Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 198 of 259
Found at i:63258032 original size:30 final size:30
Alignment explanation
Indices: 63257996--63258056 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
63257986 TCAACTCATA
63257996 TTGCGAGAGGTGAGTTGAG-CTTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTC-TTTTAATTT
*
63258026 TTGCGAGAGTTGAGTTGAGTCTTTTAATTT
1 TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
63258056 T
1 T
63258057 GTTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.46
Consensus pattern (30 bp):
TTGCGAGAGGTGAGTTGAGTCTTTTAATTT
Found at i:63268726 original size:69 final size:70
Alignment explanation
Indices: 63268552--63268726 Score: 226
Period size: 71 Copynumber: 2.5 Consensus size: 70
63268542 TTTTCAAGGG
* * * *
63268552 AAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
63268617 TTTTCA
66 TTTT-A
* ** * *
63268623 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTATG
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
63268688 TTTT-
66 TTTTA
** *
63268692 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63268727 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (70 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTTA
Found at i:63268847 original size:72 final size:71
Alignment explanation
Indices: 63268726--63268891 Score: 253
Period size: 72 Copynumber: 2.3 Consensus size: 71
63268716 GAGTTAAGCC
** *
63268726 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
63268790 TGAGGTA
65 TGAGGTA
*
63268797 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
63268862 TGAGGTA
65 TGAGGTA
* *
63268869 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
63268892 ACGTTGTTCA
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 12 0.14
72 71 0.82
73 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:63268995 original size:140 final size:140
Alignment explanation
Indices: 63268824--63269451 Score: 1148
Period size: 140 Copynumber: 4.5 Consensus size: 140
63268814 TTAATTTCAA
63268824 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
63268889 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
63268954 TCAAAATCAG
131 TCAAAATCAG
*
63268964 CTCATATTGCGAGAGATGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
63269029 TTTACATTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
63269094 TCAAAATCAG
131 TCAAAATCAG
*
63269104 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
63269169 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTAAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
63269234 TCAAAATCAG
131 TCAAAATCAG
*
63269244 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTATGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
63269309 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
63269374 TCAAAATCAG
131 TCAAAATCAG
**
63269384 CTCATATTGCGAGAGGTGAGTTGAGCCTCAATTCACATGCTGAGGTATTTTCAATTTCTGTCTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC--GCTGAGGTATTTTCAATTTCTGT-TTT
63269449 CAA
63 CAA
63269452 AAAAAATTCA
Statistics
Matches: 470, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
140 442 0.94
142 22 0.05
143 6 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:63269307 original size:13 final size:13
Alignment explanation
Indices: 63269289--63269322 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
63269279 CGCTGAGGTA
63269289 TTTTCAATTTATG
1 TTTTCAATTTATG
63269302 TTTTCAATTTATG
1 TTTTCAATTTATG
63269315 TTGTTCAA
1 TT-TTCAA
63269323 GAATCAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:63269546 original size:72 final size:72
Alignment explanation
Indices: 63269371--63269594 Score: 315
Period size: 72 Copynumber: 3.0 Consensus size: 72
63269361 AATTTCTACT
* ** * * * *
63269371 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAATTCACATGCTGAGGTATTTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA--GACACGTTGAGGTAATTT
63269435 CAATTTCTG
64 CAATTTCTG
63269444 TCTTTCAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 T-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
63269509 TTTCAATTTCTG
61 TTTCAATTTCTG
63269521 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
63269586 ATTTCTG
66 ATTTCTG
63269593 TT
1 TT
63269595 CAAAATGAGT
Statistics
Matches: 138, Mismatches: 7, Indels: 13
0.87 0.04 0.08
Matches are distributed among these distances:
72 69 0.50
73 1 0.01
74 4 0.03
76 4 0.03
77 24 0.17
78 4 0.03
79 32 0.23
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTG
Found at i:63269605 original size:49 final size:49
Alignment explanation
Indices: 63269548--63269643 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
63269538 ATATTGCGAG
*
63269548 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
63269597 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
63269644 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:63269634 original size:121 final size:121
Alignment explanation
Indices: 63269476--63269715 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
63269466 ATATTGCGAG
*
63269476 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
63269541 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
63269597 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
63269662 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
63269716 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:63269758 original size:79 final size:75
Alignment explanation
Indices: 63269597--63269951 Score: 439
Period size: 79 Copynumber: 4.7 Consensus size: 75
63269587 TTTCTGTTCA
* * *
63269597 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTTG-TTTTC--AAAATTCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
63269659 ATATTGCGAG
66 ATATTGCGAG
* *
63269669 AAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATATCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAA-ATCA
*
63269734 ACTCATATTGTGAG
62 ACTCATATTGCGAG
*
63269748 AAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
63269813 ATATTGCGAG
66 ATATTGCGAG
** * * * *
63269823 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATCAACCC
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
* *
63269887 GTATTGTGAG
66 ATATTGCGAG
*** * * *
63269897 AGGCGAGTTGAGCCTCATGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAA
1 AAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATTTCTGTTTTTCAA
63269952 TTTCTGCCTT
Statistics
Matches: 250, Mismatches: 23, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
72 41 0.16
73 5 0.02
74 42 0.17
75 57 0.23
76 29 0.12
77 6 0.02
78 4 0.02
79 66 0.26
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
ATATTGCGAG
Found at i:63269998 original size:93 final size:93
Alignment explanation
Indices: 63269873--63270044 Score: 231
Period size: 93 Copynumber: 1.8 Consensus size: 93
63269863 TTCTGTTGTC
* * *
63269873 AAAAAAATCAACCCGTATTGTGAGAGGCGAGTTGAGCCTCAT-G-TCACACGCCGAGGTATTTTC
1 AAAAAAATCAACCCATATTGCGAGAGGCGAGTTGAGCCT--TGGCTCACACGCCGAGCTATTTTC
*
63269936 AATTTCCGTTTTTCAATTTCTGCCTTTCAA
64 AATTTCCGTCTTTCAATTTCTGCCTTTCAA
* * * *
63269966 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACCCATATTGCGAGAGGCGAGTTGAGCCTTGGCTCACACGCCGAGCTATTTTCAA
*
63270031 TTTCTGTCTTTCAA
66 TTTCCGTCTTTCAA
63270045 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 1 0.01
92 1 0.01
93 66 0.97
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (93 bp):
AAAAAAATCAACCCATATTGCGAGAGGCGAGTTGAGCCTTGGCTCACACGCCGAGCTATTTTCAA
TTTCCGTCTTTCAATTTCTGCCTTTCAA
Found at i:63270107 original size:79 final size:76
Alignment explanation
Indices: 63269945--63270449 Score: 374
Period size: 79 Copynumber: 6.2 Consensus size: 76
63269935 CAATTTCCGT
**
63269945 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGCT
*
63270010 CACGCGCTGAGCTA
63 CACACGCTGAGCTA
* * *
63270024 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-GGCTCA
* *
63270089 CACACTGAGGTA
65 CACGCTGAGCTA
* * * * * *
63270101 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGCT
* *
63270166 CACATG-TCGAGGTA
63 CACACGCT-GAGCTA
** *
63270180 TTTTCAAAATCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
**
63270245 GCCTTGGCTCACGTGCTGAGCTA
55 G-CTTGGCTCACACGCTGAGCTA
63270268 TTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TTTTCAATTTCTG---TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC----T
** * * *
63270333 AATTTCTGCGAGA-GTTGAGTTGAGA
58 --TGGCT-C-ACACGCTGAGCT---A
*
63270358 CTTTT-AATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 -TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTGGCTC
**
63270420 ACGTGCTGAGCTA
64 ACACGCTGAGCTA
63270433 -TTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
63270450 AATGTCTGTT
Statistics
Matches: 347, Mismatches: 43, Indels: 77
0.74 0.09 0.16
Matches are distributed among these distances:
73 3 0.01
74 12 0.03
75 1 0.00
76 3 0.01
77 66 0.19
78 9 0.03
79 83 0.24
80 8 0.02
81 29 0.08
84 30 0.09
85 6 0.02
86 3 0.01
87 13 0.04
88 60 0.17
89 1 0.00
90 9 0.03
91 11 0.03
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTGGCTCAC
ACGCTGAGCTA
Found at i:63270218 original size:244 final size:241
Alignment explanation
Indices: 63269724--63270329 Score: 756
Period size: 244 Copynumber: 2.5 Consensus size: 241
63269714 TTTTTCAAAA
* * ** ** *
63269724 AAAAATATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCA
1 AAAAA-ATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCA
* * *
63269786 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
64 ATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCACACACTGA
* ** * *
63269851 GGTAATTTCAATTTCTGTTGTCAAAAAAATCAACCCGTATTGTGAGAGGCGAGTTGAGCCTCATG
129 GGTAATTTCAATTTATGTTGTCAAAAAAATCAACCCACATTGCGAGAGGCGAGTTGAGCCTCAGG
**
63269916 TCACACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTC
194 TCACACGCCGAGGTATTTTCAAAATCCGTTTTTCAATTTCTGCCTTTC
*
63269964 AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 ---AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
*
63270029 AATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACAC
63 AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG--CACACAC
* * * * * *
63270094 TGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGC
126 TGAGGTA--ATTTCAATTTAT-GTTGTCAAAAAAATCAACCCACATTGCGAGAGGCGAGTTGAGC
* * * * *
63270159 CTCGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGA-TTCTG-TTTTC
188 CTCAGGTCACACGCCGAGGTATTTTCAAAATCCGTTTTTCA-ATTTCTGCCTTTC
*
63270212 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
63270276 TTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
66 TTCTG---TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
63270330 TTTAATTTCT
Statistics
Matches: 317, Mismatches: 33, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
242 29 0.09
243 6 0.02
244 136 0.43
245 1 0.00
246 12 0.04
247 12 0.04
248 46 0.15
249 74 0.23
250 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (241 bp):
AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
TTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGCACACACTGAGG
TAATTTCAATTTATGTTGTCAAAAAAATCAACCCACATTGCGAGAGGCGAGTTGAGCCTCAGGTC
ACACGCCGAGGTATTTTCAAAATCCGTTTTTCAATTTCTGCCTTTC
Found at i:63270273 original size:88 final size:88
Alignment explanation
Indices: 63270124--63270285 Score: 236
Period size: 88 Copynumber: 1.8 Consensus size: 88
63270114 TATTTTTCAA
* * *
63270124 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
63270189 TCTGTTTTTCAGATTCTGTTTTC
66 TCTGTTTTTCAGATTCTGTTTTC
* * * *
63270212 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
63270276 TTCTGTTTTT
65 ATCTGTTTTT
63270286 TTTCAAAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
87 1 0.02
88 64 0.98
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAGATTCTGTTTTC
Found at i:63270345 original size:30 final size:30
Alignment explanation
Indices: 63270309--63270369 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
63270299 CAACTCATAT
63270309 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGAC-TTTTAATTTC
*
63270339 TGCGAGAGTTGAGTTGAGACTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGACTTTTAATTTC
63270369 T
1 T
63270370 ATTTTTCAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGACTTTTAATTTC
Found at i:63271149 original size:18 final size:18
Alignment explanation
Indices: 63271105--63271139 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63271095 TAAGCCCCCC
63271105 AAAAAAAAACCTAACCCA
1 AAAAAAAAACCTAACCCA
63271123 AAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
63271140 CCCAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (18 bp):
AAAAAAAAACCTAACCCA
Found at i:63275420 original size:28 final size:28
Alignment explanation
Indices: 63275370--63275622 Score: 231
Period size: 28 Copynumber: 9.0 Consensus size: 28
63275360 CACGAAAGTT
* * * * *
63275370 AAGAATAGCTTTTTTGGCAAACTATGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
63275398 AAGAATAACCTTTGTGGTGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * *
63275426 AAGAATAGCTTTTGTGGCGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * * * *
63275454 AAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
63275482 AAGAATAGA-CTGTGTGGCGAACTATGAA
1 AAGAATA-ACCTTTGTGGCGAACTCTGAA
* * *
63275510 AATAATAAGCTTTGTGGCAAACTCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* *
63275538 AAGAATAACCTTTATGGCGAAATCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
* * *
63275566 AAGAAT-AGCTTGTGTAGTGAACTCTGAA
1 AAGAATAACCTT-TGTGGCGAACTCTGAA
* *
63275594 AAGAACAGCCTTTGTGGCGAACTCTGAA
1 AAGAATAACCTTTGTGGCGAACTCTGAA
63275622 A
1 A
63275623 GGGATGCCTT
Statistics
Matches: 182, Mismatches: 39, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
27 5 0.03
28 174 0.96
29 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (28 bp):
AAGAATAACCTTTGTGGCGAACTCTGAA
Found at i:63275456 original size:56 final size:56
Alignment explanation
Indices: 63275370--63275641 Score: 260
Period size: 56 Copynumber: 4.9 Consensus size: 56
63275360 CACGAAAGTT
* * * ** *
63275370 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATAACCTTTGTGGTGAACTTTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * * * *
63275426 AAGAATAGCTTTTGTGGCGAACTTTGAAAAGAATAGCTTTTATGGCAAACTCTAAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * *
63275482 AAGAATAGACTGTGTGGCGAACTATGAAAATAATAAGCTTTGTGGCAAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
* * * * * * **
63275538 AAGAATAACCTTTATGGCGAAATCTGAAAAGAAT-AGCTTGTGTAGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTT-TGTGGCAAACTCTGAA
* * * * *
63275594 AAGAACAGCCTTTGTGGCGAACTCTGAAAGGGAT-GCCTTTGTGGCAAA
1 AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAA
63275642 TTTTACATGG
Statistics
Matches: 174, Mismatches: 41, Indels: 3
0.80 0.19 0.01
Matches are distributed among these distances:
55 11 0.06
56 163 0.94
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (56 bp):
AAGAATAGCCTTTGTGGCGAACTATGAAAAGAATAACCTTTGTGGCAAACTCTGAA
Found at i:63275511 original size:84 final size:83
Alignment explanation
Indices: 63275370--63275622 Score: 305
Period size: 84 Copynumber: 3.0 Consensus size: 83
63275360 CACGAAAGTT
* * * *
63275370 AAGAATAGCTTTTTTGGCAAACTATGAAAAGAATA-ACCTTTGTGGTGAACTTTGAAAAGAATAG
1 AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGA-CTGTGTGGTGAACTATGAAAAGAATAG
*
63275434 CTTTTGTGGCGAACTTTGAA
65 C-TTTGTGGCGAACTCTGAA
* * *
63275454 AAGAATAGCTTTTATGGCAAACTCTAAAAAGAATAGACTGTGTGGCGAACTATGAAAATAATAAG
1 AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGACTGTGTGGTGAACTATGAAAAGAAT-AG
*
63275519 CTTTGTGGCAAACTCTGAA
65 CTTTGTGGCGAACTCTGAA
* * * * *
63275538 AAGAATAACCTTTATGGCGAAA-TCTGAAAAGAATAG-CTTGTGTAGTGAACTCTGAAAAGAACA
1 AAGAATAGCTTTTATGGC-AAACTCTGAAAAGAATAGAC-TGTGTGGTGAACTATGAAAAGAATA
63275601 GCCTTTGTGGCGAACTCTGAA
64 G-CTTTGTGGCGAACTCTGAA
63275622 A
1 A
63275623 GGGATGCCTT
Statistics
Matches: 146, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
83 3 0.02
84 136 0.93
85 7 0.05
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (83 bp):
AAGAATAGCTTTTATGGCAAACTCTGAAAAGAATAGACTGTGTGGTGAACTATGAAAAGAATAGC
TTTGTGGCGAACTCTGAA
Found at i:63275700 original size:27 final size:27
Alignment explanation
Indices: 63275601--63275693 Score: 107
Period size: 27 Copynumber: 3.4 Consensus size: 27
63275591 GAAAAGAACA
* * * *
63275601 GCCTTTGTGGCGAACTCTGAAAGGGAT-
1 GCCTTTGTGGC-AAATTTTAAATGGATC
* *
63275628 GCCTTTGTGGCAAATTTTACATGGCTC
1 GCCTTTGTGGCAAATTTTAAATGGATC
*
63275655 GGCTTTGTGGCAAATTTTAAATGGATC
1 GCCTTTGTGGCAAATTTTAAATGGATC
63275682 GCCTTTGTGGCA
1 GCCTTTGTGGCA
63275694 TGTTTTATCT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.16
27 46 0.84
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (27 bp):
GCCTTTGTGGCAAATTTTAAATGGATC
Found at i:63278355 original size:21 final size:21
Alignment explanation
Indices: 63278331--63278448 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
63278321 TGAGTTTCTT
*
63278331 TTTAACCCTAATGGGTTTCCG
1 TTTAACCCTTATGGGTTTCCG
* * * * * *
63278352 TTTAGCTCTTTTGAGCTTCAG
1 TTTAACCCTTATGGGTTTCCG
*
63278373 TTTAACCCTTATGGGTTTCCA
1 TTTAACCCTTATGGGTTTCCG
* * * *
63278394 TTCAGCTCTTATGAGCTTT-CG
1 TTTAACCCTTATG-GGTTTCCG
* * *
63278415 TTCAACCCTCACGGGTTTCCG
1 TTTAACCCTTATGGGTTTCCG
* *
63278436 TTTAGCACTTATG
1 TTTAACCCTTATG
63278449 TGCTTCTGTG
Statistics
Matches: 66, Mismatches: 29, Indels: 4
0.67 0.29 0.04
Matches are distributed among these distances:
20 4 0.06
21 58 0.88
22 4 0.06
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TTTAACCCTTATGGGTTTCCG
Found at i:63278390 original size:42 final size:42
Alignment explanation
Indices: 63278331--63278453 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
63278321 TGAGTTTCTT
*
63278331 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTTTGAGC-TTCAG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTC-G
* * *
63278373 TTTAACCCTTATGGGTTTCCATTCAGCTCTTATGAGCTTTCG
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
* * * * *
63278415 TTCAACCCTCACGGGTTTCCGTTTAGCACTTATGTGCTT
1 TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTT
63278454 CTGTGTAGCC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
42 66 0.96
43 3 0.04
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCGTTTAGCTCTTATGAGCTTTCG
Found at i:63282638 original size:4 final size:4
Alignment explanation
Indices: 63282629--63282655 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
63282619 AGATATTGGT
63282629 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
63282656 TAAAATTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:63283517 original size:15 final size:14
Alignment explanation
Indices: 63283485--63283528 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
63283475 TTTTAGTATC
*
63283485 AAATTTTACTATTA
1 AAATATTACTATTA
63283499 AAATATTACTATATA
1 AAATATTACTAT-TA
* *
63283514 AAATAATAATATTA
1 AAATATTACTATTA
63283528 A
1 A
63283529 GACAATAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATTACTATTA
Found at i:63284770 original size:201 final size:199
Alignment explanation
Indices: 63284424--63285198 Score: 729
Period size: 201 Copynumber: 3.9 Consensus size: 199
63284414 GGAGGAAGTT
* * * * * *
63284424 GAGTTCCTAATATCCCTTTCTTTACCACCACAATAATCTGAAACATTTTGTGTTGAAATTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
63284489 TTCAGAGCAACTTGATGCAAGGGTCACCGGACTTGTCATGTTTCTCATATCCAATTCATCTCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCA-CTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* *
63284554 CAACA-TTGATGGGTTCTGGAGATGGGGAAAAGGAGTTGCCGATATCCATTTCTTTAACAACGT-
130 CAACATTTG-TGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAA-GTG
*
63284617 AGGGCATG
192 AGCGCATG
* **
63284625 GAGTTCCT-ACAATCCATTTGTTTAACACCAGAATAATCCAAAACATTTGGTGTTGAACTTAAAG
1 GAGTTCCTAAC-ATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAG
**
63284689 CTTCAGAGCAGCTTGATGCAAGGGTCACTGAACTAGTCATGTTTCTTGCATCCAATTCATCCCTC
65 CTTCAGAGCAGCTTGATGCAAGGGTCACTG-ACTAGTCATGTTTCTTATATCCAATTCATCCCTC
* * *
63284754 GCAACATTTGTGGGTTCTGGAGATGAGGAAATGGAGTTCCCAATATCCTTTTCTTTAA-AAGTGG
129 ACAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTT-CCAATATCCATTTCTTTAACAAGT-G
*
63284818 AGCGCATT
192 AGCGCATG
** * * * *
63284826 GAGTTCCTAACATCCACCTCTTTAACACAAGAATAATATGAAGCATTTGATGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * *
63284891 TTCATAGCAGCTTGCTGCAAGGGTCACTTGACTAATCCTGTTTCTTATATCTAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCAC-TGACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
** * *
63284956 CAACATTCATGGGTTCTGGAGACGAGGAAATA-GAGTTCACAATATCCATTTCTTGAAC-----A
130 CAACATTTGTGGGTTCTGGAGATGAGGAAA-AGGAGTTC-CAATATCCATTTCTTTAACAAGTGA
63285015 -C-CA--
193 GCGCATG
* **** ** * *
63285018 GAG---GTAATGGACATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGC
1 GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
* * * * * * ** * *
63285080 TCCACAGAAACTTAATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCA
66 TTCAGAGCAGCTTGATGCAAGGGTCACT-GACTAGTCATGTTTCTTATATCCAATTCATCCCTCA
* * * ** * * *
63285145 TAACATCTATCAGTTCAGGAGATGAGGAGATGGAGTTCCTAATATCCATTTCTT
130 CAACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCC-AATATCCATTTCTT
63285199 CTACACCAGA
Statistics
Matches: 477, Mismatches: 84, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
188 2 0.00
189 136 0.29
192 3 0.01
194 2 0.00
195 1 0.00
196 1 0.00
199 2 0.00
200 6 0.01
201 317 0.66
202 7 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (199 bp):
GAGTTCCTAACATCCATTTCTTTAACACCAGAATAATCTGAAACATTTGGTGTTGAACTTAAAGC
TTCAGAGCAGCTTGATGCAAGGGTCACTGACTAGTCATGTTTCTTATATCCAATTCATCCCTCAC
AACATTTGTGGGTTCTGGAGATGAGGAAAAGGAGTTCCAATATCCATTTCTTTAACAAGTGAGCG
CATG
Found at i:63285351 original size:162 final size:161
Alignment explanation
Indices: 63285029--63285370 Score: 415
Period size: 162 Copynumber: 2.1 Consensus size: 161
63285019 AGGTAATGGA
* * *
63285029 CATTTCTTCGACACCAGAATAATCCGAAATATTTGGTGTTGAACTTAAAGCTCCACAGAAACTTA
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
* *
63285094 ATGTATTGGTCACTGGACTAGTCGTGTTTCTCATATCCAATTCATCCCTCATAACATCTATCAGT
66 ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
* *
63285159 TCAGGAGATGAGGAGATGGAGTTCCTAATATC
131 TCAGGAGATGAGAAGA-GGAGTTACTAATATC
* * * * *
63285191 CATTTCTTCTACACCAGAATAATCTGAAACATTCGGTGTTGAACTTAAAGCTTCAGA-AAATTTT
1 CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAA-CTT
* * * *
63285255 GATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAGTTCATCCCTTGC-T-TCATTTA-C
65 AATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCC-T-CATAACATCTATC
** *
63285317 GAGTTTTGGGGATGAAGAAGCA-GAGTTACTAATATC
128 -AGTTCAGGAGATG-AGAAG-AGGAGTTACTAATATC
63285353 CATTTCTTCAACACCAGA
1 CATTTCTTCAACACCAGA
63285371 GCAAATAGAG
Statistics
Matches: 155, Mismatches: 19, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
161 4 0.03
162 143 0.92
163 6 0.04
164 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (161 bp):
CATTTCTTCAACACCAGAATAATCCGAAACATTCGGTGTTGAACTTAAAGCTCCACAGAAACTTA
ATGTAATGGTCACTGGACTAGTCGTGTTTCTCATATACAATTCATCCCTCATAACATCTATCAGT
TCAGGAGATGAGAAGAGGAGTTACTAATATC
Found at i:63286265 original size:99 final size:100
Alignment explanation
Indices: 63286127--63286339 Score: 340
Period size: 99 Copynumber: 2.1 Consensus size: 100
63286117 CATCATTATT
*
63286127 GCTACTTGGCCTGC-AAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGGGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
*
63286191 CCAATACTTAACCTGCTTATAGGGGCATCAACACT
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
* **
63286226 TCTACTTGGCCTGCTAAA-GGGGTAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
1 GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
* *
63286290 CCCATACTTAACCTGCTTATAGGGGCATCATCACC
66 CCAATACTTAACCTGCTTATAGGGGCATCAACACC
*
63286325 GCTACTAGGCCTGCT
1 GCTACTTGGCCTGCT
63286340 TATAGGAGCA
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 101 0.97
100 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
GCTACTTGGCCTGCTAAACGGGACAATCTTCACCAGCAGTTGGTCCACTTACAGGAGCATTTTCC
CCAATACTTAACCTGCTTATAGGGGCATCAACACC
Found at i:63286343 original size:33 final size:33
Alignment explanation
Indices: 63286301--63286421 Score: 115
Period size: 33 Copynumber: 3.7 Consensus size: 33
63286291 CCATACTTAA
*
63286301 CCTGCTTATAGGGGCATCATCACC-GCTACTAGG
1 CCTGCTTATAGGAGCATCATC-CCAGCTACTAGG
*
63286334 CCTGCTTATAGGAGCATCATCCCAGGTACTTGAGG
1 CCTGCTTATAGGAGCATCATCCCAGCTAC-T-AGG
* * *
63286369 --TGCTCACAGGGGCATCATCCCTA-CTACTAGG
1 CCTGCTTATAGGAGCATCATCCC-AGCTACTAGG
* *
63286400 ACTACTTATAGGAGCATCATCC
1 CCTGCTTATAGGAGCATCATCC
63286422 GTTCTACTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
31 3 0.04
32 3 0.04
33 61 0.85
34 2 0.03
35 3 0.04
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (33 bp):
CCTGCTTATAGGAGCATCATCCCAGCTACTAGG
Found at i:63286364 original size:66 final size:66
Alignment explanation
Indices: 63286294--63286421 Score: 168
Period size: 66 Copynumber: 1.9 Consensus size: 66
63286284 TTTTCCCCCA
* * * * *
63286294 TACTTAACCTGCTTATAGGGGCATCATCACC-GCTACTAGGCCTGCTTATAGGAGCATCATCCCA
1 TACTTAACCTGCTCACAGGGGCATCATC-CCTACTACTAGGACTACTTATAGGAGCATCATCCCA
63286358 GG
65 GG
* **
63286360 TACTTGAGGTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
1 TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCC
63286422 GTTCTACTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (66 bp):
TACTTAACCTGCTCACAGGGGCATCATCCCTACTACTAGGACTACTTATAGGAGCATCATCCCAG
G
Found at i:63293914 original size:71 final size:71
Alignment explanation
Indices: 63293793--63293936 Score: 279
Period size: 71 Copynumber: 2.0 Consensus size: 71
63293783 TATTTCTCTC
63293793 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
1 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
63293858 AATAAG
66 AATAAG
*
63293864 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTATTAATAGGTATATTCTCCTT
1 TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
63293929 AATAAG
66 AATAAG
63293935 TC
1 TC
63293937 TATAGAAATC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (71 bp):
TCATCAAACATGTTGTTTCCATTGTATTCATACAACCTTACACTACTAATAGGTATATTCTCCTT
AATAAG
Found at i:63295014 original size:17 final size:17
Alignment explanation
Indices: 63294992--63295031 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
63294982 TAAATTTAAT
*
63294992 TTTTAATTTACA-TATTA
1 TTTTAATTTA-ATTATGA
63295009 TTTTAATTTAATTATGA
1 TTTTAATTTAATTATGA
63295026 TTTTAA
1 TTTTAA
63295032 AAAATTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTAATTTAATTATGA
Found at i:63297019 original size:27 final size:27
Alignment explanation
Indices: 63296988--63297068 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
63296978 ATAGGTGGTG
*
63296988 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
* * *
63297015 CCTATCTGATAGGTGCCGCTAGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
*
63297042 CCTACCTGATAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
63297069 TTTATCTGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.26
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTGGTGACT
Found at i:63299811 original size:5 final size:5
Alignment explanation
Indices: 63299801--63299847 Score: 78
Period size: 5 Copynumber: 9.4 Consensus size: 5
63299791 TTCTTAACAG
63299801 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA GAAAG- AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA -AAAGA AAAGA AA
63299848 TTATTTAGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 4 0.10
5 32 0.80
6 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:63300920 original size:17 final size:17
Alignment explanation
Indices: 63300898--63300936 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
63300888 AACTAGTATA
63300898 ATAATAAACAATAATAT
1 ATAATAAACAATAATAT
* *
63300915 ATAATATATAATAATAT
1 ATAATAAACAATAATAT
*
63300932 GTAAT
1 ATAAT
63300937 GTTTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAATAAACAATAATAT
Found at i:63300951 original size:14 final size:14
Alignment explanation
Indices: 63300926--63300957 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
63300916 TAATATATAA
*
63300926 TAATATGTAATGTT
1 TAATATATAATGTT
63300940 TAATATATAATGTT
1 TAATATATAATGTT
63300954 TAAT
1 TAAT
63300958 CATTGATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
TAATATATAATGTT
Found at i:63306616 original size:28 final size:28
Alignment explanation
Indices: 63306555--63306616 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
63306545 TCAGTGTACG
*
63306555 AAATATTGAGAATGGCACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
*
63306583 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAGTGTGCA
63306611 AAATAT
1 AAATAT
63306617 CGAATGATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAGTGTGCA
Found at i:63309145 original size:16 final size:16
Alignment explanation
Indices: 63309124--63309157 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63309114 CTGAAAAAGC
63309124 TTGAGCCCAAGAAAAT
1 TTGAGCCCAAGAAAAT
*
63309140 TTGAGCCCGAGAAAAT
1 TTGAGCCCAAGAAAAT
63309156 TT
1 TT
63309158 AAGTCTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (16 bp):
TTGAGCCCAAGAAAAT
Found at i:63313830 original size:27 final size:27
Alignment explanation
Indices: 63313800--63313873 Score: 62
Period size: 29 Copynumber: 2.7 Consensus size: 27
63313790 AAATATTTTT
* * *
63313800 TATTATTGTTTACTTTAAATTTTTATA
1 TATTATTATTTACTTTAAATGTATATA
* *
63313827 TATT-TTTTTCATACTTTTACATGTATATA
1 TATTATTATT--TAC-TTTAAATGTATATA
63313856 TA-TATTATTTACTTTAAA
1 TATTATTATTTACTTTAAA
63313874 ATTATTCGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
26 9 0.24
27 7 0.19
28 4 0.11
29 17 0.46
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTATTATTTACTTTAAATGTATATA
Found at i:63317084 original size:21 final size:20
Alignment explanation
Indices: 63317033--63317094 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
63317023 AATTACTTTG
*
63317033 ATAATTATTTTCAATATTTTT
1 ATAA-TATTTTAAATATTTTT
** *
63317054 ATTACCATTTTTAATAATTTTT
1 A-TAATATTTTAAAT-ATTTTT
63317076 ATAATATTTTAAATCATTT
1 ATAATATTTTAAAT-ATTT
63317095 GAACAAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAATATTTTAAATATTTTT
Found at i:63320114 original size:32 final size:32
Alignment explanation
Indices: 63320050--63320113 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
63320040 TTAGTTTATA
63320050 TGTATTGTTATTTTAAAAGTCGATATAATTTT
1 TGTATTGTTATTTTAAAAGTCGATATAATTTT
*
63320082 TGTA-TGTTATTTTAAAAGTTGATATAATTTT
1 TGTATTGTTATTTTAAAAGTCGATATAATTTT
63320113 T
1 T
63320114 TAACTCATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (32 bp):
TGTATTGTTATTTTAAAAGTCGATATAATTTT
Found at i:63341001 original size:22 final size:22
Alignment explanation
Indices: 63340976--63341017 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63340966 TCAATACATA
* *
63340976 CAAAAGCGGTGATTCGAACACC
1 CAAAAGCGGAGAATCGAACACC
*
63340998 CAAAATCGGAGAATCGAACA
1 CAAAAGCGGAGAATCGAACA
63341018 AACGAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (22 bp):
CAAAAGCGGAGAATCGAACACC
Found at i:63343133 original size:3 final size:3
Alignment explanation
Indices: 63343058--63343117 Score: 59
Period size: 3 Copynumber: 19.7 Consensus size: 3
63343048 TTAATTTTGA
* * **
63343058 TAT TAT TAT TAT TA- TAT TCAC TAT TATT TAT TGT TAT TGG TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT
63343104 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
63343118 ATATATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 39 0.85
4 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:63343238 original size:27 final size:26
Alignment explanation
Indices: 63343169--63343248 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
63343159 TACTTTACAT
* * *
63343169 TATTATATTTATTATTTATTTCTAACA
1 TATTATATTTAAT-TTTATTTATATCA
* *
63343196 TATTATTATTTTATTTTCTTTATATCA
1 TATTA-TATTTAATTTTATTTATATCA
*
63343223 TCATTATATTTAATTTGTGTTTATAT
1 T-ATTATATTTAATTT-TATTTATAT
63343249 ATTTTCTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (26 bp):
TATTATATTTAATTTTATTTATATCA
Found at i:63343847 original size:15 final size:17
Alignment explanation
Indices: 63343827--63343859 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63343817 CCGTCACCTT
63343827 ACATAT-TAT-TATATA
1 ACATATGTATATATATA
63343842 ACATATGTATATATATA
1 ACATATGTATATATATA
63343859 A
1 A
63343860 TTCATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
ACATATGTATATATATA
Found at i:63348087 original size:14 final size:15
Alignment explanation
Indices: 63348068--63348100 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
63348058 TATGCCTAAA
*
63348068 AAAAAG-AAAGAAAG
1 AAAAAGAAAAAAAAG
63348082 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
63348097 AAAA
1 AAAA
63348101 GATCAAGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:63349102 original size:73 final size:73
Alignment explanation
Indices: 63348960--63349108 Score: 235
Period size: 73 Copynumber: 2.0 Consensus size: 73
63348950 TTTATTTCTG
* *
63348960 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
63349025 TTTTTGTT
66 TTTTTGTT
* * * **
63349033 TTTCAAAAATCGACTCATATTGCGATAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATGTTCCG
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
63349098 TTTTTGTT
66 TTTTTGTT
63349106 TTT
1 TTT
63349109 TAATTTATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATGTTCAA
TTTTTGTT
Found at i:63349401 original size:89 final size:89
Alignment explanation
Indices: 63349192--63349624 Score: 561
Period size: 88 Copynumber: 4.9 Consensus size: 89
63349182 AATTTCTATT
* * ** * * ** *
63349192 TTTTAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCGGGTCATATG-TCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCT-GAGCTATTT
** * ** *
63349256 TCAAAATCTGCTTTTCAAATT-AAG
65 TCAATTTCTGTTTTTTTAATTCATG
*
63349280 TTTT-AACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
63349344 CAATTTCTGTTTTTTTAATTCATG
66 CAATTTCTGTTTTTTTAATTCATG
* *
63349368 TTTTCAAAAATTAACTCATATTGCTAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
*
63349433 CAATTTCT-ATTTTTTAATTCATG
66 CAATTTCTGTTTTTTTAATTCATG
* * *
63349456 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
* * * *
63349521 CTATTTCTG-TTTTTCAATTTATAT
66 CAATTTCTGTTTTTTTAATTCAT-G
*
63349545 TTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
1 TTTTCAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTT
63349610 TCAATTTCTGTTTTT
65 TCAATTTCTGTTTTT
63349625 AATGTCTGTT
Statistics
Matches: 305, Mismatches: 33, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
87 64 0.21
88 103 0.34
89 74 0.24
90 60 0.20
91 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (89 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
CAATTTCTGTTTTTTTAATTCATG
Found at i:63349505 original size:177 final size:176
Alignment explanation
Indices: 63349279--63349671 Score: 560
Period size: 177 Copynumber: 2.2 Consensus size: 176
63349269 TTCAAATTAA
* * *
63349279 GTTTTAACAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTT
1 GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTT
* ** *
63349344 CAATTTCTGTTTTTTTAATTCAT-GTTTTCAAAA-ATTAACTCATATTGCTAGAGGTGAGTTGAG
66 CAATTTCTG-TTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
*
63349407 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTATTTTTTAAT-TCAT
130 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCT-GTTTTTAATGTC-T
*
63349455 GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTT
1 GTTTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTT
* * *
63349520 TCTATTTCTGTTTTTCAATTTATATTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
65 TCAATTTCTGTTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
63349585 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
130 CCTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
* * * **
63349632 G-TTTAAAGAGTCAATTCATATTCCGAGAAATGAGTTGAGC
1 GTTTTAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGC
63349672 TCAAGATCAC
Statistics
Matches: 195, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
175 3 0.02
176 46 0.24
177 83 0.43
178 63 0.32
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (176 bp):
GTTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTT
CAATTTCTGTTTTTCAATTCATAGTTTTCAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAGC
CTTGGCTCACGTGCTGAGCTATTTTCAATTTCTGTTTTTAATGTCT
Found at i:63349797 original size:44 final size:44
Alignment explanation
Indices: 63349733--63349835 Score: 188
Period size: 44 Copynumber: 2.3 Consensus size: 44
63349723 CAGATTTGGC
*
63349733 CTCCCTGAAGTTGCAGTGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
*
63349777 CTCCCTAAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
1 CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
63349821 CTCCCTGAAGTTGCA
1 CTCCCTGAAGTTGCA
63349836 GTAGAGCTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAATGAAGCAGGTCAAAGTTGCAAGTCTTGT
Found at i:63351482 original size:3 final size:3
Alignment explanation
Indices: 63351412--63351466 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
63351402 TTGATATTTT
* * *
63351412 TTA TTA TTA -TA TTCA TTA TTA TTTA TTG TTA TTG GTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
63351458 TTA TTA TTA
1 TTA TTA TTA
63351467 ATATATGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
2 2 0.05
3 35 0.81
4 6 0.14
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:63352195 original size:15 final size:17
Alignment explanation
Indices: 63352175--63352207 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
63352165 CCATCACCTT
63352175 ACATAT-TAT-TATATA
1 ACATATGTATATATATA
63352190 ACATATGTATATATATA
1 ACATATGTATATATATA
63352207 A
1 A
63352208 TTCATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
ACATATGTATATATATA
Found at i:63353012 original size:14 final size:14
Alignment explanation
Indices: 63352993--63353019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63352983 ATAGAGATAT
63352993 AAATAGATAAATAC
1 AAATAGATAAATAC
63353007 AAATAGATAAATA
1 AAATAGATAAATA
63353020 ATAGTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:63354672 original size:25 final size:23
Alignment explanation
Indices: 63354641--63354691 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
63354631 CTTACTTTTA
63354641 TATTATATAT-TGTAAGATTATTT
1 TATTATATATAT-TAAGATTATTT
*
63354664 TATTATATATATTAATATTA-TT
1 TATTATATATATTAAGATTATTT
63354686 TATTAT
1 TATTAT
63354692 CTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 17 0.65
24 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (23 bp):
TATTATATATATTAAGATTATTT
Found at i:63354772 original size:21 final size:21
Alignment explanation
Indices: 63354731--63354798 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
63354721 TACATCATTG
63354731 TTTT-ATTATTATTAT-TATAT
1 TTTTAATTA-TATTATATATAT
* *
63354751 TTTTACTTGTATTATATATAT
1 TTTTAATTATATTATATATAT
*
63354772 TTATTAATTATTTATATATATAT
1 TT-TTAATTATAT-TATATATAT
63354795 TTTT
1 TTTT
63354799 TACATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 10 0.26
21 9 0.23
22 9 0.23
23 11 0.28
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (21 bp):
TTTTAATTATATTATATATAT
Found at i:63354847 original size:21 final size:19
Alignment explanation
Indices: 63354731--63354925 Score: 60
Period size: 21 Copynumber: 9.2 Consensus size: 19
63354721 TACATCATTG
63354731 TTTTATTATTATTATTATAT
1 TTTTATTA-TATTATTATAT
*
63354751 TTTTACTTGTATTATATATAT
1 TTTTA-TTATATTAT-TATAT
63354772 TTATTAATTAT-TTATATATAT
1 TT-TT-ATTATATTAT-TATAT
63354793 ATTTT-TTACATATATACTTTCATTAT
1 -TTTTATT--ATAT-TA--TT-A-TAT
63354819 TTTATATTATATCTATTATAT
1 TTT-TATTATAT-TATTATAT
**
63354840 TTCTTATT-TCCTA-TATAT
1 TT-TTATTATATTATTATAT
**
63354858 TTAAATTATATTTTATTATAT
1 TTTTATTATA--TTATTATAT
*
63354879 AAAATTTATTATATT-TT-TAT
1 ---TTTTATTATATTATTATAT
63354899 TTTTATCCTATATTACTTATTAT
1 TTTTAT--TATATTA-TTA-TAT
63354922 TTTT
1 TTTT
63354926 CTTTTTTTTT
Statistics
Matches: 133, Mismatches: 13, Indels: 55
0.66 0.06 0.27
Matches are distributed among these distances:
17 8 0.06
18 8 0.06
19 10 0.08
20 17 0.13
21 41 0.31
22 12 0.09
23 12 0.09
24 8 0.06
25 11 0.08
26 4 0.03
27 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTATTATATTATTATAT
Found at i:63356285 original size:12 final size:12
Alignment explanation
Indices: 63356268--63356300 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63356258 ATGACATTAA
63356268 AATAATA-ACAAT
1 AATAATATA-AAT
63356280 AATAATATAAAT
1 AATAATATAAAT
63356292 AATAATATA
1 AATAATATA
63356301 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:63356295 original size:15 final size:14
Alignment explanation
Indices: 63356272--63356312 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
63356262 CATTAAAATA
*
63356272 ATAACAATAATAAT
1 ATAAAAATAATAAT
63356286 ATAAATAATAAT-AT
1 ATAAA-AATAATAAT
63356300 ATAAAAA-AATAAT
1 ATAAAAATAATAAT
63356313 GATTGTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.12
13 4 0.17
14 11 0.46
15 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAAAATAATAAT
Found at i:63357598 original size:21 final size:21
Alignment explanation
Indices: 63357537--63357607 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
63357527 TTAAAATTAT
*
63357537 ATAATAATAA-ATAATGAATA
1 ATAATAATAATATAGTGAATA
*
63357557 ATTATAAT-ATATAGT-AA-A
1 ATAATAATAATATAGTGAATA
*
63357575 ATAACAATAATATAGTGAATA
1 ATAATAATAATATAGTGAATA
63357596 AT-ATATATAATA
1 ATAATA-ATAATA
63357608 AAATGATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 7 0.17
19 10 0.24
20 15 0.37
21 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (21 bp):
ATAATAATAATATAGTGAATA
Found at i:63357607 original size:12 final size:12
Alignment explanation
Indices: 63357534--63357709 Score: 58
Period size: 12 Copynumber: 13.9 Consensus size: 12
63357524 TTTTTAAAAT
63357534 TATATAATAATA
1 TATATAATAATA
63357546 -A-ATAATGAATA
1 TATATAAT-AATA
63357557 -ATTATAATATATA
1 TA-TATAATA-ATA
* *
63357570 GTAAAATAACAATAA
1 -T-ATATAATAAT-A
63357585 TATAGTGAATAATA
1 TATA-T-AATAATA
63357599 TATATAATAAAATGA
1 TATATAAT--AAT-A
*
63357614 TATATAATAAAA
1 TATATAATAATA
* *
63357626 TGTATAAATCAAAA
1 TATAT-AAT-AATA
*
63357640 TATATAATAAAA
1 TATATAATAATA
*
63357652 TATA-AATGATA
1 TATATAATAATA
*
63357663 TA-ACAAATAATA
1 TATA-TAATAATA
* * *
63357675 CACA-AATATAAA
1 TATATAATA-ATA
* *
63357687 TAAAAAATAATA
1 TATATAATAATA
63357699 TATATAATAAT
1 TATATAATAAT
63357710 TTTTCATATA
Statistics
Matches: 127, Mismatches: 17, Indels: 40
0.69 0.09 0.22
Matches are distributed among these distances:
10 6 0.05
11 17 0.13
12 39 0.31
13 24 0.19
14 20 0.16
15 20 0.16
16 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (12 bp):
TATATAATAATA
Found at i:63357616 original size:15 final size:15
Alignment explanation
Indices: 63357598--63357652 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
63357588 AGTGAATAAT
63357598 ATATATAATAAAATG
1 ATATATAATAAAATG
63357613 ATATATAATAAAATG
1 ATATATAATAAAATG
*
63357628 -TATA-AATCAAA--
1 ATATATAATAAAATG
63357639 ATATATAATAAAAT
1 ATATATAATAAAAT
63357653 ATAAATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 4 0.11
15 15 0.43
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (15 bp):
ATATATAATAAAATG
Found at i:63357632 original size:24 final size:22
Alignment explanation
Indices: 63357605--63357664 Score: 59
Period size: 26 Copynumber: 2.6 Consensus size: 22
63357595 AATATATATA
63357605 ATAAAATGATATATAATAAAATGT
1 ATAAAATGATATATAATAAAA--T
**
63357629 ATAAATCAAAATATATAATAAAAT
1 ATAAA--ATGATATATAATAAAAT
63357653 AT-AAATGATATA
1 ATAAAATGATATA
63357665 ACAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 6 0.20
23 2 0.07
24 8 0.27
26 14 0.47
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
ATAAAATGATATATAATAAAAT
Found at i:63359046 original size:3 final size:3
Alignment explanation
Indices: 63359031--63359100 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
63359021 AGTGAAGATG
* * *
63359031 ATA ATA ATG ATA ATAA ATA A-A AAA ATA ATA ATA CTA ATA ATA AT-
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
63359075 ATA ATA GTA ATA ATCA A-A ATA A-A ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA
63359101 GCAATAACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 8 0.15
3 41 0.76
4 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:63359088 original size:20 final size:19
Alignment explanation
Indices: 63359046--63359107 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
63359036 AATGATAATA
*
63359046 AATAA-AAAA-ATAATAAT
1 AATAATAAAATATAATAGT
*
63359063 ACTAATAATAATATAATAGT
1 AATAATAA-AATATAATAGT
* *
63359083 AATAATCAAAATAAAATAGC
1 AATAAT-AAAATATAATAGT
63359103 AATAA
1 AATAA
63359108 CATTGAAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.11
18 2 0.06
19 2 0.06
20 26 0.72
21 2 0.06
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAATAAAATATAATAGT
Found at i:63359136 original size:20 final size:20
Alignment explanation
Indices: 63359113--63359159 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
63359103 AATAACATTG
63359113 AAAGTAAAAA-AATAAATAAA
1 AAAGTAAAAAGAATAAA-AAA
63359133 AAAG-AAAAAGAATAAAAAA
1 AAAGTAAAAAGAATAAAAAA
*
63359152 ATAGTAAA
1 AAAGTAAA
63359160 TAAACGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.13
Consensus pattern (20 bp):
AAAGTAAAAAGAATAAAAAA
Found at i:63361021 original size:41 final size:41
Alignment explanation
Indices: 63360944--63361021 Score: 104
Period size: 41 Copynumber: 1.9 Consensus size: 41
63360934 TGACTTCAAC
* *
63360944 CTGCTCCACTGCAACTTCAGGTAGATAAGGTTTGTTTTGAT
1 CTGCTCCACTGCAACTTCAGGTAGATAAGATCTGTTTTGAT
* *
63360985 CTGCTCTACTGTAACTTCAGAG-AGATAAGATCTGTTT
1 CTGCTCCACTGCAACTTCAG-GTAGATAAGATCTGTTT
63361022 ATTTATAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 31 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (41 bp):
CTGCTCCACTGCAACTTCAGGTAGATAAGATCTGTTTTGAT
Found at i:63361218 original size:68 final size:68
Alignment explanation
Indices: 63361134--63361804 Score: 1018
Period size: 68 Copynumber: 9.9 Consensus size: 68
63361124 ATCTACTCCT
* ** * * *
63361134 CTGAAACTTCAAGGAGATCTGCTGTGGCTTCGAGCCGTTCTAACGTCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361199 CCG
66 CCG
* * * *
63361202 CTGAAACTTCAAGGAGATTTGTTGTGGCTTCTAGCTGCTCTAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361267 CCG
66 CCG
* *
63361270 CTGAAACTTTAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTTAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
63361335 CCA
66 CCG
* *
63361338 CTAAAATTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361403 CCG
66 CCG
* *
63361406 CTGAAACTTTAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
*
63361471 CAG
66 CCG
* * * *
63361474 CTAAAACTTCAAAGAGATCTGCTGTAGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361539 CCG
66 CCG
* * **
63361542 CTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCTAAATCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361607 CCG
66 CCG
* * * * *
63361610 CTGAAACTTCAAGAAGATCTGTTGTAGCTTCTAGCTGCTCTAACGCCATTTCAGGGAGAAGAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361675 CCG
66 CCG
* * *
63361678 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCTAACGTCATTTCAGGGAGAAAAGAT
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
63361743 CCG
66 CCG
* *
63361746 CTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGA
1 CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGA
63361805 TAAAATCTAC
Statistics
Matches: 548, Mismatches: 55, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 548 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGAT
CCG
Found at i:63361973 original size:88 final size:87
Alignment explanation
Indices: 63361819--63361992 Score: 235
Period size: 88 Copynumber: 2.0 Consensus size: 87
63361809 ATCTACAATT
* * * * * *
63361819 TTCAGCCTGTTACCCTATTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTATTTCCTTACTGC
1 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGC
63361884 TTAGGGTA-ATAAGATCTTGTAAA
66 TTAGGG-AGATAAGATC-TGTAAA
* *
63361907 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCT-GTTCCACTACTG
1 TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCC-CTACTG
63361971 CTTAGGGAGATAAGATCTGTAA
65 CTTAGGGAGATAAGATCTGTAA
63361993 TTTTCAGACG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
87 10 0.13
88 66 0.87
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (87 bp):
TTCAACCTGTTACCCTACTACTTAGGGGGTTAAGGCCCACCGCCTTCGATCTAGTTCCCTACTGC
TTAGGGAGATAAGATCTGTAAA
Found at i:63369033 original size:14 final size:14
Alignment explanation
Indices: 63369014--63369040 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63369004 ATAGAGATAT
63369014 AAATAGATAAATAC
1 AAATAGATAAATAC
63369028 AAATAGATAAATA
1 AAATAGATAAATA
63369041 ATAGTATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (14 bp):
AAATAGATAAATAC
Found at i:63369705 original size:24 final size:23
Alignment explanation
Indices: 63369654--63369699 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
63369644 ATAACAGAGG
63369654 TAAATAAATAGTAAAACAAATGAA
1 TAAATAAATAG-AAAACAAATGAA
*
63369678 TAAATAAATA-AAAATAAATGAA
1 TAAATAAATAGAAAACAAATGAA
63369700 AATAAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
24 10 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (23 bp):
TAAATAAATAGAAAACAAATGAA
Found at i:63374949 original size:26 final size:26
Alignment explanation
Indices: 63374903--63374955 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
63374893 TCAAACATGC
*
63374903 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
63374929 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
63374955 A
1 A
63374956 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:63376476 original size:26 final size:26
Alignment explanation
Indices: 63376440--63376547 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
63376430 TGAAATTCCC
* *
63376440 ATCATGGAACATTTACCTAAACCGTT
1 ATCATGGAACATTTACCTAACCCATT
**
63376466 ATCATTAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
63376492 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
63376518 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63376544 ATCA
1 ATCA
63376548 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63377291 original size:25 final size:25
Alignment explanation
Indices: 63377262--63377312 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
63377252 AAGATTAATT
**
63377262 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
63377287 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
63377312 T
1 T
63377313 TTCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:63379433 original size:138 final size:138
Alignment explanation
Indices: 63379277--63379561 Score: 435
Period size: 138 Copynumber: 2.1 Consensus size: 138
63379267 AGAGAACATA
* * * *
63379277 AATATAATTAATATATGAATTTGATTCAAACAAAATATTAATTGTATATCTTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* *
63379342 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
63379407 TTGGAAAG
131 TTGGAAAG
* * * * *
63379415 AATACAATTAATATATGAATTTGATTCATATAAAATACTAATTGTATATATTTCATATAATTTAT
1 AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
* * * *
63379480 TAATATAAACAATTATATTAATTAAATTCGGTCAAAATGTAAAAGACTTGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
63379545 TTGGAAAG
131 TTGGAAAG
63379553 AATATAATT
1 AATATAATT
63379562 CATTTTTCTA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 131 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCAAACAAAATACTAATTGTATATATTTCACAGAATTTAT
TAATATAAACAATTATATTAATTAAATTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTT
TTGGAAAG
Found at i:63379649 original size:20 final size:20
Alignment explanation
Indices: 63379626--63379667 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
63379616 TTCTTTTGGA
63379626 AAAATATAATTCATTTTTCT
1 AAAATATAATTCATTTTTCT
63379646 AAAATATAATTCATTTTTCT
1 AAAATATAATTCATTTTTCT
63379666 AA
1 AA
63379668 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATATAATTCATTTTTCT
Found at i:63386163 original size:22 final size:21
Alignment explanation
Indices: 63386133--63386179 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
63386123 TACAAATTAA
63386133 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
63386155 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
63386176 ATCT
1 ATCT
63386180 AAGATTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:63386185 original size:19 final size:19
Alignment explanation
Indices: 63386150--63386209 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 19
63386140 AGATTACAAG
63386150 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
63386171 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
63386188 ATCATATCTAAGATTACAT
1 ATCATATCTAAGATTGCAT
63386207 ATC
1 ATC
63386210 CTTAAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 16 0.44
19 11 0.31
20 1 0.03
21 8 0.22
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:63386714 original size:87 final size:86
Alignment explanation
Indices: 63386613--63386988 Score: 245
Period size: 87 Copynumber: 4.3 Consensus size: 86
63386603 ACAATATAGA
*
63386613 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
63386678 ATTTGCTCCTTGTGAACACAAG
66 ATTTGCTCCTTGT-AACACAAG
* * * *
63386700 GATGCCAAATCATCTTGGATCTGCTTCA--GTAAAATCATC-TGAAGGTCAGATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCGT-AAA-CA-CGTGAAAGCCAAATCTGCTATGTCT
* * * ** *
63386762 TTAATTTGCTTCTTGTAAAATTAT
63 TCAATTTGCTCCTTGTAACACAAG
* * * * * * *
63386786 GATTGTCCTATTGAT-ATCTTCGGTCTGCTCTCCGTCG-AATACA-GAG-ACGCCAAATATG-T-
1 GA-TG-CC-A--AATCATCTTAGATCTGCT-TCAG-CGTAA-ACACGTGAAAGCCAAATCTGCTA
* * *
63386845 T-TCTTCAATTTG-T-TTTCTAACAATACAG
58 TGTCTTCAATTTGCTCCTTGTAAC-ACA-AG
* * * * * *
63386873 AGATGCCAAATCATCTTAGATTTGGTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGTCTTC
1 -GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTC
* *
63386938 GATTTGTTCCTTGTAAGCACAAG
65 AATTTGCTCCTTGTAA-CACAAG
* *
63386961 GATGCCAAACCATCTTGGATCTGCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCA
63386989 ATATAAACAT
Statistics
Matches: 216, Mismatches: 46, Indels: 54
0.68 0.15 0.17
Matches are distributed among these distances:
82 4 0.02
83 9 0.04
84 18 0.08
85 9 0.04
86 15 0.07
87 111 0.51
88 9 0.04
89 9 0.04
90 21 0.10
91 5 0.02
92 4 0.02
93 1 0.00
94 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (86 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
ATTTGCTCCTTGTAACACAAG
Found at i:63387002 original size:261 final size:261
Alignment explanation
Indices: 63386535--63387020 Score: 769
Period size: 261 Copynumber: 1.9 Consensus size: 261
63386525 GATTATCATG
* *
63386535 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATCTGCTTCTTCGATTTGTTTT
1 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
* * * *
63386600 CTGACAATATAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
* * * *
63386665 TGCTGTGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAATCATCTTGGATCTGCTTCAGT
131 AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAAT
63386730 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
196 AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
63386795 A
261 A
* * *
63386796 TTGATATCTTCGGTCTGCTCTCCGTCGAATACAGAGACGCCAAATATGTTTCTTCAATTTGTTTT
1 TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
* * *
63386861 CTAACAATACAGAGATGCCAAATCATCTTAGATTTGGTTCAGCGTAAGCACGCGAAAACCAAATC
66 CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
* *
63386926 AGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAA
131 AGCTATGTCTTCAATTTGCTCCTTGTGAA-CACAAGGATGCCAAACCATCTTGGATCTGCTTCAA
*
63386990 TATAAA-CATCTGAAGGTTAGATCTGCTATGT
195 TA-AAATCATCTGAAGGTCAGATCTGCTATGT
63387021 ATCTGCTCTC
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
260 2 0.01
261 199 0.98
262 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (261 bp):
TTGATATCTTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATATGCTTCTTCAATTTGTTTT
CTAACAATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGCGAAAACCAAATC
AGCTATGTCTTCAATTTGCTCCTTGTGAACACAAGGATGCCAAACCATCTTGGATCTGCTTCAAT
AAAATCATCTGAAGGTCAGATCTGCTATGTCTTTAATTTGCTTCTTGTAAAATTATGATTGTCCT
A
Found at i:63388154 original size:8 final size:8
Alignment explanation
Indices: 63388137--63388187 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
63388127 GGCCTCTCCA
63388137 TTTTTA-T
1 TTTTTATT
63388144 TTTTTATT
1 TTTTTATT
*
63388152 TTTTTCTT
1 TTTTTATT
*
63388160 TTTATA-T
1 TTTTTATT
*
63388167 TTTTTCTT
1 TTTTTATT
*
63388175 TTTTTCTT
1 TTTTTATT
63388183 TTTTT
1 TTTTT
63388188 TTTGAAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
7 11 0.30
8 26 0.70
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:63388161 original size:15 final size:15
Alignment explanation
Indices: 63388137--63388190 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
63388127 GGCCTCTCCA
*
63388137 TTTTTATTTTTTATT
1 TTTTTCTTTTTTATT
63388152 TTTTTC-TTTTTATAT
1 TTTTTCTTTTTTAT-T
*
63388167 TTTTTCTTTTTT-TC
1 TTTTTCTTTTTTATT
63388181 TTTTT-TTTTT
1 TTTTTCTTTTT
63388191 GAAATAGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 5 0.14
14 12 0.34
15 13 0.37
16 5 0.14
ACGTcount: A:0.07, C:0.06, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTCTTTTTTATT
Found at i:63388171 original size:23 final size:22
Alignment explanation
Indices: 63388137--63388190 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
63388127 GGCCTCTCCA
63388137 TTTTTATTTTTTATTTTTTTCT
1 TTTTTATTTTTTATTTTTTTCT
*
63388159 TTTTATATTTTTTCTTTTTTTCT
1 TTTT-TATTTTTTATTTTTTTCT
63388182 TTTTT-TTTT
1 TTTTTATTTT
63388191 GAAATAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 21 0.70
ACGTcount: A:0.07, C:0.06, G:0.00, T:0.87
Consensus pattern (22 bp):
TTTTTATTTTTTATTTTTTTCT
Found at i:63394981 original size:19 final size:19
Alignment explanation
Indices: 63394916--63394994 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
63394906 AGATTACAAG
*
63394916 ATCATATCTTCAAGACTGCAT
1 ATCATATC-T-AAGATTGCAT
63394937 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
63394954 ATTATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63394973 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
63394992 ATC
1 ATC
63394995 CTTAAAGATT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
20 1 0.02
21 8 0.15
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:63395003 original size:36 final size:34
Alignment explanation
Indices: 63394918--63395004 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 34
63394908 ATTACAAGAT
*
63394918 CATATCTTCAAGACTGCATATCATATCTAAGATTG
1 CATATCTT-AAGATTGCATATCATATCTAAGATTG
* *
63394953 TATTATATCTAAGATTGCATATCATATCTAAGATTG
1 CA-TATCT-TAAGATTGCATATCATATCTAAGATTG
63394989 CATATCCTTAAAGATT
1 CATAT-CTT-AAGATT
63395005 ATATTTCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
35 5 0.12
36 37 0.86
37 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (34 bp):
CATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:63398103 original size:20 final size:20
Alignment explanation
Indices: 63398080--63398129 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
63398070 AAATCCAAAT
63398080 TAAAATACTAAAATTC-AGAA
1 TAAAATACTAAAATTCAAG-A
* *
63398100 TAAAATCCTGAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
63398120 TAAGAATACT
1 TAA-AATACT
63398130 GATAGGACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:63398235 original size:36 final size:36
Alignment explanation
Indices: 63398195--63398267 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
63398185 TACAATCCTT
63398195 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
1 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
63398231 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
1 TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
63398267 T
1 T
63398268 ACAATTCTGT
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:0.41, C:0.11, G:0.05, T:0.42
Consensus pattern (36 bp):
TCTTCTAAATTTATCATTATGTTTAGAAAAAATAAC
Found at i:63404405 original size:5 final size:5
Alignment explanation
Indices: 63404395--63404421 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
63404385 ATAAGAATAT
63404395 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
63404422 ACTAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:63407724 original size:3 final size:3
Alignment explanation
Indices: 63407716--63407741 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63407706 AAAGTGTGAA
63407716 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
63407742 ATAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:63408803 original size:47 final size:47
Alignment explanation
Indices: 63408734--63408823 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
63408724 TGTATCCGTT
*
63408734 ACCGGAATAGGGTTATGAGGCATTACCAAACTTATACACTAACCATC
1 ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAACCATC
*
63408781 ACCGGAATAGGGTTACGAGGCATTACCAGACTTATACACTAAC
1 ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAAC
63408824 ATTTATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (47 bp):
ACCGGAATAGGGTTACGAGGCATTACCAAACTTATACACTAACCATC
Found at i:63411374 original size:27 final size:26
Alignment explanation
Indices: 63411337--63411450 Score: 138
Period size: 27 Copynumber: 4.3 Consensus size: 26
63411327 AGCATGGCTG
* *
63411337 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
63411363 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
63411391 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * * *
63411418 CCAGATCAGATATTTTTGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCA
63411444 CCAGAAC
1 CCAGAAC
63411451 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
26 21 0.27
27 39 0.51
28 17 0.22
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63411884 original size:16 final size:15
Alignment explanation
Indices: 63411863--63411892 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
63411853 AAAATACTGA
63411863 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
63411879 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
63411893 CCAATTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:63413103 original size:26 final size:26
Alignment explanation
Indices: 63413067--63413148 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
63413057 TGAAATTCCC
*
63413067 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
63413093 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63413119 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63413145 ATCA
1 ATCA
63413149 ATTTGTGTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63417234 original size:27 final size:26
Alignment explanation
Indices: 63417141--63417233 Score: 114
Period size: 27 Copynumber: 3.5 Consensus size: 26
63417131 AGCATGGCTG
* **
63417141 CCAGAACAGATAATGTGACAGAGTTA
1 CCAGAACAGATAATGTGGCAGAGCCA
63417167 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
63417195 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
63417222 CCAGATCAGATA
1 CCAGAACAGATA
63417234 TTTTTTGCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.09
27 37 0.64
28 16 0.28
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:63417247 original size:27 final size:27
Alignment explanation
Indices: 63417141--63417255 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 27
63417131 AGCATGGCTG
* * **
63417141 CCAGAACAGATA-ATGTGACAGAGTTA
1 CCAGAACAAATATATGTGGCAGAGCCA
*
63417167 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAAATATAT-GTGGCAGAGCCA
63417195 CCAGAACAAATATATGTGGCAGAGCCA
1 CCAGAACAAATATATGTGGCAGAGCCA
* * * * * *
63417222 CCAGATCAGATATTTTTTGCATAGCCA
1 CCAGAACAAATATATGTGGCAGAGCCA
63417249 CCAGAAC
1 CCAGAAC
63417256 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (27 bp):
CCAGAACAAATATATGTGGCAGAGCCA
Found at i:63418909 original size:26 final size:26
Alignment explanation
Indices: 63418873--63418970 Score: 160
Period size: 26 Copynumber: 3.8 Consensus size: 26
63418863 TGAAATTCCC
**
63418873 ATCATGGAACATTTACCTAACTTATT
1 ATCATGGAACATTTACCTAACCCATT
63418899 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
63418925 ATAATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
63418951 ATCATGGAACATTTACCTAA
1 ATCATGGAACATTTACCTAA
63418971 ATTATGGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 66 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:63419751 original size:14 final size:15
Alignment explanation
Indices: 63419715--63419751 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
63419705 TTTCTTTTTT
*
63419715 TTATTATAACTATTA
1 TTATTATATCTATTA
63419730 -TATTATATC-ATTA
1 TTATTATATCTATTA
63419743 TTATTATAT
1 TTATTATAT
63419752 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:63419768 original size:21 final size:21
Alignment explanation
Indices: 63419717--63419779 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
63419707 TCTTTTTTTT
* *
63419717 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
63419736 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
63419757 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
63419778 AT
1 AT
63419780 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:63421600 original size:20 final size:20
Alignment explanation
Indices: 63421577--63421622 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
63421567 TATATTTACT
63421577 TAATA-AATAAGAATATTATA
1 TAATATAAT-AGAATATTATA
*
63421597 TAATATAATATAATATTATA
1 TAATATAATAGAATATTATA
*
63421617 TTATAT
1 TAATAT
63421623 TATATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAATATAATAGAATATTATA
Found at i:63421612 original size:15 final size:15
Alignment explanation
Indices: 63421588--63421637 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
63421578 AATAAATAAG
63421588 AATATTATATAATAT
1 AATATTATATAATAT
* *
63421603 AATATAATATTATAT
1 AATATTATATAATAT
* *
63421618 TATATTATATTATTAT
1 AATATTATA-TAATAT
63421634 AATA
1 AATA
63421638 CAATGATTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
15 20 0.74
16 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTATATAATAT
Found at i:63421616 original size:18 final size:18
Alignment explanation
Indices: 63421595--63421637 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
63421585 AAGAATATTA
63421595 TATAATATAATATAATAT
1 TATAATATAATATAATAT
* * *
63421613 TATATTATATTATATTAT
1 TATAATATAATATAATAT
63421631 TATAATA
1 TATAATA
63421638 CAATGATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATAATATAATATAATAT
Found at i:63421630 original size:10 final size:10
Alignment explanation
Indices: 63421588--63421627 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
63421578 AATAAATAAG
63421588 AATATTATAT
1 AATATTATAT
*
63421598 AATATAATAT
1 AATATTATAT
63421608 AATATTATAT
1 AATATTATAT
*
63421618 TATATTATAT
1 AATATTATAT
63421628 TATTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AATATTATAT
Found at i:63427621 original size:35 final size:35
Alignment explanation
Indices: 63427577--63427645 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
63427567 TTTACGATAG
63427577 AAAAAATATAATTTCACTGTTTTAATAGACTATAA
1 AAAAAATATAATTTCACTGTTTTAATAGACTATAA
63427612 AAAAAATATAATTTCACTGTTTTAATAGACTATA
1 AAAAAATATAATTTCACTGTTTTAATAGACTATA
63427646 TATTCATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.38
Consensus pattern (35 bp):
AAAAAATATAATTTCACTGTTTTAATAGACTATAA
Found at i:63429843 original size:18 final size:19
Alignment explanation
Indices: 63429808--63429863 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
63429798 AAATATGAAA
*
63429808 TTTGGAATTTTTATAAATC
1 TTTGGAATTTTTAAAAATC
*
63429827 TTTGGAA-TTTTAAAAATTG
1 TTTGGAATTTTTAAAAA-TC
* *
63429846 TTTTGAATTTTTCAAAAT
1 TTTGGAATTTTTAAAAAT
63429864 TATTTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.26
19 15 0.48
20 8 0.26
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTGGAATTTTTAAAAATC
Found at i:63429857 original size:20 final size:20
Alignment explanation
Indices: 63429807--63429874 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
63429797 AAAATATGAA
* *
63429807 ATTTGGAATTTTTATAAA-T
1 ATTTTGAATTTTTAAAAATT
* *
63429826 CTTTGGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
* *
63429845 GTTTTGAATTTTTCAAAATT
1 ATTTTGAATTTTTAAAAATT
*
63429865 ATTTTAAATT
1 ATTTTGAATT
63429875 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
18 8 0.20
19 14 0.35
20 18 0.45
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:63440910 original size:20 final size:20
Alignment explanation
Indices: 63440885--63440926 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
63440875 AAATGAATAC
63440885 TATAATAATT-ATAATATAAT
1 TATAAT-ATTAATAATATAAT
*
63440905 TATAATATTAATAATATTAT
1 TATAATATTAATAATATAAT
63440925 TA
1 TA
63440927 ACAATCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TATAATATTAATAATATAAT
Found at i:63446428 original size:17 final size:16
Alignment explanation
Indices: 63446387--63446430 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
63446377 TTTTTAACGT
*
63446387 AAATATGAAAGCAAAA
1 AAATATTAAAGCAAAA
63446403 AAATAATTAAAGCAAAA
1 AAAT-ATTAAAGCAAAA
*
63446420 AGTATATTAAA
1 A-AATATTAAA
63446431 AATTGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 18 0.75
18 2 0.08
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.20
Consensus pattern (16 bp):
AAATATTAAAGCAAAA
Found at i:63447764 original size:20 final size:20
Alignment explanation
Indices: 63447739--63447788 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
63447729 TGGCTTAAAA
63447739 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
63447759 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
63447776 GTGGTAGTGGATT
1 TTGGTAGTGGATT
63447789 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:63452403 original size:20 final size:20
Alignment explanation
Indices: 63452378--63452427 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
63452368 TGGCTTAAAA
63452378 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
63452398 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
63452415 GTGGTAGTGGATT
1 TTGGTAGTGGATT
63452428 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:63455974 original size:3 final size:3
Alignment explanation
Indices: 63455966--63456021 Score: 85
Period size: 3 Copynumber: 18.3 Consensus size: 3
63455956 AAATAAAACA
*
63455966 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
*
63456012 AAC AAT AAT A
1 AAT AAT AAT A
63456022 CAAGGACAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:63456092 original size:3 final size:3
Alignment explanation
Indices: 63456086--63456112 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
63456076 AATAGTAGTA
63456086 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
63456113 GTAAAGATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63456373 original size:3 final size:3
Alignment explanation
Indices: 63456365--63456705 Score: 128
Period size: 3 Copynumber: 111.7 Consensus size: 3
63456355 GTTTAATAGT
* * *
63456365 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA CACTA ATA TATG TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA -ATA ATA
* * *
63456413 ACA ACAA ATA ATA AT- ATA A-A AAA ATA GGA-A ATA ATA ATA ACGTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA A--TA
* * * * * * *
63456457 CTA ATA AGA ACA ATA ATA GGTTA ATA ATA ATG ATA ATA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * *
63456504 ATA ATA AGG ATA A-A ATGA AGA ATA ATA GTA ATA CATTA ATA ATA A-A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA
** * * *
63456550 ATCA GGA ATA ATA ATA ACA ATA ATA AT- ATAA ATA ATA AT- GTA AAA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * * * *
63456595 ATA GTA ATA GTA ATA ATA ATG ATA ACA GAAA ATA ATG GTT ATA GTGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA AT-A
* * * * *
63456642 A-A ATA ATA ATA ATA ATG ATA ATA GTA A-A A-A ATA CTA GTA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63456687 ATA ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
63456706 TAAAATAAAA
Statistics
Matches: 245, Mismatches: 66, Indels: 54
0.67 0.18 0.15
Matches are distributed among these distances:
2 20 0.08
3 200 0.82
4 16 0.07
5 9 0.04
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:63460061 original size:47 final size:47
Alignment explanation
Indices: 63460032--63460292 Score: 405
Period size: 47 Copynumber: 5.6 Consensus size: 47
63460022 ATATATGAGC
* * * *
63460032 TAAGGCCGAGTGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
63460079 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
* *
63460126 TAAGGCCGAATGGCCAATGTGATGAGTGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
** * *
63460173 TAAGATCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
63460220 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
1 TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
63460267 TAAGGCCGAATGGCCAATGTGATGAA
1 TAAGGCCGAATGGCCAATGTGATGAA
63460293 CGTGGAAGTG
Statistics
Matches: 200, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:63460102 original size:94 final size:94
Alignment explanation
Indices: 63460001--63460312 Score: 446
Period size: 94 Copynumber: 3.3 Consensus size: 94
63459991 TTAGGATTTT
* ** * * *
63460001 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAGTGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* *
63460066 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
63460095 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCAATGTGATGAGTGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
**
63460160 TGCATTTGTGTGATAAGATCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
*
63460189 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
63460254 TGCATATGTGTGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* *
63460283 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
63460313 GGGAAGCCGA
Statistics
Matches: 193, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 190 0.98
95 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:63460122 original size:23 final size:23
Alignment explanation
Indices: 63460049--63460122 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
63460039 GAGTGGCAAA
63460049 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
63460072 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
63460096 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
63460119 TGTG
1 TGTG
63460123 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:63460242 original size:22 final size:22
Alignment explanation
Indices: 63460214--63460289 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
63460204 ACATGTATAT
63460214 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
63460236 ATGTGATGAATG-TGAACAT-G-CA
1 ATGTGAT-AAGGCCG-A-ATGGCCA
63460258 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
63460283 ATGTGAT
1 ATGTGAT
63460290 GAACGTGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:63460326 original size:47 final size:47
Alignment explanation
Indices: 63460001--63460312 Score: 374
Period size: 47 Copynumber: 6.6 Consensus size: 47
63459991 TTAGGATTTT
* ** * * * *
63460001 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAGTGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * *
63460048 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * *
63460095 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* * * * **
63460142 ATGTGATGAGTGTGAACATGCATTTGTGTGATAAGATCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
63460189 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
63460236 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
63460283 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACATGTATATATGTG
63460313 GGGAAGCCGA
Statistics
Matches: 239, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
47 236 0.99
48 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:63460366 original size:46 final size:46
Alignment explanation
Indices: 63460306--63460396 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
63460296 GGAAGTGTAT
* * * *
63460306 ATATGTGGGGAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
63460352 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
63460397 TGTATATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.95
47 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.33, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:63464202 original size:24 final size:24
Alignment explanation
Indices: 63464174--63464223 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
63464164 TTATGAAGTT
*
63464174 TTTCAAAAAATTATATAATTATAA
1 TTTCAAAAAAATATATAATTATAA
* *
63464198 TTTCAAAAAAATATTTTATTATAA
1 TTTCAAAAAAATATATAATTATAA
63464222 TT
1 TT
63464224 GTTGAAACCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTCAAAAAAATATATAATTATAA
Found at i:63465309 original size:22 final size:22
Alignment explanation
Indices: 63465212--63465311 Score: 69
Period size: 22 Copynumber: 4.4 Consensus size: 22
63465202 GAAAAATGAA
*
63465212 TTAAAATAATATA-CAAACAAT
1 TTAAAATAATATATAAAACAAT
*
63465233 TTAAGGTAAATAAAATATAAAACAAT
1 TT-A---AAATAATATATAAAACAAT
* * *
63465259 TTTAAATAAT-TTTAAAAAAAT
1 TTAAAATAATATATAAAACAAT
** *
63465280 CAACAAATAATATATAAAACAGT
1 TTA-AAATAATATATAAAACAAT
63465303 TTAAAATAA
1 TTAAAATAA
63465312 ATAATATATA
Statistics
Matches: 58, Mismatches: 14, Indels: 13
0.68 0.16 0.15
Matches are distributed among these distances:
21 11 0.19
22 20 0.34
23 9 0.16
25 9 0.16
26 9 0.16
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (22 bp):
TTAAAATAATATATAAAACAAT
Found at i:63465343 original size:26 final size:25
Alignment explanation
Indices: 63465284--63465336 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
63465274 AAAAATCAAC
*
63465284 AAATAATATATAAAACAGTTTAAAAT
1 AAATAATATATAAAACA-TTAAAAAT
63465310 AAATAATATATATAAAC-TTAAAAAT
1 AAATAATATATA-AAACATTAAAAAT
63465335 AA
1 AA
63465337 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 12 0.48
27 4 0.16
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAACATTAAAAAT
Found at i:63466996 original size:46 final size:46
Alignment explanation
Indices: 63466886--63467005 Score: 120
Period size: 46 Copynumber: 2.6 Consensus size: 46
63466876 GATCTACTCT
*
63466886 ACTGAAACTTCA-AGGAGATAAGGATTG-GTAATTTCAACCTATTCC
1 ACTGCAACTTCAGA-GAGATAAGGATTGTGTAATTTCAACCTATTCC
* * * * * * * *
63466931 ACTACAATTTCAG-GAAGATAAGGTTTGTGTATTTTTATCCTGTTCG
1 ACTGCAACTTCAGAG-AGATAAGGATTGTGTAATTTCAACCTATTCC
63466977 ACTGCAACTTCAGAGAGATAAGGATTGTG
1 ACTGCAACTTCAGAGAGATAAGGATTGTG
63467006 GCTTCGATCT
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.02
45 20 0.34
46 37 0.63
47 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (46 bp):
ACTGCAACTTCAGAGAGATAAGGATTGTGTAATTTCAACCTATTCC
Found at i:63467820 original size:46 final size:46
Alignment explanation
Indices: 63467770--63467905 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 46
63467760 TTATCCATCT
* * *
63467770 CACTGTAACTCAGGGGTATAGGATTTGTACCATCTTCAATCAATCC
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
* * *
63467816 CACTGCAACTCAGGGGTATAAGATTTGTATCTTCTTCAAACCATCC
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
* * * *
63467862 CACTACAATTCAGGGGTATAGAATTTGTATCTTCTTCAGTCAAT
1 CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAAT
63467906 TTGCTCTGTT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
CACTGCAACTCAGGGGTATAGGATTTGTATCTTCTTCAATCAATCC
Done.