Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 190 of 276
Found at i:62652379 original size:28 final size:28
Alignment explanation
Indices: 62652348--62652405 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
62652338 TAGGGGAAGT
62652348 AAAAATGGTCTTTCTCATTCTATATGTC
1 AAAAATGGTCTTTCTCATTCTATATGTC
62652376 AAAAATGGTCTTTCTCATTCTATATGTC
1 AAAAATGGTCTTTCTCATTCTATATGTC
62652404 AA
1 AA
62652406 TGACATTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (28 bp):
AAAAATGGTCTTTCTCATTCTATATGTC
Found at i:62654482 original size:6 final size:6
Alignment explanation
Indices: 62654471--62654511 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
62654461 TATTTTCACC
62654471 AAAATG AAAATG AAAATG AAAATG AAAATAG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
62654512 TAATTTGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 25 0.76
7 4 0.12
8 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:62660366 original size:48 final size:48
Alignment explanation
Indices: 62660087--62660369 Score: 272
Period size: 48 Copynumber: 5.9 Consensus size: 48
62660077 ATAGGGTAGG
* *
62660087 ATGTCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCACA-CATCA
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TCA
* **
62660135 A-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATTT
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCA
* * * *
62660184 GTGTCGATGCCATGTCCCTGACATGGTCTTACACT-G-ACACATCTC-
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
* ** * * *
62660229 ATAGTCGATACCATGTCTTAGACATGGTCTTACACTAGCTCAT-AACTCG
1 AT-GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATCTCA
* * * * *
62660278 AGGCCGATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCATCTCA
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
* * *
62660326 ATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCAT
1 ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
62660370 AATGTGGCTG
Statistics
Matches: 193, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 33 0.17
47 39 0.20
48 83 0.43
49 5 0.03
50 32 0.17
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
ATGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA
Found at i:62662824 original size:21 final size:19
Alignment explanation
Indices: 62662799--62662843 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
62662789 AAAGAAATAC
* *
62662799 TAACTTGTTTTAAAATAGTT
1 TAACTTGATTAAAAAT-GTT
62662819 GTAACTTGATTAAAAATGTT
1 -TAACTTGATTAAAAATGTT
62662839 TAACT
1 TAACT
62662844 CAATTGGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (19 bp):
TAACTTGATTAAAAATGTT
Found at i:62665980 original size:28 final size:28
Alignment explanation
Indices: 62665914--62665983 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
62665904 ATGGCCTGAC
*
62665914 ACACGCCCGTATCCCTCACACGGCCATA
1 ACACGCCCGTGTCCCTCACACGGCCATA
* *
62665942 ACATGCCCGTGTCCCTCACATC-GCCATG
1 ACACGCCCGTGTCCCTCACA-CGGCCATA
62665970 ACACGCCCGTGTCC
1 ACACGCCCGTGTCC
62665984 TAACCCATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 36 0.97
29 1 0.03
ACGTcount: A:0.20, C:0.46, G:0.17, T:0.17
Consensus pattern (28 bp):
ACACGCCCGTGTCCCTCACACGGCCATA
Found at i:62667131 original size:46 final size:46
Alignment explanation
Indices: 62667082--62667261 Score: 156
Period size: 46 Copynumber: 3.9 Consensus size: 46
62667072 TACACTGACA
*
62667082 CATCTCATA-GCCGATGCATGTCCCAAACATATCTTACACTGGCTT
1 CATCTCATAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
* * * * *
62667127 ACATCTC-TAGGCCGATGCATGTCTCAGACATGCCTTACAGTAGCTCT
1 -CATCTCATAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCT-T
* * *
62667174 CGTCTCA-ATGCCGATGCCATGTCCCAAAAATGGTCTTACACTGGC-T
1 CATCTCATAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTT
* *
62667220 C-TCATAAT-GTGACTGATGCATGTCCCAAACATGTCTTACACT
1 CATC-TCATAG-G-CCGATGCATGTCCCAAACATGTCTTACACT
62667262 AGCACACAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
45 4 0.04
46 62 0.58
47 26 0.24
48 15 0.14
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
CATCTCATAGGCCGATGCATGTCCCAAACATGTCTTACACTGGCTT
Found at i:62670966 original size:21 final size:21
Alignment explanation
Indices: 62670925--62670967 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62670915 TTATTATAAT
* *
62670925 TAACATTATTTTAATATAAAA
1 TAACATTAATTTAATAGAAAA
62670946 TAACATATAATTTAAT-GAAAA
1 TAACAT-TAATTTAATAGAAAA
62670967 T
1 T
62670968 TCATTCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
TAACATTAATTTAATAGAAAA
Found at i:62681936 original size:72 final size:72
Alignment explanation
Indices: 62681815--62681954 Score: 244
Period size: 72 Copynumber: 1.9 Consensus size: 72
62681805 CTGACAAAAT
* *
62681815 AGTTACTCAGGTTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAAACAGTCACCACTAATCA
1 AGTTACTCAAGTTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAAACAATCACCACTAATCA
62681880 TTTCCGC
66 TTTCCGC
* *
62681887 AGTTACTCAAGTTTCAATTCAGTCTCTCAACTTTCGAAAAATAATAAAACAATCACCACTAATCA
1 AGTTACTCAAGTTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAAACAATCACCACTAATCA
62681952 TTT
66 TTT
62681955 TCCGTTACTG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.30
Consensus pattern (72 bp):
AGTTACTCAAGTTTCAATTCAGTCACTCAACTTTCGAAAAATAACAAAACAATCACCACTAATCA
TTTCCGC
Found at i:62683603 original size:34 final size:35
Alignment explanation
Indices: 62683538--62683610 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
62683528 ATAGGTAAGC
62683538 TTATATTGAACTTGATTATTCGATTACATGTGAA-
1 TTATATTGAACTTGATTATTCGATTACATGTGAAG
* **
62683572 TTATATTGAACTT-ATATATTCGGTTTTATGTGAAG
1 TTATATTGAACTTGAT-TATTCGATTACATGTGAAG
62683607 TTAT
1 TTAT
62683611 TTTGCATGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 2 0.06
34 28 0.82
35 4 0.12
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (35 bp):
TTATATTGAACTTGATTATTCGATTACATGTGAAG
Found at i:62686422 original size:46 final size:46
Alignment explanation
Indices: 62686372--62686544 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
62686362 TGGTTGAGCA
62686372 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
62686418 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
62686463 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
62686511 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62686545 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 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:62686528 original size:93 final size:93
Alignment explanation
Indices: 62686369--62686539 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
62686359 GGATGGTTGA
* *
62686369 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62686434 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
62686462 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62686527 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
62686540 ACTTAGGGGT
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:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:62693990 original size:40 final size:40
Alignment explanation
Indices: 62693935--62694153 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
62693925 CGGATGATAA
*
62693935 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCC
*
62693975 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCC
*
62694015 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCC
*
62694055 CGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCC
*
62694095 CGAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCG-AGTGACTAAT-TCCGGGCTAAGTCC
*
62694135 CGAAGGCATTTGAGCGAGT
1 CGAAGGCATTTGTGCGAGT
62694154 AGCTATATCC
Statistics
Matches: 172, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
39 4 0.02
40 166 0.97
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCC
Found at i:62694160 original size:40 final size:39
Alignment explanation
Indices: 62693935--62694179 Score: 327
Period size: 40 Copynumber: 6.2 Consensus size: 39
62693925 CGGATGATAA
*
62693935 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTAATTCCGGGCTAAGTCC
*
62693975 CGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTAATTCCGGGCTAAGTCC
62694015 CGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTAATTCCGGGCTAAGTCC
62694055 CGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTAAT-TCCGGGCTAAGTCC
*
62694095 CGAAGGCATTTGTGCGAACTACT-ATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCG-AGTACTAAT-TCCGGGCTAAGTCC
* * *
62694135 CGAAGGCATTTGAGCGAGTAGCT-ATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTA-CTAAT-TCCGGGCTAAGTCC
62694174 CGAAGG
1 CGAAGG
62694180 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
39 19 0.10
40 174 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTACTAATTCCGGGCTAAGTCC
Found at i:62699344 original size:24 final size:25
Alignment explanation
Indices: 62699299--62699346 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
62699289 AATAAATGAT
* *
62699299 ATGTGATATTATTATTTAGTTGAAG
1 ATGTGATATGATTATTGAGTTGAAG
*
62699324 ATGTG-TATGATTATTGGGTTGAA
1 ATGTGATATGATTATTGAGTTGAA
62699347 AATATATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (25 bp):
ATGTGATATGATTATTGAGTTGAAG
Found at i:62703987 original size:23 final size:23
Alignment explanation
Indices: 62703957--62704004 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
62703947 AGTTGAACTA
62703957 TAGGTTACATGTGATGTTTTATT
1 TAGGTTACATGTGATGTTTTATT
62703980 TAGGTTACATGTGATGTTTTATT
1 TAGGTTACATGTGATGTTTTATT
62704003 TA
1 TA
62704005 ACTTCTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.04, G:0.21, T:0.52
Consensus pattern (23 bp):
TAGGTTACATGTGATGTTTTATT
Found at i:62706631 original size:16 final size:16
Alignment explanation
Indices: 62706610--62706641 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
62706600 AGAATGGAGT
62706610 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
62706626 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
62706642 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:62710114 original size:25 final size:26
Alignment explanation
Indices: 62710072--62710125 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
62710062 AAAAGATAGG
* * *
62710072 AAACAAAATAAGTCTAAG-AAAATAA
1 AAACAAAACAACTATAAGAAAAATAA
62710097 AAACAAAACAACTATAAGCAAAAATAA
1 AAACAAAACAACTATAAG-AAAAATAA
62710124 AA
1 AA
62710126 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.62
27 9 0.38
ACGTcount: A:0.70, C:0.11, G:0.06, T:0.13
Consensus pattern (26 bp):
AAACAAAACAACTATAAGAAAAATAA
Found at i:62711852 original size:16 final size:15
Alignment explanation
Indices: 62711794--62711853 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
62711784 AAAAAGCATG
*
62711794 ATAAATACAATAAAA
1 ATAAATAAAATAAAA
*
62711809 ATAAATAAGAATAGAA
1 ATAAATAA-AATAAAA
62711825 ATAAGAGT--AATAATAA
1 ATAA-A-TAAAATAA-AA
62711841 ATAAATAAAATAA
1 ATAAATAAAATAA
62711854 CGAGTGAGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
14 1 0.03
15 12 0.33
16 21 0.58
17 1 0.03
18 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (15 bp):
ATAAATAAAATAAAA
Found at i:62716285 original size:168 final size:168
Alignment explanation
Indices: 62716104--62716439 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
62716094 TTGTTTCTCG
62716104 ATTTTGCGCTTCTAGTAGTATATGTCGAGTTATTTTTCGCCCTTTGTGCAAATCTATCGAAAATA
1 ATTTTGCGCTTCTAGTAGTATATGTCGAGTTATTTTTCGCCCTTTGTGCAAATCTATCGAAAATA
62716169 ATCAAAATTAATCAAAATTAATTATAAAATTAATTAAATTTCATTATTTTAATAATTTAAGTACA
66 ATCAAAATTAATCAAAATTAATTATAAAATTAATTAAATTTCATTATTTTAATAATTTAAGTACA
62716234 AAATAATTATTTTATAATAATTATATATTTTTCGACGA
131 AAATAATTATTTTATAATAATTATATATTTTTCGACGA
62716272 ATTTTGCGCTTCTAGTAGTATATGTCGAGTTATTTTTCGCCCTTTGTGCAAATCTATCGAAAATA
1 ATTTTGCGCTTCTAGTAGTATATGTCGAGTTATTTTTCGCCCTTTGTGCAAATCTATCGAAAATA
62716337 ATCAAAATTAATCAAAATTAATTATAAAATTAATTAAATTTCATTATTTTAATAATTTAAGTACA
66 ATCAAAATTAATCAAAATTAATTATAAAATTAATTAAATTTCATTATTTTAATAATTTAAGTACA
62716402 AAATAATTATTTTATAATAATTATATATTTTTCGACGA
131 AAATAATTATTTTATAATAATTATATATTTTTCGACGA
62716440 GAATTTTACC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (168 bp):
ATTTTGCGCTTCTAGTAGTATATGTCGAGTTATTTTTCGCCCTTTGTGCAAATCTATCGAAAATA
ATCAAAATTAATCAAAATTAATTATAAAATTAATTAAATTTCATTATTTTAATAATTTAAGTACA
AAATAATTATTTTATAATAATTATATATTTTTCGACGA
Found at i:62719966 original size:16 final size:15
Alignment explanation
Indices: 62719945--62719985 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
62719935 AAAGTTGATA
62719945 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
62719961 ATAATTGATATAATT
1 ATAATTAATATAATT
62719976 ATATATTAAT
1 ATA-ATTAAT
62719986 GATTATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:62720856 original size:34 final size:34
Alignment explanation
Indices: 62720809--62720879 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
62720799 AAAGACCAAC
*
62720809 CTATAGGGTAACATCCCTAAAGGTGTCTTGTATG
1 CTATAGGGCAACATCCCTAAAGGTGTCTTGTATG
62720843 CTATAGGGCAACATCCCTAAAGGTGTCTTGTATG
1 CTATAGGGCAACATCCCTAAAGGTGTCTTGTATG
62720877 CTA
1 CTA
62720880 ACCTATAGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (34 bp):
CTATAGGGCAACATCCCTAAAGGTGTCTTGTATG
Found at i:62723672 original size:15 final size:15
Alignment explanation
Indices: 62723652--62723680 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62723642 GGCCTTCCTC
62723652 GGATGATTGGCACTA
1 GGATGATTGGCACTA
62723667 GGATGATTGGCACT
1 GGATGATTGGCACT
62723681 TCTTTGTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (15 bp):
GGATGATTGGCACTA
Found at i:62724718 original size:10 final size:10
Alignment explanation
Indices: 62724696--62724742 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
62724686 AAATCAGTTG
62724696 AAAA-TAATT
1 AAAATTAATT
*
62724705 AAAATTAATC
1 AAAATTAATT
62724715 AAAATTAATTAT
1 AAAATTAA-T-T
62724727 AAAATTAATT
1 AAAATTAATT
62724737 AAAATT
1 AAAATT
62724743 CAATGTGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 4 0.12
10 19 0.58
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTAATT
Found at i:62728284 original size:16 final size:16
Alignment explanation
Indices: 62728248--62728284 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
62728238 GTCGAAATGC
62728248 CGAAATACCGAAAAAT
1 CGAAATACCGAAAAAT
* *
62728264 TGAAATACCGAAAAGT
1 CGAAATACCGAAAAAT
62728280 CGAAA
1 CGAAA
62728285 GTTTAGCTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.16, G:0.16, T:0.14
Consensus pattern (16 bp):
CGAAATACCGAAAAAT
Found at i:62728550 original size:29 final size:29
Alignment explanation
Indices: 62728508--62728582 Score: 123
Period size: 29 Copynumber: 2.6 Consensus size: 29
62728498 AATGTGACTA
* *
62728508 GGCCTAACGGGCCATATACATGTGATTTG
1 GGCCTAATGGGCCATATACAGGTGATTTG
*
62728537 GGTCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATACAGGTGATTTG
62728566 GGCCTAATGGGCCATAT
1 GGCCTAATGGGCCATAT
62728583 GAATATATTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATACAGGTGATTTG
Found at i:62733286 original size:11 final size:11
Alignment explanation
Indices: 62733269--62733312 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
62733259 AATCATTTAA
62733269 TAATAAAATAT
1 TAATAAAATAT
* *
62733280 TACTAAAAATCT
1 TAAT-AAAATAT
62733292 TAATAAAATAT
1 TAATAAAATAT
*
62733303 TAATTAAATA
1 TAATAAAATA
62733313 ATGTTTATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:62736343 original size:79 final size:78
Alignment explanation
Indices: 62736241--62736463 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
62736231 GCTCCTCGTT
* *
62736241 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
62736306 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
62736321 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
62736385 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
62736399 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
62736462 GA
63 GA
62736464 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:62736358 original size:39 final size:40
Alignment explanation
Indices: 62736241--62736463 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
62736231 GCTCCTCGTT
* *
62736241 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
62736281 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
62736321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
62736360 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
62736399 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
62736440 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62736464 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:62744262 original size:40 final size:40
Alignment explanation
Indices: 62744218--62744479 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
62744208 GCTCCTCGTT
* *
62744218 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62744258 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62744298 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62744337 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62744376 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
62744415 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
62744456 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62744480 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:62749210 original size:42 final size:43
Alignment explanation
Indices: 62749110--62749212 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 43
62749100 CAATGCTGAC
* * * * * **
62749110 GTCCCGAACGTGGTCTTACATGTAATTCGATATCGATGCCTCT
1 GTCCCAAACATGGTCTTACACGAAATTAGATATCGATGCCGAT
* *
62749153 GTTCCAAACAGGGTCTTACACGAAATTAGATA-CGATGCCGAT
1 GTCCCAAACATGGTCTTACACGAAATTAGATATCGATGCCGAT
*
62749195 GTCCCAGACATGGTCTTA
1 GTCCCAAACATGGTCTTA
62749213 AATGTAAATC
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
42 23 0.48
43 25 0.52
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
GTCCCAAACATGGTCTTACACGAAATTAGATATCGATGCCGAT
Found at i:62752377 original size:46 final size:47
Alignment explanation
Indices: 62752271--62752392 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
62752261 TGTCTTCGAC
** * *
62752271 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
62752321 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
62752367 ATGGACTTACATGGCTCAATT-CTGTC
1 ATGGACTTACATGGCTC-ATTCCTGTC
62752393 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 31 0.48
47 3 0.05
50 30 0.47
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:62756724 original size:46 final size:47
Alignment explanation
Indices: 62756618--62756733 Score: 135
Period size: 50 Copynumber: 2.4 Consensus size: 47
62756608 TGTCTTCGAC
** * *
62756618 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATATAAT
* * *
62756668 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
62756714 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
62756734 TTTGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 28 0.48
50 30 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:62759441 original size:19 final size:20
Alignment explanation
Indices: 62759413--62759450 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
62759403 CAATATTCAT
*
62759413 ATATTCTTTTATTTTTCAAC
1 ATATTCTTTTATTTATCAAC
62759433 ATATT-TTTTATTTATCAA
1 ATATTCTTTTATTTATCAA
62759451 TATTTTCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTCTTTTATTTATCAAC
Found at i:62760702 original size:12 final size:12
Alignment explanation
Indices: 62760667--62760705 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
62760657 CATTTAATAA
*
62760667 TAAAATATTACT
1 TAAAATATTAAT
*
62760679 AAAAATA-TAAT
1 TAAAATATTAAT
62760690 TAAAATATTAAT
1 TAAAATATTAAT
62760702 TAAA
1 TAAA
62760706 TAACATTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:62761146 original size:22 final size:22
Alignment explanation
Indices: 62761120--62761164 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
62761110 ACTTCTCCCA
62761120 TTTTTATCACTTTTATTTC-CTT
1 TTTTTATCAC-TTTATTTCACTT
* *
62761142 TTTTTTTCTCTTTATTTCACTT
1 TTTTTATCACTTTATTTCACTT
62761164 T
1 T
62761165 ATTGAGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.11, C:0.18, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATCACTTTATTTCACTT
Found at i:62768193 original size:27 final size:27
Alignment explanation
Indices: 62768163--62768340 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62768153 ATATTGAGTC
* * * *
62768163 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
62768190 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62768217 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
62768245 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
62768272 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
62768299 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
62768326 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62768341 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:62768302 original size:82 final size:81
Alignment explanation
Indices: 62768184--62768339 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62768174 TGCTATATAA
* *
62768184 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
62768249 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
62768266 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
62768330 CACTTAGTGC
65 CACTTAGTGC
62768340 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:62774917 original size:22 final size:22
Alignment explanation
Indices: 62774892--62774966 Score: 107
Period size: 22 Copynumber: 3.4 Consensus size: 22
62774882 CGGATTTAGC
* *
62774892 TCACGAGCTTAACCCC-AGATCA
1 TCACTAGCTT-ACCCCTAGCTCA
*
62774914 TCACTAGCTTACCCCTTGCTCA
1 TCACTAGCTTACCCCTAGCTCA
62774936 TCACTAGCTTACCCCTAGCTCA
1 TCACTAGCTTACCCCTAGCTCA
62774958 TCACTAGCT
1 TCACTAGCT
62774967 CATGCACCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.10
22 43 0.90
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.27
Consensus pattern (22 bp):
TCACTAGCTTACCCCTAGCTCA
Found at i:62774964 original size:11 final size:11
Alignment explanation
Indices: 62774911--62774969 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
62774901 TAACCCCAGA
62774911 TCATCACTAGC
1 TCATCACTAGC
* * * *
62774922 TTACCCCTTGC
1 TCATCACTAGC
62774933 TCATCACTAGC
1 TCATCACTAGC
* * *
62774944 TTACCCCTAGC
1 TCATCACTAGC
62774955 TCATCACTAGC
1 TCATCACTAGC
62774966 TCAT
1 TCAT
62774970 GCACCTATAT
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.22, C:0.39, G:0.08, T:0.31
Consensus pattern (11 bp):
TCATCACTAGC
Found at i:62776294 original size:14 final size:14
Alignment explanation
Indices: 62776236--62776294 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
62776226 ACCTAAACTG
*
62776236 ACCAATTCGTTCAT
1 ACCATTTCGTTCAT
*
62776250 ATCC-CTTCGTTCAT
1 A-CCATTTCGTTCAT
* *
62776264 ACCATTTCATTCCT
1 ACCATTTCGTTCAT
*
62776278 ACCATTTCGTTCGT
1 ACCATTTCGTTCAT
62776292 ACC
1 ACC
62776295 CCTCTTTCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 33 0.89
15 2 0.05
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (14 bp):
ACCATTTCGTTCAT
Found at i:62776683 original size:10 final size:11
Alignment explanation
Indices: 62776647--62776686 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
62776637 ATATAGTACA
*
62776647 AAAAAAATTCA
1 AAAAAAATTCG
62776658 AAAAAAATTCG
1 AAAAAAATTCG
*
62776669 AAAAAAATTTG
1 AAAAAAATTCG
62776680 AAAAAAA
1 AAAAAAA
62776687 AAATTGAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:62801777 original size:50 final size:50
Alignment explanation
Indices: 62801721--62802068 Score: 360
Period size: 50 Copynumber: 6.9 Consensus size: 50
62801711 TGCGACCTAT
*
62801721 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACTTAA
1 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
* * * * * *
62801771 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
1 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
* **
62801821 CAATCTGGTACATGTAGTAGCCTGCACTTAGTACTACATGCGTGACTTAA
1 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
** ** *
62801871 CCGTCTGAG-ACACGTAGTAGCCTATACTTAGTACTACACACGTGA-TCGAA
1 CAATCTG-GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA
* * ** * * * * *
62801921 GTTAA-CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAT
1 --CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
* * * * * *
62801972 CAATCCGGTACACGTAGTAGCCTGCACTTAGTATTACACATGCGACCTAT
1 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
*
62802022 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACAACACACGTGACT
1 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACT
62802069 CACAATGAAT
Statistics
Matches: 241, Mismatches: 50, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.01
50 205 0.85
51 33 0.14
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAA
Found at i:62801884 original size:100 final size:99
Alignment explanation
Indices: 62801706--62802055 Score: 427
Period size: 100 Copynumber: 3.5 Consensus size: 99
62801696 CTTAATTCTA
**
62801706 ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACTTAA
1 ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATGC-TGACTTAA
*
62801771 CCATCTGATACACGTAGTAGCCTGCACTTAGTACT
65 CCATCTGAGACACGTAGTAGCCTGCACTTAGTACT
*
62801806 ACACATGCGACCTATCAATCTGGTACATGTAGTAGCCTGCACTTAGTACTACATGCGTGACTTAA
1 ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATGC-TGACTTAA
* **
62801871 CCGTCTGAGACACGTAGTAGCCTATACTTAGTACT
65 CCATCTGAGACACGTAGTAGCCTGCACTTAGTACT
* * ** * * ** * *
62801906 ACACACGTGATCGAAGTTAA-CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGC-GACC
1 ACACATGCGA-CCTA-TCAATCTGGTACACGTAGTAGCCTGCACTTAGTACT--ACATGCTGACT
* * * *
62801969 TATCAATCCG-GTACACGTAGTAGCCTGCACTTAGTATT
62 TAACCATCTGAG-ACACGTAGTAGCCTGCACTTAGTACT
62802007 ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTAC
1 ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTAC
62802056 AACACACGTG
Statistics
Matches: 209, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
99 3 0.01
100 129 0.62
101 68 0.33
102 3 0.01
103 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
ACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATGCTGACTTAAC
CATCTGAGACACGTAGTAGCCTGCACTTAGTACT
Found at i:62801968 original size:151 final size:150
Alignment explanation
Indices: 62801708--62802066 Score: 438
Period size: 151 Copynumber: 2.4 Consensus size: 150
62801698 TAATTCTAAC
* * * * *
62801708 ACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGA-CTTAA-
1 ACATGCGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGTACAACACACGTGATC-GAAG
** * * * ** * * *
62801771 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACATGT
65 TTAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGT
62801836 AGTAGCCTGCACTTAGTACT-
130 AGTAGCCTGCACTTAGTACTA
* ** * *
62801856 ACATGCGTGACTTAACCGTCTGAG-ACACGTAGTAGCCTATACTTAGTACTACACACGTGATCGA
1 ACATGC--GACCTAACAATCTG-GTACACGTAGTAGCCTACACTTAGTACAACACACGTGATCGA
62801920 AGTTAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACAC
63 AGTTAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACAC
*
62801985 GTAGTAGCCTGCACTTAGTATTA
128 GTAGTAGCCTGCACTTAGTACTA
* *
62802008 CACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTACAACACACGTGA
1 -ACATGCGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGTACAACACACGTGA
62802067 CTCACAATGA
Statistics
Matches: 177, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
148 6 0.03
150 46 0.26
151 119 0.67
153 6 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (150 bp):
ACATGCGACCTAACAATCTGGTACACGTAGTAGCCTACACTTAGTACAACACACGTGATCGAAGT
TAACGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGGTACACGTA
GTAGCCTGCACTTAGTACTA
Found at i:62810598 original size:8 final size:9
Alignment explanation
Indices: 62810584--62810608 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62810574 GTTCTTGATA
62810584 AAAAAAAAG
1 AAAAAAAAG
62810593 AAAAAAAAG
1 AAAAAAAAG
62810602 AAAAAAA
1 AAAAAAA
62810609 TTGATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:62812883 original size:19 final size:19
Alignment explanation
Indices: 62812859--62812895 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
62812849 AAAGAGAAGA
*
62812859 GAAGAACAAGTGATTTTGG
1 GAAGAACAAGTGACTTTGG
62812878 GAAGAACAAGTGACTTTG
1 GAAGAACAAGTGACTTTG
62812896 AGTATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (19 bp):
GAAGAACAAGTGACTTTGG
Found at i:62813322 original size:19 final size:20
Alignment explanation
Indices: 62813300--62813337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62813290 CAAGAAAATA
*
62813300 TTGATAAAT-AAAGAATATG
1 TTGAAAAATAAAAGAATATG
62813319 TTGAAAAATAAAAGAATAT
1 TTGAAAAATAAAAGAATAT
62813338 ATGAATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGAAAAATAAAAGAATATG
Found at i:62818237 original size:284 final size:284
Alignment explanation
Indices: 62817727--62818280 Score: 964
Period size: 284 Copynumber: 2.0 Consensus size: 284
62817717 AGTCTGCACC
** *
62817727 TATTTTATGAAAAATTTTGAAAATTATATTTGCCACACGGCCTAGCACACGGGCGTGTAACTTGG
1 TATTTTATGAAAAATTTTGAAAATTATATTCACCACACGGCCTAGCACACGAGCGTGTAACTTGG
*
62817792 CTGTGTGACTTCTTTTGTTGCATGACGTCATAAATAGAGAGTTACATGGGTTAAGGACACGGGCG
66 CTGTGTGACTTCTTTTGTTGCATGACGTCATAAATAGAGAGTTACATGGGTTAAAGACACGGGCG
**
62817857 TGTGTGACCACACGGCCAACCCACACGAGCGTGTCCCAAGCCACACAGGCTTGTTACCTGTTTTG
131 TGTGTGACCACAAAGCCAACCCACACGAGCGTGTCCCAAGCCACACAGGCTTGTTACCTGTTTTG
*
62817922 ATGAAAAAATTTCTAAGTGTTGTAGAATTTTCTAAATTATCGGTTTAGTCCTGAACCACCTCCAA
196 ATGAAAAAATTTCTAAGTGTTGTAGAATTTTCTAAATTATCGGTTTAGTCCCGAACCACCTCCAA
62817987 TGCATGTTTTGGGCATCGTAGGTT
261 TGCATGTTTTGGGCATCGTAGGTT
62818011 TATTTTATGAAAAATTTTGAAAATTATATTCACCACACGGCCTAGCACACGAGCGTGTAACTTGG
1 TATTTTATGAAAAATTTTGAAAATTATATTCACCACACGGCCTAGCACACGAGCGTGTAACTTGG
* *
62818076 CTGTGTGACTTCTTTTGTTGCATGATGTCATAAATAGAGAGTTACATGGGTTAAAGACACGGGTG
66 CTGTGTGACTTCTTTTGTTGCATGACGTCATAAATAGAGAGTTACATGGGTTAAAGACACGGGCG
* * * *
62818141 TGTGTGACCACAAAGCCAACCCATACGGGCGTGTTCCAAGCCACACGGGCTTGTTACCTGTTTTG
131 TGTGTGACCACAAAGCCAACCCACACGAGCGTGTCCCAAGCCACACAGGCTTGTTACCTGTTTTG
* * *
62818206 ATGAAAAATTTTCTAAGTGTTGTAGAATTTTCTAAATTCTCGGTTTAGTCCCGAACCACTTCCAA
196 ATGAAAAAATTTCTAAGTGTTGTAGAATTTTCTAAATTATCGGTTTAGTCCCGAACCACCTCCAA
62818271 TGCATGTTTT
261 TGCATGTTTT
62818281 AGGCCTTTTA
Statistics
Matches: 254, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
284 254 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (284 bp):
TATTTTATGAAAAATTTTGAAAATTATATTCACCACACGGCCTAGCACACGAGCGTGTAACTTGG
CTGTGTGACTTCTTTTGTTGCATGACGTCATAAATAGAGAGTTACATGGGTTAAAGACACGGGCG
TGTGTGACCACAAAGCCAACCCACACGAGCGTGTCCCAAGCCACACAGGCTTGTTACCTGTTTTG
ATGAAAAAATTTCTAAGTGTTGTAGAATTTTCTAAATTATCGGTTTAGTCCCGAACCACCTCCAA
TGCATGTTTTGGGCATCGTAGGTT
Found at i:62826735 original size:20 final size:20
Alignment explanation
Indices: 62826707--62826758 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
62826697 TGGGTGAGGG
62826707 ACACAGGCGTGTCCCTAAGC
1 ACACAGGCGTGTCCCTAAGC
*
62826727 ACACGGGCGTGTCCCTAAGC
1 ACACAGGCGTGTCCCTAAGC
62826747 ACACAGGCGTGT
1 ACACAGGCGTGT
62826759 GTTTTGCCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.29, T:0.15
Consensus pattern (20 bp):
ACACAGGCGTGTCCCTAAGC
Found at i:62858190 original size:22 final size:21
Alignment explanation
Indices: 62858164--62858204 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
62858154 ATTGTTTATG
62858164 TTTATGTTTATATTATTATTTA
1 TTTATGTTTAT-TTATTATTTA
*
62858186 TTTATGTTTATTTCTTATT
1 TTTATGTTTATTTATTATT
62858205 CCTATTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTATGTTTATTTATTATTTA
Found at i:62859038 original size:21 final size:20
Alignment explanation
Indices: 62859007--62859046 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
62858997 TTCTTGAAAC
62859007 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCTGTGTGGA
62859027 AGGGCAACACGCCTGTGTGG
1 AGGGC-ACACGCCTGTGTGG
62859047 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCTGTGTGGA
Found at i:62861261 original size:96 final size:95
Alignment explanation
Indices: 62861067--62861291 Score: 257
Period size: 96 Copynumber: 2.4 Consensus size: 95
62861057 GGGTATAATA
* *
62861067 CCGATACATGTCCCAAACATGGTCTTACACTGGCTCATCTATCAAGTCGATGCTATGTCCCAGAC
1 CCGATCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATCAAGTCGATGCCATGTCCCAGAC
62861132 ATGGTCTTACACTGACTATCGAAATCGAGG
66 ATGGTCTTACACTGACTATCGAAATCGAGG
* *
62861162 CCGACTCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACATATC-CGTGCTGATGCCATGTC
1 CCGA-TCCATGTCCCAAACATGGTCTTACACTGGCTCAT--C-TATCAAGT-C-GATGCCATGTC
* **
62861225 CCATACATGGTCTTACACTGA-TA-C-ATTTCGTA-G
60 CCAGACATGGTCTTACACTGACTATCGAAATCG-AGG
* *
62861258 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCT
1 CCGATCCATGTCCCAAACATGGTCTTACACTGGCT
62861292 TAAATCTCGA
Statistics
Matches: 113, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
94 13 0.12
95 19 0.17
96 39 0.35
97 5 0.04
98 7 0.06
99 30 0.27
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
CCGATCCATGTCCCAAACATGGTCTTACACTGGCTCATCTATCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCGAAATCGAGG
Found at i:62861406 original size:140 final size:141
Alignment explanation
Indices: 62861073--62861430 Score: 378
Period size: 140 Copynumber: 2.5 Consensus size: 141
62861063 AATACCGATA
62861073 CATGTCCCAAACATGGTCTTACACTGGCTCATCTATCAA-GT--CGATGCTATGTCCCAGACATG
1 CATGTCCCAAA-ATGGTCTTACACTGGCTC-TC-AT-AATGTGCCGATGC-ATGTCCCAGACAT-
*
62861135 GTCTTACACTGACTATCGAAATCGAGGCCGACTCCATGTCCCAAACATGGTCTTACACTAGCTCT
60 GTCTTACACTGGCTATC-AAATCGAGGCCGACTCCATGTCCCAAACATGGTCTTACACTAGCTCT
**
62861200 CACATATCCGTGCTGATGC
124 -ACATATCAATGCTGATGC
* * * *
62861219 CATGTCCCATACATGGTCTTACACT-GAT-ACAT-TTCGTAGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCA-AAATGGTCTTACACTGGCTCTCATAAT-GT-GCCGATGCATGTCCCAGACATGTC
** * *
62861281 TTACACTGGCT-T-AAATCTCGAGGCCGA-TGTATGTGCCAGACAT-GTCTTACACTAGCTCT-C
63 TTACACTGGCTATCAAA--TCGAGGCCGACTCCATGTCCCAAACATGGTCTTACACTAGCTCTAC
* *
62861341 GTCTCAATGCTGATGC
126 ATATCAATGCTGATGC
*
62861357 CATGTCCCAGAAATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAAACATGTCT
1 CATGTCCCA-AAATGGTCTTACACTGGCTCTCATAATGT-GCCGATGCATGTCCCAGACATGTCT
62861422 TACACTGGC
64 TACACTGGC
62861431 ACACAAATAA
Statistics
Matches: 181, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
138 36 0.20
139 2 0.01
140 57 0.31
141 13 0.07
142 15 0.08
143 14 0.08
144 13 0.07
145 8 0.04
146 22 0.12
147 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
CATGTCCCAAAATGGTCTTACACTGGCTCTCATAATGTGCCGATGCATGTCCCAGACATGTCTTA
CACTGGCTATCAAATCGAGGCCGACTCCATGTCCCAAACATGGTCTTACACTAGCTCTACATATC
AATGCTGATGC
Found at i:62861429 original size:46 final size:47
Alignment explanation
Indices: 62861067--62861430 Score: 245
Period size: 46 Copynumber: 7.7 Consensus size: 47
62861057 GGGTATAATA
* **
62861067 CCGATACATGTCCCAAACATGGTCTTACACTGGCTCATC-T-ATCAAG
1 CCGATGCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATCGTG
* * * * *
62861113 TCGATGCTATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCGAGG
1 CCGATGC-ATGTCCCAAACATGGTCTTACACTGGCTCTC-ATAATCG-TG
* * *
62861162 CCGACTCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGTG
1 CCGA-TGCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-AT-CGTG
* * * * *
62861212 CTGATGCCATGTCCCATACATGGTCTTACACT-GAT-ACAT-TTCGTAG
1 CCGATG-CATGTCCCAAACATGGTCTTACACTGGCTCTCATAATCGT-G
* *
62861258 CCGATGCATGTCCCAGACAT-GTCTTACACTGGCT-T-A-AATCTCGAGG
1 CCGATGCATGTCCCAAACATGGTCTTACACTGGCTCTCATAA--TCG-TG
* * * * * * *
62861304 CCGATGTATGTGCCAGACAT-GTCTTACACTAGCTCTCGT-CTCAATG
1 CCGATGCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATC-GTG
*
62861350 CTGATGCCATGTCCCAGAA-ATGGTCTTACACTGGCTCTCATAAT-GTGG
1 CCGATG-CATGTCCCA-AACATGGTCTTACACTGGCTCTCATAATCGT-G
62861398 CCGATGCATGTCCCAAACAT-GTCTTACACTGGC
1 CCGATGCATGTCCCAAACATGGTCTTACACTGGC
62861431 ACACAAATAA
Statistics
Matches: 249, Mismatches: 43, Indels: 52
0.72 0.12 0.15
Matches are distributed among these distances:
44 11 0.04
45 18 0.07
46 72 0.29
47 48 0.19
48 30 0.12
49 36 0.14
50 32 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATCGTG
Found at i:62861837 original size:79 final size:79
Alignment explanation
Indices: 62861706--62861946 Score: 482
Period size: 79 Copynumber: 3.1 Consensus size: 79
62861696 TTTGAAATGA
62861706 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
1 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
62861771 AACCATTTTGCCCC
66 AACCATTTTGCCCC
62861785 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
1 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
62861850 AACCATTTTGCCCC
66 AACCATTTTGCCCC
62861864 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
1 TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
62861929 AACCATTTTGCCCC
66 AACCATTTTGCCCC
62861943 TAGA
1 TAGA
62861947 CTTCCACAAA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 162 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (79 bp):
TAGAAATTCATTCATTTCATTAGCATATTAATCTAGATACTCGAAAATTTATAATTGGGCAAAAT
AACCATTTTGCCCC
Found at i:62863448 original size:46 final size:47
Alignment explanation
Indices: 62863362--62863575 Score: 203
Period size: 46 Copynumber: 4.6 Consensus size: 47
62863352 GTATAATGCT
62863362 GATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCGTAGGCC
* *
62863408 GATGCATGTCCCAAACATGTCTTACACTAGCTTACATCTCG-AGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGGCC
* ** * *
62863454 AATGCATGTCCCAGACATGTCTTACACTAGCTCCCATCTC-AATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGGCC
* * * *
62863500 GATGTCATGTCCCAGACATGGTCTTACTCTGGCTCT-CATAAT-GT-GGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-CTCGTAGGCC
62863548 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
62863576 GGCACACAAA
Statistics
Matches: 141, Mismatches: 17, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.08
45 15 0.11
46 65 0.46
47 28 0.20
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGGCC
Found at i:62864003 original size:59 final size:59
Alignment explanation
Indices: 62863858--62863985 Score: 240
Period size: 59 Copynumber: 2.2 Consensus size: 59
62863848 GAATTGATAG
62863858 AAAT-TCATTCATCTCATCAGAATTTTACTCTAGAAACTTGAAAATTCATAATTGGGCA
1 AAATGTCATTCATCTCATCAGAATTTTACTCTAGAAACTTGAAAATTCATAATTGGGCA
62863916 AAATGTCATTCATCTCATCAGAATTTTACTCTAGAAACTTGAAAATTCATAATTGGGCA
1 AAATGTCATTCATCTCATCAGAATTTTACTCTAGAAACTTGAAAATTCATAATTGGGCA
62863975 AAATGATCATT
1 AAATG-TCATT
62863986 TTGCCCTTAG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 4 0.06
59 59 0.87
60 5 0.07
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (59 bp):
AAATGTCATTCATCTCATCAGAATTTTACTCTAGAAACTTGAAAATTCATAATTGGGCA
Found at i:62878380 original size:42 final size:42
Alignment explanation
Indices: 62878326--62878443 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
62878316 TTAGGGTTAC
62878326 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
62878368 TGAGACTT-CGTGTAAGACCATAGCTGGGCTATTGGCATTGATA
1 TGAGA-TTACGTGTAAGACCATATCTGGGATA-TGGCATCGATA
** * *
62878411 CAAGATTACATGTAAGACCATATTTGGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
62878444 AGATTGGTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.47
43 34 0.53
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:62880068 original size:31 final size:31
Alignment explanation
Indices: 62880031--62880234 Score: 311
Period size: 31 Copynumber: 6.6 Consensus size: 31
62880021 TGTGTGCAAT
62880031 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
62880062 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
62880093 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * * *
62880124 GTGAAAAGTAGTACCTTCAGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
62880155 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* * *
62880186 GTGAAAACTGGTAGC-TCTAGCTACCTAATCA
1 GTGAAAAGTGGTAGCTTC-GGCTACCTGATCA
*
62880217 GTGAATAGTGGTAGCTTC
1 GTGAAAAGTGGTAGCTTC
62880235 ACCTATCGAA
Statistics
Matches: 158, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
30 2 0.01
31 154 0.97
32 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:62880190 original size:93 final size:93
Alignment explanation
Indices: 62880031--62880297 Score: 323
Period size: 93 Copynumber: 2.9 Consensus size: 93
62880021 TGTGTGCAAT
* * *
62880031 GTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCGGCTACCTGATCAGTG
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTGATTAGTG
*
62880096 AAAAGTGGTAGCTTCGGCTACCTGATCA
66 AAAAGTGGTAGCTTCGGCTACCTAATCA
* *
62880124 GTGAAAAGTAGTACCTTCAGCTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTGATTAGTG
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTGATTAGTG
* *
62880189 AAAACTGGTAGC-TCTAGCTACCTAATCA
66 AAAAGTGGTAGCTTC-GGCTACCTAATCA
* * * * * *
62880217 GTGAATAGTGGTAGCTTCACCTATC-GAAT-GTGAAAAG-GGATAGCTTCGGCTATC-GAAT-GT
1 GTGAAAAGTGGTAGCTTCAGCTACCTGATTAGTGAAAAGTGG-TAGCTTCGGCTACCTGATTAGT
*
62880277 GAAAAG-GGATAGCTTTGGCTA
65 GAAAAGTGG-TAGCTTCGGCTA
62880298 TCGAATGTGA
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
88 2 0.01
89 15 0.10
90 6 0.04
91 21 0.14
92 5 0.03
93 102 0.68
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (93 bp):
GTGAAAAGTGGTAGCTTCAGCTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTGATTAGTG
AAAAGTGGTAGCTTCGGCTACCTAATCA
Found at i:62880260 original size:29 final size:29
Alignment explanation
Indices: 62880228--62880312 Score: 143
Period size: 29 Copynumber: 2.9 Consensus size: 29
62880218 TGAATAGTGG
**
62880228 TAGCTTCACCTATCGAATGTGAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
62880257 TAGCTTCGGCTATCGAATGTGAAAAGGGA
1 TAGCTTCGGCTATCGAATGTGAAAAGGGA
*
62880286 TAGCTTTGGCTATCGAATGTGAAAAGG
1 TAGCTTCGGCTATCGAATGTGAAAAGG
62880313 TTAGGTATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (29 bp):
TAGCTTCGGCTATCGAATGTGAAAAGGGA
Found at i:62880342 original size:33 final size:33
Alignment explanation
Indices: 62880305--62880369 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
62880295 CTATCGAATG
** *
62880305 TGAAAAGGTTAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTAGTGTATACCATA
*
62880338 TGAAAAGGAAAGGTATACTTAGTGTGTACCAT
1 TGAAAAGGAAAGGTATACTTAGTGTATACCAT
62880370 TCAGAAAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.32
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTAGTGTATACCATA
Found at i:62882826 original size:10 final size:10
Alignment explanation
Indices: 62882805--62882858 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
62882795 TACTTAAATT
62882805 TAAA-AAAGA
1 TAAATAAAGA
*
62882814 TAAATACAGA
1 TAAATAAAGA
62882824 TAAATAAAGA
1 TAAATAAAGA
**
62882834 TATTTAAAGA
1 TAAATAAAGA
*
62882844 TACATAAAGA
1 TAAATAAAGA
62882854 TAAAT
1 TAAAT
62882859 GGAGATGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
9 4 0.11
10 33 0.89
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (10 bp):
TAAATAAAGA
Found at i:62885709 original size:48 final size:47
Alignment explanation
Indices: 62885648--62885918 Score: 241
Period size: 48 Copynumber: 5.7 Consensus size: 47
62885638 TGATATATGT
*
62885648 GCTAGTGTAAGACCATGTCTGGGCCATGGCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCACATTATGAGA
* * * * * *
62885696 GCCAATGTAAGACCATGTCTGGG-CATGGCATCAGCA-TTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACAT--TATGAGA
*
62885743 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCTACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCA-CCACATTATGAGA
* * * *
62885791 GCTAGTGTAAGACCATGCCTGGTACATGGAAT--CGACATTGA-GACGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACATT-ATGA---GA
* ** *
62885839 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-C-TTGACATGTGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACATT---ATGAGA
*
62885887 GCTAGTGTAAGACCGTGTCTGGGACATGGCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCAT
62885919 TCGTAATTTA
Statistics
Matches: 182, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
45 9 0.05
46 4 0.02
47 35 0.19
48 129 0.71
49 2 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACATTATGAGA
Found at i:62885801 original size:95 final size:95
Alignment explanation
Indices: 62885638--62885918 Score: 334
Period size: 96 Copynumber: 2.9 Consensus size: 95
62885628 GAAAATTGGG
* * * * *
62885638 TGATATATGTGCTAGTGTAAGACCATGTCTGGGCCATGGCATCGACCACATTATGAGAGCCAATG
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTACATTATGAGAGCTAGTG
62885703 TAAGACCATGTCTGGGCATGGCATC-AGCAT
66 TAAGACCATGTCTGGGCATGGCATCGA-CAT
62885733 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCTACATTATGAGAGCTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CTACATTATGAGAGCTAGT
* * *
62885797 GTAAGACCATGCCTGGTACATGGAATCGACAT
65 GTAAGACCATGTCTGG-GCATGGCATCGACAT
* * * * * ** * *
62885829 TGAGACGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTGA-CATGTGAGCTAGT
1 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTACATTATGAGAGCTAGT
*
62885893 GTAAGACCGTGTCTGGGACATGGCAT
65 GTAAGACCATGTCTGGG-CATGGCAT
62885919 TCGTAATTTA
Statistics
Matches: 159, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
94 1 0.01
95 72 0.45
96 82 0.52
97 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (95 bp):
TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTACATTATGAGAGCTAGTG
TAAGACCATGTCTGGGCATGGCATCGACAT
Found at i:62904067 original size:43 final size:42
Alignment explanation
Indices: 62903978--62904089 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 42
62903968 TAAGATTATG
* * *
62903978 TGTAAGACCATATCTAGGATATGGCATCGATATGAGACTTCG
1 TGTAAGACCATAGCTAGGATATGGCATCGATACGAGACTTCA
* *
62904020 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGA-TTACA
1 TGTAAGACCATAGCTAGGATA-TGGCATCGATACGAGACTT-CA
*
62904063 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATAGCTAGGATATGGCAT
62904090 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATAGCTAGGATATGGCATCGATACGAGACTTCA
Found at i:62909598 original size:17 final size:17
Alignment explanation
Indices: 62909576--62909608 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
62909566 TTTTTATCAT
*
62909576 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
62909593 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
62909609 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:62914050 original size:25 final size:26
Alignment explanation
Indices: 62914022--62914070 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
62914012 TTATAAAATT
*
62914022 ATTTTAAAAAATACAT-TTCAAATGA
1 ATTTGAAAAAATACATATTCAAATGA
* *
62914047 ATTTGAATAAATACTTATTCAAAT
1 ATTTGAAAAAATACATATTCAAAT
62914071 TAGCTGAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (26 bp):
ATTTGAAAAAATACATATTCAAATGA
Found at i:62927030 original size:18 final size:19
Alignment explanation
Indices: 62927009--62927048 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
62926999 TACTAGAAAA
*
62927009 ATATATTATT-TTAATTTT
1 ATATATTATTATAAATTTT
62927027 ATATATTATTATAAATTTT
1 ATATATTATTATAAATTTT
62927046 ATA
1 ATA
62927049 ACATTGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTATTATAAATTTT
Found at i:62937664 original size:30 final size:31
Alignment explanation
Indices: 62937620--62937685 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 31
62937610 CAGGCTGAGG
62937620 ACACGGGTGTGTGTGACCACACGGCCTAACCC
1 ACACGGGTGTGTGTGACCACACGGCCT-ACCC
62937652 ACACGGGTGTGTGTGACCACACGGCCTACCC
1 ACACGGGTGTGTGTGACCACACGGCCTACCC
62937683 ACA
1 ACA
62937686 TAGGCATGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 7 0.21
32 27 0.79
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (31 bp):
ACACGGGTGTGTGTGACCACACGGCCTACCC
Found at i:62938671 original size:37 final size:38
Alignment explanation
Indices: 62938621--62938723 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 38
62938611 CATGTGAGTA
* * *
62938621 CGTGTAAGACCATAGCTAGGCTATGGCATGGTAAT-AG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGCAATGAG
* * *
62938658 CGTGTATGACCATAGCTGGGTTATGGCATCGCGATGAG
1 CGTGTAAGACCATAGCTGGGCTATGGCATCGCAATGAG
*
62938696 -ATGTAAGACCATAGCTGGGCTATGGCAT
1 CGTGTAAGACCATAGCTGGGCTATGGCAT
62938724 TGTGATACAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 54 0.96
38 2 0.04
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (38 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATCGCAATGAG
Found at i:62941786 original size:27 final size:27
Alignment explanation
Indices: 62941755--62941932 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62941745 TAAATTGTAC
62941755 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62941782 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62941808 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62941836 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62941864 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62941891 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62941918 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62941933 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:62941869 original size:82 final size:81
Alignment explanation
Indices: 62941756--62941911 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62941746 AAATTGTACA
* *
62941756 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62941820 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62941837 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62941902 TGCGAGTTGA
65 TGCGAATTGA
62941912 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:62941923 original size:82 final size:81
Alignment explanation
Indices: 62941752--62941932 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62941742 GATTAAATTG
* *
62941752 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62941817 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
62941833 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62941897 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62941915 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62941933 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:62945416 original size:28 final size:28
Alignment explanation
Indices: 62945385--62945456 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
62945375 ATATATGTGG
62945385 CACTTAGTGTGCGAAATATTAAGAATGA
1 CACTTAGTGTGCGAAATATTAAGAATGA
* * * * ** *
62945413 CACTTGGTGTGCCAGATATTCAGTGTGG
1 CACTTAGTGTGCGAAATATTAAGAATGA
62945441 CACTTAGTGTGCGAAA
1 CACTTAGTGTGCGAAA
62945457 CATCAAAGAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTAAGAATGA
Found at i:62946999 original size:36 final size:36
Alignment explanation
Indices: 62946952--62947024 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
62946942 GTGCAAATGA
62946952 GGGTGTCAAATGGCTTGGTAAATAGCCACTTTCTTG
1 GGGTGTCAAATGGCTTGGTAAATAGCCACTTTCTTG
62946988 GGGTGTCAAATGGCTTGGTAAATAGCCACTTTCTTG
1 GGGTGTCAAATGGCTTGGTAAATAGCCACTTTCTTG
62947024 G
1 G
62947025 CTACACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (36 bp):
GGGTGTCAAATGGCTTGGTAAATAGCCACTTTCTTG
Found at i:62948320 original size:46 final size:47
Alignment explanation
Indices: 62948092--62948441 Score: 253
Period size: 46 Copynumber: 7.5 Consensus size: 47
62948082 GCCAATGCTG
* *
62948092 TGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GCTGATTCA
1 TGTCCCAGACATGGTCTTACACTGACTTACATCTCG-AGGCCGATGCA
* * * * *
62948137 TGTCCCAGGCAT-GTCTTACATTGACTTACGTCCCGAGGCTGATGCA
1 TGTCCCAGACATGGTCTTACACTGACTTACATCTCGAGGCCGATGCA
* * * * *
62948183 TGTCCCAGACATGGTCTTACAC-AAGCTCTAGCATATCTG-TGCCGATACCG
1 TGTCCCAGACATGGTCTTACACTGA-CT-TA-CATCTC-GAGGCCGAT-GCA
* * *
62948233 TGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGACT-TACAT-CTCGAGGCCGATGCA
*
62948280 TGTCCCAGACAT-GTCTTACACTGACTTACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGACTTACATCTCGAGGCCGATGCA
* * *
62948326 TGTCCCAGACAT-GTCTTACACTGGCAC-T-CGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGGTCTTACACT-G-ACTTACATCTCGAGGCCGATG-CA
* * * * **
62948373 TGTCCCAGACATGGTCTTACATTGGCTCT-CATAAT-GTGGATGATGCA
1 TGTCCCAGACATGGTCTTACACTGACT-TACAT-CTCGAGGCCGATGCA
62948420 TGTCCCAGACAT-GTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
62948442 AGCTCACAAT
Statistics
Matches: 248, Mismatches: 36, Indels: 41
0.76 0.11 0.13
Matches are distributed among these distances:
44 12 0.05
45 14 0.06
46 98 0.40
47 55 0.22
48 30 0.12
49 11 0.04
50 28 0.11
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGACTTACATCTCGAGGCCGATGCA
Found at i:62948425 original size:140 final size:142
Alignment explanation
Indices: 62948040--62948441 Score: 472
Period size: 140 Copynumber: 2.8 Consensus size: 142
62948030 GTGCCGGTGT
* * ** * * **
62948040 CATGTCCTAGACATGGTCTTACACAAGCTCTAGCATATCTGTGCCAATGCTGTGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACAAGCACTA-CATATCAATGCCGATACCATGTCCCAGACATG
* * * * * * * *
62948105 GTCTTACACTGACACATC-T--CGTAGCTGATTCATGTCCCAGGCATGTCTTACATTGACTTACG
65 GTCTTACACTGGCTC-TCATAATGTGGATGATGCATGTCCCAGACATGTCTTACACTGACTTACG
*
62948167 TCCCGAGGCTGATG
129 TCCCGAGGCCGATG
* ** *
62948181 CATGTCCCAGACATGGTCTTACACAAGCTCTAGCATATCTGTGCCGATACCGTGTCCCAGACATG
1 CATGTCCCAGACATGGTCTTACACAAGCACTA-CATATCAATGCCGATACCATGTCCCAGACATG
**
62948246 GTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACTGACTTACGT
65 GTCTTACACTGGCTCTCATAATGTGGATGATGCATGTCCCAGACATGTCTTACACTGACTTACGT
*
62948311 CTCGAGGCCGATG
130 CCCGAGGCCGATG
** * * *
62948324 CATGTCCCAGACAT-GTCTTACACTGGCACT-CGTCTCAATGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACAAGCACTACATATCAATGCCGATACCATGTCCCAGACATGG
*
62948387 TCTTACATTGGCTCTCATAATGTGGATGATGCATGTCCCAGACATGTCTTACACT
66 TCTTACACTGGCTCTCATAATGTGGATGATGCATGTCCCAGACATGTCTTACACT
62948442 AGCTCACAAT
Statistics
Matches: 232, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
140 81 0.35
141 75 0.32
142 13 0.06
143 63 0.27
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (142 bp):
CATGTCCCAGACATGGTCTTACACAAGCACTACATATCAATGCCGATACCATGTCCCAGACATGG
TCTTACACTGGCTCTCATAATGTGGATGATGCATGTCCCAGACATGTCTTACACTGACTTACGTC
CCGAGGCCGATG
Found at i:62949977 original size:20 final size:20
Alignment explanation
Indices: 62949952--62950017 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
62949942 TACTTCGATA
62949952 CCCCTGATTGCACATATGTG
1 CCCCTGATTGCACATATGTG
* * * ** *
62949972 CCCCTGTTTGTACTTCGGTA
1 CCCCTGATTGCACATATGTG
* *
62949992 CCCTTAATTGCACATATGTG
1 CCCCTGATTGCACATATGTG
62950012 CCCCTG
1 CCCCTG
62950018 TTTTGCCTTT
Statistics
Matches: 30, Mismatches: 16, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.32, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGCACATATGTG
Found at i:62949988 original size:40 final size:40
Alignment explanation
Indices: 62949938--62950147 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
62949928 CACGCCACTA
* * *
62949938 TTTGTACTTCGATACCCCTGATTGCACATATGTGCCCCTG
1 TTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
* *
62949978 TTTGTACTTCGGTACCCTTAATTGCACATATGTGCCCCTG
1 TTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
* * *
62950018 TTT-TGCCTTTGGTACCCCTAATTGCACATACGTACCCCTG
1 TTTGT-ACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
* * *
62950058 TTTGTACTTCGGTACCCCTAATTACACATACGTGGCCCTA
1 TTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
* *
62950098 TTTGTACTTTGGTACCCCTAATTGCACATACGTGCCCCTA
1 TTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
*
62950138 TTTATACTTC
1 TTTGTACTTC
62950148 ATTAATTTCA
Statistics
Matches: 149, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
39 1 0.01
40 147 0.99
41 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (40 bp):
TTTGTACTTCGGTACCCCTAATTGCACATACGTGCCCCTG
Found at i:62950052 original size:20 final size:20
Alignment explanation
Indices: 62950029--62950137 Score: 85
Period size: 20 Copynumber: 5.5 Consensus size: 20
62950019 TTTGCCTTTG
62950029 GTACCCCTAATTGCACATAC
1 GTACCCCTAATTGCACATAC
** * *
62950049 GTACCCCTGTTTGTAC-TTC
1 GTACCCCTAATTGCACATAC
*
62950068 GGTACCCCTAATTACACATAC
1 -GTACCCCTAATTGCACATAC
** * * * **
62950089 GTGGCCCTATTTGTACTTTG
1 GTACCCCTAATTGCACATAC
62950109 GTACCCCTAATTGCACATAC
1 GTACCCCTAATTGCACATAC
*
62950129 GTGCCCCTA
1 GTACCCCTA
62950138 TTTATACTTC
Statistics
Matches: 62, Mismatches: 25, Indels: 4
0.68 0.27 0.04
Matches are distributed among these distances:
19 2 0.03
20 58 0.94
21 2 0.03
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (20 bp):
GTACCCCTAATTGCACATAC
Found at i:62952325 original size:30 final size:30
Alignment explanation
Indices: 62952289--62952345 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
62952279 TGAGCATTTT
* *
62952289 CACACGGGATGGACATATGCCCGTGTGAGC
1 CACACGGGATGGACACATGCCCATGTGAGC
*
62952319 CACACGGGCTGGACACATGCCCATGTG
1 CACACGGGATGGACACATGCCCATGTG
62952346 CCAGCTCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.16
Consensus pattern (30 bp):
CACACGGGATGGACACATGCCCATGTGAGC
Found at i:62961078 original size:26 final size:25
Alignment explanation
Indices: 62961049--62961117 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 25
62961039 CAGACTCACT
62961049 TTAGCTCGTATGAGCTTACCTATATA
1 TTAGCTCGTATGAGCTTACCTAT-TA
* *
62961075 TTAGCTCGTAAGAGCTTA-CTATTC
1 TTAGCTCGTATGAGCTTACCTATTA
* *
62961099 TCAGCTCATATGAGCTTAC
1 TTAGCTCGTATGAGCTTAC
62961118 TGTTTCAGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
24 16 0.43
25 4 0.11
26 17 0.46
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (25 bp):
TTAGCTCGTATGAGCTTACCTATTA
Found at i:62961129 original size:23 final size:23
Alignment explanation
Indices: 62961051--62961148 Score: 99
Period size: 23 Copynumber: 4.1 Consensus size: 23
62961041 GACTCACTTT
* *
62961051 AGCTCGTATGAGCTTACCTATATATT
1 AGCTCATATGAGCTTA-CTAT-T-TC
* *
62961077 AGCTCGTAAGAGCTTACTATTCTC
1 AGCTCATATGAGCTTACTATT-TC
*
62961101 AGCTCATATGAGCTTACTGTTTC
1 AGCTCATATGAGCTTACTATTTC
62961124 AGCTCAT-TAGAGCTTACTATTTC
1 AGCTCATAT-GAGCTTACTATTTC
62961147 AG
1 AG
62961149 GTTAATAGAG
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 24 0.38
24 20 0.31
25 4 0.06
26 15 0.23
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTATTTC
Found at i:62961157 original size:23 final size:23
Alignment explanation
Indices: 62961085--62961162 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
62961075 TTAGCTCGTA
* *
62961085 AGAGCTTACTATTCTCA-GCTCAT
1 AGAGCTTACTATT-TCAGGTTAAT
* * * *
62961108 ATGAGCTTACTGTTTCAGCTCATT
1 A-GAGCTTACTATTTCAGGTTAAT
62961132 AGAGCTTACTATTTCAGGTTAAT
1 AGAGCTTACTATTTCAGGTTAAT
62961155 AGAGCTTA
1 AGAGCTTA
62961163 TTGTCCATCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
23 30 0.70
24 13 0.30
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTATTTCAGGTTAAT
Found at i:62963775 original size:43 final size:43
Alignment explanation
Indices: 62963713--62963858 Score: 154
Period size: 43 Copynumber: 3.4 Consensus size: 43
62963703 ACCGAGATGA
* * *
62963713 GATTACAGGTAAGACCATGTCTGGGACATTGGCTTCATTATGCT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTAT-AT
*
62963757 -ATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATAT
* * * * * *
62963799 GATTTCGTGTAAGACC-TGTCTGGGACAGTGGTATTGA-TATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCA-TCATTATAT
*
62963841 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
62963859 ATTTGGGATA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 33 0.39
43 52 0.61
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCATTATAT
Found at i:62965366 original size:24 final size:24
Alignment explanation
Indices: 62965315--62965497 Score: 251
Period size: 25 Copynumber: 7.5 Consensus size: 24
62965305 GCTTTATCAT
*
62965315 ATAACTGGAGGCGT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
62965340 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
62965364 ATAACTGGGGGATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
62965388 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
62965412 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
62965437 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
62965462 ATAACTGGGGCGTAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
62965487 ATAACTGGGGC
1 ATAACTGGGGC
62965498 NNNNNNNNNN
Statistics
Matches: 146, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
24 70 0.48
25 76 0.52
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:62965389 original size:48 final size:49
Alignment explanation
Indices: 62965335--62965497 Score: 249
Period size: 48 Copynumber: 3.3 Consensus size: 49
62965325 GCGTAGCCTC
*
62965335 TTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGGATAAGCCC-
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGGATAAGCCCT
* * *
62965383 TTTTAATAATTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGGATAAGCCCT
*
62965432 TTTTAATAACTGGGGCGTAAGCCCTTTTTAATAACTGGGGCG-TAAGCCCT
1 TTTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGG-GATAAGCCCT
62965482 TTTTAATAACTGGGGC
1 TTTTAATAACTGGGGC
62965498 NNNNNNNNNN
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
48 44 0.42
49 22 0.21
50 38 0.37
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (49 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGGATAAGCCCT
Found at i:62966651 original size:27 final size:27
Alignment explanation
Indices: 62966589--62966653 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
62966579 GGGCATATTC
62966589 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
62966616 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
62966643 GTCTTTTTACC
1 GTCATTTTACC
62966654 TAATAGGGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:62966788 original size:27 final size:27
Alignment explanation
Indices: 62966664--62966777 Score: 183
Period size: 27 Copynumber: 4.2 Consensus size: 27
62966654 TAATAGGGGA
** *
62966664 AGGGTAAAACAATAATTTTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
62966691 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
*
62966718 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
62966745 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCG
62966772 AGGGTA
1 AGGGTA
62966778 CTTTGGTAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTATAAATCG
Found at i:62969657 original size:27 final size:27
Alignment explanation
Indices: 62969619--62969672 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
62969609 GCAAGTGAAG
*
62969619 ATAGTAACAGAAAGGATA-TCGGATCGT
1 ATAGTAACAGAAAAGATACT-GGATCGT
*
62969646 ATAGTAATAGAAAAGATACTGGATCGT
1 ATAGTAACAGAAAAGATACTGGATCGT
62969673 GCGTTGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (27 bp):
ATAGTAACAGAAAAGATACTGGATCGT
Found at i:62973184 original size:15 final size:15
Alignment explanation
Indices: 62973145--62973189 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
62973135 CAAGAAAATC
*
62973145 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
62973160 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
62973175 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
62973190 AGTTACGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:62979048 original size:25 final size:26
Alignment explanation
Indices: 62978975--62979046 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
62978965 GAGGAAGTGT
* *
62978975 AAAAGGGC-TATGCCCCAGTTTACCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
62979000 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
62979026 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
62979047 ATTAAAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 8 0.18
26 36 0.82
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:62979059 original size:25 final size:26
Alignment explanation
Indices: 62978985--62979059 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 26
62978975 AAAAGGGCTA
*
62978985 TGCCCCAGTTTACCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
62979011 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
*
62979037 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
62979060 AGGCCTCCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
25 12 0.26
26 34 0.74
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:62979304 original size:31 final size:31
Alignment explanation
Indices: 62979266--62979380 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
62979256 TCGTTACAGT
62979266 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
62979297 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
62979328 AAAAGCTTCGGTCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
62979359 GAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
62979381 CTGAGATTGA
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:62986563 original size:31 final size:31
Alignment explanation
Indices: 62986524--62986605 Score: 148
Period size: 31 Copynumber: 2.7 Consensus size: 31
62986514 TCGTTACAGT
62986524 AAAA-GCTTCGGCCCAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
62986554 AAAAGGCTTCGGCCCAGTGATATGAATAATG
1 AAAAGGCTTCGGCCCAGTGATATGAATAATG
*
62986585 AAAAGGCTTCGGCCTAGTGAT
1 AAAAGGCTTCGGCCCAGTGAT
62986606 CCTATCAGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAAGGCTTCGGCCCAGTGATATGAATAATG
Found at i:62988220 original size:260 final size:260
Alignment explanation
Indices: 62987759--62988278 Score: 1040
Period size: 260 Copynumber: 2.0 Consensus size: 260
62987749 TCTCCCCTTA
62987759 TCACTCCTTAATCCATGCGTTTGACTGATTTAAACTCTCATCCACAGAGTTCCATTCGGCTACAA
1 TCACTCCTTAATCCATGCGTTTGACTGATTTAAACTCTCATCCACAGAGTTCCATTCGGCTACAA
62987824 CTCCTGCATGCTCAAAGCATAAAAATAACATCACATTTGCCATCACAGGGAATCGAACCCAGGTT
66 CTCCTGCATGCTCAAAGCATAAAAATAACATCACATTTGCCATCACAGGGAATCGAACCCAGGTT
62987889 TCCCCCAACCACTAACACGCCACCTTTTTAGCACCCTAGTGGCGTCACTTAGCCACTCTGCCAGA
131 TCCCCCAACCACTAACACGCCACCTTTTTAGCACCCTAGTGGCGTCACTTAGCCACTCTGCCAGA
62987954 GGCTCTTTTACGATACATTCTACCCACAATTTTTAATAAGACCACCTATCCAAAGCCCCTAACTT
196 GGCTCTTTTACGATACATTCTACCCACAATTTTTAATAAGACCACCTATCCAAAGCCCCTAACTT
62988019 TCACTCCTTAATCCATGCGTTTGACTGATTTAAACTCTCATCCACAGAGTTCCATTCGGCTACAA
1 TCACTCCTTAATCCATGCGTTTGACTGATTTAAACTCTCATCCACAGAGTTCCATTCGGCTACAA
62988084 CTCCTGCATGCTCAAAGCATAAAAATAACATCACATTTGCCATCACAGGGAATCGAACCCAGGTT
66 CTCCTGCATGCTCAAAGCATAAAAATAACATCACATTTGCCATCACAGGGAATCGAACCCAGGTT
62988149 TCCCCCAACCACTAACACGCCACCTTTTTAGCACCCTAGTGGCGTCACTTAGCCACTCTGCCAGA
131 TCCCCCAACCACTAACACGCCACCTTTTTAGCACCCTAGTGGCGTCACTTAGCCACTCTGCCAGA
62988214 GGCTCTTTTACGATACATTCTACCCACAATTTTTAATAAGACCACCTATCCAAAGCCCCTAACTT
196 GGCTCTTTTACGATACATTCTACCCACAATTTTTAATAAGACCACCTATCCAAAGCCCCTAACTT
62988279 CTTAAGTCCA
Statistics
Matches: 260, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
260 260 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (260 bp):
TCACTCCTTAATCCATGCGTTTGACTGATTTAAACTCTCATCCACAGAGTTCCATTCGGCTACAA
CTCCTGCATGCTCAAAGCATAAAAATAACATCACATTTGCCATCACAGGGAATCGAACCCAGGTT
TCCCCCAACCACTAACACGCCACCTTTTTAGCACCCTAGTGGCGTCACTTAGCCACTCTGCCAGA
GGCTCTTTTACGATACATTCTACCCACAATTTTTAATAAGACCACCTATCCAAAGCCCCTAACTT
Found at i:62991925 original size:27 final size:26
Alignment explanation
Indices: 62991881--62991931 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
62991871 CTCGCTGCAA
*
62991881 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
62991908 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
62991932 AGTAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:62991979 original size:67 final size:67
Alignment explanation
Indices: 62991866--62992015 Score: 241
Period size: 67 Copynumber: 2.2 Consensus size: 67
62991856 AAGCATTCTG
62991866 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
1 GCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
62991931 TA
66 TA
*
62991933 GTAGCCTCGCTGCAATCTGGTGGCCTAC-CCACA-ATATCTGTATCTGGTGACTTCGTCACAATA
1 GCAGCCTCGCTGCAATCTGGTGGCCT-CGCCACATATATCTGT-TCTGGTGACTTCGTCACAATA
*
62991996 TCTG
64 TCTA
*
62992000 GCAGTCTCGCTGCAAT
1 GCAGCCTCGCTGCAAT
62992016 TTCTGTGGTG
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
66 8 0.10
67 68 0.88
68 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (67 bp):
GCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATC
TA
Found at i:62993141 original size:39 final size:39
Alignment explanation
Indices: 62993087--62993164 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
62993077 GTAGACTAAG
62993087 ACTGTAGCTAGGCTACCGCAAAAGGAAACAACCTCAAAC
1 ACTGTAGCTAGGCTACCGCAAAAGGAAACAACCTCAAAC
62993126 ACTGTAGCTAGGCTACCGCAAAAGGAAACAACCTCAAAC
1 ACTGTAGCTAGGCTACCGCAAAAGGAAACAACCTCAAAC
62993165 TCTGAATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.28, G:0.18, T:0.13
Consensus pattern (39 bp):
ACTGTAGCTAGGCTACCGCAAAAGGAAACAACCTCAAAC
Found at i:62998206 original size:33 final size:32
Alignment explanation
Indices: 62998157--62998220 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
62998147 CTCGCTACAA
* *
62998157 TCTGGTGGCTTCGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
*
62998190 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
62998221 GTGACTTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:63008975 original size:47 final size:47
Alignment explanation
Indices: 63008903--63009398 Score: 739
Period size: 47 Copynumber: 10.6 Consensus size: 47
63008893 ACCTTCGGGA
* * * * *
63008903 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
63008950 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
63008997 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
63009044 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
* * * *
63009091 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
63009138 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63009185 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63009232 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63009279 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63009326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
63009373 CTTATCACATATATACACTTTCACAT
1 CTTATCACATATATACACTTTCACAT
63009399 CACAATTATC
Statistics
Matches: 438, Mismatches: 9, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 436 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:63020189 original size:10 final size:10
Alignment explanation
Indices: 63020171--63020204 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
63020161 AACCACATTT
*
63020171 ATACCAAAAC
1 ATACTAAAAC
63020181 ATACTAAAAC
1 ATACTAAAAC
*
63020191 ATACTAAAAT
1 ATACTAAAAC
63020201 ATAC
1 ATAC
63020205 CATATATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (10 bp):
ATACTAAAAC
Found at i:63022160 original size:70 final size:70
Alignment explanation
Indices: 63022047--63022213 Score: 244
Period size: 70 Copynumber: 2.4 Consensus size: 70
63022037 CAGTGTCAAA
* * * *
63022047 TACTCAATGTTTCGCGCATTAAGTGCCATCGCATAGCCAAAGCTATTATAATTCCGCACACTAAG
1 TACTCAATGTTTCGCACACTAAGTGCCATCACATAGCCAAAGCTATTAGAATTCCGCACACTAAG
*
63022112 TGTCT
66 TGCCT
** * *
63022117 TACTCAATGTTTCATACACTAAGTGCCATCACATAGCCGAAGCTATTAGAATTCTGCACACTAAG
1 TACTCAATGTTTCGCACACTAAGTGCCATCACATAGCCAAAGCTATTAGAATTCCGCACACTAAG
63022182 TGCCT
66 TGCCT
*
63022187 TACTCGATGTTTCGCACACTAAGTGCC
1 TACTCAATGTTTCGCACACTAAGTGCC
63022214 TTACTCAATG
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (70 bp):
TACTCAATGTTTCGCACACTAAGTGCCATCACATAGCCAAAGCTATTAGAATTCCGCACACTAAG
TGCCT
Found at i:63022212 original size:28 final size:28
Alignment explanation
Indices: 63022172--63022241 Score: 131
Period size: 28 Copynumber: 2.5 Consensus size: 28
63022162 TTAGAATTCT
*
63022172 GCACACTAAGTGCCTTACTCGATGTTTC
1 GCACACTAAGTGCCTTACTCAATGTTTC
63022200 GCACACTAAGTGCCTTACTCAATGTTTC
1 GCACACTAAGTGCCTTACTCAATGTTTC
63022228 GCACACTAAGTGCC
1 GCACACTAAGTGCC
63022242 ATATATAGTC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCTTACTCAATGTTTC
Found at i:63027773 original size:49 final size:49
Alignment explanation
Indices: 63027716--63027814 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
63027706 CTATAAGTTT
*
63027716 CGGGTCGACACTTTTCTTTAGTGTTGGTTCCTTCTTGACCTCTTTGAAC
1 CGGGTCGACACTTTTCTTTAGTGTTGGTTCATTCTTGACCTCTTTGAAC
63027765 CGGGTCGACACTTTTCTTTAGTGTTGGTTCATTCTTGACCTCTTTGAAC
1 CGGGTCGACACTTTTCTTTAGTGTTGGTTCATTCTTGACCTCTTTGAAC
63027814 C
1 C
63027815 ATAACCAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.42
Consensus pattern (49 bp):
CGGGTCGACACTTTTCTTTAGTGTTGGTTCATTCTTGACCTCTTTGAAC
Found at i:63027862 original size:21 final size:21
Alignment explanation
Indices: 63027813--63027879 Score: 89
Period size: 21 Copynumber: 3.1 Consensus size: 21
63027803 CCTCTTTGAA
* *
63027813 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCGTACC-AATT
*
63027836 CCATACCATTTCATACCAATT
1 CCATACCATTTCGTACCAATT
63027857 CCATACCATTTCGTACCAATT
1 CCATACCATTTCGTACCAATT
63027878 CC
1 CC
63027880 CAAATACCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 25 0.62
22 11 0.28
23 4 0.10
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (21 bp):
CCATACCATTTCGTACCAATT
Found at i:63027863 original size:11 final size:11
Alignment explanation
Indices: 63027813--63027879 Score: 50
Period size: 10 Copynumber: 6.2 Consensus size: 11
63027803 CCTCTTTGAA
63027813 CCATAACCAATT
1 CCAT-ACCAATT
* *
63027825 -CGTACCAAATA
1 CCATACC-AATT
63027836 CCATACC-ATT
1 CCATACCAATT
*
63027846 TCATACCAATT
1 CCATACCAATT
63027857 CCATACC-ATT
1 CCATACCAATT
* *
63027867 TCGTACCAATT
1 CCATACCAATT
63027878 CC
1 CC
63027880 CAAATACCAA
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
10 19 0.45
11 18 0.43
12 5 0.12
ACGTcount: A:0.34, C:0.34, G:0.03, T:0.28
Consensus pattern (11 bp):
CCATACCAATT
Found at i:63030482 original size:48 final size:47
Alignment explanation
Indices: 63030403--63030508 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
63030393 GAGTGTCATG
*
63030403 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
63030451 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
63030499 GAAAAAGAAA
1 GAAAAAGAAA
63030509 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:63032225 original size:20 final size:20
Alignment explanation
Indices: 63032179--63032225 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
63032169 AGCTCGTTTC
*
63032179 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
63032199 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
63032219 CAGCTCA
1 CAGCTCA
63032226 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:63032720 original size:139 final size:139
Alignment explanation
Indices: 63032470--63032747 Score: 547
Period size: 139 Copynumber: 2.0 Consensus size: 139
63032460 GCAAATTATT
*
63032470 GAGTTCATATGCTGCTAATTTAATGTGTTTGAAATGCATTTAACTTGCTGATTTAATTTGTTGCA
1 GAGTTCATATGCTGCTAATTTAATGTGTTTGAAATGCATTTAACTTGCTGATTTAATTTGCTGCA
63032535 GGTTCATGAACGGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGC
66 GGTTCATGAACGGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGC
63032600 ATTTAAAGA
131 ATTTAAAGA
63032609 GAGTTCATATGCTGCTAATTTAATGTGTTTGAAATGCATTTAACTTGCTGATTTAATTTGCTGCA
1 GAGTTCATATGCTGCTAATTTAATGTGTTTGAAATGCATTTAACTTGCTGATTTAATTTGCTGCA
63032674 GGTTCATGAACGGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGC
66 GGTTCATGAACGGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGC
63032739 ATTTAAAGA
131 ATTTAAAGA
63032748 AGCACATGCA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 138 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.36
Consensus pattern (139 bp):
GAGTTCATATGCTGCTAATTTAATGTGTTTGAAATGCATTTAACTTGCTGATTTAATTTGCTGCA
GGTTCATGAACGGATTGGTGCAATGTATGGGAGTGTGCATGCACAATTGAGGTTCAATGGATGGC
ATTTAAAGA
Found at i:63036872 original size:11 final size:12
Alignment explanation
Indices: 63036856--63036885 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
63036846 AACTCAAAAT
63036856 TTTTTTTTTGA-
1 TTTTTTTTTGAC
63036867 TTTTTTTTTGAC
1 TTTTTTTTTGAC
63036879 TTTTTTT
1 TTTTTTT
63036886 CGTTACGAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTGAC
Found at i:63040838 original size:15 final size:15
Alignment explanation
Indices: 63040815--63040845 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
63040805 CCAAAAATTC
63040815 CAATACAAAACATAT
1 CAATACAAAACATAT
*
63040830 CAATCCAAAACATAT
1 CAATACAAAACATAT
63040845 C
1 C
63040846 TTTCATAATT
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:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:63044957 original size:74 final size:74
Alignment explanation
Indices: 63044869--63045016 Score: 269
Period size: 74 Copynumber: 2.0 Consensus size: 74
63044859 AATACCCTTA
63044869 CTACTAAACTTTCCAAAAATTCCTTCCATGTCCTAATTTTCTCCATGAACTTAAAATTGGTCAAA
1 CTACTAAACTTTCCAAAAATTCCTTCCATGTCCTAATTTTCTCCATGAACTTAAAATTGGTCAAA
63044934 TTGCTATTT
66 TTGCTATTT
* *
63044943 CTACTACACTTTCCAAAAATTCCTTCCATGTCCTAATTTTGTCCATGAACTTAAAATTGGTCAAA
1 CTACTAAACTTTCCAAAAATTCCTTCCATGTCCTAATTTTCTCCATGAACTTAAAATTGGTCAAA
*
63045008 TTTCTATTT
66 TTGCTATTT
63045017 AAGACCTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (74 bp):
CTACTAAACTTTCCAAAAATTCCTTCCATGTCCTAATTTTCTCCATGAACTTAAAATTGGTCAAA
TTGCTATTT
Found at i:63051446 original size:46 final size:46
Alignment explanation
Indices: 63051379--63051553 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
63051369 TGTAACCCGC
*
63051379 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
63051425 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
63051475 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
63051518 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
63051554 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:63051498 original size:93 final size:93
Alignment explanation
Indices: 63051386--63051557 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
63051376 CGCCCATAAG
* *
63051386 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
63051451 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
63051479 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
63051544 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
63051558 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:63058312 original size:23 final size:24
Alignment explanation
Indices: 63058268--63058323 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
63058258 TGAGTATTTA
*
63058268 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
63058291 AATGTATATGATTT-GTTAAATTG
1 AATGTATATGATTTAATTAAATTG
63058314 AAT-TAT-TGAT
1 AATGTATATGAT
63058324 CATTAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 19 0.63
24 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:63058517 original size:24 final size:22
Alignment explanation
Indices: 63058480--63058544 Score: 58
Period size: 24 Copynumber: 2.8 Consensus size: 22
63058470 TACCGATATA
* *
63058480 TCAGCTCGTAAGAGCTTACTATTT
1 TCAGCTC-TTAGAGCTTAC-AGTT
* *
63058504 TCAGCTCATTAGAGTTTACCGTT
1 TCAGCTC-TTAGAGCTTACAGTT
63058527 TCAGCTCTTATGAGCTTA
1 TCAGCTCTTA-GAGCTTA
63058545 TTGTAACACC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.09
23 15 0.44
24 16 0.47
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (22 bp):
TCAGCTCTTAGAGCTTACAGTT
Found at i:63066722 original size:22 final size:22
Alignment explanation
Indices: 63066692--63066735 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
63066682 TTTGGTATTT
63066692 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
63066714 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
63066736 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:63071357 original size:13 final size:13
Alignment explanation
Indices: 63071339--63071363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63071329 AAACCGTATG
63071339 CAATTTTTTTTTT
1 CAATTTTTTTTTT
63071352 CAATTTTTTTTT
1 CAATTTTTTTTT
63071364 CGAACTCTTT
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:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
CAATTTTTTTTTT
Done.