Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 46 of 311
Found at i:13158402 original size:47 final size:47
Alignment explanation
Indices: 13158331--13158568 Score: 334
Period size: 47 Copynumber: 5.1 Consensus size: 47
13158321 ACACATTTCG
* * * * * *
13158331 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
13158378 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
13158425 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
13158472 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * * **
13158519 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
13158566 CAT
1 CAT
13158569 AAAATCCTAA
Statistics
Matches: 175, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 174 0.99
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:13160961 original size:19 final size:21
Alignment explanation
Indices: 13160937--13160982 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
13160927 TTTCTAAAAT
13160937 TAAAAAGT-TAAAAA-ATA-AA
1 TAAAAA-TCTAAAAATATATAA
13160956 TAAAAATCTAAAAATATATAA
1 TAAAAATCTAAAAATATATAA
13160977 TAAAAA
1 TAAAAA
13160983 ACTTGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 3 0.12
21 8 0.33
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAAAATCTAAAAATATATAA
Found at i:13160961 original size:20 final size:20
Alignment explanation
Indices: 13160945--13160982 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13160935 ATTAAAAAGT
13160945 TAAAAA-ATAAATAAAAATC
1 TAAAAATATAAATAAAAATC
13160964 TAAAAATATATAATAAAAA
1 TAAAAATATA-AATAAAAA
13160983 ACTTGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAAAATATAAATAAAAATC
Found at i:13160993 original size:12 final size:14
Alignment explanation
Indices: 13160978--13161006 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13160968 AATATATAAT
13160978 AAAA-AACTTGCAA
1 AAAAGAACTTGCAA
13160991 AAAAGAACTTGCAA
1 AAAAGAACTTGCAA
13161005 AA
1 AA
13161007 TTTGCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.62, C:0.14, G:0.10, T:0.14
Consensus pattern (14 bp):
AAAAGAACTTGCAA
Found at i:13161460 original size:24 final size:23
Alignment explanation
Indices: 13161425--13161469 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
13161415 AATTGTTGGA
*
13161425 TTTATTTAATAA-CTTTTTAATT
1 TTTATTTAATAATCTATTTAATT
13161447 TTTATATTACATAATCTATTTAA
1 TTTAT-TTA-ATAATCTATTTAA
13161470 AGAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 3 0.16
24 4 0.21
25 7 0.37
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATTTAATAATCTATTTAATT
Found at i:13165882 original size:74 final size:73
Alignment explanation
Indices: 13165682--13165976 Score: 396
Period size: 72 Copynumber: 3.9 Consensus size: 73
13165672 TGATGCTTTT
*
13165682 ATTTCTG-TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
13165746 TAATTTCA
66 TATTTTCA
* * *
13165754 ATTTCTGTTTT-AAAAATTTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
13165818 TATTTTCA
66 TATTTTCA
**
13165826 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
13165891 GTATTTTCA
65 GTATTTTCA
*
13165900 ATTTCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
1 ATTTCTGTT---TTCA--------AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
13165965 ACACGTTGAGGT
55 ACACGTTGAGGT
13165977 TTTCAAAATT
Statistics
Matches: 198, Mismatches: 11, Indels: 16
0.88 0.05 0.07
Matches are distributed among these distances:
72 72 0.36
73 9 0.05
74 63 0.32
76 3 0.02
84 51 0.26
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
TATTTTCA
Found at i:13165964 original size:84 final size:85
Alignment explanation
Indices: 13165822--13165976 Score: 267
Period size: 84 Copynumber: 1.8 Consensus size: 85
13165812 TTGAGGTATT
* **
13165822 TTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13165887 TGAGGTATTTTCAATTTCTG
66 TGAGGTATTTTCAATTTCTG
*
13165907 TTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13165971 TGAGGT
66 TGAGGT
13165977 TTTCAAAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 51 0.77
85 15 0.23
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (85 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTG
Found at i:13166007 original size:57 final size:57
Alignment explanation
Indices: 13165919--13166033 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
13165909 CAATTTATGT
13165919 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
* * *
13165976 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
13166033 T
1 T
13166034 ATTTTCAATT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (57 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
Found at i:13166060 original size:72 final size:73
Alignment explanation
Indices: 13165975--13166456 Score: 495
Period size: 72 Copynumber: 6.4 Consensus size: 73
13165965 ACACGTTGAG
* * * *
13165975 GTTTTC-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCATGACACGTTGAGGTATTTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
13166039 CAATTTCT
66 CAATTTCT
* * * *
13166047 GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTAATTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
13166111 CAATTTCT
66 CAATTTCT
* * * *
13166119 GTTTTC-AAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACATGTTGAGGTATTTT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
13166183 CAATTTCT
66 CAATTTCT
* **
13166191 GTTTTTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAAACATACTGAGG
1 G-TTTTC-----AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGG
*
13166256 TATTTTCAATTTTT
60 TATTTTCAATTTCT
* ** * * *
13166270 ATCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGGACACGCTGAGGT
1 GT-TTTC----AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
*
13166335 AATTTCAATTTCT
61 ATTTTCAATTTCT
* * ** *
13166348 GTTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAAGTCACACGCTGAGGTAT
1 GTTTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTAT
*
13166413 TTTCAATTTTTT
63 TTTCAA-TTTCT
**
13166425 GGCTTTTTTAAAAATCAACTCATAATT-CGAGA
1 -G-TTTTCAAAAAATCAACTCAT-ATTGCGAGA
13166457 GGTGAGTTAA
Statistics
Matches: 358, Mismatches: 38, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
72 137 0.38
73 5 0.01
74 38 0.11
76 19 0.05
77 7 0.02
78 82 0.23
79 70 0.20
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (73 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCT
Found at i:13166255 original size:79 final size:78
Alignment explanation
Indices: 13166053--13166421 Score: 416
Period size: 79 Copynumber: 4.8 Consensus size: 78
13166043 TTCTGTTTTC
* * * *
13166053 AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13166118 TG-TTTTC-----
66 TGTTTTTCAAAAA
* * * *
13166125 AAAATTCAACTCATATTGCGAGAAATAAGTTGAGCCTCAAGACATGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13166190 TGTTTTTCAAAAAA
66 TGTTTTTC-AAAAA
* ** *
13166204 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAAACATACTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
13166269 TATCTTTCAAAAA
66 TGTTTTTCAAAAA
** * * * *
13166282 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13166347 TG-TTGTC---AA
66 TGTTTTTCAAAAA
* ** *
13166356 AAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAAGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGCTGAGGTATTTTCAATT
13166421 T
64 T
13166422 TTTGGCTTTT
Statistics
Matches: 257, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
72 63 0.25
73 5 0.02
74 38 0.15
76 22 0.09
77 3 0.01
78 61 0.24
79 65 0.25
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAA
Found at i:13167017 original size:15 final size:15
Alignment explanation
Indices: 13166999--13167052 Score: 83
Period size: 15 Copynumber: 3.5 Consensus size: 15
13166989 AAAAGAGCCA
13166999 AAAAAAAATTTCAGC
1 AAAAAAAATTTCAGC
13167014 AAAAAAAA-TTCTAGC
1 AAAAAAAATTTC-AGC
13167029 AAAAAAAATTTCCAGC
1 AAAAAAAATTT-CAGC
13167045 AAAAAAAA
1 AAAAAAAA
13167053 AACAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.08
15 19 0.53
16 13 0.36
17 1 0.03
ACGTcount: A:0.65, C:0.13, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAAATTTCAGC
Found at i:13167623 original size:15 final size:16
Alignment explanation
Indices: 13167590--13167623 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13167580 TTTTATTTGT
13167590 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
13167606 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
13167621 AAT
1 AAT
13167624 AAAAAACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:13177998 original size:74 final size:73
Alignment explanation
Indices: 13177806--13178093 Score: 371
Period size: 72 Copynumber: 3.8 Consensus size: 73
13177796 TTTATTTCTG
* *
13177806 TTTCAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTAATTTCA
1 TTTCAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
13177871 ATTTCT-AT
65 ATTTTTGAT
* *
13177879 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
*
13177944 TTTTTGCT
66 TTTTTGAT
**
13177952 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
*
13178017 ATTTCTGTTCAATTTATGTT
65 A-------T---TTT-TGAT
13178037 TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
13178094 TTTCAAAATT
Statistics
Matches: 189, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
72 57 0.30
73 13 0.07
74 57 0.30
81 1 0.01
84 54 0.29
85 7 0.04
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
TTTTTGAT
Found at i:13178081 original size:84 final size:85
Alignment explanation
Indices: 13177939--13178093 Score: 267
Period size: 84 Copynumber: 1.8 Consensus size: 85
13177929 TTGAGGTATT
* **
13177939 TTCAATTTTTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13178004 TGAGGTATTTTCAATTTCTG
66 TGAGGTATTTTCAATTTCTG
*
13178024 TTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
13178088 TGAGGT
66 TGAGGT
13178094 TTTCAAAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 51 0.77
85 15 0.23
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (85 bp):
TTCAATTTATGCTTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
TGAGGTATTTTCAATTTCTG
Found at i:13178124 original size:57 final size:57
Alignment explanation
Indices: 13178036--13178150 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
13178026 CAATTTATGT
13178036 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
13178093 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
13178150 T
1 T
13178151 ATTTTCAATT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (57 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
Found at i:13178344 original size:78 final size:78
Alignment explanation
Indices: 13178098--13178537 Score: 480
Period size: 78 Copynumber: 5.8 Consensus size: 78
13178088 TGAGGTTTTC
* * *
13178098 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13178163 TGTTTTT------
66 TGTTTTTCAAAAA
* * * * *
13178170 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGTCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13178235 TG-CTTTC-----
66 TGTTTTTCAAAAA
* * *
13178242 AAAATTCAACTCATATTGCGAGAAATGAGTTAAGCCTTAAGACATGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
13178307 TGTTTTTCAAAAA
66 TGTTTTTCAAAAA
* * * * *
13178320 AAAAATCAACTCATAATGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCCATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
* *
13178385 TATCTTTCAAAAA
66 TGTTTTTCAAAAA
* ** * * *
13178398 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
*
13178463 TG-TTGTC---AA
66 TGTTTTTCAAAAA
* ** *
13178472 AAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAG--ACACGCTGAGGTATTTTCAATT
13178537 T
64 T
13178538 TTTGGCTTTT
Statistics
Matches: 325, Mismatches: 34, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
71 3 0.01
72 126 0.39
73 4 0.01
74 40 0.12
76 22 0.07
77 3 0.01
78 127 0.39
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAA
Found at i:13178608 original size:78 final size:78
Alignment explanation
Indices: 13178398--13178615 Score: 200
Period size: 78 Copynumber: 2.8 Consensus size: 78
13178388 CTTTCAAAAA
* * * * * *
13178398 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAA-T
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
* ***
13178460 TTCT-G-TTGTCAA
66 TTTTGGCTT-TTTT
* * * *
13178472 AAAAATCAACTCGTATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
13178537 TTTTGGCTTTTTT
66 TTTTGGCTTTTTT
* *
13178550 AAAAATCAACTCATAATT-CGAGAGGTGAGTTAAACTTCGGGT-AGCATC-CCGAGCTATTTTCA
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTTAAACCTCAGGTCA-CA-CGCCGAGCTATTTTCA
13178612 ATTT
63 ATTT
13178616 CTTGTTTTTC
Statistics
Matches: 122, Mismatches: 14, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
74 38 0.31
76 19 0.16
77 5 0.04
78 54 0.44
79 6 0.05
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTCAGGTCACACGCCGAGCTATTTTCAATT
TTTTGGCTTTTTT
Found at i:13179145 original size:16 final size:16
Alignment explanation
Indices: 13179112--13179165 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
13179102 AAAAAGAGCC
13179112 AAAAAAATT-TCAGC-A
1 AAAAAAATTCT-AGCAA
*
13179127 AAAAAACTTCTAGCAA
1 AAAAAAATTCTAGCAA
13179143 AAAAAAATTCTAGCAA
1 AAAAAAATTCTAGCAA
13179159 AAAAAAA
1 AAAAAAA
13179166 CCAAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
15 11 0.31
16 24 0.69
ACGTcount: A:0.65, C:0.13, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAAAAATTCTAGCAA
Found at i:13179724 original size:15 final size:16
Alignment explanation
Indices: 13179691--13179724 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13179681 TTTTATTTGT
13179691 AATTGGTCTAAACAAA
1 AATTGGTCTAAACAAA
*
13179707 AATTGGTCTTAA-AAA
1 AATTGGTCTAAACAAA
13179722 AAT
1 AAT
13179725 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (16 bp):
AATTGGTCTAAACAAA
Found at i:13183840 original size:27 final size:27
Alignment explanation
Indices: 13183810--13183897 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
13183800 CGACTTGTGA
13183810 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAG
13183837 AATTA-TCGTTTTACCCTCGATTTACAG
1 AATTACT-GTTTTACCCTCGATTTACAG
** * *
13183864 AATTACCCTTTTATCCTCGATTTACAA
1 AATTACTGTTTTACCCTCGATTTACAG
13183891 AATTACT
1 AATTACT
13183898 AAAATACCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAG
Found at i:13183919 original size:27 final size:27
Alignment explanation
Indices: 13183889--13184097 Score: 246
Period size: 27 Copynumber: 7.8 Consensus size: 27
13183879 CTCGATTTAC
* *
13183889 AAAATTACTAAAATACCTCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
13183916 AAAATTACCAAAATACTCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
*
13183943 AAAATTACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
13183970 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
13183997 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
13184024 AAAATTACCAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
13184051 GAAATTATCAAAATA-CTCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
*
13184078 AAAA-TACCGAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
13184098 TAGGGTAGAA
Statistics
Matches: 159, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
26 14 0.09
27 144 0.91
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:13184056 original size:54 final size:54
Alignment explanation
Indices: 13183889--13184096 Score: 276
Period size: 54 Copynumber: 3.9 Consensus size: 54
13183879 CTCGATTTAC
* * *
13183889 AAAATTACTAAAATACCTCTAGTTTGTAAAATTACCAAAATACTCCTGATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* **
13183943 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* *
13183997 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * *
13184051 GAAATTATCAAAATA-CTCTCAATTTGTAAAA-TACCGAAATACCCCT
1 AAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCT
13184097 ATAGGGTAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
53 17 0.12
54 120 0.88
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:13184114 original size:27 final size:27
Alignment explanation
Indices: 13184082--13184327 Score: 314
Period size: 27 Copynumber: 9.1 Consensus size: 27
13184072 ATTTGTAAAA
*
13184082 TACCGAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
13184109 TACCGAAACACCCCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
13184136 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
13184163 TACTGAAATAACCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
13184190 TATCTAAATACCTCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
13184217 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* ** *
13184244 TATCGAAATACCATTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
13184271 TACCGAAATACCCCTGTAGAGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
13184298 TACCGAGATACTCTTGT-GGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
13184324 TACC
1 TACC
13184328 ATTTTGCCCC
Statistics
Matches: 190, Mismatches: 29, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
26 11 0.06
27 179 0.94
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:13185862 original size:93 final size:93
Alignment explanation
Indices: 13185750--13185921 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
13185740 GCCCATAAGT
* *
13185750 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
13185815 CGAGCTCAGATGCCTAGTTATATCTCTC
66 CGAGCTCAGATGCCTAGTTATATCTCTC
* * *
13185843 GAACTCGGACTCAACTCAACGAGTTCGGATATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
* *
13185908 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
13185922 CAAATATCCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTATATCTCTC
Found at i:13185917 original size:46 final size:46
Alignment explanation
Indices: 13185742--13185918 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
13185732 TGTAACCCGC
***
13185742 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATATTCGCAT
* * ** * *
13185788 CCATAAGTGAACCCGGACTCAACTCAACGAGCTCAGATGCCTAGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT-ATTCG-CAT
*** *
13185836 --ATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGATATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATATTCGCAT
*
13185881 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
13185919 GCCCAAATAT
Statistics
Matches: 105, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 69 0.66
47 32 0.30
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATATTCGCAT
Found at i:13185936 original size:46 final size:45
Alignment explanation
Indices: 13185793--13185936 Score: 105
Period size: 46 Copynumber: 3.1 Consensus size: 45
13185783 CGCATCCATA
* * * * *
13185793 AGTGAACCCGGACTCAACTCAACGAGCTCAGATGCCTAGTTATATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
*** ** *
13185841 --TCGAACTCGGACTCAACTCAACGAGTTCGGATATTC-GCATCCATA
1 AGT-GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCC--C
13185886 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
13185932 AGTGA
1 AGTGA
13185937 TATGTCACTT
Statistics
Matches: 72, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
43 3 0.04
46 37 0.51
47 28 0.39
48 4 0.06
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:13187359 original size:24 final size:24
Alignment explanation
Indices: 13187303--13187374 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
13187293 AGGAAGTGCG
*
13187303 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
* *
13187327 AAAAAAGGCTTTGCCCCAGTTATT
1 AAAAGAGGCTTTGCCCCAGTTATC
**
13187351 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
13187375 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 19 0.47
25 21 0.52
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:13193108 original size:177 final size:177
Alignment explanation
Indices: 13192806--13193621 Score: 1120
Period size: 177 Copynumber: 4.7 Consensus size: 177
13192796 ACAGCGGAGT
* * *
13192806 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
* * * *
13192871 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGTCTTATCTTTCTGTGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* *
13192936 AGTAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * * * *
13192983 AAACCGAAAATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
* * * * *
13193048 ATCTCTATGTA-CTGGCAATGGAGCAGATTTTAGCCACCAACCTTATCTTTCTGAGGTAGCAAAA
66 ATCTCCATGTATC-GGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
* *
13193112 GAGCAGGTTAAAGATACAAGTCTTATCTTCCTGAGATAGCAAGGAAGC
130 GAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* *
13193160 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
13193225 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* *
13193290 AGCAGGTTGAGGATACAAG--------TCCTGAGGTAGTAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * *
13193329 GGACTGAAAATT---G--CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
* * * **
13193389 ATCTCCATGTATCGATAATAGAGCAGATTTTAACCATTAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * * *
13193454 AGCAGGTTGAGGATACAAGTCTTATATTCCTGAAGCAGCAAGGAAGC
131 AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
* * *
13193501 AGACTAAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
* * * *
13193566 ATCTCCGTGTATCGATAATGGAGCAGATTTTAAGCCACTAGCCTTATCTCCCTGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTT-AGCCACCAGCCTTATCTCTCTGAG
13193622 TTGCAGTGGA
Statistics
Matches: 568, Mismatches: 55, Indels: 31
0.87 0.08 0.05
Matches are distributed among these distances:
164 124 0.22
166 1 0.00
169 29 0.05
172 27 0.05
175 1 0.00
176 1 0.00
177 363 0.64
178 22 0.04
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (177 bp):
AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTT
ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGC
Found at i:13193513 original size:341 final size:346
Alignment explanation
Indices: 13192806--13193621 Score: 1124
Period size: 341 Copynumber: 2.3 Consensus size: 346
13192796 ACAGCGGAGT
* *
13192806 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAAATCGAAGACGGTGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCGAATCTT
* * * *
13192871 ATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGTCTTATCTTTCTGTGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
*
13192936 AGTAGGTTGAAGATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAAACCGAAAATTACAGAT
131 AGCAGGTTGAAGATACAAG---T-TC-TCTTGAGGTAGCAAGGAAGCAAACCGAAAATT--AGA-
* * * * * *
13193001 TTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTCTATGTACTGGCAA
188 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACTGACAA
* * *
13193066 TGGAGCAGATTTTAGCCACCAACCTTATCTTTCTGAGGTAGCAAAAGAGCAGGTTAAAGATACAA
253 TAGAGCAGATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAGATACAA
* *
13193131 GTCTTATCTTCCTGAGATAGCAAGGAAGC
318 GTCTTATATTCCTGAGACAGCAAGGAAGC
* * *
13193160 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCGAATCTT
13193225 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
* * ** *
13193290 AGCAGGTTGAGGATACAAG-TC-C-TGAGGTAGTAAGGAAGCGGACTGAAAATT-G-CTTATCTC
131 AGCAGGTTGAAGATACAAGTTCTCTTGAGGTAGCAAGGAAGCAAACCGAAAATTAGACTTATCTC
*
13193350 CCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTA-TCGATAATAGAGCA
196 CCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACT-GACAATAGAGCA
** * * * *
13193414 GATTTTAACCATTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAGGATACAAGTCTTAT
260 GATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAGATACAAGTCTTAT
13193479 ATTCCTGA-AGCAGCAAGGAAGC
325 ATTCCTGAGA-CAGCAAGGAAGC
* * *
13193501 AGACTAAAAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACGGCGAATCTT
1 AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCGAATCTT
* * * *
13193566 ATCTCCGTGTATCGATAATGGAGCAGATTTTAAGCCACTAGCCTTATCTCCCTGAG
66 ATCTCCATGTATCGGTAATGGAGCAGATTTT-AGCCACCAGCCTTATCTCTCTGAG
13193622 TTGCAGTGGA
Statistics
Matches: 417, Mismatches: 42, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
340 2 0.00
341 226 0.54
342 22 0.05
343 1 0.00
346 25 0.06
347 1 0.00
349 2 0.00
354 138 0.33
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (346 bp):
AGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACGGCGAATCTT
ATCTCCATGTATCGGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG
AGCAGGTTGAAGATACAAGTTCTCTTGAGGTAGCAAGGAAGCAAACCGAAAATTAGACTTATCTC
CCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTCCATGTACTGACAATAGAGCAG
ATTTTAACCACCAACCTTATCTCTCTGAGGTAGCAAAAGAGCAGGTTAAAGATACAAGTCTTATA
TTCCTGAGACAGCAAGGAAGC
Found at i:13198917 original size:21 final size:21
Alignment explanation
Indices: 13198891--13198946 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
13198881 AGAACCACTT
*
13198891 ATGTGGCAAGTTAACTAGCTG
1 ATGTGGCCAGTTAACTAGCTG
*
13198912 ATGTGGCCAGTTAACTAGTTG
1 ATGTGGCCAGTTAACTAGCTG
13198933 ATGTGGCCAGTTAA
1 ATGTGGCCAGTTAA
13198947 TTTGCTACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (21 bp):
ATGTGGCCAGTTAACTAGCTG
Found at i:13208942 original size:22 final size:21
Alignment explanation
Indices: 13208914--13208955 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
13208904 TTGCATGCTA
13208914 TTTTTTAATTTTTAAATTTATT
1 TTTTTTAA-TTTTAAATTTATT
*
13208936 TTTTTTAATTTTGAATTTAT
1 TTTTTTAATTTTAAATTTAT
13208956 CTGAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTTAATTTTAAATTTATT
Found at i:13209369 original size:29 final size:29
Alignment explanation
Indices: 13209306--13209369 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
13209296 GTTTGTATTT
* * *
13209306 AGAATTTAATCTTTATATTTTTATTTTTA
1 AGAATTTAATCTTTATATTTTGAATTTGA
*
13209335 AGAATTTAATCTTTCTACTTTTGAATTTGA
1 AGAATTTAATCTTTATA-TTTTGAATTTGA
13209365 A-AATT
1 AGAATT
13209370 CTAACTCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (29 bp):
AGAATTTAATCTTTATATTTTGAATTTGA
Found at i:13211408 original size:116 final size:116
Alignment explanation
Indices: 13211161--13211393 Score: 448
Period size: 116 Copynumber: 2.0 Consensus size: 116
13211151 ACATCAGCAC
13211161 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
1 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
13211226 TTAGTCTTCTTAAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
66 TTAGTCTTCTTAAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
13211277 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
1 ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
* *
13211342 TTAGTCTTCTTGAAATAGCCAAAAATGATCACCATGGTTTGAGATGAAATG
66 TTAGTCTTCTTAAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
13211393 A
1 A
13211394 AACTTTTTCT
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (116 bp):
ATAAATCACTAAGGATAAAGGCTAAAAGGATAAGGATAAGCCTTAATTGATAAGGCATATTGATC
TTAGTCTTCTTAAAATAGCCAAAAATGATCACCAGGGTTTGAGATGAAATG
Found at i:13212859 original size:16 final size:17
Alignment explanation
Indices: 13212827--13212859 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13212817 TTTATAAGTA
*
13212827 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
13212844 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
13212860 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:13213302 original size:92 final size:92
Alignment explanation
Indices: 13213145--13213417 Score: 411
Period size: 92 Copynumber: 3.0 Consensus size: 92
13213135 TTTGACATGA
* * * *
13213145 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
* *
13213210 CATGGTCTTATTCTTTTCATGTCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* *
13213237 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
13213302 CATGGTCTTATTCGTTTCATATCACGT
66 CATGGTCTTATTCGTTTCATATCACGT
* * * *
13213329 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
** *
13213394 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTATTCGTTTCATATCA
13213418 GAGAGCACAC
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 164 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAAC
CATGGTCTTATTCGTTTCATATCACGT
Found at i:13213418 original size:46 final size:46
Alignment explanation
Indices: 13213145--13213417 Score: 368
Period size: 46 Copynumber: 5.9 Consensus size: 46
13213135 TTTGACATGA
* * * * *
13213145 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * *
13213191 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *** *
13213237 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13213283 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
* *
13213329 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
13213375 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
13213418 GAGAGCACAC
Statistics
Matches: 207, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.02
46 203 0.98
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:13221983 original size:66 final size:66
Alignment explanation
Indices: 13221877--13222005 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
13221867 CCATTTTCTA
* *
13221877 ATAATTGAAAATTACCAGTCACGCAGAGTATACTCTAAGAACTTCATACAGAATATGTTCAGATG
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGATG
13221942 G
66 G
* * * * *
13221943 ATAATTGAAAATTACCGGTCAAGCGGAGTGTATTCTAAGAACTTCATACTGAATACGTTCAGA
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGA
13222006 CTTCAGACAG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (66 bp):
ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTAAGAACTTCATACAGAATACGTTCAGATG
G
Found at i:13232233 original size:46 final size:46
Alignment explanation
Indices: 13232183--13232358 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
13232173 TGGTTGAGCA
13232183 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
13232229 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13232274 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13232322 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13232359 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13232339 original size:93 final size:93
Alignment explanation
Indices: 13232180--13232351 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13232170 GGATGGTTGA
* *
13232180 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13232245 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
13232273 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13232338 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
13232352 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:13234828 original size:7 final size:7
Alignment explanation
Indices: 13234806--13234838 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
13234796 CTCTAACCTA
13234806 TTATTA-
1 TTATTAT
*
13234812 TTATTTT
1 TTATTAT
13234819 TTATTAT
1 TTATTAT
13234826 TTATTAT
1 TTATTAT
13234833 TTATTA
1 TTATTA
13234839 CTATTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TTATTAT
Found at i:13234831 original size:17 final size:17
Alignment explanation
Indices: 13234804--13234861 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
13234794 TCCTCTAACC
13234804 TATTA-TTATTATTTTT
1 TATTATTTATTATTTTT
*
13234820 TATTATTTATTATTTAT
1 TATTATTTATTATTTTT
* * *
13234837 TACTATTTATTCTATTT
1 TATTATTTATTATTTTT
13234854 TACTTATT
1 TA-TTATT
13234862 ACTCATTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 5 0.15
17 25 0.74
18 4 0.12
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTATTATTTTT
Found at i:13236526 original size:15 final size:15
Alignment explanation
Indices: 13236506--13236537 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13236496 AGTCCATTTA
*
13236506 TTTTATTTCTTTTTC
1 TTTTATTTATTTTTC
13236521 TTTTATTTATTTTTC
1 TTTTATTTATTTTTC
13236536 TT
1 TT
13236538 AAGACTTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTATTTTTC
Found at i:13239005 original size:21 final size:20
Alignment explanation
Indices: 13238979--13239022 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
13238969 AAGTCATTGT
13238979 TTAAGAGTAAATCTTCCATAA
1 TTAAGAG-AAATCTTCCATAA
13239000 TT-A-AGAAATCTTCCATAA
1 TTAAGAGAAATCTTCCATAA
13239018 TTAAG
1 TTAAG
13239023 CGGAGTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 15 0.71
19 3 0.14
20 1 0.05
21 2 0.10
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (20 bp):
TTAAGAGAAATCTTCCATAA
Found at i:13239010 original size:18 final size:18
Alignment explanation
Indices: 13238987--13239022 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13238977 GTTTAAGAGT
13238987 AAATCTTCCATAATTAAG
1 AAATCTTCCATAATTAAG
13239005 AAATCTTCCATAATTAAG
1 AAATCTTCCATAATTAAG
13239023 CGGAGTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (18 bp):
AAATCTTCCATAATTAAG
Found at i:13241388 original size:29 final size:29
Alignment explanation
Indices: 13241355--13241415 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
13241345 TATAGGTGAA
13241355 GATTTTAAATCCACAAATAAAATTTTAAG
1 GATTTTAAATCCACAAATAAAATTTTAAG
*
13241384 GATTTTAAATTCACAAATAAAATTTTAAG
1 GATTTTAAATCCACAAATAAAATTTTAAG
13241413 GAT
1 GAT
13241416 AATTCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (29 bp):
GATTTTAAATCCACAAATAAAATTTTAAG
Found at i:13251359 original size:29 final size:29
Alignment explanation
Indices: 13251327--13251390 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
13251317 ATAAAAGAAC
* *
13251327 CATTAGAAGAATCACAAGAAAAACTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
13251356 CATTAAAAGAATCAAAAGAAAACCTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
13251385 CGTTAA
1 CATTAA
13251391 CCAAAGGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.52, C:0.14, G:0.12, T:0.22
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACTGATT
Found at i:13256183 original size:24 final size:24
Alignment explanation
Indices: 13256133--13256197 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
13256123 GTAGCCTGTC
**
13256133 GGGACAGTAAACATGAGGTCTGTT
1 GGGACAGTAAACATGAGGTCTACT
*
13256157 GGGACCGTAAACATGAGGTCTACT
1 GGGACAGTAAACATGAGGTCTACT
* *
13256181 GGGACTGTAAACTTGAG
1 GGGACAGTAAACATGAG
13256198 AACTCTCTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.23
Consensus pattern (24 bp):
GGGACAGTAAACATGAGGTCTACT
Found at i:13256691 original size:21 final size:21
Alignment explanation
Indices: 13256655--13256698 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13256645 ACCTTTTCTA
**
13256655 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGGAAAAACCATT
*
13256676 AAGTTAAAAGGAAAAACTATT
1 AAGTTAAAAGGAAAAACCATT
13256697 AA
1 AA
13256699 ATAATCTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.11, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGAAAAACCATT
Found at i:13256745 original size:21 final size:22
Alignment explanation
Indices: 13256721--13256771 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
13256711 TTCATCTACG
*
13256721 AGTTAAAATTCAAAACCA-TAA
1 AGTTAAAAGTCAAAACCATTAA
13256742 AGTTAAAAGTCAAAACCATTAA
1 AGTTAAAAGTCAAAACCATTAA
13256764 A-TTAAAAG
1 AGTTAAAAG
13256772 GCAACACTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.24
Consensus pattern (22 bp):
AGTTAAAAGTCAAAACCATTAA
Found at i:13267084 original size:23 final size:25
Alignment explanation
Indices: 13267058--13267104 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
13267048 TATCATTCAT
*
13267058 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
13267081 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
13267105 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:13267425 original size:46 final size:46
Alignment explanation
Indices: 13267365--13267635 Score: 402
Period size: 46 Copynumber: 5.9 Consensus size: 46
13267355 TTTGACGTGA
* * * * *
13267365 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGT
* * *
13267411 TGCCATGGTATCTTTCAGCCATGGTCTTACACATCTCATATCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
* *
13267457 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
13267503 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC-TGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAT-GT
* *
13267549 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
13267595 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
13267636 TAGAGAGCAC
Statistics
Matches: 206, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 3 0.01
46 203 0.99
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGT
Found at i:13269816 original size:31 final size:30
Alignment explanation
Indices: 13269772--13269836 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
13269762 CTAATAAAAT
*
13269772 AATAATAAATATCTTATTAAAGT-ATTAATAA
1 AATAATAAATATCTAATTAAA-TAATT-ATAA
**
13269803 AATAATATTTATCTAATTAAATAATTATAA
1 AATAATAAATATCTAATTAAATAATTATAA
13269833 AATA
1 AATA
13269837 TCAAAATATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (30 bp):
AATAATAAATATCTAATTAAATAATTATAA
Found at i:13278290 original size:743 final size:742
Alignment explanation
Indices: 13276842--13278331 Score: 2640
Period size: 743 Copynumber: 2.0 Consensus size: 742
13276832 CCAGTAAGGA
* **
13276842 TACCAATGTGGAAATGGGAGTGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
1 TACCAATATGGAAATGGGAGCCAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
*
13276907 AAGAAGGACTCTGTTTGGGTCGTTGTGGATTGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
66 AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
* * *
13276972 GACATACTTCTCTTTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCATGGGT
131 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTACATGGGT
*
13277037 ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCGATTTTGAGGAAAGCTTCATG
196 ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGAGGAAAGCTTCATG
13277102 AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
261 AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
* * *
13277167 AGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGGA
326 AGGGTGATTCAGATATTAGAAGAAATGTTGAGGGGTTGCGTAATAGATTTCTGAGGCAGTTGGGA
*
13277232 GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCGC
391 GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCAC
*
13277297 CATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGCAG
456 CATATGAGGCACTTTATGGTCATAAGTGTCGCACTCCTTTGTGCTGGACTAAGTTGGGTGAGCAG
*
13277362 CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGACT
521 CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGAAAAGGTCCATTTGATTCGTGACCGACT
* * * *
13277427 GAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCTG
586 GAAAGCGGCTTCTGATAGATAGAAGTCCTACGCGGATTTGAAAAGAAAGGACATCAAGTATTCTG
* *
13277492 TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAGAAGGTTATAAGATTTGGTTGTAAGGGT
651 TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTATAAGATTTGGTCGTAAGGGT
**
13277557 AAGCTGAGTCCTTGATTTATTGGGCCG
716 AAGCTGAGTCCTCAATTTATTGGGCCG
13277584 TACCAATATGGAAATGGGAGCCAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
1 TACCAATATGGAAATGGGAGCCAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
* * *
13277649 CAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGGCCAAGTCTGCATATTTTATCCCTGTTAG
66 AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
13277714 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTACATGGGG
131 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTACAT-GGG
* *
13277779 TACCTGTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGGGGAAAGCTTCAT
195 TACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGAGGAAAGCTTCAT
*
13277844 GAGGCTTTGGGTTCTTATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGA
260 GAGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGA
*
13277909 GAGGGTGATTCAGATATTAGAAGAAATGTTGAGGGGTTGCGTAATAGATTTTTGAGGCAGTTGGG
325 GAGGGTGATTCAGATATTAGAAGAAATGTTGAGGGGTTGCGTAATAGATTTCTGAGGCAGTTGGG
*
13277974 AGGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAATAACAGTTATCAGTCTAGTATATAGATGGCA
390 AGGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCA
13278039 CCATATGAGGCACTTTATGGTCATAAGTGTCGCACTCCTTTGTGCTGGACTAAGTTGGGTGAGCA
455 CCATATGAGGCACTTTATGGTCATAAGTGTCGCACTCCTTTGTGCTGGACTAAGTTGGGTGAGCA
*
13278104 GCGTGTTCTTGGTCCAGAGTTGGTTTTAGAGACTGAGGAAAAGGTCCATTTGATTCGTGACCGAC
520 GCGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGAAAAGGTCCATTTGATTCGTGACCGAC
13278169 TGAAAGCGGCTTCTGATAGATAGAAGTCCTACGCGGATTTGAAAAGAAAGGACATCAAGTATTCT
585 TGAAAGCGGCTTCTGATAGATAGAAGTCCTACGCGGATTTGAAAAGAAAGGACATCAAGTATTCT
** * *
13278234 GTGGGAGACATGGTTTTTCTTAAGGTCTTGCCAAATAAAAAGGTTCTGAA-ATTTGGTCGTAAGG
650 GTGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTAT-AAGATTTGGTCGTAAGG
13278298 GTAAGCTGAGTCCTCAATTTATTGGGCCG
714 GTAAGCTGAGTCCTCAATTTATTGGGCCG
13278327 TACCA
1 TACCA
13278332 GATTCTGAAG
Statistics
Matches: 711, Mismatches: 35, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
742 181 0.25
743 528 0.74
744 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (742 bp):
TACCAATATGGAAATGGGAGCCAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTACATGGGT
ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGAGGAAAGCTTCATG
AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
AGGGTGATTCAGATATTAGAAGAAATGTTGAGGGGTTGCGTAATAGATTTCTGAGGCAGTTGGGA
GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCAC
CATATGAGGCACTTTATGGTCATAAGTGTCGCACTCCTTTGTGCTGGACTAAGTTGGGTGAGCAG
CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGAAAAGGTCCATTTGATTCGTGACCGACT
GAAAGCGGCTTCTGATAGATAGAAGTCCTACGCGGATTTGAAAAGAAAGGACATCAAGTATTCTG
TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTATAAGATTTGGTCGTAAGGGT
AAGCTGAGTCCTCAATTTATTGGGCCG
Found at i:13280292 original size:38 final size:38
Alignment explanation
Indices: 13280196--13280292 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 38
13280186 TTTTACAGTA
*
13280196 CCACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCC
1 CCACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
*
13280234 CCATACTTGGTGTGTAGGGTTGGGTGGGTCGATTTTATCC
1 CC--ACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
* *
13280274 CCACATGGTGTGTTGGGTT
1 CCACTTGGTGTGTAGGGTT
13280293 AGACAGAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
38 17 0.32
40 36 0.68
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.36
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
Found at i:13280482 original size:43 final size:44
Alignment explanation
Indices: 13280406--13280527 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 44
13280396 CTAGAATACA
* * *
13280406 GGTC-TATAGCGGCGTTTTTTTATAAAAGTGCCGCTAAAGTTCTT
1 GGTCTTATAGCGGCGTTTTTTTA-AAAAGCGCCGCTAAAGGTCCT
*
13280450 GGT-TTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAGGTCCT
1 GGTCTTATAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAGGTCCT
* * * *
13280493 GGTCTT-TAGCGGCGCTTTTATAAAAAACGTCGCTA
1 GGTCTTATAGCGGCGTTTTTTTAAAAAGCGCCGCTA
13280528 TAGACCAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
43 45 0.67
44 22 0.33
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (44 bp):
GGTCTTATAGCGGCGTTTTTTTAAAAAGCGCCGCTAAAGGTCCT
Found at i:13280625 original size:112 final size:114
Alignment explanation
Indices: 13280426--13280633 Score: 314
Period size: 112 Copynumber: 1.8 Consensus size: 114
13280416 GGCGTTTTTT
* * * *
13280426 TATAAAAGTGCCGCTAAAGTTCTTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAGGTC
1 TATAAAAGCGCCGCTAAAGGTCCTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCACTAAAGGTC
13280491 CTGGTCTTTAGCGGCGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
66 CTGGTCTTTAGCGGCGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
* * * *
13280540 TATAAAAGCGCCGCTAAAGGTCCTGGTCTT-TGGCGGCG-TTTTTT-AAGAGCGTCACTAAAGGT
1 TATAAAAGCGCCGCTAAAGGTCCTGGT-TTATAGCAGCGTTTTTTTAAAAAGCGCCACTAAAGGT
13280602 CCTGGTCTTTAGCGGCGCTTTTATAAAAAACG
65 CCTGGTCTTTAGCGGCGCTTTTATAAAAAACG
13280634 CCGTTAACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
112 47 0.55
113 6 0.07
114 30 0.35
115 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (114 bp):
TATAAAAGCGCCGCTAAAGGTCCTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCACTAAAGGTC
CTGGTCTTTAGCGGCGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
Found at i:13285103 original size:42 final size:43
Alignment explanation
Indices: 13285029--13285130 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
13285019 TATTCCTGAT
* * * *
13285029 ATGGTCTTACATGAAAT-ATCATATCGACGCCATGTCCTC-GAC
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCC-CGGAC
* *
13285071 ATGGTCTTATACGAAATCA-CATACCGAGGCCATATCCCGGAT
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGGAC
*
13285113 ATGGTCTTATACGGAATC
1 ATGGTCTTATACGAAATC
13285131 TTAATAACCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.96
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGGAC
Found at i:13286693 original size:24 final size:24
Alignment explanation
Indices: 13286655--13286811 Score: 105
Period size: 24 Copynumber: 6.4 Consensus size: 24
13286645 TGTATCATCT
13286655 GAAAGACCTTTGTGGCTA-ATCTGCA
1 GAAAG-CCTTTGTGGCTACATCTG-A
13286680 GAAAGCCTTTGTGGCATATCATCTGA
1 GAAAGCCTTTGTGGC-TA-CATCTGA
13286706 -AAA-CCTTTGTGGCGTATCATCTGA
1 GAAAGCCTTTGTGGC-TA-CATCTGA
* *
13286730 -AAAGCTTTTGTGGCTA-ATTTGCA
1 GAAAGCCTTTGTGGCTACATCTG-A
* *
13286753 AAAAGCCTTTGTAGTG-TATCAACTG-
1 GAAAGCCTTTGT-G-GCTA-CATCTGA
* *
13286778 GAAAGCGTTTGTGGCTA-ATTTGTA
1 GAAAGCCTTTGTGGCTACATCTG-A
13286802 GAAAGCCTTT
1 GAAAGCCTTT
13286812 ATGGTATGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
22 7 0.06
23 2 0.02
24 57 0.53
25 32 0.30
26 2 0.02
27 8 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
GAAAGCCTTTGTGGCTACATCTGA
Found at i:13286700 original size:49 final size:48
Alignment explanation
Indices: 13286638--13286743 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
13286628 TTGGAAGGCT
**
13286638 TTTGTGGTGTATCATCTGAAAGACCTTTGTGGC-TA-ATCTGCAGAAAGCC
1 TTTGTGGCATATCATCTGAAA-ACCTTTGTGGCGTACATCTG-A-AAAGCC
*
13286687 TTTGTGGCATATCATCTGAAAACCTTTGTGGCGTATCATCTGAAAAGCT
1 TTTGTGGCATATCATCTGAAAACCTTTGTGGCGTA-CATCTGAAAAGCC
13286736 TTTGTGGC
1 TTTGTGGC
13286744 TAATTTGCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 11 0.22
49 34 0.67
50 1 0.02
51 5 0.10
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (48 bp):
TTTGTGGCATATCATCTGAAAACCTTTGTGGCGTACATCTGAAAAGCC
Found at i:13286762 original size:49 final size:49
Alignment explanation
Indices: 13286705--13286811 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
13286695 ATATCATCTG
* * *
13286705 AAAA-CCTTTGTGGCGTATCATCTGAAAAGCTTTTGTGGCTAATTTGCA
1 AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
* * *
13286753 AAAAGCCTTTGTAGTGTATCAACTGGAAAGCGTTTGTGGCTAATTTGTA
1 AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
*
13286802 GAAAGCCTTT
1 AAAAGCCTTT
13286812 ATGGTATGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 4 0.08
49 47 0.92
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (49 bp):
AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
Found at i:13286773 original size:73 final size:74
Alignment explanation
Indices: 13286638--13286792 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 74
13286628 TTGGAAGGCT
* * * *
13286638 TTTGTGGTGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAGAAAGCCTTTGTGGCATATCATC
1 TTTGTGGCGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATCAAC
13286703 T-GAAAACC
66 TGGAAAACC
* * **
13286711 TTTGTGGCGTATCATCTGAAA-AGCTTTTGTGGCTAATTTGCAAAAAGCCTTTGTAGTGTATCAA
1 TTTGTGGCGTATCATCTGAAAGA-CCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATCAA
* *
13286775 CTGGAAAGCG
65 CTGGAAAACC
13286785 TTTGTGGC
1 TTTGTGGC
13286793 TAATTTGTAG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 1 0.01
73 56 0.80
74 13 0.19
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (74 bp):
TTTGTGGCGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATCAAC
TGGAAAACC
Found at i:13290109 original size:20 final size:19
Alignment explanation
Indices: 13290079--13290117 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
13290069 CCAAAATTAG
13290079 AAAGAAAAGAAAGAAAGAA
1 AAAGAAAAGAAAGAAAGAA
*
13290098 AAAGAGAAAGAAGGAAAGAA
1 AAAGA-AAAGAAAGAAAGAA
13290118 GCAGACGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGAAAGAA
Found at i:13291887 original size:6 final size:6
Alignment explanation
Indices: 13291851--13291894 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
13291841 ACAGTATCTA
* * *
13291851 AACAGT AATCAGT AACGGT AGCAGT ACCAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
13291895 TTCAACACAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:13291972 original size:44 final size:45
Alignment explanation
Indices: 13291872--13291979 Score: 123
Period size: 44 Copynumber: 2.4 Consensus size: 45
13291862 GTAACGGTAG
*
13291872 CAGTACCAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
** * *
13291917 TTGTAACAGTAAC-GATAACAGTATTC-ACACATAAAGTG-TCGAAT
1 CAGTAACAGTAACAG-TAACAGTATTCAACACACAAAGTGCT-AAAT
*
13291961 CAGTAATAGTAACAGTAAC
1 CAGTAACAGTAACAGTAAC
13291980 TGTAACAGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.02
44 29 0.56
45 22 0.42
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.23
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
Found at i:13292174 original size:22 final size:22
Alignment explanation
Indices: 13292130--13292174 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13292120 GTAATTTCAT
*
13292130 AGTTCAATGCAGTACACATAAC
1 AGTTCAATGCAGTACACAAAAC
* *
13292152 AGTTCAATTCAGTACTCAAAAC
1 AGTTCAATGCAGTACACAAAAC
13292174 A
1 A
13292175 ATATTCAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
AGTTCAATGCAGTACACAAAAC
Found at i:13292971 original size:17 final size:17
Alignment explanation
Indices: 13292949--13292981 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13292939 CTTTTAGCTT
*
13292949 TGTTTTCTTTTGTTTTA
1 TGTTTTCTTTTCTTTTA
13292966 TGTTTTCTTTTCTTTT
1 TGTTTTCTTTTCTTTT
13292982 TATTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.09, T:0.79
Consensus pattern (17 bp):
TGTTTTCTTTTCTTTTA
Found at i:13293297 original size:25 final size:23
Alignment explanation
Indices: 13293253--13293313 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
13293243 ATTTTGATTT
*
13293253 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
13293277 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
13293301 ATATAAATTATAT
1 AT-TTAATTATAT
13293314 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:13293316 original size:35 final size:35
Alignment explanation
Indices: 13293261--13293340 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
13293251 TTATTTAATA
* *
13293261 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
13293295 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
13293330 ATATAAT-TAAA
1 ATATAATATAAA
13293341 AAAATAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:13295442 original size:18 final size:20
Alignment explanation
Indices: 13295400--13295436 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13295390 ATATTTTATG
*
13295400 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
13295419 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
13295437 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:13297652 original size:46 final size:46
Alignment explanation
Indices: 13297600--13297872 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
13297590 AGTGTGCTCT
* *
13297600 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13297646 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
13297691 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
13297737 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13297783 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
13297829 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
13297873 TCATGTCAAA
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
45 45 0.22
46 160 0.78
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13297756 original size:91 final size:92
Alignment explanation
Indices: 13297600--13297872 Score: 395
Period size: 91 Copynumber: 3.0 Consensus size: 92
13297590 AGTGTGCTCT
* * * *
13297600 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
13297665 ACCATGGTTGAAAGATACCATGGCA-C
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
13297691 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
13297756 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** *
13297783 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
13297848 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
13297873 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 82 0.51
92 79 0.49
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:13297888 original size:137 final size:136
Alignment explanation
Indices: 13297615--13297895 Score: 377
Period size: 137 Copynumber: 2.1 Consensus size: 136
13297605 ATGAAATGTG
* **
13297615 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * *
13297680 TACCATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
13297745 AAATAAA
130 AAATAAA
* *
13297752 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
13297817 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC-
66 TACCATGGC-ACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACG
13297880 AAAGATAAA
129 AAA-ATAAA
13297889 TAAGACC
1 TAAGACC
13297896 GTGGATGGAA
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
136 2 0.02
137 82 0.65
138 42 0.33
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGAA
AATAAA
Found at i:13301159 original size:18 final size:18
Alignment explanation
Indices: 13301136--13301175 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13301126 GTTCATACTT
* *
13301136 TTCAATTTCATAATTCAA
1 TTCAATATCACAATTCAA
*
13301154 TTCAATATCCCAATTCAA
1 TTCAATATCACAATTCAA
13301172 TTCA
1 TTCA
13301176 TGTTCAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (18 bp):
TTCAATATCACAATTCAA
Found at i:13301912 original size:35 final size:35
Alignment explanation
Indices: 13301866--13301934 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
13301856 CAAATTCAAT
13301866 CATGTAAGATTAACCAAACCATTTACAATTATGAA
1 CATGTAAGATTAACCAAACCATTTACAATTATGAA
13301901 CATGTAAGATTAACCAAACCATTTACAATTATGA
1 CATGTAAGATTAACCAAACCATTTACAATTATGA
13301935 CCATCACATA
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:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (35 bp):
CATGTAAGATTAACCAAACCATTTACAATTATGAA
Found at i:13303293 original size:43 final size:41
Alignment explanation
Indices: 13303223--13303364 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 41
13303213 CATATCTCAA
* * * *
13303223 ATATGATCTTACATGTAATCTCGTATCGATGCTAATGGCCCAG
1 ATATGGTCTTACACGAAATCTCATATCGATGCTAAT--CCCAG
* *
13303266 CTATGGTCTTACACGAAATCTCATATCGATG-TCATATCCCTG
1 ATATGGTCTTACACGAAATCTCATATCGATGCT-A-ATCCCAG
* * * *
13303308 ATATGGTATTATACGAAATCTCACATCGATGCCATATCCCAG
1 ATATGGTCTTACACGAAATCTCATATCGATGCTA-ATCCCAG
13303350 ATATGGTCTTACACG
1 ATATGGTCTTACACG
13303365 TAGTCTCAGT
Statistics
Matches: 82, Mismatches: 14, Indels: 7
0.80 0.14 0.07
Matches are distributed among these distances:
42 53 0.65
43 27 0.33
44 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (41 bp):
ATATGGTCTTACACGAAATCTCATATCGATGCTAATCCCAG
Found at i:13303372 original size:42 final size:42
Alignment explanation
Indices: 13303261--13303364 Score: 154
Period size: 42 Copynumber: 2.5 Consensus size: 42
13303251 ATGCTAATGG
* * *
13303261 CCCAGCTATGGTCTTACACGAAATCTCATATCGATGTCATAT
1 CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
* * *
13303303 CCCTGATATGGTATTATACGAAATCTCACATCGATGCCATAT
1 CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
13303345 CCCAGATATGGTCTTACACG
1 CCCAGATATGGTCTTACACG
13303365 TAGTCTCAGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
Found at i:13309008 original size:30 final size:29
Alignment explanation
Indices: 13308972--13309032 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
13308962 AAACGGAAGT
* *
13308972 TTTGGCACTAAGTGTGTGATTTAAACTAGC
1 TTTGGCACTAAATGTGCGATTT-AACTAGC
13309002 TTTGGCACTAAATGTGCGATTTAACTAGC
1 TTTGGCACTAAATGTGCGATTTAACTAGC
13309031 TT
1 TT
13309033 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAATGTGCGATTTAACTAGC
Found at i:13315508 original size:42 final size:42
Alignment explanation
Indices: 13315387--13315508 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 42
13315377 TATCGTACCA
* **
13315387 ATGTCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCACATCG
* * * * * *
13315429 ATGCCAATAACCCAGCTATGGTCTTATACGAAATCTCACATTG
1 ATGTC-ATATCCCAGATATGGTCTTACACGTAATCTCACATCG
*
13315472 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTCA
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
13315509 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACACGTAATCTCACATCG
Found at i:13317673 original size:9 final size:9
Alignment explanation
Indices: 13317656--13317728 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
13317646 CCTAATTTCC
13317656 CTTTC-TTT
1 CTTTCTTTT
13317664 CTTTCTTTT
1 CTTTCTTTT
13317673 CTTTC-TTT
1 CTTTCTTTT
**
13317681 CTCCCCTGTTT
1 CT-TTCT-TTT
13317692 CATTTCTTTCT
1 C-TTTCTTT-T
*
13317703 CTTTTTTTT
1 CTTTCTTTT
*
13317712 CTTTTTTTT
1 CTTTCTTTT
*
13317721 ATTTCTTT
1 CTTTCTTT
13317729 ATTTTACTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 10 0.19
9 25 0.48
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.03, C:0.23, G:0.01, T:0.73
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:13317675 original size:13 final size:13
Alignment explanation
Indices: 13317657--13317682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13317647 CTAATTTCCC
13317657 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
13317670 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
13317683 CCCCTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:13318500 original size:21 final size:20
Alignment explanation
Indices: 13318472--13318510 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13318462 GCATGTTTTT
13318472 TGAAGCTTCTTAATAGATTA
1 TGAAGCTTCTTAATAGATTA
* *
13318492 TGAATGCTTGTTGATAGAT
1 TGAA-GCTTCTTAATAGAT
13318511 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (20 bp):
TGAAGCTTCTTAATAGATTA
Found at i:13319160 original size:29 final size:29
Alignment explanation
Indices: 13319126--13319209 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
13319116 GAATTATACC
* * *
13319126 GATTTGGATTCGGGCCATGAATATCGGTT
1 GATTTGGCTTCGGGCCATGAATATCAGCT
* *
13319155 GATTTGGCTTCGGGACATGAATATTAGCT
1 GATTTGGCTTCGGGCCATGAATATCAGCT
13319184 GATTTGGCTTCGGGCCATG-ATATCAG
1 GATTTGGCTTCGGGCCATGAATATCAG
13319210 TATTTCGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 6 0.12
29 42 0.88
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.33
Consensus pattern (29 bp):
GATTTGGCTTCGGGCCATGAATATCAGCT
Found at i:13322514 original size:22 final size:22
Alignment explanation
Indices: 13322467--13322574 Score: 74
Period size: 22 Copynumber: 4.9 Consensus size: 22
13322457 ACAGGTACTG
* **
13322467 TAGTACAAATCAGAAGGCACTG
1 TAGTACAAATCAGTAGGCACCA
*
13322489 TAGTACAAAACAGTAGGCACCA
1 TAGTACAAATCAGTAGGCACCA
* *
13322511 TAGTGCACAATTAGTAGGCACCGA
1 TAGTACA-AATCAGTAGGCACC-A
* * * **
13322535 -AGTGCAGAGCAGTAGGCACTG
1 TAGTACAAATCAGTAGGCACCA
* *
13322556 TAATGCAAATCAGTAGGCA
1 TAGTACAAATCAGTAGGCA
13322575 TCGAATTGCA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
22 49 0.72
23 18 0.26
24 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (22 bp):
TAGTACAAATCAGTAGGCACCA
Found at i:13322565 original size:89 final size:88
Alignment explanation
Indices: 13322412--13322574 Score: 220
Period size: 89 Copynumber: 1.8 Consensus size: 88
13322402 AAACCACACT
* * *
13322412 AGTAGGCACCATAGTGTAAATCAATAGGCACCGAAGTGCAGTACAACAGGTACTGTAGTACAAAT
1 AGTAGGCACCATAGTGCAAATCAATAGGCACCGAAGTGCAGTACAACAGGCACTGTAATACAAAT
13322477 CAGAAGGCACTGTAGTACAAAAC
66 CAGAAGGCACTGTAGTACAAAAC
* * ** *
13322500 AGTAGGCACCATAGTGCACAATTAGTAGGCACCGAAGTGCAG-AGCAGTAGGCACTGTAATGCAA
1 AGTAGGCACCATAGTGCA-AATCAATAGGCACCGAAGTGCAGTA-CAACAGGCACTGTAATACAA
*
13322564 ATCAGTAGGCA
64 ATCAGAAGGCA
13322575 TCGAATTGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
88 18 0.28
89 46 0.72
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (88 bp):
AGTAGGCACCATAGTGCAAATCAATAGGCACCGAAGTGCAGTACAACAGGCACTGTAATACAAAT
CAGAAGGCACTGTAGTACAAAAC
Found at i:13322584 original size:22 final size:20
Alignment explanation
Indices: 13322494--13322588 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 20
13322484 CACTGTAGTA
* *
13322494 CAAAACAGTAGGCACCATAGTG
1 CAAATCAGTAGGCACGA-A-TG
*
13322516 CACAATTAGTAGGCACCGAAGTG
1 CA-AATCAGTAGGCA-CGAA-TG
* *
13322539 CAGAGCAGTAGGCACTGTAATG
1 CAAATCAGTAGGCAC-G-AATG
13322561 CAAATCAGTAGGCATCGAATTG
1 CAAATCAGTAGGCA-CGAA-TG
13322583 CAAATC
1 CAAATC
13322589 CCGTACACAT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
21 3 0.05
22 35 0.59
23 19 0.32
24 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (20 bp):
CAAATCAGTAGGCACGAATG
Found at i:13323432 original size:24 final size:24
Alignment explanation
Indices: 13323404--13323455 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
13323394 TTTCTAGAAG
*
13323404 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
13323428 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
13323452 ATTT
1 ATTT
13323456 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:13326553 original size:16 final size:15
Alignment explanation
Indices: 13326528--13326563 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
13326518 TATACTGTAT
*
13326528 TTTTTTATATTATTTA
1 TTTTTAATA-TATTTA
13326544 TTTTTAATATATTTA
1 TTTTTAATATATTTA
13326559 TTTTT
1 TTTTT
13326564 TAAATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATATATTTA
Found at i:13326564 original size:16 final size:17
Alignment explanation
Indices: 13326525--13326566 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
13326515 ATTTATACTG
*
13326525 TATTTTTTTATATTATT
1 TATTTTTTAATATTATT
13326542 TA-TTTTTAATA-TATT
1 TATTTTTTAATATTATT
13326557 TATTTTTTAA
1 TATTTTTTAA
13326567 ATTTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTTTAATATTATT
Found at i:13339735 original size:19 final size:19
Alignment explanation
Indices: 13339692--13339737 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13339682 TTTTTATTTT
*
13339692 TTATTTTTTTAATTTCATA
1 TTATTTTTTAAATTTCATA
*
13339711 TAATTTTTTAAATTTTC-TA
1 TTATTTTTTAAA-TTTCATA
13339730 TTATTTTT
1 TTATTTTT
13339738 GAATATCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATTTTTTAAATTTCATA
Found at i:13339784 original size:18 final size:18
Alignment explanation
Indices: 13339763--13339850 Score: 56
Period size: 19 Copynumber: 4.7 Consensus size: 18
13339753 TTTTTTTGTA
13339763 ATTTTATATTTTTTCCAT
1 ATTTTATATTTTTTCCAT
** *
13339781 ATTTTATAAGTTTTGCACT
1 ATTTTATATTTTTTCCA-T
*
13339800 -TTTCTATATTTTTAT-AAT
1 ATTT-TATATTTTT-TCCAT
*
13339818 ATTTT-TAATATTTTTCTAT
1 ATTTTAT-AT-TTTTTCCAT
13339837 ATTTTCATATTTTT
1 ATTTT-ATATTTTT
13339851 ACAATTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
17 1 0.02
18 22 0.41
19 27 0.50
20 3 0.06
21 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.65
Consensus pattern (18 bp):
ATTTTATATTTTTTCCAT
Found at i:13339869 original size:27 final size:27
Alignment explanation
Indices: 13339816--13339867 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
13339806 TATTTTTATA
13339816 ATATTTTTAATATTTTTCTATATTTTC
1 ATATTTTTAATATTTTTCTATATTTTC
*
13339843 ATATTTTTACA-ATTTTT-TTTATTTT
1 ATATTTTTA-ATATTTTTCTATATTTT
13339868 TCTTTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (27 bp):
ATATTTTTAATATTTTTCTATATTTTC
Found at i:13339974 original size:19 final size:18
Alignment explanation
Indices: 13339799--13340011 Score: 96
Period size: 20 Copynumber: 11.4 Consensus size: 18
13339789 AGTTTTGCAC
*
13339799 TTTTCTATATTTTTATAA
1 TTTTTTATATTTTTATAA
*
13339817 TATTTTTAATATTTTTCT-A
1 T-TTTTT-ATATTTTTATAA
* *
13339836 TATTTTCATATTTTTACAA
1 T-TTTTTATATTTTTATAA
* *
13339855 TTTTTTTTATTTTTCTTTAA
1 TTTTTTATA-TTTT-TATAA
* *
13339875 TTTATAATATTTTTTATAA
1 TTTTTTATA-TTTTTATAA
* * * *
13339894 TTTATATAAATTTTGTGTCA
1 TTT-TTTATATTTT-TATAA
13339914 --TTTTA-ATTTTTATAA
1 TTTTTTATATTTTTATAA
*
13339929 TTCATTTTCACA-TTTTAT-A
1 TT--TTTT-ATATTTTTATAA
* *
13339948 TATTTTATAATTTTCATAA
1 TTTTTTAT-ATTTTTATAA
* *
13339967 TTTTTTATGGTTTTTTATAT
1 TTTTTTAT--ATTTTTATAA
*
13339987 TTTTTTATATTTTTATGA
1 TTTTTTATATTTTTATAA
13340005 TTTTTTA
1 TTTTTTA
13340012 ATTATTTTAA
Statistics
Matches: 145, Mismatches: 33, Indels: 34
0.68 0.16 0.16
Matches are distributed among these distances:
15 3 0.02
16 6 0.04
17 8 0.06
18 35 0.24
19 42 0.29
20 50 0.34
21 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTTATATTTTTATAA
Found at i:13340020 original size:19 final size:18
Alignment explanation
Indices: 13339678--13339868 Score: 76
Period size: 18 Copynumber: 10.4 Consensus size: 18
13339668 GTTTGTAATA
13339678 ATATTTTTT-AT-TTTTT
1 ATATTTTTTAATATTTTT
**
13339694 AT-TTTTTTAAT-TTCAT
1 ATATTTTTTAATATTTTT
13339710 ATAATTTTTTAA-ATTTTCT
1 AT-ATTTTTTAATATTTT-T
* *
13339729 ATTATTTTTGAATATCTTGTA
1 A-TATTTTTTAATAT-TT-TT
** *
13339750 ATATTTTTTTGTAATTTT
1 ATATTTTTTAATATTTTT
*
13339768 ATATTTTTTCCATA-TTTT
1 ATATTTTTT-AATATTTTT
** * *
13339786 ATAAGTTTTGCACT-TTTCT
1 AT-A-TTTTTTAATATTTTT
13339805 ATATTTTTATAATATTTTT
1 ATATTTTT-TAATATTTTT
*
13339824 AATATTTTTCT-ATATTTTC
1 -ATATTTTT-TAATATTTTT
*
13339843 ATATTTTTACAAT-TTTTT
1 ATATTTTT-TAATATTTTT
*
13339861 TTATTTTT
1 ATATTTTT
13339869 CTTTAATTTA
Statistics
Matches: 130, Mismatches: 28, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
15 6 0.05
16 9 0.07
17 4 0.03
18 48 0.37
19 34 0.26
20 25 0.19
21 3 0.02
22 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
ATATTTTTTAATATTTTT
Found at i:13342630 original size:10 final size:11
Alignment explanation
Indices: 13342604--13342629 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13342594 TTTATAAATA
13342604 AAAAATTCTTT
1 AAAAATTCTTT
13342615 AAAAATTCTTT
1 AAAAATTCTTT
13342626 AAAA
1 AAAA
13342630 TATTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATTCTTT
Found at i:13342828 original size:13 final size:14
Alignment explanation
Indices: 13342792--13342832 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13342782 ATTTATTGTT
13342792 AAAA-AAATTATATA
1 AAAATAAATT-TATA
13342806 AAAATAAATTTATA
1 AAAATAAATTTATA
*
13342820 ATAAT-AATTTATA
1 AAAATAAATTTATA
13342833 TATTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 12 0.48
15 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATAAATTTATA
Found at i:13343110 original size:16 final size:15
Alignment explanation
Indices: 13343080--13343136 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 15
13343070 AAAAGTGTAC
13343080 TAAT-TTTTAAATTT
1 TAATATTTTAAATTT
13343094 TAATATTTTAAATTTT
1 TAATATTTTAAA-TTT
13343110 TAATAAGTTTGTTAAATTT
1 TAAT-A--TT-TTAAATTT
13343129 T-ATATTTT
1 TAATATTTT
13343137 TTTTTCTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.16
15 9 0.24
16 7 0.19
17 2 0.05
18 2 0.05
19 6 0.16
20 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (15 bp):
TAATATTTTAAATTT
Found at i:13343372 original size:5 final size:5
Alignment explanation
Indices: 13343362--13343386 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13343352 CACATTAATT
13343362 TGTCA TGTCA TGTCA TGTCA TGTCA
1 TGTCA TGTCA TGTCA TGTCA TGTCA
13343387 ACACTTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TGTCA
Found at i:13343938 original size:8 final size:8
Alignment explanation
Indices: 13343925--13343953 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13343915 AATTTGGATA
13343925 TTATAATT
1 TTATAATT
13343933 TTATAATT
1 TTATAATT
13343941 TTATAATT
1 TTATAATT
13343949 TTATA
1 TTATA
13343954 TTCAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATAATT
Found at i:13348149 original size:23 final size:23
Alignment explanation
Indices: 13348123--13348172 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
13348113 TTCGTCCTTT
13348123 TTTTCATTTTATT-TAT-TTATTTA
1 TTTTCATTTT-TTATATATTA-TTA
13348146 TTTTCATTTTTTATATATTATTA
1 TTTTCATTTTTTATATATTATTA
13348169 TTTT
1 TTTT
13348173 TACTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 2 0.08
23 20 0.80
24 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTCATTTTTTATATATTATTA
Found at i:13348158 original size:17 final size:16
Alignment explanation
Indices: 13348128--13348173 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
13348118 CCTTTTTTTC
*
13348128 ATTTTATTTATTTATTT
1 ATTTTATTT-TTTATAT
13348145 ATTTTCATTTTTTATAT
1 ATTTT-ATTTTTTATAT
13348162 ATTATTATTTTT
1 ATT-TTATTTTT
13348174 ACTAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATTTTTTATAT
Found at i:13348194 original size:12 final size:12
Alignment explanation
Indices: 13348164--13348209 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
13348154 TTTTATATAT
*
13348164 TATTATTTTTAC
1 TATTATTATTAC
* *
13348176 TAATATTATTAA
1 TATTATTATTAC
*
13348188 TATTATTATTTC
1 TATTATTATTAC
13348200 TATTATTATT
1 TATTATTATT
13348210 GTTGTTATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:13348843 original size:27 final size:28
Alignment explanation
Indices: 13348813--13348879 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
13348803 ACTCTATTAT
*
13348813 ATTTTTCATATTATATCATGTATATAC-
1 ATTTTTCATATTATATCATGTACATACA
* *
13348840 ATTTTTCATA-TATGTCATGTACATGCA
1 ATTTTTCATATTATATCATGTACATACA
13348867 ATTTTTCAATATT
1 ATTTTTC-ATATT
13348880 CATTTTATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 13 0.38
27 17 0.50
28 3 0.09
29 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (28 bp):
ATTTTTCATATTATATCATGTACATACA
Found at i:13349607 original size:22 final size:22
Alignment explanation
Indices: 13349576--13349638 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
13349566 GCAACCATGA
*
13349576 AGCAGCCCCATACCTCCACTAC
1 AGCAGACCCATACCTCCACTAC
* *
13349598 AGCGGACCCATACCCCCACTAC
1 AGCAGACCCATACCTCCACTAC
*
13349620 AGCAGTCCCATACCTCCAC
1 AGCAGACCCATACCTCCAC
13349639 AGCCCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.27, C:0.49, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGACCCATACCTCCACTAC
Found at i:13363093 original size:69 final size:71
Alignment explanation
Indices: 13362917--13363093 Score: 205
Period size: 72 Copynumber: 2.5 Consensus size: 71
13362907 CTTTCCAAGG
* ** * *
13362917 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAGTTTA
*
13362982 TTTTTT
66 TGTTTT
* * * * *
13362988 AAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCCGATGTATTTTT-AGTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAGTTT
13363052 ATGTTTT
65 ATGTTTT
** *
13363059 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
13363094 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
69 30 0.34
71 9 0.10
72 50 0.56
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAGTTTA
TGTTTT
Found at i:13363300 original size:72 final size:72
Alignment explanation
Indices: 13363097--13364457 Score: 1001
Period size: 72 Copynumber: 18.2 Consensus size: 72
13363087 TAAGCCTTTT
* *
13363097 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
13363161 GTAATTTC
65 GTAATTTC
* * ** *
13363169 AATTTCTGTTGTTAAAAAAAAATCAACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCT
1 AATTTCTGTT-TT---CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
13363234 GAGGTAATTTC
62 GAGGTAATTTC
* * **
13363245 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
13363310 TAATTTC
66 TAATTTC
* * **
13363317 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
13363382 TAATTTC
66 TAATTTC
* * ** * *
13363389 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
13363454 TATTTTC
66 TAATTTC
*
13363461 AATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 AATTTCTGTTTTC-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* *
13363525 TGCTGAGGTATTTTC
58 CGCTGAGGTAATTTC
* * * * *
13363540 AATTTCTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCTTCAGATTACACA
1 AATTTCTGTTTT----CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACG
* *
13363605 CTGTGGT-ATTTT
60 CTGAGGTAATTTC
*** * ** * * * * * * * * * *
13363617 AATTTC--AACTC--ATAT--TGTGAGA--G-GTGAGTTGAGCCTCAG-GTCA-CAC-CGATGTG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG-TTGAGCCTCAGGACACGCTGAG
* *
13363670 TTTTCCATTTCTGTTTTC
65 --GT--A------ATTTC
* * * ** * **
13363688 ATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTG
1 AAT-TTCTG-TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
13363753 AGGTAATTTC
63 AGGTAATTTC
* * * ** * *
13363763 AATTTTTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
*
13363828 TATTTTC
66 TAATTTC
* ** *
13363835 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
13363900 GTAATTTC
65 GTAATTTC
* * * **
13363908 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAG
1 AATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
13363973 GTATTTTT
65 GTAATTTC
* *
13363981 AATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTG-TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
13364046 AGGTATTTTCAATTCCTGTTC
63 AGG-----T-AA----T-TTC
*
13364067 AATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
13364132 GTAATTTC
65 GTAATTTC
* ** * * * *
13364140 AATTTCTATTTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAT
1 AATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
13364205 GTATTTTC
65 GTAATTTC
* ** * * *
13364213 AAATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TG
1 AATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
* * *
13364276 TTGAGTCACTTTT
63 -AG-GT-AATTTC
** *
13364289 AATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 AATTTCTG---TT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* *
13364354 GCACGCTGAGGTATTTTC
55 ACACGCTGAGGTAATTTC
* * * * *
13364372 AATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
13364437 GTATTTTC
65 GTAATTTC
*
13364445 CATTTCTGTTTTC
1 AATTTCTGTTTTC
13364458 CAATTTATGT
Statistics
Matches: 1055, Mismatches: 154, Indels: 160
0.77 0.11 0.12
Matches are distributed among these distances:
60 5 0.00
61 2 0.00
62 1 0.00
64 11 0.01
65 4 0.00
67 3 0.00
69 3 0.00
71 7 0.01
72 288 0.27
73 267 0.25
74 49 0.05
75 61 0.06
76 74 0.07
77 45 0.04
78 48 0.05
79 34 0.03
80 7 0.01
81 4 0.00
82 4 0.00
83 22 0.02
84 53 0.05
85 45 0.04
86 18 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:13363801 original size:374 final size:364
Alignment explanation
Indices: 13363111--13364710 Score: 1110
Period size: 374 Copynumber: 4.2 Consensus size: 364
13363101 TTTGTTTTTC
* * *
13363111 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGTCACATGCTGAGGTATTTTCAATTT
* ** * * * *
13363174 CTGTTGTTAAAAAAAAATCAACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGT
65 CTGTT-TT--AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACACTGAGGT
** * ** * *
13363239 AATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACG
127 -A--T---TTT-TAATTT----A-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
* * * *
13363304 CTGAGG-----T-AA----T-TTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATG
180 CCGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATG
* * *
13363357 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTTATATTGCG
245 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGTG
13363422 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAAAAA
310 AGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC---AAA
* *
13363480 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACATGCTGAGGTATTTTCAATTT
* * * * *
13363545 CTGTTTTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCTTCAGATTACACACTGTG
65 CTGTTTT---AAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCA-A-GACACACTGAG
* * * * *
13363610 GTA-TTTTAA-TT-TCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGTCACACCGATGTGTT
125 GTATTTTTAATTTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATT
* * * *
13363672 TTCCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGA
190 TTCAATTCCTG--TTCAAT-TTATGTTTTTCAAA-AATCAACTCATATTGCGAGAAATGAGTTGA
* **
13363737 GCCTCAAGACACATTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGTGAGAAAT
251 GCCTCAGGACACGCTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGTGAGAAAT
13363802 GAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGCTTTTC--A
316 GAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTG-TTTTCAAA
* ** * *
13363850 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGG--ACACGCTGAGGTAATTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TAGGTCACATGCTGAGGTATTTTCAATTT
* * *
13363913 CTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTATT
65 CTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACACTGAGGTATT
*
13363978 TTTAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
130 TTTAA--------TTT-------ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
** **
13364043 TTGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
180 CCGAGGTATTTTCAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATG
* *
13364108 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTAT-TTTTCAAAAATCAACTCATATTA
245 AGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-T-TGTTTTCAAAATTCAACTCATATTG
** ** * ** * * **
13364172 TGAGAGGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTTCAAATTCTACTTTCAAA
308 TGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAA
* * * *
13364229 AAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTGA-GTCACTTTT-AAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACATGCTGAGGT-A-TTTTCAAT
*** * ** *
13364292 TTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
63 TTCTG-TTTTA---------AAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACA
* * * *
13364357 CGCTGAGGTATTTTCAATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCC
118 CACTGAGGTA-TTT---TTA--ATTT-------ATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* ** * * * *
13364422 TCAGGACATGCTGAGGTATTTTCCATTTCTGTTTTCCAATTTATG-TTTTCAAAAATCAATTCAT
170 TCAAGACACACCGAGGTATTTTCAATTCCTG--TT-CAATTTATGTTTTTCAAAAATCAACTCAT
* ** * * * *
13364486 ATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAATAGATGTTTTTTCCAA
232 ATTGCGAGAAATGAGTTGAGCCTCAGG--ACACGCTGAGG---------TA-A-----TTT-CAA
* * *
13364551 TTTCTGCTTCTCAAAAAAAAATT-AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
279 TTTTTG-TTTTC-----AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTT
* *
13364615 AAGGTATTTTCAAGTTCTGCTTTTCAAAAAA
338 GAGGTATTTTCAATTTCTG-TTTTC---AAA
* * *
13364646 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCGCACGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-TCACATGCTGAGGTATTTTCAATTT
13364711 TTCATTTTTT
Statistics
Matches: 987, Mismatches: 143, Indels: 154
0.77 0.11 0.12
Matches are distributed among these distances:
358 39 0.04
363 12 0.01
364 10 0.01
365 38 0.04
366 3 0.00
368 30 0.03
369 34 0.03
370 34 0.03
371 71 0.07
372 5 0.01
373 19 0.02
374 128 0.13
375 5 0.01
377 60 0.06
378 77 0.08
379 38 0.04
380 2 0.00
381 67 0.07
382 6 0.01
389 62 0.06
391 90 0.09
392 12 0.01
393 9 0.01
395 3 0.00
402 2 0.00
403 1 0.00
407 1 0.00
408 3 0.00
409 10 0.01
413 47 0.05
414 9 0.01
416 4 0.00
417 54 0.05
418 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (364 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGTCACATGCTGAGGTATTTTCAATTTC
TGTTTTAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACACTGAGGTATTT
TTAATTTATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACCGAGGTATTTTCAAT
TCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCC
TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTCAAA
Found at i:13363893 original size:73 final size:72
Alignment explanation
Indices: 13363698--13364457 Score: 689
Period size: 73 Copynumber: 10.1 Consensus size: 72
13363688 ATTATTATGT
* ** * ** *
13363698 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTC
1 TTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
13363763 AATTTTTG
65 AATTTCTG
* * ** * *
13363771 TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
13363836 ATTTCTG
66 ATTTCTG
* ** * *
13363843 CTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13363908 AATTTCTG
65 AATTTCTG
* * * ** *
13363916 TTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTATTTTT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13363981 AATTTCTG
65 AATTTCTG
* *
13363989 CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 -TTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
13364054 TCAATTCCTGTTCAATTTATG
63 TCAA----T-TTC------TG
*
13364075 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
13364140 AATTTCTAT
65 AATTTCT-G
** * * * *
13364149 TTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
* *
13364214 AATTCTA
66 ATTTCTG
* * * * *
13364221 CTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCA
1 TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-A
13364284 CTTTT-AATTTCTG
60 -TTTTCAATTTCTG
** * *
13364297 TTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 ---TT-T-TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
13364362 AGGTATTTTCAATTACTG
55 AGGTATTTTCAATTTCTG
* * * *
13364380 TTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
13364445 CATTTCTG
65 AATTTCTG
13364453 TTTTC
1 TTTTC
13364458 CAATTTATGT
Statistics
Matches: 580, Mismatches: 72, Indels: 71
0.80 0.10 0.10
Matches are distributed among these distances:
72 68 0.12
73 259 0.45
74 44 0.08
75 59 0.10
76 7 0.01
77 4 0.01
79 8 0.01
80 7 0.01
81 2 0.00
82 4 0.01
83 8 0.01
84 59 0.10
85 40 0.07
86 11 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTG
Found at i:13364179 original size:232 final size:226
Alignment explanation
Indices: 13363707--13364457 Score: 828
Period size: 232 Copynumber: 3.3 Consensus size: 226
13363697 TTTTTGAAAG
** * * *
13363707 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
* * **
13363772 TTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
66 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
* * ** *
13363836 A---T-TTC----TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTTAGGACA
131 ATTCTGTTCTTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
13363893 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAA
196 CGCTGAGGTAATTTCAATTTCTTTTGTC-AAA
* * *
13363925 AATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTATTTTTAATTTCTGC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTG-
13363990 TTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
65 TTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
13364055 CAATTCCTGTTCAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
129 CAATT-CTGTTC--TTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
13364120 GGACACGCTGAGGTAATTTCAATTTCTATTTTTCAAA
191 GGACACGCTGAGGTAATTTCAATTTCT-TTTGTCAAA
** ** * * * * * **
13364157 AATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTTCAAATTCTAC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
* ** *
13364222 TTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTCAC
66 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGGT-A-
*
13364285 TTTT-AATTTCTGTT-TTTATGTCTGTTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAG
125 TTTTCAA-TTCTGTTCTTTATG--T-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * * * *
13364347 CCTCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAA
186 CCTCAGGACACGCTGAGGTAATTTCAATTTCT-TTTGTCAAA
* * * ** *
13364389 AACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
13364454 TTTC
66 TTTC
13364458 CAATTTATGT
Statistics
Matches: 452, Mismatches: 56, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
218 58 0.13
219 5 0.01
220 1 0.00
221 56 0.12
225 1 0.00
226 3 0.01
230 7 0.02
231 42 0.09
232 251 0.56
233 22 0.05
234 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (226 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTCTGTTCTTTATGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTTTTGTCAAA
Found at i:13364227 original size:159 final size:158
Alignment explanation
Indices: 13363904--13364214 Score: 421
Period size: 159 Copynumber: 2.0 Consensus size: 158
13363894 GCTGAGGTAA
* *
13363904 TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACAT
1 TTTCAATTTATGTTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACAC
* * * *
13363969 TGAGGTATTTTTAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TGAGGTAATTTCAATTTCTACTTTTCAAGAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
**
13364034 CAAGACACGTTGAGGTATTTTCAATTCC
131 CAAGACACGCCGAGGTATTTTCAATTCC
* * *
13364062 TGTTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 T-TTCAATTTATG-TTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACAC
* * *
13364126 GCTGAGGTAATTTCAATTTCTATTTTTC-A-AAAATCAACTCATATTATGAGAGGTGAGTTGAGC
64 ACTGAGGTAATTTCAATTTCTACTTTTCAAGAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
** * *
13364189 CTCGGGGCACGCCGATGTATTTTCAA
129 CTCAAGACACGCCGAGGTATTTTCAA
13364215 ATTCTACTTT
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
157 52 0.39
158 2 0.02
159 75 0.56
160 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (158 bp):
TTTCAATTTATGTTGTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACAC
TGAGGTAATTTCAATTTCTACTTTTCAAGAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
CAAGACACGCCGAGGTATTTTCAATTCC
Found at i:13364478 original size:159 final size:157
Alignment explanation
Indices: 13364149--13364535 Score: 415
Period size: 159 Copynumber: 2.4 Consensus size: 157
13364139 CAATTTCTAT
** *
13364149 TTTTCAAAAATCAACTCATATTATGAGAGGTGAGTTGAGCCTCGGGGCACGCCGATGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC-
* * * * *
13364214 AATTCTACTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTTGGCTCACGTGTTG
65 AATTCTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTAGG--CACATGCTG
* *
13364279 AGTCACTTTTAATTTCTGTTTTTATGTCTG
128 AGTCACTTTTAATTTCTGTTTTAATGTATG
* *
13364309 TTTTC-TAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
* *** *
13364373 ATTACT-GTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGG-ACATGCTGA
66 ATT-CTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCT-AGGCACATGCTGA
* *
13364436 GGT-A-TTTTCCATTTCTGTTTTCCAATTTATG
129 -GTCACTTTT-AATTTCTGTTTT--AATGTATG
* * * * * *
13364467 TTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGC--ACGCCGAGGTATTTT
13364532 CAAT
64 CAAT
13364536 AGATGTTTTT
Statistics
Matches: 191, Mismatches: 27, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
155 4 0.02
156 19 0.10
157 2 0.01
158 51 0.27
159 92 0.48
160 5 0.03
161 18 0.09
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (157 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCA
ATTCTACTTTCAAAAAAACCAACTCATACTGCGAAAGGTGAGTTGAGCCTAGGCACATGCTGAGT
CACTTTTAATTTCTGTTTTAATGTATG
Found at i:13364898 original size:89 final size:90
Alignment explanation
Indices: 13364731--13364898 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 90
13364721 CAATTTATGC
* * * * * *
13364731 TTTTCAAATTCTACTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAT
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
13364796 ATGTCGAGGTATTTTCAAAATCTGT
66 ATGTCGAGCTATTTTCAAAATCTGT
* *
13364821 TTTTCAAATT-AAGTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCAC
1 TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
*
13364885 GTG-CTGAGCTATTT
66 ATGTC-GAGCTATTT
13364899 CTGTTTTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 56 0.84
90 10 0.15
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (90 bp):
TTTTCAAATTCAACTTTCAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCAC
ATGTCGAGCTATTTTCAAAATCTGT
Found at i:13365608 original size:22 final size:22
Alignment explanation
Indices: 13365579--13365641 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
13365569 GCAACCATGA
13365579 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
13365601 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
13365623 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
13365642 AGCTCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:13371494 original size:29 final size:30
Alignment explanation
Indices: 13371443--13371508 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
13371433 CAAGGACCGG
*
13371443 ATCAAATTAGTCCATCTACTATT-AAATGA
1 ATCAAATTAGTCCATCTACTATTAAAAAGA
* * * *
13371472 ATCAATTTAGTCCTTGTATTATTAAAAAGA
1 ATCAAATTAGTCCATCTACTATTAAAAAGA
13371502 ATCAAAT
1 ATCAAAT
13371509 AACGTCAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (30 bp):
ATCAAATTAGTCCATCTACTATTAAAAAGA
Found at i:13383266 original size:6 final size:6
Alignment explanation
Indices: 13383257--13383309 Score: 61
Period size: 6 Copynumber: 8.3 Consensus size: 6
13383247 CCTCTAACGG
* *
13383257 CTCCAC CTCCAC CTCCAC CTCCAC TTCCCC GTTCTCCAC CTCCAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC ---CTCCAC CTCCAC CTCCAC
13383308 CT
1 CT
13383310 GGAATCTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 36 0.90
9 4 0.10
ACGTcount: A:0.13, C:0.62, G:0.02, T:0.23
Consensus pattern (6 bp):
CTCCAC
Found at i:13388851 original size:56 final size:57
Alignment explanation
Indices: 13388788--13388904 Score: 182
Period size: 56 Copynumber: 2.1 Consensus size: 57
13388778 TCTTTTTCAT
* *
13388788 TTTTCATTTTCATTTTGGAGAATACCATATTCATTTCCAAATATTTC-ATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTATTTCTCCA
* *
13388844 TTTTCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCTTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTC-TATTTCTCCA
13388902 TTT
1 TTT
13388905 CACCATCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 43 0.78
58 12 0.22
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTATTTCTCCA
Found at i:13391727 original size:25 final size:24
Alignment explanation
Indices: 13391674--13391727 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
13391664 AGTTACTGAT
*
13391674 TTCAGCTCGTATGACTTATCGATA
1 TTCAGCTCGTATGACTTATCCATA
*
13391698 CTCAGCTCGTATGAACTTA-CCATTA
1 TTCAGCTCGTATG-ACTTATCCA-TA
13391723 TTCAG
1 TTCAG
13391728 TTCGGAGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (24 bp):
TTCAGCTCGTATGACTTATCCATA
Found at i:13395057 original size:39 final size:38
Alignment explanation
Indices: 13395014--13395101 Score: 88
Period size: 39 Copynumber: 2.3 Consensus size: 38
13395004 TTAAAAAATA
13395014 AAAAAATTAATAAAAATATTTTAAAAATTAGAAATTATT
1 AAAAAATTAATAAAAATATTTTAAAAATTAGAAATT-TT
* * * ** **
13395053 AAAAAGTATAA-AAACATTTTTTATTAATTTTAAATTTT
1 AAAAAAT-TAATAAAAATATTTTAAAAATTAGAAATTTT
13395091 AAAAAATTAAT
1 AAAAAATTAAT
13395102 TAATTGCTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
37 3 0.08
38 8 0.21
39 25 0.64
40 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (38 bp):
AAAAAATTAATAAAAATATTTTAAAAATTAGAAATTTT
Found at i:13397415 original size:16 final size:15
Alignment explanation
Indices: 13397394--13397424 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13397384 AATATTTTAA
13397394 AAAATATTTAATATAT
1 AAAATATTTAA-ATAT
13397410 AAAATATTTAAATAT
1 AAAATATTTAAATAT
13397425 TTTAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTTAAATAT
Found at i:13397727 original size:18 final size:19
Alignment explanation
Indices: 13397690--13397731 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
13397680 TTTCCTTTAG
*
13397690 TTTTTTTTGTTATATAAAT
1 TTTTTTTTATTATATAAAT
13397709 TATTTTTTTATTAT-T-AAT
1 T-TTTTTTTATTATATAAAT
13397727 TTTTT
1 TTTTT
13397732 ACTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 2 0.10
20 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTTTATTATATAAAT
Found at i:13413560 original size:16 final size:16
Alignment explanation
Indices: 13413539--13413571 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13413529 AACGTTTACA
13413539 TGTCTTTTTGGCACAT
1 TGTCTTTTTGGCACAT
13413555 TGTCTTTTTGGCACAT
1 TGTCTTTTTGGCACAT
13413571 T
1 T
13413572 CACCTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (16 bp):
TGTCTTTTTGGCACAT
Done.