Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 119 of 226
Found at i:40439293 original size:10 final size:9
Alignment explanation
Indices: 40439283--40439321 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
40439273 TTCTTTATTC
40439283 TTTTCTTTT
1 TTTTCTTTT
*
40439292 CTTTCTTTT
1 TTTTCTTTT
*
40439301 TTTCCCTTTT
1 TTT-TCTTTT
40439311 TTTTCTTTT
1 TTTTCTTTT
40439320 TT
1 TT
40439322 AATGGAAACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:40439303 original size:17 final size:18
Alignment explanation
Indices: 40439273--40439321 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
40439263 ATATTTATTC
* *
40439273 TTCTTTATTCTTTT-CTT
1 TTCTTTCTTTTTTTCCTT
40439290 TTCTTTCTTTTTTTCCCTT
1 TTCTTTCTTTTTTT-CCTT
*
40439309 TTTTTTCTTTTTT
1 TTCTTTCTTTTTT
40439322 AATGGAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 12 0.44
19 15 0.56
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTCTTTCTTTTTTTCCTT
Found at i:40464597 original size:5 final size:6
Alignment explanation
Indices: 40464569--40464623 Score: 65
Period size: 6 Copynumber: 8.5 Consensus size: 6
40464559 AAAAATCACG
*
40464569 AAAAAT AAACAAG AAAAAT AAAAAT AAAAAT AAAAAT ATTAAATAT AAAAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT A--AAA-AT AAAAAT
40464621 AAA
1 AAA
40464624 CAAAAACTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 29 0.67
7 8 0.19
8 3 0.07
9 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:40472278 original size:20 final size:22
Alignment explanation
Indices: 40472253--40472301 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
40472243 TTTCTTTCAC
*
40472253 TTTATCTACA-ATTT-TAGTGG
1 TTTATCTACATATTTCTAGTAG
* *
40472273 TTTATCCACATATTTCTGGTAG
1 TTTATCTACATATTTCTAGTAG
40472295 TTTATCT
1 TTTATCT
40472302 GCAAATACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.39
21 4 0.17
22 10 0.43
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTATCTACATATTTCTAGTAG
Found at i:40472298 original size:22 final size:21
Alignment explanation
Indices: 40472201--40472300 Score: 62
Period size: 20 Copynumber: 4.8 Consensus size: 21
40472191 AAGGAGAAAG
***
40472201 ATTTTGGTAGTTTATCTGTA-
1 ATTTTGGTAGTTTATCCACAT
* *
40472221 ATTTTGGTGGTTTATCCATAT
1 ATTTTGGTAGTTTATCCACAT
* * *
40472242 ATTTCT-TTCACTTTATCTACA-
1 ATTT-TGGT-AGTTTATCCACAT
* *
40472263 ATTTTAGTGGTTTATCCACAT
1 ATTTTGGTAGTTTATCCACAT
40472284 ATTTCTGGTAGTTTATC
1 ATTT-TGGTAGTTTATC
40472301 TGCAAATACT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 27 0.45
21 14 0.23
22 19 0.32
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (21 bp):
ATTTTGGTAGTTTATCCACAT
Found at i:40472299 original size:42 final size:42
Alignment explanation
Indices: 40472201--40472301 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 42
40472191 AAGGAGAAAG
** * *
40472201 ATTT-TGGTAGTTTATCTGTAATTTTGGTGGTTTATCCATAT
1 ATTTCTGGTAGTTTATCTACAATTTTAGTGGTTTATCCACAT
* *
40472242 ATTTCT-TTCACTTTATCTACAATTTTAGTGGTTTATCCACAT
1 ATTTCTGGT-AGTTTATCTACAATTTTAGTGGTTTATCCACAT
40472284 ATTTCTGGTAGTTTATCT
1 ATTTCTGGTAGTTTATCT
40472302 GCAAATACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
41 5 0.10
42 43 0.88
43 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.52
Consensus pattern (42 bp):
ATTTCTGGTAGTTTATCTACAATTTTAGTGGTTTATCCACAT
Found at i:40474006 original size:42 final size:43
Alignment explanation
Indices: 40473928--40474015 Score: 133
Period size: 42 Copynumber: 2.0 Consensus size: 43
40473918 GTAAATTCTT
* *
40473928 AAAACTTATTTTAAAGCAAAAAAAATCGCTATTACAATATAGTG
1 AAAACTTATTTTAAAG-AAAAAAAATCACTATTACAAGATAGTG
*
40473972 AAAACTTATTTTAAAG-TAAAAAATCACTATTACAAGATAGTG
1 AAAACTTATTTTAAAGAAAAAAAATCACTATTACAAGATAGTG
40474014 AA
1 AA
40474016 TAAGTATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 25 0.61
44 16 0.39
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (43 bp):
AAAACTTATTTTAAAGAAAAAAAATCACTATTACAAGATAGTG
Found at i:40481819 original size:46 final size:46
Alignment explanation
Indices: 40481767--40481861 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
40481757 ACAAAGATAG
40481767 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
40481813 AAACCAAAATATTATCTCCTAAACTTTATCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
40481859 AAA
1 AAA
40481862 AGAAAAGAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:40489782 original size:17 final size:17
Alignment explanation
Indices: 40489762--40489795 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
40489752 GATGACAAAT
40489762 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
40489779 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
40489796 AGATGTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
TGTTGTCATTGACATAG
Found at i:40489802 original size:17 final size:17
Alignment explanation
Indices: 40489765--40489803 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
40489755 GACAAATTGT
* *
40489765 TGTCATTGACATAGTGT
1 TGTCATTGACATAGAGA
40489782 TGTCATTGACATAGAGA
1 TGTCATTGACATAGAGA
40489799 TGTCA
1 TGTCA
40489804 AAATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (17 bp):
TGTCATTGACATAGAGA
Found at i:40499722 original size:20 final size:20
Alignment explanation
Indices: 40499699--40499739 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
40499689 TCCAATAAGA
*
40499699 TCATTTGAGCTCAATTCAGC
1 TCATTCGAGCTCAATTCAGC
*
40499719 TCATTCGAGCTCAATTTAGC
1 TCATTCGAGCTCAATTCAGC
40499739 T
1 T
40499740 TTCTATCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (20 bp):
TCATTCGAGCTCAATTCAGC
Found at i:40504960 original size:98 final size:98
Alignment explanation
Indices: 40504786--40504982 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
40504776 GTACAATAAA
*
40504786 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
40504851 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
40504884 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
40504949 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
40504982 A
1 A
40504983 TTATTTTTTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:40506527 original size:19 final size:19
Alignment explanation
Indices: 40506503--40506615 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
40506493 AATCATATAT
40506503 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
40506522 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
40506541 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
40506560 TCTAAGAATGCATATATCATA
1 TCTAAGATTGC--ATATCATA
**
40506581 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
40506600 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
40506616 CTCAAAAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
19 68 0.81
21 16 0.19
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:40506590 original size:40 final size:40
Alignment explanation
Indices: 40506503--40506614 Score: 165
Period size: 40 Copynumber: 2.9 Consensus size: 40
40506493 AATCATATAT
* *
40506503 TCTAAGATTGCATATCATATCTAAG-AT-TACATATCATA
1 TCTAAGATTGCATATCATATCTAAGAATGCATATATCATA
40506541 TCTAAGATTGCATATCATATCTAAGAATGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGAATGCATATATCATA
** *
40506581 TCTTGGATTGCATATCATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGAATGCATAT
40506615 CCTCAAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
38 25 0.37
39 2 0.03
40 40 0.60
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGAATGCATATATCATA
Found at i:40508837 original size:31 final size:31
Alignment explanation
Indices: 40508799--40508863 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
40508789 TCAATCGTTC
* *
40508799 GCCCAATTCACCAGATTGTGTGGCCTACACA
1 GCCCAATTCACCAGACTGTGTGGCCCACACA
*
40508830 GCCCAATTGACCAGACTGTGTGGCCCACACA
1 GCCCAATTCACCAGACTGTGTGGCCCACACA
40508861 GCC
1 GCC
40508864 TGACAACGGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.35, G:0.22, T:0.18
Consensus pattern (31 bp):
GCCCAATTCACCAGACTGTGTGGCCCACACA
Found at i:40512739 original size:30 final size:30
Alignment explanation
Indices: 40512683--40512739 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
40512673 CTAAGCAAAT
* **
40512683 TTAGCTGATGGTAGCGAATCGGTTAAGTGA
1 TTAGCTGATGATAGCGAATCAATTAAGTGA
*
40512713 TTAGTTGATGATAGCGAATCAATTAAG
1 TTAGCTGATGATAGCGAATCAATTAAG
40512740 CATATATGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (30 bp):
TTAGCTGATGATAGCGAATCAATTAAGTGA
Found at i:40515009 original size:17 final size:17
Alignment explanation
Indices: 40514987--40515038 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
40514977 AGCTGATTGA
*
40514987 TGACAAATTGTTGTCAT
1 TGACAAAGTGTTGTCAT
40515004 TGACAAAGTGTTGTCAT
1 TGACAAAGTGTTGTCAT
*
40515021 TGACATAGTGTTGTCAT
1 TGACAAAGTGTTGTCAT
40515038 T
1 T
40515039 AACATAGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (17 bp):
TGACAAAGTGTTGTCAT
Found at i:40515043 original size:17 final size:17
Alignment explanation
Indices: 40514995--40515045 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
40514985 GATGACAAAT
*
40514995 TGTTGTCATTGACAAAG
1 TGTTGTCATTGACATAG
40515012 TGTTGTCATTGACATAG
1 TGTTGTCATTGACATAG
*
40515029 TGTTGTCATTAACATAG
1 TGTTGTCATTGACATAG
40515046 GGATGTCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (17 bp):
TGTTGTCATTGACATAG
Found at i:40515052 original size:17 final size:17
Alignment explanation
Indices: 40515015--40515053 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
40515005 GACAAAGTGT
* * *
40515015 TGTCATTGACATAGTGT
1 TGTCATTAACATAGGGA
40515032 TGTCATTAACATAGGGA
1 TGTCATTAACATAGGGA
40515049 TGTCA
1 TGTCA
40515054 AAATCAATAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (17 bp):
TGTCATTAACATAGGGA
Found at i:40526124 original size:25 final size:25
Alignment explanation
Indices: 40526096--40526146 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
40526086 TTGATGGGTG
40526096 ACGTGTTGGAAAAAATTTGGTTTGA
1 ACGTGTTGGAAAAAATTTGGTTTGA
40526121 ACGTGTTGGAAAAAATTTGGTTTGA
1 ACGTGTTGGAAAAAATTTGGTTTGA
40526146 A
1 A
40526147 AATGGTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (25 bp):
ACGTGTTGGAAAAAATTTGGTTTGA
Found at i:40527187 original size:20 final size:20
Alignment explanation
Indices: 40527162--40527204 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
40527152 TGCTTGAGCC
40527162 GTGTAAGTGGCAGAGTTGGA
1 GTGTAAGTGGCAGAGTTGGA
*
40527182 GTGTAAGTGGTAGAGTTGGA
1 GTGTAAGTGGCAGAGTTGGA
40527202 GTG
1 GTG
40527205 AAATACTGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.02, G:0.47, T:0.28
Consensus pattern (20 bp):
GTGTAAGTGGCAGAGTTGGA
Found at i:40527979 original size:27 final size:27
Alignment explanation
Indices: 40527949--40528175 Score: 251
Period size: 27 Copynumber: 8.5 Consensus size: 27
40527939 ATACCATCGA
* * *
40527949 AGGGTAAAATGATCGTGATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
40527976 AGGGTAAAATGACCATGATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * ** * *
40528003 AAGGTGAAATGGTCGTAATTCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
40528030 AGGGTAAAATGACCGTAATGCCCTTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
40528057 ATGGTAAAATGATCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
40528084 AGGATACAATGACCGTAATG--CCTCT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
40528109 AGGGTAAAATAACTGTAGTGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
40528136 AGGGTAAAATGAACGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
40528163 AGGGTAAAATGAC
1 AGGGTAAAATGAC
40528176 TATTTTACCC
Statistics
Matches: 161, Mismatches: 37, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
25 19 0.12
27 142 0.88
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:40528153 original size:79 final size:79
Alignment explanation
Indices: 40527949--40528175 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 79
40527939 ATACCATCGA
* * * * * * *
40527949 AGGGTAAAATGATCGTGATGCCCCTATAGGGTAAAATGACCATGATGCCCCTGTAAGGTGAAATG
1 AGGGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGAACGTAATGCCCCTGT-AGGT-AAATG
**
40528014 GTCGTAATTCCCCTAT
64 ACCGTAATTCCCCTAT
* * * *
40528030 AGGGTAAAATGACCGTAATGCCCTTGTATGGTAAAATGATCGTAATGCCCCTGTAGGATACAATG
1 AGGGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGAACGTAATGCCCCTGTAGG-TA-AATG
* *
40528095 ACCGTAA-T-GCCTCT
64 ACCGTAATTCCCCTAT
* *
40528109 AGGGTAAAATAACTGTAGTGCCCCTGTAGGGTAAAATGAACGTAATGCCCCTGTAGGGTAAAATG
1 AGGGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGAACGTAATGCCCCTGTA-GGT-AAATG
40528174 AC
64 AC
40528176 TATTTTACCC
Statistics
Matches: 124, Mismatches: 18, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
79 60 0.48
80 8 0.06
81 56 0.45
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (79 bp):
AGGGTAAAATAACCGTAATGCCCCTGTAGGGTAAAATGAACGTAATGCCCCTGTAGGTAAATGAC
CGTAATTCCCCTAT
Found at i:40528279 original size:13 final size:13
Alignment explanation
Indices: 40528261--40528326 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 13
40528251 GATTTGTCTG
40528261 TGATTTAAATGAC
1 TGATTTAAATGAC
***
40528274 TGATTTGTCTG--
1 TGATTTAAATGAC
40528285 TGATTTAAATGAC
1 TGATTTAAATGAC
***
40528298 TGATTTGTCTG--
1 TGATTTAAATGAC
40528309 TGATTTAAATGAC
1 TGATTTAAATGAC
40528322 TGATT
1 TGATT
40528327 CTGTGCATGG
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
11 16 0.43
13 21 0.57
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (13 bp):
TGATTTAAATGAC
Found at i:40528321 original size:24 final size:24
Alignment explanation
Indices: 40528193--40528326 Score: 171
Period size: 24 Copynumber: 5.6 Consensus size: 24
40528183 CCCCTCGGGG
* *
40528193 TTAAATGATTGATTTGCCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
* * * * * *
40528217 GTAAATAAATGACTTGTCCGAGAT
1 TTAAATGACTGATTTGTCTGTGAT
*
40528241 GTAAATGA-TCGATTTGTCTGTGAT
1 TTAAATGACT-GATTTGTCTGTGAT
40528265 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
40528289 TTAAATGACTGATTTGTCTGTGAT
1 TTAAATGACTGATTTGTCTGTGAT
40528313 TTAAATGACTGATT
1 TTAAATGACTGATT
40528327 CTGTGCATGG
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 94 0.98
25 1 0.01
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAT
Found at i:40528481 original size:26 final size:26
Alignment explanation
Indices: 40528442--40528507 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
40528432 TTGGTGACAT
*
40528442 ATACTATT-ACTGGCAGCTTTGCTGCG
1 ATACTATTGA-TGGCAACTTTGCTGCG
40528468 ATACTATTGATGGCAACTTTGCTGCG
1 ATACTATTGATGGCAACTTTGCTGCG
* *
40528494 ATGCTATCGATGGC
1 ATACTATTGATGGC
40528508 TTTGTGCCGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 35 0.97
27 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (26 bp):
ATACTATTGATGGCAACTTTGCTGCG
Found at i:40528546 original size:32 final size:32
Alignment explanation
Indices: 40528502--40528653 Score: 189
Period size: 32 Copynumber: 4.8 Consensus size: 32
40528492 CGATGCTATC
* * *
40528502 GATGGCTTTGTGCCGATCATATTACCATTATT
1 GATGGCTTTGTGCCGATCATATTACTACTACT
40528534 GATGG-TTGTGTGCCGATCATATTACTACTACT
1 GATGGCTT-TGTGCCGATCATATTACTACTACT
* * *
40528566 GATGGCTTTATGCCGATCATACTACTATTACT
1 GATGGCTTTGTGCCGATCATATTACTACTACT
* * *
40528598 AATGGCTGTGTGCCAATCATATTACTACTACT
1 GATGGCTTTGTGCCGATCATATTACTACTACT
* *
40528630 GATGGCTTTATGCCAATCATATTA
1 GATGGCTTTGTGCCGATCATATTA
40528654 TTGTACTTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
31 2 0.02
32 99 0.96
33 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (32 bp):
GATGGCTTTGTGCCGATCATATTACTACTACT
Found at i:40528608 original size:64 final size:64
Alignment explanation
Indices: 40528502--40528650 Score: 226
Period size: 64 Copynumber: 2.3 Consensus size: 64
40528492 CGATGCTATC
* * * * * *
40528502 GATGGCTTTGTGCCGATCATATTACCATTATTGATGGTTGTGTGCCGATCATATTACTACTACT
1 GATGGCTTTATGCCGATCATACTACCATTACTAATGGCTGTGTGCCAATCATATTACTACTACT
*
40528566 GATGGCTTTATGCCGATCATACTACTATTACTAATGGCTGTGTGCCAATCATATTACTACTACT
1 GATGGCTTTATGCCGATCATACTACCATTACTAATGGCTGTGTGCCAATCATATTACTACTACT
*
40528630 GATGGCTTTATGCCAATCATA
1 GATGGCTTTATGCCGATCATA
40528651 TTATTGTACT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (64 bp):
GATGGCTTTATGCCGATCATACTACCATTACTAATGGCTGTGTGCCAATCATATTACTACTACT
Found at i:40534811 original size:9 final size:9
Alignment explanation
Indices: 40534799--40534857 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
40534789 CAAATTAATT
*
40534799 GAATTACCC
1 GAATTAACC
40534808 GAATTAACC
1 GAATTAACC
40534817 GAATTAACC
1 GAATTAACC
*
40534826 GAATTAACT
1 GAATTAACC
*
40534835 GAATTACCC
1 GAATTAACC
40534844 GAATTAACC
1 GAATTAACC
40534853 GAATT
1 GAATT
40534858 GAATCACTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATTAACC
Found at i:40534812 original size:18 final size:18
Alignment explanation
Indices: 40534791--40534857 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
40534781 AAATTAATCA
*
40534791 AATTAATTGAATTACCCG
1 AATTAACTGAATTACCCG
* *
40534809 AATTAACCGAATTAACCG
1 AATTAACTGAATTACCCG
40534827 AATTAACTGAATTACCCG
1 AATTAACTGAATTACCCG
*
40534845 AATTAACCGAATT
1 AATTAACTGAATT
40534858 GAATCACTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (18 bp):
AATTAACTGAATTACCCG
Found at i:40548103 original size:50 final size:50
Alignment explanation
Indices: 40548030--40548169 Score: 138
Period size: 50 Copynumber: 2.8 Consensus size: 50
40548020 CATTGAGATT
* ** *
40548030 ATGAGAGGTCCCATGTAAAACCATGTCTAGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
40548080 ATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCC-CACGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
** * * * * *
40548130 ATGAGAACTCCCATGTAAGACCATATCTCGGATATGGCAT
1 ATGAGAGGTCCCACGTAAAACCATGTCTAGGACATGGCAT
40548170 TGGCTGCACG
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 73 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAAACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:40551342 original size:5 final size:5
Alignment explanation
Indices: 40551332--40551362 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
40551322 TGAGCATTCG
*
40551332 ATCGA ATCGA ATCGA ATCTA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
40551363 AATTTTCAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (5 bp):
ATCGA
Found at i:40556332 original size:56 final size:50
Alignment explanation
Indices: 40556235--40556432 Score: 180
Period size: 50 Copynumber: 3.8 Consensus size: 50
40556225 CATTTGGGTA
* * * *
40556235 AAGAGATCTCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA-T
* **
40556289 ATGAGAGGTCCCATGTAAAACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * **
40556341 AAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * *
40556391 GAGAACTCCCATGTAAAACCATATCTGGGATATGGCATTGGC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
40556433 TGCACAGAAA
Statistics
Matches: 118, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
50 74 0.63
52 2 0.02
53 4 0.03
54 1 0.01
55 1 0.01
56 36 0.31
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:40558711 original size:17 final size:17
Alignment explanation
Indices: 40558678--40558713 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
40558668 GTGTAGTCTG
**
40558678 AAGCCCAAATTGTTTTT
1 AAGCCCAAATTCATTTT
40558695 AAGCCCAAATTCATTTT
1 AAGCCCAAATTCATTTT
40558712 AA
1 AA
40558714 AGTCCAAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (17 bp):
AAGCCCAAATTCATTTT
Found at i:40560254 original size:19 final size:18
Alignment explanation
Indices: 40560221--40560279 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
40560211 ATTAAACCTT
40560221 TTTATTTTTAATTTTTCTAA
1 TTTA-TTTTAATTTTT-TAA
* *
40560241 TTTATTTTAGTTTTTTTA
1 TTTATTTTAATTTTTTAA
* *
40560259 TTTAATTTAATTTTTAAA
1 TTTATTTTAATTTTTTAA
40560277 TTT
1 TTT
40560280 CTAGAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 19 0.58
19 10 0.30
20 4 0.12
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTAATTTTTTAA
Found at i:40561528 original size:76 final size:75
Alignment explanation
Indices: 40561396--40561541 Score: 193
Period size: 76 Copynumber: 1.9 Consensus size: 75
40561386 GAAATTCCGA
* * * *
40561396 ATTTGTTTCATTTTTAGCTCTAGAATTTAGATTTTAGGTTTTAATAAATTTAATTAGATTTTAGT
1 ATTTGTTTCATTTTTAGCTCTAGAATTTAGATTTGAAGTTTTAATAAATTTAATTAGATGTTAAT
40561461 TTAGAGTTGG
66 TTAGAGTTGG
* * * * * *
40561471 ATTTGTTTCATTTTTAAGTTGTAGATTTTAGATTTGAAGTTTTCATAGATTTCATTAGATGTTAA
1 ATTTGTTTCATTTTT-AGCTCTAGAATTTAGATTTGAAGTTTTAATAAATTTAATTAGATGTTAA
40561536 TTTAGA
65 TTTAGA
40561542 AATTAGATTA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 15 0.25
76 45 0.75
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (75 bp):
ATTTGTTTCATTTTTAGCTCTAGAATTTAGATTTGAAGTTTTAATAAATTTAATTAGATGTTAAT
TTAGAGTTGG
Found at i:40570789 original size:47 final size:49
Alignment explanation
Indices: 40570682--40570819 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 49
40570672 CGAAACACCT
* * * *
40570682 TTTGTGGACAAGCCACCACTGATTTTTAGATAAATTGCCACTAATAACAC
1 TTTGTGGACAAGCCACCAC-GATATGTAGATAAACTGCCACTAACAACAC
* *
40570732 TTTAG-GGACAAGCCACCAC-ATATGTAGATATACTGCCA-TTACAACAC
1 TTT-GTGGACAAGCCACCACGATATGTAGATAAACTGCCACTAACAACAC
* *
40570779 TTTGTGGACAAGCCACCACTA-ATTTACAGATAAACTGCCAC
1 TTTGTGGACAAGCCACCACGATATGT--AGATAAACTGCCAC
40570820 ATACTTCCAC
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
46 1 0.01
47 27 0.36
48 16 0.22
49 12 0.16
50 17 0.23
51 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACGATATGTAGATAAACTGCCACTAACAACAC
Found at i:40581082 original size:16 final size:16
Alignment explanation
Indices: 40581039--40581098 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
40581029 TTTTTAAATT
40581039 TTTTGAGAATTTTAAAA
1 TTTT-AGAATTTTAAAA
* *
40581056 TTTTAGTATTTTACAA
1 TTTTAGAATTTTAAAA
40581072 -TTTATGAA-TTTAAAA
1 TTTTA-GAATTTTAAAA
* *
40581087 TGTTAGGATTTT
1 TTTTAGAATTTT
40581099 TAATTGCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
15 12 0.35
16 18 0.53
17 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTTAGAATTTTAAAA
Found at i:40585619 original size:91 final size:92
Alignment explanation
Indices: 40585446--40585698 Score: 337
Period size: 91 Copynumber: 2.8 Consensus size: 92
40585436 ATATTAAAAT
* * * * * * * * *
40585446 ATATTGGTGGATGAACCAACCGTCTATGCAGATAAAAGTTGCTAATACTTTGTGGATGAACCATC
1 ATATTGGTGGATGAACCATCCATTTGTGCATATAAAAGCTGTTAATACATTGTGGATGAACCATT
**
40585511 GGTTAAGTAGGTAAACTGCTGACTAAA
66 GGTCGAGTAGGTAAACTGCTGACTAAA
* *
40585538 ATATTGGTGGATGAACCATCCATTTGTGTATATAAAAGCTGTTAA-ACATTATGGATGAACCATT
1 ATATTGGTGGATGAACCATCCATTTGTGCATATAAAAGCTGTTAATACATTGTGGATGAACCATT
40585602 GGTCGAGTAGGTAAACTGCTGACTAAA
66 GGTCGAGTAGGTAAACTGCTGACTAAA
* * * * *
40585629 ATATTGATGGATGAACCATCTATTAGTGCATATAAAAGCTGTTAATACGTTGTGGATGAACCACT
1 ATATTGGTGGATGAACCATCCATTTGTGCATATAAAAGCTGTTAATACATTGTGGATGAACCATT
40585694 GGTCG
66 GGTCG
40585699 TGCATATGAC
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
91 82 0.59
92 58 0.41
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (92 bp):
ATATTGGTGGATGAACCATCCATTTGTGCATATAAAAGCTGTTAATACATTGTGGATGAACCATT
GGTCGAGTAGGTAAACTGCTGACTAAA
Found at i:40585738 original size:47 final size:47
Alignment explanation
Indices: 40585678--40585800 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
40585668 TGTTAATACG
* * **
40585678 TTGTGGATGAACCACTGGTCGTGCATATGACTTGCGACTAAAAGACA
1 TTGTGGATAAACCACTGGTCGAGCATATGACTACCGACTAAAAGACA
* **
40585725 TTGTGGATAAACCACTGGTCGAGCATATGACTACCGACTAAAATATG
1 TTGTGGATAAACCACTGGTCGAGCATATGACTACCGACTAAAAGACA
* * *
40585772 TTGTGGATAAAACTATTGGTCGAGAATAT
1 TTGTGGAT-AAACCACTGGTCGAGCATAT
40585801 AAACTATCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 48 0.74
48 17 0.26
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (47 bp):
TTGTGGATAAACCACTGGTCGAGCATATGACTACCGACTAAAAGACA
Found at i:40596505 original size:28 final size:29
Alignment explanation
Indices: 40596469--40596567 Score: 128
Period size: 28 Copynumber: 3.4 Consensus size: 29
40596459 ATCAGAGATT
40596469 GCCACAAAGGCTTCCATTTAACAGAGG-C
1 GCCACAAAGGCTTCCATTTAACAGAGGTC
*
40596497 GCCACAAAGGCTTCCATTTAACAAAGGTC
1 GCCACAAAGGCTTCCATTTAACAGAGGTC
* * *
40596526 GCCACAAAGACTTCTATTTTAACAGAGATC
1 GCCACAAAGGCTTCCA-TTTAACAGAGGTC
**
40596556 GCTGCAAAGGCT
1 GCCACAAAGGCT
40596568 ATTATTTTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
28 26 0.43
29 15 0.25
30 20 0.33
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (29 bp):
GCCACAAAGGCTTCCATTTAACAGAGGTC
Found at i:40596687 original size:29 final size:28
Alignment explanation
Indices: 40596615--40596689 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
40596605 GAAAATTGCT
*
40596615 ACAAAGGCATTTATTTAATAGAGATAGCC
1 ACAAAGGCATCT-TTTAATAGAGATAGCC
* *
40596644 ACTAAGGCTAACTTTTAACTA-AGATAGCC
1 ACAAAGGC-ATCTTTTAA-TAGAGATAGCC
40596673 ACAAAGGCATCCTTTTA
1 ACAAAGGCAT-CTTTTA
40596690 CGAAAATTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.03
29 33 0.87
30 4 0.11
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.28
Consensus pattern (28 bp):
ACAAAGGCATCTTTTAATAGAGATAGCC
Found at i:40602675 original size:24 final size:24
Alignment explanation
Indices: 40602630--40602677 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
40602620 GTACATGTAT
* *
40602630 GCTCATACGAGCTATAAACGGTAA
1 GCTCATAAGAGCTAGAAACGGTAA
* *
40602654 GCTCATAAGAGCTGGAATCGGTAA
1 GCTCATAAGAGCTAGAAACGGTAA
40602678 CCCTACATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
GCTCATAAGAGCTAGAAACGGTAA
Found at i:40607263 original size:22 final size:22
Alignment explanation
Indices: 40607238--40607280 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
40607228 TACATGGCTA
40607238 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTC
40607260 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
40607281 GAACAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTC
Found at i:40612231 original size:15 final size:15
Alignment explanation
Indices: 40612178--40612234 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
40612168 TTAATAAGAT
*
40612178 TTAATATTAAATTTAA
1 TTAATATTATA-TTAA
* *
40612194 TCTAATATTTATCTTGA
1 T-TAATA-TTATATTAA
*
40612211 TAAATATTATATTAA
1 TTAATATTATATTAA
40612226 TTAATATTA
1 TTAATATTA
40612235 AAGTTGTAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
15 15 0.47
16 5 0.16
17 9 0.28
18 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (15 bp):
TTAATATTATATTAA
Found at i:40615725 original size:25 final size:26
Alignment explanation
Indices: 40615675--40615726 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
40615665 AGTTGTAGAG
40615675 AGAAAATTTTCTAAAGAGATTATTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
* * *
40615701 AGAAAA-TTTCTAGAGATATTTTTCT
1 AGAAAATTTTCTAAAGAGATTATTCT
40615726 A
1 A
40615727 ATTTACAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAGATTATTCT
Found at i:40618057 original size:50 final size:50
Alignment explanation
Indices: 40617998--40618139 Score: 169
Period size: 50 Copynumber: 2.9 Consensus size: 50
40617988 CATTGAGATT
* *
40617998 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGAACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGAACCGAG
** * * * * *
40618048 ATGAGAGGTCCCCCGTAAGACCATGTCTTGGACATGACATGGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGAACCGAG
* * *
40618098 ATGAGA-CTCCCATGTAAGACCATATCTAGGATATGGCATTGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGG
40618140 CAGCACAGAA
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 28 0.37
50 48 0.63
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGAACCGAG
Found at i:40618407 original size:12 final size:12
Alignment explanation
Indices: 40618390--40618418 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
40618380 ATGAGTTATT
40618390 TAAGTAAACAAG
1 TAAGTAAACAAG
40618402 TAAGTAAACAAG
1 TAAGTAAACAAG
40618414 TAAGT
1 TAAGT
40618419 GAGTAAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:40629069 original size:28 final size:28
Alignment explanation
Indices: 40629034--40629087 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
40629024 TAGGAACAGT
*
40629034 ACAGTGTGGGCCTTAGCCCAATACAGAA
1 ACAGTGTGGGCCTAAGCCCAATACAGAA
*
40629062 ACAGTGTGGGCCTAAGCCCGATACAG
1 ACAGTGTGGGCCTAAGCCCAATACAG
40629088 TATCAGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAGAA
Found at i:40629094 original size:28 final size:27
Alignment explanation
Indices: 40629029--40629094 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 27
40629019 TTTAATAGGA
*
40629029 ACAGTACAGTGTGGGCCTTAGCCCAAT
1 ACAGTACAGTGTGGGCCTAAGCCCAAT
* *
40629056 ACAGAAACAGTGTGGGCCTAAGCCCGAT
1 ACAG-TACAGTGTGGGCCTAAGCCCAAT
40629084 ACAGTATCAGT
1 ACAGTA-CAGT
40629095 ATAGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGTACAGTGTGGGCCTAAGCCCAAT
Found at i:40629409 original size:64 final size:64
Alignment explanation
Indices: 40629304--40629445 Score: 187
Period size: 64 Copynumber: 2.2 Consensus size: 64
40629294 TAATGTGATT
* *
40629304 GGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGT-AACATGACC
1 GGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACAGTGAA-ATGACC
* * ** * *
40629368 GGTACAAAGCCATCAGTAGCGGTGATATGATTTGCATACAACCATCAGTAACAGTGAAATGATC
1 GGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACAGTGAAATGACC
*
40629432 GGCACACAGCCATC
1 GGCACAAAGCCATC
40629446 GGTAATGGTA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
64 65 0.97
65 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (64 bp):
GGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACAGTGAAATGACC
Found at i:40629460 original size:64 final size:64
Alignment explanation
Indices: 40629304--40629462 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
40629294 TAATGTGATT
* * * ** * * *
40629304 GGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATTTGCATACAACCATCAGTAACAGTAACATGACC
* * * *
40629368 GGTACAAAGCCATCAGTAGCGGTGATATGATTTGCATACAACCATCAGTAACAGTGAA-ATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATTTGCATACAACCATCAGTAACAGT-AACATGACC
* * *
40629432 GGCACACAGCCATCGGTAATGGTAATATGAT
1 GGCACAAAGCCATCAGTAACGGTAATATGAT
40629463 ATGTACAAAG
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
64 78 0.98
65 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (64 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATTTGCATACAACCATCAGTAACAGTAACATGACC
Found at i:40629462 original size:32 final size:32
Alignment explanation
Indices: 40629280--40629495 Score: 148
Period size: 32 Copynumber: 6.8 Consensus size: 32
40629270 AATGACGGCA
* * * * * *
40629280 AGCCATAAGT-ACAGTAATGTGATTGGCACAA
1 AGCCATCAGTAACGGTAATATGATCGGTACAC
* * *
40629311 AGCCATCAGTAGCAGTGATATGATCGGTACAC
1 AGCCATCAGTAACGGTAATATGATCGGTACAC
* * * *
40629343 AACCATCAGTAACGGTAACATGACCGGTACAA
1 AGCCATCAGTAACGGTAATATGATCGGTACAC
* * ** * *
40629375 AGCCATCAGTAGCGGTGATATGATTTGCATAC
1 AGCCATCAGTAACGGTAATATGATCGGTACAC
* * *
40629407 AACCATCAGTAACAGTGAA-ATGATCGGCACAC
1 AGCCATCAGTAACGGT-AATATGATCGGTACAC
* * ** *
40629439 AGCCATCGGTAATGGTAATATGATATGTACAA
1 AGCCATCAGTAACGGTAATATGATCGGTACAC
* *
40629471 AGCCATCAGTAATGGTACTATGATC
1 AGCCATCAGTAACGGTAATATGATC
40629496 AACACAAAGC
Statistics
Matches: 140, Mismatches: 42, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
31 11 0.08
32 128 0.91
33 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (32 bp):
AGCCATCAGTAACGGTAATATGATCGGTACAC
Found at i:40629503 original size:32 final size:32
Alignment explanation
Indices: 40629434--40629513 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
40629424 AAATGATCGG
* * *
40629434 CACACAGCCATCGGTAATGGTAATATGATATG
1 CACAAAGCCATCAGTAATGGTAATATGATATA
* *
40629466 TACAAAGCCATCAGTAATGGTACTATGATCA-A
1 CACAAAGCCATCAGTAATGGTAATATGAT-ATA
*
40629498 CACAAAGCCAGCAGTA
1 CACAAAGCCATCAGTA
40629514 GCATCGCAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 39 0.98
33 1 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (32 bp):
CACAAAGCCATCAGTAATGGTAATATGATATA
Found at i:40629513 original size:96 final size:96
Alignment explanation
Indices: 40629306--40629513 Score: 231
Period size: 96 Copynumber: 2.2 Consensus size: 96
40629296 ATGTGATTGG
* * * *
40629306 CACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAGTAACGGTAACATGACCGGT
1 CACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGACAGGT
* ***
40629371 ACAAAGCCATCAGTAGCGGTGATATGATTTG
66 ACAAAGCCATCAGTAACGGTGATATGATCAA
* * * * * * *
40629402 CATACAA-CCATCAGTAACAGTGAAATGATCGGCACACAGCCATCGGTAATGGTAATATGATATG
1 CACA-AAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGACAGG
*
40629466 TACAAAGCCATCAGTAATGGT-ACTATGATCAA
65 TACAAAGCCATCAGTAACGGTGA-TATGATCAA
*
40629498 CACAAAGCCAGCAGTA
1 CACAAAGCCATCAGTA
40629514 GCATCGCAGT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
95 3 0.03
96 86 0.95
97 2 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGACAGGT
ACAAAGCCATCAGTAACGGTGATATGATCAA
Found at i:40629560 original size:26 final size:26
Alignment explanation
Indices: 40629505--40629569 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
40629495 CAACACAAAG
* * * * *
40629505 CCAGCAGTAGCATCGCAGTAAAGCTG
1 CCAGCAATAGTATCACAGTAAAACTA
40629531 CCAGCAATAGTATCACAGTAAAACTA
1 CCAGCAATAGTATCACAGTAAAACTA
*
40629557 CCAGTAATAGTAT
1 CCAGCAATAGTAT
40629570 ATGTGGCTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.20
Consensus pattern (26 bp):
CCAGCAATAGTATCACAGTAAAACTA
Found at i:40629718 original size:24 final size:22
Alignment explanation
Indices: 40629691--40629766 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 22
40629681 TCAGAATCAG
40629691 TCATTCAAATCACAGACAAATTAA
1 TCATTCAAA-CACAGACAAA-TAA
*
40629715 TCATACCAAACACAGACAAATAA
1 TCAT-TCAAACACAGACAAATAA
* *
40629738 GTCATTTAACCACAGACAAAATAA
1 -TCATTCAAACACAGAC-AAATAA
40629762 TCATT
1 TCATT
40629767 TGACCTTGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
23 17 0.38
24 24 0.53
25 4 0.09
ACGTcount: A:0.50, C:0.22, G:0.05, T:0.22
Consensus pattern (22 bp):
TCATTCAAACACAGACAAATAA
Found at i:40632142 original size:48 final size:48
Alignment explanation
Indices: 40632071--40632336 Score: 343
Period size: 48 Copynumber: 5.5 Consensus size: 48
40632061 GGCTGCATAT
* * *
40632071 GTGGCATGGACTGTGTGTAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
* *
40632119 GTGGCATGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
*
40632167 GTGGCACGGACTGTGTGCACGCCACCAATATTCTGTTAAAATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
* * * *
40632215 GTGGAACGGACTGTTTGCAGACCACCAATATTCTATTAAAATACAAGG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
* * * * * ** * *
40632263 GTGGCACGGACTATGTGCAGGCCACCGAGAGTCTATTATTACACAAAG
1 GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
* *
40632311 GTGGTACGGACTGTGTGTAGGCCACC
1 GTGGCACGGACTGTGTGCAGGCCACC
40632337 GAGAAATCTG
Statistics
Matches: 195, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 195 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
GTGGCACGGACTGTGTGCAGGCCACCAATATTCTGTTAAAATACAAGG
Found at i:40634750 original size:13 final size:13
Alignment explanation
Indices: 40634729--40634763 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
40634719 ATAAGTTGCT
* *
40634729 GTTAGTTAAATTA
1 GTTAATTAAATAA
40634742 GTTAATTAAATAA
1 GTTAATTAAATAA
40634755 GTTAATTAA
1 GTTAATTAA
40634764 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:40635754 original size:14 final size:14
Alignment explanation
Indices: 40635735--40635776 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
40635725 TAGTTTAATG
40635735 ATTTTTATTTTTTT
1 ATTTTTATTTTTTT
*
40635749 ATTTTTATTTATTT
1 ATTTTTATTTTTTT
40635763 ATTTCTTAGTTTTT
1 ATTT-TTA-TTTTT
40635777 AAGTTAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.71
15 3 0.12
16 4 0.17
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (14 bp):
ATTTTTATTTTTTT
Found at i:40636455 original size:64 final size:64
Alignment explanation
Indices: 40636373--40636543 Score: 198
Period size: 64 Copynumber: 2.7 Consensus size: 64
40636363 GTGGAAACTT
* * * * ** ** *
40636373 TGGCTTTGCGAAGGTTCGGTAGATTAGAATGGTGTTTCAGTATTGAATATTGTTAAGTAAATTA
1 TGGCTTTGCAAAGGTTCGGTGGATGAGAATGGGGTTTCAGTATCAAATATCATGAAGTAAATTA
* * *
40636437 TGGCTTTACAAAGGTTCGGTGGATGAGAATGGGGTTTCAATATCAAATATCATGCAGTAAATTA
1 TGGCTTTGCAAAGGTTCGGTGGATGAGAATGGGGTTTCAGTATCAAATATCATGAAGTAAATTA
* * * *
40636501 TGGCTTTGCAGAGGTTTGGTGGATGAGAACGGGGTTTTAGTAT
1 TGGCTTTGCAAAGGTTCGGTGGATGAGAATGGGGTTTCAGTAT
40636544 AAGAAGAACA
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 89 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.35
Consensus pattern (64 bp):
TGGCTTTGCAAAGGTTCGGTGGATGAGAATGGGGTTTCAGTATCAAATATCATGAAGTAAATTA
Found at i:40642263 original size:16 final size:17
Alignment explanation
Indices: 40642230--40642263 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40642220 TTTACTTTCT
*
40642230 TTTTTAAAATATTTTAA
1 TTTTTAAAATATTGTAA
40642247 TTTTTAAAAT-TTGTAA
1 TTTTTAAAATATTGTAA
40642263 T
1 T
40642264 ATATTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTTAAAATATTGTAA
Found at i:40644762 original size:45 final size:45
Alignment explanation
Indices: 40644706--40644798 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
40644696 TACTATGTGA
* *
40644706 ACCAAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
40644751 ACCAGACATCATTGATTAATAATGTGGTTGCTATGTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
40644796 ACC
1 ACC
40644799 GAGTATCTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:40647032 original size:8 final size:8
Alignment explanation
Indices: 40647019--40647045 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
40647009 CAATAATTAT
40647019 AATAATAA
1 AATAATAA
40647027 AATAATAA
1 AATAATAA
40647035 AATAATAA
1 AATAATAA
40647043 AAT
1 AAT
40647046 TCAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:40655172 original size:396 final size:396
Alignment explanation
Indices: 40654395--40655190 Score: 1330
Period size: 395 Copynumber: 2.0 Consensus size: 396
40654385 AGGTGGGGTG
* *
40654395 TTGGAGGTCCTGTGTTCAAATCCCTGCGTGAGTGTGGACGTTATTTTTGCTTAGTTGCACAAGAG
1 TTGGAGGTCCTGTGTTCAAATCCCTGCGCGAGCGTGGACGTTATTTTTGCTTAGTTGCACAAGAG
*
40654460 AGTTTCAGTGGAGTTGAAATTCTGATGGTCAAGTTGTTGGTTAGGGTGTTAGTGGGGAGTCAGGA
66 AGTTTCAGTGGAGTTGAAATTCTGATGGTCAAGTTGTTGGTTAGGGGGTTAGTGGGGAGTCAGGA
* *
40654525 TATTAGTAGAATTTTAGTAAATTAAACAAATTTTATTTTATCTTTTATTTTGTTTTCCCAAAAAT
131 TATTAGTAAAATTTTAGTAAATTAAACAAAATTTATTTTATCTTTTATTTTGTTTTCCCAAAAAT
* *
40654590 TTTTCTTTTCTTTTTTGACGTTTCTGCTCCCTCTTTTCCTCTATTCAATTTTCTTTTCTTCCTCA
196 TTCTCTTTTCTTTTTTGACGTTTCTGCTCCCTCTTCTCCTCTATTCAATTTTCTTTTCTTCCTCA
*
40654655 TCTTTTCGAGTTCGAATCTAAAGGGTGATCCTCTTGGTTTTTTTGGTGTTATTTTTTTTCCAATT
261 TCTTTTCGAGTTCGAATCTAAAGGGTGATACTCTTGGTTTTTTTGGTGTTATTTTTTTTCCAATT
* * *
40654720 CGTCTCTTTTTGTGTACCTTTTGACTGCATTCTGTTCGGTAAGTCTTGTGATAGTATAATCTTGA
326 CGTCTCTTTTTGTGTACCTTTTGACTACATTCTGTTCGGTAAGTCTTGTAATAGTATAATCTCGA
40654785 TGTTTC
391 TGTTTC
*
40654791 TTGGAGGTCCTGTGTTCAAATCCCTGCGCGAGCGTGGACGTTATTTTTGCTTAGTTGCACGAGAG
1 TTGGAGGTCCTGTGTTCAAATCCCTGCGCGAGCGTGGACGTTATTTTTGCTTAGTTGCACAAGAG
** * *
40654856 AGTTTTGGTGGAGTTGAAATTCTGA-GGTTAAGTTGTTGGTTAGGGGGTTAGTGGGGAGTTAGGA
66 AGTTTCAGTGGAGTTGAAATTCTGATGGTCAAGTTGTTGGTTAGGGGGTTAGTGGGGAGTCAGGA
40654920 TATTAGTAAAATTTTAGTAAATTAAACAAAATTTATTTTATCTTTTATTTTGTTTTCCCAAAAAT
131 TATTAGTAAAATTTTAGTAAATTAAACAAAATTTATTTTATCTTTTATTTTGTTTTCCCAAAAAT
*
40654985 TTCTCTTTTCTTTTTTGACGTTTCTGCTCCCTCTTCTCCTCTGTTCAATTTTCTTTTCTTCCGT-
196 TTCTCTTTTCTTTTTTGACGTTTCTGCTCCCTCTTCTCCTCTATTCAATTTTCTTTTCTTCC-TC
* *
40655049 ATCTTTTTG-GATTCGAATCTAAAGGGTGATACTCTTGTTTTTTTTGGTGTTATTTTTTTTTCCA
260 ATCTTTTCGAG-TTCGAATCTAAAGGGTGATACTCTTGGTTTTTTTGGTGTTA-TTTTTTTTCCA
** *
40655113 ATTCGTCTCTTTTTGTGTACCTTTCT-ACTATGTTCTTTTCGGTAAGTCTTGTAATAGTATAATC
323 ATTCGTCTCTTTTTGTGTACCTTT-TGACTACATTCTGTTCGGTAAGTCTTGTAATAGTATAATC
40655177 TCGATGTTTC
387 TCGATGTTTC
40655187 TTGG
1 TTGG
40655191 CAAATGTCTT
Statistics
Matches: 374, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
394 1 0.00
395 205 0.55
396 167 0.45
397 1 0.00
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.47
Consensus pattern (396 bp):
TTGGAGGTCCTGTGTTCAAATCCCTGCGCGAGCGTGGACGTTATTTTTGCTTAGTTGCACAAGAG
AGTTTCAGTGGAGTTGAAATTCTGATGGTCAAGTTGTTGGTTAGGGGGTTAGTGGGGAGTCAGGA
TATTAGTAAAATTTTAGTAAATTAAACAAAATTTATTTTATCTTTTATTTTGTTTTCCCAAAAAT
TTCTCTTTTCTTTTTTGACGTTTCTGCTCCCTCTTCTCCTCTATTCAATTTTCTTTTCTTCCTCA
TCTTTTCGAGTTCGAATCTAAAGGGTGATACTCTTGGTTTTTTTGGTGTTATTTTTTTTCCAATT
CGTCTCTTTTTGTGTACCTTTTGACTACATTCTGTTCGGTAAGTCTTGTAATAGTATAATCTCGA
TGTTTC
Found at i:40671521 original size:50 final size:50
Alignment explanation
Indices: 40671384--40671521 Score: 231
Period size: 50 Copynumber: 2.8 Consensus size: 50
40671374 GGGAATGAGA
* *
40671384 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGG
* *
40671434 TCCCATGTAAGACCACGTCTAGGACATGGCATTGGCATCTAGATGAGAGG
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGG
*
40671484 TCCCATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCAT
40671522 GTTATTATCA
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGAGATGAGAGG
Found at i:40673960 original size:16 final size:16
Alignment explanation
Indices: 40673907--40673952 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
40673897 TTTGGTTCGC
40673907 TGTAATGGAATAGATG
1 TGTAATGGAATAGATG
40673923 TGTAATGGAATAGATG
1 TGTAATGGAATAGATG
40673939 TGTAATGGAATAGA
1 TGTAATGGAATAGA
40673953 GGCGTAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGATG
Found at i:40674029 original size:44 final size:46
Alignment explanation
Indices: 40673942--40674034 Score: 163
Period size: 44 Copynumber: 2.1 Consensus size: 46
40673932 ATAGATGTGT
40673942 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
*
40673988 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
40674032 AAT
1 AAT
40674035 AGAGATGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 24 0.52
45 3 0.07
46 19 0.41
ACGTcount: A:0.28, C:0.05, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:40674030 original size:39 final size:44
Alignment explanation
Indices: 40673942--40674047 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 44
40673932 ATAGATGTGT
40673942 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTT--ATGG
*
40673988 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
**
40674027 AATGGAATAGAGATGTAATAG
1 AATGGAATAGAGGCGTAATAG
40674048 CATAAGGAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.32
40 2 0.04
43 1 0.02
44 13 0.23
45 3 0.05
46 19 0.34
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.34
Consensus pattern (44 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTCTGTTTGGTTATGG
Found at i:40674215 original size:18 final size:17
Alignment explanation
Indices: 40674192--40674228 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
40674182 AATTATTATT
40674192 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
40674208 AAATATATAATTTAATA
1 AAATATATAATTTAATA
40674225 AAAT
1 AAAT
40674229 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:40674222 original size:14 final size:15
Alignment explanation
Indices: 40674185--40674224 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
40674175 TTAACATAAT
40674185 TATT-ATTAAATATA
1 TATTAATTAAATATA
40674199 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
40674213 TA-TAATTTAATA
1 TATTAATTAAATA
40674225 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:40674240 original size:15 final size:16
Alignment explanation
Indices: 40674220--40674249 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40674210 ATATATAATT
40674220 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
40674235 TAATAAATATTCTTA
1 TAATAAATATTCTTA
40674250 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:40674252 original size:51 final size:51
Alignment explanation
Indices: 40674197--40674377 Score: 137
Period size: 51 Copynumber: 3.2 Consensus size: 51
40674187 TTATTAAATA
*
40674197 TATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
1 TATATGAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
* * * *
40674248 TATATGAATTTACTAAAATCATAATATATGGTACTATAAAATATAATTTGAAATAATTATTATTA
1 TATATGAA--T--TAAAAT-AT-ATA-AT-TTA--ATAAAAT-T--CTT--AATAATAAATATT-
*
40674313 AAT
50 -CT
*
40674316 ATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
1 -TATATGAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
40674368 TATATGAATT
1 TATATGAATT
40674378 TACTAAAATC
Statistics
Matches: 99, Mismatches: 13, Indels: 36
0.67 0.09 0.24
Matches are distributed among these distances:
51 16 0.16
52 1 0.01
53 1 0.01
54 11 0.11
55 6 0.06
56 4 0.04
57 3 0.03
58 3 0.03
59 9 0.09
61 9 0.09
62 3 0.03
63 3 0.03
64 4 0.04
65 6 0.06
66 11 0.11
67 1 0.01
68 1 0.01
69 7 0.07
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (51 bp):
TATATGAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATATTCT
Found at i:40674274 original size:61 final size:61
Alignment explanation
Indices: 40674209--40674516 Score: 260
Period size: 61 Copynumber: 5.1 Consensus size: 61
40674199 TATTAATTAA
40674209 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
** * * * * * * * * *
40674270 AATATATGGTACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATA-TATTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATGAATTTACTA-AAATCAT
40674329 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
* * ** * * * * * ** * *
40674390 AATATATGATACT-ATAAAA--GATAAT-TTGAAATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATGAATTTACTAAAATCAT
40674449 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
40674510 AATATAT
1 AATATAT
40674517 GACACTATAA
Statistics
Matches: 181, Mismatches: 48, Indels: 36
0.68 0.18 0.14
Matches are distributed among these distances:
58 6 0.03
59 66 0.36
60 30 0.17
61 73 0.40
62 6 0.03
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:40674319 original size:120 final size:120
Alignment explanation
Indices: 40674180--40674531 Score: 668
Period size: 120 Copynumber: 2.9 Consensus size: 120
40674170 ATATTTTAAC
40674180 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
40674245 TCTTATATGAATTTACTAAAATCATAATATATGGTACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
40674300 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
40674365 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
40674420 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
40674485 TCTTATATGAATTTACTAAAATCATAATATATGACACTATAAAATAT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
40674532 TTTTAATTAA
Statistics
Matches: 227, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 227 1.00
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:40674333 original size:59 final size:59
Alignment explanation
Indices: 40674180--40674455 Score: 181
Period size: 61 Copynumber: 4.6 Consensus size: 59
40674170 ATATTTTAAC
* * * *
40674180 ATAATTATTATTAAATATATATTAATTAAAATATATAAT-TTAATAAAATTCTTAATAAT-AA
1 ATAATTATTATTAAATATATATTAATTAAAATATATGATACT-ATAAAA-T-ATAAT-TTGAA
* * * * * * *
40674241 AT-ATTCTTATATGAATTTACTA-AAATCATAATATATGGTACTATAAAATATAATTTGAA
1 ATAATTATTAT-TAAATATA-TATTAATTAAAATATATGATACTATAAAATATAATTTGAA
* * * *
40674300 ATAATTATTATTAAATATATATTAATTAAAATATATAAT-TTAATAAAATTCTTAATAAT-AA
1 ATAATTATTATTAAATATATATTAATTAAAATATATGATACT-ATAAAA-T-ATAAT-TTGAA
* * * * * * *
40674361 AT-ATTCTTATATGAATTTACTA-AAATCATAATATATGATACTATAAAAGATAATTTGAA
1 ATAATTATTAT-TAAATATA-TATTAATTAAAATATATGATACTATAAAATATAATTTGAA
*
40674420 ATAATTATTATTAAATATATTTTAATTAAAATATAT
1 ATAATTATTATTAAATATATATTAATTAAAATATAT
40674456 AATTTAATAA
Statistics
Matches: 159, Mismatches: 40, Indels: 34
0.68 0.17 0.15
Matches are distributed among these distances:
58 6 0.04
59 57 0.36
60 30 0.19
61 59 0.37
62 7 0.04
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
ATAATTATTATTAAATATATATTAATTAAAATATATGATACTATAAAATATAATTTGAA
Found at i:40674335 original size:18 final size:17
Alignment explanation
Indices: 40674312--40674348 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
40674302 AATTATTATT
40674312 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
40674328 AAATATATAATTTAATA
1 AAATATATAATTTAATA
40674345 AAAT
1 AAAT
40674349 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:40674360 original size:15 final size:16
Alignment explanation
Indices: 40674340--40674369 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40674330 ATATATAATT
40674340 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
40674355 TAATAAATATTCTTA
1 TAATAAATATTCTTA
40674370 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:40674455 original size:18 final size:17
Alignment explanation
Indices: 40674434--40674468 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
40674424 TTATTATTAA
*
40674434 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
40674452 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
40674469 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:40674466 original size:59 final size:59
Alignment explanation
Indices: 40674180--40674467 Score: 175
Period size: 59 Copynumber: 4.8 Consensus size: 59
40674170 ATATTTTAAC
* * *
40674180 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAAT-AAAAT--TCTTAATA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAATAATATTGA-A
* * * * *
40674237 ATAAATATTCTT--ATATGAATTT-ACTAAAATCATAATATATGGTACTATAAAATATAAT-TTG
1 ATAATTATTATTAAATAT-ATTTTAATTAAAAT-AT-ATA-AT-TTA--ATAAAA-ATAATATTG
40674298 AA
58 AA
* * *
40674300 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAAT-AA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAA---ATAATATTGAA
* * * * ** * * * *
40674361 AT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAAGATAAT-TTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATAAT-TTAATAAAA-ATAATATTGAA
40674420 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAA
40674468 TTCTTAATAA
Statistics
Matches: 169, Mismatches: 40, Indels: 42
0.67 0.16 0.17
Matches are distributed among these distances:
55 11 0.07
56 5 0.03
57 13 0.08
58 4 0.02
59 42 0.25
60 14 0.08
61 37 0.22
62 7 0.04
63 16 0.09
64 8 0.05
65 12 0.07
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAATAATATTGAA
Found at i:40674480 original size:15 final size:16
Alignment explanation
Indices: 40674460--40674489 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
40674450 ATATATAATT
40674460 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
40674475 TAATAAATATTCTTA
1 TAATAAATATTCTTA
40674490 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:40675659 original size:13 final size:13
Alignment explanation
Indices: 40675641--40675665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40675631 GCTGTCTCAG
40675641 TTTTTGTGCCCAC
1 TTTTTGTGCCCAC
40675654 TTTTTGTGCCCA
1 TTTTTGTGCCCA
40675666 ACCTAGCATT
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:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTTGTGCCCAC
Found at i:40685744 original size:23 final size:24
Alignment explanation
Indices: 40685692--40685745 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
40685682 AAAAGTACCT
40685692 AAAAATATTATATGAAAAGAAATA
1 AAAAATATTATATGAAAAGAAATA
** *
40685716 TTAAATA-TA-ATGTAAAGAAAATA
1 AAAAATATTATATGAAAAG-AAATA
40685739 AAAAATA
1 AAAAATA
40685746 AAAAAATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (24 bp):
AAAAATATTATATGAAAAGAAATA
Found at i:40704065 original size:36 final size:36
Alignment explanation
Indices: 40704025--40704308 Score: 245
Period size: 36 Copynumber: 7.9 Consensus size: 36
40704015 AGGTCAACAT
** * *
40704025 TTAAAAAACATTGGGATAAACCCATCTGAGGCAACC
1 TTAAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
*** *
40704061 TT-AAAAAGGTTGGGATAGACTTTGTCTAAGACAACC
1 TTAAAAAAGGTTGGGATAGAC-CCATCTAAGGCAACC
* *
40704097 TTTAAAAAAGGTTGTGATAGACCCATCTAAGACAACC
1 -TTAAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * * * *
40704134 TTATAAAAGGTTGAGATAAACCCGTCTAAGACAACC
1 TTAAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * ** *
40704170 TT-AGAAAGGTTGGGATAGGCCGTGTTTAAGGCAACC
1 TTAAAAAAGGTTGGGATAGACC-CATCTAAGGCAACC
* *
40704206 TTTAAATAAA-GTTGGGATAGACCTTATCTAAGGCAACA
1 -TTAAA-AAAGGTTGGGATAGACC-CATCTAAGGCAACC
*
40704244 TT-AAAAAGGTTGGGATATACCCATCTAAGGCAACC
1 TTAAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
* * *
40704279 TT-AAAAAGGTTCGGTTAGACACATCTAAGG
1 TTAAAAAAGGTTGGGATAGACCCATCTAAGG
40704309 TAATTTTTTT
Statistics
Matches: 203, Mismatches: 37, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
35 70 0.34
36 71 0.35
37 18 0.09
38 41 0.20
39 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (36 bp):
TTAAAAAAGGTTGGGATAGACCCATCTAAGGCAACC
Found at i:40704121 original size:73 final size:71
Alignment explanation
Indices: 40704035--40704298 Score: 271
Period size: 73 Copynumber: 3.6 Consensus size: 71
40704025 TTAAAAAACA
* *
40704035 TTGGGATAAACCCATCTGAGGCAACCTTAAAAAGGTTGGGATAGACTTTGTCTAAGACAACCTTT
1 TTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGAC-TTGTCTAAGACAACCTTT
40704100 AAAAAAGG
65 -AAAAAGG
* * * * **
40704108 TTGTGATAGACCCATCTAAGACAACCTTATAAAAGGTTGAGATAAACCCGTCTAAGACAACC-TT
1 TTGGGATAGACCCATCTAAGGCAACCTTA-AAAAGGTTGGGATAGACTTGTCTAAGACAACCTTT
*
40704172 AGAAAGG
65 AAAAAGG
* ** * * * *
40704179 TTGGGATAGGCCGTGTTTAAGGCAACCTTTAAATAAAGTTGGGATAGACCTTATCTAAGGCAA-C
1 TTGGGATAGACC-CATCTAAGGCAACC-TTAAA-AAGGTTGGGATAGA-CTTGTCTAAGACAACC
*
40704243 ATTAAAAAGG
62 TTTAAAAAGG
* * *
40704253 TTGGGATATACCCATCTAAGGCAACCTTAAAAAGGTTCGGTTAGAC
1 TTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGAC
40704299 ACATCTAAGG
Statistics
Matches: 154, Mismatches: 31, Indels: 15
0.77 0.16 0.08
Matches are distributed among these distances:
70 1 0.01
71 27 0.18
72 19 0.12
73 64 0.42
74 43 0.28
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (71 bp):
TTGGGATAGACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAGACAACCTTTA
AAAAGG
Found at i:40704178 original size:109 final size:109
Alignment explanation
Indices: 40704039--40704298 Score: 335
Period size: 109 Copynumber: 2.4 Consensus size: 109
40704029 AAAACATTGG
* **
40704039 GATAAACCCATCTGAGGCAACCTTAAAAAGGTTGGGATAGACTTTGTCTAAGACAACCTTTAAA-
1 GATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTGTCTAAGACAACCTTTAAAT
* *
40704103 AAAGGTTGTGATAGACC-CATCTAAGACAACCTTATAAAAGGTTGA
66 AAA-GTTGGGATAGACCTCATCTAAGACAACATTA-AAAAGGTTGA
* * * * * *
40704148 GATAAACCCGTCTAAGACAACCTTAGAAAGGTTGGGATAGGCCGTGTTTAAGGCAACCTTTAAAT
1 GATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTGTCTAAGACAACCTTTAAAT
* * *
40704213 AAAGTTGGGATAGACCTTATCTAAGGCAACATTAAAAAGGTTGG
66 AAAGTTGGGATAGACCTCATCTAAGACAACATTAAAAAGGTTGA
* * *
40704257 GATATACCCATCTAAGGCAACCTTAAAAAGGTTCGGTTAGAC
1 GATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGAC
40704299 ACATCTAAGG
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
109 111 0.87
110 17 0.13
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (109 bp):
GATAAACCCATCTAAGGCAACCTTAAAAAGGTTGGGATAGACCGTGTCTAAGACAACCTTTAAAT
AAAGTTGGGATAGACCTCATCTAAGACAACATTAAAAAGGTTGA
Found at i:40706093 original size:140 final size:140
Alignment explanation
Indices: 40705897--40706460 Score: 683
Period size: 140 Copynumber: 4.0 Consensus size: 140
40705887 TATAACAAAA
* * * * *
40705897 GTCGGCATAGTGTTGGACAAAGCCAACTCTTATCTAATTGTTGCCTTAGGCGTGCATATCCCAAC
1 GTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAAC
* * * * * *
40705962 CATTATATAAAGAGTTTGTCAAAGCATACGTCGACAAGTCTAT-CTCAACACTTAAGAAAATGTT
66 CCTTATACAAAGAGTTTGCCAAAGCATATGTCGACAAGTCTATCCT-AACACTTAAGAAAGTGTC
40706026 GGCCCAAAAGT
130 GGCCCAAAAGT
* * *
40706037 GTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAAGCATGCATA-CCCTAA
1 GTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCC-AA
* * * *
40706101 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACAC-TAAGGAAAGTGT
65 CCCTTATACAAAGAGTTTGCCAAAGCATATGTCGACAAGTCTATCCTAACACTTAA-GAAAGTGT
** *
40706165 TAGCCCAAATGT
129 CGGCCCAAAAGT
* * ** * * * * *
40706177 GTCGGCATAGTGTTGTACAAAGTTGAATCTTATTAAATTGTTGCCTTAGGCATGTATATTCCAAC
1 GTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAAC
* *
40706242 CCTTATACAAAGAG-TTGACCAAAGCGTATGTC-AGCAAGTCTATCCTAACACTTAGGAAAGTGT
66 CCTTATACAAAGAGTTTG-CCAAAGCATATGTCGA-CAAGTCTATCCTAACACTTAAGAAAGTGT
40706305 CGGCCCAAAAGT
129 CGGCCCAAAAGT
* * *
40706317 GTC-AGCATAATGTTGGACAAATCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATACCCCAA
1 GTCGA-CATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAA
* *
40706381 CCCTTATACAAAGA-TTTGGCCAAAGCATATATCGACAAGTCTATCCTAACACTTAGGAAAGTGT
65 CCCTTATACAAAGAGTTT-GCCAAAGCATATGTCGACAAGTCTATCCTAACACTTAAGAAAGTGT
40706445 CGGCCCAAAAGT
129 CGGCCCAAAAGT
40706457 GTCG
1 GTCG
40706461 CGGTAGGCCT
Statistics
Matches: 360, Mismatches: 52, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
139 8 0.02
140 345 0.96
141 7 0.02
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (140 bp):
GTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAAC
CCTTATACAAAGAGTTTGCCAAAGCATATGTCGACAAGTCTATCCTAACACTTAAGAAAGTGTCG
GCCCAAAAGT
Found at i:40706402 original size:280 final size:280
Alignment explanation
Indices: 40705897--40706460 Score: 771
Period size: 280 Copynumber: 2.0 Consensus size: 280
40705887 TATAACAAAA
*
40705897 GTCGGCATAGTGTTGGACAAAGCCAACTCTTATCTAATTGTTGCCTTAGGCGTGCATATCCCAAC
1 GTCGGCATAGTGTTGGACAAAGCCAACTCTTATCTAATTGTTGCCTTAGGCATGCATATCCCAAC
* * *
40705962 CATTATATAAAGAGTTTGTCAAAGCATACGTCGACAAGTCTATCTCAACACTTAAGAAAATGTTG
66 CATTATACAAAGAGTTTGCCAAAGCATACGTCGACAAGTCTATCTCAACACTTAAGAAAATGTCG
*
40706027 GCCCAAAAGTGTCGACATAGTGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAAGCATGC
131 GCCCAAAAGTGTCGACATAATGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAAGCATGC
* * * *
40706092 ATACCCTAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTCGGCAAGTCTATCCCAACACTAAG
196 ATACCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATATCGACAAGTCTATCCCAACACTAAG
* *
40706157 GAAAGTGTTAGCCCAAATGT
261 GAAAGTGTCAGCCCAAAAGT
* ** * *
40706177 GTCGGCATAGTGTTGTACAAAGTTGAA-TCTTAT-TAAATTGTTGCCTTAGGCATGTATATTCCA
1 GTCGGCATAGTGTTGGACAAAG-CCAACTCTTATCT-AATTGTTGCCTTAGGCATGCATATCCCA
* * * * *
40706240 ACCCTTATACAAAGAG-TTGACCAAAGCGTATGTC-AGCAAGTCTATC-CTAACACTTAGGAAAG
64 ACCATTATACAAAGAGTTTG-CCAAAGCATACGTCGA-CAAGTCTATCTC-AACACTTAAGAAAA
* * * *
40706302 TGTCGGCCCAAAAGTGTC-AGCATAATGTTGGACAAATCCGACTCTTATTTAAGTGTTGCCTTAG
126 TGTCGGCCCAAAAGTGTCGA-CATAATGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAA
* *
40706366 GCATGCATACCCCAACCCTTATACAAAGATTTGGCCAAAGCATATATCGACAAGTCTATCCTAAC
190 GCATGCATACCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATATCGACAAGTCTATCCCAAC
* *
40706431 ACTTAGGAAAGTGTCGGCCCAAAAGT
255 ACTAAGGAAAGTGTCAGCCCAAAAGT
40706457 GTCG
1 GTCG
40706461 CGGTAGGCCT
Statistics
Matches: 249, Mismatches: 29, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
279 7 0.03
280 240 0.96
281 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (280 bp):
GTCGGCATAGTGTTGGACAAAGCCAACTCTTATCTAATTGTTGCCTTAGGCATGCATATCCCAAC
CATTATACAAAGAGTTTGCCAAAGCATACGTCGACAAGTCTATCTCAACACTTAAGAAAATGTCG
GCCCAAAAGTGTCGACATAATGTTGGACAAAGCCGACTCTTATTTAAGAGTTACCTTAAGCATGC
ATACCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATATCGACAAGTCTATCCCAACACTAAG
GAAAGTGTCAGCCCAAAAGT
Found at i:40713639 original size:12 final size:12
Alignment explanation
Indices: 40713624--40713650 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
40713614 GTCCTATTTA
40713624 TAGGCCTAGGGT
1 TAGGCCTAGGGT
40713636 TAGGCCTAGGGT
1 TAGGCCTAGGGT
40713648 TAG
1 TAG
40713651 CAGCTCATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.15, G:0.41, T:0.26
Consensus pattern (12 bp):
TAGGCCTAGGGT
Found at i:40723274 original size:27 final size:26
Alignment explanation
Indices: 40723244--40723297 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
40723234 AGTCCTTCTA
40723244 CTATTTGTATATTT-GGAATTTAGTCTC
1 CTATTT-T-TATTTAGGAATTTAGTCTC
40723271 CTATTTTTATTTCAAGGAATTTAGTCT
1 CTATTTTTATTT--AGGAATTTAGTCT
40723298 TTTTACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 5 0.21
26 1 0.04
27 6 0.25
28 12 0.50
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (26 bp):
CTATTTTTATTTAGGAATTTAGTCTC
Found at i:40728022 original size:6 final size:6
Alignment explanation
Indices: 40728011--40728041 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
40728001 TCTTCTTTCT
40728011 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC T
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC T
40728042 TAAGTGGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTTCC
Found at i:40731865 original size:50 final size:50
Alignment explanation
Indices: 40731777--40732159 Score: 469
Period size: 50 Copynumber: 7.5 Consensus size: 50
40731767 ATGCCATATT
* * ** * ** * *
40731777 CCAGATATGGTCTTACATGAGAGTTCTCATATAAGTGCCCATGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
* * ***
40731827 CCTGACATTGTCTTATGGGGGACCTCTCATCTTGGTGCCAACGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
* * *
40731877 CCAAAGATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACCCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
*
40731927 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCTAACGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
**
40731977 CCAGACATGGTCTTACATGGGACCTCTCATCCCGGTGCCAACGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
* *
40732027 CCAGACTTGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
* * * *
40732077 CCAGACATGGTCTTACATGGGAAATCTCATAATCTCAATGATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGG--ACCTC-TCATCT---TGGTGCCAACGCCATGTC
*
40732133 CCAGACATGGTCTTACATGGGATCTCT
1 CCAGACATGGTCTTACATGGGACCTCT
40732160 TTACCCAAAT
Statistics
Matches: 290, Mismatches: 37, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
50 239 0.82
52 4 0.01
53 6 0.02
54 5 0.02
56 36 0.12
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATGTC
Found at i:40741423 original size:25 final size:24
Alignment explanation
Indices: 40741395--40741450 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
40741385 ACAGCTCATG
40741395 TGAGCATTCTGATTCACAACTCGTC
1 TGAGCATTCTGATT-ACAACTCGTC
* *
40741420 TGAGCATTCTGATTACAGCTCGTG
1 TGAGCATTCTGATTACAACTCGTC
40741444 TGAGCAT
1 TGAGCAT
40741451 ACATATAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (24 bp):
TGAGCATTCTGATTACAACTCGTC
Found at i:40741447 original size:24 final size:25
Alignment explanation
Indices: 40741383--40741450 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
40741373 AGACCCATTG
*
40741383 TCACAGCTCATGTGAGCATTCTGAT
1 TCACAGCTCGTGTGAGCATTCTGAT
* *
40741408 TCACAACTCGTCTGAGCATTCTGAT
1 TCACAGCTCGTGTGAGCATTCTGAT
40741433 T-ACAGCTCGTGTGAGCAT
1 TCACAGCTCGTGTGAGCAT
40741451 ACATATAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
24 15 0.39
25 23 0.61
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATTCTGAT
Found at i:40742404 original size:53 final size:53
Alignment explanation
Indices: 40742324--40742433 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
40742314 TAGAAGTTAG
40742324 TTGAACAGTATGGCCAATTTGAGTATATAGTTATACATGTTTGGGTGTTGAGA
1 TTGAACAGTATGGCCAATTTGAGTATATAGTTATACATGTTTGGGTGTTGAGA
40742377 TTGAACAGTATGGCCAATTTGAGTATATAGTTATACATGTTTGGGTGTTGAGA
1 TTGAACAGTATGGCCAATTTGAGTATATAGTTATACATGTTTGGGTGTTGAGA
40742430 TTGA
1 TTGA
40742434 GGTGCCCTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.28, C:0.07, G:0.26, T:0.38
Consensus pattern (53 bp):
TTGAACAGTATGGCCAATTTGAGTATATAGTTATACATGTTTGGGTGTTGAGA
Found at i:40747781 original size:20 final size:20
Alignment explanation
Indices: 40747756--40747795 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
40747746 TTATACGTGT
40747756 CCCACTCACCAAGATTTCTA
1 CCCACTCACCAAGATTTCTA
40747776 CCCACTCACCAAGATTTCTA
1 CCCACTCACCAAGATTTCTA
40747796 ACACAGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.40, G:0.05, T:0.25
Consensus pattern (20 bp):
CCCACTCACCAAGATTTCTA
Found at i:40749361 original size:2 final size:2
Alignment explanation
Indices: 40749354--40749378 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40749344 AAGTATATGC
40749354 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 A
40749379 AGTTAATGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:40759604 original size:40 final size:40
Alignment explanation
Indices: 40759547--40759629 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
40759537 GAACTTTAAT
40759547 TTTATTAAACTCATCTTAGTTAATAATTGAGTT-TCTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGT-TGGAC
* *
40759587 TTTATTAAACTCCTCTTAGTTAGTAATTGAGTTGTTGGAC
1 TTTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGGAC
40759627 TTT
1 TTT
40759630 CTTTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
40 39 0.98
41 1 0.03
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (40 bp):
TTTATTAAACTCATCTTAGTTAATAATTGAGTTGTTGGAC
Found at i:40761622 original size:11 final size:11
Alignment explanation
Indices: 40761608--40761640 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
40761598 TATTAAACAC
40761608 AAAACACATTA
1 AAAACACATTA
40761619 AAAACACATT-
1 AAAACACATTA
40761629 -AAACACATTA
1 AAAACACATTA
40761639 AA
1 AA
40761641 CTTAATAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACACATTA
Found at i:40761634 original size:9 final size:9
Alignment explanation
Indices: 40761558--40761641 Score: 63
Period size: 9 Copynumber: 9.4 Consensus size: 9
40761548 ATCTACAATC
40761558 AAACACATT
1 AAACACATT
40761567 AAA-ACA--
1 AAACACATT
40761573 AAA-ACATT
1 AAACACATT
*
40761581 AATCACATTT
1 AAACACA-TT
*
40761591 AAACTCATATT
1 AAA--CACATT
40761602 AAACACA--
1 AAACACATT
40761609 AAACACATT
1 AAACACATT
40761618 AAAAACACATT
1 --AAACACATT
40761629 AAACACATT
1 AAACACATT
40761638 AAAC
1 AAAC
40761642 TTAATAAGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 20
0.72 0.05 0.24
Matches are distributed among these distances:
6 6 0.10
7 7 0.11
8 5 0.08
9 22 0.36
10 4 0.07
11 14 0.23
12 3 0.05
ACGTcount: A:0.58, C:0.20, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:40768318 original size:40 final size:40
Alignment explanation
Indices: 40768267--40768389 Score: 201
Period size: 40 Copynumber: 3.1 Consensus size: 40
40768257 TAAATAAAAG
40768267 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
* *
40768307 AAATTCGAACAACTCAATTACTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
* * *
40768347 AAAGTCCAGCAACTCAAATATTAACTAAGATGAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
40768387 AAA
1 AAA
40768390 ATTAAAGTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (40 bp):
AAAGTCCAACAACTCAATTACTAACTAAGATGAGTTTAAT
Found at i:40771597 original size:22 final size:22
Alignment explanation
Indices: 40771566--40771607 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
40771556 GGCTGCCTCT
*
40771566 CCTCAATCTGAGTAGCACCTTA
1 CCTCAATCTGACTAGCACCTTA
*
40771588 CCTCAGTCTGACTAGCACCT
1 CCTCAATCTGACTAGCACCT
40771608 CTGCTTGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.26
Consensus pattern (22 bp):
CCTCAATCTGACTAGCACCTTA
Found at i:40772387 original size:16 final size:16
Alignment explanation
Indices: 40772366--40772398 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
40772356 TTCTGCTCAG
40772366 GAGTGCAGTCGATGTC
1 GAGTGCAGTCGATGTC
40772382 GAGTGCAGTCGATGTC
1 GAGTGCAGTCGATGTC
40772398 G
1 G
40772399 TTCATAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.24
Consensus pattern (16 bp):
GAGTGCAGTCGATGTC
Found at i:40779883 original size:18 final size:18
Alignment explanation
Indices: 40779857--40779894 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
40779847 CTAGATTCAG
40779857 TATTAACATAATTTGCAT
1 TATTAACATAATTTGCAT
*
40779875 TATTTACATAATTTGCAT
1 TATTAACATAATTTGCAT
40779893 TA
1 TA
40779895 GTAAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (18 bp):
TATTAACATAATTTGCAT
Found at i:40787263 original size:19 final size:19
Alignment explanation
Indices: 40787239--40787312 Score: 121
Period size: 19 Copynumber: 3.8 Consensus size: 19
40787229 AATCTTCAAG
40787239 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
40787258 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
40787277 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
40787298 GATATGTAATCTTAG
1 GATATGCAATCTTAG
40787313 CAGATATGAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 33 0.63
21 19 0.37
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:40787285 original size:21 final size:21
Alignment explanation
Indices: 40787240--40787302 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
40787230 ATCTTCAAGG
40787240 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
40787259 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
40787280 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
40787301 AT
1 AT
40787303 GTAATCTTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.45
21 23 0.55
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:40787332 original size:23 final size:21
Alignment explanation
Indices: 40787239--40787339 Score: 95
Period size: 19 Copynumber: 4.9 Consensus size: 21
40787229 AATCTTCAAG
*
40787239 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
40787258 GATATGCAATCTTAGATATGAT
1 GATATGTAATCTTAGAGAT-AT
*
40787280 -ATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
40787298 GATATGTAATCTTAGCAGATAT
1 GATATGTAATCTTAG-AGATAT
*
40787320 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
40787340 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
18 2 0.03
19 27 0.39
21 15 0.21
22 14 0.20
23 12 0.17
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:40787346 original size:22 final size:23
Alignment explanation
Indices: 40787302--40787346 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
40787292 AGATATGATA
*
40787302 TGTAATCTTAGCAGATATGATTT
1 TGTAATCTTAGCAGATATAATTT
*
40787325 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGCAGATATAATTT
40787347 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGCAGATATAATTT
Found at i:40787532 original size:19 final size:21
Alignment explanation
Indices: 40787508--40787546 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
40787498 ACTGTTTTCT
*
40787508 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
40787527 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
40787547 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:40794460 original size:44 final size:44
Alignment explanation
Indices: 40794412--40794643 Score: 137
Period size: 44 Copynumber: 5.3 Consensus size: 44
40794402 AGACACCAGC
*
40794412 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
**** * * ** * * * *
40794456 CTTGCCTTCCTGCACCGACAGCGAAGTAGATTAAAGACACCAG-C
1 CTTGCCTTCCTGGGTTG-CAGCGGAGCAGGCTAAAAATAGCAGAT
* *
40794500 CTTGCCTTCCTAGGTTGCAGTGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
**** * * * * * * *
40794544 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTTCCTGGGTTG-CAGCGGAGCAGGCT-AAAAATAGCAGAT
* * * * *
40794588 CTTGCCTCCCTGGGTTGTAGTGGAGCAAGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
40794632 CTTGCCTTCCTG
1 CTTGCCTTCCTG
40794644 CACCGACAGC
Statistics
Matches: 127, Mismatches: 55, Indels: 12
0.65 0.28 0.06
Matches are distributed among these distances:
43 31 0.24
44 63 0.50
45 33 0.26
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (44 bp):
CTTGCCTTCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
Found at i:40794688 original size:88 final size:88
Alignment explanation
Indices: 40794363--40794662 Score: 474
Period size: 88 Copynumber: 3.4 Consensus size: 88
40794353 GTGAAGATAA
* * * **
40794363 CAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
*
40794428 GCAGCGGAGCAGGCTAAAAATAG
66 GCAGTGGAGCAGGCTAAAAATAG
* * * *
40794451 CAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATTAAAGACACCAGCCTTGCCTTCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
40794516 GCAGTGGAGCAGGCTAAAAATAG
66 GCAGTGGAGCAGGCTAAAAATAG
*
40794539 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
40794604 GTAGTGGAGCAAGTTAAAAATAG
66 GCAGTGGAGCAGGCTAAAAATAG
40794627 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGAT
40794663 TGATGACCCC
Statistics
Matches: 194, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 194 1.00
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGTGGAGCAGGCTAAAAATAG
Found at i:40794698 original size:176 final size:176
Alignment explanation
Indices: 40794363--40794699 Score: 478
Period size: 176 Copynumber: 1.9 Consensus size: 176
40794353 GTGAAGATAA
* * * *
40794363 CAGATCTTGCCTTCCTGTACTGGCAATGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* *
40794428 GCAGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATTAAAGA
66 GCAGCGGAGCAAGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTAAAGA
* * * **
40794493 CACCAGCCTTGCCTTCCTAGGTTGCAGTGGAGCAGGCTAAAAATAG
131 CACCAGCCCTACCTCCCTAGGCAGCAGTGGAGCAGGCTAAAAATAG
* *
40794539 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
* * * * *
40794604 GTAGTGGAGCAAGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTGATGA
66 GCAGCGGAGCAAGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTAAAGA
* *
40794669 CCCCAGCCCTATCTCCCT-GGACAGCAGTGGA
131 CACCAGCCCTACCTCCCTAGG-CAGCAGTGGA
40794700 ATAGGTTAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
175 2 0.01
176 138 0.99
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.20
Consensus pattern (176 bp):
CAGATCTTGCCTTCCTGCACCGACAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAAGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATTAAAGA
CACCAGCCCTACCTCCCTAGGCAGCAGTGGAGCAGGCTAAAAATAG
Found at i:40794725 original size:44 final size:44
Alignment explanation
Indices: 40794676--40795080 Score: 460
Period size: 44 Copynumber: 9.5 Consensus size: 44
40794666 TGACCCCAGC
*
40794676 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
40794720 CCTATCTCCCTGGTCAGCAGTGGAACAGATT-AA-A----GAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
40794758 CCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
40794802 CATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
40794846 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
40794884 CCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
40794928 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * * *
40794972 TCTATCTCCCTGGGCAGCAGTAGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGA-AT
* * * * *
40795016 CCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATCGTTAAC
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
40795060 CCTATCTCCCT-GAGCAGCAGT
1 CCTATCTCCCTGGA-CAGCAGT
40795081 AAAGTAGGTG
Statistics
Matches: 307, Mismatches: 39, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
38 62 0.20
39 4 0.01
40 2 0.01
42 2 0.01
43 6 0.02
44 230 0.75
45 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:40794776 original size:82 final size:85
Alignment explanation
Indices: 40794676--40795080 Score: 425
Period size: 82 Copynumber: 4.8 Consensus size: 85
40794666 TGACCCCAGC
40794676 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
*
40794741 GGAACAGATT-AA-A-GAAT
66 GGAATAGATTAAAGATGAAT
* *
40794758 CCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAATCATATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* *
40794823 GGAATAGGTTGAAGATTGAGAAT
66 GGAATAGATTAAAGA-T--GAAT
* * * **
40794846 TCTATCTCCCTGGGCAGCAGTGGAATAGATT-AA-A----GAATCCTATCTCCCTGAACAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
*
40794905 GGAATAGGTTAAAGATTGTGAAT
66 GGAATAGATTAAAGA---TGAAT
* * * * *
40794928 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
* * *
40794993 AGAATAGATTGAAGATTGTAGGT
66 GGAATAGATTAAAGA-TG-A-AT
* * * * * *
40795016 CCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATCGTTAACCCTATCTCCCTGAG-CAGCAG
1 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTG-GTCAGCAG
40795080 T
65 T
40795081 AAAGTAGGTG
Statistics
Matches: 276, Mismatches: 30, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
82 139 0.50
83 4 0.01
84 3 0.01
86 3 0.01
87 3 0.01
88 123 0.45
89 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (85 bp):
CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
GGAATAGATTAAAGATGAAT
Found at i:40794831 original size:126 final size:126
Alignment explanation
Indices: 40794676--40795080 Score: 596
Period size: 126 Copynumber: 3.2 Consensus size: 126
40794666 TGACCCCAGC
* * * * *
40794676 CCTATCTCCCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
*
40794741 GGAACAGATTAAAGAATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
66 GGAATAGATTAAAGAATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
*
40794802 CATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
40794867 GGAATAGATTAAAGAATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
66 GGAATAGATTAAAGAATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
40794928 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
* * ** * * * *
40794993 AGAATAGATTGAAGATTGTAGGTCCTATCTCCCTGGTCAGCAGTGGAGTAGGTTGAAGATCGTTA
66 GGAATAGATT-AA-A--G-A-ATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGA
*
40795058 AC
125 AT
40795060 CCTATCTCCCTGAG-CAGCAGT
1 CCTATCTCCCTG-GTCAGCAGT
40795081 AAAGTAGGTG
Statistics
Matches: 255, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
126 192 0.75
127 2 0.01
128 1 0.00
130 1 0.00
131 1 0.00
132 57 0.22
133 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (126 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGT
GGAATAGATTAAAGAATCCTATCTCCCTGAACAGCAGTGGAATAGGTTAAAGATTGTGAAT
Found at i:40795489 original size:44 final size:44
Alignment explanation
Indices: 40795396--40795502 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 44
40795386 ATGGAAAATT
* * *
40795396 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGACGATAATC
* ** *
40795440 CTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA-ACTTTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGACGAT-AATC
*
40795484 TTATCTCTCTGAAGTTGCA
1 TTATCTCCCTGAAGTTGCA
40795503 AAGAGCAGAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 51 0.96
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGACGATAATC
Found at i:40795957 original size:21 final size:21
Alignment explanation
Indices: 40795932--40795975 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
40795922 ATCTTCGAGG
40795932 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
40795953 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
40795974 AT
1 AT
40795976 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:40795981 original size:19 final size:19
Alignment explanation
Indices: 40795931--40795986 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
40795921 AATCTTCGAG
40795931 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
40795950 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
40795971 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
40795987 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:40795993 original size:22 final size:23
Alignment explanation
Indices: 40795944--40796009 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
40795934 ATGCAATCTT
*
40795944 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
40795965 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
40795987 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
40796010 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:40796019 original size:22 final size:23
Alignment explanation
Indices: 40795975--40796019 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
40795965 AGATATGATA
*
40795975 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
40795998 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
40796020 GTAGATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Done.