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 152 of 203
Found at i:48321320 original size:13 final size:13
Alignment explanation
Indices: 48321302--48321340 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
48321292 AGATAAATTG
48321302 AACATCTTTTTGT
1 AACATCTTTTTGT
*
48321315 AACATC-TTTAGTT
1 AACATCTTTTTG-T
48321328 AACATCTTTTTGT
1 AACATCTTTTTGT
48321341 TGATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 4 0.18
13 14 0.64
14 4 0.18
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (13 bp):
AACATCTTTTTGT
Found at i:48324441 original size:21 final size:21
Alignment explanation
Indices: 48324417--48324457 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48324407 TGGCTTAAAA
*
48324417 GCATGGTCGTG-AGGCTACTTT
1 GCATGCTCGTGTA-GCTACTTT
48324438 GCATGCTCGTGTAGCTACTT
1 GCATGCTCGTGTAGCTACTT
48324458 CACACACCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.34
Consensus pattern (21 bp):
GCATGCTCGTGTAGCTACTTT
Found at i:48328819 original size:12 final size:12
Alignment explanation
Indices: 48328799--48328831 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48328789 TTTACACTAC
48328799 ATTTATTTTGAT
1 ATTTATTTTGAT
*
48328811 ATTTGTTTTGAT
1 ATTTATTTTGAT
48328823 -TTTATTTTG
1 ATTTATTTTG
48328832 CAACTATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (12 bp):
ATTTATTTTGAT
Found at i:48333978 original size:41 final size:40
Alignment explanation
Indices: 48333912--48334229 Score: 216
Period size: 41 Copynumber: 7.8 Consensus size: 40
48333902 ATTTTTAAAC
* *
48333912 CTTTAGCGGCGTTTTTA-CTTTAGCGCCGCTAATTCTCCGAT
1 CTTTAGCGGCGTTTTTATC-TGAGCGCCGCTAATTCT-TGAT
* * **
48333953 CTTTAGCGGCATTTTTATCTGAGCGCCACTAATGT-TCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAAT-TCT-TGAT
* * * *
48333994 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTTG-AT
* * * * * * *
48334035 CATTAGTGGCGTTATTGTCTGAGTGCCACTAATTCTTTGTT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTC-TTGAT
* * *
48334076 CTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGTG-T
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCT-AA-TTCTTGAT
* * * * **
48334117 TTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCT-TGAT
* * * *
48334158 CTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGC-T-AC
1 CTTTAGCGGCGTTTT-TATCTGAGCGCCGCTAATTCTTGAT
*
48334197 CTTTAGCGGCGTTTTT-TCCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTATCTG-AGCGCCGCTAAT
48334230 AGTAACAAAA
Statistics
Matches: 217, Mismatches: 49, Indels: 25
0.75 0.17 0.09
Matches are distributed among these distances:
37 1 0.00
38 13 0.06
39 18 0.08
40 6 0.03
41 152 0.70
42 24 0.11
43 3 0.01
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATTCTTGAT
Found at i:48334056 original size:82 final size:80
Alignment explanation
Indices: 48333911--48334194 Score: 318
Period size: 82 Copynumber: 3.5 Consensus size: 80
48333901 GATTTTTAAA
* * * * *
48333911 CCTTTAGCGGCGTTTTTACTTTAGCGCCGCTAATTCTCCG-ATCTTTAGCGGCATTTTTATCTGA
1 CCTTTAGCGGCGTTTTTTC-TAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
48333975 GCGCCACTAATGTTCTGG
64 GCGCCACTAAT-TTCTGG
* * *
48333993 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
* * *
48334058 TGCCACTAATTCTTTGT
65 CGCCACTAATT-TCTGG
* * * * *
48334075 TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTCGTGTTTTTAGTGGCGTTTTTATCTGAG
1 CCTTTAGCGGCG-TTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
48334140 CGCCACTAATACTCTGG
65 CGCCACTAAT-TTCTGG
*
48334157 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATGCT
1 CCTTTAGCGGCGTTTT-T-TCTAAGCGCCGCTAATGCT
48334195 ACCTTTAGCG
Statistics
Matches: 168, Mismatches: 27, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
81 7 0.04
82 139 0.83
83 22 0.13
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (80 bp):
CCTTTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAGC
GCCACTAATTTCTGG
Found at i:48334767 original size:15 final size:15
Alignment explanation
Indices: 48334746--48334783 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
48334736 TTTAAGGTTA
48334746 ATTTAGGGGTTGGAG
1 ATTTAGGGGTTGGAG
* *
48334761 GTTTAGGGGTTTGAG
1 ATTTAGGGGTTGGAG
48334776 ATTTAGGG
1 ATTTAGGG
48334784 TTTCAACGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (15 bp):
ATTTAGGGGTTGGAG
Found at i:48334786 original size:14 final size:14
Alignment explanation
Indices: 48334719--48334786 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
48334709 GACTGGGTAT
*
48334719 AGATTTAAGGTTTG
1 AGATTTAGGGTTTG
* *
48334733 GGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
48334745 A-ATTTAGGGGTTGG
1 AGATTTA-GGGTTTG
*
48334759 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
48334774 AGATTTAGGGTTT
1 AGATTTAGGGTTT
48334787 CAACGGTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 5 0.12
12 2 0.05
13 3 0.07
14 16 0.37
15 17 0.40
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:48336533 original size:8 final size:10
Alignment explanation
Indices: 48336511--48336547 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
48336501 TATTTTTACT
48336511 TATATATGGA
1 TATATATGGA
*
48336521 TATATATGAA
1 TATATATGGA
48336531 TATATATGGA
1 TATATATGGA
48336541 TATATAT
1 TATATAT
48336548 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:48339099 original size:13 final size:13
Alignment explanation
Indices: 48339081--48339105 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48339071 AGACATAATA
48339081 CATAACTTACATT
1 CATAACTTACATT
48339094 CATAACTTACAT
1 CATAACTTACAT
48339106 AAACTTATAT
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:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
CATAACTTACATT
Found at i:48339213 original size:34 final size:34
Alignment explanation
Indices: 48339170--48339295 Score: 148
Period size: 34 Copynumber: 3.7 Consensus size: 34
48339160 GGGTGATGTG
48339170 ATATTATACATAAATTACATAACTTAATTAATTA
1 ATATTATACATAAATTACATAACTTAATTAATTA
* * *
48339204 ATATTATACATAACTTACATTAA--TATTATACATAA
1 ATATTATACATAAATTACA-TAACTTAAT-TA-ATTA
* * *
48339239 ATATTATAAATAAATTACATAACTCAGTTAATTA
1 ATATTATACATAAATTACATAACTTAATTAATTA
*
48339273 ATATTATACATAACTTACATAAC
1 ATATTATACATAAATTACATAAC
48339296 ATTTTAACAA
Statistics
Matches: 77, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
33 3 0.04
34 47 0.61
35 25 0.32
36 2 0.03
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (34 bp):
ATATTATACATAAATTACATAACTTAATTAATTA
Found at i:48339241 original size:13 final size:13
Alignment explanation
Indices: 48339219--48339253 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
48339209 ATACATAACT
*
48339219 TACATTAATATTA
1 TACATAAATATTA
48339232 TACATAAATATTA
1 TACATAAATATTA
*
48339245 TAAATAAAT
1 TACATAAAT
48339254 TACATAACTC
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:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (13 bp):
TACATAAATATTA
Found at i:48339250 original size:22 final size:22
Alignment explanation
Indices: 48339185--48339287 Score: 84
Period size: 22 Copynumber: 4.4 Consensus size: 22
48339175 ATACATAAAT
48339185 TACATAACTTAATTAATTAATATTA
1 TACATAAC-T-ATT-ATTAATATTA
*
48339210 TACATAACT-TACATTAATATTA
1 TACATAACTAT-TATTAATATTA
* * *
48339232 TACATAAATATTATAAATA-AA
1 TACATAACTATTATTAATATTA
48339253 TTACATAACTCAGTTAATTAATATTA
1 -TACATAACT-A-TT-ATTAATATTA
48339279 TACATAACT
1 TACATAACT
48339288 TACATAACAT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
21 1 0.02
22 33 0.52
23 2 0.03
24 3 0.05
25 23 0.37
26 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.40
Consensus pattern (22 bp):
TACATAACTATTATTAATATTA
Found at i:48339332 original size:9 final size:9
Alignment explanation
Indices: 48339318--48339448 Score: 70
Period size: 9 Copynumber: 15.9 Consensus size: 9
48339308 TGCATAATAA
48339318 ATAACTTAC
1 ATAACTTAC
48339327 ATAACTTAC
1 ATAACTTAC
48339336 ATAA--TAC
1 ATAACTTAC
*
48339343 ATAACTTAT
1 ATAACTTAC
* *
48339352 ATGACTTAT
1 ATAACTTAC
48339361 ATAACTTAC
1 ATAACTTAC
*
48339370 AT-A---GC
1 ATAACTTAC
* *
48339375 ATAATTTTC
1 ATAACTTAC
48339384 ATAA--TAC
1 ATAACTTAC
*
48339391 ACAACTTAC
1 ATAACTTAC
** *
48339400 ATAGTTTTC
1 ATAACTTAC
*
48339409 ATAA--TAA
1 ATAACTTAC
48339416 ATAACTTAC
1 ATAACTTAC
48339425 ATAA--TAC
1 ATAACTTAC
48339432 ATAACTTAC
1 ATAACTTAC
*
48339441 ATAGCTTA
1 ATAACTTA
48339449 ATTATACTTA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
5 3 0.03
6 1 0.01
7 24 0.26
8 1 0.01
9 64 0.69
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:48339339 original size:25 final size:25
Alignment explanation
Indices: 48339310--48339435 Score: 91
Period size: 25 Copynumber: 5.2 Consensus size: 25
48339300 TAACAATTTG
48339310 CATAATAAATAACTTACATAACTTA
1 CATAATAAATAACTTACATAACTTA
* * *
48339335 CATAATACATAACTTATATGACTT-
1 CATAATAAATAACTTACATAACTTA
* * * * *
48339359 -AT-ATAACTTACATAGCATAATTTT
1 CATAATAAATAACTTA-CATAACTTA
* * ** *
48339383 CATAATACACAACTTACATAGTTTT
1 CATAATAAATAACTTACATAACTTA
48339408 CATAATAAATAACTTACATAA--TA
1 CATAATAAATAACTTACATAACTTA
48339431 CATAA
1 CATAA
48339436 CTTACATAGC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.10
23 13 0.17
25 49 0.64
26 7 0.09
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (25 bp):
CATAATAAATAACTTACATAACTTA
Found at i:48339343 original size:16 final size:16
Alignment explanation
Indices: 48339324--48339443 Score: 78
Period size: 16 Copynumber: 7.9 Consensus size: 16
48339314 ATAAATAACT
48339324 TACATAACTTACATAA
1 TACATAACTTACATAA
* *
48339340 TACATAACTTATATGACT
1 TACATAACTTACAT-A-A
*
48339358 TATATAACTTACAT-A
1 TACATAACTTACATAA
* * *
48339373 -GCATAATTTTCATAA
1 TACATAACTTACATAA
* *
48339388 TACACAACTTACATAG
1 TACATAACTTACATAA
48339404 T---T---TT-CATAA
1 TACATAACTTACATAA
*
48339413 TAAATAACTTACATAA
1 TACATAACTTACATAA
48339429 TACATAACTTACATA
1 TACATAACTTACATA
48339444 GCTTAATTAT
Statistics
Matches: 76, Mismatches: 17, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
9 5 0.07
10 2 0.03
12 1 0.01
14 9 0.12
15 3 0.04
16 43 0.57
17 1 0.01
18 12 0.16
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:48344993 original size:66 final size:66
Alignment explanation
Indices: 48344874--48345004 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
48344864 AGCAAATTAC
* * * *
48344874 ACAACTTAAAGCGGATGCAACATCGAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
1 ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
48344939 T
66 T
* * *
48344940 ACAACTGAAAGCAGATGCAGCAGCAAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAA-AAAAGATATGAAGAACTCCAG
48345004 C
65 C
48345005 AGTAGCTTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 53 0.93
67 4 0.07
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (66 bp):
ACAACTGAAAGCAGATGCAACAGCAAGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGC
T
Found at i:48345022 original size:66 final size:66
Alignment explanation
Indices: 48344899--48345036 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 66
48344889 TGCAACATCG
*
48344899 AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGCAGC
1 AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGAAGC
48344964 A
66 A
* * * * * * *
48344965 AGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGTAGCTTAAAGTAGATGCGGAA
1 AGAGAAGCTGAGGCTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGCAGATGCAGAA
48345028 GCA
64 GCA
48345031 AGAGAA
1 AGAGAA
48345037 ACAGAGGCGG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.02
66 57 0.92
67 4 0.06
ACGTcount: A:0.43, C:0.17, G:0.27, T:0.14
Consensus pattern (66 bp):
AGAGAAGCTGAGGCTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGCAGATGCAGAAGC
A
Found at i:48345103 original size:21 final size:21
Alignment explanation
Indices: 48345038--48345105 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
48345028 GCAAGAGAAA
* * *
48345038 CAGAGGCGGCAGCTAGAGAAG
1 CAGAGGCTGCAGCGAGGGAAG
* * *
48345059 TACAGGCTGCAGTGAGGGAAG
1 CAGAGGCTGCAGCGAGGGAAG
48345080 CAGAGGCTGCAGCGAGGGAAG
1 CAGAGGCTGCAGCGAGGGAAG
48345101 CAGAG
1 CAGAG
48345106 CAGCGTCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.31, C:0.18, G:0.44, T:0.07
Consensus pattern (21 bp):
CAGAGGCTGCAGCGAGGGAAG
Found at i:48345553 original size:86 final size:86
Alignment explanation
Indices: 48345460--48345761 Score: 306
Period size: 86 Copynumber: 3.5 Consensus size: 86
48345450 CTTTAGTGGT
* * *
48345460 GTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTA
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTA
48345525 AAGATCATGGTCTTTAGCGAC
66 AAGATCATGGTCTTTAGCGAC
** * * * **
48345546 GTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTT-TAGGGGAAAGCGCCGCT
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCT
* * *
48345610 AAAGATTA-GGTTCTTTAGTGGC
65 AAAGATCATGG-TCTTTAGCGAC
* * * * * *
48345632 GTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGAAAAAAACACCGCT
1 GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCT-TTAGCGGCGTTTGTGGAAAAAGCGCCGCT
* * *
48345696 AAAGACCCTGATCTTTAGCGAC
65 AAAGATCATGGTCTTTAGCGAC
* * * *
48345718 GCTTCTAG-CACAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 GTTTTTGGTCA-AAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCG
48345762 CTTCCACTAA
Statistics
Matches: 173, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
85 7 0.04
86 163 0.94
87 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (86 bp):
GTTTTTGGTCAAAGCGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTA
AAGATCATGGTCTTTAGCGAC
Found at i:48345676 original size:43 final size:43
Alignment explanation
Indices: 48345450--48345761 Score: 243
Period size: 43 Copynumber: 7.3 Consensus size: 43
48345440 AGGTGTTGGC
* * * * * *
48345450 CTTTAGTGGTGTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
** * *
48345493 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
48345536 CTTTAGCGACGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * *
48345579 CTTTAGTGGCGTTT-TAGGGGAAAGCGCCGCTAAAGATTAGGTT
1 CTTTAGCGGCGTTTGT-GGGCAAAGCGCCGCTAAAGATCAGGGT
* * *
48345622 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* *** * * * ** *
48345665 CTATT-GCGGCGTTTGAGAAAAAAACACCGCTAAAGACCCTGAT
1 CT-TTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
* * * * *
48345708 CTTTAGCGACGCTTCT-AGCACAAACGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGGCA-AAGCGCCGCTAAAGATCAGGGT
48345751 CTTTAGCGGCG
1 CTTTAGCGGCG
48345762 CTTCCACTAA
Statistics
Matches: 216, Mismatches: 48, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
42 5 0.02
43 208 0.96
44 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATCAGGGT
Found at i:48345695 original size:129 final size:129
Alignment explanation
Indices: 48345450--48345761 Score: 304
Period size: 129 Copynumber: 2.4 Consensus size: 129
48345440 AGGTGTTGGC
* * * *
48345450 CTTTAGTGGTGTTTTTGGTCAAAGCGTCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* ** *** * *
48345515 AGCGCCACTAAAGATCATGGTCTTTAGCGACGTTTTTGGGGAAAGCGCCGCTAAAGATTAGGTT
66 AGCGCCACTAAAGATCAGGGTCTTTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
* * * * **
48345579 CTTTAGTGGCGTTTTAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAA
1 CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
* * * **** *
48345644 AGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGAAAAAAACACCGCTAAAGACCCTGAT
66 AGCGCCACTAAAGATCAGGGTCT-TTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
* * * ** *
48345708 CTTTAGCGACGCTTCTAGCACAAA-CGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 CTTTAGTGGCG-TTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCG
48345762 CTTCCACTAA
Statistics
Matches: 146, Mismatches: 35, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
129 136 0.93
130 10 0.07
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (129 bp):
CTTTAGTGGCGTTTTAGGGCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
AGCGCCACTAAAGATCAGGGTCTTTAGCGACGTTTGAGAAAAAAACACCGCTAAAGATTAGGTT
Found at i:48345971 original size:22 final size:22
Alignment explanation
Indices: 48345943--48345985 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
48345933 CTGCGGCGCT
* *
48345943 AAAAAGCGCCGCTAAATGCCTA
1 AAAAAGCACCGCTAAAAGCCTA
48345965 AAAAAGCACCGCTAAAAGCCT
1 AAAAAGCACCGCTAAAAGCCT
48345986 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAGCACCGCTAAAAGCCTA
Found at i:48348173 original size:21 final size:21
Alignment explanation
Indices: 48348144--48348187 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
48348134 ATATGGATAG
*
48348144 GCCGGGTAGGGGCACGGCCAC
1 GCCGGGTAGGGACACGGCCAC
*
48348165 GCCGTGTAGGGACACGGCCAC
1 GCCGGGTAGGGACACGGCCAC
48348186 GC
1 GC
48348188 AAAATCGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.34, G:0.43, T:0.07
Consensus pattern (21 bp):
GCCGGGTAGGGACACGGCCAC
Found at i:48353331 original size:19 final size:19
Alignment explanation
Indices: 48353287--48353331 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48353277 TATATATTCA
48353287 ATTATTTGATTTATTTCTT
1 ATTATTTGATTTATTTCTT
48353306 -TTCATTT-ATTTACTTTCTT
1 ATT-ATTTGATTTA-TTTCTT
48353325 ATTATTT
1 ATTATTT
48353332 TATAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.30
19 14 0.61
20 2 0.09
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (19 bp):
ATTATTTGATTTATTTCTT
Found at i:48354472 original size:4 final size:4
Alignment explanation
Indices: 48354463--48354489 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
48354453 TGATTTTAGT
48354463 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
48354490 GTTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:48355136 original size:3 final size:3
Alignment explanation
Indices: 48355128--48355194 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
48355118 TTGTTTTTAC
* * *
48355128 TAT TAT TAT T-T T-T TAA T-T TAT TAT TAT TGT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
48355173 TAT TGT TA- TAGG TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT T
48355195 GTATTAGTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
2 7 0.14
3 42 0.82
4 2 0.04
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:48355169 original size:21 final size:21
Alignment explanation
Indices: 48355128--48355194 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
48355118 TTGTTTTTAC
48355128 TATTATTATT-TT-TTAAT-T
1 TATTATTATTGTTATTAATAT
*
48355146 TATTATTATTGTTATTACTAT
1 TATTATTATTGTTATTAATAT
*
48355167 TATTATTATTGTTA-TAGGTAT
1 TATTATTATTGTTATTA-ATAT
48355188 TATTATT
1 TATTATT
48355195 GTATTAGTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 10 0.23
19 2 0.05
20 6 0.14
21 25 0.58
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (21 bp):
TATTATTATTGTTATTAATAT
Found at i:48355353 original size:15 final size:16
Alignment explanation
Indices: 48355335--48355364 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48355325 TTATATGAAG
48355335 ATTTTATATA-ATATT
1 ATTTTATATACATATT
48355350 ATTTTATATACATAT
1 ATTTTATATACATAT
48355365 ATGATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTATATACATATT
Found at i:48362664 original size:148 final size:148
Alignment explanation
Indices: 48362369--48362718 Score: 393
Period size: 148 Copynumber: 2.3 Consensus size: 148
48362359 AAATAGGCAT
* * * *
48362369 TAAATATGGAATTTAACCATTCTT-TATAATCTCAAAGAATTAGAGGGATTAGAATTGATATTTG
1 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
** ** * * * * *
48362433 GCCATTAGCTTCTCATATTAAAGAAAGCAATTAACATTGGACAAGTATCATGTAAAAAGTAGAGG
66 AACATTAGCTTCTCATAGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAGAGA
*
48362498 GGTTAAAAAAGTAGAAAA
131 GATTAAAAAAGTAGAAAA
48362516 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
1 TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
*** *
48362581 AACATTAGCTTCTCATGTAAGAAAAAAAAACAACTAACATTGGATTGGTGTCATGTAAAAA-CAG
66 AACATTAGCTTCTCA--T-AGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAG
* * *
48362645 AGAGATTAGAATTGAAAAATAGGAAT
128 AGAGATT--AA---AAAAGTAGAAAA
*
48362671 TAAATATTG-AATTTAACTATTCTTATATAATCTC-AAAAAGTAGAGGGA
1 TAAATA-TGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGA
48362719 TTGAACCCCA
Statistics
Matches: 171, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
147 23 0.13
148 50 0.29
150 8 0.05
151 33 0.19
152 2 0.01
154 14 0.08
155 39 0.23
156 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (148 bp):
TAAATATGAAATTTAACCATTCTTATATAATCTCAAAAAAGTAGAGGGACTAGAATTGATATTTG
AACATTAGCTTCTCATAGAAAAAAAAACAACTAACATTGGACAAGTATCATGTAAAAAGCAGAGA
GATTAAAAAAGTAGAAAA
Found at i:48368772 original size:30 final size:30
Alignment explanation
Indices: 48368704--48368781 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
48368694 TTAACATTAG
* * *
48368704 CATCGACTACTACACGGGCATCTACATCAA
1 CATCGACTGCTGCATGGGCATCTACATCAA
48368734 CATCGACTGCTGCATGGGCATCTACATCAA
1 CATCGACTGCTGCATGGGCATCTACATCAA
48368764 CATCGACTGCTGCATGGG
1 CATCGACTGCTGCATGGG
48368782 AAGCTACACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (30 bp):
CATCGACTGCTGCATGGGCATCTACATCAA
Found at i:48368789 original size:30 final size:30
Alignment explanation
Indices: 48368725--48368789 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
48368715 ACACGGGCAT
* *
48368725 CTACATCAACATCGACTGCTGCATGGGCAT
1 CTACATCAACATCGACTGCTGCATGGGAAG
48368755 CTACATCAACATCGACTGCTGCATGGGAAG
1 CTACATCAACATCGACTGCTGCATGGGAAG
48368785 CTACA
1 CTACA
48368790 CCTATATCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (30 bp):
CTACATCAACATCGACTGCTGCATGGGAAG
Found at i:48369443 original size:53 final size:52
Alignment explanation
Indices: 48369338--48369445 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 52
48369328 CTACATGTCT
*
48369338 ACCTTGTGCAACTCCTTCAGGTCTCGCGATGGCGACAAAATTCGTTGCCTCC
1 ACCTTGTGCAACTCCTTCAGGTCTCGCGATGACGACAAAATTCGTTGCCTCC
* * * * * * *
48369390 ACCTGTGTGCAACTCCTTCATGTCTTGCGATGATGGCAGAATTTGTTGTCTCC
1 ACCT-TGTGCAACTCCTTCAGGTCTCGCGATGACGACAAAATTCGTTGCCTCC
48369443 ACC
1 ACC
48369446 CAAATTGTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 4 0.09
53 43 0.91
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.31
Consensus pattern (52 bp):
ACCTTGTGCAACTCCTTCAGGTCTCGCGATGACGACAAAATTCGTTGCCTCC
Found at i:48371960 original size:19 final size:18
Alignment explanation
Indices: 48371933--48371971 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
48371923 CTTTTTTATA
*
48371933 TATTCTTTATATTGTTTTT
1 TATTCTTTATAAT-TTTTT
*
48371952 TATTTTTTATAATTTTTT
1 TATTCTTTATAATTTTTT
48371970 TA
1 TA
48371972 AAAAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TATTCTTTATAATTTTTT
Found at i:48371998 original size:18 final size:16
Alignment explanation
Indices: 48371977--48372020 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 16
48371967 TTTTAAAAAA
48371977 TATAAATTTTGAAATTTT
1 TATAAATTTTG-AA-TTT
48371995 TATAAATATTTTGAATTT
1 TAT-AA-ATTTTGAATTT
48372013 TATAAATT
1 TATAAATT
48372021 ATTTTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 9 0.38
19 4 0.17
20 6 0.25
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TATAAATTTTGAATTT
Found at i:48372007 original size:20 final size:20
Alignment explanation
Indices: 48371982--48372027 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
48371972 AAAAATATAA
48371982 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAA-TTTTATAAATT
48372002 ATTTTG-AATTTTATAAATT
1 ATTTTGAAATTTTATAAATT
48372021 ATTTTGA
1 ATTTTGA
48372028 TTTTTTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.38
19 9 0.38
20 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTATAAATT
Found at i:48372013 original size:19 final size:20
Alignment explanation
Indices: 48371982--48372032 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
48371972 AAAAATATAA
48371982 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTATAAATT
48372002 ATTTTGAA-TTTTATAAATT
1 ATTTTGAATTTTTATAAATT
48372021 ATTTTG-ATTTTT
1 ATTTTGAATTTTT
48372033 TGCATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.34
19 13 0.45
20 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:48380683 original size:39 final size:39
Alignment explanation
Indices: 48380626--48380791 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
48380616 AATAAAAATA
* *
48380626 TGGTGATTATTCGGGCTATGTGGCTAGCAGGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* ** *
48380665 TGGTTATTATTTGGGCTATGTGCCTAGCAAGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
** * * * *
48380704 CAGTGATTATCCAGGTTATGTGTCTAGTAGGCTGTGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
* *
48380743 CGGTGATTATTCAGGCTATGTGCCTAGCAGGCTATGTGC
1 TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
48380782 TGGTGTATTA
1 TGGTG-ATTA
48380792 AAAATTTGCA
Statistics
Matches: 105, Mismatches: 21, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
39 101 0.96
40 4 0.04
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.36
Consensus pattern (39 bp):
TGGTGATTATTCAGGCTATGTGCCTAGCAGGCTGTGTGC
Found at i:48383057 original size:70 final size:70
Alignment explanation
Indices: 48382826--48383214 Score: 375
Period size: 70 Copynumber: 5.6 Consensus size: 70
48382816 TAATTAGAAA
* *
48382826 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGG-TCTAATCTAT-G-G-CCACCAAACAG
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTC-AA--TATCGCGACCTCTAAACAG
48382887 TTAGCGAG
63 TTAGCGAG
* * * * *
48382895 AGTTAGAAGCTCCCAACTATCATTTTAAGGCTTGCAAGTTTAATA-CTGCGACCTCTATAA-A-T
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATC-GCGACCTCTA-AACAGT
*
48382957 TAGTGAG
64 TAGCGAG
* * *
48382964 AGTTAAAAGCTCCCAGCTATCATTCTAAGGTTCGCAGGTTCAATATCGCGACCTCTAAATAGTTA
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGACCTCTAAACAGTTA
**
48383029 GTTAG
66 GCGAG
* * * * *
48383034 AGTTAAAAGCTCCCAACTTTCATTTTAAGGCTCGCAGGTTTAATACCGC-AGCCTCTAAATAGTT
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGA-CCTCTAAACAGTT
*
48383098 AGCGAT
65 AGCGAG
* * * * * * *
48383104 AGTTAAAAGCTCCCAGCTGTCAATCTAAGGGTCACAGGTTTAATATCG-TAGCCT-TCAAACAGT
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGA-CCTCT-AAACAGT
*
48383167 TAGCAAG
64 TAGCGAG
* *
48383174 AGTTAAAAGCTCTCAACTATCATTCTAAGGCTCGTAGGTTC
1 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTC
48383215 GATACCATAG
Statistics
Matches: 265, Mismatches: 43, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
67 2 0.01
68 3 0.01
69 95 0.36
70 163 0.62
71 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (70 bp):
AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTTCAATATCGCGACCTCTAAACAGTTA
GCGAG
Found at i:48383220 original size:140 final size:138
Alignment explanation
Indices: 48382826--48383213 Score: 442
Period size: 140 Copynumber: 2.8 Consensus size: 138
48382816 TAATTAGAAA
* * * * * *
48382826 AGTTAAAAGCTCCCAACTATCATTCTAAGGCTCGCAGGTCTAATCT-ATGGCCACCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCC-TCAAACAGTTA
* * * * *
48382890 GCGAGAGTTAGAAGCTCCCAACTATCATTTTAAGGCTTGCAAGTTTAATACTGCGACCTCTATAA
65 GCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGACCTCTATAA
*
48382955 ATTAGTGAG
130 ATTAGCGAG
* * * *
48382964 AGTTAAAAGCTCCCAGCTATCATTCTAAGGTTCGCAGGTTCAATATCG-CGACCTCTAAATAGTT
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAG-CCTC-AAACAGTT
** *
48383028 AGTTAGAGTTAAAAGCTCCCAACTTTCATTTTAAGGCTCGCAGGTTTAATACCGC-AGCCTCTA-
64 AGCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGA-CCTCTAT
*
48383091 AATAGTTAGCGAT
128 AA-A-TTAGCGAG
* * * *
48383104 AGTTAAAAGCTCCCAGCTGTCAATCTAAGGGTCACAGGTTTAATATCGTAGCCTTCAAACAGTTA
1 AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCC-TCAAACAGTTA
* * *
48383169 GCAAGAGTTAAAAGCTCTCAACTATCATTCTAAGGCTCGTAGGTT
65 GCAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTT
48383214 CGATACCATA
Statistics
Matches: 211, Mismatches: 31, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
138 46 0.22
139 64 0.30
140 98 0.46
141 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (138 bp):
AGTTAAAAGCTCCCAGCTATCATTCTAAGGCTCGCAGGTTTAATATCGTAGCCTCAAACAGTTAG
CAAGAGTTAAAAGCTCCCAACTATCATTTTAAGGCTCGCAGGTTTAATACCGCGACCTCTATAAA
TTAGCGAG
Found at i:48383226 original size:70 final size:70
Alignment explanation
Indices: 48382781--48383251 Score: 354
Period size: 70 Copynumber: 6.8 Consensus size: 70
48382771 TTTATTAAAA
* * * * * * * * *
48382781 CTAAGGCTTGCAAGTTTAACACCATAACCTTCAAATAATTAG-AAAAGTTAAAAGCTCCCAACTA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
48382845 TCATT
66 TCATT
* * ** *
48382850 CTAAGGCTCGCAGG-TCTAAT-CTATGGCCACCAAACAGTTAGCGAGAGTTAGAAGCTCCCAACT
1 CTAAGGCTCGCAGGTTC-AATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACT
48382913 ATCATT
65 ATCATT
* * * * * *
48382919 TTAAGGCTTGCAAGTTTAATA-C-T-GCGACCTCTATAA-A-TTAGTGAGAGTTAAAAGCTCCCA
1 CTAAGGCTCGCAGGTTCAATACCATAGC--CTTC-A-AACAGTTAGCGAGAGTTAAAAGCTCCCA
*
48382979 GCTATCATT
62 ACTATCATT
* * * **
48382988 CTAAGGTTCGCAGGTTCAATATCGC-GA-CC-TCTAAATAGTTAGTTAGAGTTAAAAGCTCCCAA
1 CTAAGGCTCGCAGGTTCAATA-C-CATAGCCTTC-AAACAGTTAGCGAGAGTTAAAAGCTCCCAA
*
48383050 CTTTCATT
63 CTATCATT
* * ** * * *
48383058 TTAAGGCTCGCAGGTTTAATACCGCAGCC-TCTAAATAGTTAGCGATAGTTAAAAGCTCCCAGCT
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTC-AAACAGTTAGCGAGAGTTAAAAGCTCCCAACT
* *
48383122 GTCAAT
65 ATCATT
* * * * * * *
48383128 CTAAGGGTCACAGGTTTAATATCGTAGCCTTCAAACAGTTAGCAAGAGTTAAAAGCTCTCAACTA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
48383193 TCATT
66 TCATT
* * *
48383198 CTAAGGCTCGTAGGTTCGATACCATAGCCTTCAAACAGTTAGCGCGAGCTTAAA
1 CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAG-TTAAA
48383252 CTCCGACTGT
Statistics
Matches: 320, Mismatches: 64, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
67 2 0.01
68 19 0.06
69 106 0.33
70 182 0.57
71 9 0.03
72 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (70 bp):
CTAAGGCTCGCAGGTTCAATACCATAGCCTTCAAACAGTTAGCGAGAGTTAAAAGCTCCCAACTA
TCATT
Found at i:48383463 original size:18 final size:18
Alignment explanation
Indices: 48383420--48383466 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
48383410 CTTATGTCTA
* * *
48383420 AAATTTTGCTTGAGTTTG
1 AAATTTTACTTCAGTTTC
*
48383438 AAAGTTTACTTCAGTTTC
1 AAATTTTACTTCAGTTTC
48383456 AAATTTTACTT
1 AAATTTTACTT
48383467 AAGTCAAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.49
Consensus pattern (18 bp):
AAATTTTACTTCAGTTTC
Found at i:48386475 original size:20 final size:20
Alignment explanation
Indices: 48386450--48386492 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
48386440 TCATAAGAAT
48386450 AGTGGGGTCAAGTCATGAAC
1 AGTGGGGTCAAGTCATGAAC
* * *
48386470 AGTGGGGTTATGTCGTGAAC
1 AGTGGGGTCAAGTCATGAAC
48386490 AGT
1 AGT
48386493 AATAGTATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.37, T:0.26
Consensus pattern (20 bp):
AGTGGGGTCAAGTCATGAAC
Found at i:48387756 original size:16 final size:16
Alignment explanation
Indices: 48387735--48387766 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48387725 CATACCTTAT
48387735 ATCCAAGTTGATCTAA
1 ATCCAAGTTGATCTAA
48387751 ATCCAAGTTGATCTAA
1 ATCCAAGTTGATCTAA
48387767 CAGTCAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCCAAGTTGATCTAA
Found at i:48394561 original size:40 final size:41
Alignment explanation
Indices: 48394371--48394565 Score: 257
Period size: 41 Copynumber: 4.8 Consensus size: 41
48394361 TACCTTTCAG
*
48394371 ATCTTTAGCGGCGTTTTTAAAAAAAGCGCTGCTAATGCTCAA
1 ATCTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGCTCAA
*
48394413 ATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAA
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
* * *
48394454 ATCTTTCGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
** * *
48394495 ATCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTC-G
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
** * *
48394535 GGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
48394566 AAAAACATTT
Statistics
Matches: 136, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 26 0.19
41 92 0.68
42 18 0.13
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
ATCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAA
Found at i:48395216 original size:22 final size:22
Alignment explanation
Indices: 48395191--48395242 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
48395181 TATTAAAAAA
* *
48395191 GGTTTAGAGGTTAGTGGTTTGG
1 GGTTTAGAGGTTAGTGATTTAG
*
48395213 GGTTAAGA-GTTAGTGATTTAG
1 GGTTTAGAGGTTAGTGATTTAG
48395234 GGTTTAGAG
1 GGTTTAGAG
48395243 ATTCGGGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.38
Consensus pattern (22 bp):
GGTTTAGAGGTTAGTGATTTAG
Found at i:48396070 original size:75 final size:76
Alignment explanation
Indices: 48395986--48396132 Score: 269
Period size: 76 Copynumber: 1.9 Consensus size: 76
48395976 AGGTAAGCAA
48395986 TAGCGGCGTTTTTATAAAAAACG-CAAAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
48396050 AGCAAAACATT
66 AGCAAAACATT
* *
48396061 TAGCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAATAGTCATTTTATAT
1 TAGCGGCGTTTTTATAAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
48396126 AGCAAAA
66 AGCAAAA
48396133 TATTATAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 23 0.33
76 46 0.67
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (76 bp):
TAGCGGCGTTTTTATAAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAATAGCCATTTTATAT
AGCAAAACATT
Found at i:48396082 original size:115 final size:118
Alignment explanation
Indices: 48395869--48396080 Score: 344
Period size: 115 Copynumber: 1.8 Consensus size: 118
48395859 ATAATTTTTT
*
48395869 GCGGCGTTTTAAAGAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGTCATTTTATA
1 GCGGCGTTTTAAAGAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAAATAGCG-CATTTTATA
*
48395934 TAGCAAAACATTTAGTGGCGTTTTTTATAAAAACAGCGCAAAAGGTAAGCAATA
65 TAGCAAAACATTTAGCGGCGTTTTTTATAAAAACAGCGCAAAAGGTAAGCAATA
*
48395988 GCGGCGTTTTTATA-AAAAACG-CAAAAAAAATAATTTTACTTT-AAAAAATAGC-CATTTTATA
1 GCGGCG-TTTTAAAGAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAAATAGCGCATTTTATA
48396049 TAGCAAAACATTTAGCGGCG-TTTTTATAAAAA
65 TAGCAAAACATTTAGCGGCGTTTTTTATAAAAA
48396081 ACGCCACAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
114 12 0.13
115 28 0.31
117 10 0.11
118 20 0.22
119 13 0.15
120 6 0.07
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (118 bp):
GCGGCGTTTTAAAGAAAAACGCCAAAAAAAATAATTTTACTTTAAAAAAATAGCGCATTTTATAT
AGCAAAACATTTAGCGGCGTTTTTTATAAAAACAGCGCAAAAGGTAAGCAATA
Found at i:48396249 original size:74 final size:74
Alignment explanation
Indices: 48396163--48396302 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
48396153 AGGTAAGCAA
* * *
48396163 TAGCGGCGTTTTTGTAAAAAACGCCAC--AAAATATAATTTTACTTTAAAAAATA-GCCATTTTA
1 TAGCGGCATTTTTATAAAAAACGCCACAGAAAAT-TAATTTTA--TAAAAAAATACGCCATTTTA
48396225 TAACAAAACATT
63 TAACAAAACATT
* *
48396237 TAGCGGCATTTTTATGAAAAATGCCACAGAAAATTAATTTTATAAAAAAATAGCGCCATTTTATA
1 TAGCGGCATTTTTATAAAAAACGCCACAGAAAATTAATTTTATAAAAAAATA-CGCCATTTTATA
48396302 A
65 A
48396303 AATCTTCTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
73 9 0.16
74 23 0.40
75 20 0.35
76 5 0.09
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (74 bp):
TAGCGGCATTTTTATAAAAAACGCCACAGAAAATTAATTTTATAAAAAAATACGCCATTTTATAA
CAAAACATT
Found at i:48396277 original size:177 final size:177
Alignment explanation
Indices: 48395958--48396278 Score: 531
Period size: 177 Copynumber: 1.8 Consensus size: 177
48395948 GTGGCGTTTT
48395958 TTATAAAAACAGCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCAAAAAAAATAATT
1 TTATAAAAACAGCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCAAAAAAAATAATT
*
48396023 TTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCGGCGTTTTTATAAAAAACGCCAC
66 TTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCGGCATTTTTATAAAAAACGCCAC
48396088 AAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAATA
131 AAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAATA
* * *
48396135 TTATAAAAAC-GCCGCAAAAGGTAAGCAATAGCGGCGTTTTTGTAAAAAACGCCACAAAATATAA
1 TTATAAAAACAG-CGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACG-CAAAAAAAATAA
* *
48396199 TTTTACTTTAAAAAATAGCCATTTTATA-A-CAAAACATTTAGCGGCATTTTTATGAAAAATGCC
64 TTTTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCGGCATTTTTATAAAAAACGCC
*
48396262 ACAGAAAATTAATTTTA
129 ACA-AAAAATAATTTTA
48396279 TAAAAAAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
176 35 0.26
177 61 0.46
178 38 0.28
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (177 bp):
TTATAAAAACAGCGCAAAAGGTAAGCAATAGCGGCGTTTTTATAAAAAACGCAAAAAAAATAATT
TTACTTTAAAAAATAGCCATTTTATATAGCAAAACATTTAGCGGCATTTTTATAAAAAACGCCAC
AAAAAATAATTTTACTTTAAAAAATAGTCATTTTATATAGCAAAATA
Found at i:48404109 original size:41 final size:41
Alignment explanation
Indices: 48404064--48404174 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
48404054 TTTTGCGACG
*
48404064 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGTGGCA
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
* *
48404105 CTTCTTTAAAAACGCCGCTAAAAGCCCGAGCATTAGCGGCG
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
* *
48404146 CTTCTTAAAAAACGCCGCTAAAGCCCCGA
1 CTTCTTTAAAAACGCCGCTAAAGGCCCGA
48404175 AAACTCAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (41 bp):
CTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCA
Found at i:48404332 original size:40 final size:40
Alignment explanation
Indices: 48404232--48404341 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 40
48404222 TTTGGAAAAT
* * *
48404232 GCCGCTAATGC-TCATTTTTAGCAGCGTTTTCCTGAAAGC
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
* ** * * *
48404271 GCCGCTAATACTCGATCTTTAGTGGCGTTTTCTTAAAAGC
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
* *
48404311 GCCGGTAATGCTTAATTTTTAGCGGCATTTT
1 GCCGCTAATGCTTAATTTTTAGCGGCGTTTT
48404342 TTATCCAAAC
Statistics
Matches: 55, Mismatches: 15, Indels: 1
0.77 0.21 0.01
Matches are distributed among these distances:
39 10 0.18
40 45 0.82
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (40 bp):
GCCGCTAATGCTTAATTTTTAGCGGCGTTTTCCTAAAAGC
Found at i:48406004 original size:13 final size:13
Alignment explanation
Indices: 48405986--48406011 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48405976 CGCAAACGAT
48405986 AAAAATTTTCACA
1 AAAAATTTTCACA
48405999 AAAAATTTTCACA
1 AAAAATTTTCACA
48406012 CATAAATTAA
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTTCACA
Found at i:48406709 original size:126 final size:125
Alignment explanation
Indices: 48406472--48406862 Score: 538
Period size: 124 Copynumber: 3.1 Consensus size: 125
48406462 GTCAAGCAAA
48406472 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* ** * *
48406537 TGTTTGAAGTGTTTTTTACACTATTTTTTTAAAACCGTCTTC-TAAAATTTATTTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAA-TTA-TTTTTCAAG
* * * * *
48406598 AACTACTGCAGAAAAAGAGGGTCCACGTGGGAGCTTTTTTCAATAATTCTGTTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
48406663 TGCTTGAAG-AATTTTGAAACTATTTTTTTAGAATCGTCTTCTTAAAATTATTTTTCAAG
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATTATTTTTCAAG
* * * *
48406722 AACTACTATAGAAAAAGAGCGTTCACATGGGAGCTTTTTT-AGTAATTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
48406786 TGCTTGAAGCATTTTTGACATTATTTTTTCAGAACCGTCTTCTCAAAATTAATTTTTCTAA-
66 TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATT-ATTTTTC-AAG
48406847 AACTACTGTAGAAAAA
1 AACTACTGTAGAAAAA
48406863 AACAAAATCC
Statistics
Matches: 233, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
123 29 0.12
124 78 0.33
125 51 0.22
126 75 0.32
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (125 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTTAAAATTATTTTTCAAG
Found at i:48406979 original size:68 final size:69
Alignment explanation
Indices: 48406914--48407044 Score: 169
Period size: 68 Copynumber: 1.9 Consensus size: 69
48406904 TAACCTAAAC
*
48406914 ACAAATTTA-TT-TTTAAAAAAACTAAACCCTAATTTAATTAATTTTCTT-AAAAACTTTAAACC
1 ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
48406976 CTAA
66 CTAA
*** *** *
48406980 TTTAATTTATTTATTTAAAACCCCTAAAACCTAATTTAATTAATTTTTTTAAAAAACTTTAAACC
1 ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
48407045 TTGATTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
66 6 0.11
67 2 0.04
68 32 0.59
69 14 0.26
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (69 bp):
ACAAATTTATTTATTTAAAAAAACTAAAACCTAATTTAATTAATTTTCTTAAAAAACTTTAAACC
CTAA
Found at i:48407045 original size:34 final size:35
Alignment explanation
Indices: 48406923--48407044 Score: 144
Period size: 34 Copynumber: 3.6 Consensus size: 35
48406913 CACAAATTTA
*
48406923 TTTTTAAAAAAAC--TAAACCCTAATTTAATTAAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
* *
48406956 TTTCTT-AAAAACTTTAAACCCTAATTTAATTTAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
* * ** *
48406990 TTATTT-AAAACCCCTAAAACCTAATTTAATTAAT
1 TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
48407024 TTTTTTAAAAAACTTTAAACC
1 TTTTTTAAAAAACTTTAAACC
48407045 TTGATTTATT
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
32 6 0.08
33 4 0.06
34 51 0.72
35 10 0.14
ACGTcount: A:0.43, C:0.15, G:0.00, T:0.42
Consensus pattern (35 bp):
TTTTTTAAAAAACTTTAAACCCTAATTTAATTAAT
Found at i:48408871 original size:21 final size:21
Alignment explanation
Indices: 48408833--48408872 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
48408823 GTCAAGGATG
* *
48408833 CTCAATTTCATGATACCTAGT
1 CTCAATGTCATGACACCTAGT
*
48408854 CTCAATGTCGTGACACCTA
1 CTCAATGTCATGACACCTA
48408873 CATCAAATGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (21 bp):
CTCAATGTCATGACACCTAGT
Found at i:48421752 original size:21 final size:21
Alignment explanation
Indices: 48421727--48421768 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
48421717 ATTATCAGTG
48421727 CAAAAGCAACCAA-AACACCAA
1 CAAAAGCAACCAAGAA-ACCAA
*
48421748 CAAAAGCACCCAAGAAACCAA
1 CAAAAGCAACCAAGAAACCAA
48421769 ATACCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.33, G:0.07, T:0.00
Consensus pattern (21 bp):
CAAAAGCAACCAAGAAACCAA
Found at i:48422436 original size:3 final size:3
Alignment explanation
Indices: 48422430--48422462 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
48422420 GGATGATGAT
48422430 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
48422463 AAGGTAGTTT
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:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:48424181 original size:21 final size:22
Alignment explanation
Indices: 48424155--48424199 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
48424145 TACACTACTA
* *
48424155 AGAGTTTAAGTGGGA-AAAAAT
1 AGAGTTCAACTGGGAGAAAAAT
*
48424176 AGAGTTCAACTGGGAGAAGAAT
1 AGAGTTCAACTGGGAGAAAAAT
48424198 AG
1 AG
48424200 CTAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.44, C:0.04, G:0.31, T:0.20
Consensus pattern (22 bp):
AGAGTTCAACTGGGAGAAAAAT
Found at i:48427832 original size:196 final size:190
Alignment explanation
Indices: 48427499--48427850 Score: 524
Period size: 196 Copynumber: 1.8 Consensus size: 190
48427489 ATCCTATCAC
* * *
48427499 AAATTTAAAACACAAATGTCTGTTTAAAATAACATATAATAAATAATAAAACATATAGTTTGAAA
1 AAATTTAAAACACAAATGTCTATTTAAAATAACATACAACAAATAATAAAACATATAGTTTGAAA
*
48427564 CTAATTAATAATAACACATGAAATATGTATGTTATTCAAATAAAAAATTAGATTAAATTGTTTAT
66 CTAATTAATAATAACACATGAAATATGTATGTTATTAAAATAAAAAATTAGATTAAATTGTTTAT
48427629 CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
131 CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
* * * * * * *
48427689 AAATTTAGAACACAAATTTCTATTTAAAAATAGCATACAACAAGTACTAAAACTTATGGTTTGAA
1 AAATTTAAAACACAAATGTCTATTT-AAAATAACATACAACAAATAATAAAACATATAGTTTGAA
*
48427754 ACTAATTTAATAATAACACATGAAGTATATATGTATGTTATTAAAATGAAAAATTAGATTAAATT
65 ACTAA-TTAATAATAACACATG-A--A-ATATGTATGTTATTAAAATAAAAAATTAGATTAAATT
* *
48427819 GTTTATTATGGTGTTGTTATCAATCTTAAGTC
125 GTTTATCATGGTGTTGTCATCAATCTTAAGTC
48427851 GGTGTCGAAT
Statistics
Matches: 142, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
190 22 0.15
191 37 0.26
192 16 0.11
193 1 0.01
195 1 0.01
196 65 0.46
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (190 bp):
AAATTTAAAACACAAATGTCTATTTAAAATAACATACAACAAATAATAAAACATATAGTTTGAAA
CTAATTAATAATAACACATGAAATATGTATGTTATTAAAATAAAAAATTAGATTAAATTGTTTAT
CATGGTGTTGTCATCAATCTTAAGTCAGTCCTATCATACGTATATGCGTGTAGAGACCTT
Found at i:48427959 original size:18 final size:19
Alignment explanation
Indices: 48427920--48427963 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
48427910 ATGGATGTAA
48427920 TAAAATGTGCATAATAAAAT
1 TAAAATGT-CATAATAAAAT
48427940 TAAAATGT-ATAA-AAATAT
1 TAAAATGTCATAATAAA-AT
48427958 TAAAAT
1 TAAAAT
48427964 AAAACTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
TAAAATGTCATAATAAAAT
Found at i:48430449 original size:31 final size:31
Alignment explanation
Indices: 48430414--48430516 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
48430404 TAATTACATT
*
48430414 AATATTAAATTAATAAAATATTATCTAGATA
1 AATATTAAATTAATAAAATAATATCTAGATA
** * *
48430445 AATATTAAATT--TAATTTAATATCTCATATT
1 AATATTAAATTAATAAAATAATATCT-AGATA
*
48430475 AATATTAAATTAA-AAAAGTAATAACTAGATA
1 AATATTAAATTAATAAAA-TAATATCTAGATA
48430506 AATATTAAATT
1 AATATTAAATT
48430517 TAATTTAATA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 10 0.17
30 14 0.24
31 27 0.47
32 7 0.12
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (31 bp):
AATATTAAATTAATAAAATAATATCTAGATA
Found at i:48430506 original size:61 final size:61
Alignment explanation
Indices: 48430411--48430526 Score: 198
Period size: 61 Copynumber: 1.9 Consensus size: 61
48430401 AATTAATTAC
* *
48430411 ATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTTAATTTAATATCTCAT
1 ATTAATATTAAATTAATAAAATAATAACTAGATAAATATTAAATTTAATTTAATATCTCAT
48430472 ATTAATATTAAATTAA-AAAAGTAATAACTAGATAAATATTAAATTTAATTTAATA
1 ATTAATATTAAATTAATAAAA-TAATAACTAGATAAATATTAAATTTAATTTAATA
48430527 ATAAATTCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 4 0.08
61 48 0.92
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (61 bp):
ATTAATATTAAATTAATAAAATAATAACTAGATAAATATTAAATTTAATTTAATATCTCAT
Found at i:48433777 original size:25 final size:25
Alignment explanation
Indices: 48433740--48433834 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
48433730 CGGGCACACC
* *
48433740 ACAGCTCGTATGAGCTTCCTATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
*
48433765 ACAGCTCGCATGAGCTTCCCGTTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
*
48433790 TCAGCTCGCATGAGCTTCCCATTAT
1 ACAGCTCGCATGAGCTTCCCATTAT
* * *
48433815 TCAGCTCGGAGGAGCTTCCC
1 ACAGCTCGCATGAGCTTCCC
48433835 GTTTATAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCCATTAT
Found at i:48433803 original size:50 final size:50
Alignment explanation
Indices: 48433741--48433837 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
48433731 GGGCACACCA
* * *
48433741 CAGCTCGTATGAGCTTCCTATTATACAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTTATT
* *
48433791 CAGCTCGCATGAGCTTCCCATTATTCAGCTCGGAGGAGCTTCCCGTT
1 CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTT
48433838 TATAGATCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.31
Consensus pattern (50 bp):
CAGCTCGCATGAGCTTCCCATTATACAGCTCGCAGGAGCTTCCCGTTATT
Found at i:48441327 original size:25 final size:25
Alignment explanation
Indices: 48441299--48441347 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48441289 ATTAGATTTC
48441299 TGTTATACAGCTCACATGAGCTTCT
1 TGTTATACAGCTCACATGAGCTTCT
** * *
48441324 TGTTATTTAGTTCGCATGAGCTTC
1 TGTTATACAGCTCACATGAGCTTC
48441348 CCGTTGTTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
TGTTATACAGCTCACATGAGCTTCT
Found at i:48456933 original size:3 final size:3
Alignment explanation
Indices: 48456925--48456951 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48456915 AGGGAAAGGT
48456925 GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA
48456952 TAATATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:48459877 original size:74 final size:74
Alignment explanation
Indices: 48459756--48459900 Score: 281
Period size: 74 Copynumber: 2.0 Consensus size: 74
48459746 AATGTTAAGC
*
48459756 GGATGCAGAGAAGGTATGGTAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
1 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
48459821 CTTACAAGT
66 CTTACAAGT
48459830 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
1 GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
48459895 CTTACA
66 CTTACA
48459901 CGTTTTAAGA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.31, C:0.12, G:0.32, T:0.25
Consensus pattern (74 bp):
GGATGCAGAGAAGGTATGGCAGAGGATCCAACGTGTTCAATTTGTGGAGTAATGGAGGAACTAGT
CTTACAAGT
Found at i:48464037 original size:26 final size:25
Alignment explanation
Indices: 48464008--48464173 Score: 91
Period size: 23 Copynumber: 6.5 Consensus size: 25
48463998 CAAAATTTAT
48464008 AAATATATATTAAAATTATATTATAA
1 AAATATATATT-AAATTATATTATAA
* *
48464034 AAAT-TATATT--ATTGTGGCTTACATAA
1 AAATATATATTAAATTAT--ATT--ATAA
48464060 AACATATATTATTAAAATTTATATTATAA
1 AA-ATATA-TATT-AAA-TTATATTATAA
* *
48464089 AAAAAT-TATGAAATTATATTATAA
1 AAATATATATTAAATTATATTATAA
48464113 AAA-AT-TA-TAAATATATATTAT-A
1 AAATATATATTAAAT-TATATTATAA
*
48464135 AAATAT-TA-TAAATATATATTTTTATA
1 AAATATATATTAAAT-TATA-TTATA-A
48464161 AAATATTATATTA
1 AAATA-TATATTA
48464174 TAACGACTTA
Statistics
Matches: 113, Mismatches: 8, Indels: 35
0.72 0.05 0.22
Matches are distributed among these distances:
22 12 0.11
23 26 0.23
24 19 0.17
25 9 0.08
26 19 0.17
27 3 0.03
28 7 0.06
29 12 0.11
31 2 0.02
32 1 0.01
33 3 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
AAATATATATTAAATTATATTATAA
Found at i:48464038 original size:14 final size:14
Alignment explanation
Indices: 48464019--48464045 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48464009 AATATATATT
48464019 AAAATTATATTATA
1 AAAATTATATTATA
48464033 AAAATTATATTAT
1 AAAATTATATTAT
48464046 TGTGGCTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTATATTATA
Found at i:48464114 original size:23 final size:23
Alignment explanation
Indices: 48464070--48464154 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
48464060 AACATATATT
*
48464070 ATTA-AAATTTATATTATAAAAAA
1 ATTATAAATATATATTAT-AAAAA
48464093 ATTATGAAAT-TATATTATAAAAA
1 ATTAT-AAATATATATTATAAAAA
*
48464116 ATTATAAATATATATTATAAAAT
1 ATTATAAATATATATTATAAAAA
48464139 ATTATAAATATATATT
1 ATTATAAATATATATT
48464155 TTTATAAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
22 4 0.07
23 42 0.72
24 8 0.14
25 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (23 bp):
ATTATAAATATATATTATAAAAA
Found at i:48464119 original size:15 final size:14
Alignment explanation
Indices: 48464064--48464176 Score: 61
Period size: 13 Copynumber: 8.7 Consensus size: 14
48464054 ACATAAAACA
*
48464064 TATATTATTAAAATT
1 TATATTA-TAAAAAT
48464079 TATATTATAAAAA-
1 TATATTATAAAAAT
*
48464092 -A-ATTAT-GAAAT
1 TATATTATAAAAAT
48464103 TATATTAT-AAAA-
1 TATATTATAAAAAT
*
48464115 -A-ATTATAAATA-
1 TATATTATAAAAAT
48464126 TATATTATAAAATAT
1 TATATTATAAAA-AT
* * *
48464141 TATA-AATATATAT
1 TATATTATAAAAAT
48464154 T-T-TTATAAAATAT
1 TATATTATAAAA-AT
48464167 TATATTATAA
1 TATATTATAA
48464177 CGACTTACGT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
10 8 0.11
11 9 0.12
12 8 0.11
13 22 0.29
14 11 0.15
15 17 0.23
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (14 bp):
TATATTATAAAAAT
Found at i:48464134 original size:13 final size:13
Alignment explanation
Indices: 48464063--48464154 Score: 78
Period size: 13 Copynumber: 7.7 Consensus size: 13
48464053 TACATAAAAC
48464063 ATATATTATTA-AA
1 ATATA-TATTATAA
*
48464076 ATTTATATTATAA
1 ATATATATTATAA
*
48464089 A-A-AAATTATGAA
1 ATATATATTAT-AA
48464101 AT-TATATTATAA
1 ATATATATTATAA
48464113 A-A-A-ATTATAA
1 ATATATATTATAA
48464123 ATATATATTAT-A
1 ATATATATTATAA
48464135 A-A-ATATTATAA
1 ATATATATTATAA
48464146 ATATATATT
1 ATATATATT
48464155 TTTATAAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
10 15 0.23
11 11 0.17
12 15 0.23
13 23 0.36
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (13 bp):
ATATATATTATAA
Found at i:48464159 original size:16 final size:18
Alignment explanation
Indices: 48464140--48464172 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48464130 TTATAAAATA
48464140 TTAT-AAATA-TATATTT
1 TTATAAAATATTATATTT
48464156 TTATAAAATATTATATT
1 TTATAAAATATTATATT
48464173 ATAACGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATAAAATATTATATTT
Found at i:48464169 original size:10 final size:10
Alignment explanation
Indices: 48464080--48464170 Score: 55
Period size: 10 Copynumber: 8.8 Consensus size: 10
48464070 ATTAAAATTT
48464080 ATATTATAAAA
1 ATATTAT-AAA
*
48464091 AAATTATGAAA
1 ATATTAT-AAA
48464102 TTATATTATAAA
1 --ATATTATAAA
*
48464114 AAATTATAAATA
1 ATATTAT-AA-A
48464126 TATATTATAAA
1 -ATATTATAAA
48464137 ATATTAT-AA
1 ATATTATAAA
48464146 ATA-TAT--A
1 ATATTATAAA
* *
48464153 TTTTTATAAA
1 ATATTATAAA
48464163 ATATTATA
1 ATATTATA
48464171 TTATAACGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
7 2 0.03
8 6 0.10
9 5 0.08
10 20 0.32
11 12 0.19
12 6 0.10
13 12 0.19
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (10 bp):
ATATTATAAA
Found at i:48470285 original size:12 final size:12
Alignment explanation
Indices: 48470234--48470286 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
48470224 TAAATATTAG
48470234 ATTAAATTTAAT
1 ATTAAATTTAAT
*
48470246 ATCAAATTT-AT
1 ATTAAATTTAAT
*
48470257 ATATAAACATTAA-
1 AT-TAAA-TTTAAT
48470270 ATTAAATTTAAT
1 ATTAAATTTAAT
48470282 ATTAA
1 ATTAA
48470287 GATAATCACT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 8 0.24
12 20 0.61
13 4 0.12
14 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAAATTTAAT
Found at i:48471959 original size:16 final size:16
Alignment explanation
Indices: 48471938--48471968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48471928 CTATGCATGC
*
48471938 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
48471954 AAAATACAAAAGACA
1 AAAATACAAAAGACA
48471969 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:48477003 original size:18 final size:18
Alignment explanation
Indices: 48476965--48477014 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
48476955 AGGCCAATCT
* *
48476965 GGGCATGT-GGACCACAT
1 GGGCATGTGGGCCCACAC
48476982 GGGCATGTGGGCCCACAC
1 GGGCATGTGGGCCCACAC
48477000 GGGCATGTGGGCCCA
1 GGGCATGTGGGCCCA
48477015 AACTTCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.18, C:0.28, G:0.40, T:0.14
Consensus pattern (18 bp):
GGGCATGTGGGCCCACAC
Found at i:48486967 original size:18 final size:17
Alignment explanation
Indices: 48486941--48486988 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
48486931 AATAAAAATA
48486941 AACGTTTTGAAATTGAAT
1 AACGTTTTGAAA-TGAAT
*
48486959 AACGATTTGTAAATGAAT
1 AACGTTTTG-AAATGAAT
*
48486977 AATGTTTTGAAA
1 AACGTTTTGAAA
48486989 ACGAACAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.17, T:0.38
Consensus pattern (17 bp):
AACGTTTTGAAATGAAT
Found at i:48487446 original size:20 final size:18
Alignment explanation
Indices: 48487346--48487447 Score: 72
Period size: 20 Copynumber: 5.7 Consensus size: 18
48487336 TTCAACTATA
48487346 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAAT-A-TTTAAT
48487367 ATTAAATTAATA--TAAT
1 ATTAAATTAATATTTAAT
* * *
48487383 ATT-TATTAAGA-TAAAT
1 ATTAAATTAATATTTAAT
*
48487399 ATTAGATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
48487416 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
48487436 ATTAAATTAATA
1 ATTAAATTAATA
48487448 AAATACTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
15 6 0.09
16 14 0.21
17 16 0.24
18 1 0.01
19 4 0.06
20 20 0.30
21 6 0.09
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:48487480 original size:68 final size:69
Alignment explanation
Indices: 48487354--48487488 Score: 227
Period size: 68 Copynumber: 2.0 Consensus size: 69
48487344 TAATTAAACT
* * *
48487354 TAATCACTTTAATATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
48487419 AAGA
66 AAGA
*
48487423 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
48487487 AA
66 AA
48487489 ACTATTAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 33 0.53
69 29 0.47
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATTAAGATAAATATTAAATTAAATTTAATATT
AAGA
Found at i:48497603 original size:18 final size:17
Alignment explanation
Indices: 48497573--48497606 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48497563 TGTTTAATGG
48497573 TAAAGAACGAAATGGAC
1 TAAAGAACGAAATGGAC
*
48497590 TAAATGAACTAAATGGA
1 TAAA-GAACGAAATGGA
48497607 AATGCTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (17 bp):
TAAAGAACGAAATGGAC
Found at i:48499680 original size:13 final size:13
Alignment explanation
Indices: 48499662--48499756 Score: 59
Period size: 13 Copynumber: 7.3 Consensus size: 13
48499652 TAAATGTGTA
48499662 ATATGAAATGATT
1 ATATGAAATGATT
* * *
48499675 ATATGAGACGGTT
1 ATATGAAATGATT
* *
48499688 ATACG-AATGGTT
1 ATATGAAATGATT
* *
48499700 ATATAAAATGAAT
1 ATATGAAATGATT
*
48499713 ATATGAAAGGATT
1 ATATGAAATGATT
* *
48499726 GTTTG-AATCGATT
1 ATATGAAAT-GATT
*
48499739 ATATGGAAATAATT
1 ATAT-GAAATGATT
48499753 ATAT
1 ATAT
48499757 AAAACTGTTT
Statistics
Matches: 59, Mismatches: 19, Indels: 7
0.69 0.22 0.08
Matches are distributed among these distances:
12 10 0.17
13 38 0.64
14 8 0.14
15 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.36
Consensus pattern (13 bp):
ATATGAAATGATT
Found at i:48510921 original size:32 final size:32
Alignment explanation
Indices: 48510874--48510960 Score: 120
Period size: 32 Copynumber: 2.7 Consensus size: 32
48510864 TTGAAATTAG
*
48510874 TTTGTTGGATTTTGAAATTATTATGTTTTAAA
1 TTTGTTGGATATTGAAATTATTATGTTTTAAA
* * *
48510906 TTTGTTAGATATTGAATTTATTATGTTTTAAG
1 TTTGTTGGATATTGAAATTATTATGTTTTAAA
* *
48510938 CTTGTTGGATATTGAAATGATTA
1 TTTGTTGGATATTGAAATTATTA
48510961 ACAATGACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATGTTTTAAA
Found at i:48536195 original size:82 final size:82
Alignment explanation
Indices: 48536058--48536221 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 82
48536048 CTGCTTATGC
* *
48536058 CGTCTCATGCCTTTATTGTAGGCATAATTTCTCCTTATGTCCTACTTTGTTCATTAATTAAGCCA
1 CGTCTCATGCCTTTATTGTAGGCATAATTTCTCCTTAAGTACTACTTTGTTCATTAATTAAGCCA
48536123 TTTAATCACTATTTCTT
66 TTTAATCACTATTTCTT
* * *
48536140 CGTCTCATGCCTTTATTTTATGCATAATTTCTCCTTAAGTACTACTTTTTTCATTAATTAAGCCA
1 CGTCTCATGCCTTTATTGTAGGCATAATTTCTCCTTAAGTACTACTTTGTTCATTAATTAAGCCA
48536205 TTTAATCACTATTTCTT
66 TTTAATCACTATTTCTT
48536222 TAATTAGCAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 77 1.00
ACGTcount: A:0.23, C:0.21, G:0.08, T:0.48
Consensus pattern (82 bp):
CGTCTCATGCCTTTATTGTAGGCATAATTTCTCCTTAAGTACTACTTTGTTCATTAATTAAGCCA
TTTAATCACTATTTCTT
Found at i:48538559 original size:26 final size:27
Alignment explanation
Indices: 48538530--48538602 Score: 89
Period size: 26 Copynumber: 2.7 Consensus size: 27
48538520 TTTTTATTGG
48538530 TTATAT-TTAAAATTTAAAA-TTATAAT
1 TTATATATTAAAATTTAAAATTTAT-AT
*
48538556 TTATATATT-CAATTTAAAATTTATAT
1 TTATATATTAAAATTTAAAATTTATAT
48538582 TTCATATATTAAAATATTAAA
1 TT-ATATATTAAAAT-TTAAA
48538603 TTTTTTTATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 19 0.47
27 13 0.32
28 3 0.08
29 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (27 bp):
TTATATATTAAAATTTAAAATTTATAT
Found at i:48538582 original size:18 final size:21
Alignment explanation
Indices: 48538548--48538605 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
48538538 AAAATTTAAA
*
48538548 ATTATAATTTATATATTCA-AT
1 ATTAAAATTTATAT-TTCATAT
48538569 -TTAAAATTTATATTTCATAT
1 ATTAAAATTTATATTTCATAT
*
48538589 ATTAAAATATTAAATTT
1 ATTAAAAT-TTATATTT
48538606 TTTTATAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 4 0.12
20 14 0.44
21 7 0.22
22 7 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAAATTTATATTTCATAT
Found at i:48547107 original size:29 final size:29
Alignment explanation
Indices: 48547075--48547136 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
48547065 AACCAAAAAA
*
48547075 GGCCGTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGGTTTTTT-AATAATTTACCGAAATG
* *
48547104 GGCCGGTTTTTTAATTATTTACCGGAATG
1 GGCCGGTTTTTTAATAATTTACCGAAATG
48547133 GGCC
1 GGCC
48547137 ATTTACAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (29 bp):
GGCCGGTTTTTTAATAATTTACCGAAATG
Found at i:48548219 original size:29 final size:29
Alignment explanation
Indices: 48548175--48548240 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
48548165 GGTTTTTATG
*
48548175 AATAAAAATAATAGGTTAAGAGCTTATTTA
1 AATACAAA-AATAGGTTAAGAGCTTATTTA
* * * *
48548205 ACTACAAAAATAGGTTGAGGGCTTGTTTA
1 AATACAAAAATAGGTTAAGAGCTTATTTA
48548234 AATACAA
1 AATACAA
48548241 TGTAGTGAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.45, C:0.08, G:0.17, T:0.30
Consensus pattern (29 bp):
AATACAAAAATAGGTTAAGAGCTTATTTA
Found at i:48551198 original size:30 final size:30
Alignment explanation
Indices: 48551136--48551199 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
48551126 TATTATATTT
*
48551136 AAATAAGTCTTTAAATTTTAATTAGTACTC
1 AAATAAGTCTTTAAATTTTAATTAGCACTC
* *
48551166 AAATAAGTTTTTAAATTTTAAGTTA-CATTC
1 AAATAAGTCTTTAAATTTTAA-TTAGCACTC
48551196 AAAT
1 AAAT
48551200 TATAAGTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (30 bp):
AAATAAGTCTTTAAATTTTAATTAGCACTC
Found at i:48551228 original size:30 final size:30
Alignment explanation
Indices: 48551194--48551254 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
48551184 TAAGTTACAT
48551194 TCAAATTATAAGTTGTTAATCTTTAATTTG
1 TCAAATTATAAGTTGTTAATCTTTAATTTG
48551224 TCAAATTATAAGTTGTTAATCTTTAATTTG
1 TCAAATTATAAGTTGTTAATCTTTAATTTG
48551254 T
1 T
48551255 ATCCAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (30 bp):
TCAAATTATAAGTTGTTAATCTTTAATTTG
Found at i:48551254 original size:15 final size:15
Alignment explanation
Indices: 48551206--48551254 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
48551196 AAATTATAAG
48551206 TTGTTAATCTTTAAT
1 TTGTTAATCTTTAAT
* * *
48551221 TTGTCAAAT-TATAAG
1 TTGT-TAATCTTTAAT
48551236 TTGTTAATCTTTAAT
1 TTGTTAATCTTTAAT
48551251 TTGT
1 TTGT
48551255 ATCCAAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (15 bp):
TTGTTAATCTTTAAT
Found at i:48564171 original size:18 final size:18
Alignment explanation
Indices: 48564150--48564209 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
48564140 AATGCAAAGA
48564150 TTAATAAAAATAAATAAT
1 TTAATAAAAATAAATAAT
*
48564168 TTAATAATATATAAA-AA-
1 TTAATAA-AAATAAATAAT
** *
48564185 TTGGTAAAAATCAATAAT
1 TTAATAAAAATAAATAAT
48564203 TTAATAA
1 TTAATAA
48564210 TTTATATGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 14 0.44
19 6 0.19
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (18 bp):
TTAATAAAAATAAATAAT
Found at i:48567615 original size:17 final size:16
Alignment explanation
Indices: 48567593--48567625 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
48567583 TTTTAGATTG
48567593 ATGTAAATATATGTTAA
1 ATGTAAATATAT-TTAA
48567610 ATGTAAATATATTTAA
1 ATGTAAATATATTTAA
48567626 TTTTTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
ATGTAAATATATTTAA
Found at i:48567962 original size:18 final size:18
Alignment explanation
Indices: 48567941--48567977 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
48567931 AATTAATGGC
48567941 TAAAGAAAGAATAATTTT
1 TAAAGAAAGAATAATTTT
48567959 TAAAGAAAGAATAATTTT
1 TAAAGAAAGAATAATTTT
48567977 T
1 T
48567978 TAGCTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.35
Consensus pattern (18 bp):
TAAAGAAAGAATAATTTT
Found at i:48569172 original size:31 final size:31
Alignment explanation
Indices: 48569137--48569198 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
48569127 GCAATAAGAA
48569137 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
48569168 AGAACCAGTATATTGATTCATTGTGCTTACT
1 AGAACCAGTATATTGATTCATTGTGCTTACT
48569199 CAGAGGAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (31 bp):
AGAACCAGTATATTGATTCATTGTGCTTACT
Found at i:48571128 original size:6 final size:6
Alignment explanation
Indices: 48571109--48571142 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
48571099 TGACATTTTT
*
48571109 AAATTA AAACTA AAATTA AAATTA AAATATA AAA
1 AAATTA AAATTA AAATTA AAATTA AAAT-TA AAA
48571143 AATTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATTA
Found at i:48572785 original size:8 final size:8
Alignment explanation
Indices: 48572772--48572796 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48572762 ATTGGACAAC
48572772 AAAATTTT
1 AAAATTTT
48572780 AAAATTTT
1 AAAATTTT
48572788 AAAATTTT
1 AAAATTTT
48572796 A
1 A
48572797 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AAAATTTT
Found at i:48574796 original size:11 final size:11
Alignment explanation
Indices: 48574776--48574805 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
48574766 ATTGACCCAT
*
48574776 ATACAAAAATC
1 ATACAGAAATC
48574787 ATACAGAAATC
1 ATACAGAAATC
48574798 ATACAGAA
1 ATACAGAA
48574806 CATGCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.07, T:0.17
Consensus pattern (11 bp):
ATACAGAAATC
Found at i:48589812 original size:15 final size:16
Alignment explanation
Indices: 48589794--48589828 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48589784 ACATAGAAAT
*
48589794 AATAAGAAT-AATAAA
1 AATAAAAATAAATAAA
48589809 AATAAAAATAAATAAA
1 AATAAAAATAAATAAA
48589825 AATA
1 AATA
48589829 CTAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AATAAAAATAAATAAA
Found at i:48589921 original size:17 final size:17
Alignment explanation
Indices: 48589899--48589934 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
48589889 TAGGCATAAG
48589899 AATAAAATAAATAAATA
1 AATAAAATAAATAAATA
*
48589916 AATAAAATAACTAAATA
1 AATAAAATAAATAAATA
48589933 AA
1 AA
48589935 GAGGGAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAATAAATAAATA
Found at i:48590216 original size:30 final size:31
Alignment explanation
Indices: 48590180--48590239 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
48590170 GCGTCGGAGG
48590180 AGGGAAA-TGAAAAGGTG-AAGGAAG-GGAGAA
1 AGGGAAATTG-AAAGG-GAAAGGAAGAGGAGAA
48590210 AGGGAAATTGAAAGGGAAAGGAAGAGGAGA
1 AGGGAAATTGAAAGGGAAAGGAAGAGGAGA
48590240 TGGGGAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 1 0.04
30 19 0.70
31 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (31 bp):
AGGGAAATTGAAAGGGAAAGGAAGAGGAGAA
Found at i:48590891 original size:12 final size:12
Alignment explanation
Indices: 48590864--48590906 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
48590854 TTATTTCAAA
48590864 AAAAG-AAAAAC
1 AAAAGAAAAAAC
48590875 AAAAGAAGAAAAC
1 AAAAGAA-AAAAC
*
48590888 -AAAGAAAAAAG
1 AAAAGAAAAAAC
48590899 AAAAGAAA
1 AAAAGAAA
48590907 TTGTGAACAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 9 0.32
12 14 0.50
13 5 0.18
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAC
Found at i:48593605 original size:31 final size:31
Alignment explanation
Indices: 48593567--48593625 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
48593557 TAAATAGTGA
**
48593567 AAACCATCATTGTTGGGCAATCCAGGGTGGT
1 AAACCATCATTGTAAGGCAATCCAGGGTGGT
*
48593598 AAACCATCATTGTAAGGCAATCCGGGGT
1 AAACCATCATTGTAAGGCAATCCAGGGT
48593626 CGTATGTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
AAACCATCATTGTAAGGCAATCCAGGGTGGT
Found at i:48607140 original size:16 final size:16
Alignment explanation
Indices: 48607119--48607186 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
48607109 TTTGGTTCGC
48607119 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
48607135 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
48607151 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48607167 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
48607183 TGTA
1 TGTA
48607187 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:48607251 original size:44 final size:45
Alignment explanation
Indices: 48607167--48607257 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
48607157 GGATTAGAGG
* * *
48607167 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
48607212 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
48607256 TG
1 TG
48607258 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:48607573 original size:121 final size:121
Alignment explanation
Indices: 48607405--48607668 Score: 503
Period size: 121 Copynumber: 2.2 Consensus size: 121
48607395 ATCATATTTA
*
48607405 AACATAATTATTATTAAATATA-TTTTAATTATACTATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTA
*
48607469 ATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTCAAATCATAATACATGATACTGTAAAATATAAATT
48607525 AACATAATTATTATTAAATATATTTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTA
1 AACATAATTATTATTAAATATATTTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTA
48607590 ATATTCTTATATTAATTTACTCAAATCATAATACATGATACTGTAAAATATAAATT
66 ATATTCTTATATTAATTTACTCAAATCATAATACATGATACTGTAAAATATAAATT
48607646 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
48607669 AACTTGAAAA
Statistics
Matches: 141, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
120 22 0.16
121 119 0.84
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTA
ATATTCTTATATTAATTTACTCAAATCATAATACATGATACTGTAAAATATAAATT
Found at i:48614257 original size:11 final size:11
Alignment explanation
Indices: 48614241--48614268 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
48614231 AATCGGGAGG
48614241 CGAAGGTAGAA
1 CGAAGGTAGAA
48614252 CGAAGGTAGAA
1 CGAAGGTAGAA
48614263 CGAAGG
1 CGAAGG
48614269 AAGATGCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.11, G:0.39, T:0.07
Consensus pattern (11 bp):
CGAAGGTAGAA
Found at i:48615317 original size:27 final size:27
Alignment explanation
Indices: 48615278--48615347 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
48615268 CTTGTCAGCT
48615278 TTTGTGGCATACTCTGAAAGAATCACC
1 TTTGTGGCATACTCTGAAAGAATCACC
* * * *
48615305 TTTGTGGCGTACTATGAATGAATCGCC
1 TTTGTGGCATACTCTGAAAGAATCACC
48615332 TTTGTGGCATACTCTG
1 TTTGTGGCATACTCTG
48615348 TATAGATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (27 bp):
TTTGTGGCATACTCTGAAAGAATCACC
Found at i:48627598 original size:68 final size:71
Alignment explanation
Indices: 48627503--48627639 Score: 172
Period size: 72 Copynumber: 2.0 Consensus size: 71
48627493 TTAATAGATA
* * * *
48627503 TAATATTAAATTTAGTTTAATACTTATCTT-T-AT-AGTATTTTGTTAATTTAATATTAAAGTGA
1 TAATATTAAATTTAATTTAATACTTATCTTGTAATAAATATTCTATTAATTTAATATTAAAGTGA
48627565 TTATCT
66 TTATCT
* ** *
48627571 TAATATTTAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTCATATTAAAGTG
1 TAATATTAAATTTAATTTAATACTTATCTTGTA-ATAAATATTCTATTAATTTAATATTAAAGTG
48627636 ATTA
65 ATTA
48627640 AGTTTAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
68 26 0.46
69 1 0.02
71 2 0.04
72 28 0.49
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.52
Consensus pattern (71 bp):
TAATATTAAATTTAATTTAATACTTATCTTGTAATAAATATTCTATTAATTTAATATTAAAGTGA
TTATCT
Found at i:48628469 original size:21 final size:21
Alignment explanation
Indices: 48628443--48628494 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
48628433 CTGTTGTCAA
* *
48628443 TGTCGCGATACAGGATGAGGG
1 TGTCGCGACACAGGATAAGGG
*
48628464 TGTCGCGACACAGGCTAAGGG
1 TGTCGCGACACAGGATAAGGG
48628485 TGTCGCGACA
1 TGTCGCGACA
48628495 TACCCTTGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.17
Consensus pattern (21 bp):
TGTCGCGACACAGGATAAGGG
Found at i:48656340 original size:20 final size:20
Alignment explanation
Indices: 48656315--48656353 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48656305 TACTTTCTTC
48656315 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
48656335 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
48656354 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:48656698 original size:50 final size:50
Alignment explanation
Indices: 48656644--48656750 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
48656634 ACATGAGAGT
* ** *
48656644 TCTCATATCGGTACCCATGCCATGTCCCAGACATGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
* * *
48656694 TCTCATCTCGGTGCCAACACCATGTCCCAGACATGGTCTTACGTGGAACC
1 TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
*
48656744 TTTCATA
1 TCTCATA
48656751 ACCTCAATAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTACCAACACCATGTCCCAGACATGGTCTTACGGGGAACC
Found at i:48664069 original size:20 final size:20
Alignment explanation
Indices: 48664044--48664082 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
48664034 TACTTTCTTC
48664044 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
48664064 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
48664083 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:48664766 original size:32 final size:32
Alignment explanation
Indices: 48664729--48664790 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
48664719 TCAAATCTAG
48664729 CAACTTAGTCTTCAACCTTTCTCTTTCCCTAT
1 CAACTTAGTCTTCAACCTTTCTCTTTCCCTAT
*
48664761 CAACTTAGTCTTCAACCTTTTTCTTTCCCT
1 CAACTTAGTCTTCAACCTTTCTCTTTCCCT
48664791 GGTCTAACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.03, T:0.45
Consensus pattern (32 bp):
CAACTTAGTCTTCAACCTTTCTCTTTCCCTAT
Found at i:48672927 original size:51 final size:51
Alignment explanation
Indices: 48672872--48672984 Score: 124
Period size: 51 Copynumber: 2.3 Consensus size: 51
48672862 AGAAATGATG
* * * *
48672872 AAATAGATAAATAGGAA-CATTTCAAAATGATTATGATTTTCTCCAAAATGA
1 AAATAGAGAAAT-GAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
** * *
48672923 AAATAGAGAAATGAAATCATTTGGAAATAAATGTGGTTTTCTCCAAAATGA
1 AAATAGAGAAATGAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
48672974 AAAT-GA-AAATG
1 AAATAGAGAAATG
48672985 GCCTGAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
49 5 0.09
50 5 0.09
51 43 0.81
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (51 bp):
AAATAGAGAAATGAAATCATTTCAAAATAAATATGATTTTCTCCAAAATGA
Found at i:48678740 original size:6 final size:6
Alignment explanation
Indices: 48678731--48678760 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
48678721 GATTTTCTCC
48678731 AAAATG AAAATG AAAATG AAAATG AAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG
48678761 GAGAAACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:48678766 original size:69 final size:69
Alignment explanation
Indices: 48678687--48678817 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 69
48678677 AGAAATGATG
* * *
48678687 AAATAGAGAAATAGGAA-CATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATGAAAATGAA
1 AAATAGAGAAA-AGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGAA
48678751 AATGA
65 AATGA
* * * *
48678756 AAATGGAGAAACGAAATCATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGAAAATG
1 AAATAGAGAAAAGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATG
48678818 GCCTGAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
68 3 0.06
69 51 0.94
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (69 bp):
AAATAGAGAAAAGAAATCATTTGAAAATGAATATGATTTTCTCCAAAATGAAAATGAAAATGAAA
ATGA
Found at i:48687301 original size:57 final size:57
Alignment explanation
Indices: 48687214--48687331 Score: 218
Period size: 57 Copynumber: 2.1 Consensus size: 57
48687204 TGATATGGAG
* *
48687214 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTTGGCTATACTGATACTGGAAAT
1 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
48687271 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
1 TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
48687328 TTAT
1 TTAT
48687332 CGAATCCACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (57 bp):
TTATTTTATTCAAATGATTCAAAATCCCTAGTAGTCGGCTATACTGATACAGGAAAT
Found at i:48692903 original size:11 final size:11
Alignment explanation
Indices: 48692889--48692945 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
48692879 ATATCCAAAT
48692889 AATAATAACAA
1 AATAATAACAA
*
48692900 AATATTAACAA
1 AATAATAACAA
*
48692911 TATAATAACAA
1 AATAATAACAA
* *
48692922 AATGATAGCAA
1 AATAATAACAA
* *
48692933 AACAACAACAA
1 AATAATAACAA
48692944 AA
1 AA
48692946 CAACTTATTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
11 36 1.00
ACGTcount: A:0.67, C:0.12, G:0.04, T:0.18
Consensus pattern (11 bp):
AATAATAACAA
Done.