCAGAGAA
Found at i:164470 original size:61 final size:62
Alignment explanation
Indices: 164354--164526 Score: 226
Period size: 61 Copynumber: 2.8 Consensus size: 62
164344 GATGTCACGG
* * * *
164354 AGTTGTGAGCTTTGAAAAGAAAAAAAGTGTCACGGAGTTGAGGACTTAAAAGGGTGTCATAA
1 AGTTGTGGGCTTTGAAAAGAAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCATAA
* * * *
164416 AGTTGTGGGCTTTGAAAAG-AAAAAGGTGCCACGAAATTGTGGACTTAAAAGGGTGCCATAG
1 AGTTGTGGGCTTTGAAAAGAAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCATAA
* *
164477 AGTTGTGGAC-TT-AAAAGGAAAAAAGGTGTCACGGAGTTATGGACTTAAAA
1 AGTTGTGGGCTTTGAAAA-GAAAAAAGGTGTCACGGAGTTGTGGACTTAAAA
164527 AGAAAAAGGG
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
59 4 0.04
60 3 0.03
61 71 0.74
62 18 0.19
ACGTcount: A:0.38, C:0.09, G:0.29, T:0.24
Consensus pattern (62 bp):
AGTTGTGGGCTTTGAAAAGAAAAAAGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCATAA
Found at i:164473 original size:27 final size:27
Alignment explanation
Indices: 164435--164494 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
164425 CTTTGAAAAG
*
164435 AAAAAGGTGCCACGA-AATTGTGGACTT
1 AAAAGGGTGCCA-GAGAATTGTGGACTT
* *
164462 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCAGAGAATTGTGGACTT
164489 AAAAGG
1 AAAAGG
164495 AAAAAAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCAGAGAATTGTGGACTT
Found at i:164606 original size:27 final size:27
Alignment explanation
Indices: 164575--164647 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
164565 AAGTTACCAT
*
164575 GGAGTTGTGGACTTAAAAGAATGTCAC
1 GGAGTTGTGGACTTAAAAGAATGCCAC
* **
164602 GGAGTTGTAGACTTAAAAGGGTGCCAC
1 GGAGTTGTGGACTTAAAAGAATGCCAC
* * *
164629 AGAATTATGGACTTAAAAG
1 GGAGTTGTGGACTTAAAAG
164648 GAAAAATGGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.25
Consensus pattern (27 bp):
GGAGTTGTGGACTTAAAAGAATGCCAC
Found at i:164700 original size:60 final size:61
Alignment explanation
Indices: 164626--164741 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
164616 AAAAGGGTGC
* *
164626 CACAGAATTATGGACTTAAAAGG-AAAAATGGTGCCACAGAGTTATGAACTTTGAAGGGTT
1 CACAGAATTATGGACTAAAAAGGAAAAAAAGGTGCCACAGAGTTATGAACTTTGAAGGGTT
* * * **
164686 CACAGAGTTGTGGACTAAAAAGGAAAAAAAGGTGCCACGGAGTTATGGGCTTTGAA
1 CACAGAATTATGGACTAAAAAGGAAAAAAAGGTGCCACAGAGTTATGAACTTTGAA
164742 AAGAAAAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 20 0.42
61 28 0.58
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (61 bp):
CACAGAATTATGGACTAAAAAGGAAAAAAAGGTGCCACAGAGTTATGAACTTTGAAGGGTT
Found at i:164716 original size:215 final size:219
Alignment explanation
Indices: 164295--164871 Score: 611
Period size: 215 Copynumber: 2.6 Consensus size: 219
164285 CAGTTGTAGG
* * *
164295 CTTAAAAGGAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGGATGTCACGGAGTTGT
1 CTTAAAAAGAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGGTTGCCACGGAGTTGT
* *
164360 -GAGCTTTGAAAAGAAAAAAAGTGTCACGGAGTTG-AGGACTTAAAAGGGTGTCATA-AAGTTGT
66 GGA-CTTTGAAAAG-----AAGTGTCACGGAGTTGTA-GACTTAAAAGGGTGCCACAGAA-TTGT
* * * *
164422 GGGCTTTGAAAA-GAAAAAGGTGCCACGAAATTGTGGACTTAAAAGGGTGCCATAGAGTTGTGGA
123 GGAC-TT-AAAAGGAAAAAGGTGCCACGAAATTATGAACTTAAAAGGGTGCCACAGAGTTGTGGA
* *
164486 CTTAAAAGGAAAAAAGGTGTCACGGAGTTATGGA
186 CTAAAAAGGAAAAAAGGTGCCACGGAGTTATGGA
* * * *
164520 CTTAAAAAGAAAAAGGGTGCCATAGAGTTGCGGACTTAAAAAG-AAAA-GTTACCATGGAGTTGT
1 CTTAAAAAGAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGGTTGCCACGGAGTTGT
*
164583 GGAC-TT-AAAAGAA-TGTCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAATTATGGACTTAA
66 GGACTTTGAAAAGAAGTGTCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAATTGTGGACTTAA
* ** *
164645 AAGGAAAAATGGTGCCAC-AGAGTTATGAACTTTGAAGGGT-TCACAGAGTTGTGGACTAAAAAG
131 AAGGAAAAA-GGTGCCACGA-AATTATGAACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAG
*
164708 GAAAAAAAGGTGCCACGGAGTTATGGG
194 G-AAAAAAGGTGCCACGGAGTTATGGA
* ** * * *
164735 CTTTGAAAAGAAAAA-GGTGCCACGGAATTTTGGACTTAAAAGGAAAAAGGTTGCCACGGAATTG
1 C-TTAAAAAGAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGGTTGCCACGGAGTTG
* * * * * * *
164799 TGGGCTTTGAGAAAAAAAGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGAC
65 TGGACTTT--GAAAAGAA-GTGTCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAATTGTGGAC
164864 TTAAAAGG
127 TTAAAAGG
164872 GTACTACGGA
Statistics
Matches: 297, Mismatches: 39, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
213 4 0.01
214 30 0.10
215 105 0.35
216 21 0.07
217 16 0.05
218 2 0.01
221 11 0.04
222 2 0.01
223 60 0.20
224 6 0.02
225 40 0.13
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (219 bp):
CTTAAAAAGAAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGGTTGCCACGGAGTTGT
GGACTTTGAAAAGAAGTGTCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAATTGTGGACTTAA
AAGGAAAAAGGTGCCACGAAATTATGAACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGA
AAAAAGGTGCCACGGAGTTATGGA
Found at i:164836 original size:67 final size:68
Alignment explanation
Indices: 164686--164844 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 68
164676 TTGAAGGGTT
* * *
164686 CACAGAGTTGTGGACTAAAAAGGAAAAAAAGGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAG
1 CACAGAGTTATGGACTTAAAAGG-AAAAAAGGTGCCACGGAATTATGGGCTTTGAAAAGAAAAAG
164751 GTGC
65 GTGC
* * * * *
164755 CACGGAATTTTGGACTTAAAAGG-AAAAAGGTTGCCACGGAATTGTGGGCTTTGAGAA-AAAAAG
1 CACAGAGTTATGGACTTAAAAGGAAAAAAGG-TGCCACGGAATTATGGGCTTTGAAAAGAAAAAG
164818 GTGC
65 GTGC
164822 CACAGAGTTATGGACTTAAAAGG
1 CACAGAGTTATGGACTTAAAAGG
164845 GTGCCACAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
67 37 0.47
68 23 0.29
69 19 0.24
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (68 bp):
CACAGAGTTATGGACTTAAAAGGAAAAAAGGTGCCACGGAATTATGGGCTTTGAAAAGAAAAAGG
TGC
Found at i:164850 original size:27 final size:27
Alignment explanation
Indices: 164812--164873 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
164802 GCTTTGAGAA
*
164812 AAAAAGGTGCCACAGAGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
*
164839 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
164866 AAAAGGGT
1 AAAAGGGT
164874 ACTACGGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATGGACTT
Found at i:164883 original size:27 final size:27
Alignment explanation
Indices: 164812--164887 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
164802 GCTTTGAGAA
* * *
164812 AAAAAGGTGCCACAGAGTTATGGACTT
1 AAAAGGGTACCACAGAGTTGTGGACTT
*
164839 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTACCACAGAGTTGTGGACTT
* *
164866 AAAAGGGTACTACGGAGTTGTG
1 AAAAGGGTACCACAGAGTTGTG
164888 AGCTTTGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAGGGTACCACAGAGTTGTGGACTT
Found at i:164934 original size:32 final size:30
Alignment explanation
Indices: 164901--164982 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
164891 TTTGAAAAGA
* *
164901 AAAATGATGCCATTGAGTCGTGGACTTGGAG
1 AAAA-GATGCCACTGAATCGTGGACTTGGAG
* *
164932 AAAAGATGCCACTGAATTGTGGACTT-AAG
1 AAAAGATGCCACTGAATCGTGGACTTGGAG
* * *
164961 AAAGGGTGCCACGGAATCGTGG
1 AAAAGATGCCACTGAATCGTGG
164983 GCTTTTGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 20 0.47
30 19 0.44
31 4 0.09
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (30 bp):
AAAAGATGCCACTGAATCGTGGACTTGGAG
Found at i:166260 original size:13 final size:12
Alignment explanation
Indices: 166235--166285 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
166225 GCCTTTGCAC
166235 TTTTTTGTTTGT
1 TTTTTTGTTTGT
166247 TTTTTTGTTATG-
1 TTTTTTGTT-TGT
166259 -TTTTTGTTT-T
1 TTTTTTGTTTGT
166269 TTTTTT-TTTGCT
1 TTTTTTGTTTG-T
166281 TTTTT
1 TTTTT
166286 CATTTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 4 0.12
11 13 0.38
12 15 0.44
13 2 0.06
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (12 bp):
TTTTTTGTTTGT
Found at i:166277 original size:38 final size:36
Alignment explanation
Indices: 166235--166319 Score: 84
Period size: 40 Copynumber: 2.2 Consensus size: 36
166225 GCCTTTGCAC
*
166235 TTTTTTGTTTGTTT-TTTTGTTATGTTTTTGTT-TTTTT
1 TTTTTTGTTT-TTTATTTT-TTATGTTTTT-TTGTGTTT
166272 TTTTTTGCTTTTTTCATTTTTTATGTTTTTTTTGGTGTTT
1 TTTTTTG-TTTTTT-ATTTTTTATG-TTTTTTT-GTGTTT
166312 TTTTTTGT
1 TTTTTTGT
166320 GCTTTTGCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
37 10 0.24
38 10 0.24
39 10 0.24
40 11 0.27
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.81
Consensus pattern (36 bp):
TTTTTTGTTTTTTATTTTTTATGTTTTTTTGTGTTT
Found at i:166303 original size:12 final size:11
Alignment explanation
Indices: 166235--166317 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
166225 GCCTTTGCAC
166235 TTTTTTGTTTGT
1 TTTTTTGTTT-T
*
166247 TTTTTTGTTAT
1 TTTTTTGTTTT
*
166258 GTTTTTGTTTT
1 TTTTTTGTTTT
*
166269 TTTTTT-TTTGC
1 TTTTTTGTTT-T
**
166280 TTTTTT-CATT
1 TTTTTTGTTTT
*
166290 TTTTATGTTTT
1 TTTTTTGTTTT
*
166301 TTTTGGTGTTTT
1 TTTT-TTGTTTT
166313 TTTTT
1 TTTTT
166318 GTGCTTTTGC
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
10 8 0.15
11 28 0.51
12 19 0.35
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:166313 original size:42 final size:42
Alignment explanation
Indices: 166246--166325 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
166236 TTTTTGTTTG
* *
166246 TTTTTTTGTTATGTTTTTGTTTTTTTTTTTTTGCTTTTTTCA
1 TTTTTTTGTTATGTTTTTGTGTTTTTTTTTGTGCTTTTTTCA
166288 TTTTTTATGTT-T-TTTTTGGTGTTTTTTTTTGTGCTTTT
1 TTTTTT-TGTTATGTTTTT-GTGTTTTTTTTTGTGCTTTT
166326 GCTTTTGACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 5 0.15
42 25 0.74
43 4 0.12
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.80
Consensus pattern (42 bp):
TTTTTTTGTTATGTTTTTGTGTTTTTTTTTGTGCTTTTTTCA
Found at i:168868 original size:2 final size:2
Alignment explanation
Indices: 168861--168887 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
168851 CCCAATTAAA
168861 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 A
168888 ATCCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:169877 original size:37 final size:37
Alignment explanation
Indices: 169828--169898 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
169818 CTCCGAATCC
*
169828 TTTGTTTTTACGATATAGTAAATTGAATAATTTACCT
1 TTTGTTTCTACGATATAGTAAATTGAATAATTTACCT
169865 TTTGTTTCTACGATATAGTAAATTGAATAATTTA
1 TTTGTTTCTACGATATAGTAAATTGAATAATTTA
169899 TCACTTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (37 bp):
TTTGTTTCTACGATATAGTAAATTGAATAATTTACCT
Found at i:176147 original size:147 final size:147
Alignment explanation
Indices: 175896--176169 Score: 521
Period size: 147 Copynumber: 1.9 Consensus size: 147
175886 GTGTGGGGAG
*
175896 TGTCATGCTTTGATTTCATCATGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
1 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
175961 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
66 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
176026 TCATGCATTGGTTAACT
131 TCATGCATTGGTTAACT
176043 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
1 TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
* *
176108 GGATATGGCATGAATCATACGAAGGTGGATGAGTGATTTAAAGAGAATTCACCACTCCAAAT
66 GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAAT
176170 GACATCAAAG
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 124 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (147 bp):
TGTCATGCTTTGATTTCATCACGAACGGATCCAGAATAGATGGATGCCTATACTAGGGTGATTTT
GGATATGGCATGAATCATACGAAGGTAGATGAGTAATTTAAAGAGAATTCACCACTCCAAATTCA
TCATGCATTGGTTAACT
Found at i:187747 original size:29 final size:30
Alignment explanation
Indices: 187704--187761 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
187694 TGTTACAGAG
* *
187704 TAGGAGATTTGATTAGATTTTATT-GATTA
1 TAGGAGATTTCATTAGATTTAATTAGATTA
187733 TAGGAGATTTCATTAGATTTAATTAGATT
1 TAGGAGATTTCATTAGATTTAATTAGATT
187762 TTATATATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.47
Consensus pattern (30 bp):
TAGGAGATTTCATTAGATTTAATTAGATTA
Found at i:192199 original size:38 final size:38
Alignment explanation
Indices: 192145--192243 Score: 180
Period size: 38 Copynumber: 2.6 Consensus size: 38
192135 GTGTTACAGA
*
192145 ATAGGAGATTTTATTAGATTTTATATATAGGCTTGATT
1 ATAGGAGATTTGATTAGATTTTATATATAGGCTTGATT
*
192183 ATAGGAGATTTGATTAGATTTTATATATATGCTTGATT
1 ATAGGAGATTTGATTAGATTTTATATATAGGCTTGATT
192221 ATAGGAGATTTGATTAGATTTTA
1 ATAGGAGATTTGATTAGATTTTA
192244 ACTTCCTATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (38 bp):
ATAGGAGATTTGATTAGATTTTATATATAGGCTTGATT
Found at i:194503 original size:2 final size:2
Alignment explanation
Indices: 194496--194528 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
194486 ACATGTCAAC
194496 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 A
194529 ATGGGAGGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:198494 original size:15 final size:15
Alignment explanation
Indices: 198465--198494 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
198455 GGTCTCTAGT
*
198465 TTAAATCATTAAAAA
1 TTAAATCATAAAAAA
198480 TTAAATCATAAAAAA
1 TTAAATCATAAAAAA
198495 AAAAAAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
TTAAATCATAAAAAA
Found at i:198624 original size:16 final size:15
Alignment explanation
Indices: 198596--198633 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
198586 ATAAATTTTA
198596 ATATTTTTATATATTT
1 ATATTTTT-TATATTT
198612 ATATTATTTTATATTT
1 ATATT-TTTTATATTT
198628 -TATTTT
1 ATATTTT
198634 AATTATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.10
15 4 0.19
16 12 0.57
17 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
ATATTTTTTATATTT
Found at i:198647 original size:22 final size:21
Alignment explanation
Indices: 198590--198659 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 21
198580 TTTTAAATAA
198590 ATTTTAA-TATTTT-TA-TAT
1 ATTTTAATTATTTTATATTAT
*
198608 A-TTTATATTATTTTATATTTT
1 ATTTTA-ATTATTTTATATTAT
198629 ATTTTAATTATTTTGATATTAT
1 ATTTTAATTATTTT-ATATTAT
*
198651 ATTTAAATT
1 ATTTTAATT
198660 TAGGTAACGT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
17 4 0.09
18 2 0.05
19 6 0.14
20 2 0.05
21 11 0.26
22 18 0.42
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (21 bp):
ATTTTAATTATTTTATATTAT
Found at i:198999 original size:16 final size:15
Alignment explanation
Indices: 198980--199018 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
198970 ATTAATATTT
198980 ATAATATTTAATTATA
1 ATAATATTT-ATTATA
*
198996 ATAAATATTTATTATT
1 AT-AATATTTATTATA
199012 ATAATAT
1 ATAATAT
199019 ATTCAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 9 0.43
17 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATATTTATTATA
Found at i:199014 original size:19 final size:17
Alignment explanation
Indices: 198982--199021 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
198972 TAATATTTAT
198982 AATATTTAATTATAATA
1 AATATTTAATTATAATA
*
198999 AATATTT-ATTATTATA
1 AATATTTAATTATAATA
199015 ATATATT
1 A-ATATT
199022 CAACTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTTAATTATAATA
Found at i:199378 original size:23 final size:23
Alignment explanation
Indices: 199328--199372 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
199318 TTTTAAAAAT
* *
199328 AAAA-ATAATTTTAAATATTTAA
1 AAAATATAATATTAAATAATTAA
199350 AAAATATAATATTAAATAATTAA
1 AAAATATAATATTAAATAATTAA
199373 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATAATATTAAATAATTAA
Found at i:199406 original size:20 final size:20
Alignment explanation
Indices: 199373--199420 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
199363 AAATAATTAA
*
199373 TTAATA-AA-AATATATTTT
1 TTAATATAATAATATAATTT
*
199391 TTAATTTAATAATATAATTT
1 TTAATATAATAATATAATTT
199411 TTAATATAAT
1 TTAATATAAT
199421 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAATATAATAATATAATTT
Found at i:202889 original size:13 final size:13
Alignment explanation
Indices: 202871--202898 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
202861 ATACAAAGAT
202871 CAATGTATCGATA
1 CAATGTATCGATA
202884 CAATGTATCGATA
1 CAATGTATCGATA
202897 CA
1 CA
202899 TTGAATAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:203775 original size:52 final size:51
Alignment explanation
Indices: 203679--203884 Score: 143
Period size: 52 Copynumber: 4.0 Consensus size: 51
203669 ATTGGCCTTA
* * * * * *
203679 AAGATGTA-AAGAATGTCAATGTACTAATTCACGGTCAGCAACATTAGACTT
1 AAGATG-AGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
* *
203730 GAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACGACATTAG-GTT
1 -AAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
** * * * * * *
203781 AAGGAATGTTACGGATGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTT
1 AA-G-ATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
* * * * *
203834 AA-A-GATGAAG-GTGCCAATGTGTTGATTCAAGGCTAGCAACATTGGACTT
1 AAGATGA-GAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
203883 AA
1 AA
203885 AGGTGCCAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
49 35 0.29
50 5 0.04
51 4 0.03
52 73 0.60
53 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (51 bp):
AAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT
Found at i:203903 original size:43 final size:44
Alignment explanation
Indices: 203796--203930 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 44
203786 ATGTTACGGA
* *
203796 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT----A-GAAGG
* * * *
203845 TGCCAATGTGTTGATTCAAGGCTAGCAACATTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGG
*
203888 TGCCAATATGCTGATTCAAGGTTAGCGATATTGGACTTAGAAG
1 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAG
203931 AAGATGCCAC
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 38 0.51
44 3 0.04
45 1 0.01
49 32 0.43
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (44 bp):
TGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAGAAGG
Found at i:204014 original size:28 final size:28
Alignment explanation
Indices: 203948--204443 Score: 447
Period size: 28 Copynumber: 17.6 Consensus size: 28
203938 CACCAACTTG
**
203948 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTG-AA-GGTTGCCACTGACT
* *
203977 TGTGTGCTTTTGAAGGTTGCCACTGCCT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
204005 TATGGGC-TTTGAAGGTTGCCATTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* ** *
204032 TGTGGG-GTTTGAAAATGTGCCACTAACT
1 TGTGGGCTTTTGAAGGT-TGCCACTGACT
204060 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
204088 CGTGGGCTTTTGAAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
**
204116 TGTGGGC-TTTGAAAATGTGCCACTGACT
1 TGTGGGCTTTTGAAGGT-TGCCACTGACT
* *
204144 TGTGGGCTTCTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
204172 TGTGGGC-TTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
204200 TGTGGGC-TTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
204228 TGTGGGC-CTTGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* * *
204257 TGTGGGCTTTTAAAAGGGTACCACTGACT
1 TGTGGGCTTTT-GAAGGTTGCCACTGACT
*
204286 TGTGGGCTTTGGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
*
204314 TGTGGGC-TTTGAAAAGG-TGCCATTGACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
* * * *
204342 TGTGGGCTTCTAAAAGTTACCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACT
* *
204370 TGTGGGC-TTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAGGTTGCCACTGACT
* * *
204398 TGTAGGC-TTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG--AAGGTTGCCACTGACT
*
204427 TGTGGGCTTTGGAAGGT
1 TGTGGGCTTTTGAAGGT
204444 GAGGAATGTC
Statistics
Matches: 389, Mismatches: 61, Indels: 35
0.80 0.13 0.07
Matches are distributed among these distances:
27 52 0.13
28 236 0.61
29 96 0.25
30 5 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:204093 original size:56 final size:55
Alignment explanation
Indices: 203989--204437 Score: 501
Period size: 56 Copynumber: 8.0 Consensus size: 55
203979 TGTGCTTTTG
* * * *
203989 AAGGTTGCCACTGCCTTATGGGCTTTGAAGGTTGCCATTGACTTGTGGGGTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAA
* * *
204045 AATGTGCCACTAACTTGTGGGCTTTTGAAGGTTGCCACTGACTCGTGGGCTTTTG--
1 AAGGTGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTGACTTGTGGGC-TTTGAA
* **
204100 AAGGTTGCCACTAACTTGTGGGCTTTGAAAATGTGCCACTGACTTGTGGGCTTCT--A
1 AAGG-TGCCACTGACTTGTGGGCTTTGAAGGT-TGCCACTGACTTGTGGGCTT-TGAA
* * *
204156 AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAA
* * * *
204213 AAGATGCCACTGACTTGTGGGCCTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTAA
1 AAGGTGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGAA
*
204270 AAGGGTACCACTGACTTGTGGGCTTTGGAAGGTTGCCACTGACTTGTGGGCTTTGAA
1 AA-GGTGCCACTGACTTGTGGGCTTT-GAAGGTTGCCACTGACTTGTGGGCTTTGAA
* * * *
204327 AAGGTGCCATTGACTTGTGGGCTTCTAAAAGTTACCACTGACTTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTT-TGAAGGTTGCCACTGACTTGTGGGCTTTGAA
* * * *
204383 AAGATGCCACTGACTTGTAGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAGGTGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTGACTTGTGGGCTTTG
204438 GAAGGTGAGG
Statistics
Matches: 339, Mismatches: 39, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
55 29 0.09
56 197 0.58
57 92 0.27
58 20 0.06
59 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (55 bp):
AAGGTGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAA
Found at i:204135 original size:84 final size:84
Alignment explanation
Indices: 203974--204443 Score: 542
Period size: 84 Copynumber: 5.6 Consensus size: 84
203964 GGTTGCACCA
* * * *
203974 ACTTGTGTGCTTTTG-AAGGTTGCCACTGCCTTATGGGC-TTTGAAGGTTGCCATTGACTTGTGG
1 ACTTGTGGGC-TTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGG
* *
204037 GGTTTGAAAATG-TGCCACTA
65 GCTTTGAAAA-GATGCCACTG
* *
204057 ACTTGTGGGCTTTTG-AAGGTTGCCACTGACTCGTGGGCTTTTGAAGGTTGCCACTAACTTGTGG
1 ACTTGTGGGC-TTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGG
204121 GCTTTGAAAATG-TGCCACTG
65 GCTTTGAAAA-GATGCCACTG
* * *
204141 ACTTGTGGGCTTCT-AAAGGTTGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTAACTTGTG
1 ACTTGTGGGCTT-TGAAAGGTTGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACTTGTG
204204 GGCTTTGAAAAGATGCCACTG
64 GGCTTTGAAAAGATGCCACTG
* * * * *
204225 ACTTGTGGGCCTTGAAAAGGGTGCCACTGACTTGTGGGCTTTTAAAAGGGTACCACTGACTTGTG
1 ACTTGTGGGCTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTT-GAAGGTTGCCACTGACTTGTG
* * *
204290 GGCTTTGGAAGGTTGCCACTG
64 GGCTTTGAAAAGATGCCACTG
* * * * *
204311 ACTTGTGGGCTTTGAAAAGG-TGCCATTGACTTGTGGGCTTCTAAAAGTTACCACTGACTTGTGG
1 ACTTGTGGGCTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGG
204375 GCTTTGAAAAGATGCCACTG
65 GCTTTGAAAAGATGCCACTG
* * * *
204395 ACTTGTAGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGGAAGGT
1 ACTTGTGGGCTTTG-AAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGT
204444 GAGGAATGTC
Statistics
Matches: 341, Mismatches: 36, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
83 42 0.12
84 178 0.52
85 65 0.19
86 56 0.16
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (84 bp):
ACTTGTGGGCTTTGAAAGGTTGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGG
CTTTGAAAAGATGCCACTG
Done.