Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 132 of 190
Found at i:39151018 original size:38 final size:38
Alignment explanation
Indices: 39150919--39151031 Score: 122
Period size: 38 Copynumber: 2.9 Consensus size: 38
39150909 AAATTTTATA
* * *
39150919 ATTTTT-TATATTTCTATATTTTTTATAATTTTTTACG
1 ATTTTTATATATTTTTCTATTTTTTATAATTTTTAACG
* * *
39150956 ATTTTTATAAAATTTTACAATTTTTTAT-ATTTTTAACG
1 ATTTTTAT-ATATTTTTCTATTTTTTATAATTTTTAACG
*
39150994 ATTTTTATATATTTTTCTAGTTTTTAATAACTTTTTAA
1 ATTTTTATATATTTTTCTA-TTTTTTATAA-TTTTTAA
39151032 TATTTGAATT
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 14 0.23
38 25 0.41
39 15 0.25
40 7 0.11
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (38 bp):
ATTTTTATATATTTTTCTATTTTTTATAATTTTTAACG
Found at i:39151259 original size:89 final size:91
Alignment explanation
Indices: 39151123--39151298 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 91
39151113 TAATAAAAGC
*
39151123 AGGGGCTTAATTGCTTTTTTGGAAAAACTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAGG
1 AGGGGCTTAATTGCTTTTTTGGAAAAACTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGG
* *
39151188 ACCCAATTGAGTGCAAAAAAAAAACT
66 ACCAAAATGAGTGCAAAAAAAAAACT
** ** *
39151214 AGGGGCTTAATTG-TTTTTT-TTAAAGGTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGT
1 AGGGGCTTAATTGCTTTTTTGGAAAAACTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGG
*
39151277 ACCAAAATGAGTGTAAAAAAAA
66 ACCAAAATGAGTGCAAAAAAAA
39151299 TAGAGCTTAA
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
89 57 0.75
90 6 0.08
91 13 0.17
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (91 bp):
AGGGGCTTAATTGCTTTTTTGGAAAAACTTTGAGAGTCTTTTTGATGCATTTTGAAAGTTCAAGG
ACCAAAATGAGTGCAAAAAAAAAACT
Found at i:39151426 original size:21 final size:23
Alignment explanation
Indices: 39151402--39151443 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
39151392 GTCTATACAT
39151402 ATATATT-T-TAATTTTTAAAAA
1 ATATATTATATAATTTTTAAAAA
*
39151423 ATATATTATATTATTTTTAAA
1 ATATATTATATAATTTTTAAA
39151444 TTATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATATATTATATAATTTTTAAAAA
Found at i:39153181 original size:23 final size:23
Alignment explanation
Indices: 39153132--39153183 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
39153122 TAAAATACTT
* * *
39153132 TTAAAATATTTTTATTATTTTTT
1 TTAAAATATTTTTATAATGTTTA
39153155 TTAAAATAATTTTT-TAATGTTTA
1 TTAAAAT-ATTTTTATAATGTTTA
39153178 TTAAAA
1 TTAAAA
39153184 AATGGGCCGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTAAAATATTTTTATAATGTTTA
Found at i:39153888 original size:19 final size:19
Alignment explanation
Indices: 39153856--39153894 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
39153846 AAAGTTAGAA
39153856 AAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAAT-TTTAT
*
39153876 AAAAATTTC-AAATTTTAT
1 AAAAAATTCAAAATTTTAT
39153894 A
1 A
39153895 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATTCAAAATTTTAT
Found at i:39170519 original size:2 final size:2
Alignment explanation
Indices: 39170500--39170539 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
39170490 AGTTCAATAC
* **
39170500 AT AT AT AC AT AT GC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39170540 GATTATTGCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:39178063 original size:43 final size:43
Alignment explanation
Indices: 39177962--39178167 Score: 179
Period size: 43 Copynumber: 4.8 Consensus size: 43
39177952 TTATTTTTAT
* * * * *
39177962 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC--TACATAAA
1 AAACACCGCTAAAGGTCAGGTTCTTTAGCGGCGCATTCCCT-AC
* * * *
39178004 AAACTCCGCTAAAGGTCAGGGTCTTTAGTGGCGCATTCCCTAT
1 AAACACCGCTAAAGGTCAGGTTCTTTAGCGGCGCATTCCCTAC
* *
39178047 AAACACCGCTAAAGGTCATGTACTTTAGCGGCGCTTATT-CCT-C
1 AAACACCGCTAAAGGTCAGGTTCTTTAGCGGCGC--ATTCCCTAC
* * * *
39178090 AAACACCGCTAAAGATCATGTTCTTTGGCGGCGCTTTCTCC-AC
1 AAACACCGCTAAAGGTCAGGTTCTTTAGCGGCGCATTC-CCTAC
* *
39178133 AAACGCCACTAAAGGTCAGGTTCTTTTAGCGGCGC
1 AAACACCGCTAAAGGTCAGGTTC-TTTAGCGGCGC
39178168 TTTTTTTAAA
Statistics
Matches: 134, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.01
42 30 0.22
43 83 0.62
44 16 0.12
45 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (43 bp):
AAACACCGCTAAAGGTCAGGTTCTTTAGCGGCGCATTCCCTAC
Found at i:39178150 original size:86 final size:85
Alignment explanation
Indices: 39177962--39178169 Score: 224
Period size: 86 Copynumber: 2.4 Consensus size: 85
39177952 TTATTTTTAT
* *
39177962 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGC-TACATAAAAAACTCCGCTAAAGGTCAGGGT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTACAT-AAAAACACCGCTAAAGATCAGGGT
* *
39178026 CTTTAGTGGCGCATTCCCTAT
65 CTTTAGCGGCGCATTCCCTAC
* * * * * *
39178047 AAACACCGCTAAAGGTCATGTACTTTAGCGGCGCTTATTCCT-CAAACACCGCTAAAGATCATGT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTA--CATAAAAACACCGCTAAAGATCAGGG
* *
39178111 TCTTTGGCGGCGCTTTCTCC-AC
64 TCTTTAGCGGCGCATTC-CCTAC
* *
39178133 AAACGCCACTAAAGGTCAGGTTCTTTTAGCGGCGCTT
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCGCTT
39178170 TTTTTAAAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
85 32 0.31
86 53 0.52
87 15 0.15
88 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTACATAAAAACACCGCTAAAGATCAGGGTC
TTTAGCGGCGCATTCCCTAC
Found at i:39181856 original size:105 final size:108
Alignment explanation
Indices: 39181681--39181892 Score: 306
Period size: 110 Copynumber: 2.0 Consensus size: 108
39181671 AAAATATTTT
* * *
39181681 TTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTATGCACAAAATTTTTTATTTTGTTTTTTA
1 TTCAATTTGAACAAAATGACGCCGTTTTGC-ATG--ATGCACAAAATTTTTTATTTTGTTTTATA
*
39181746 AAATTGATTTA-TTTTTTGCGGCGTTTTTAGGGAAAACGCCGCAAC
63 AAATTGATTTACTTTTTTGCGGCGTTTTTAGGAAAAACGCCGCAAC
39181791 TTCAATTTGAACAAAATGACGCCGTTTTGC-TG-TGCACAAAA-TTTTTATTTTGTTTTATATAA
1 TTCAATTTGAACAAAATGACGCCGTTTTGCATGATGCACAAAATTTTTTATTTTGTTTTATA-AA
* *
39181853 ATTGATTTACTTTTTTGCGGTGTTTTTATGAAAAACGCCG
65 ATTGATTTACTTTTTTGCGGCGTTTTTAGGAAAAACGCCG
39181893 TTATTTCATT
Statistics
Matches: 94, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
104 17 0.18
105 20 0.21
106 27 0.29
108 2 0.02
110 28 0.30
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (108 bp):
TTCAATTTGAACAAAATGACGCCGTTTTGCATGATGCACAAAATTTTTTATTTTGTTTTATAAAA
TTGATTTACTTTTTTGCGGCGTTTTTAGGAAAAACGCCGCAAC
Found at i:39181912 original size:106 final size:107
Alignment explanation
Indices: 39181680--39181912 Score: 310
Period size: 106 Copynumber: 2.2 Consensus size: 107
39181670 CAAAATATTT
* *
39181680 TTTCATTTTGAACAAAATGACGTCGTTTTGCTATGCTATGCACAAAATTTTTTATTTTGTTTTTT
1 TTTCATTTTGAACAAAATGACGCCGTTTTGC-ATG--ATGCACAAAATTTTTTATTTTGTTTTAT
*
39181745 AAAATTGATTTATTTTTTGCGGCGTTTTTAGGGAAAACGCCGCAA
63 AAAATTGATTTATTTTTTGCGGCGTTTTTAGGAAAAACGCCGCAA
* *
39181790 CTTCAATTTGAACAAAATGACGCCGTTTTGC-TG-TGCACAAAA-TTTTTATTTTGTTTTATATA
1 TTTCATTTTGAACAAAATGACGCCGTTTTGCATGATGCACAAAATTTTTTATTTTGTTTTATA-A
* * **
39181852 AATTGATTTACTTTTTTGCGGTGTTTTTATGAAAAACGCCGTTA
65 AATTGATTTA-TTTTTTGCGGCGTTTTTAGGAAAAACGCCGCAA
*
39181896 TTTCATTTTGATCAAAA
1 TTTCATTTTGAACAAAA
39181913 ACGGCGCCGT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
104 17 0.16
105 20 0.18
106 42 0.39
108 2 0.02
110 28 0.26
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.45
Consensus pattern (107 bp):
TTTCATTTTGAACAAAATGACGCCGTTTTGCATGATGCACAAAATTTTTTATTTTGTTTTATAAA
ATTGATTTATTTTTTGCGGCGTTTTTAGGAAAAACGCCGCAA
Found at i:39182522 original size:22 final size:21
Alignment explanation
Indices: 39182474--39182539 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
39182464 AACCTTAAAT
*
39182474 CCCTAACTCTTAACCCCTAAC
1 CCCTAACCCTTAACCCCTAAC
**
39182495 GTCTAACCCTTGAACCCCTAAC
1 CCCTAACCCTT-AACCCCTAAC
* **
39182517 CCCTAAACCTTAAGTCCTAAC
1 CCCTAACCCTTAACCCCTAAC
39182538 CC
1 CC
39182540 TTAAACCATA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
21 18 0.50
22 18 0.50
ACGTcount: A:0.29, C:0.44, G:0.05, T:0.23
Consensus pattern (21 bp):
CCCTAACCCTTAACCCCTAAC
Found at i:39182556 original size:21 final size:22
Alignment explanation
Indices: 39182510--39182557 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
39182500 ACCCTTGAAC
*
39182510 CCCTAACCCCTAAACCTTAAGT
1 CCCTAACCCCTAAACCATAAGT
*
39182532 -CCTAACCCTTAAACCAT-AGT
1 CCCTAACCCCTAAACCATAAGT
39182552 CCCTAA
1 CCCTAA
39182558 TCCATAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.33, C:0.40, G:0.04, T:0.23
Consensus pattern (22 bp):
CCCTAACCCCTAAACCATAAGT
Found at i:39182583 original size:15 final size:15
Alignment explanation
Indices: 39182541--39182589 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
39182531 TCCTAACCCT
*
39182541 TAAA-CCATAGTCCC
1 TAAACCCATAATCCC
*
39182555 T-AATCCATAATCCC
1 TAAACCCATAATCCC
*
39182569 TAAACCCATACTCCC
1 TAAACCCATAATCCC
39182584 TAAACC
1 TAAACC
39182590 TTAAAATATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 17 0.57
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:39182866 original size:20 final size:21
Alignment explanation
Indices: 39182828--39182868 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39182818 CCCTCTAGTT
*
39182828 AACCCCTAAACCTTAAATCTC
1 AACCCCTAAACCATAAATCTC
*
39182849 AACCCTTAAACCAT-AATCTC
1 AACCCCTAAACCATAAATCTC
39182869 TAATCCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCCTAAACCATAAATCTC
Found at i:39182932 original size:314 final size:303
Alignment explanation
Indices: 39182364--39182971 Score: 868
Period size: 314 Copynumber: 2.0 Consensus size: 303
39182354 TATATTTGAT
39182364 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
1 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATT-AAAAATAATTAATCTA
* * *
39182429 AACTCAAAAACCTTAACTCGACCCCTGAACCCCTAAACCTTAAATCCCTAACTCTTAACCCCTAA
65 AACCCAAAAACCTTAACTCGACCCCTGAACCCCTAAACCCTAAATCCCTAACTCTTAACCCCAAA
* *
39182494 CGTCTAACCCTTGAACCCCTAACCCCTAAACCTTAAGTCCTAACCCTTAAACCATAGTCCCTAAT
130 CGTCTAACCCTTGAACCCCTAACCCCTAAACCTTAAATCCTAACCCTTAAACCATAATCCCTAAT
*
39182559 CCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCT
195 CCATAATCCCTAAACCCATACTCCATAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCT
* *
39182624 TAAATAAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
260 TAAATAAATCATAGACCCTAAACCAAAAACCCTAAACAAATTTA
*
39182668 TTATTATCTCTTTTACAATTATATAATAACATATTTAAAATATAAATT-AAAA-AATTAATCTAA
1 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAATAATTAATCTAA
* * *
39182731 ACGCCCAAAATCC-TAACTCGCCCCCTGAATCCCTAAACCCTAAATCCCTAACTCTTAACCCCAA
66 A--CCCAAAAACCTTAACTCGACCCCTGAACCCCTAAACCCTAAATCCCTAACTCTTAACCCCAA
39182795 ACGTCTAACCCTTAAACCCGTAACCCTCTAGTTAACCCCTAAACCTTAAAT-CTCAACCCTTAAA
129 ACGTCTAACCCTT------G-AACCC-C----TAACCCCTAAACCTTAAATCCT-AACCCTTAAA
* * *
39182859 CCATAATCTCTAATCCATAATCCCTAAACCCATACTCCATATACCTTAAAA-ACCT-AACTCTTA
181 CCATAATCCCTAATCCATAATCCCTAAACCCATACTCCATAAACCTTAAAATA--TGAACTCCTA
*
39182922 AACTGGCCTTAAATCTTAAATAAATCATAGACCCTAAACCAAAAACCCTA
244 AACCGGCCTTAAATCTTAAATAAATCATAGACCCTAAACCAAAAACCCTA
39182972 TGTTTTTTTT
Statistics
Matches: 271, Mismatches: 16, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
301 12 0.04
302 64 0.24
303 8 0.03
304 47 0.17
308 1 0.00
309 5 0.02
310 1 0.00
313 3 0.01
314 129 0.48
315 1 0.00
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.28
Consensus pattern (303 bp):
TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAATAATTAATCTAA
ACCCAAAAACCTTAACTCGACCCCTGAACCCCTAAACCCTAAATCCCTAACTCTTAACCCCAAAC
GTCTAACCCTTGAACCCCTAACCCCTAAACCTTAAATCCTAACCCTTAAACCATAATCCCTAATC
CATAATCCCTAAACCCATACTCCATAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATCTT
AAATAAATCATAGACCCTAAACCAAAAACCCTAAACAAATTTA
Found at i:39183100 original size:73 final size:74
Alignment explanation
Indices: 39182977--39183157 Score: 292
Period size: 73 Copynumber: 2.4 Consensus size: 74
39182967 CCCTATGTTT
* *
39182977 TTTTTGCGGCGCTTTCCTAAAAAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGTCATTG
1 TTTTTGCGGCGCTTT-CTCAAAAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGCCATTG
39183042 GGCTTATGTC
65 GGCTTATGTC
* * * *
39183052 TTTTTGCGGCGCTTTATCAAAAGCGCCGCTAAAT-CCCCGAAAGCTCAGAAAACGGCGCCGTTGG
1 TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGCCATTGG
39183116 GCTTATGTC
66 GCTTATGTC
39183125 TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAA
1 TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAA
39183158 AGCCCTGAGC
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 67 0.69
74 15 0.15
75 15 0.15
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (74 bp):
TTTTTGCGGCGCTTTCTCAAAAACGCCACTAAATCCCCCGAAAGCTCAGAAAACGGCGCCATTGG
GCTTATGTC
Found at i:39183286 original size:39 final size:38
Alignment explanation
Indices: 39183231--39183349 Score: 103
Period size: 39 Copynumber: 3.0 Consensus size: 38
39183221 GCGTCGTTTG
* *
39183231 GCTTAGTTTTTTGCGGCGCTTTTTAAAAAACGCCGCTAAT
1 GCTTA-TTTTTAGCGGCG-TTTTTATAAAACGCCGCTAAT
** * *
39183271 GCTTATTTTTAGCGGCGTTTGCCATAGAGCGCCGCTAAT
1 GCTTATTTTTAGCGGCGTTT-TTATAAAACGCCGCTAAT
* * *
39183310 GATTGATCTTTAGCGGCGTTTTTTATTCAAACGCCGCTAA
1 GCTT-ATTTTTAGCGGCG-TTTTTA-TAAAACGCCGCTAA
39183350 AGTCGCCGCT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
38 3 0.05
39 27 0.44
40 18 0.29
41 14 0.23
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (38 bp):
GCTTATTTTTAGCGGCGTTTTTATAAAACGCCGCTAAT
Found at i:39185541 original size:83 final size:83
Alignment explanation
Indices: 39185399--39185564 Score: 287
Period size: 83 Copynumber: 2.0 Consensus size: 83
39185389 ACGTGGAGTG
* * * *
39185399 GAGCTAAAGTAAAGATTAGTTGGAATACGTATCTCAAAATCTCTATGCATGATCGGAGTTTGAGG
1 GAGCTAAAGTAAAGATTAGTCGGAATACGTATCTCAAAAACTCTAAGCATGATCAGAGTTTGAGG
39185464 TTGTCTCTCTTAACAATA
66 TTGTCTCTCTTAACAATA
*
39185482 GAGCTAAAGTAAAGATTAGTCGGAATACGTTTCTCAAAAACTCTAAGCATGATCAGAGTTTGAGG
1 GAGCTAAAGTAAAGATTAGTCGGAATACGTATCTCAAAAACTCTAAGCATGATCAGAGTTTGAGG
39185547 TTGTCTCTCTTAACAATA
66 TTGTCTCTCTTAACAATA
39185565 TAATCTTTAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (83 bp):
GAGCTAAAGTAAAGATTAGTCGGAATACGTATCTCAAAAACTCTAAGCATGATCAGAGTTTGAGG
TTGTCTCTCTTAACAATA
Found at i:39187381 original size:2 final size:2
Alignment explanation
Indices: 39187374--39187400 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39187364 TAAATAATAC
39187374 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
39187401 AACTCCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39188156 original size:29 final size:29
Alignment explanation
Indices: 39188114--39188171 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
39188104 AATATTGTTT
39188114 TACAAACCTATAAATAAACATAGTCTATA
1 TACAAACCTATAAATAAACATAGTCTATA
*
39188143 TACAAACCTATAAATAGACATAGTCTATA
1 TACAAACCTATAAATAAACATAGTCTATA
39188172 CTTCTCTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (29 bp):
TACAAACCTATAAATAAACATAGTCTATA
Found at i:39194109 original size:24 final size:24
Alignment explanation
Indices: 39194057--39194110 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
39194047 TATTTAATCC
*
39194057 TTTTAA-AAAATTATAAAAATATA
1 TTTTAATAAAATAATAAAAATATA
** *
39194080 AGTTAATAAAATAATAAAATTATA
1 TTTTAATAAAATAATAAAAATATA
39194104 TTTTAAT
1 TTTTAAT
39194111 TCTTATAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTAATAAAATAATAAAAATATA
Found at i:39198936 original size:20 final size:22
Alignment explanation
Indices: 39198911--39198950 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
39198901 TAAATCTATT
39198911 AATATATTAT-TTA-ATTATAA
1 AATATATTATATTATATTATAA
39198931 AATATATTATATTATATTAT
1 AATATATTATATTATATTAT
39198951 TATGTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:39199193 original size:16 final size:17
Alignment explanation
Indices: 39199172--39199203 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
39199162 CAGGGGAGAA
39199172 AGAAAGAAA-GAAAAAG
1 AGAAAGAAAGGAAAAAG
39199188 AGAAAGAAAGGAAAAA
1 AGAAAGAAAGGAAAAA
39199204 CTAGAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAAAG
Found at i:39200223 original size:39 final size:42
Alignment explanation
Indices: 39200168--39200284 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 42
39200158 GATCAGGCAC
* * *
39200168 TTATGTGCCGACTACTGTTATTGTTACTGATT-C-GA-T-ACT
1 TTATGTGTCGAATACTGTTACTGTTACTG-TTACAGATTCACT
39200207 TTATGTGTCGAATACTGTTACTGTTACTGTTACAGATTCAGCACT
1 TTATGTGTCGAATACTGTTACTGTTACTGTTACAGATT---CACT
*
39200252 TTGTGTGTCGAATACTGTTACTGTTACTGTTAC
1 TTATGTGTCGAATACTGTTACTGTTACTGTTAC
39200285 TGTTACTGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
38 2 0.03
39 27 0.40
40 2 0.03
41 1 0.01
45 35 0.52
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (42 bp):
TTATGTGTCGAATACTGTTACTGTTACTGTTACAGATTCACT
Found at i:39200245 original size:45 final size:45
Alignment explanation
Indices: 39200180--39200284 Score: 158
Period size: 45 Copynumber: 2.3 Consensus size: 45
39200170 ATGTGCCGAC
* * *
39200180 TACTGTTATTGTTACTGATTC-GATACTTTATGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTATGTGTCGAATACTGT
*
39200225 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAATACTGT
39200270 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
39200285 TGTTACTGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTATGTGTCGAATACTGT
Found at i:39200275 original size:6 final size:6
Alignment explanation
Indices: 39200264--39200311 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
39200254 GTGTGTCGAA
*
39200264 TACTGT TACTGT TACTGT TACTGT TACTGC TACTGT TACTGAT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTG
39200312 ATCAGGTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.19, C:0.19, G:0.17, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:39202478 original size:24 final size:24
Alignment explanation
Indices: 39202402--39202479 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 24
39202392 AGTGATTATC
39202402 TTAATATTAAATTTAATCTAATAT
1 TTAATATTAAATTTAATCTAATAT
* * * *
39202426 TT-ATCTTGTAGATTAATATTCTAAGAT
1 TTAAT-AT-TAAATT--TAATCTAATAT
39202453 TTAATATTAAATTTAATCTAATAT
1 TTAATATTAAATTTAATCTAATAT
39202477 TTA
1 TTA
39202480 TCTTTATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
23 2 0.05
24 15 0.37
25 5 0.12
26 5 0.12
27 12 0.29
28 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.50
Consensus pattern (24 bp):
TTAATATTAAATTTAATCTAATAT
Found at i:39205101 original size:26 final size:26
Alignment explanation
Indices: 39205065--39205118 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
39205055 AATGCAAAAC
39205065 AAGTTTAAAACTATTGCATACAATTA
1 AAGTTTAAAACTATTGCATACAATTA
39205091 AAGTTTAAAACTATTGCATACAATTA
1 AAGTTTAAAACTATTGCATACAATTA
39205117 AA
1 AA
39205119 CCTAGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.33
Consensus pattern (26 bp):
AAGTTTAAAACTATTGCATACAATTA
Found at i:39216839 original size:14 final size:13
Alignment explanation
Indices: 39216800--39216841 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
39216790 ATTGATGTTG
39216800 AAAAGTGTTATTAA
1 AAAAGTGTT-TTAA
*
39216814 AAAACT-TTTTAA
1 AAAAGTGTTTTAA
39216826 AAAAGTGTTCTTAA
1 AAAAGTGTT-TTAA
39216840 AA
1 AA
39216842 TTTTTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 9 0.38
13 4 0.17
14 11 0.46
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (13 bp):
AAAAGTGTTTTAA
Found at i:39220231 original size:14 final size:14
Alignment explanation
Indices: 39220214--39220242 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
39220204 TAATCAAGTT
39220214 ATTTGGATCAACTC
1 ATTTGGATCAACTC
39220228 ATTTGGATCAACTC
1 ATTTGGATCAACTC
39220242 A
1 A
39220243 AATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (14 bp):
ATTTGGATCAACTC
Found at i:39221129 original size:21 final size:21
Alignment explanation
Indices: 39221105--39221145 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
39221095 ACCAAAATCT
39221105 ATAAAAAACAAAAAAAAAAAA
1 ATAAAAAACAAAAAAAAAAAA
*
39221126 ATAAAAAACAGAAAAAAAAA
1 ATAAAAAACAAAAAAAAAAA
39221146 CTTGAACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (21 bp):
ATAAAAAACAAAAAAAAAAAA
Found at i:39221214 original size:27 final size:27
Alignment explanation
Indices: 39221176--39221252 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
39221166 CCCTGGGTGG
39221176 AGGGAAGCAGGTTGGCGGCACCAAACA
1 AGGGAAGCAGGTTGGCGGCACCAAACA
****
39221203 AGGGAAGCAGGTTGGCGGCACCAGTGG
1 AGGGAAGCAGGTTGGCGGCACCAAACA
*
39221230 AGGGAACCAGGTTGGCGGCACCA
1 AGGGAAGCAGGTTGGCGGCACCA
39221253 CCCTTGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.42, T:0.09
Consensus pattern (27 bp):
AGGGAAGCAGGTTGGCGGCACCAAACA
Found at i:39221322 original size:18 final size:17
Alignment explanation
Indices: 39221299--39221376 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
39221289 GAAGGAGAGG
39221299 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
39221317 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
39221334 GG-A-AAAGGAAATGAGA
1 GGAAGAAAGAAAAAGA-A
39221350 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
39221368 GGAAAGAAA
1 GG-AAGAAA
39221377 AGGAAAGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 4 0.08
18 20 0.39
19 14 0.27
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:39221332 original size:10 final size:10
Alignment explanation
Indices: 39221301--39221372 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
39221291 AGGAGAGGGG
*
39221301 AAGAAGAAGA
1 AAGAAAAAGA
39221311 AAGAAAGGAAGA
1 AAGAAA--AAGA
39221323 AAGAAAAAGA
1 AAGAAAAAGA
* *
39221333 AGGAAAAGGA
1 AAGAAAAAGA
39221343 AATGAGAGGAAAGA
1 AA-GA-A--AAAGA
39221357 AAGAAAAAGA
1 AAGAAAAAGA
*
39221367 AGGAAA
1 AAGAAA
39221373 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:39221377 original size:38 final size:35
Alignment explanation
Indices: 39221319--39221407 Score: 117
Period size: 38 Copynumber: 2.5 Consensus size: 35
39221309 GAAAGAAAGG
*
39221319 AAGAAAGAAAAAGAA-GGAAAAGGAAATGAGAGGA
1 AAGAAAGAAAAAGAAGGGAAAAGGAAAGGAGAGGA
*
39221353 AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGGGAGGA
1 AAGAAAGAAAAAGAAGG---GAAAAGGAAAGGAGAGGA
*
39221391 AAGAAAGAAAAATAAGG
1 AAGAAAGAAAAAGAAGG
39221408 CGTTTGGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
34 15 0.31
35 1 0.02
38 32 0.67
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (35 bp):
AAGAAAGAAAAAGAAGGGAAAAGGAAAGGAGAGGA
Found at i:39221379 original size:10 final size:10
Alignment explanation
Indices: 39221321--39221383 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
39221311 AAGAAAGGAA
*
39221321 GAAAGAAAAA
1 GAAAGAAAAG
*
39221331 GAAGGAAAAG
1 GAAAGAAAAG
*
39221341 GAAATG-AGAG
1 GAAA-GAAAAG
39221351 GAAAG-AAA-
1 GAAAGAAAAG
39221359 GAAA-AAGAAG
1 GAAAGAA-AAG
39221369 GAAAGAAAAG
1 GAAAGAAAAG
39221379 GAAAG
1 GAAAG
39221384 GGGAGGAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
8 5 0.12
9 5 0.12
10 30 0.70
11 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAAGAAAAG
Found at i:39221383 original size:18 final size:19
Alignment explanation
Indices: 39221335--39221396 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
39221325 GAAAAAGAAG
39221335 GAAAAGGAAATGAGAGGAAA
1 GAAAAGGAAA-GAGAGGAAA
*
39221355 G-AAA-GAAAAAGAAGGAAA
1 GAAAAGGAAAGAG-AGGAAA
*
39221373 GAAAAGGAAAGGGGAGGAAA
1 GAAAAGGAAA-GAGAGGAAA
39221393 GAAA
1 GAAA
39221397 GAAAAATAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.06
18 11 0.31
19 6 0.17
20 15 0.43
21 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (19 bp):
GAAAAGGAAAGAGAGGAAA
Found at i:39221543 original size:13 final size:13
Alignment explanation
Indices: 39221525--39221549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39221515 TAACTAAAAC
39221525 TAGAATAATTAAT
1 TAGAATAATTAAT
39221538 TAGAATAATTAA
1 TAGAATAATTAA
39221550 ATTGATACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAGAATAATTAAT
Found at i:39222540 original size:17 final size:17
Alignment explanation
Indices: 39222518--39222554 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
39222508 AGTAAGATGT
39222518 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
39222535 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
39222552 CAT
1 CAT
39222555 CTTACCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:39223871 original size:12 final size:11
Alignment explanation
Indices: 39223852--39223891 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
39223842 TAATTTAGTG
*
39223852 TGTTTTTTTTC
1 TGTTTTTTTTT
39223863 TG-TTTTTTTT
1 TGTTTTTTTTT
39223873 TGTTATTTTTTT
1 TGTT-TTTTTTT
39223885 TGTTTTT
1 TGTTTTT
39223892 ACTTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 9 0.35
11 6 0.23
12 11 0.42
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (11 bp):
TGTTTTTTTTT
Found at i:39223883 original size:10 final size:10
Alignment explanation
Indices: 39223852--39223891 Score: 53
Period size: 11 Copynumber: 3.7 Consensus size: 10
39223842 TAATTTAGTG
39223852 TGTTTTTTTT
1 TGTTTTTTTT
39223862 CTGTTTTTTTT
1 -TGTTTTTTTT
39223873 TGTTATTTTTTT
1 TG-T-TTTTTTT
39223885 TGTTTTT
1 TGTTTTT
39223892 ACTTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.22
11 12 0.44
12 9 0.33
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.85
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:39223947 original size:29 final size:29
Alignment explanation
Indices: 39223898--39223971 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
39223888 TTTTACTTTT
39223898 TTATATATA-TTTGGTAAATAAAAAAAAA
1 TTATATATATTTTGGTAAATAAAAAAAAA
*
39223926 TTATATATATTTTGGTAAATAAAAAAAAG
1 TTATATATATTTTGGTAAATAAAAAAAAA
39223955 TTATA-ATATTTTGGTAA
1 TTATATATATTTTGGTAA
39223972 TTTTTTATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 21 0.48
29 23 0.52
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (29 bp):
TTATATATATTTTGGTAAATAAAAAAAAA
Found at i:39224031 original size:19 final size:19
Alignment explanation
Indices: 39224007--39224047 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
39223997 TATAAAACCC
*
39224007 ATAATAAAACATTACAAAA
1 ATAATAAAACATTAAAAAA
*
39224026 ATAATAAAATATTAAAAAA
1 ATAATAAAACATTAAAAAA
39224045 ATA
1 ATA
39224048 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAATAAAACATTAAAAAA
Found at i:39224053 original size:19 final size:19
Alignment explanation
Indices: 39224007--39224058 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
39223997 TATAAAACCC
* * *
39224007 ATAATAAAACATTACAAAA
1 ATAACAAAATATTAAAAAA
*
39224026 ATAATAAAATATTAAAAAA
1 ATAACAAAATATTAAAAAA
*
39224045 ATACCAAAATATTA
1 ATAACAAAATATTA
39224059 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAACAAAATATTAAAAAA
Found at i:39224771 original size:10 final size:10
Alignment explanation
Indices: 39224758--39224908 Score: 59
Period size: 10 Copynumber: 15.1 Consensus size: 10
39224748 TCCTTCCCTC
39224758 TTCTTCTTCT
1 TTCTTCTTCT
* *
39224768 TTCTTTTTTTT
1 TTC-TTCTTCT
*
39224779 TCTCTTCTCCT
1 T-TCTTCTTCT
39224790 TTCCTT-TTCT
1 TT-CTTCTTCT
*
39224800 TTC--CTTAT
1 TTCTTCTTCT
39224808 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
39224818 TTCCTCCTCT
1 TTCTTCTTCT
39224828 TTCCTT-TTCT
1 TT-CTTCTTCT
*
39224838 TTC--CTTCG
1 TTCTTCTTCT
39224846 TT-TTCTTTCT
1 TTCTTC-TTCT
* *
39224856 TTCCTCTCCT
1 TTCTTCTTCT
*
39224866 TTCCTT-TTCC
1 TT-CTTCTTCT
*
39224876 TTCTTTTTCT
1 TTCTTCTTCT
39224886 TTCTTCCTTTCT
1 TTCTT-C-TTCT
39224898 TTCTTCTTCT
1 TTCTTCTTCT
39224908 T
1 T
39224909 GCCCTCTCCT
Statistics
Matches: 102, Mismatches: 21, Indels: 36
0.64 0.13 0.23
Matches are distributed among these distances:
8 10 0.10
9 7 0.07
10 51 0.50
11 23 0.23
12 11 0.11
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.68
Consensus pattern (10 bp):
TTCTTCTTCT
Found at i:39224791 original size:22 final size:22
Alignment explanation
Indices: 39224759--39224879 Score: 79
Period size: 18 Copynumber: 6.0 Consensus size: 22
39224749 CCTTCCCTCT
* * *
39224759 TCTTCTTCTTTCTTTTTTTTTC
1 TCTTCTCCTTTCCTTTTCTTTC
39224781 TCTTCTCCTTTCCTTTTCTTTC
1 TCTTCTCCTTTCCTTTTCTTTC
* *
39224803 -CTTAT--TTTTC-TTTCTTTC
1 TCTTCTCCTTTCCTTTTCTTTC
*
39224821 -CTCCT-CTTTCCTTTTCTTTC
1 TCTTCTCCTTTCCTTTTCTTTC
39224841 -CTTCGT--TTT-C-TTTCTTTC
1 TCTTC-TCCTTTCCTTTTCTTTC
*
39224859 -C-TCTCCTTTCCTTTTCCTTC
1 TCTTCTCCTTTCCTTTTCTTTC
39224879 T
1 T
39224880 TTTTCTTTCT
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.01
17 2 0.02
18 23 0.28
19 10 0.12
20 21 0.26
21 5 0.06
22 19 0.23
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (22 bp):
TCTTCTCCTTTCCTTTTCTTTC
Found at i:39224819 original size:28 final size:28
Alignment explanation
Indices: 39224788--39224871 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
39224778 TTCTCTTCTC
*
39224788 CTTTCCTTTTCTTTCCTTATT-TTTCTTT
1 CTTTCCTTTTCTTTCCTT-TTCTTTCCTT
**
39224816 CTTTCCTCCTCTTTCCTTTTCTTTCCTT
1 CTTTCCTTTTCTTTCCTTTTCTTTCCTT
* * *
39224844 CGTTTTC-TTTCTTTCCTCTCCTTTCCTT
1 C-TTTCCTTTTCTTTCCTTTTCTTTCCTT
39224872 TTCCTTCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.04
28 40 0.87
29 4 0.09
ACGTcount: A:0.01, C:0.33, G:0.01, T:0.64
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTTTCTTTCCTT
Found at i:39224830 original size:38 final size:38
Alignment explanation
Indices: 39224784--39224896 Score: 149
Period size: 38 Copynumber: 3.0 Consensus size: 38
39224774 TTTTTTCTCT
39224784 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
1 TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
**
39224822 TC-CTCTTTCCTTTTCTTTCCTTCGTTTTCTTTCTTTCC
1 TCTC-CTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
* * *
39224860 TCTCCTTTCCTTTTCCTT-CTTTTTCTTTCTTCCTTTC
1 TCTCCTTTCCTTTTCTTTCCTTATT-TTTCTTTCTTTC
39224897 TTTCTTCTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
37 5 0.08
38 60 0.91
39 1 0.02
ACGTcount: A:0.01, C:0.34, G:0.01, T:0.65
Consensus pattern (38 bp):
TCTCCTTTCCTTTTCTTTCCTTATTTTTCTTTCTTTCC
Found at i:39224867 original size:14 final size:13
Alignment explanation
Indices: 39224790--39224900 Score: 53
Period size: 14 Copynumber: 7.9 Consensus size: 13
39224780 CTCTTCTCCT
39224790 TTCCTTTTCTTTCC
1 TTCC-TTTCTTTCC
** *
39224804 TTATTTTTCTTTCT
1 TT-CCTTTCTTTCC
*
39224818 TTCCTCCTCTTTCC
1 TTCCT-TTCTTTCC
* * *
39224832 TTTTCTTTCCTTCGT
1 -TTCCTTTCTTTC-C
*
39224847 TTTCTTTCTTTCC
1 TTCCTTTCTTTCC
39224860 TCTCCTTTCCTTTTCC
1 T-TCCTTT-C-TTTCC
*
39224876 TTCTTTTTCTTT-C
1 TTC-CTTTCTTTCC
39224889 TTCCTTTCTTTC
1 TTCCTTTCTTTC
39224901 TTCTTCTTGC
Statistics
Matches: 72, Mismatches: 16, Indels: 19
0.67 0.15 0.18
Matches are distributed among these distances:
12 7 0.10
13 6 0.08
14 42 0.58
15 8 0.11
16 9 0.12
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (13 bp):
TTCCTTTCTTTCC
Found at i:39224906 original size:28 final size:30
Alignment explanation
Indices: 39224828--39224908 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 30
39224818 TTCCTCCTCT
39224828 TTCCTTTTCTTTCCTTCGTT-TTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTC-TTCTTCTTTCTTTCC
*
39224860 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
39224889 TTCCTTTCTTTCTTCTTCTT
1 TTCCTTTCTTTCTTCTTCTT
39224909 GCCCTCTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 9 0.21
31 4 0.09
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:39224995 original size:27 final size:27
Alignment explanation
Indices: 39224957--39225037 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
39224947 AATTCAAGGG
* *
39224957 TGGTGCCTCCAACCTGGTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
****
39224984 TGGTGCCGCCAACCTGCTTCCCTTGTT
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
39225011 TGGTGCCGCCAACCTGCTTCCCTCCAC
1 TGGTGCCGCCAACCTGCTTCCCTCCAC
39225038 CCAGGGAGTT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.10, C:0.43, G:0.20, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACCTGCTTCCCTCCAC
Found at i:39225080 original size:11 final size:10
Alignment explanation
Indices: 39225064--39225101 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
39225054 TCAGTTCAGG
*
39225064 TTTTTTTTCT
1 TTTTTTTTGT
39225074 ATTTTTTTTGT
1 -TTTTTTTTGT
39225085 TTTTTTTTGT
1 TTTTTTTTGT
39225095 TTTTTTT
1 TTTTTTT
39225102 ATATTTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.03, C:0.03, G:0.05, T:0.89
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:39228144 original size:132 final size:131
Alignment explanation
Indices: 39227956--39228371 Score: 591
Period size: 132 Copynumber: 3.2 Consensus size: 131
39227946 ATATCTGCTT
* * ** * * *
39227956 TCTTCGATCGATTCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
39228021 CCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTG-CTAGGGAGATAAGATCTGT
39228086 AA
130 AA
**
39228088 TCTTCAATCTATTCCACTGTTGTTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * **
39228153 CCTCAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTGCCTAGAGAGATAAGATCTAA
66 CCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTG-CTAGGGAGATAAGATCTGT
39228218 AA
130 AA
* * *
39228220 TCTTCAATCTATTCCACTGCTGCCCATGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * *
39228285 CCTCAGAGAGGTAAAATCCGCCCTCCTT-GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
66 CCTCAGAGAGGTAAAATCTGCCAT-CTTCGATCTACTCCACTACTGC-TAGGGAGATAAGATCTG
39228349 TAA
129 TAA
* *
39228352 TCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGT
39228372 AACCTCAGGG
Statistics
Matches: 252, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
131 1 0.00
132 249 0.99
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (131 bp):
TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCTAGGGAGATAAGATCTGTA
A
Found at i:39228371 original size:89 final size:89
Alignment explanation
Indices: 39228002--39228459 Score: 367
Period size: 89 Copynumber: 5.2 Consensus size: 89
39227992 ATTACTGGCC
* * *
39228002 TCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGT
1 TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
39228067 CTAGGGAGATAAGATCTGTAATCT
66 CTAGGGAGATAAGATCTGTAATCT
* * *** * * * ** *** * * * *
39228091 TCAATCTATTCCACTGT-TGTTCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAA
1 TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACT-G
* * ** *
39228153 CCTCAGGGAGGTAAAATCTGCCATAT
65 CCT-AGGGAGATAAGATCTGTAATCT
* * * * * * **** * * *
39228179 TCGATCTACTCCACTACT-GCCT-AGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTG
1 TCAATGTACTCCACT-GTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
* * * *
39228242 CCCATGGAGAT-AGA-AT-TATTGGCT
65 CCTAGGGAGATAAGATCTGTAAT--CT
* *
39228266 TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCCTCCTT-GATCTGCTCCACTACTG
1 TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCAT-CTTCGATCTACTCCACTACTG
*
39228330 CTTAGGGAGATAAGATCTGTAATCT
65 CCTAGGGAGATAAGATCTGTAATCT
*
39228355 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
1 TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
39228420 CTAGGGAGATAAGATCTGTAATCT
66 CTAGGGAGATAAGATCTGTAATCT
* *
39228444 TCAATCTATTCCACTG
1 TCAATGTACTCCACTG
39228460 CTGCCCAGGG
Statistics
Matches: 281, Mismatches: 74, Indels: 28
0.73 0.19 0.07
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 38 0.14
88 95 0.34
89 139 0.49
90 2 0.01
91 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (89 bp):
TCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
CTAGGGAGATAAGATCTGTAATCT
Found at i:39228386 original size:221 final size:221
Alignment explanation
Indices: 39228132--39228576 Score: 766
Period size: 221 Copynumber: 2.0 Consensus size: 221
39228122 GAATTACTGG
*
39228132 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTACT
* *
39228197 GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCATGGAGATAGAATTATT
66 GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
* *
39228262 GGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCCTCCTT-GATCTGCTCCACT
131 GGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCAT-ATTCGATCTGCTCCACT
*
39228326 ACTGCTTAGGGAGATAAGATCTGTAAT
195 ACTGCCTAGGGAGATAAGATCTGTAAT
*
39228353 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTACT
* **
39228418 GCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
66 GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
* *
39228483 GGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATATTCGATCTGCTCCACTA
131 GGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATATTCGATCTGCTCCACTA
39228548 CTGCCTAGGGAGATAAGATCTGTAAT
196 CTGCCTAGGGAGATAAGATCTGTAAT
39228574 CTT
1 CTT
39228577 TGATCTATTC
Statistics
Matches: 211, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
220 2 0.01
221 209 0.99
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (221 bp):
CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTACT
GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
GGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATATTCGATCTGCTCCACTA
CTGCCTAGGGAGATAAGATCTGTAAT
Found at i:39228478 original size:353 final size:353
Alignment explanation
Indices: 39228002--39228708 Score: 1184
Period size: 353 Copynumber: 2.0 Consensus size: 353
39227992 ATTACTGGCC
* *
39228002 TCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGT
1 TCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
* **
39228067 CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGTTCAGGGAGATAGAATTACTGG
66 CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
39228132 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAA-TCTGCCATATTCGATCTACTCCACTAC
131 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTC-GCCATATTCGATCTACTCCACTAC
* *
39228196 TGCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCATGGAGATAGAATTAT
195 TGCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
* * *
39228261 TGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCCTCCTT-GATCTGCTCCAC
260 TGGATTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCAT-ATTCGATCTGCTCCAC
*
39228325 TACTGCTTAGGGAGATAAGATCTGTAATCT
324 TAATGCTTAGGGAGATAAGATCTGTAATCT
* *
39228355 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
1 TCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
39228420 CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
66 CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
*
39228485 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATATTCGATCTGCTCCACTACT
131 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATATTCGATCTACTCCACTACT
* ** ** *
39228550 GCCTAGGGAGATAAGATCTGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
196 GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
* *
39228615 GGATTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTA
261 GGATTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATATTCGATCTGCTCCACTA
39228680 ATGCTTAGGGAGATAAGATCTGTAATCT
326 ATGCTTAGGGAGATAAGATCTGTAATCT
39228708 T
1 T
39228709 TGATCTATTC
Statistics
Matches: 330, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
352 2 0.01
353 326 0.99
354 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (353 bp):
TCAATATACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGC
CTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGG
CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATATTCGATCTACTCCACTACT
GCCTAGAGAGATAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
GGATTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCCGCCATATTCGATCTGCTCCACTA
ATGCTTAGGGAGATAAGATCTGTAATCT
Found at i:39228491 original size:264 final size:264
Alignment explanation
Indices: 39227968--39228766 Score: 732
Period size: 264 Copynumber: 3.0 Consensus size: 264
39227958 TTCGATCGAT
* * * *
39227968 TCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAACCTCAGAGAGGT
1 TCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGT
39228033 AAAATCTGCCAT-CTTCGATCTACTCCACTACTG-TCTAGGGAGATAAGATCTGTAATCTTCAAT
66 AAAATCTGCCATCCTT-GATCTACTCCACTACTGCT-TAGGGAGATAAGATCTGTAATCTTCAAT
* *** * * ** *** * *
39228096 CTATTCCACTGT-TGTTCAGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACTGTAA--CCTC
129 GTATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCAC--TAATGCCT-
* * ** * * * * * ****
39228157 AGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTGCCTAGAGAGATA-AGATCTAAAAT
191 AGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGGAGATAGA-AT-TACTGG
*
39228221 CTTCAATCTAT
254 CTTCAATCTAC
* *
39228232 TCCACTGCTGCCCATGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGT
1 TCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGT
* * *
39228297 AAAATCCGCCCTCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGT
66 AAAATCTGCCATCCTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGT
* *
39228362 ACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCCTAGGGA
131 ATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTAATGCCTAGGGA
*
39228427 GATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAT
196 GATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAT
*
39228492 GTAC
261 CTAC
* * * * * * * *
39228496 TCCACTG-TAACCTCAGGGAGGTA-AA--ATTCGCCATATTCGATCTGCTCCACTACT-GCCT-A
1 TCCACTGCT-GCC-CAGGGAGATAGAATTATT-GGC---TTCAATATACTCCACT-GTAACCTCA
* * * ** * * * * ** *
39228555 GGGAGATAAGATCTGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGAT-AGAATTACTG-GA
59 GAGAGGTAAAATCTGCCATCCTTGATCTACTCCACTACTGCTTAGGGAGATAAG-A-T-CTGTAA
* *
39228618 --TTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTAA
121 TCTTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTAA
* * *
39228681 TGCTTAGGGAGATAAGATCTGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTAC
186 TGCCTAGGGAGATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGGAGATAGAATTAC
*
39228746 TGGCTTCAATGTAC
251 TGGCTTCAATCTAC
39228760 TCCACTG
1 TCCACTG
39228767 TAACCTCAGG
Statistics
Matches: 446, Mismatches: 72, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
262 3 0.01
263 3 0.01
264 290 0.65
265 109 0.24
266 37 0.08
267 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (264 bp):
TCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATATACTCCACTGTAACCTCAGAGAGGT
AAAATCTGCCATCCTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATGT
ATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTAATGCCTAGGGA
GATAAGATCTGTAATCTTCGATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAAT
CTAC
Found at i:39228511 original size:132 final size:132
Alignment explanation
Indices: 39228353--39228847 Score: 837
Period size: 132 Copynumber: 3.8 Consensus size: 132
39228343 GATCTGTAAT
* *
39228353 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACT
* *
39228418 GCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACT
66 GCCTAGGGAGATAAGATCTGTAATCTTCGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
39228483 GG
131 GG
*
39228485 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGCCATATTCGATCTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACT
*
39228550 GCCTAGGGAGATAAGATCTGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
66 GCCTAGGGAGATAAGATCTGTAATCTTCGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
39228615 GG
131 GG
* * *
39228617 ATTCAATGTATTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTAAT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACT
* *
39228682 GCTTAGGGAGATAAGATCTGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
66 GCCTAGGGAGATAAGATCTGTAATCTTCGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
39228747 GG
131 GG
* * * **
39228749 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTCGTCATCTTTAATCTGCTCCACTACT
1 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACT
*
39228814 GCTTAGGGAGATAAGATCTGTAATCTTCGATCTA
66 GCCTAGGGAGATAAGATCTGTAATCTTCGATCTA
39228848 CTTCAAGCCA
Statistics
Matches: 343, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 343 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTACT
GCCTAGGGAGATAAGATCTGTAATCTTCGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACT
GG
Found at i:39228743 original size:485 final size:485
Alignment explanation
Indices: 39227956--39228841 Score: 1432
Period size: 485 Copynumber: 1.8 Consensus size: 485
39227946 ATATCTGCTT
*
39227956 TCTTCGATCGATTCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAA
1 TCTTCAATCGATTCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAA
* *
39228021 CCTCAGAGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGTCTAGGGAGATAAGATCTGT
66 CCTCAGAGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
* ** *
39228086 AATCTTCAATCTATTCCACTGTTGTTCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGT
131 AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGATTCAATGTACTCCACTGT
* *
39228151 AACCTCAGGGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTGCCTAGAGAGATAAGATCT
196 AACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTAATGCCTAGAGAGATAAGATCT
* *
39228216 AAAATCTTCAATCTATTCCACTGCTGCCCATGGAGATAGAATTATTGGCTTCAATGTACTCCACT
261 AAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT
* *
39228281 GTAACCTCAGAGAGGTAAAATCCGCCCTCCTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
326 GTAACCTCAGAGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
39228346 CTGTAATCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTC
391 CTGTAATCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTC
39228411 CACTACTGCCTAGGGAGATAAGATCTGTAA
456 CACTACTGCCTAGGGAGATAAGATCTGTAA
* * * * *
39228441 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCGATTCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAA
* *
39228506 CCTCAGGGAGGTAAAAT-TCGCCATATTCGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTG
66 CCTCAGAGAGGTAAAATCT-GCCATATTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTG
** * *
39228570 TAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACTGGATTCAATGTATTCCACTG
130 TAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGATTCAATGTACTCCACTG
* * *
39228635 TAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTCCACTAATGCTTAGGGAGATAAGATC
195 TAACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTAATGCCTAGAGAGATAAGATC
** ** *
39228700 TGTAATCTTTGATCTATTCTACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCAC
260 TAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCAC
* * * *
39228765 TGTAACCTCAGGGAGGTAAAATTCGTCATCTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGA
325 TGTAACCTCAGAGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTACTGCTTAGGGAGATAAGA
39228830 TCTGTAATCTTC
390 TCTGTAATCTTC
39228842 GATCTACTTC
Statistics
Matches: 364, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
484 1 0.00
485 363 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (485 bp):
TCTTCAATCGATTCCACTGCCGACCAGGGAGATAGAATTACTGGCCTCAATATACTCCACTGTAA
CCTCAGAGAGGTAAAATCTGCCATATTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGT
AATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGATTCAATGTACTCCACTGT
AACCTCAGGGAGGTAAAATCCGCCATATTCGATCTACTCCACTAATGCCTAGAGAGATAAGATCT
AAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACT
GTAACCTCAGAGAGGTAAAATCCGCCATCCTTAATCTGCTCCACTACTGCTTAGGGAGATAAGAT
CTGTAATCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTC
CACTACTGCCTAGGGAGATAAGATCTGTAA
Found at i:39228840 original size:44 final size:44
Alignment explanation
Indices: 39228050--39228849 Score: 147
Period size: 44 Copynumber: 18.2 Consensus size: 44
39228040 GCCATCTTCG
*
39228050 ATCTACTCCACTACTG-TCTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATCTTTA
* ** * * * *
39228094 ATCTATTCCACTGTTGTTCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * ** * **
39228137 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCTGCCATATTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* ** *
39228182 ATCTACTCCACTACTGC-CTAGAGAGATAAGATCTAAAATCTTCA
1 ATCTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATCTTTA
* * * * * * *
39228226 ATCTATTCCACTGCTGCCCATGGAGAT-AGA-AT-TATTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * * * *** * *
39228269 ATGTACTCCACTGTAAC--CTCAGAGAGGTAAAATCCGCCCTCCTTG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* * *
39228314 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* * * * ** **
39228358 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAATCTTTA
*
39228403 ATCTACTCCACTACTGC-CTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATCTTTA
* * * * * *
39228447 ATCTATTCCACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * ** * **
39228490 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAAT-TCGCCATATTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCT-GTAATCTTTA
* *
39228535 ATCTGCTCCACTACTGC-CTAGGGAGATAAGATCTGTAATCTTTG
1 ATCTACTCCACTACTGCTC-AGGGAGATAAGATCTGTAATCTTTA
* * * * * *
39228579 ATCTATTCTACTGCTGCCCAGGGAGAT-AGAATTACTG-GA--TTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAG-A-T-CTGTAATCTTTA
* * * * * ** * **
39228622 ATGTATTCCACTGTAAC--CTCAGGGAGGTAAAATCCGCCATATTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* * * *
39228667 ATCTGCTCCACTAATGCTTAGGGAGATAAGATCTGTAATCTTTG
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
* * * * * * *
39228711 ATCTATTCTACTGCTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTTA
* * * *
39228754 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAAT-TCGTCATCTTTA
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCT-GTAATCTTTA
* * **
39228799 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCG
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
39228843 ATCTACT
1 ATCTACT
39228850 TCAAGCCAAT
Statistics
Matches: 528, Mismatches: 160, Indels: 136
0.64 0.19 0.17
Matches are distributed among these distances:
41 11 0.02
42 17 0.03
43 89 0.17
44 279 0.53
45 116 0.22
46 9 0.02
47 7 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTTA
Found at i:39228876 original size:44 final size:44
Alignment explanation
Indices: 39228826--39229107 Score: 198
Period size: 44 Copynumber: 6.4 Consensus size: 44
39228816 TTAGGGAGAT
39228826 AAGATCTG-TAATCTTCGATCTACTTCAAGCCAATAGATGAAGAC
1 AAGATCTGCT-ATCTTCGATCTACTTCAAGCCAATAGATGAAGAC
* * *
39228870 AAGATCTGCTATCTTCGATCCACTTCATGCCAATATATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAAGCCAATAGATGAAGAC
* * * * * * *
39228914 AGGATCTGCTTTCTTCAATCTACTCCACCA-CCAGTATG-GGGAGAC
1 AAGATCTGCTATCTTCGATCTACTTCA--AGCCAATA-GATGAAGAC
* * * * * *
39228959 AAGATCTGTTGTC-CCTGATCTACTTCACGCTAATACATGAAGAC
1 AAGATCTGCTATCTTC-GATCTACTTCAAGCCAATAGATGAAGAC
* * * * **
39229003 AATATCTGTTTTCTTTGATCTACTTC--GCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAAGCCAATAG-AT--GAAGAC
* * * *
39229048 AAGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTCAAGCCAATAGATGAAGAC
* *
39229092 AGGATCTGCTTTCTTC
1 AAGATCTGCTATCTTC
39229108 CTAGCCTACT
Statistics
Matches: 180, Mismatches: 45, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
42 4 0.02
43 2 0.01
44 110 0.61
45 57 0.32
46 2 0.01
47 5 0.03
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCAAGCCAATAGATGAAGAC
Found at i:39228985 original size:89 final size:89
Alignment explanation
Indices: 39228864--39229107 Score: 301
Period size: 89 Copynumber: 2.7 Consensus size: 89
39228854 GCCAATAGAT
* * * *
39228864 GAAGACAAGATCTGCTATCTTCGATCCACTTCATGCCAATATATGAAGACAGGATCTGCTTTCTT
1 GAAGACAAGACCTGCTATCCTCGATCTACTTCATGCCAATACATGAAGACAGGATCTGCTTTCTT
39228929 CAATCTACTCCACCACCAGTATGG
66 CAATCTACTCCACCACCAGTATGG
* * * * * * ** *
39228953 GGAGACAAGATCTGTTGTCC-CTGATCTACTTCACGCTAATACATGAAGACAATATCTGTTTTCT
1 GAAGACAAGACCTGCTATCCTC-GATCTACTTCATGCCAATACATGAAGACAGGATCTGCTTTCT
** * *
39229017 TTGATCTACTTCGCCACCAGTATGG
65 TCAATCTACTCCACCACCAGTATGG
* *
39229042 GAAGACAAGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGATAGGATCTGCTTTCTT
1 GAAGACAAGACCTGCTATCCTCGATCTACTTCATGCCAATACATGAAGACAGGATCTGCTTTCTT
39229107 C
66 C
39229108 CTAGCCTACT
Statistics
Matches: 126, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
88 1 0.01
89 124 0.98
90 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (89 bp):
GAAGACAAGACCTGCTATCCTCGATCTACTTCATGCCAATACATGAAGACAGGATCTGCTTTCTT
CAATCTACTCCACCACCAGTATGG
Found at i:39231358 original size:19 final size:20
Alignment explanation
Indices: 39231318--39231355 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39231308 GGTTTGGCAT
39231318 AAAAAATCCAAAAGAATGGA
1 AAAAAATCCAAAAGAATGGA
39231338 AAAAAAT-CATAAAGAATG
1 AAAAAATCCA-AAAGAATG
39231356 AAAGAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.66, C:0.08, G:0.13, T:0.13
Consensus pattern (20 bp):
AAAAAATCCAAAAGAATGGA
Found at i:39241202 original size:66 final size:67
Alignment explanation
Indices: 39241089--39241220 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 67
39241079 TTTTAATAGT
* * * *
39241089 TTAATATTTAATTTAATTTAATAGTTATCTAAATAGTATTTTATTAATTTAGTATTAAAGTGATT
1 TTAATATTTAAATTAATTTAATAGTTATCTAAATAATATTATATTAATTTAATATTAAAGTGATT
39241154 AC
66 AC
* **
39241156 TTAATA-TTAAATTAA-TTAATATTTATCTTGATAAATATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTTAAATTAATTTAATAGTTATCTAAAT-AATATTATATTAATTTAATATTAAAGTGAT
39241219 TA
65 TA
39241221 AGTTTAATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
65 14 0.25
66 37 0.65
67 6 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (67 bp):
TTAATATTTAAATTAATTTAATAGTTATCTAAATAATATTATATTAATTTAATATTAAAGTGATT
AC
Found at i:39241208 original size:16 final size:15
Alignment explanation
Indices: 39241151--39241211 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
39241141 TATTAAAGTG
* *
39241151 ATTACTTAATATTAA
1 ATTAATTAATATTAT
39241166 ATTAATTAATATTTAT
1 ATTAATTAATA-TTAT
* * *
39241182 CTTGATAAATATTAT
1 ATTAATTAATATTAT
39241197 ATTAATTTAATATTA
1 ATTAA-TTAATATTA
39241212 AAGTGATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 17 0.47
16 19 0.53
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTAATTAATATTAT
Found at i:39244569 original size:33 final size:33
Alignment explanation
Indices: 39244532--39244594 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
39244522 ATCACTGCCC
*
39244532 CATCCACACCACAACC-CTAGGTGTCTCTCTCAA
1 CATCCACACCACAACCTC-AGGTGTCCCTCTCAA
39244565 CATCCACACCACAACCTCAGGTGTCCCTCT
1 CATCCACACCACAACCTCAGGTGTCCCTCT
39244595 GACTCTCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.25, C:0.44, G:0.10, T:0.21
Consensus pattern (33 bp):
CATCCACACCACAACCTCAGGTGTCCCTCTCAA
Found at i:39246443 original size:16 final size:16
Alignment explanation
Indices: 39246409--39246459 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
39246399 TCTTACATAA
*
39246409 TAAAATAATATTGATAT
1 TAAAATAAT-TTTATAT
39246426 TAAAATAATTTTATAT
1 TAAAATAATTTTATAT
*
39246442 TAAATAACAATTTTATAT
1 T-AA-AATAATTTTATAT
39246460 ATTTATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 7 0.23
17 11 0.37
18 12 0.40
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (16 bp):
TAAAATAATTTTATAT
Found at i:39246448 original size:15 final size:17
Alignment explanation
Indices: 39246409--39246445 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
39246399 TCTTACATAA
39246409 TAAAATAATATTGATAT
1 TAAAATAATATTGATAT
*
39246426 TAAAATAAT-TTTATAT
1 TAAAATAATATTGATAT
39246442 TAAA
1 TAAA
39246446 TAACAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAAATAATATTGATAT
Found at i:39248274 original size:20 final size:19
Alignment explanation
Indices: 39248249--39248293 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
39248239 CGGAAAATAA
39248249 TTTCTGAAAAATGATTTACT
1 TTTCTG-AAAATGATTTACT
*
39248269 TTTCTGGAAATGATTTACT
1 TTTCTGAAAATGATTTACT
39248288 TTTCTG
1 TTTCTG
39248294 GTGTTTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.49
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:39248281 original size:19 final size:19
Alignment explanation
Indices: 39248257--39248294 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39248247 AATTTCTGAA
39248257 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
39248276 AAATGATTTACTTTTCTGG
1 AAATGATTTACTTTTCTGG
39248295 TGTTTTGATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (19 bp):
AAATGATTTACTTTTCTGG
Found at i:39253487 original size:13 final size:13
Alignment explanation
Indices: 39253442--39253489 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
39253432 TTAACAAATC
*
39253442 ACACTTTTTTTATA
1 ACAC-TTTTTAATA
* *
39253456 ACACTTTTTCACA
1 ACACTTTTTAATA
39253469 ACACTTTTTAATA
1 ACACTTTTTAATA
*
39253482 AAACTTTT
1 ACACTTTT
39253490 CTTTCCCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 25 0.86
14 4 0.14
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (13 bp):
ACACTTTTTAATA
Found at i:39255393 original size:35 final size:30
Alignment explanation
Indices: 39255332--39255405 Score: 94
Period size: 35 Copynumber: 2.3 Consensus size: 30
39255322 CAAGGATATA
39255332 TGTAAAATATATATATGTATGTATATAAAT
1 TGTAAAATATATATATGTATGTATATAAAT
39255362 TGTAAAATATATAAATGATGTATGTGTATATAAAT
1 TGTAAAATATAT--AT-ATGTA--TGTATATAAAT
*
39255397 TATAAAATA
1 TGTAAAATA
39255406 AAAATATATA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 12 0.32
32 2 0.05
33 5 0.13
35 19 0.50
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (30 bp):
TGTAAAATATATATATGTATGTATATAAAT
Found at i:39256010 original size:3 final size:3
Alignment explanation
Indices: 39256004--39256070 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
39255994 GTACATGATG
* ** *
39256004 ATA ATA ATA ATA CGATG ATA ATA ATA GCA AT- ATA AAA ATA ATA ATA
1 ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
39256050 ATA GTA ATA ATA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
39256071 TTACCAAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
5 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:39270612 original size:31 final size:32
Alignment explanation
Indices: 39270547--39270613 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 32
39270537 CATTTACAAT
39270547 AATGTTTGTAAGCTATTTGAGATCAACTAGAAGAA
1 AATGTTTGTAAGCTATTTGAGAT--A-TAGAAGAA
39270582 AATGTTTGTAAGCTATTTGAGAT-TAGAAGAA
1 AATGTTTGTAAGCTATTTGAGATATAGAAGAA
39270613 A
1 A
39270614 CTCGAATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 9 0.28
35 23 0.72
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.33
Consensus pattern (32 bp):
AATGTTTGTAAGCTATTTGAGATATAGAAGAA
Found at i:39273773 original size:32 final size:31
Alignment explanation
Indices: 39273718--39273777 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
39273708 GTTTATAAAA
39273718 TTAAGATTTAGGATTTTTTATTTTTAGGTGG
1 TTAAGATTTAGGATTTTTTATTTTTAGGTGG
*
39273749 TTAAG-TTTAGGGTTTTATTTATTTTTAGG
1 TTAAGATTTA-GGATTT-TTTATTTTTAGG
39273778 GTTTAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 4 0.15
31 10 0.38
32 12 0.46
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (31 bp):
TTAAGATTTAGGATTTTTTATTTTTAGGTGG
Found at i:39275442 original size:21 final size:21
Alignment explanation
Indices: 39275417--39275469 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
39275407 ATTTTTTATG
*
39275417 GGCCCGACCCAAACCTGGCCC
1 GGCCCGGCCCAAACCTGGCCC
*
39275438 GGCCCGGCCCGAACCTGGCCC
1 GGCCCGGCCCAAACCTGGCCC
39275459 GGCCCGGCCCA
1 GGCCCGGCCCA
39275470 TGAACATCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.13, C:0.53, G:0.30, T:0.04
Consensus pattern (21 bp):
GGCCCGGCCCAAACCTGGCCC
Found at i:39277994 original size:43 final size:43
Alignment explanation
Indices: 39277933--39278031 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
39277923 ATTTAGCAAA
*
39277933 AAACGCCGCTATAGAACATGGCCTTTAGCGACGC-TTTACCCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTA-CCAC
* *
39277976 AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTACCAC
39278019 AAACGCCGCTAAA
1 AAACGCCGCTAAA
39278032 AGTACCGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGCCTTTAGCGACGCTTTTACCAC
Found at i:39280170 original size:107 final size:105
Alignment explanation
Indices: 39280059--39280472 Score: 482
Period size: 107 Copynumber: 3.9 Consensus size: 105
39280049 CGAGAAAAGT
* * *
39280059 AAAAAAAAAAATTT-GTAGTGGCCTGGCAATGGCCGGCACCACCTTTTTGAATTTTTTTTTATTT
1 AAAAAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACC-TTTTAAATTTTTTTTTACTT
39280123 TTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
65 TTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
*** ** ** *
39280164 AAAAAAAATTTTTTTGGTGGTGGCCTAACAATGGTTGGCACCACCTTTTAAATTTTTTTTTAAAT
1 AAAAAAAA-AAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAATTTTTTTTT-ACT
*
39280229 TTTTTCGTGTCAGATAAGATATCAATATACGAAAAAAGT---
64 TTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
39280268 ---AAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAAAAACATTTTTTTT
1 AAAAAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTT-----AA-ATTTTTTTT
* * *
39280330 TACTTTTTTCTTGTCAGATAAGCTATCAGTATACGAAAAGAGTAAA
60 TACTTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
*** * *
39280376 AAAAAAAATTTTTTGGTGGTGGCCTGGTAATGGCCGGCACCACCTTTTAATTTTTTTTTTTTACT
1 AAAAAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAA--ATTTTTTTTTACT
* *
39280441 TTTTTCATGTCAGATAAGCTATCAGTATACGA
64 TTTTTCGTGTCAGATAAGATATCAGTATACGA
39280473 GCATGCGCAC
Statistics
Matches: 263, Mismatches: 30, Indels: 30
0.81 0.09 0.09
Matches are distributed among these distances:
100 33 0.13
101 5 0.02
105 47 0.18
106 30 0.11
107 107 0.41
111 41 0.16
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (105 bp):
AAAAAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAATTTTTTTTTACTTT
TTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAA
Found at i:39280231 original size:11 final size:12
Alignment explanation
Indices: 39280209--39280233 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39280199 TGGCACCACC
39280209 TTTTAAATTTTT
1 TTTTAAATTTTT
39280221 TTTTAAATTTTT
1 TTTTAAATTTTT
39280233 T
1 T
39280234 CGTGTCAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTAAATTTTT
Found at i:39280360 original size:212 final size:206
Alignment explanation
Indices: 39280062--39280472 Score: 590
Period size: 212 Copynumber: 2.0 Consensus size: 206
39280052 GAAAAGTAAA
** *
39280062 AAAAAAAATTTGTAGTGGCCTGGCAATGGCCGGCACCACCTTTTTGAATTTTTTTTTATTTTTTT
1 AAAAAAAATTTGTAGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAATTTTTTTTTACTTTTTT
39280127 CGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTTTTGGTGGTGGCCTAA
66 CGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAAAAAAAA-TTTTTTGGTGGTGGCCTAA
** *
39280192 CAATGGTTGGCACCACCTTTTAA-ATTTTTTTTTAAATTTTTTCGTGTCAGATAAGATATCAATA
130 CAATGGCCGGCACCACCTTTTAATATTTTTTTTTAAATTTTTTCATGTCAGATAAGATATCAATA
39280256 TACGAAAAAAGT
195 TACGAAAAAAGT
*
39280268 AAAAAAAATTTGGTGGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAAAAACATTTTTTTTTAC
1 AAAAAAAATTT-GTAGTGGCCTGGCAATGGCCGGCACCACCTTTT----AAA-ATTTTTTTTTAC
* * *
39280333 TTTTTTCTTGTCAGATAAGCTATCAGTATACGAAAAGAGTAAAAAAAAAAATTTTTTGGTGGTGG
60 TTTTTTCGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTTTGGTGGTGG
*** * * * *
39280398 CCTGGTAATGGCCGGCACCACCTTTTAATTTTTTTTTTTTACTTTTTTCATGTCAGATAAGCTAT
125 CCTAACAATGGCCGGCACCACCTTTTAATATTTTTTTTTAAATTTTTTCATGTCAGATAAGATAT
*
39280463 CAGTATACGA
190 CAATATACGA
39280473 GCATGCGCAC
Statistics
Matches: 180, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
206 11 0.06
207 32 0.18
211 38 0.21
212 99 0.55
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (206 bp):
AAAAAAAATTTGTAGTGGCCTGGCAATGGCCGGCACCACCTTTTAAAATTTTTTTTTACTTTTTT
CGTGTCAGATAAGATATCAGTATACGAAAAAAGTAAAAAAAAAAATTTTTTGGTGGTGGCCTAAC
AATGGCCGGCACCACCTTTTAATATTTTTTTTTAAATTTTTTCATGTCAGATAAGATATCAATAT
ACGAAAAAAGT
Found at i:39281257 original size:103 final size:103
Alignment explanation
Indices: 39281049--39281357 Score: 410
Period size: 102 Copynumber: 3.0 Consensus size: 103
39281039 TACTTTTTCC
*
39281049 GATAGCTTATCTGACACGAAAAAAGT---AATTTTTTTTTAAAAAAAGGTGGTGCCGGCCATTGC
1 GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTTT---AAAAGGTGGTGCCGGCCATTGC
* * *
39281111 CATGCCACCAC-CAATTTTTTTTTTACTTTTTTTGTATACT
63 CAGGCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
* *
39281151 GATATCTTATTTGACACGAAAAAAGTAAAAATTTTTTTTTAAAAGGTGGTGCCGGCCATTGCTAG
1 GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTTTAAAAGGTGGTGCCGGCCATTGCCAG
*
39281216 GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATATT
66 GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
* ** * *
39281254 GATATCTTATCTGACACGAAAAAAGTAAAAAAATTTTTTAAAAAAAGTGGTGCCGACCATTGCCA
1 GATATCTTATCTGACACGAAAAAAGT-AAAAATTTTTTTTTAAAAGGTGGTGCCGGCCATTGCCA
39281319 GGCCACCACAAAATATTTTTTTTTTTACTTTTTCTCGTA
65 GGCCACCAC-AAA-A-TTTTTTTTTTACTTTTT-TCGTA
39281358 CTCTGGTACC
Statistics
Matches: 184, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
102 55 0.30
103 51 0.28
104 41 0.22
105 14 0.08
106 1 0.01
107 17 0.09
108 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (103 bp):
GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTTTAAAAGGTGGTGCCGGCCATTGCCAG
GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
Found at i:39281314 original size:104 final size:103
Alignment explanation
Indices: 39281049--39281357 Score: 424
Period size: 103 Copynumber: 3.0 Consensus size: 103
39281039 TACTTTTTCC
* **
39281049 GATAGCTTATCTGACACGAAAAAAGT-AATTTTTTTTTAAAAAAAGGTGGTGCCGGCCATTGCCA
1 GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTAAAAAAA-GTGGTGCCGGCCATTGCCA
* * *
39281113 TGCCACCAC-CAATTTTTTTTTTACTTTTTTTGTATACT
65 GGCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
* ** * *
39281151 GATATCTTATTTGACACGAAAAAAGTAAAAATTTTTTTTTAAAAGGTGGTGCCGGCCATTGCTAG
1 GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTAAAAAAAGTGGTGCCGGCCATTGCCAG
*
39281216 GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATATT
66 GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
* *
39281254 GATATCTTATCTGACACGAAAAAAGTAAAAAAATTTTTTAAAAAAAGTGGTGCCGACCATTGCCA
1 GATATCTTATCTGACACGAAAAAAGT-AAAAATTTTTTTAAAAAAAGTGGTGCCGGCCATTGCCA
39281319 GGCCACCACAAAATATTTTTTTTTTTACTTTTTCTCGTA
65 GGCCACCAC-AAA-A-TTTTTTTTTTACTTTTT-TCGTA
39281358 CTCTGGTACC
Statistics
Matches: 181, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
102 50 0.28
103 64 0.35
104 41 0.23
105 3 0.02
106 1 0.01
107 17 0.09
108 5 0.03
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (103 bp):
GATATCTTATCTGACACGAAAAAAGTAAAAATTTTTTTAAAAAAAGTGGTGCCGGCCATTGCCAG
GCCACCACAAAATTTTTTTTTTACTTTTTTCGTATACT
Found at i:39286184 original size:21 final size:21
Alignment explanation
Indices: 39286152--39286249 Score: 67
Period size: 21 Copynumber: 4.6 Consensus size: 21
39286142 AACCTTAAAT
*
39286152 CCCT-AACTCTTAACCCCTAAC
1 CCCTAAAC-CTTAATCCCTAAC
39286173 CCCTAAACCTTACATCCC-AAC
1 CCCTAAACCTTA-ATCCCTAAC
* * *
39286194 CCTTAAACCATAATCCCTAAT
1 CCCTAAACCTTAATCCCTAAC
* * * *
39286215 CCATAATCTCTAAATCCAT-AC
1 CCCTAAAC-CTTAATCCCTAAC
39286236 TCCCTAAACCTTAA
1 -CCCTAAACCTTAA
39286250 AATATGAACT
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.08
21 34 0.58
22 20 0.34
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.26
Consensus pattern (21 bp):
CCCTAAACCTTAATCCCTAAC
Found at i:39286230 original size:15 final size:15
Alignment explanation
Indices: 39286197--39286243 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
39286187 TCCCAACCCT
39286197 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
39286211 T-AATCCATAATCTC
1 TAAATCCATAATCCC
*
39286225 TAAATCCATACTCCC
1 TAAATCCATAATCCC
39286240 TAAA
1 TAAA
39286244 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:39286947 original size:41 final size:41
Alignment explanation
Indices: 39286886--39287062 Score: 228
Period size: 41 Copynumber: 4.3 Consensus size: 41
39286876 TAAAATATTT
* * *
39286886 TTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
39286927 TTAGCGGCGCTTTTTAAAAAATGCCGCTAAAACACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
39286968 TTAGCAGCGCCTTTTCAAAAACGCCGCGAAAACCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * *
39287009 TTAGCGACGCATTTTCAAAAACACCGCTAAAGCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
*
39287050 TTAGCGGTGCTTT
1 TTAGCGGCGCTTT
39287063 CTTGAAATCG
Statistics
Matches: 115, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:39289690 original size:25 final size:24
Alignment explanation
Indices: 39289644--39289691 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
39289634 AGTTGTAAAT
39289644 TAGAAAATATCTCTAGAAAATTTC
1 TAGAAAATATCTCTAGAAAATTTC
* * *
39289668 TAGAATAATCTCTTTAGAGAATTT
1 TAGAA-AATATCTCTAGAAAATTT
39289692 TCTCTCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (24 bp):
TAGAAAATATCTCTAGAAAATTTC
Found at i:39289960 original size:37 final size:35
Alignment explanation
Indices: 39289903--39289973 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
39289893 TCACATCAAT
*
39289903 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
39289939 ATTAAATTTAATATTAA-ACTATTAAAATAATATTA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTA
39289974 TTTTTAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 11 0.35
37 18 0.58
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:39294137 original size:35 final size:33
Alignment explanation
Indices: 39294102--39294166 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
39294092 AACTTATACA
*
39294102 AAATT-TAAGTATTTTTTCGTTTTTCGAAATTTAC
1 AAATTCTAAATATTTTTT-GTTTTTC-AAATTTAC
*
39294136 AATTTCTAAATATTTTTTGTTTTTCAAATTT
1 AAATTCTAAATATTTTTTGTTTTTCAAATTT
39294167 TAAACATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 11 0.39
35 11 0.39
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (33 bp):
AAATTCTAAATATTTTTTGTTTTTCAAATTTAC
Found at i:39296653 original size:21 final size:23
Alignment explanation
Indices: 39296604--39296654 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
39296594 GGGTCTACAC
*
39296604 GCCCATGTGAAGGCCACATACGT
1 GCCCGTGTGAAGGCCACATACGT
*
39296627 --CTGTGTGAAGG-C-CATACGT
1 GCCCGTGTGAAGGCCACATACGT
39296646 GCCCGTGTG
1 GCCCGTGTG
39296655 GAGGGGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.20, C:0.27, G:0.31, T:0.22
Consensus pattern (23 bp):
GCCCGTGTGAAGGCCACATACGT
Found at i:39297978 original size:24 final size:24
Alignment explanation
Indices: 39297946--39297993 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39297936 CGAAACTTCA
39297946 AGGGTTTCTTCACTTTCTCAAGCT
1 AGGGTTTCTTCACTTTCTCAAGCT
39297970 AGGGTTTCTTCACTTTCTCAAGCT
1 AGGGTTTCTTCACTTTCTCAAGCT
39297994 CATAGTAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (24 bp):
AGGGTTTCTTCACTTTCTCAAGCT
Found at i:39298926 original size:20 final size:20
Alignment explanation
Indices: 39298901--39298949 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
39298891 TGAGTTATTT
39298901 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
39298921 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
39298941 AAG-AAGCAA
1 AAGTAAGCAA
39298950 AGACAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:39308294 original size:29 final size:28
Alignment explanation
Indices: 39308245--39308300 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
39308235 TGTATGTACA
* *
39308245 TAATAAAAAAGTGAGTCATTTTTATAAT
1 TAATAAAAAAGTGAATAATTTTTATAAT
*
39308273 TAATAAAAAATTTGAATAATTTTTATAA
1 TAATAAAAAA-GTGAATAATTTTTATAA
39308301 AAAAACTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (28 bp):
TAATAAAAAAGTGAATAATTTTTATAAT
Found at i:39310844 original size:31 final size:30
Alignment explanation
Indices: 39310809--39310868 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39310799 GGAGGTGGGA
*
39310809 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
39310840 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
39310869 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:39311097 original size:9 final size:9
Alignment explanation
Indices: 39311083--39311119 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
39311073 TATAGTTTGA
39311083 TATTCGAAT
1 TATTCGAAT
39311092 TATTCGAAT
1 TATTCGAAT
*
39311101 TATTCGAGT
1 TATTCGAAT
39311110 TATTCGAAT
1 TATTCGAAT
39311119 T
1 T
39311120 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39311190 original size:9 final size:9
Alignment explanation
Indices: 39311173--39311203 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39311163 TCGAGTTGAT
39311173 TCGAATAAC
1 TCGAATAAC
*
39311182 TCGATTAAC
1 TCGAATAAC
39311191 TCGAATAAC
1 TCGAATAAC
39311200 TCGA
1 TCGA
39311204 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:39329757 original size:3 final size:3
Alignment explanation
Indices: 39329749--39329810 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
39329739 ACCTTGAATA
39329749 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
39329797 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
39329811 GAGAACATCA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:39330903 original size:85 final size:85
Alignment explanation
Indices: 39330750--39330908 Score: 257
Period size: 85 Copynumber: 1.9 Consensus size: 85
39330740 ATCCATGCCG
* * *
39330750 AAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACAGCAAAAAGAGAAAGACGGTA
1 AAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAAACGGCA
39330815 TCACAAAATTGGATATGCTA
66 TCACAAAATTGGATATGCTA
*
39330835 AAGAACTTTGCATACCTTAAATACAAGGCTAATAGAGACCCCAACACCAAAAAG-GAAAAATGGC
1 AAGAACTTTGCATACCTTAAATACAAGGCTAATA-AGACCCCAACACCAAAAAGAGAAAAACGGC
*
39330899 ATCACGAAAT
65 ATCACAAAAT
39330909 CAGCTATGGT
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
85 50 0.74
86 18 0.26
ACGTcount: A:0.47, C:0.20, G:0.16, T:0.18
Consensus pattern (85 bp):
AAGAACTTTGCATACCTTAAATACAAGGCTAATAAGACCCCAACACCAAAAAGAGAAAAACGGCA
TCACAAAATTGGATATGCTA
Found at i:39331164 original size:7 final size:7
Alignment explanation
Indices: 39331152--39331235 Score: 114
Period size: 7 Copynumber: 11.6 Consensus size: 7
39331142 GCTCCCCTAA
39331152 TTAGGGT
1 TTAGGGT
39331159 TTAGGGT
1 TTAGGGT
39331166 TTAGGGT
1 TTAGGGT
39331173 TTAGGGTT
1 TTAGGG-T
39331181 TTAGGGT
1 TTAGGGT
39331188 TTAGGGTT
1 TTAGGG-T
39331196 TTAGGGT
1 TTAGGGT
*
39331203 TTAGGAT
1 TTAGGGT
*
39331210 TTAGGAT
1 TTAGGGT
*
39331217 TTAAGGTT
1 TT-AGGGT
39331225 TTAGGGT
1 TTAGGGT
39331232 TTAG
1 TTAG
39331236 TAATACTCCG
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
7 51 0.72
8 20 0.28
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (7 bp):
TTAGGGT
Found at i:39331185 original size:15 final size:15
Alignment explanation
Indices: 39331152--39331235 Score: 127
Period size: 15 Copynumber: 5.7 Consensus size: 15
39331142 GCTCCCCTAA
39331152 TTAGGGTTTAGGG-T
1 TTAGGGTTTAGGGTT
39331166 TTAGGGTTTAGGGTT
1 TTAGGGTTTAGGGTT
39331181 TTAGGGTTTAGGGTT
1 TTAGGGTTTAGGGTT
*
39331196 TTAGGGTTTA-GGAT
1 TTAGGGTTTAGGGTT
* *
39331210 TTAGGATTTAAGGTT
1 TTAGGGTTTAGGGTT
39331225 TTAGGGTTTAG
1 TTAGGGTTTAG
39331236 TAATACTCCG
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
14 25 0.40
15 38 0.60
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (15 bp):
TTAGGGTTTAGGGTT
Found at i:39331186 original size:22 final size:21
Alignment explanation
Indices: 39331152--39331235 Score: 114
Period size: 22 Copynumber: 3.9 Consensus size: 21
39331142 GCTCCCCTAA
39331152 TTAGGGTTTAGGGTTTAGGGT
1 TTAGGGTTTAGGGTTTAGGGT
39331173 TTAGGGTTTTAGGGTTTAGGGTT
1 TTAGGG-TTTAGGGTTTAGGG-T
* *
39331196 TTAGGGTTTAGGATTTAGGAT
1 TTAGGGTTTAGGGTTTAGGGT
*
39331217 TTAAGGTTTTAGGGTTTAG
1 TT-AGGGTTTAGGGTTTAG
39331236 TAATACTCCG
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.16
22 40 0.71
23 7 0.12
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (21 bp):
TTAGGGTTTAGGGTTTAGGGT
Found at i:39331194 original size:29 final size:29
Alignment explanation
Indices: 39331152--39331235 Score: 116
Period size: 29 Copynumber: 2.9 Consensus size: 29
39331142 GCTCCCCTAA
*
39331152 TTAGGGTTTAGGGTTTAGGGTTTAGGGTT
1 TTAGGGTTTAGGGTTTAGGGTTTAGGGAT
39331181 TTAGGGTTTAGGGTTTTAGGGTTTA-GGAT
1 TTAGGGTTTAGGG-TTTAGGGTTTAGGGAT
* *
39331210 TTAGGATTTAAGGTTTTAGGGTTTAG
1 TTAGGGTTT-AGGGTTTAGGGTTTAG
39331236 TAATACTCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 35 0.71
30 14 0.29
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (29 bp):
TTAGGGTTTAGGGTTTAGGGTTTAGGGAT
Found at i:39334440 original size:38 final size:39
Alignment explanation
Indices: 39334398--39334505 Score: 166
Period size: 39 Copynumber: 2.8 Consensus size: 39
39334388 AAAAATTATA
*
39334398 TTTAATACAATAAAA-AATTATTATATTTA-TTTGTGTTT
1 TTTAATACAATAAAACATTTATTATATTTATTTTG-GTTT
39334436 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
* *
39334475 TTTAATATAATAAAATATTTATTATATTTAT
1 TTTAATACAATAAAACATTTATTATATTTAT
39334506 GGTAATTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
38 15 0.23
39 46 0.71
40 4 0.06
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.54
Consensus pattern (39 bp):
TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
Found at i:39334523 original size:39 final size:37
Alignment explanation
Indices: 39334398--39334520 Score: 156
Period size: 39 Copynumber: 3.2 Consensus size: 37
39334388 AAAAATTATA
*
39334398 TTTAATACAATAAAAAATTATTATATTTATTTGTGTTT
1 TTTAATACAATAAAAATTTATTATATTTA-TTGTGTTT
*
39334436 TTTAATACAATAAAACATTTATTATATTTATTTTGGTTT
1 TTTAATACAATAAAA-ATTTATTATATTTATTGT-GTTT
* * *
39334475 TTTAATATAATAAAATATTTATTATATTTATGGTAATTT
1 TTTAATACAATAAAA-ATTTATTATATTTATTGT-GTTT
39334514 TTTAATA
1 TTTAATA
39334521 TAAATACTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
38 18 0.24
39 57 0.76
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (37 bp):
TTTAATACAATAAAAATTTATTATATTTATTGTGTTT
Found at i:39338404 original size:2 final size:2
Alignment explanation
Indices: 39338397--39338421 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39338387 ATATTTGATT
39338397 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
39338422 TAAAAAACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39343441 original size:31 final size:31
Alignment explanation
Indices: 39343377--39343443 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
39343367 AACATCCCAA
* *
39343377 TGACTTAAATAAAAACTTTTGAATAGTTGAG
1 TGACTTAAATAAAAACTTTAGAATAATTGAG
* * *
39343408 TGACTTAAATGAAAACTTTAGCATAATTTAG
1 TGACTTAAATAAAAACTTTAGAATAATTGAG
39343439 TGACT
1 TGACT
39343444 ATTTTGTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTAGAATAATTGAG
Found at i:39345590 original size:21 final size:20
Alignment explanation
Indices: 39345566--39345605 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
39345556 CTCAATCTCT
* *
39345566 TTTTTTTTTTTTTGGTTTTAA
1 TTTTGTTTTTATT-GTTTTAA
39345587 TTTTGTTTTTATTGTTTTA
1 TTTTGTTTTTATTGTTTTA
39345606 TCCTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (20 bp):
TTTTGTTTTTATTGTTTTAA
Found at i:39347407 original size:22 final size:22
Alignment explanation
Indices: 39347382--39347428 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
39347372 AAGTAAAAGA
39347382 TTTTAGTTTTCAATTGTAGCAT
1 TTTTAGTTTTCAATTGTAGCAT
39347404 TTTTAGTTTTCAATTGTAGCAT
1 TTTTAGTTTTCAATTGTAGCAT
39347426 TTT
1 TTT
39347429 CATCCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (22 bp):
TTTTAGTTTTCAATTGTAGCAT
Found at i:39352791 original size:15 final size:15
Alignment explanation
Indices: 39352773--39352801 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39352763 AGATTTTATC
39352773 TTTTTTT-TTTTTTG
1 TTTTTTTGTTTTTTG
39352787 TTTTTTTGTTTTTTG
1 TTTTTTTGTTTTTTG
39352802 CTTTGTGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTTTTGTTTTTTG
Found at i:39360780 original size:24 final size:23
Alignment explanation
Indices: 39360748--39360795 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
39360738 CCAGTAAAAT
*
39360748 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAG-AAAAATAAC
39360772 AACAAAAACAACAGAAAAATAAC
1 AACAAAAACAACAGAAAAATAAC
39360795 A
1 A
39360796 GCACCAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.73, C:0.17, G:0.04, T:0.06
Consensus pattern (23 bp):
AACAAAAACAACAGAAAAATAAC
Found at i:39361463 original size:14 final size:11
Alignment explanation
Indices: 39361427--39361453 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39361417 CTCAACACCA
39361427 AAATTGAGAGG
1 AAATTGAGAGG
39361438 AAATTGAGAGG
1 AAATTGAGAGG
39361449 AAATT
1 AAATT
39361454 TGAAAGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.22
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:39364160 original size:68 final size:68
Alignment explanation
Indices: 39364042--39364175 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
39364032 TATTGAAGTA
* * * ** ** * *
39364042 AATTAGTGCCAACACACATCATAACAGGTATTATATCAATGATTTTAACTCAGACAATTTTTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
39364107 AAT
66 AAT
*
39364110 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAATAATTTCTAAA
1 AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
39364175 A
66 A
39364176 GAAAATAACC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (68 bp):
AATTACTGCCAACACACAGCACAACACCTATTATATCAATGATTCAAACTCAAACAATTTCTAAA
AAT
Found at i:39364799 original size:22 final size:23
Alignment explanation
Indices: 39364737--39364808 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 23
39364727 AATGATTATG
39364737 AATTATAAAAATATATTTATATTAA
1 AATTA-AAAAATATATTTATATT-A
**
39364762 AACGTTAAAAGTTATATTTATATT-
1 AA--TTAAAAAATATATTTATATTA
* *
39364786 GATTAAAAAATATATTGATATTA
1 AATTAAAAAATATATTTATATTA
39364809 GCCGTTTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
22 17 0.45
24 1 0.03
25 2 0.05
26 15 0.39
27 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (23 bp):
AATTAAAAAATATATTTATATTA
Found at i:39375858 original size:21 final size:21
Alignment explanation
Indices: 39375834--39375876 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
39375824 TTTAGTCATT
39375834 TAATT-TTAAAAAATTATAAAA
1 TAATTATTAAAAAATT-TAAAA
39375855 TAATTATTAAAAAATTTAAAA
1 TAATTATTAAAAAATTTAAAA
39375876 T
1 T
39375877 TTTTCATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATTATTAAAAAATTTAAAA
Found at i:39379837 original size:14 final size:14
Alignment explanation
Indices: 39379818--39379857 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
39379808 TTGATTACCA
39379818 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
39379832 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
39379846 GGAAAATGTTTT
1 GTAAAATGTTTT
39379858 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:39379866 original size:20 final size:20
Alignment explanation
Indices: 39379841--39379880 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39379831 CGTAAAATGA
*
39379841 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
* *
39379861 TTTCTGTAAATTGATTTACT
1 TTTCTGGAAAATGATTTACT
39379881 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:39379870 original size:34 final size:35
Alignment explanation
Indices: 39379826--39379892 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
39379816 CAGTAAAATG
*
39379826 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
39379860 TTTTCTGTAAATTGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
39379893 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:39382318 original size:14 final size:14
Alignment explanation
Indices: 39382296--39382325 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39382286 ACACCGAAAA
39382296 TTTCAGAAAATATT
1 TTTCAGAAAATATT
*
39382310 TTTCGGAAAATATT
1 TTTCAGAAAATATT
39382324 TT
1 TT
39382326 ACACCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (14 bp):
TTTCAGAAAATATT
Found at i:39382937 original size:22 final size:23
Alignment explanation
Indices: 39382907--39382949 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
39382897 GGAATCCCTG
* *
39382907 CGATTAACTTTT-TTGAAAGAGT
1 CGATCAACTTTTGATGAAAGAGT
39382929 CGATCAACTTTTGATGAAAGA
1 CGATCAACTTTTGATGAAAGA
39382950 CATGGTGACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (23 bp):
CGATCAACTTTTGATGAAAGAGT
Found at i:39388331 original size:21 final size:21
Alignment explanation
Indices: 39388284--39388331 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
39388274 CATATACTAT
*
39388284 TATTTTAAATTATTATTGACA
1 TATTTTAAATTATCATTGACA
* *
39388305 TGTTTTAAATTTATCATT-ATA
1 TATTTTAAA-TTATCATTGACA
39388326 TATTTT
1 TATTTT
39388332 TATCTTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTTTAAATTATCATTGACA
Found at i:39403634 original size:11 final size:11
Alignment explanation
Indices: 39403618--39403655 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
39403608 ATATTTCTTG
39403618 AATTTTAACAA
1 AATTTTAACAA
39403629 AATTTTCAAC-A
1 AATTTT-AACAA
39403640 AATTTTAACAA
1 AATTTTAACAA
39403651 AATTT
1 AATTT
39403656 CTCTCGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (11 bp):
AATTTTAACAA
Done.