Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 152 of 345
Found at i:51425663 original size:12 final size:12
Alignment explanation
Indices: 51425648--51425673 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51425638 ACATAATGTG
51425648 AAAAATAAAATA
1 AAAAATAAAATA
51425660 AAAAATAAAATA
1 AAAAATAAAATA
51425672 AA
1 AA
51425674 GAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:51430106 original size:12 final size:12
Alignment explanation
Indices: 51430089--51430113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51430079 TTTGAAAAAT
51430089 AAAATAAAATAA
1 AAAATAAAATAA
51430101 AAAATAAAATAA
1 AAAATAAAATAA
51430113 A
1 A
51430114 GAACACACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:51433341 original size:129 final size:129
Alignment explanation
Indices: 51433111--51433354 Score: 382
Period size: 129 Copynumber: 1.9 Consensus size: 129
51433101 ATATCGTACA
* *
51433111 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCTAAACAGGGT
* * ** *
51433176 CTTACACATAATCACATATTGATTCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
66 CTTACACATAATCACATATCGATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* *
51433240 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAAC-GTCCTAAACATGG
1 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGATGCC-ACTGTCCTAAACAGGG
*
51433304 TCTTACACGTAATCACATATCGATGCCAACATCCCAGACATGGTCTTACAC
65 TCTTACACATAATCACATATCGATGCCAACATCCCAGACATGGTCTTACAC
51433355 ACACACACAT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
129 102 0.98
130 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (129 bp):
ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCTAAACAGGGT
CTTACACATAATCACATATCGATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:51433366 original size:43 final size:43
Alignment explanation
Indices: 51433111--51433354 Score: 328
Period size: 43 Copynumber: 5.7 Consensus size: 43
51433101 ATATCGTACA
* * *
51433111 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
51433154 ATGCC-ACTGTCCTAGACAGGGTCTTACACATAATCACATATTG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
51433197 ATTCCAATGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
51433240 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
* *
51433283 ATGCCAACGTCCTAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
*
51433326 ATGCCAACATCCCAGACATGGTCTTACAC
1 ATGCCAACGTCCCAGACATGGTCTTACAC
51433355 ACACACACAT
Statistics
Matches: 173, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
42 2 0.01
43 170 0.98
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:51440995 original size:28 final size:28
Alignment explanation
Indices: 51440900--51441015 Score: 101
Period size: 28 Copynumber: 4.2 Consensus size: 28
51440890 AGCATGGCTG
* *
51440900 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * *
51440926 CCAGATACAAATATTTGTGGCAGTGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
** *
51440954 CCAGAATTAGATATTTGTGGCAGAGCGA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
* * ** *
51440982 CTAGAAACATATATTTGTTTCATAGCCA
1 CCAGAAACAGATATTTGTGGCAGAGCCA
51441010 CCAGAA
1 CCAGAA
51441016 CGCTTCCTCC
Statistics
Matches: 68, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
26 4 0.06
27 6 0.09
28 58 0.85
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCAGAGCCA
Found at i:51443338 original size:14 final size:15
Alignment explanation
Indices: 51443319--51443347 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
51443309 AAACGAAATT
51443319 TTCACACAC-ATAAA
1 TTCACACACAATAAA
51443333 TTCACACACAATAAA
1 TTCACACACAATAAA
51443348 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
TTCACACACAATAAA
Found at i:51447265 original size:46 final size:46
Alignment explanation
Indices: 51447215--51447386 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
51447205 TGAGCATCCG
51447215 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
* * * * *
51447261 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCA
* *
51447308 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
**
51447354 GGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51447387 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 58 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
Found at i:51447367 original size:93 final size:93
Alignment explanation
Indices: 51447208--51447378 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
51447198 GGATGGTTGA
* *
51447208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
51447273 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
**
51447301 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAGGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
51447366 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51447379 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:51448270 original size:20 final size:20
Alignment explanation
Indices: 51448233--51448275 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
51448223 CTGTTCTGAC
* *
51448233 TTTAAAAATTCATAATAAAT
1 TTTAAAAAATAATAATAAAT
* *
51448253 TTTAAAAAATAATTATAAGT
1 TTTAAAAAATAATAATAAAT
51448273 TTT
1 TTT
51448276 TCTTTATATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
TTTAAAAAATAATAATAAAT
Found at i:51454817 original size:46 final size:46
Alignment explanation
Indices: 51454767--51454939 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
51454757 TGGTTGAGCA
51454767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51454813 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51454858 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
51454906 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51454940 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51454923 original size:93 final size:93
Alignment explanation
Indices: 51454764--51454934 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
51454754 GGATGGTTGA
* *
51454764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51454829 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
51454857 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
51454922 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51454935 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:51456160 original size:16 final size:16
Alignment explanation
Indices: 51456139--51456176 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
51456129 GACGCGGAGT
51456139 TAGAAAGCTGTGAATG
1 TAGAAAGCTGTGAATG
51456155 TAGAAAGCTGTGAATG
1 TAGAAAGCTGTGAATG
51456171 TAGAAA
1 TAGAAA
51456177 TAAATGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (16 bp):
TAGAAAGCTGTGAATG
Found at i:51461983 original size:108 final size:110
Alignment explanation
Indices: 51461831--51462031 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
51461821 ATCCTTTTGA
* *
51461831 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
51461894 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
51461939 AACTTATCAATGCCATGTCTTGACATGGTCTTAGATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
51462004 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
51462032 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:51461986 original size:55 final size:53
Alignment explanation
Indices: 51461831--51462038 Score: 224
Period size: 55 Copynumber: 3.8 Consensus size: 53
51461821 ATCCTTTTGA
* *
51461831 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCCTTGCCTTATAG
* * *
51461884 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACAT-GTATCC-TTGCCTTATAG
* * * * *
51461938 TAACTTATCAATGCCATGTCTTGACATGGTCTTAGATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-TATCCTTGCCTTATAG
*
51461992 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACAT-GTATCCTT
51462039 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 46 0.36
54 9 0.07
55 69 0.53
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGTATCCTTGCCTTATAG
Found at i:51468919 original size:15 final size:15
Alignment explanation
Indices: 51468899--51468928 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51468889 ATTAGCCATT
51468899 AGCTAATCATTATCA
1 AGCTAATCATTATCA
51468914 AGCTAATCATTATCA
1 AGCTAATCATTATCA
51468929 GCCATATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
AGCTAATCATTATCA
Found at i:51469239 original size:16 final size:16
Alignment explanation
Indices: 51469220--51469250 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51469210 CTTCTTCACT
51469220 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
51469236 TACTTACTTACTTAA
1 TACTCACTTACTTAA
51469251 TCAATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:51469533 original size:49 final size:51
Alignment explanation
Indices: 51469442--51469697 Score: 140
Period size: 55 Copynumber: 4.9 Consensus size: 51
51469432 ACACGGGTAC
* * * **
51469442 CTTACCATTACCATGACTTGTCATGCTCTTACGTGGTATCCTT-TT-GAAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACACGGTATCCTTATTAGAAA
* * *
51469491 CTTACCATTGCCATGTCTTGACATGGTCTTACACGGTGTCCTTAACTTATAAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACACGGTATCCTT-A-TTAGAAA
* * * * * * *
51469544 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTA-TAGTAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACA-CGG---TAT-CCTTATTAGAAA
* * * * * * * * *
51469599 CTTATCAATGCCATGTCTTGACATGGTATTACATGATTTACTTGCCTTAGAAA
1 CTTACCATTGCCATGACTTGACATGGTCTTACACGGTATCCTT--ATTAGAAA
* * * *
51469652 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGAATCCTTA
1 -CTTACC-ATTGCCATGACTTGACATGGTCTTACACGGTATCCTTA
51469698 AACCCTAATG
Statistics
Matches: 157, Mismatches: 36, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
49 36 0.23
50 3 0.02
51 3 0.02
52 2 0.01
53 37 0.24
54 8 0.05
55 61 0.39
57 3 0.02
58 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (51 bp):
CTTACCATTGCCATGACTTGACATGGTCTTACACGGTATCCTTATTAGAAA
Found at i:51469557 original size:53 final size:53
Alignment explanation
Indices: 51469488--51469689 Score: 208
Period size: 55 Copynumber: 3.7 Consensus size: 53
51469478 TATCCTTTTG
* * * **
51469488 AAACTTACCATTGCCATGTCTTGACATGGTCTTACACGGTGTCCTTAACTTAT
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTAT
* * *
51469541 AAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGG-GACCTTTGCCTTAT
1 AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCC-TTGCCTTAT
* * * * * * *
51469594 AGTAACTTATCAATGCCATGTCTTGACATGGTATTACATGATTTACTTGCCTTAG
1 A--AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTAT
*
51469649 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGG
1 AAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGG
51469690 AATCCTTAAA
Statistics
Matches: 120, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
52 3 0.03
53 44 0.37
54 7 0.06
55 65 0.54
56 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (53 bp):
AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTGTCCTTGCCTTAT
Found at i:51477128 original size:53 final size:54
Alignment explanation
Indices: 51476999--51477253 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 54
51476989 ACACGAGTAC
* * * * *
51476999 CTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
51477048 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
51477101 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * * *
51477156 CTTATCAATGCCATGTCTTGACATGGTCTTAGATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
51477209 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGAATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
51477254 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 68 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:51477198 original size:108 final size:110
Alignment explanation
Indices: 51477046--51477246 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
51477036 ATCCTTTTGA
* *
51477046 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
51477109 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * *
51477154 AACTTATCAATGCCATGTCTTGACATGGTCTTAGATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
51477219 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
51477247 AATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:51488822 original size:27 final size:27
Alignment explanation
Indices: 51488754--51488868 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
51488744 TGGAGGAAGC
* * *
51488754 GTTCTGGTGGCCATACCACAAATATCT
1 GTTCTGGTGACTATGCCACAAATATCT
* *
51488781 GTTTCTGGTGGCTATGCCACAAATATTT
1 G-TTCTGGTGACTATGCCACAAATATCT
51488809 GTTCTGGTGACTATGCCAC-AATATCT
1 GTTCTGGTGACTATGCCACAAATATCT
* *
51488835 GTATCTGGTGACTCTGTCAC-AATATCT
1 GT-TCTGGTGACTATGCCACAAATATCT
*
51488862 ATTCTGG
1 GTTCTGG
51488869 CATCCATGCT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 13 0.17
27 41 0.53
28 24 0.31
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (27 bp):
GTTCTGGTGACTATGCCACAAATATCT
Found at i:51490786 original size:18 final size:18
Alignment explanation
Indices: 51490763--51490797 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51490753 GACTTCGCTG
*
51490763 CTAAAAGATAGAATTGTA
1 CTAAAAGACAGAATTGTA
51490781 CTAAAAGACAGAATTGT
1 CTAAAAGACAGAATTGT
51490798 GAGAAGGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (18 bp):
CTAAAAGACAGAATTGTA
Found at i:51496599 original size:28 final size:27
Alignment explanation
Indices: 51496557--51496670 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
51496547 GGAGGAAGCG
*
51496557 TTCTGGTGGCCATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCAC-AATATCTGT
51496585 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCAC-AATATCTGT
*
51496613 TT-TGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTATGCCACAATATCTGT
* * * *
51496639 ATCTGGTGACTCTGTCACAATATCTG-
1 TTCTGGTGGCTATGCCACAATATCTGT
51496665 TTCTGG
1 TTCTGG
51496671 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 15 0.19
27 35 0.44
28 29 0.37
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTATGCCACAATATCTGT
Found at i:51516563 original size:46 final size:46
Alignment explanation
Indices: 51516511--51516683 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
51516501 TGGTTGAGCA
*
51516511 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
51516557 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
51516604 TCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
51516650 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51516684 GGGGCGGGTT
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 58 0.59
47 26 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:51516667 original size:93 final size:93
Alignment explanation
Indices: 51516508--51516678 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
51516498 GGATGGTTGA
* ** *
51516508 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
51516573 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
51516601 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
51516666 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
51516679 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:51526630 original size:27 final size:28
Alignment explanation
Indices: 51526546--51526642 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
51526536 CATGAGATTG
* * * *
51526546 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51526575 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51526603 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51526630 GCACTGAGTGTGC
1 GCACTAAGTGTGC
51526643 AGACTTAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51526654 original size:27 final size:27
Alignment explanation
Indices: 51526574--51526656 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
51526564 TAAATTGTAC
* *
51526574 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
51526602 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
51526629 AGCACTGAGTGTGCAGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
51526656 A
1 A
51526657 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:51526657 original size:29 final size:27
Alignment explanation
Indices: 51526546--51526657 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
51526536 CATGAGATTG
** * *
51526546 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
51526575 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
51526603 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
51526630 GCACTGAGTGTGCAGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
51526658 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:51529755 original size:27 final size:27
Alignment explanation
Indices: 51529724--51529901 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
51529714 TAAATTGTAC
51529724 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
51529751 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51529777 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
51529805 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
51529833 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
51529860 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51529887 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51529902 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51529838 original size:82 final size:81
Alignment explanation
Indices: 51529725--51529880 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
51529715 AAATTGTACA
* *
51529725 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
51529789 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
51529806 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
51529871 TGCGAGTTGA
65 TGCGAATTGA
51529881 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:51529892 original size:82 final size:81
Alignment explanation
Indices: 51529721--51529901 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
51529711 GATTAAATTG
* *
51529721 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
51529786 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
51529802 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
51529866 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
51529884 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
51529902 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:51531751 original size:27 final size:28
Alignment explanation
Indices: 51531667--51531763 Score: 133
Period size: 27 Copynumber: 3.5 Consensus size: 28
51531657 CATGAGATTG
* * * *
51531667 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
51531696 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
51531724 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
51531751 GCACTGAGTGTGC
1 GCACTAAGTGTGC
51531764 ACTTAATATA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.37
28 22 0.35
29 18 0.29
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:51531775 original size:27 final size:27
Alignment explanation
Indices: 51531667--51531776 Score: 96
Period size: 27 Copynumber: 4.0 Consensus size: 27
51531657 CATGAGATTG
** * *
51531667 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
51531696 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
51531724 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
51531751 GCACTGAGTGTGC-ACTTAATATATAT
1 GCACTAAGTGTGCGACTTAAT-TATAT
51531777 TTTTGAATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.07
27 28 0.39
28 22 0.31
29 16 0.23
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.34
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:51538210 original size:27 final size:27
Alignment explanation
Indices: 51538180--51538666 Score: 557
Period size: 27 Copynumber: 18.0 Consensus size: 27
51538170 AAAGTACTCC
*
51538180 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51538207 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
51538234 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
51538261 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51538288 C-AGTTTACAAAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
51538315 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
51538342 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
51538369 CGATTTAAAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
51538396 CAATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
51538423 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51538450 C-AGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
51538477 CGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
51538504 CAATTTACAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
51538531 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
51538558 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
51538585 CGATTTATAGAATTACTGGTTTAACCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
51538612 CGGTTTACAAAATTATCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
51538639 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
51538666 C
1 C
51538667 AATTGTAAAA
Statistics
Matches: 389, Mismatches: 65, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
26 3 0.01
27 383 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:51538824 original size:54 final size:54
Alignment explanation
Indices: 51538678--51538839 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 54
51538668 ATTGTAAAAT
* ** * *
51538678 TACTGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTATAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* * *
51538732 TACCGAAATACCCCCGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
* * *
51538786 TACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCTTTGTGGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
51538839 T
1 T
51538840 TACCATTTTG
Statistics
Matches: 94, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 4 0.04
54 90 0.96
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAA
Found at i:51538841 original size:81 final size:81
Alignment explanation
Indices: 51538671--51538842 Score: 220
Period size: 81 Copynumber: 2.1 Consensus size: 81
51538661 ACCCTCAATT
* *
51538671 GTAAAATTACTGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTATAGGGTAGAATTACC
1 GTAAAATTACTGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTATAGGGTAGAATTACC
51538736 GAAATACCCCCGTAGG
66 GAAATACCCCCGTAGG
* * * * *
51538752 GTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAGAATTAC
1 GTAAAATTACT-GAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTATAGGGTAGAATTAC
* *** *
51538816 CGAGATACCTTTGTGGG
65 CGAAATACCCCCGTAGG
51538833 GTAAAATTAC
1 GTAAAATTAC
51538843 CATTTTGCCC
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 75 0.99
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.26
Consensus pattern (81 bp):
GTAAAATTACTGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTATAGGGTAGAATTACC
GAAATACCCCCGTAGG
Found at i:51538843 original size:27 final size:27
Alignment explanation
Indices: 51538675--51538843 Score: 194
Period size: 27 Copynumber: 6.3 Consensus size: 27
51538665 TCAATTGTAA
* *
51538675 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
51538702 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
51538729 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51538756 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
51538783 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
51538810 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
51538837 AATTACC
1 AATTACC
51538844 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:51539080 original size:27 final size:26
Alignment explanation
Indices: 51539042--51539121 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 26
51539032 CGAAGGAAGC
*
51539042 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
51539069 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
51539095 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
51539122 ATTGACCGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 9 0.18
27 40 0.82
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:51539244 original size:22 final size:22
Alignment explanation
Indices: 51539212--51539270 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51539202 CCCGTTATTA
*
51539212 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
51539234 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
51539256 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
51539271 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:51539457 original size:27 final size:27
Alignment explanation
Indices: 51539435--51539508 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
51539425 TAGGTGGGTT
*
51539435 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
51539462 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
51539489 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
51539509 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:51539635 original size:6 final size:6
Alignment explanation
Indices: 51539626--51539727 Score: 86
Period size: 6 Copynumber: 16.8 Consensus size: 6
51539616 TTGCATTCAT
* *
51539626 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
51539675 -TCACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTTTG
1 AT-TCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
51539723 ATTCT
1 ATTCT
51539728 CATTTTGGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.06
6 66 0.86
7 5 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:51539689 original size:30 final size:30
Alignment explanation
Indices: 51539626--51539727 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
51539616 TTGCATTCAT
51539626 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCA-CTAATTCTG
51539657 ATTCTGATTCTGATTCTGTCACTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACTAAT-TCTG
* *
51539687 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTG
*
51539717 ATTTTGATTCT
1 ATTCTGATTCT
51539728 CATTTTGGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.65
31 22 0.33
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTG
Found at i:51556582 original size:19 final size:18
Alignment explanation
Indices: 51556547--51556581 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51556537 ATAATTTAAG
*
51556547 TAAAATTTAATTATTTTA
1 TAAAAATTAATTATTTTA
51556565 TAAAAATTAATTATTTT
1 TAAAAATTAATTATTTT
51556582 TCAACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAAAAATTAATTATTTTA
Found at i:51566639 original size:45 final size:45
Alignment explanation
Indices: 51566581--51566747 Score: 253
Period size: 45 Copynumber: 3.7 Consensus size: 45
51566571 GATTCTGATG
* * *
51566581 TCCCATACATGGTCTTACACGTAACCACATATATCGATGCCAACA
1 TCCCAGACATGGTCTTACACGAAATCACATATATCGATGCCAACA
* * *
51566626 TCCCAGACGTGGTCTTACACGAAATCACATATATCAATGCCAATA
1 TCCCAGACATGGTCTTACACGAAATCACATATATCGATGCCAACA
* * *
51566671 TCCCAGACGTGGTCTTGCACGAAATCACATATATCGATGCCAACG
1 TCCCAGACATGGTCTTACACGAAATCACATATATCGATGCCAACA
51566716 TCCCAGACATGGTCTTACACGAAATCACATAT
1 TCCCAGACATGGTCTTACACGAAATCACATAT
51566748 CGGAATCCTA
Statistics
Matches: 110, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (45 bp):
TCCCAGACATGGTCTTACACGAAATCACATATATCGATGCCAACA
Found at i:51571864 original size:40 final size:40
Alignment explanation
Indices: 51571804--51571983 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 40
51571794 TATTCGAATG
*
51571804 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * **
51571844 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* * * *
51571884 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAGCG--T
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
51571922 ATATCCGGGCTAAG-TCCGAAGG-ATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
51571960 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
51571984 CTTGTGCGAG
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
36 11 0.09
37 7 0.06
38 28 0.24
39 7 0.06
40 64 0.54
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:51572009 original size:76 final size:77
Alignment explanation
Indices: 51571804--51572019 Score: 231
Period size: 76 Copynumber: 2.8 Consensus size: 77
51571794 TATTCGAATG
* * * *
51571804 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-GTATATCCGG-CTAAG-TCCGAAGGCA
* ***
51571869 TTTGTGCGAGTGGTT
63 TTTATGCGAGTGACC
* *
51571884 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGTATATCCGGGCTAAGTCCGAAGG-ATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTATATCC-GGCTAAGTCCGAAGGCATT
*
51571947 TATGCTAGTGACC
65 TATGCGAGTGACC
* * *
51571960 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTTATATCCGGCTAAATTCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGG-TATATCCGGCT-AAGTCCGAAG
51572020 ATGCTTGGGT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
75 8 0.07
76 39 0.34
77 24 0.21
78 12 0.10
79 2 0.02
80 31 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGGTATATCCGGCTAAGTCCGAAGGCATTT
ATGCGAGTGACC
Found at i:51572018 original size:38 final size:39
Alignment explanation
Indices: 51571804--51572019 Score: 176
Period size: 40 Copynumber: 5.5 Consensus size: 39
51571794 TATTCGAATG
* * * **
51571804 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCC-GGCTAAGAT-CCGAAGGCATTTGTGCGAGTGGTT
51571844 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTGGTT
1 ATATCCGG-CTAAGATCCGAAGGCATTTGTGCGAGTGGTT
* * * *
51571884 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTAG-CG-T
1 ATATC-CGGCTAAGATCCGAAGGCATTTGTGCGAGTGGTT
* * ***
51571922 ATATCCGGGCTAAG-TCCGAAGG-ATTTATGCTAGTGACC
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGTGGTT
* *
51571960 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCC-GGCTAAGATCCGAAGGCATTTGTGCGAGTGGTT
51571999 ATATCCGGCTAA-ATTCCGAAG
1 ATATCCGGCTAAGA-TCCGAAG
51572020 ATGCTTGGGT
Statistics
Matches: 144, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
36 10 0.07
37 8 0.06
38 39 0.27
39 25 0.17
40 59 0.41
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
ATATCCGGCTAAGATCCGAAGGCATTTGTGCGAGTGGTT
Found at i:51572263 original size:21 final size:22
Alignment explanation
Indices: 51572239--51572281 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51572229 AAATGTGCAT
*
51572239 ATATGAA-GTTATTCATTAGCC
1 ATATGAATGTTATACATTAGCC
*
51572260 ATATGAATGTTATACCTTAGCC
1 ATATGAATGTTATACATTAGCC
51572282 GAAACTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
ATATGAATGTTATACATTAGCC
Found at i:51579929 original size:40 final size:40
Alignment explanation
Indices: 51579869--51580052 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
51579859 TATTCGAATG
*
51579869 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * **
51579909 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* * *
51579949 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
51579989 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
51580029 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
51580053 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 123 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:51580002 original size:80 final size:80
Alignment explanation
Indices: 51579869--51580052 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
51579859 TATTCGAATG
* * *
51579869 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* ***
51579933 ATTTGTGCGAGTGGTT
65 ATTTATGCGAGTGACC
* *
51579949 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
51580014 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
51580029 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
51580053 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 92 0.99
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:51589240 original size:45 final size:45
Alignment explanation
Indices: 51589184--51589404 Score: 271
Period size: 45 Copynumber: 4.9 Consensus size: 45
51589174 ATTGAATATG
* * * * * *
51589184 ATGCCAACATCCCAGACATGGTCTTACATGTAACCACATTTTTCA
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATATCA
*
51589229 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCATATATATCA
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATATCA
* * *
51589274 ATGCCAACGTCCTAGACGTGGTCTTACACGAAATCACATATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATATCA
* * * * * *
51589319 ATGCCAACCTCTCAGATGTGGTATTACACAAAATCACATATATCG
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATATCA
* **
51589364 ATGCCAACATCCCATACGTGGTCTTACAAAAAATCACATAT
1 ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATAT
51589405 CGGAATCCTA
Statistics
Matches: 153, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 153 1.00
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (45 bp):
ATGCCAACATCCCAGACGTGGTCTTACACGAAATCACATATATCA
Found at i:51597889 original size:63 final size:64
Alignment explanation
Indices: 51597790--51597925 Score: 177
Period size: 63 Copynumber: 2.1 Consensus size: 64
51597780 TTACCATTGC
* * *
51597790 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCA-TTGCCATGCCTTGG
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCACCAGTT-CCATGCCTTGG
* * * *
51597853 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAGTTCCATGCCTTGT
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCACCAGTTCCATGCCTTGG
51597917 CATGGTCTT
1 CAT-GTCTT
51597926 ACTTGGTATC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
63 35 0.56
64 21 0.33
65 7 0.11
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (64 bp):
CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAAAACTCACCAGTTCCATGCCTTGG
Found at i:51599786 original size:27 final size:27
Alignment explanation
Indices: 51599763--51600023 Score: 333
Period size: 27 Copynumber: 9.7 Consensus size: 27
51599753 CGCTTTACAC
*
51599763 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
51599790 AATTATCGTTTTACCCTCGATTTTTAA
1 AATTACCGTTTTACCCTCGATTTATAA
* *
51599817 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
51599844 AATTACTGGTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTATAA
*
51599871 AATTATCGTTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTATAA
* ** *
51599898 ATTTACTATTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
*
51599925 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * * *
51599952 AATTACTGGTTTACCCTCGGTTTACAA
1 AATTACCGTTTTACCCTCGATTTATAA
* *
51599979 AATTATCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
*
51600006 AATTACTGTTTTACCCTC
1 AATTACCGTTTTACCCTC
51600024 AATTGTGAAA
Statistics
Matches: 195, Mismatches: 39, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 195 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTATAA
Found at i:51599794 original size:54 final size:54
Alignment explanation
Indices: 51599756--51600023 Score: 387
Period size: 54 Copynumber: 5.0 Consensus size: 54
51599746 GTACTCCCGC
* *
51599756 TTTACACAATTACCGTTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACT-GGTTTACCCTCGA
** *
51599810 TTTTTAAAATTACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
* **
51599864 TTTACAAAATTATCGTTTTACCCTCGATTTATA-AATTTACTATTTTACCCTCGA
1 TTTACAAAATTACCGTTTTACCCTCGATTTATAGAA-TTACTGGTTTACCCTCGA
** *
51599918 TTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGG
1 TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
* *
51599972 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTC
1 TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTC
51600024 AATTGTGAAA
Statistics
Matches: 190, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 185 0.97
55 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.09, T:0.43
Consensus pattern (54 bp):
TTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
Found at i:51599910 original size:108 final size:108
Alignment explanation
Indices: 51599756--51600037 Score: 453
Period size: 108 Copynumber: 2.6 Consensus size: 108
51599746 GTACTCCCGC
* * *
51599756 TTTACACAATTACCGTTTTACCCTCGATTTATAGAATTA-TCGTTTTACCCTCGATTTTTAAAAT
1 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACT-GTTTTACCCTCGATTTGTAAAAT
51599820 TACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
65 TACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
*
51599864 TTTACAAAATTATCGTTTTACCCTCGATTTATA-AATTTACTATTTTACCCTCGATTTGTAAAAT
1 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAA-TTACTGTTTTACCCTCGATTTGTAAAAT
* *
51599928 TACCGTTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGG
65 TACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
* *
51599972 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTC-AATTGTGAAATT
1 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATT
51600036 AC
66 AC
51600038 TAAAATACCC
Statistics
Matches: 162, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
107 14 0.09
108 145 0.90
109 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (108 bp):
TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTGTAAAATT
ACCATTTTACCCTCGATTTATAGAATTACTGGTTTACCCTCGA
Found at i:51600062 original size:27 final size:27
Alignment explanation
Indices: 51600032--51600226 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
51600022 TCAATTGTGA
*
51600032 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
51600059 AATTACTGAAATAACCCTATAGGGTTG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
51600086 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
51600113 AATTA-TCGAAATACCCCCGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
51600140 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
51600167 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * ** * *
51600194 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
51600221 AATTAC
1 AATTAC
51600227 CATTTTGCCC
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:51600464 original size:27 final size:26
Alignment explanation
Indices: 51600426--51600508 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
51600416 CGGAGGAAGC
51600426 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
51600453 GTTCTGGTGGCTTTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
51600479 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
51600506 GTT
1 GTT
51600509 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:51600628 original size:22 final size:22
Alignment explanation
Indices: 51600596--51600654 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
51600586 CCCGTTATTA
*
51600596 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
51600618 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
51600640 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
51600655 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:51600832 original size:25 final size:25
Alignment explanation
Indices: 51600804--51600888 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 25
51600794 TGCCACGTAT
* * *
51600804 TCTGTTAGGTGTCTTTGCCACATTA
1 TCTGTTAGGTGGCTCTGCCACAATA
*
51600829 TCTGATTTTGGTGGCTCTGCCACAATA
1 TCTG--TTAGGTGGCTCTGCCACAATA
* * * *
51600856 TCTGTATTTGGTGACTCTGTCACGATA
1 TCTG--TTAGGTGGCTCTGCCACAATA
51600883 TCTGTT
1 TCTGTT
51600889 CTGGCAGCCA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 6 0.12
27 43 0.88
ACGTcount: A:0.16, C:0.20, G:0.21, T:0.42
Consensus pattern (25 bp):
TCTGTTAGGTGGCTCTGCCACAATA
Found at i:51600841 original size:27 final size:27
Alignment explanation
Indices: 51600819--51600887 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
51600809 TAGGTGTCTT
*
51600819 TGCCACATTATCTG-ATTTTGGTGGCTC
1 TGCCACAATATCTGTA-TTTGGTGGCTC
*
51600846 TGCCACAATATCTGTATTTGGTGACTC
1 TGCCACAATATCTGTATTTGGTGGCTC
* *
51600873 TGTCACGATATCTGT
1 TGCCACAATATCTGT
51600888 TCTGGCAGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (27 bp):
TGCCACAATATCTGTATTTGGTGGCTC
Found at i:51601019 original size:6 final size:6
Alignment explanation
Indices: 51601010--51601135 Score: 107
Period size: 6 Copynumber: 20.8 Consensus size: 6
51601000 TTGCATTCAC
* * * * *
51601010 ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTTTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
51601059 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
51601107 ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
51601136 CATTTTGGTT
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
5 7 0.07
6 82 0.86
7 5 0.05
8 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:51601044 original size:30 final size:30
Alignment explanation
Indices: 51601010--51601135 Score: 156
Period size: 30 Copynumber: 4.4 Consensus size: 30
51601000 TTGCATTCAC
51601010 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
51601040 ATTCTGA---T--TT-TGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
51601065 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* * *
51601095 ATTCTGATTCTAATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
51601125 ATTCTGATTCT
1 ATTCTGATTCT
51601136 CATTTTGGTT
Statistics
Matches: 82, Mismatches: 7, Indels: 14
0.80 0.07 0.14
Matches are distributed among these distances:
24 4 0.05
25 17 0.21
27 1 0.01
28 1 0.01
30 55 0.67
31 4 0.05
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:51601065 original size:25 final size:24
Alignment explanation
Indices: 51601010--51601076 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
51601000 TTGCATTCAC
*
51601010 ATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTCACTA
* *
51601034 ATACTGATTCTGATTTTGTCACCTA
1 ATTCTGATTCTGATTCTGTCA-CTA
51601059 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
51601077 ATTCTGTTAC
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 18 0.49
25 19 0.51
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:51612759 original size:48 final size:49
Alignment explanation
Indices: 51612573--51612753 Score: 224
Period size: 49 Copynumber: 3.7 Consensus size: 49
51612563 ATGAGATCTC
* * *
51612573 GTGTAAGACCATGTCTAGGACATGGCATCGGTATCCTAGATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCCGAGATGAGAGCCA
* * *
51612622 GTGTAGGACCATG-CTTGGTACATGGCATCAGCATCCGAGATGAGAGCCA
1 GTGTAAGACCATGTC-TGGGACATGGCATCGGCATCCGAGATGAGAGCCA
* *
51612671 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TG-GTATGAGGGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCCGAG-ATGAGAGCCA
** *
51612719 GTGTAAGACCATAACTGGGATATGGCATCGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATC
51612754 AGTATGTGAT
Statistics
Matches: 114, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.01
48 42 0.37
49 70 0.61
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (49 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCCGAGATGAGAGCCA
Found at i:51612893 original size:90 final size:90
Alignment explanation
Indices: 51612799--51612966 Score: 212
Period size: 90 Copynumber: 1.9 Consensus size: 90
51612789 TGGCGTTGAT
* * * * * *
51612799 ATGAGACTTCGTGTAAGACCATGTCTAGGACATGGCATAGATGTG-AGGTCCCGTGTAAGACCAT
1 ATGAGACTTCATATAAGACCATATCTAGGACATGGCATAGATATGTA-GACCCATGTAAGACCAT
* *
51612863 GTCTGGGACATGGCATCGGCACCGAC
65 GTCAGGAACATGGCATCGGCACCGAC
* * * *
51612889 ATGAGACTTCATATAAGACCATATCTGGGATATGGCATCGATATGTAGACCTATGTAAGACCATG
1 ATGAGACTTCATATAAGACCATATCTAGGACATGGCATAGATATGTAGACCCATGTAAGACCATG
51612954 TCAGGAACATGGC
66 TCAGGAACATGGC
51612967 TTTGGCATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
90 64 0.98
91 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (90 bp):
ATGAGACTTCATATAAGACCATATCTAGGACATGGCATAGATATGTAGACCCATGTAAGACCATG
TCAGGAACATGGCATCGGCACCGAC
Found at i:51612915 original size:132 final size:137
Alignment explanation
Indices: 51612671--51612966 Score: 329
Period size: 132 Copynumber: 2.2 Consensus size: 137
51612661 ATGAGAGCCA
* *
51612671 GTGTAAGACCATGTCTGGGACATGGCATCGGCATTGGTATGAGGGCCAGTGTAAGACCATAACTG
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCATTGG-ATGAGGGCCAGTGTAAGACCATAACTG
* * * * * * * *
51612736 GGATATGGCATCGGCATCAGTATGTGATTTCACGTAAAACCACATCTGGGATATGGCGTTGATAT
65 GGACATGGCATCGGCACCAGCATGAGACTTCACATAAAACCACATCTGGGATATGGCATCGATAT
*
51612801 G-AGACTT
130 GTAGACCT
* * **
51612808 CGTGTAAGACCATGTCTAGGACATGGCAT-AG-A-T-G-TGAGGTCCCGTGTAAGACCATGTCTG
1 -GTGTAAGACCATGTCTAGGACATGGCATCAGCATTGGATGAGGGCCAGTGTAAGACCATAACTG
* * *
51612868 GGACATGGCATCGGCACC-GACATGAGACTTCATATAAGACCATATCTGGGATATGGCATCGATA
65 GGACATGGCATCGGCACCAG-CATGAGACTTCACATAAAACCACATCTGGGATATGGCATCGATA
51612932 TGTAGACCT
129 TGTAGACCT
*
51612941 ATGTAAGACCATGTC-AGGAACATGGC
1 GTGTAAGACCATGTCTAGG-ACATGGC
51612967 TTTGGCATTT
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
131 4 0.03
132 96 0.71
133 5 0.04
134 1 0.01
135 1 0.01
136 1 0.01
137 1 0.01
138 27 0.20
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (137 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCATTGGATGAGGGCCAGTGTAAGACCATAACTGG
GACATGGCATCGGCACCAGCATGAGACTTCACATAAAACCACATCTGGGATATGGCATCGATATG
TAGACCT
Found at i:51614692 original size:29 final size:29
Alignment explanation
Indices: 51614650--51614709 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
51614640 CCAAAATAAT
*
51614650 ATTTGATAGTGTGGTAATGATCATCAACG
1 ATTTGACAGTGTGGTAATGATCATCAACG
*
51614679 ATTTGACAGTGTGGTAATGATCCTCAACG
1 ATTTGACAGTGTGGTAATGATCATCAACG
51614708 AT
1 AT
51614710 CCCCGAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (29 bp):
ATTTGACAGTGTGGTAATGATCATCAACG
Found at i:51617464 original size:26 final size:27
Alignment explanation
Indices: 51617408--51617461 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
51617398 AATAGCATAA
*
51617408 GAAAAAAAGTTGAAATGAACAATATGG
1 GAAAAAAAGTTGAAATGAACAACATGG
51617435 GAAAAAAAGTTGAAATGAACAACATGG
1 GAAAAAAAGTTGAAATGAACAACATGG
51617462 AAATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.56, C:0.06, G:0.22, T:0.17
Consensus pattern (27 bp):
GAAAAAAAGTTGAAATGAACAACATGG
Found at i:51618154 original size:12 final size:12
Alignment explanation
Indices: 51618137--51618167 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51618127 AAGGAGAAGT
*
51618137 GTTTCTTGTTTC
1 GTTTCTTATTTC
51618149 GTTTCTTATTTC
1 GTTTCTTATTTC
51618161 GTTTCTT
1 GTTTCTT
51618168 CCGTTTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.13, T:0.68
Consensus pattern (12 bp):
GTTTCTTATTTC
Found at i:51618298 original size:12 final size:12
Alignment explanation
Indices: 51618281--51618312 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
51618271 GTTCCTTTGA
*
51618281 TTTATGTCTGTT
1 TTTATGTCTATT
51618293 TTTATGTCTATT
1 TTTATGTCTATT
51618305 TTTATGTC
1 TTTATGTC
51618313 CAAGTGCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.66
Consensus pattern (12 bp):
TTTATGTCTATT
Found at i:51622059 original size:18 final size:18
Alignment explanation
Indices: 51622036--51622071 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51622026 TTAACGAAAT
51622036 TTTCACACAATTATTCTA
1 TTTCACACAATTATTCTA
51622054 TTTCACACAATTATTCTA
1 TTTCACACAATTATTCTA
51622072 CCATACTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCACACAATTATTCTA
Found at i:51635340 original size:44 final size:41
Alignment explanation
Indices: 51635290--51635444 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 41
51635280 TGATTCTGTG
* *
51635290 TAAGACCACATCTGGGACATTGGCATCGACTTCTGTTTTACGTA
1 TAAGACCACGTCTGGGACATTGGCATCGA-TT-TGATTT-CGTA
* * * *
51635334 TAAGACCATGTCTGGGACATCGACATCGTATTTGATTTCGTG
1 TAAGACCACGTCTGGGACATTGGCATCG-ATTTGATTTCGTA
* * * *
51635376 TAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTACATG
1 TAAGACCAC-GTCTGGGACATTGGCATCGA--TTTGATTTCGTA
* *
51635419 TAAGATCACGTCTAGGACATTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
51635445 TGTAAATGTT
Statistics
Matches: 91, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 27 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACATTGGCATCGATTTGATTTCGTA
Found at i:51635403 original size:42 final size:41
Alignment explanation
Indices: 51635287--51635423 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 41
51635277 ATGTGATTCT
* *
51635287 GTGTAAGACCAC-ATCTGGGACATTGGCATCG-ACTTCTGTTTTAC
1 GTGTAAGACC-CTGTCTGGGACA-TGGCATCGTA-TT-TGATTT-C
* * *
51635331 GTATAAGACCATGTCTGGGACATCGACATCGTATTTGATTTC
1 GTGTAAGACCCTGTCTGGGACAT-GGCATCGTATTTGATTTC
* *
51635373 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTAC
1 GTGTAAGACCCTGTCTGGGACA-TGGCATCG-TATTTGATTTC
*
51635416 ATGTAAGA
1 GTGTAAGA
51635424 TCACGTCTAG
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
42 27 0.35
43 23 0.30
44 26 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
GTGTAAGACCCTGTCTGGGACATGGCATCGTATTTGATTTC
Found at i:51640744 original size:43 final size:43
Alignment explanation
Indices: 51640680--51640837 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
51640670 GGATTCCGAG
* *
51640680 ATATGA-TATCATGTAAAACCATGGCTGGGACATTGGCATCGAT
1 ATATGATTA-CATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
51640723 CTGA-GATTACGTGTAAGACCATATCTGGGACATTGGTATCG-T
1 AT-ATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * *
51640765 ATATGATTTCATATAAGACCCTGTCTGGGACAGTGGCATCGAT
1 ATATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
* * * * * *
51640808 ATTTAATAACATGCAATACCATATCTGGGA
1 ATATGATTACATGTAAGACCATGTCTGGGA
51640838 TATGTCATTG
Statistics
Matches: 88, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 32 0.36
43 52 0.59
44 3 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (43 bp):
ATATGATTACATGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:51645519 original size:80 final size:79
Alignment explanation
Indices: 51645397--51645592 Score: 304
Period size: 80 Copynumber: 2.5 Consensus size: 79
51645387 CCTTCAGAAT
* * *
51645397 TTAGCCGGATATAG-CAACTCGCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTAGCAC
1 TTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCAC
51645461 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
*
51645476 TTAGCCTGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTAGCAC
1 TTAGCC-GGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCAC
51645541 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
* *
51645556 TTAGCCCGGATATAATCACTAGAACAAATGCCTTCGG
1 TTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGG
51645593 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
79 6 0.06
80 99 0.92
81 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (79 bp):
TTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGACATAATCACTAGCACA
AATGCCTTCGGGAC
Found at i:51645599 original size:40 final size:40
Alignment explanation
Indices: 51645417--51645592 Score: 298
Period size: 40 Copynumber: 4.4 Consensus size: 40
51645407 ATAGCAACTC
* * *
51645417 GCACGAATGCCTTCGGGACTTAGCCCGGACATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
* *
51645457 GCACAAATGCCTTCGGGACTTAGCCTGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
51645497 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
51645537 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
*
51645577 GAACAAATGCCTTCGG
1 GCACAAATGCCTTCGG
51645593 ATCTTAGTCC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 130 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAATCACTA
Found at i:51647364 original size:28 final size:28
Alignment explanation
Indices: 51647318--51647381 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
51647308 TGACTGCACG
* *
51647318 TACTGATACTGTATTGGGCTTAA-GCCCA
1 TACTGATACTGCATAGGGC-TAAGGCCCA
*
51647346 TACTGTTACTGCATAGGGCTAAGGCCCA
1 TACTGATACTGCATAGGGCTAAGGCCCA
*
51647374 CACT-ATAC
1 TACTGATAC
51647382 AAATACTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (28 bp):
TACTGATACTGCATAGGGCTAAGGCCCA
Found at i:51655045 original size:28 final size:28
Alignment explanation
Indices: 51655005--51655067 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
51654995 GACTGCACGT
51655005 ACTGATACTGTATTA-GGCTTAA-GCCCAC
1 ACTGATACTGTA-TAGGGC-TAAGGCCCAC
*
51655033 ACTGTTACTGTATAGGGCTAAGGCCCAC
1 ACTGATACTGTATAGGGCTAAGGCCCAC
51655061 ACT-ATAC
1 ACTGATAC
51655068 AAATACTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (28 bp):
ACTGATACTGTATAGGGCTAAGGCCCAC
Found at i:51663444 original size:30 final size:29
Alignment explanation
Indices: 51663388--51663446 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
51663378 GAAAACCAGA
51663388 ATAAAGAAATCCAAGACATAGGAATCCAAG
1 ATAAAGAAATCCAAGACATA-GAATCCAAG
*
51663418 ATAAAGATATCCAAGGTACATA-AATCCAA
1 ATAAAGAAATCCAA-G-ACATAGAATCCAA
51663447 AATACCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 20 0.77
31 1 0.04
32 5 0.19
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (29 bp):
ATAAAGAAATCCAAGACATAGAATCCAAG
Found at i:51672706 original size:40 final size:40
Alignment explanation
Indices: 51672659--51672746 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
51672649 CTCGGCATCA
* *
51672659 CACACTTAATGC-CTCATATAGCCAAAGCTATTCCAATTCG
1 CACACTTAATGCTATC-TATAGCCAAAGCTATTCCAAATCG
* * * *
51672699 CACACTTAGTGCTATCTATTGCCGAAGCTATTTCAAATCG
1 CACACTTAATGCTATCTATAGCCAAAGCTATTCCAAATCG
51672739 CACACTTA
1 CACACTTA
51672747 GTGTCGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (40 bp):
CACACTTAATGCTATCTATAGCCAAAGCTATTCCAAATCG
Found at i:51676066 original size:39 final size:40
Alignment explanation
Indices: 51675952--51676134 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
51675942 GCTACTCGTT
* *
51675952 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
51675992 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
51676032 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
51676071 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
51676112 CAAA-GCCTTCAGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
51676135 AACATCATTC
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.61
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:51676120 original size:79 final size:79
Alignment explanation
Indices: 51675952--51676134 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 79
51675942 GCTACTCGTT
* *
51675952 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAA-GCCTTCGGG-CTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* *
51676017 ATTTAGTAACTCGCAC
64 ATATAGTAACTAGCAC
* * **
51676033 CAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
51676096 ATATGGTCACTTAGCA-
64 ATATAGTAAC-TAGCAC
*
51676112 CAAAGCCTTCAGGACTTAGCCCG
1 CAAAGCCTTC-GGGCTTAGCCCG
51676135 AACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.64
80 24 0.28
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAGCCTTCGGGCTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCAC
Found at i:51681291 original size:56 final size:54
Alignment explanation
Indices: 51681173--51681328 Score: 177
Period size: 56 Copynumber: 2.8 Consensus size: 54
51681163 ATAACATAGC
* * * *
51681173 ACGCCTCTCAACAGGGCTACATAAGAGCACCCGGACCTAGCATGCATCACATAACA
1 ACGCCTCTCAACAGGGCTACAT-A-AGCTCCAGGACCTAGCATGTACCACATAACA
* *
51681229 ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCGTGTACCACATAATTA
1 ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTACCACATAA-CA
* ** * *
51681284 CATGCCTCTCAATGGGGCTACACAAGCTCCTGGACCTAGCATGTA
1 -ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTA
51681329 TCATGTCATC
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 24 0.28
55 2 0.02
56 60 0.70
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (54 bp):
ACGCCTCTCAACAGGGCTACATAAGCTCCAGGACCTAGCATGTACCACATAACA
Found at i:51693780 original size:42 final size:42
Alignment explanation
Indices: 51693677--51693825 Score: 120
Period size: 43 Copynumber: 3.5 Consensus size: 42
51693667 GATGTGATAT
* ** * *
51693677 CGTGTAAGACCATGGCTGAGACATTGGCATCGATCTGAGATTA
1 CGTGTAAAACCATATCTGGGACATTGGCATCGATAT-AGATTA
* * *
51693720 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATTT
1 CGTGTAAAACCATATCTGGGACATTGGCATCGATATA-GATTA
* * * * * *
51693762 CGTGTAAAACCCTATCTGGGATAGTGGCATCAATATTTGATAA
1 CGTGTAAAACCATATCTGGGACATTGGCATCGATA-TAGATTA
* *
51693805 CATGTAAGACCATATCTGGGA
1 CGTGTAAAACCATATCTGGGA
51693826 TATGACATTG
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 32 0.37
43 53 0.61
44 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
CGTGTAAAACCATATCTGGGACATTGGCATCGATATAGATTA
Found at i:51697228 original size:21 final size:24
Alignment explanation
Indices: 51697184--51697234 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
51697174 AAATGGATTT
*
51697184 GTATGATTTGAGTTCATGAAATTG-
1 GTATGATTTGAG-TCATAAAATTGA
51697208 GTATGATTTGA-T-ATAAAATTGA
1 GTATGATTTGAGTCATAAAATTGA
51697230 GTATG
1 GTATG
51697235 GAATTGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 6 0.24
24 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (24 bp):
GTATGATTTGAGTCATAAAATTGA
Found at i:51701679 original size:70 final size:76
Alignment explanation
Indices: 51701548--51701763 Score: 230
Period size: 70 Copynumber: 2.8 Consensus size: 76
51701538 TTTGAATGAT
* * * * *
51701548 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 ATCCGGGCTAAGT-CCGAAGGCATTGTGC-GAGTTA-CATA-ACGGGCTAAG-TCCCGAAGGCAT
51701612 TTGTGCGAGATACT-A
61 TTGTGCGAGATACTAA
*
51701627 ATCC-GGCTAAGT-CGAAGGCATTGTGCGAG-TAC-TAA-TGGCTAAGTCCCGAAGGCATTTGTG
1 ATCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACATAACGGGCTAAGTCCCGAAGGCATTTGTG
*
51701687 CGAGTTACTAA
66 CGAGATACTAA
* *
51701698 ATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 ATCCGGGCTAAGT-CCGAAGGCATTGTGCGAGTTAC-ATAA-CGGGCTAAGTCCCGAAGGCATTT
51701763 G
63 G
51701764 AACGAGAGCT
Statistics
Matches: 117, Mismatches: 10, Indels: 20
0.80 0.07 0.14
Matches are distributed among these distances:
69 1 0.01
70 29 0.25
71 5 0.04
72 9 0.08
73 1 0.01
74 18 0.15
75 5 0.04
76 13 0.11
77 3 0.03
78 8 0.07
79 25 0.21
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (76 bp):
ATCCGGGCTAAGTCCGAAGGCATTGTGCGAGTTACATAACGGGCTAAGTCCCGAAGGCATTTGTG
CGAGATACTAA
Found at i:51701711 original size:40 final size:40
Alignment explanation
Indices: 51701548--51701763 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
51701538 TTTGAATGAT
* * * *
51701548 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
* *
51701588 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-A
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
51701627 ATCC-GGCTAAGT--CGAAGGCA-TTGTGCGAG-TACT-A
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
51701661 AT---GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
51701698 ATCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
51701738 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
51701764 AACGAGAGCT
Statistics
Matches: 154, Mismatches: 10, Indels: 24
0.82 0.05 0.13
Matches are distributed among these distances:
32 8 0.05
34 15 0.10
35 18 0.12
36 12 0.08
37 4 0.03
38 6 0.04
39 38 0.25
40 45 0.29
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:51709623 original size:40 final size:40
Alignment explanation
Indices: 51709435--51709659 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
51709425 TTGAATGATG
* * * *
51709435 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
51709475 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
51709514 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
51709554 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51709594 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51709635 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51709660 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 117 0.70
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51715081 original size:11 final size:11
Alignment explanation
Indices: 51715061--51715092 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
51715051 CACAAGCTCT
51715061 ATCCAGCTCAA
1 ATCCAGCTCAA
*
51715072 ATCTAGCTCAA
1 ATCCAGCTCAA
51715083 ATCCAGCTCA
1 ATCCAGCTCA
51715093 TTCGAGCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.34, C:0.34, G:0.09, T:0.22
Consensus pattern (11 bp):
ATCCAGCTCAA
Found at i:51715231 original size:30 final size:31
Alignment explanation
Indices: 51715155--51715243 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 31
51715145 TTCAACTCAC
* *
51715155 GAGCTAAACCTTAGCTCAACTTCAGCT-TAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* * *
51715185 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
* *
51715216 G-GCTAAAGCTTAGCTC-ATTTTAGCTCAA
1 GAGCTAAACCTTAGCTCAACTTTAGCTCAA
51715244 ACCCGATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 11 0.23
30 34 0.71
31 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTCAAG
Found at i:51717833 original size:6 final size:5
Alignment explanation
Indices: 51717809--51717864 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
51717799 ACGAGAAAAC
*
51717809 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
51717856 AAAGA AAAG
1 AAAGA AAAG
51717865 TAAGGCAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 24 0.56
6 14 0.33
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:51717840 original size:15 final size:14
Alignment explanation
Indices: 51717809--51717864 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 14
51717799 ACGAGAAAAC
51717809 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
51717825 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
51717840 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
51717856 AAAGAAAAG
1 AAAGAAAAG
51717865 TAAGGCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 11 0.31
16 16 0.44
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:51718017 original size:18 final size:19
Alignment explanation
Indices: 51717981--51718019 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
51717971 TTTGAGAGAG
*
51717981 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
51718000 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
51718018 AA
1 AA
51718020 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:51720053 original size:11 final size:11
Alignment explanation
Indices: 51720037--51720068 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
51720027 CATGAGCTCC
51720037 ATCCAGCTCAA
1 ATCCAGCTCAA
51720048 ATCCAGCTCAA
1 ATCCAGCTCAA
51720059 ATCCAGCTCA
1 ATCCAGCTCA
51720069 TTTGAGCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.34, C:0.38, G:0.09, T:0.19
Consensus pattern (11 bp):
ATCCAGCTCAA
Found at i:51725265 original size:13 final size:13
Alignment explanation
Indices: 51725247--51725271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51725237 TACTAAATTT
51725247 TCATGGATTCAAA
1 TCATGGATTCAAA
51725260 TCATGGATTCAA
1 TCATGGATTCAA
51725272 TATACCATTA
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):
TCATGGATTCAAA
Found at i:51726563 original size:23 final size:23
Alignment explanation
Indices: 51726531--51726590 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
51726521 GGTTATGCCT
*
51726531 CACACGCCCGTGTGGAGGCAAAG
1 CACACACCCGTGTGGAGGCAAAG
*
51726554 CACACACCCGTATGGAGGCAAAG
1 CACACACCCGTGTGGAGGCAAAG
51726577 CACA-AGCCCGTGTG
1 CACACA-CCCGTGTG
51726591 CTTAGGGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.28, C:0.32, G:0.30, T:0.10
Consensus pattern (23 bp):
CACACACCCGTGTGGAGGCAAAG
Found at i:51735232 original size:7 final size:7
Alignment explanation
Indices: 51735222--51735249 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
51735212 TTTTTAAAGG
51735222 TTTTTAA
1 TTTTTAA
51735229 TTTTTAA
1 TTTTTAA
51735236 TTTTTAA
1 TTTTTAA
51735243 TTTTTAA
1 TTTTTAA
51735250 GAATTAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:51742389 original size:69 final size:69
Alignment explanation
Indices: 51742238--51742461 Score: 191
Period size: 69 Copynumber: 3.3 Consensus size: 69
51742228 AATTTATATG
** * * * * *
51742238 CGAACCTTGGTTTTACAACTGGGAGCTTTGCTCTTGTTAACTGTGTTGGAGGTCGAGGTTCTTCA
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
* *
51742303 CTTG
66 CCTA
* * * * **
51742307 CGAACTTTGATTTTACAGCTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGCGGCTCTTTG
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
51742372 CCTA
66 CCTA
* * ** * ** * **
51742376 CGATCCTTCATTTTACAACTAGGAGTTTTGCTATTACTAA-TGTGTTGGAGGTC-ACGATTCTTC
1 CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGA-GGCTCTTC
51742439 ACCTA
65 ACCTA
*
51742444 CGAACCTTAATTTTACAA
1 CGAACCTTCATTTTACAA
51742462 ATAATAATTT
Statistics
Matches: 123, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
68 37 0.30
69 86 0.70
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (69 bp):
CGAACCTTCATTTTACAACTGGGACCTTTGCTCTCGCTAACTGTGGTGGAGGTCGAGGCTCTTCA
CCTA
Found at i:51749390 original size:25 final size:25
Alignment explanation
Indices: 51749356--51749406 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
51749346 TGATTACAAC
51749356 ATCATGATAAACAGTTGTAGTTCAT
1 ATCATGATAAACAGTTGTAGTTCAT
51749381 ATCATGATAAACAGTTGTAGTTCAT
1 ATCATGATAAACAGTTGTAGTTCAT
51749406 A
1 A
51749407 GTATTGTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (25 bp):
ATCATGATAAACAGTTGTAGTTCAT
Found at i:51750015 original size:7 final size:7
Alignment explanation
Indices: 51750003--51750035 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
51749993 TTCACTCCAA
51750003 GTGCAGT
1 GTGCAGT
51750010 GTGCAGT
1 GTGCAGT
51750017 GTGCAGT
1 GTGCAGT
51750024 GTGCAGT
1 GTGCAGT
51750031 GTGCA
1 GTGCA
51750036 CCAAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.42, T:0.27
Consensus pattern (7 bp):
GTGCAGT
Found at i:51750234 original size:19 final size:18
Alignment explanation
Indices: 51750206--51750241 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
51750196 TTTTAATGCT
51750206 AATATAATTATTGTAATC
1 AATATAATTATTGTAATC
*
51750224 AATATTAATTATTTTAAT
1 AATA-TAATTATTGTAAT
51750242 TATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATAATTATTGTAATC
Found at i:51751031 original size:21 final size:21
Alignment explanation
Indices: 51750999--51751050 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
51750989 AATAAAATTA
51750999 AAATAAT-AAAAAGTAAAAAT
1 AAATAATAAAAAAGTAAAAAT
* * *
51751019 AATTAATAAAAAAGTTAATAT
1 AAATAATAAAAAAGTAAAAAT
51751040 AAATAATAAAA
1 AAATAATAAAA
51751051 TTTAAGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 6 0.22
21 21 0.78
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (21 bp):
AAATAATAAAAAAGTAAAAAT
Found at i:51751285 original size:35 final size:34
Alignment explanation
Indices: 51751239--51751310 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
51751229 CCTGTATACC
51751239 TTTCTAATTATT-TA-ATGATATTTTAGCAATTTTT
1 TTTCTAATTATTGTACAT-A-ATTTTAGCAATTTTT
*
51751273 TTTCTATATTATTGGTACATAATTTTAGTAATTTTT
1 TTTCTA-ATTATT-GTACATAATTTTAGCAATTTTT
51751309 TT
1 TT
51751311 AACCTGAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 6 0.18
35 6 0.18
36 16 0.48
37 3 0.09
38 2 0.06
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.60
Consensus pattern (34 bp):
TTTCTAATTATTGTACATAATTTTAGCAATTTTT
Found at i:51751857 original size:24 final size:24
Alignment explanation
Indices: 51751830--51751881 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
51751820 TTAGTAAGTC
*
51751830 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
51751854 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
51751878 AAAT
1 AAAT
51751882 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:51753855 original size:21 final size:21
Alignment explanation
Indices: 51753831--51753872 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51753821 GATACCTGGT
51753831 AAAATGTATCAATAATTTTTG
1 AAAATGTATCAATAATTTTTG
* *
51753852 AAAATGTATTAATACTTTTTG
1 AAAATGTATCAATAATTTTTG
51753873 TGTTTGTTTG
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:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (21 bp):
AAAATGTATCAATAATTTTTG
Found at i:51754118 original size:20 final size:20
Alignment explanation
Indices: 51754093--51754135 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
51754083 GGGAGTAGTT
* *
51754093 TTTCAATTGATTTAAAAATG
1 TTTCAATTGAGTTAAAAAAG
51754113 TTTCAATTGAGTTAAAAAAG
1 TTTCAATTGAGTTAAAAAAG
51754133 TTT
1 TTT
51754136 AAACTGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTCAATTGAGTTAAAAAAG
Found at i:51754431 original size:27 final size:27
Alignment explanation
Indices: 51754400--51754469 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
51754390 TAAAGGTCAA
* *
51754400 TTTGAATCAAAGACTT-GATTTTATGAT
1 TTTGAAACAAAGACTTGGA-TTTATAAT
*
51754427 TTTGAAACAAAAACTTGGATTTATAAT
1 TTTGAAACAAAGACTTGGATTTATAAT
51754454 TTTGAAACAAAGACTT
1 TTTGAAACAAAGACTT
51754470 AAGTGTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.95
28 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (27 bp):
TTTGAAACAAAGACTTGGATTTATAAT
Found at i:51755590 original size:24 final size:22
Alignment explanation
Indices: 51755563--51755612 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
51755553 ATTAGGTGTG
51755563 TCTTTAGGGTACCTTAAGAGAATC
1 TCTTTAGGGTACC-TAA-AGAATC
*
51755587 TCTTTAGGGTACCTAAAGATTC
1 TCTTTAGGGTACCTAAAGAATC
51755609 TCTT
1 TCTT
51755613 AATGGTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 9 0.36
23 3 0.12
24 13 0.52
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (22 bp):
TCTTTAGGGTACCTAAAGAATC
Found at i:51759395 original size:43 final size:43
Alignment explanation
Indices: 51759334--51759415 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
51759324 CATGAATCGT
* *
51759334 ATCCATCATGAACTCAGACCACTGAACGAGCTCAGATGCTTGC
1 ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTTGC
* *
51759377 ATCCATAATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGC
51759416 CACATATCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCACTCAACGAGCTCAGATGCTTGC
Found at i:51761881 original size:23 final size:23
Alignment explanation
Indices: 51761854--51761903 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
51761844 TTGTACATTC
51761854 CTTTTTTCTTCACTTCATTCTCT
1 CTTTTTTCTTCACTTCATTCTCT
51761877 CTTTTTTCTTCACTTCATTCTCT
1 CTTTTTTCTTCACTTCATTCTCT
51761900 CTTT
1 CTTT
51761904 CTCTTTGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.30, G:0.00, T:0.62
Consensus pattern (23 bp):
CTTTTTTCTTCACTTCATTCTCT
Found at i:51764244 original size:43 final size:45
Alignment explanation
Indices: 51764125--51764245 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 45
51764115 CGAGATGAGG
* * * *
51764125 TTACATGTAAGACTATGTCTGGGACATTGGCAT--TGTACTGTGA
1 TTACGTGTAAGACAATGTCTAGGACATTGGCATCATGTACTATGA
* *
51764168 TTACGTGTAAGACCATGTCTAAGACATTGGCATCAT-TA-TATGA
1 TTACGTGTAAGACAATGTCTAGGACATTGGCATCATGTACTATGA
* *
51764211 TTTCGTGTGAGACAATGTCTAGGACATTGGCATCA
1 TTACGTGTAAGACAATGTCTAGGACATTGGCATCA
51764246 GTGTGAGATA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 64 0.96
44 2 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (45 bp):
TTACGTGTAAGACAATGTCTAGGACATTGGCATCATGTACTATGA
Found at i:51764752 original size:33 final size:33
Alignment explanation
Indices: 51764713--51764790 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
51764703 TAAGTTGCCG
* * *
51764713 AATAAGACCATAGCTGGGCTATGGCAATCAAAT
1 AATAAGACCATAGCTAGACTATGGAAATCAAAT
* *
51764746 AATAAGACCATAGCTAGACTATGGAAATCGACT
1 AATAAGACCATAGCTAGACTATGGAAATCAAAT
*
51764779 AAAAAGACCATA
1 AATAAGACCATA
51764791 ACCAGGTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (33 bp):
AATAAGACCATAGCTAGACTATGGAAATCAAAT
Found at i:51766409 original size:20 final size:20
Alignment explanation
Indices: 51766381--51766427 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
51766371 TACAATCATA
* *
51766381 TCCAATTCAAATGACCATTT
1 TCCATTTCAAATAACCATTT
*
51766401 TCCATTTCATATAACCATTT
1 TCCATTTCAAATAACCATTT
51766421 TCCATTT
1 TCCATTT
51766428 TGTATATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.43
Consensus pattern (20 bp):
TCCATTTCAAATAACCATTT
Found at i:51766433 original size:20 final size:20
Alignment explanation
Indices: 51766394--51766453 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
51766384 AATTCAAATG
51766394 ACCATTTTCCATTTCATATA
1 ACCATTTTCCATTTCATATA
**
51766414 ACCATTTTCCATTTTGTATA
1 ACCATTTTCCATTTCATATA
* * *
51766434 TCCAATTGCCATTTCATATA
1 ACCATTTTCCATTTCATATA
51766454 TCTGATTTCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.03, T:0.45
Consensus pattern (20 bp):
ACCATTTTCCATTTCATATA
Found at i:51782876 original size:10 final size:10
Alignment explanation
Indices: 51782861--51782892 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
51782851 TAAATACATT
51782861 TAATTAAAGA
1 TAATTAAAGA
51782871 TAATTAAAGA
1 TAATTAAAGA
51782881 TAATTAAA-A
1 TAATTAAAGA
51782890 TAA
1 TAA
51782893 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:51782918 original size:27 final size:26
Alignment explanation
Indices: 51782888--51782950 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
51782878 AGATAATTAA
51782888 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
51782915 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
51782942 AATATAAAT
1 AATA-AAAT
51782951 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:51782937 original size:15 final size:15
Alignment explanation
Indices: 51782917--51782946 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51782907 ATAATCCTAA
*
51782917 TAATTATCTTAATAT
1 TAATTATCCTAATAT
51782932 TAATTATCCTAATAT
1 TAATTATCCTAATAT
51782947 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:51792439 original size:13 final size:13
Alignment explanation
Indices: 51792421--51792446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51792411 GTAGGATCTG
51792421 GATTTCATTGTGA
1 GATTTCATTGTGA
51792434 GATTTCATTGTGA
1 GATTTCATTGTGA
51792447 CAAGCAAGAA
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:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
GATTTCATTGTGA
Found at i:51797524 original size:18 final size:18
Alignment explanation
Indices: 51797501--51797539 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
51797491 GAGAAAATTA
51797501 ATTTGGTGAACTTTTTAT
1 ATTTGGTGAACTTTTTAT
51797519 ATTTGGTGAACTTTTTAT
1 ATTTGGTGAACTTTTTAT
51797537 ATT
1 ATT
51797540 GTTTTACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (18 bp):
ATTTGGTGAACTTTTTAT
Found at i:51811611 original size:40 final size:40
Alignment explanation
Indices: 51811516--51811733 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
51811506 TGGATGATAA
*
51811516 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
51811557 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51811597 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51811637 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51811677 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
51811716 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51811734 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 12, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 104 0.64
41 24 0.15
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Done.