Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 75 of 203
Found at i:23809737 original size:118 final size:117
Alignment explanation
Indices: 23809581--23809806 Score: 384
Period size: 118 Copynumber: 1.9 Consensus size: 117
23809571 ACTTACATAA
* *
23809581 TAACATAATAACTTACATAATACATAGACTACATAACTTACATAACTTAAATAACTTACATAATA
1 TAACATAATAACCTACATAATACATAGACTACACAACTTACATAACTTAAATAACTTACATAATA
23809646 CATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACT
66 CATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACT
*
23809698 TAACATACATAGCCTACATAACTTACATA-A-TACACAACTTACATAACTTAAATAACTTACATA
1 TAACATA-ATAACCTACATAA--TACATAGACTACACAACTTACATAACTTAAATAACTTACATA
23809761 ATACATAACTTTGATAACTAACATTATACACAACTTACATAATACA
63 ATACATAACTTTGATAACTAACATTATACACAACTTACATAATACA
23809807 CAACTTACAT
Statistics
Matches: 103, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
117 7 0.07
118 89 0.86
119 1 0.01
120 6 0.06
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (117 bp):
TAACATAATAACCTACATAATACATAGACTACACAACTTACATAACTTAAATAACTTACATAATA
CATAACTTTGATAACTAACATTATACACAACTTACATAATACATTACTTACT
Found at i:23809744 original size:84 final size:84
Alignment explanation
Indices: 23809590--23809745 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 84
23809580 ATAACATAAT
* * * *
23809590 AACTTACATAATACATAGACTACATAACTTACATAACTTAAATAACTTACATAATACATAACTTT
1 AACTTACATAATACATAGACTACATAACATACATAACCTAAATAACTTACATAATACACAACTTA
*
23809655 GATAACTAACATTATACAC
66 CATAACTAACATTATACAC
* * * *
23809674 AACTTACATAATACAT-TACTTACTTAACATACATAGCCTACATAACTTACATAATACACAACTT
1 AACTTACATAATACATAGAC-TACATAACATACATAACCTAAATAACTTACATAATACACAACTT
23809738 ACATAACT
65 ACATAACT
23809746 TAAATAACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 2 0.03
84 60 0.97
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (84 bp):
AACTTACATAATACATAGACTACATAACATACATAACCTAAATAACTTACATAATACACAACTTA
CATAACTAACATTATACAC
Found at i:23809795 original size:16 final size:16
Alignment explanation
Indices: 23809776--23809817 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
23809766 TAACTTTGAT
* *
23809776 AACTAACATTATACAC
1 AACTTACATAATACAC
23809792 AACTTACATAATACAC
1 AACTTACATAATACAC
23809808 AACTTACATA
1 AACTTACATA
23809818 GATTACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:23809831 original size:41 final size:41
Alignment explanation
Indices: 23809751--23809839 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
23809741 TAACTTAAAT
* ** *
23809751 AACTTACATAATACATAACTTTGATAACTAACATTATACAC
1 AACTTACATAATACACAACTTACATAACTAACATAATACAC
* *
23809792 AACTTACATAATACACAACTTACATAGA-TTACATAATACAT
1 AACTTACATAATACACAACTTACATA-ACTAACATAATACAC
23809833 AACTTAC
1 AACTTAC
23809840 CCGTGCAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.30
Consensus pattern (41 bp):
AACTTACATAATACACAACTTACATAACTAACATAATACAC
Found at i:23815171 original size:66 final size:65
Alignment explanation
Indices: 23815051--23815214 Score: 195
Period size: 66 Copynumber: 2.5 Consensus size: 65
23815041 GAGCAAATTA
* * * *
23815051 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTAAAAAAAGATATGAAGAACTCCAG
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTAAAAAAAGATATGAAGAACTCCAG
* **
23815116 CTACAACTTAAAGCAGATGTAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCC
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTT-AAAAAAAGATATGAAGAACTCC
23815180 AG
64 AG
* * * *
23815182 CAGTAGCTTAAAGCAGATGCCGCAGCAAGAGAA
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAA
23815215 ACAGAGGCGG
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.02
66 76 0.90
67 6 0.07
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTAAAAAAAGATATGAAGAACTCCAG
Found at i:23815219 original size:21 final size:21
Alignment explanation
Indices: 23815195--23815235 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23815185 TAGCTTAAAG
*
23815195 CAGATGCCGCAGCAAGAGAAA
1 CAGAGGCCGCAGCAAGAGAAA
* *
23815216 CAGAGGCGGCAGCGAGAGAA
1 CAGAGGCCGCAGCAAGAGAA
23815236 GTACAGGCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.22, G:0.37, T:0.02
Consensus pattern (21 bp):
CAGAGGCCGCAGCAAGAGAAA
Found at i:23815243 original size:21 final size:21
Alignment explanation
Indices: 23815217--23815304 Score: 113
Period size: 21 Copynumber: 4.2 Consensus size: 21
23815207 CAAGAGAAAC
* *
23815217 AGAGGCGGCAGCGAGAGAAGT
1 AGAGGCTGCAGCGAGGGAAGT
* *
23815238 ACAGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGT
**
23815259 AGAGGCTATAGCGAGGGAAGT
1 AGAGGCTGCAGCGAGGGAAGT
*
23815280 AGAGGCTGCAGCGAGGGAAGC
1 AGAGGCTGCAGCGAGGGAAGT
23815301 AGAG
1 AGAG
23815305 CAGCGTCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.32, C:0.16, G:0.45, T:0.07
Consensus pattern (21 bp):
AGAGGCTGCAGCGAGGGAAGT
Found at i:23815263 original size:42 final size:42
Alignment explanation
Indices: 23815216--23815304 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
23815206 GCAAGAGAAA
*
23815216 CAGAGGCGGCAGCGAGAGAAGTACAGGCTGCAGCGAGGGAAG
1 CAGAGGCGACAGCGAGAGAAGTACAGGCTGCAGCGAGGGAAG
* * * *
23815258 CAGAGGCTATAGCGAGGGAAGTAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCGACAGCGAGAGAAGTACAGGCTGCAGCGAGGGAAG
23815300 CAGAG
1 CAGAG
23815305 CAGCGTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.17, G:0.45, T:0.07
Consensus pattern (42 bp):
CAGAGGCGACAGCGAGAGAAGTACAGGCTGCAGCGAGGGAAG
Found at i:23815879 original size:42 final size:43
Alignment explanation
Indices: 23815760--23815861 Score: 170
Period size: 43 Copynumber: 2.4 Consensus size: 43
23815750 CGTTTGTGGG
*
23815760 AAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCGC
1 AAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCAC
*
23815803 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTC-CAC
1 AAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCAC
*
23815845 TAAAGCGCCGCTAAAGA
1 AAAAGCGCCGCTAAAGA
23815862 TCTTAGTCTT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
42 17 0.31
43 38 0.69
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCAC
Found at i:23817089 original size:39 final size:39
Alignment explanation
Indices: 23816954--23817089 Score: 193
Period size: 39 Copynumber: 3.5 Consensus size: 39
23816944 ATCCACTTTT
* *
23816954 AAGCATATATCACATTACACATATAATCACATAACA-TC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * *
23816992 TAAGCATATATCACAATAATCATATAATTACATAACGTTC
1 -AAGCATATATCACAATACTCATATAATCACATAACATTC
23817032 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
23817071 AAGCATATGTCGCAATACT
1 AAGCATATATCACAATACT
23817090 AAAAAACATG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 84 0.98
40 2 0.02
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:23823367 original size:21 final size:21
Alignment explanation
Indices: 23823343--23823382 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23823333 TATCGAATAA
*
23823343 CAGATCATACTTATCATATTT
1 CAGATCATACTGATCATATTT
23823364 CAGATCATACTGATCATAT
1 CAGATCATACTGATCATAT
23823383 AACATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (21 bp):
CAGATCATACTGATCATATTT
Found at i:23824249 original size:20 final size:20
Alignment explanation
Indices: 23824213--23824250 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23824203 GGAAAGGGGA
*
23824213 ATGAGGAGAACGTGAGATAC
1 ATGAGGAGAAAGTGAGATAC
23824233 ATGAGAGAGAAAG-GAGAT
1 ATGAG-GAGAAAGTGAGAT
23824251 TTTTGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.45, C:0.05, G:0.37, T:0.13
Consensus pattern (20 bp):
ATGAGGAGAAAGTGAGATAC
Found at i:23824301 original size:21 final size:22
Alignment explanation
Indices: 23824271--23824321 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
23824261 AATAAAATAA
*
23824271 AAATAAAAATAAA-AAATATTT
1 AAATATAAATAAACAAATATTT
*
23824292 AAATATAAATAAACACATATTT
1 AAATATAAATAAACAAATATTT
*
23824314 ATATATAA
1 AAATATAA
23824322 TGTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATAAATAAACAAATATTT
Found at i:23824709 original size:70 final size:70
Alignment explanation
Indices: 23824596--23824736 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
23824586 CATCGGAACA
23824596 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
1 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
23824661 AAGAG
66 AAGAG
23824666 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
1 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
23824731 AAGAG
66 AAGAG
23824736 T
1 T
23824737 GTATAAAATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.45, C:0.06, G:0.27, T:0.22
Consensus pattern (70 bp):
TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
AAGAG
Found at i:23828369 original size:21 final size:21
Alignment explanation
Indices: 23828343--23828394 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
23828333 CTATCATCGG
23828343 AGGAGAAGAGTCGGCAAATTC
1 AGGAGAAGAGTCGGCAAATTC
23828364 AGGAGAAGAGTCGGCAAATTC
1 AGGAGAAGAGTCGGCAAATTC
* *
23828385 ATGTGAAGAG
1 AGGAGAAGAG
23828395 GTCACGTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGAGAAGAGTCGGCAAATTC
Found at i:23831990 original size:64 final size:64
Alignment explanation
Indices: 23831911--23832039 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
23831901 TTACAGGATG
*
23831911 CTACAGTTGTTGCCGGAGCAACTATAAATATTTAATAATCAATTTACACAATAATATATGCATT
1 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
23831975 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
1 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
23832039 C
1 C
23832040 ATATTCAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (64 bp):
CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
Found at i:23833316 original size:53 final size:53
Alignment explanation
Indices: 23833236--23833343 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
23833226 AATGAGTGTC
23833236 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
1 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
*
23833289 CATTTCAATTATTCATACATATTTATTTTGGTTTCATATTTACAATTTGTTAA
1 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
23833342 CA
1 CA
23833344 AGAGAATGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (53 bp):
CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
Found at i:23835246 original size:49 final size:49
Alignment explanation
Indices: 23835157--23835253 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
23835147 TGTGAATATT
* * *** *
23835157 GCGATACCATTGAAGGGTGGTCTCCGATCTTAGGTTTGTTGGAGGTATA
1 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTATA
*
23835206 GCGATACCATTGAAGGGTGGTCTTCAATCTCAGAACTGTTGGACGTAT
1 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTAT
23835254 TGTGATTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (49 bp):
GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTATA
Found at i:23836942 original size:19 final size:18
Alignment explanation
Indices: 23836888--23836942 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
23836878 AAAAATTTGA
23836888 AAATAAACACATAAAAAT
1 AAATAAACACATAAAAAT
*
23836906 AACATGAAACA-AGAAAAAAT
1 AA-AT-AAACACA-TAAAAAT
23836926 AAATAAAACACATAAAA
1 AAAT-AAACACATAAAA
23836943 CTATGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 14 0.47
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (18 bp):
AAATAAACACATAAAAAT
Found at i:23836942 original size:20 final size:19
Alignment explanation
Indices: 23836888--23836942 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
23836878 AAAAATTTGA
23836888 AAATAAACACAT-AAAAAT
1 AAATAAACACATAAAAAAT
*
23836906 AACATGAAACA-AGAAAAAAT
1 AA-AT-AAACACATAAAAAAT
23836926 AAATAAAACACATAAAA
1 AAAT-AAACACATAAAA
23836943 CTATGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 18 0.60
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (19 bp):
AAATAAACACATAAAAAAT
Found at i:23860489 original size:292 final size:292
Alignment explanation
Indices: 23859965--23860549 Score: 1170
Period size: 292 Copynumber: 2.0 Consensus size: 292
23859955 TGAGCAACTA
23859965 GTAGAATACTAAGTTGGACCTAATTGTAAAAGTCTAAAAATATAAAAATTTCAAGGAAAAAGTAA
1 GTAGAATACTAAGTTGGACCTAATTGTAAAAGTCTAAAAATATAAAAATTTCAAGGAAAAAGTAA
23860030 GAATTACACTTACTTGAAGCTAAAATATGAAAGACCAGCTCTAAACCCTCTTCCATGGTTGTTTC
66 GAATTACACTTACTTGAAGCTAAAATATGAAAGACCAGCTCTAAACCCTCTTCCATGGTTGTTTC
23860095 CCACCGAAAATTTAAGAAGAAATGGTAATTGAAATTCTTAAAATAAATTTTAGCCACATAAACTT
131 CCACCGAAAATTTAAGAAGAAATGGTAATTGAAATTCTTAAAATAAATTTTAGCCACATAAACTT
23860160 TATTGTAATTCCAATTTTGTCCTTAAATACATAAAAATCTTTGATTTTTTTAACGGTATGCCGTC
196 TATTGTAATTCCAATTTTGTCCTTAAATACATAAAAATCTTTGATTTTTTTAACGGTATGCCGTC
23860225 TCTGCCAGTTAAGTTGGTCCATTTACTCTTTT
261 TCTGCCAGTTAAGTTGGTCCATTTACTCTTTT
23860257 GTAGAATACTAAGTTGGACCTAATTGTAAAAGTCTAAAAATATAAAAATTTCAAGGAAAAAGTAA
1 GTAGAATACTAAGTTGGACCTAATTGTAAAAGTCTAAAAATATAAAAATTTCAAGGAAAAAGTAA
23860322 GAATTACACTTACTTGAAGCTAAAATATGAAAGACCAGCTCTAAACCCTCTTCCATGGTTGTTTC
66 GAATTACACTTACTTGAAGCTAAAATATGAAAGACCAGCTCTAAACCCTCTTCCATGGTTGTTTC
23860387 CCACCGAAAATTTAAGAAGAAATGGTAATTGAAATTCTTAAAATAAATTTTAGCCACATAAACTT
131 CCACCGAAAATTTAAGAAGAAATGGTAATTGAAATTCTTAAAATAAATTTTAGCCACATAAACTT
23860452 TATTGTAATTCCAATTTTGTCCTTAAATACATAAAAATCTTTGATTTTTTTAACGGTATGCCGTC
196 TATTGTAATTCCAATTTTGTCCTTAAATACATAAAAATCTTTGATTTTTTTAACGGTATGCCGTC
23860517 TCTGCCAGTTAAGTTGGTCCATTTACTCTTTT
261 TCTGCCAGTTAAGTTGGTCCATTTACTCTTTT
23860549 G
1 G
23860550 GTCCTTTCTT
Statistics
Matches: 293, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
292 293 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (292 bp):
GTAGAATACTAAGTTGGACCTAATTGTAAAAGTCTAAAAATATAAAAATTTCAAGGAAAAAGTAA
GAATTACACTTACTTGAAGCTAAAATATGAAAGACCAGCTCTAAACCCTCTTCCATGGTTGTTTC
CCACCGAAAATTTAAGAAGAAATGGTAATTGAAATTCTTAAAATAAATTTTAGCCACATAAACTT
TATTGTAATTCCAATTTTGTCCTTAAATACATAAAAATCTTTGATTTTTTTAACGGTATGCCGTC
TCTGCCAGTTAAGTTGGTCCATTTACTCTTTT
Found at i:23864608 original size:39 final size:38
Alignment explanation
Indices: 23864539--23864743 Score: 223
Period size: 39 Copynumber: 5.3 Consensus size: 38
23864529 TAATGGTCAT
* * *
23864539 TTGAGCA-ACTCTCAGTAGAATCAGTGGGTATGGCTCGA
1 TTGAGCATACTTTTAGTAGAAT-AGTAGGTATGGCTCGA
*
23864577 TTGAGCATACTTTTAGTAGAACTAGTAGGTATGGATCGA
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* * * *
23864616 TTGAGTATACTTTTATTAGAACCAGTAGGTATGGCTCGT
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* *
23864655 TTGAGCATACTTTTAGTAGAATTAGTGGGTATGGCTTGA
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* * * *
23864694 TTGAGCATACTTTCAGTGGAATCAGTAGGTATAGCTTGA
1 TTGAGCATACTTTTAGTAGAAT-AGTAGGTATGGCTCGA
*
23864733 TTGCGCATACT
1 TTGAGCATACT
23864744 ATCATACATT
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
38 8 0.06
39 134 0.94
40 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (38 bp):
TTGAGCATACTTTTAGTAGAATAGTAGGTATGGCTCGA
Found at i:23864649 original size:78 final size:78
Alignment explanation
Indices: 23864539--23864743 Score: 268
Period size: 78 Copynumber: 2.6 Consensus size: 78
23864529 TAATGGTCAT
* *
23864539 TTGAGCA-ACTCTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
23864603 AGGTATGGATCGA
66 AGGTATGGATCGA
* * * * * *
23864616 TTGAGTATACTTTTATTAGAACCAGTAGGTATGGCTCGTTTGAGCATACTTTTAGTAGAATTAGT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
* * *
23864681 GGGTATGGCTTGA
66 AGGTATGGATCGA
* * * *
23864694 TTGAGCATACTTTCAGTGGAATCAGTAGGTATAGCTTGATTGCGCATACT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACT
23864744 ATCATACATT
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
77 6 0.06
78 101 0.94
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (78 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
AGGTATGGATCGA
Found at i:23873223 original size:184 final size:184
Alignment explanation
Indices: 23872914--23873279 Score: 572
Period size: 184 Copynumber: 2.0 Consensus size: 184
23872904 TGCGAAAATT
* * *
23872914 ATTGTGTATTTATGATTTGGTATATTTATATTAATCTGTAGCTAACATCGACCTGGATTCCTCCA
1 ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
* * * *
23872979 AATGGAAAGGAAAAGATATAGTCATCGACAAATAGCTCTGAGTTTATGGTTTTTATTTCTATAAC
66 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
* *
23873044 CTGAACCTTTTAATTTGTTGCATTACGAAA-TGTGTTGCATGGTAATAACATATG
131 CTGAACCTTTTAATTTGCTGCATTAC-AAATTGCGTTGCATGGTAATAACATATG
* * * *
23873098 ATTGTGTTTTTATGATTTTGTATATTTATGTTAATCCGTAGCTAATATCGACATGGATTCCTCAA
1 ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
23873163 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
66 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
* * *
23873228 TTGAACCTTTTCATTTGCTGCATTACAAATTGCGTTTCATGGTAATAACATA
131 CTGAACCTTTTAATTTGCTGCATTACAAATTGCGTTGCATGGTAATAACATA
23873280 AGGTAAGCTG
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
183 3 0.02
184 162 0.98
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (184 bp):
ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
CTGAACCTTTTAATTTGCTGCATTACAAATTGCGTTGCATGGTAATAACATATG
Found at i:23874209 original size:22 final size:25
Alignment explanation
Indices: 23874174--23874222 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
23874164 TAAGTGATAG
23874174 TGAATGTGATATTTA-ATGTT-TAA
1 TGAATGTGATATTTAGATGTTCTAA
*
23874197 TGAAT-TGGTATTTAGATGTTCTAA
1 TGAATGTGATATTTAGATGTTCTAA
23874221 TG
1 TG
23874223 GTTGTGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TGAATGTGATATTTAGATGTTCTAA
Found at i:23886604 original size:20 final size:20
Alignment explanation
Indices: 23886579--23886619 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23886569 GGCTTTTCTT
23886579 AAACATTATTCTCTTGATTC
1 AAACATTATTCTCTTGATTC
23886599 AAACATTATTCTCTTGATTC
1 AAACATTATTCTCTTGATTC
23886619 A
1 A
23886620 TTATTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (20 bp):
AAACATTATTCTCTTGATTC
Found at i:23886623 original size:16 final size:17
Alignment explanation
Indices: 23886581--23886625 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
23886571 CTTTTCTTAA
23886581 ACATTATTCTCTTGATT
1 ACATTATTCTCTTGATT
23886598 CAAACATTATTCTCTTGATT
1 ---ACATTATTCTCTTGATT
23886618 -CATTATTC
1 ACATTATTC
23886626 ATGTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
20 17 0.68
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (17 bp):
ACATTATTCTCTTGATT
Found at i:23889230 original size:71 final size:71
Alignment explanation
Indices: 23889148--23889290 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
23889138 GTATGAATAC
*
23889148 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTATACGGGCTAGGTTGTAATATAGTTT
1 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
23889213 TTACAA
66 TTACAA
23889219 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
1 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
23889284 TTACAA
66 TTACAA
23889290 T
1 T
23889291 GAAGTAGGTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (71 bp):
TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
TTACAA
Found at i:23895394 original size:25 final size:25
Alignment explanation
Indices: 23895359--23895412 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
23895349 AAGTTAATGA
23895359 GTTACACGGCCTGACACACGGGCAT
1 GTTACACGGCCTGACACACGGGCAT
*
23895384 GTTACATGGCCTGACACACGGGCAT
1 GTTACACGGCCTGACACACGGGCAT
23895409 GTTA
1 GTTA
23895413 AGTGACCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (25 bp):
GTTACACGGCCTGACACACGGGCAT
Found at i:23897134 original size:9 final size:9
Alignment explanation
Indices: 23897110--23897155 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
23897100 TGAGTTTTTG
*
23897110 AATTCAAAT
1 AATTCGAAT
*
23897119 AACTCGAAT
1 AATTCGAAT
23897128 AATTCGAAT
1 AATTCGAAT
23897137 AATTCGAAT
1 AATTCGAAT
23897146 AATTCGAAT
1 AATTCGAAT
23897155 A
1 A
23897156 TTAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:23897238 original size:30 final size:30
Alignment explanation
Indices: 23897204--23897260 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
23897194 AAACCTTTTT
* *
23897204 ACTTTTCCCTCAAAACTTTTACTCCTTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTTCCC
23897234 ACTTTCCCCCCAAAACTTTTACTCCTT
1 ACTTTCCCCCCAAAACTTTTACTCCTT
23897261 TCTCCTCTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.39
Consensus pattern (30 bp):
ACTTTCCCCCCAAAACTTTTACTCCTTCCC
Found at i:23897423 original size:30 final size:31
Alignment explanation
Indices: 23897369--23897428 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
23897359 AAACCTTTTA
*
23897369 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
23897399 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
23897429 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:23900703 original size:42 final size:41
Alignment explanation
Indices: 23900595--23900703 Score: 157
Period size: 41 Copynumber: 2.6 Consensus size: 41
23900585 TTTAGGGCTA
23900595 TAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAACTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAACTTT
* *
23900636 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTC-AGGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGA-ACTTT
* *
23900677 TAGCGGCGTTTTTTCAAAAAGCGCCGC
1 TAGCGGCG-TTTTTGAGAAAGCGCCGC
23900704 AAAAACATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
40 1 0.02
41 45 0.74
42 15 0.25
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAACTTT
Found at i:23901270 original size:82 final size:81
Alignment explanation
Indices: 23901125--23901280 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
23901115 CGATGTTAGA
* *
23901125 TTAGGGTTTAGGGTTTAGATTAATTAGTGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
1 TTAGGATTTAGGGTTTAGATTAATTAATGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
*
23901190 GGGTTAGGGATCCGGG
66 GAGTTAGGGATCCGGG
* * * **
23901206 TTAGGATTTAGGGGTTT-GATTAATTAAT-ATTTTTAATTTATATATTAAATAAGGTTTAGGGGT
1 TTAGGATTTA-GGGTTTAGATTAATTAATGAGTTTTAATGT-T-TATGAAATAAGGTTTAAAGGT
*
23901269 TAGTAGTTAGGG
63 TAGGAGTTAGGG
23901281 GTTTGGGGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 9 0.14
81 20 0.32
82 34 0.54
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (81 bp):
TTAGGATTTAGGGTTTAGATTAATTAATGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
GAGTTAGGGATCCGGG
Found at i:23905233 original size:43 final size:43
Alignment explanation
Indices: 23905173--23905263 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
23905163 CTTTGAGTTC
* *
23905173 ATTA-CAAGATTTCCTTGATTAAGT-AAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAA-TAAAATGCATTATATCTTTT
* *
23905215 ATTACCAAGATTTACTTGATTAATAAAATGCATTCTATGTTTT
1 ATTACCAAGATTTACTTGATTAATAAAATGCATTATATCTTTT
23905258 ATTACC
1 ATTACC
23905264 TTACATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAATAAAATGCATTATATCTTTT
Found at i:23905507 original size:16 final size:16
Alignment explanation
Indices: 23905483--23905514 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23905473 ATTTATCATA
*
23905483 GAAATAAAAATTATTT
1 GAAAAAAAAATTATTT
23905499 GAAAAAAAAATTATTT
1 GAAAAAAAAATTATTT
23905515 TTTTGAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
GAAAAAAAAATTATTT
Found at i:23905876 original size:43 final size:43
Alignment explanation
Indices: 23905530--23905885 Score: 401
Period size: 43 Copynumber: 8.3 Consensus size: 43
23905520 AAGATATGTT
* * * *
23905530 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
** * ** * *
23905572 AATAGCAGCGTTTGTACGAAAATGCGTCGCTAAAGATC-TGTTC
1 TTTAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGATCATGGTC
* * * * *
23905615 TATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTTATGGAC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* **
23905658 TTTAGCGGCGTTTGTGGGGAAAGCGCCTTTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* * * * *
23905701 TTTAGCGGCGTTTATGGAAAAAGCGACGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* *
23905744 TTTAGCGGCGTTTGTGGGAAAAGTGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* * *
23905787 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
***
23905830 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATAACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
23905873 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
23905886 ATTTCTGAAA
Statistics
Matches: 262, Mismatches: 49, Indels: 5
0.83 0.16 0.02
Matches are distributed among these distances:
42 29 0.11
43 233 0.89
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
Found at i:23905974 original size:21 final size:21
Alignment explanation
Indices: 23905949--23905989 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
23905939 CAGGGCTTTG
*
23905949 AAAAGCGCCGCTAAAGGCCTA
1 AAAAGCGCCGCTAAAAGCCTA
23905970 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCGCTAAAAGCCT
23905990 GTTTTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.29, G:0.22, T:0.10
Consensus pattern (21 bp):
AAAAGCGCCGCTAAAAGCCTA
Found at i:23919147 original size:13 final size:13
Alignment explanation
Indices: 23919129--23919153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23919119 TTTTTTCTAA
23919129 ATATTATCACTAT
1 ATATTATCACTAT
23919142 ATATTATCACTA
1 ATATTATCACTA
23919154 AATAATTCAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTATCACTAT
Found at i:23921014 original size:13 final size:13
Alignment explanation
Indices: 23920996--23921021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23920986 AAGTTGGTTG
23920996 ATATTTAAATGTT
1 ATATTTAAATGTT
23921009 ATATTTAAATGTT
1 ATATTTAAATGTT
23921022 TTTGGTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTAAATGTT
Found at i:23922851 original size:23 final size:23
Alignment explanation
Indices: 23922841--23923160 Score: 280
Period size: 23 Copynumber: 13.9 Consensus size: 23
23922831 TGAAGTGTTG
**
23922841 TAACACAAAGCACAAAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ** * **
23922864 TATCATGAAGCACTGAAGTGTTA
1 TAACACAAAGCACCGAAGTGCAA
23922887 TAACACAAAGCACCGAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ***
23922910 TAACACGAAGCACCGAAGTGTTG
1 TAACACAAAGCACCGAAGTGCAA
**
23922933 TAACACAAAGCACAAAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ** * **
23922956 TATCATGAAGCACTGAAGTGTTA
1 TAACACAAAGCACCGAAGTGCAA
23922979 TAACACAAAGCACCGAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ***
23923002 TAACACGAAGCACCGAAGTGTTG
1 TAACACAAAGCACCGAAGTGCAA
**
23923025 TAACACAAAGCACAAAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ** * **
23923048 TATCATGAAGCACTGAAGTGTTA
1 TAACACAAAGCACCGAAGTGCAA
23923071 TAACACAAAGCACCGAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* ***
23923094 TAACACGAAGCACCGAAGTGTTG
1 TAACACAAAGCACCGAAGTGCAA
**
23923117 TAACACAAAGCACAAAAGTGCAA
1 TAACACAAAGCACCGAAGTGCAA
* *
23923140 TAACACGAAGCACTGAAGTGC
1 TAACACAAAGCACCGAAGTGC
23923161 TAAATTCACG
Statistics
Matches: 225, Mismatches: 72, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 225 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (23 bp):
TAACACAAAGCACCGAAGTGCAA
Found at i:23922891 original size:46 final size:46
Alignment explanation
Indices: 23922817--23923159 Score: 515
Period size: 46 Copynumber: 7.5 Consensus size: 46
23922807 AACATATCAG
*
23922817 ATAACATGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
* * * **
23922863 ATATCATGAAGCACTGAAGTGTTATAACACAAAGCACCGAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
*
23922909 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
* * * **
23922955 ATATCATGAAGCACTGAAGTGTTATAACACAAAGCACCGAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
*
23923001 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
* * * **
23923047 ATATCATGAAGCACTGAAGTGTTATAACACAAAGCACCGAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
*
23923093 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
23923139 ATAACACGAAGCACTGAAGTG
1 ATAACACGAAGCACTGAAGTG
23923160 CTAAATTCAC
Statistics
Matches: 262, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 262 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (46 bp):
ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
Found at i:23922974 original size:92 final size:92
Alignment explanation
Indices: 23922817--23923159 Score: 650
Period size: 92 Copynumber: 3.7 Consensus size: 92
23922807 AACATATCAG
* *
23922817 ATAACATGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
1 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
23922882 TGTTATAACACAAAGCACCGAAGTGCA
66 TGTTATAACACAAAGCACCGAAGTGCA
23922909 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
1 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
23922974 TGTTATAACACAAAGCACCGAAGTGCA
66 TGTTATAACACAAAGCACCGAAGTGCA
23923001 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
1 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
23923066 TGTTATAACACAAAGCACCGAAGTGCA
66 TGTTATAACACAAAGCACCGAAGTGCA
* *
23923093 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATAACACGAAGCACTGAAG
1 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
23923158 TG
66 TG
23923160 CTAAATTCAC
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 247 1.00
ACGTcount: A:0.44, C:0.20, G:0.20, T:0.16
Consensus pattern (92 bp):
ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCAATATCATGAAGCACTGAAG
TGTTATAACACAAAGCACCGAAGTGCA
Found at i:23924797 original size:50 final size:50
Alignment explanation
Indices: 23924742--23925720 Score: 1384
Period size: 50 Copynumber: 19.6 Consensus size: 50
23924732 CAATGTCATA
* * ** * *
23924742 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* ** *
23924792 TCCCAGACATGGTCTTACATGGAACCTCTCATCGCGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23924842 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23924892 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23924942 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23924992 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23925042 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23925092 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23925142 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23925192 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23925242 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23925292 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23925342 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23925392 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * *
23925442 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* ** *
23925492 TCCCAGACATGGTCTTACATGGAACCTCTCATCGCGGTGCCAACGTCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* *
23925542 TCCCAAACATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * * *
23925592 TCCCAGGCATGATCTTATATGGGACCTCTCATCTTGGTGGCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
* * *
23925642 TCCCAAACATGGTCTTACATGGGACCTC-CTATCTCGGTTCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTC-ATCTTGGTGCCAACGCCATG
23925692 TCCCAGACATGGTCTTACATGGGACCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
23925721 TTACCCAAAT
Statistics
Matches: 814, Mismatches: 113, Indels: 3
0.88 0.12 0.00
Matches are distributed among these distances:
49 1 0.00
50 813 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAACGCCATG
Found at i:23924856 original size:100 final size:100
Alignment explanation
Indices: 23924750--23925720 Score: 1667
Period size: 100 Copynumber: 9.7 Consensus size: 100
23924740 TATCCCAGAT
* ** * * * * *
23924750 ATGGTCTTACATGAGAGTTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGA
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
** * *
23924815 ACCTCTCATCGCGGTGCCAACGTCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23924850 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23924915 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23924950 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925015 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23925050 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925115 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23925150 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925215 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23925250 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925315 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23925350 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925415 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
* * * * * * *
23925450 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGA
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
** * *
23925515 ACCTCTCATCGCGGTGCCAACGTCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
23925550 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
1 ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
23925615 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
66 ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
* * * *
23925650 ATGGTCTTACATGGGACCTC-C-TATCTCGGTTCCAACGCCATGTCCCAGACATGGTCTTACATG
1 ATGGTCTTACATGGGACCTCTCATAT-T-GGTGCCAACGCCATGTCCCAGGCATGATCTTATATG
23925713 GGACCTCT
64 GGACCTCT
23925721 TTACCCAAAT
Statistics
Matches: 831, Mismatches: 38, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
98 3 0.00
99 2 0.00
100 826 0.99
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
ATGGTCTTACATGGGACCTCTCATATTGGTGCCAACGCCATGTCCCAGGCATGATCTTATATGGG
ACCTCTCATCTTGGTGGCAACGCCATGTCCCAAAC
Found at i:23929577 original size:25 final size:26
Alignment explanation
Indices: 23929529--23929578 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
23929519 CCTTCATAGA
23929529 AAGTCATTTACTATCAAACAAAAATC
1 AAGTCATTTACTATCAAACAAAAATC
* * *
23929555 AAGTCGTTTATTA-CAAAGAAAAAT
1 AAGTCATTTACTATCAAACAAAAAT
23929579 GACCTGTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (26 bp):
AAGTCATTTACTATCAAACAAAAATC
Found at i:23937233 original size:41 final size:41
Alignment explanation
Indices: 23937168--23937278 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
23937158 ACTAATTATA
* * *
23937168 CCCTGAATTGCACATACATCCCCCTTTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
** *
23937209 CTTTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
*
23937250 CCCTGAATAGCACATACGTGCCCCTGTTT
1 CCCTGAATTGCACATACGTGCCCCTGTTT
23937279 ACACTCCGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:23938797 original size:14 final size:13
Alignment explanation
Indices: 23938778--23938816 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
23938768 TAGTAATGTT
23938778 AAAGAAAGAAATAA
1 AAAGAAAGAAAT-A
23938792 AAAGAATA-AAATA
1 AAAGAA-AGAAATA
23938805 AAAGAAAGAAAT
1 AAAGAAAGAAAT
23938817 GCTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 10 0.43
15 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAGAAAGAAATA
Found at i:23947370 original size:3 final size:3
Alignment explanation
Indices: 23947362--23947394 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23947352 TTTAGAAAAG
23947362 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23947395 TGACTGCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23950591 original size:30 final size:30
Alignment explanation
Indices: 23950555--23950622 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
23950545 AAAGAGACCT
*
23950555 AGACTGATAACACC-CAGTTGAAGAAGGTCCA
1 AGACTGATAACACCTAAG-TGAAGAAGGT-CA
23950586 A-ACTGATAACACCTAAGTGAAGAAGGTCA
1 AGACTGATAACACCTAAGTGAAGAAGGTCA
23950615 AGACTGAT
1 AGACTGAT
23950623 CAAACCCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.82
31 3 0.09
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (30 bp):
AGACTGATAACACCTAAGTGAAGAAGGTCA
Found at i:23951464 original size:19 final size:19
Alignment explanation
Indices: 23951440--23951479 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
23951430 TGGCACAATA
23951440 ATCATCCTATCAATAAACG
1 ATCATCCTATCAATAAACG
23951459 ATCATCCTATCAATAAACG
1 ATCATCCTATCAATAAACG
23951478 AT
1 AT
23951480 TGAAGCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCATCCTATCAATAAACG
Found at i:23960430 original size:28 final size:28
Alignment explanation
Indices: 23960398--23960455 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
23960388 AGTAAATTTG
23960398 ATAATACTTCACTAAGTTACCTCTCCTA
1 ATAATACTTCACTAAGTTACCTCTCCTA
* *
23960426 ATAATACTTCGCTAAGTTACCTCTCTTA
1 ATAATACTTCACTAAGTTACCTCTCCTA
23960454 AT
1 AT
23960456 TGAGTGTCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (28 bp):
ATAATACTTCACTAAGTTACCTCTCCTA
Found at i:23961940 original size:202 final size:201
Alignment explanation
Indices: 23961594--23961996 Score: 752
Period size: 202 Copynumber: 2.0 Consensus size: 201
23961584 CATATAACTT
23961594 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
1 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
*
23961659 ATTTACTATAATTTCACCTTAATATCACTTTGTAATCAATACATTACTTATCATAAATCTTAAAT
66 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
* *
23961724 GTATATGTTTTTTTCATTGAAAAAATTTTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAG
131 GTATATGTTTTTTTCACTGAAAAAA-ATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAG
23961789 AAAATAC
195 AAAATAC
*
23961796 CTCTTGCTTCTATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
1 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
*
23961861 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATTCATTACTTATCATAAATCTTAAAT
66 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
23961926 GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
131 GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
23961991 AAATAC
196 AAATAC
23961997 TTTACATAGA
Statistics
Matches: 196, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
201 45 0.23
202 151 0.77
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (201 bp):
CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
AAATAC
Found at i:23965785 original size:423 final size:423
Alignment explanation
Indices: 23964936--23965781 Score: 1548
Period size: 423 Copynumber: 2.0 Consensus size: 423
23964926 GCATAACTTT
* * *
23964936 TGATTCTTAGCTTCGGATTAAAATTTGATTTCAAATACTCTCATTAGGGACCTTATACTTTCTAT
1 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
*
23965001 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTTGGTCCCTAATGTTACAAAACTAA
66 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
*
23965066 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATCTAAACTCAATATCTATCAATT
131 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
*
23965131 TCAAGATTAATTAATCAATTAATCAACATGGAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
196 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
23965196 CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
261 CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
*
23965261 TTTACCTTGAATTTTGCTTGTTGGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
326 TTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
23965326 TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
391 TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
23965359 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
1 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
* *
23965424 TTCTAGCATAATTTCATGACAAATTTTATATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
66 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
*
23965489 CAAACAAGCTTAACTAACTTTACAATTTAGTTATTTTCACAATATAAACTCAATATCTATCAATT
131 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
*
23965554 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAACAATTGATCAAATTG
196 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATC-AA--G
23965619 GTACATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGT
258 GTACATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGT
23965684 TTGTTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAA
323 TTGTTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAA
* *
23965749 CTATGGTGTATGGTTAAAAGATGGAGAAGAAGA
388 CTATGGTGGATGGTTAAAAGATAGAGAAGAAGA
23965782 TGATAAATTA
Statistics
Matches: 407, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
423 244 0.60
424 2 0.00
426 161 0.40
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (423 bp):
TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
TTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
Found at i:23976176 original size:28 final size:28
Alignment explanation
Indices: 23976113--23976235 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
23976103 ATATTAAGTC
*
23976113 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
23976140 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
23976168 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
23976196 CGCACACTTAGTGCTGTAAAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
23976225 CGCACACTTAG
1 CGCACACTTAG
23976236 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 48 0.56
29 15 0.18
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:23976183 original size:55 final size:57
Alignment explanation
Indices: 23976112--23976235 Score: 180
Period size: 55 Copynumber: 2.2 Consensus size: 57
23976102 TATATTAAGT
* * *
23976112 CCGCACACTCAGTGCTATATAATCAA-CTCGCACACTTAGTGCTATATAA-TCAAAC
1 CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATAAAATTCAAAC
* * *
23976167 TCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTGTAAAATTTAAAC
1 CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATAAAATTCAAAC
23976224 CCGCACACTTAG
1 CCGCACACTTAG
23976236 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 23 0.38
56 21 0.35
57 16 0.27
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (57 bp):
CCGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTATAAAATTCAAAC
Found at i:23976702 original size:14 final size:14
Alignment explanation
Indices: 23976683--23976712 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23976673 TGGGCATACT
*
23976683 TATGTATATGTATA
1 TATGTATATATATA
23976697 TATGTATATATATA
1 TATGTATATATATA
23976711 TA
1 TA
23976713 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:23978143 original size:22 final size:22
Alignment explanation
Indices: 23978083--23978143 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
23978073 GGGCTGTCAC
*
23978083 ATTTAGTATTATTAATCTTATGT
1 ATTTA-TATTATTAATTTTATGT
23978106 ATTTATATTATTAATTTTATGT
1 ATTTATATTATTAATTTTATGT
*
23978128 -GTTATTATTATTAATT
1 ATTTA-TATTATTAATT
23978144 AGTTTCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 27 0.77
23 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTATATTATTAATTTTATGT
Found at i:23981367 original size:41 final size:41
Alignment explanation
Indices: 23981322--23981460 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
23981312 GACCCAACAA
* ** * *
23981322 GCTTCGTGCCGGTGTATTGTGTCAAGCCTTGAGCCTAGCAG
1 GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
* *
23981363 GCTTCATGCCGGTGCATTGAATTAGGCCTTGAGCCTAGC-G
1 GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
* * **
23981403 AGCTTCGAGCCGGTGAATTGAATTAGGTCTTGAGCCTATAAG
1 -GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
23981445 GCTTCGTGCCGGTGAA
1 GCTTCGTGCCGGTGAA
23981461 CTATATTAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (41 bp):
GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
Found at i:23995061 original size:48 final size:48
Alignment explanation
Indices: 23995009--23995106 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 48
23994999 GATGTTGTAA
23995009 ATTTTAAATAAATATTAATTATATATGCTAG-AATGAAATATGCAAAAT
1 ATTTTAAATAAATATTAATTATATATG-TAGAAATGAAATATGCAAAAT
* *
23995057 ATTTTAAATAATTATTAATTATATATGTTGAAATGAAATATGCAAAAT
1 ATTTTAAATAAATATTAATTATATATGTAGAAATGAAATATGCAAAAT
23995105 AT
1 AT
23995107 ATATATAAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 2 0.04
48 45 0.96
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.40
Consensus pattern (48 bp):
ATTTTAAATAAATATTAATTATATATGTAGAAATGAAATATGCAAAAT
Found at i:23995106 original size:26 final size:24
Alignment explanation
Indices: 23995040--23995108 Score: 63
Period size: 26 Copynumber: 2.9 Consensus size: 24
23995030 TATATGCTAG
23995040 AATGAAATATGCAAAATAT-TTTA
1 AATGAAATATGCAAAATATATTTA
* * *
23995063 AAT-AATTAT-TAATTATATATGTTGA
1 AATGAAATATGCAA-AATATAT-TT-A
23995088 AATGAAATATGCAAAATATAT
1 AATGAAATATGCAAAATATAT
23995109 ATATAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 4 0.12
24 2 0.06
25 4 0.12
26 11 0.32
27 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.38
Consensus pattern (24 bp):
AATGAAATATGCAAAATATATTTA
Found at i:23995312 original size:41 final size:41
Alignment explanation
Indices: 23995229--23995328 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
23995219 CTATCTGATT
* * *
23995229 AGCACTAAGTGTGCG-AACTAAATGATGAGGTTGAATATCG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
23995269 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
23995310 AGCACTAAGTGTGTGAAAC
1 AGCACTAAGTGTGCGAAAC
23995329 CGAGATCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 39 0.72
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
Found at i:23996883 original size:200 final size:200
Alignment explanation
Indices: 23996648--23997047 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
23996638 GTGATTTTCG
23996648 GGCATGTAATAGCTTAAATTGTAAATATAAATGTTGGGTTAATTTTATTGTGATTCGGCAATAAT
1 GGCATGTAATAGCTTAAATTGTAAATATAAATGTTGGGTTAATTTTATTGTGATTCGGCAATAAT
23996713 GTTTTAATAGGTTGTTAATTGATTAGTTATATATATGATTTTACAATGTGTAATAATCATAAATT
66 GTTTTAATAGGTTGTTAATTGATTAGTTATATATATGATTTTACAATGTGTAATAATCATAAATT
23996778 GATTTGGTATTTGTACATATGAATTAAAATTATTTGAATTGATCTCATGATTATATTATAACATG
131 GATTTGGTATTTGTACATATGAATTAAAATTATTTGAATTGATCTCATGATTATATTATAACATG
23996843 TTGTA
196 TTGTA
23996848 GGCATGTAATAGCTTAAATTGTAAATATAAATGTTGGGTTAATTTTATTGTGATTCGGCAATAAT
1 GGCATGTAATAGCTTAAATTGTAAATATAAATGTTGGGTTAATTTTATTGTGATTCGGCAATAAT
23996913 GTTTTAATAGGTTGTTAATTGATTAGTTATATATATGATTTTACAATGTGTAATAATCATAAATT
66 GTTTTAATAGGTTGTTAATTGATTAGTTATATATATGATTTTACAATGTGTAATAATCATAAATT
23996978 GATTTGGTATTTGTACATATGAATTAAAATTATTTGAATTGATCTCATGATTATATTATAACATG
131 GATTTGGTATTTGTACATATGAATTAAAATTATTTGAATTGATCTCATGATTATATTATAACATG
23997043 TTGTA
196 TTGTA
23997048 TTGGTTATGC
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (200 bp):
GGCATGTAATAGCTTAAATTGTAAATATAAATGTTGGGTTAATTTTATTGTGATTCGGCAATAAT
GTTTTAATAGGTTGTTAATTGATTAGTTATATATATGATTTTACAATGTGTAATAATCATAAATT
GATTTGGTATTTGTACATATGAATTAAAATTATTTGAATTGATCTCATGATTATATTATAACATG
TTGTA
Found at i:24003323 original size:40 final size:41
Alignment explanation
Indices: 24003275--24003370 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
24003265 CTATCTGATT
* *
24003275 AGCACTAAGTGTGCG-AACTAAATGATGAGGTTGAAT-ATCG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAAT-G
*
24003315 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAATG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATG
*
24003356 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
24003371 GAACCGAGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.30
41 33 0.66
42 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATG
Found at i:24013512 original size:34 final size:38
Alignment explanation
Indices: 24013450--24013519 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 38
24013440 TTAATTCTTT
24013450 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
1 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
*
24013488 TTCTTTTA-TTTC-TTT-AGTTT-CCTTTTCTTTTT
1 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTT
24013520 GTTTTCTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.39
35 4 0.13
36 3 0.10
37 4 0.13
38 8 0.26
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (38 bp):
TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
Found at i:24018371 original size:18 final size:19
Alignment explanation
Indices: 24018350--24018395 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
24018340 ATATAATTTT
*
24018350 AAAAATATAT-AATACATC
1 AAAAATATATAAAAACATC
24018368 AAAAATAT-TAAAAACATC
1 AAAAATATATAAAAACATC
*
24018386 AAAAAAATAT
1 AAAAATATAT
24018396 TTCCCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATATATAAAAACATC
Found at i:24018514 original size:30 final size:30
Alignment explanation
Indices: 24018470--24018532 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
24018460 ACTTAACAAG
24018470 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
24018500 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
24018530 CAA
1 CAA
24018533 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:24021455 original size:42 final size:41
Alignment explanation
Indices: 24021301--24021456 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
24021291 TATGTTATCG
*
24021301 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
24021343 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
24021387 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
24021429 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
24021457 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:24028766 original size:28 final size:28
Alignment explanation
Indices: 24028726--24028807 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
24028716 ACATGCCAAA
*
24028726 AAAAAGGAAGCCTCTATGGAAATCTAAG
1 AAAAAGGAAGCCTTTATGGAAATCTAAG
* **
24028754 AAAAAGGAAGCCTTTGTGGCGATCTAAG
1 AAAAAGGAAGCCTTTATGGAAATCTAAG
* *
24028782 AAAATGGAAACCTTTATGGCAAATCT
1 AAAAAGGAAGCCTTTATGG-AAATCT
24028808 GGTAAAGGAC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 40 0.91
29 4 0.09
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (28 bp):
AAAAAGGAAGCCTTTATGGAAATCTAAG
Found at i:24033212 original size:23 final size:23
Alignment explanation
Indices: 24033180--24033223 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24033170 AATATTCGGT
* * *
24033180 ATATGTATTTGATAAGTATATAC
1 ATATGCATTTGAAAAGAATATAC
24033203 ATATGCATTTGAAAAGAATAT
1 ATATGCATTTGAAAAGAATAT
24033224 GCCTCTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
ATATGCATTTGAAAAGAATATAC
Found at i:24045074 original size:15 final size:14
Alignment explanation
Indices: 24045050--24045092 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
24045040 GATTTCTTAT
*
24045050 TTTTCATTTATTTAC
1 TTTTCTTTTATTT-C
24045065 TTTTCTTTTATTTC
1 TTTTCTTTTATTTC
*
24045079 CTTTCTTATTATTT
1 TTTTCTT-TTATTT
24045093 TTAGTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTATTTC
Found at i:24045077 original size:19 final size:19
Alignment explanation
Indices: 24045034--24045093 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
24045024 AAATATTTGA
24045034 TTATTTGATTTCTTATTTT
1 TTATTTGATTTCTTATTTT
*
24045053 TCATTT-ATTTACTT-TTCTT
1 TTATTTGATTT-CTTATT-TT
**
24045072 TTATTTCCTTTCTTATTATT
1 TTATTTGATTTCTTATT-TT
24045092 TT
1 TT
24045094 TAGTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 6 0.18
19 18 0.55
20 9 0.27
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTTGATTTCTTATTTT
Found at i:24058068 original size:94 final size:93
Alignment explanation
Indices: 24057907--24058093 Score: 365
Period size: 94 Copynumber: 2.0 Consensus size: 93
24057897 ATATCTCACA
24057907 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
1 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
24057972 TTTACATGGTTTCTTTCATGTTATTTATT
66 TTTACA-GGTTTCTTTCATGTTATTTATT
24058001 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
1 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
24058066 TTTACAGGTTTCTTTCATGTTATTTATT
66 TTTACAGGTTTCTTTCATGTTATTTATT
24058094 TCTTTATATC
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 22 0.24
94 71 0.76
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (93 bp):
GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
TTTACAGGTTTCTTTCATGTTATTTATT
Found at i:24059291 original size:36 final size:35
Alignment explanation
Indices: 24059222--24059291 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
24059212 GGATTTTTAT
*
24059222 TTAATTTAATATTAATATAATTATATTTTTTATTA
1 TTAATTTAATATTAATATAATTATATTTATTATTA
24059257 TTAATGTTAATATTAATATAA--A-ATTTATTATTA
1 TTAAT-TTAATATTAATATAATTATATTTATTATTA
24059290 TT
1 TT
24059292 GAAAGTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 12 0.36
34 1 0.03
35 5 0.15
36 15 0.45
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (35 bp):
TTAATTTAATATTAATATAATTATATTTATTATTA
Found at i:24061693 original size:30 final size:29
Alignment explanation
Indices: 24061657--24061717 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
24061647 TAATCGACCC
*
24061657 AACCAATCTAATCTGGTTAATCGGTTAGTT
1 AACCAATCTAATCTGGTTAA-AGGTTAGTT
* * *
24061687 AACCAATTTAGTTTGGTTAAAGGTTAGTT
1 AACCAATCTAATCTGGTTAAAGGTTAGTT
24061716 AA
1 AA
24061718 AAGTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (29 bp):
AACCAATCTAATCTGGTTAAAGGTTAGTT
Found at i:24068352 original size:21 final size:22
Alignment explanation
Indices: 24068311--24068354 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
24068301 AATATTCGTT
*
24068311 AAAAAAGAATAAATATGTACATA
1 AAAAAACAATAAATA-GTACATA
24068334 AAAAAACAATAAATA-TACATA
1 AAAAAACAATAAATAGTACATA
24068355 TATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAAACAATAAATAGTACATA
Found at i:24068375 original size:17 final size:16
Alignment explanation
Indices: 24068355--24068386 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24068345 AATATACATA
24068355 TATATAAAATAATTACG
1 TATATAAAA-AATTACG
24068372 TATATAAAAAATTAC
1 TATATAAAAAATTAC
24068387 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TATATAAAAAATTACG
Found at i:24070186 original size:45 final size:45
Alignment explanation
Indices: 24070091--24070384 Score: 191
Period size: 45 Copynumber: 6.7 Consensus size: 45
24070081 CTCTAATTCA
* * * * * * *
24070091 CTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * ** *
24070135 CCCCACTACAGTTTCATGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCA-GGGAGATAAGACTCGCTTTCTTGAGTCTG
*
24070180 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * *
24070225 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * * *
24070266 CT-CTCTTCAACTTCAGAGAGATAAGA-TCTG-TGATT-TT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTC-GCT--TTCTTGAGTCTG
* * ** * * *
24070309 CTCCTCTGCAACTTCAGGGAGAT-AGAAT-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TCTTGAGTCTG
* *
24070353 CTCCACTGCAACTTTAGGGAGATAAGATTCGC
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGC
24070385 CATTTTCAGT
Statistics
Matches: 200, Mismatches: 33, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
39 1 0.00
40 22 0.11
41 7 0.04
42 3 0.01
43 12 0.06
44 72 0.36
45 83 0.41
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
Found at i:24070325 original size:44 final size:42
Alignment explanation
Indices: 24070176--24070380 Score: 173
Period size: 44 Copynumber: 4.8 Consensus size: 42
24070166 CTTTCTTGAG
** ***
24070176 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--CTTGATTTAA
* ***
24070221 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTGATTTAA
* * *
24070262 TCTGCT-CTCTTCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TGA-TTTAA
* * *
24070305 TCTGCTCCTCTGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-A-TCTT-GATTTAA
*
24070349 TCTGCTCCACTGCAACTTTAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
24070381 TCGCCATTTT
Statistics
Matches: 133, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
40 21 0.16
41 12 0.09
42 2 0.02
43 11 0.08
44 51 0.38
45 36 0.27
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTGATTTAA
Found at i:24070777 original size:50 final size:49
Alignment explanation
Indices: 24070672--24070777 Score: 113
Period size: 50 Copynumber: 2.1 Consensus size: 49
24070662 CGCCAGGGAG
* * *
24070672 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGA
1 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGGCA
* ** * * *
24070721 AGTAAGATTTGCCGTCGTGGCTTCAATCTTTTCCATTGCAATGTCAAGGCA
1 A-TAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACG-CAAGGCA
24070772 ATAAGA
1 ATAAGA
24070778 CTAATATCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 39 0.85
51 6 0.13
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (49 bp):
ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGGCA
Found at i:24070847 original size:45 final size:45
Alignment explanation
Indices: 24070798--24070935 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
24070788 CAATTTGCTT
* * *
24070798 CACTGCCAGCACAGGAAGGCGAGATCTGCTATCTTCAACCTACTC
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
* * * * * * * *
24070843 CACTG-CTGTTCAGGGAGACAAG-GCTGATATCTTCGATCTACTT
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
* *
24070886 CACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
24070931 CACTG
1 CACTG
24070936 TTGCTCAGGG
Statistics
Matches: 70, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 21 0.30
44 24 0.34
45 25 0.36
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
Found at i:24070884 original size:43 final size:43
Alignment explanation
Indices: 24070827--24070957 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 43
24070817 CGAGATCTGC
24070827 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
1 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
* * * ** * * * *
24070870 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCAACCTACTCCACTG-CTGTTCAGGGAGACAAG-GCTGA
* * * *
24070915 TATTTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGCTGA
1 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
24070958 AGTTTCACCG
Statistics
Matches: 64, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
43 21 0.33
44 23 0.36
45 20 0.31
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
Found at i:24070891 original size:88 final size:88
Alignment explanation
Indices: 24070781--24070957 Score: 255
Period size: 88 Copynumber: 2.0 Consensus size: 88
24070771 AATAAGACTA
* * * * *
24070781 ATATCTTCAATTTGCTTCACTGCCAGCACAGGAAGGCGAGATCTGCTATCTTCAACCTACTCCAC
1 ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
*
24070846 TGCTGTTCAGGGAGACAAGGCTG
66 TGCTGCTCAGGGAGACAAGGCTG
* * *
24070869 ATATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCAC
1 ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
* *
24070934 TGTTGCTCAGGGAGATAAGGCTG
66 TGCTGCTCAGGGAGACAAGGCTG
24070957 A
1 A
24070958 AGTTTCACCG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (88 bp):
ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
TGCTGCTCAGGGAGACAAGGCTG
Found at i:24083067 original size:23 final size:23
Alignment explanation
Indices: 24083034--24083082 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
24083024 AATATTCGTT
* *
24083034 AAAAAAGAATAAATATGTACATA
1 AAAAAACAATAAATATATACATA
*
24083057 AAAAAACAATAAATATATATATA
1 AAAAAACAATAAATATATACATA
24083080 AAA
1 AAA
24083083 TAATTACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAAACAATAAATATATACATA
Found at i:24083094 original size:17 final size:16
Alignment explanation
Indices: 24083074--24083105 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24083064 AATAAATATA
24083074 TATATAAAATAATTACG
1 TATATAAAA-AATTACG
24083091 TATATAAAAAATTAC
1 TATATAAAAAATTAC
24083106 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TATATAAAAAATTACG
Found at i:24084283 original size:9 final size:10
Alignment explanation
Indices: 24084252--24084283 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
24084242 AGGTATTACA
24084252 AAAATCATAC
1 AAAATCATAC
24084262 AAAATCATA-
1 AAAATCATAC
24084271 AAAAT-ATAC
1 AAAATCATAC
24084280 AAAA
1 AAAA
24084284 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 9 0.43
10 9 0.43
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATCATAC
Found at i:24084361 original size:28 final size:27
Alignment explanation
Indices: 24084307--24084396 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
24084297 TATTAATAAA
* * *
24084307 TATAAAAATATAGAAAAGTGCACAAATT
1 TATAAAAATATA-AAAATTACAAAAATT
*
24084335 TATAAAATTATTAAAAATTACAAAAATAT
1 TATAAAAATA-TAAAAATTACAAAAAT-T
* * *
24084364 TTTAAAAATATATAAATTACAAATATT
1 TATAAAAATATAAAAATTACAAAAATT
24084391 TATAAA
1 TATAAA
24084397 TTACAAAAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 6 0.12
28 34 0.67
29 11 0.22
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (27 bp):
TATAAAAATATAAAAATTACAAAAATT
Found at i:24084380 original size:19 final size:20
Alignment explanation
Indices: 24084330--24084380 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
24084320 AAAAGTGCAC
*
24084330 AAATTTATAAA-ATTATTAA
1 AAATATATAAATATTATTAA
* *
24084349 AAATTACAAAAATATT-TTAA
1 AAA-TATATAAATATTATTAA
24084369 AAATATATAAAT
1 AAATATATAAAT
24084381 TACAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATAAATATTATTAA
Found at i:24084389 original size:15 final size:16
Alignment explanation
Indices: 24084369--24084403 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
24084359 AATATTTTAA
24084369 AAATA-TATAAATTAC
1 AAATATTATAAATTAC
24084384 AAATATTTATAAATTAC
1 AAATA-TTATAAATTAC
24084401 AAA
1 AAA
24084404 AGCTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
17 13 0.72
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATTATAAATTAC
Found at i:24084570 original size:11 final size:11
Alignment explanation
Indices: 24084544--24084590 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
24084534 GGGGTTTAAG
*
24084544 AAAAATTATTT
1 AAAAATTATTA
24084555 AAAAATTATTA
1 AAAAATTATTA
*
24084566 AAAAAAT-TTA
1 AAAAATTATTA
24084576 CAAAATATTATTA
1 -AAAA-ATTATTA
24084589 AA
1 AA
24084591 TATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 3 0.10
11 20 0.67
12 4 0.13
13 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:24084649 original size:23 final size:23
Alignment explanation
Indices: 24084544--24084649 Score: 60
Period size: 23 Copynumber: 4.6 Consensus size: 23
24084534 GGGGTTTAAG
*
24084544 AAAAATTATTTAAAAAT-TAT-TAA
1 AAAAATTA-TAAAAAATATATAT-A
* *
24084567 AAAAATT-TACAAAATAT-TATT
1 AAAAATTATAAAAAATATATATA
* *
24084588 AAATATTATAAAAACATA-AAATTA
1 AAAAATTATAAAAA-ATATATA-TA
* * *
24084612 CAAAATAGATTAAAAATATATATA
1 AAAAAT-TATAAAAAATATATATA
24084636 AAAAATTATAAAAA
1 AAAAATTATAAAAA
24084650 CCATTTTTTA
Statistics
Matches: 60, Mismatches: 15, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
21 13 0.22
22 7 0.12
23 17 0.28
24 15 0.25
25 8 0.13
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (23 bp):
AAAAATTATAAAAAATATATATA
Found at i:24092983 original size:35 final size:33
Alignment explanation
Indices: 24092932--24093045 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 33
24092922 ATAGTGAGCT
* * *
24092932 CAGCTCTAGTTGGATAAACCAACGATATTTACGCC
1 CAGCACTAGTTCGATAAACCAACGATATGT--GCC
* **
24092967 CAGCACTAGTTCGATAAACCGACGAATATGTGTT
1 CAGCACTAGTTCGATAAACCAACG-ATATGTGCC
* * **
24093001 CAGCACTAGTTTGATAAACCCACGAATATGTGTT
1 CAGCACTAGTTCGATAAACCAACG-ATATGTGCC
24093035 CAGCACTAGTT
1 CAGCACTAGTT
24093046 AGAGAAACTG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 44 0.63
35 21 0.30
36 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (33 bp):
CAGCACTAGTTCGATAAACCAACGATATGTGCC
Found at i:24093010 original size:34 final size:34
Alignment explanation
Indices: 24092967--24093060 Score: 143
Period size: 34 Copynumber: 2.8 Consensus size: 34
24092957 TATTTACGCC
*
24092967 CAGCACTAGTTCGATAAACCGACGAATATGTGTT
1 CAGCACTAGTTAGATAAACCGACGAATATGTGTT
* *
24093001 CAGCACTAGTTTGATAAACCCACGAATATGTGTT
1 CAGCACTAGTTAGATAAACCGACGAATATGTGTT
* *
24093035 CAGCACTAGTTAGAGAAACTGACGAA
1 CAGCACTAGTTAGATAAACCGACGAA
24093061 AGTTACGCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (34 bp):
CAGCACTAGTTAGATAAACCGACGAATATGTGTT
Found at i:24093523 original size:13 final size:13
Alignment explanation
Indices: 24093507--24093532 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24093497 ACCTTATATC
24093507 ATAGTTTTATACA
1 ATAGTTTTATACA
24093520 ATAGTTTTATACA
1 ATAGTTTTATACA
24093533 TTCACTATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATAGTTTTATACA
Found at i:24095915 original size:26 final size:26
Alignment explanation
Indices: 24095879--24095973 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
24095869 AAAACATCAG
* *
24095879 AAAATTGAAGCCTTTGTGGCATATTT
1 AAAATGGAAGCCTTTGTGGCATATCT
*
24095905 AAAATGGAAG-CTTCTGTAGCATATCT
1 AAAATGGAAGCCTT-TGTGGCATATCT
* * * *
24095931 GAAATGGAAACCTTTATGGCGTATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
*
24095957 GAAATGGAAGCCTTTGT
1 AAAATGGAAGCCTTTGT
24095974 AGTGTGTATG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.05
26 51 0.89
27 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCATATCT
Found at i:24099633 original size:7 final size:7
Alignment explanation
Indices: 24099623--24099660 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
24099613 TTAAAGGTTA
*
24099623 AAAGATG
1 AAAGAAG
24099630 AAAGAAG
1 AAAGAAG
24099637 AAAGAAG
1 AAAGAAG
24099644 AAAGAAG
1 AAAGAAG
24099651 AAAGAAG
1 AAAGAAG
24099658 AAA
1 AAA
24099661 AGATTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (7 bp):
AAAGAAG
Found at i:24101419 original size:46 final size:43
Alignment explanation
Indices: 24101347--24101445 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
24101337 TACTATGTGA
*
24101347 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
24101390 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTTCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
24101436 ACCGTGTATC
1 ACCG-GTATC
24101446 TGTTTTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:24108103 original size:21 final size:22
Alignment explanation
Indices: 24108077--24108133 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
24108067 AACAATGGTG
*
24108077 GTGGTGAGATTAG-TTACTGTA
1 GTGGTGAGATTAGAATACTGTA
24108098 GTGGTGAGATT-GAATACTGTA
1 GTGGTGAGATTAGAATACTGTA
*
24108119 GCGGTGAGATTAGAA
1 GTGGTGAGATTAGAA
24108134 ATAGCGGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.32
Consensus pattern (22 bp):
GTGGTGAGATTAGAATACTGTA
Found at i:24116798 original size:17 final size:18
Alignment explanation
Indices: 24116773--24116809 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
24116763 GTTTTATTGA
*
24116773 TTTCATTGTTTGTTTATT
1 TTTCATTGTTTATTTATT
24116791 TTTC-TTGTTTATTTATT
1 TTTCATTGTTTATTTATT
24116808 TT
1 TT
24116810 CGTTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTCATTGTTTATTTATT
Found at i:24117237 original size:19 final size:18
Alignment explanation
Indices: 24117205--24117240 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
24117195 TTTATTTTTA
24117205 TTTTTATTTTTTAATTTC
1 TTTTTATTTTTTAATTTC
24117223 TTTTTAATTTTTTAATTT
1 TTTTT-ATTTTTTAATTT
24117241 GTTTATGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTAATTTC
Found at i:24119927 original size:28 final size:28
Alignment explanation
Indices: 24119896--24119950 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
24119886 TTATAAGACA
24119896 TGTTGATTGAGAAAACT-CAATTGATTGT
1 TGTTGATTGAGAAAA-TGCAATTGATTGT
* *
24119924 TGTTGATTGTGAATATGCAATTGATTG
1 TGTTGATTGAGAAAATGCAATTGATTG
24119951 ATTGAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (28 bp):
TGTTGATTGAGAAAATGCAATTGATTGT
Found at i:24123201 original size:11 final size:11
Alignment explanation
Indices: 24123187--24123216 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
24123177 TGGACTTTTA
24123187 TTATATTTATT
1 TTATATTTATT
*
24123198 TTATATATATT
1 TTATATTTATT
24123209 TTATATTT
1 TTATATTT
24123217 GGGTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTTATT
Found at i:24123599 original size:50 final size:51
Alignment explanation
Indices: 24123466--24123611 Score: 136
Period size: 50 Copynumber: 2.9 Consensus size: 51
24123456 GTAACTCGTA
* *
24123466 ACTGTAATGTCAGGGAAGCAAGGTTCACCATTGTAGCTTTAATCTGTTCCG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCG
* * * * * * * * *
24123517 -CTGCATTATCTGGGAAGTAATATTTGCTATTGTAGCTTTAATC--TTCTTG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTC-CG
* * *
24123566 ACTGTAATGTCGGGGACGCAAGATTCGCCATTGTGGCTTTAATCTG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTG
24123612 CTCCACTACA
Statistics
Matches: 70, Mismatches: 21, Indels: 7
0.71 0.21 0.07
Matches are distributed among these distances:
48 3 0.04
49 1 0.01
50 66 0.94
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (51 bp):
ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCG
Found at i:24136496 original size:10 final size:10
Alignment explanation
Indices: 24136481--24136505 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24136471 TCAGTCCCAA
24136481 TTTTCACCTC
1 TTTTCACCTC
24136491 TTTTCACCTC
1 TTTTCACCTC
24136501 TTTTC
1 TTTTC
24136506 CTTCCTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.36, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTCACCTC
Found at i:24144638 original size:22 final size:19
Alignment explanation
Indices: 24144595--24144638 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
24144585 AATTTATTAC
*
24144595 AATTTAAACTATAATAATA
1 AATTTAAACTATAAAAATA
24144614 AATTTAAACACTATTAAAAATA
1 AATTT-AA-ACTA-TAAAAATA
24144636 AAT
1 AAT
24144639 ATTACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 4 0.19
22 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTTAAACTATAAAAATA
Found at i:24151108 original size:16 final size:16
Alignment explanation
Indices: 24151087--24151120 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24151077 CCAATATCCA
* *
24151087 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
24151103 ATTATCACATTTACAC
1 ATTATCACATTTACAC
24151119 AT
1 AT
24151121 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:24151197 original size:20 final size:19
Alignment explanation
Indices: 24151167--24151207 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
24151157 TAATATATAT
24151167 ATCAATTTAA-TCCATTTCA
1 ATCAATTTAATTCCA-TTCA
24151186 ATCAACTTTAATTCCATTCA
1 ATCAA-TTTAATTCCATTCA
24151206 AT
1 AT
24151208 ATTAAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (19 bp):
ATCAATTTAATTCCATTCA
Found at i:24156269 original size:15 final size:15
Alignment explanation
Indices: 24156246--24156275 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24156236 AAAAAATTTA
24156246 ATTTAATTTTGTTTT
1 ATTTAATTTTGTTTT
*
24156261 ATTTTATTTTGTTTT
1 ATTTAATTTTGTTTT
24156276 TAGTAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
ATTTAATTTTGTTTT
Found at i:24163115 original size:30 final size:30
Alignment explanation
Indices: 24163081--24163143 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
24163071 TAAAAACACC
*
24163081 TTAGAAACATTTGGAAAGTCAAAGAAAACG
1 TTAGAAAAATTTGGAAAGTCAAAGAAAACG
**
24163111 TTAGAAAAATTTGGAAAGTTGAAGAAAACG
1 TTAGAAAAATTTGGAAAGTCAAAGAAAACG
24163141 TTA
1 TTA
24163144 CAACTCTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (30 bp):
TTAGAAAAATTTGGAAAGTCAAAGAAAACG
Found at i:24167342 original size:39 final size:39
Alignment explanation
Indices: 24167297--24167374 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
24167287 ACCATTTTTC
*
24167297 AACATACTTCTTTTTAAACTCGGTCTGAACAAAACCCTA
1 AACATACTTCTTTTTAAACTCAGTCTGAACAAAACCCTA
*
24167336 AACATACTTCTTTTTAAACTCAGTCTGAACGAAACCCTA
1 AACATACTTCTTTTTAAACTCAGTCTGAACAAAACCCTA
24167375 GGAAACTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (39 bp):
AACATACTTCTTTTTAAACTCAGTCTGAACAAAACCCTA
Found at i:24169279 original size:35 final size:35
Alignment explanation
Indices: 24169222--24169370 Score: 145
Period size: 35 Copynumber: 4.2 Consensus size: 35
24169212 AATCTAACCA
*
24169222 AAACACACTAGATGCTCATAAGAGCCAATCCATCTG
1 AAACACACTA-ATGCTCATAAGAGCCAATCCATCCG
** * *
24169258 AAACACACTAATGCTTGTAAGAGCTAATCCCTCCG
1 AAACACACTAATGCTCATAAGAGCCAATCCATCCG
* * * * *
24169293 AAACACACCAATGCTCATTAGAGCTAATCCGTCCA
1 AAACACACTAATGCTCATAAGAGCCAATCCATCCG
* * * * * *
24169328 AAACACACCAATGCTCATAACAGCTAGTCTAACCG
1 AAACACACTAATGCTCATAAGAGCCAATCCATCCG
24169363 AAACACAC
1 AAACACAC
24169371 CAAAACAGAG
Statistics
Matches: 95, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 85 0.89
36 10 0.11
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACTAATGCTCATAAGAGCCAATCCATCCG
Found at i:24169353 original size:70 final size:70
Alignment explanation
Indices: 24169212--24169373 Score: 171
Period size: 70 Copynumber: 2.3 Consensus size: 70
24169202 AGTACTCAAC
* * * ** * **
24169212 AATCTAACCAAAACACACTAGATGCTCATAAGAGCCAATCCATCTGAAACACACTAATGCTTGTA
1 AATCCAACCGAAACACACCA-ATGCTCATAAGAGCCAATCCATCCAAAACACACCAATGCTCATA
*
24169277 AGAGCT
65 ACAGCT
** * * *
24169283 AATCCCTCCGAAACACACCAATGCTCATTAGAGCTAATCCGTCCAAAACACACCAATGCTCATAA
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCCAATCCATCCAAAACACACCAATGCTCATAA
24169348 CAGCT
66 CAGCT
* *
24169353 AGTCTAACCGAAACACACCAA
1 AATCCAACCGAAACACACCAA
24169374 AACAGAGAGT
Statistics
Matches: 73, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
70 58 0.79
71 15 0.21
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (70 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCCAATCCATCCAAAACACACCAATGCTCATAA
CAGCT
Found at i:24174636 original size:19 final size:18
Alignment explanation
Indices: 24174614--24174652 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
24174604 GAAATAAATT
24174614 AAAATAATTAATTAAGATAA
1 AAAATAA-TAATTAA-ATAA
24174634 AAAATAATAATTAAATAA
1 AAAATAATAATTAAATAA
24174652 A
1 A
24174653 TCAAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATAATAATTAAATAA
Found at i:24175692 original size:2 final size:2
Alignment explanation
Indices: 24175685--24175710 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24175675 TTTAAAAATG
24175685 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
24175711 AAGCAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24177343 original size:29 final size:29
Alignment explanation
Indices: 24177284--24177344 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
24177274 GTTTTAATTC
* *
24177284 TTTTCATAATTTTATGTTTTTAAATATAA
1 TTTTCATAATTTTATGTTTTCAAATAAAA
* * **
24177313 TTTTTATATTTTTATGTTTTCATTTAAAA
1 TTTTCATAATTTTATGTTTTCAAATAAAA
24177342 TTT
1 TTT
24177345 AACATTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTCATAATTTTATGTTTTCAAATAAAA
Found at i:24177778 original size:7 final size:7
Alignment explanation
Indices: 24177762--24177803 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
24177752 CGAATATAGG
24177762 GTTTCCA
1 GTTTCCA
*
24177769 GTTTCTA
1 GTTTCCA
24177776 GTTTCCA
1 GTTTCCA
24177783 GTTTCCA
1 GTTTCCA
24177790 GTTTCCA
1 GTTTCCA
24177797 GTTTCCA
1 GTTTCCA
24177804 TTCCCCGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.45
Consensus pattern (7 bp):
GTTTCCA
Found at i:24180437 original size:15 final size:16
Alignment explanation
Indices: 24180417--24180449 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24180407 TAAAAAACTA
24180417 ATAAAATAAAT-TTTT
1 ATAAAATAAATATTTT
*
24180432 ATAAAATCAATATTTT
1 ATAAAATAAATATTTT
24180448 AT
1 AT
24180450 TGGTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATAAATATTTT
Found at i:24185194 original size:24 final size:24
Alignment explanation
Indices: 24185167--24185216 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24185157 TAACAAAGTA
24185167 CATAATTTGTAATAGGTATCAAAT
1 CATAATTTGTAATAGGTATCAAAT
24185191 CATAATTTGTAATAGGTATCAAAT
1 CATAATTTGTAATAGGTATCAAAT
24185215 CA
1 CA
24185217 CATACGTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (24 bp):
CATAATTTGTAATAGGTATCAAAT
Found at i:24185440 original size:42 final size:42
Alignment explanation
Indices: 24185346--24185440 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
24185336 GCTAGGCTCA
*
24185346 AGCCTGATAAAAATTCACCGGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
* *
24185388 AGTCTGATATAAATTCACCTGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
* *
24185430 GGCCTCATATA
1 AGCCTGATATA
24185441 TCACACTAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (42 bp):
AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
Found at i:24194711 original size:24 final size:23
Alignment explanation
Indices: 24194677--24194723 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
24194667 TCAAACTTTT
24194677 AATTTTTTTTC-AAGTATGCTTC
1 AATTTTTTTTCAAAGTATGCTTC
24194699 AATTATTTCTTTCATAAGTATGCTT
1 AATT-TTT-TTTCA-AAGTATGCTT
24194724 TAATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 3 0.14
24 4 0.19
26 10 0.48
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
AATTTTTTTTCAAAGTATGCTTC
Done.