Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 14 of 204
Found at i:4333794 original size:27 final size:27
Alignment explanation
Indices: 4333753--4333831 Score: 108
Period size: 27 Copynumber: 2.9 Consensus size: 27
4333743 TTCCCTGGGT
*
4333753 CAAGGGAACAC-TGTTGGCGGCACTAAA
1 CAAGGGAAC-CTTGTTGGCGGCACCAAA
4333780 CAAGGGAACCTTGTTGGCGGCACCAAA
1 CAAGGGAACCTTGTTGGCGGCACCAAA
*
4333807 CAA-GGATTCCTTGTTGGCGGCACCA
1 CAAGGGA-ACCTTGTTGGCGGCACCA
4333832 CCTTAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.08
27 44 0.92
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (27 bp):
CAAGGGAACCTTGTTGGCGGCACCAAA
Found at i:4333899 original size:10 final size:10
Alignment explanation
Indices: 4333880--4334018 Score: 57
Period size: 10 Copynumber: 13.1 Consensus size: 10
4333870 AGGAGAGGGG
*
4333880 AAGAAGAAGA
1 AAGAAAAAGA
4333890 AAGAAAAAGA
1 AAGAAAAAGA
* *
4333900 AGGAAAAGGA
1 AAGAAAAAGA
4333910 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
4333924 AAGAAAAAGA
1 AAGAAAAAGA
* *
4333934 AGGAAAGA-A
1 AAGAAAAAGA
* *
4333943 AAGAAAAGGGG
1 AAGAAAA-AGA
*
4333954 AGGAAAGAAAGA
1 AAG-AA-AAAGA
*
4333966 AA-AATAAGGA
1 AAGAA-AAAGA
*
4333976 AAGAAAAGGA
1 AAGAAAAAGA
*
4333986 AAGGAGAAGAGA
1 AA-GA-AAAAGA
*
4333998 AAAAAAAAGA
1 AAGAAAAAGA
*
4334008 AAGAAGAAGA
1 AAGAAAAAGA
4334018 A
1 A
4334019 GAGGGAAGGA
Statistics
Matches: 95, Mismatches: 23, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
9 6 0.06
10 58 0.61
11 9 0.09
12 12 0.13
13 4 0.04
14 6 0.06
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:4333914 original size:5 final size:5
Alignment explanation
Indices: 4333899--4333990 Score: 50
Period size: 5 Copynumber: 19.0 Consensus size: 5
4333889 AAAGAAAAAG
* * * * *
4333899 AAGGAA AAGGA AAGGA GAGGA AA-GA AAGAA AAAG- AAGGA AAGAA AAGAA
1 AAGG-A AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA
* * * *
4333948 AAGGG GAGGA AA-GA AA-GA AA-AA TAAGGA AAGAA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA AAGGA
4333991 GAAGAGAAAA
Statistics
Matches: 66, Mismatches: 16, Indels: 9
0.73 0.18 0.10
Matches are distributed among these distances:
4 16 0.24
5 45 0.68
6 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (5 bp):
AAGGA
Found at i:4333943 original size:14 final size:14
Alignment explanation
Indices: 4333883--4333944 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
4333873 AGAGGGGAAG
4333883 AAGAA-GAAAGAAA
1 AAGAAGGAAAGAAA
4333896 AAGAAGGAAAAGGAAA
1 AAGAAGG-AAA-GAAA
*
4333912 GGAGAGGAAAGAAAGAAA
1 --A-A-GAAGGAAAGAAA
4333930 AAGAAGGAAAGAAA
1 AAGAAGGAAAGAAA
4333944 A
1 A
4333945 GAAAAGGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
13 5 0.12
14 13 0.32
15 4 0.10
16 5 0.12
18 5 0.12
19 4 0.10
20 4 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
AAGAAGGAAAGAAA
Found at i:4333944 original size:38 final size:36
Alignment explanation
Indices: 4333886--4334046 Score: 152
Period size: 38 Copynumber: 4.4 Consensus size: 36
4333876 GGGGAAGAAG
4333886 AAGAAAGAAAAAGAAG--GAAAAGGAAAGGAGAGGA
1 AAGAAAGAAAAAGAAGAAGAAAAGGAAAGGAGAGGA
* *
4333920 AAGAAAGAAAAAGAAGGAAAGAAAAGAAAAGGGGAGGA
1 AAGAAAGAAAAAGAA-G-AAGAAAAGGAAAGGAGAGGA
*
4333958 AAGAAAGAAAAATAAGGAAAGAAAAGGAAAGGAGAAGAGA
1 AAGAAAGAAAAAGAA-G-AAGAAAAGGAAAGGAG-AG-GA
* * *
4333998 AA-AAAAAAGAAAGAAGAAGAAGAGGGAAGGA-AGGA
1 AAGAAAGAA-AAAGAAGAAGAAAAGGAAAGGAGAGGA
* *
4334033 AGGAAA-AAATAGAA
1 AAGAAAGAAAAAGAA
4334047 AATAAGGTAA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
34 20 0.19
35 6 0.06
36 5 0.05
38 60 0.56
39 8 0.07
40 9 0.08
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (36 bp):
AAGAAAGAAAAAGAAGAAGAAAAGGAAAGGAGAGGA
Found at i:4334004 original size:22 final size:22
Alignment explanation
Indices: 4333961--4334017 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
4333951 GGGAGGAAAG
* *
4333961 AAAGAAA-AATAAG-GAAAGAA
1 AAAGAAAGAAGAAGAGAAAAAA
* *
4333981 AAGGAAAGGAGAAGAGAAAAAA
1 AAAGAAAGAAGAAGAGAAAAAA
4334003 AAAGAAAGAAGAAGA
1 AAAGAAAGAAGAAGA
4334018 AGAGGGAAGG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 6 0.21
21 4 0.14
22 19 0.66
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (22 bp):
AAAGAAAGAAGAAGAGAAAAAA
Found at i:4334039 original size:71 final size:73
Alignment explanation
Indices: 4333865--4334040 Score: 193
Period size: 71 Copynumber: 2.4 Consensus size: 73
4333855 TTGGTGGGGG
* * *
4333865 GAAGAAGGAGAGGGGAA-GAAGAAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAGGAAAGAAAGAA
1 GAAGAAGAAGA-GGGAAGGAAG--GAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGAAAGAAAGAA
4333929 AAAGAAGGAAA
63 AAAGAAGGAAA
* * * *
4333940 GAA-AAGAAAAGGGGAGGAAAGAAAGAAAAATAAGG-AAAGAAAAGGAAAGGAGAAGAGAA-AAA
1 GAAGAAGAAGAGGGAAGGAAGGAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGA-AAGA-AAGAAA
4334002 AA-AA-GAAA
64 AAGAAGGAAA
*
4334010 GAAGAAGAAGAGGGAAGGAAGGAAGGAAAAA
1 GAAGAAGAAGAGGGAAGGAAGGAAAGAAAAA
4334041 ATAGAAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
70 7 0.08
71 39 0.45
72 23 0.27
73 6 0.07
74 8 0.09
75 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.01
Consensus pattern (73 bp):
GAAGAAGAAGAGGGAAGGAAGGAAAGAAAAAGAAGGAAAAGAAAAGGAAAGGAAAGAAAGAAAAA
GAAGGAAA
Found at i:4334758 original size:19 final size:19
Alignment explanation
Indices: 4334711--4334761 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
4334701 AAATATATAT
**
4334711 AATATTTTGGTATTTTTGA
1 AATATTTTATTATTTTTGA
*
4334730 AATATTTTATTATTTTTGT
1 AATATTTTATTATTTTTGA
*
4334749 AATGTTTTATTAT
1 AATATTTTATTAT
4334762 GGGTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (19 bp):
AATATTTTATTATTTTTGA
Found at i:4334845 original size:26 final size:28
Alignment explanation
Indices: 4334799--4334866 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
4334789 ATAAAAAATT
4334799 ACCAAAATAT-TATAACTTTTT-TTATTG
1 ACCAAAATATATATAA-TTTTTATTATTG
*
4334826 ACCAAAATATATATAATTTTTATTATTT
1 ACCAAAATATATATAATTTTTATTATTG
4334854 ACCAAAATATATA
1 ACCAAAATATATA
4334867 AAAAAAGTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.44, C:0.10, G:0.01, T:0.44
Consensus pattern (28 bp):
ACCAAAATATATATAATTTTTATTATTG
Found at i:4337555 original size:61 final size:62
Alignment explanation
Indices: 4337444--4337561 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
4337434 CCACTAATCC
* *
4337444 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAT
*
4337507 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA
4337562 CATCTTAATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 18 0.36
62 6 0.12
63 11 0.22
64 15 0.30
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAT
Found at i:4337574 original size:63 final size:62
Alignment explanation
Indices: 4337444--4337575 Score: 153
Period size: 63 Copynumber: 2.1 Consensus size: 62
4337434 CCACTAATCC
* * *
4337444 TAATAACTAACACAATAATAATATTAATAATTTTATATACAAAATAATACTAACTAAAATTAT
1 TAATAACTAACACAAAAATAATACTAAT-ATTTTATATACAAAATAATACTAACTAAAATTAA
* *
4337507 TAATAACTAACTACAAAAATAATACTAAT-TTTT-TACTA-ACAATAATACTAACTAACATCTTA
1 TAATAACTAAC-ACAAAAATAATACTAATATTTTATA-TACAAAATAATACTAACTAA-A-ATTA
4337569 A
62 A
4337570 TAATAA
1 TAATAA
4337576 TAATAATAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
61 18 0.30
62 7 0.12
63 20 0.33
64 15 0.25
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (62 bp):
TAATAACTAACACAAAAATAATACTAATATTTTATATACAAAATAATACTAACTAAAATTAA
Found at i:4337575 original size:3 final size:3
Alignment explanation
Indices: 4337567--4337592 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4337557 ACTAACATCT
4337567 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
4337593 TAAAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4337913 original size:27 final size:27
Alignment explanation
Indices: 4337875--4337969 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
4337865 ATAACACGAG
* *
4337875 TGGTGCCGCCAACAGGGAACCCTGGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
*
4337902 TGGTGCCGCCAACAAGGAATCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
**
4337929 TGGTGCCGCCAACAAGGTTCCCTTGTT
1 TGGTGCCGCCAACAAGGAACCCTTGTT
4337956 TGGTGCCGCCAACA
1 TGGTGCCGCCAACA
4337970 GTGTTCCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCAACAAGGAACCCTTGTT
Found at i:4338065 original size:28 final size:28
Alignment explanation
Indices: 4338028--4338097 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 28
4338018 TTGGGTTTTT
4338028 TATATATTTTGGTAAATAAAAAAAAT-TA
1 TATATATTTTGGTAAAT-AAAAAAATGTA
4338056 TATATATTTTGGTAAATAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAATGTA
*
4338084 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
4338098 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAATGTA
Found at i:4338085 original size:24 final size:26
Alignment explanation
Indices: 4338028--4338097 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
4338018 TTGGGTTTTT
4338028 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAAT-AAAAAAA-TA
*
4338056 TATATATTTTGGTAAATAAAAAAATG
1 TATATATTTTGGTAAATAAAAAAATA
*
4338082 TATAACATTTTGGTAA
1 TAT-ATATTTTGGTAA
4338098 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 4 0.10
27 18 0.46
28 17 0.44
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATATTTTGGTAAATAAAAAAATA
Found at i:4347597 original size:42 final size:42
Alignment explanation
Indices: 4347527--4347624 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
4347517 AGTCGAAGAA
* *
4347527 GCATTGGACTGAGATTGAATTAACTCAACATCTGGTGGAGAG
1 GCATTGAACTGAGATTGAATTAACTCAACATCTGATGGAGAG
* * * *
4347569 GCATTGAATTGAGATTGCATTGAA-TCAACATCTGATGGCGAT
1 GCATTGAACTGAGATTGAATT-AACTCAACATCTGATGGAGAG
4347611 GCATTGAACTGAGA
1 GCATTGAACTGAGA
4347625 CGGCAATGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GCATTGAACTGAGATTGAATTAACTCAACATCTGATGGAGAG
Found at i:4352365 original size:109 final size:108
Alignment explanation
Indices: 4352131--4352370 Score: 342
Period size: 110 Copynumber: 2.2 Consensus size: 108
4352121 AATAAAATTA
* * * *
4352131 GGGATAAGGTCACTTTTGACCCCTGAACTTTTTTTTAGCCACTTTGACCTTTGAACTTGAAAACC
1 GGGATAATGTAACTTTTGACCCCTAAACTTTTTTTTAGCCACTTTGACCCTTGAACTTGAAAACC
4352196 GTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAAAAATG
66 GTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAAAAATG
*
4352239 GGGATAATGTAACTTTTGACCTACCCTAAAC-TTTTTTTATCCACTTTGACCCTT-AAGCTTGAA
1 GGGATAATGTAACTTTTGA-C--CCCTAAACTTTTTTTTAGCCACTTTGACCCTTGAA-CTTGAA
* * *
4352302 AATCTTTATTCATTTAAGCTCA-TTTGTAATGACTGTGAAAAAAATG
62 AACCGTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAAAAATG
*
4352348 GGGATAATGTAACTTTTGGCCCC
1 GGGATAATGTAACTTTTGACCCC
4352371 AAAATTTGGC
Statistics
Matches: 119, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
106 3 0.03
108 18 0.15
109 44 0.37
110 47 0.39
111 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (108 bp):
GGGATAATGTAACTTTTGACCCCTAAACTTTTTTTTAGCCACTTTGACCCTTGAACTTGAAAACC
GTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAAAAATG
Found at i:4352410 original size:110 final size:109
Alignment explanation
Indices: 4352169--4352365 Score: 281
Period size: 109 Copynumber: 1.8 Consensus size: 109
4352159 TTTTTTTTAG
* *
4352169 CCACTTTGACCTTTGAACTTGAAAACCGTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAA
1 CCACATTGACCCTTGAACTTGAAAACCGTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAA
* * *
4352234 AAATGGGGATAATGTAACTTTTGACCTACCCTAAACTTTTTTTAT
66 AAATGGGGATAATGTAACTTTTGACC-ACCCTAAAATTTGTATAT
* * * *
4352279 CCACTTTGACCCTT-AAGCTTGAAAATCTTTATTCATTTAAGCTCA-TTTGTAATGACTGTGAAA
1 CCACATTGACCCTTGAA-CTTGAAAACCGTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAA
4352342 AAAATGGGGATAATGTAACTTTTG
65 AAAATGGGGATAATGTAACTTTTG
4352366 GCCCCAAAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
109 43 0.52
110 39 0.48
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (109 bp):
CCACATTGACCCTTGAACTTGAAAACCGTTATTCATTTAAGCTCATTTTGCAATGACTGTGAAAA
AAATGGGGATAATGTAACTTTTGACCACCCTAAAATTTGTATAT
Found at i:4355925 original size:19 final size:18
Alignment explanation
Indices: 4355893--4355960 Score: 54
Period size: 19 Copynumber: 3.8 Consensus size: 18
4355883 TATTTTCTCA
4355893 TAAAA-ATAATAAAAAAT-
1 TAAAATATAA-AAAAAATC
*
4355910 TATAAATATCAAAAAATATC
1 TA-AAATAT-AAAAAAAATC
**
4355930 TAAAATATAAAAATGAT-
1 TAAAATATAAAAAAAATC
4355947 T-AAATATAAAAAAA
1 TAAAATATAAAAAAA
4355961 TATATGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 11 0.26
17 3 0.07
18 10 0.24
19 14 0.33
20 4 0.10
ACGTcount: A:0.69, C:0.03, G:0.01, T:0.26
Consensus pattern (18 bp):
TAAAATATAAAAAAAATC
Found at i:4355960 original size:18 final size:17
Alignment explanation
Indices: 4355896--4355963 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
4355886 TTTCTCATAA
*
4355896 AAATAATAAAAAATTA-T
1 AAAT-ATAAAAAAATATT
*
4355913 AAATATCAAAAAATATCT
1 AAATATAAAAAAATAT-T
*
4355931 AAA-ATATAAAAATGATT
1 AAATATAAAAAAAT-ATT
4355948 AAATATAAAAAAATAT
1 AAATATAAAAAAATAT
4355964 ATGAAAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 9 0.21
17 18 0.43
18 15 0.36
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (17 bp):
AAATATAAAAAAATATT
Found at i:4356074 original size:23 final size:24
Alignment explanation
Indices: 4356039--4356086 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
4356029 TAAAATTAAT
*
4356039 AAAATATATTTAAAATTT-TATAAA
1 AAAACATATTT-AAATTTCTATAAA
4356063 AAAACATA-TTAAATTTCTATAAA
1 AAAACATATTTAAATTTCTATAAA
4356086 A
1 A
4356087 TCATAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAACATATTTAAATTTCTATAAA
Found at i:4356076 original size:72 final size:68
Alignment explanation
Indices: 4356000--4356132 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 68
4355990 ATTATAAAAA
*
4356000 TAAATTTCTAAAAAATTC-TAAAAAATATATAAAATTAATAAAATATATTTAAAATTTTATAAAA
1 TAAATTTCTAAAAAA-TCATAAAAAATAT-TAAAATTAATAAAAT-TATATAAAA--TTATAAAA
4356064 AAACATAT
61 AAACATAT
* * *
4356072 TAAATTTCTATAAAATCATAAAAAGTATTAAAATTATTAAAATTATATAAAATTATAAAAA
1 TAAATTTCTAAAAAATCATAAAAAATATTAAAATTAATAAAATTATATAAAATTATAAAAA
4356133 TTATAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
68 9 0.16
70 8 0.14
71 16 0.29
72 23 0.41
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (68 bp):
TAAATTTCTAAAAAATCATAAAAAATATTAAAATTAATAAAATTATATAAAATTATAAAAAAACA
TAT
Found at i:4356091 original size:21 final size:22
Alignment explanation
Indices: 4356024--4356091 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 22
4356014 ATTCTAAAAA
* *
4356024 ATATATAAAA-TTAATAAAAT-
1 ATATTTAAAATTTTATAAAATC
*
4356044 ATATTTAAAATTTTATAAAAAAAC
1 ATATTTAAAATTTTAT--AAAATC
4356068 ATA-TT-AAATTTCTATAAAATC
1 ATATTTAAAATTT-TATAAAATC
4356089 ATA
1 ATA
4356092 AAAAGTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
20 9 0.23
21 12 0.31
22 6 0.15
23 9 0.23
24 3 0.08
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATTTAAAATTTTATAAAATC
Found at i:4356101 original size:28 final size:28
Alignment explanation
Indices: 4356069--4356152 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
4356059 TAAAAAAACA
* *
4356069 TATTAAATTTCTATAAAATCATAAAAAG
1 TATTAAAATTATATAAAATCATAAAAAG
* *
4356097 TATTAAAATTAT-TAAAATTATATAAAAT
1 TATTAAAATTATATAAAATCATA-AAAAG
* *
4356125 TATAAAAATTATAAAAAAATCATAAAAA
1 TATTAAAATTAT-ATAAAATCATAAAAA
4356153 CTTAAAATGA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 9 0.20
28 25 0.54
29 4 0.09
30 8 0.17
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
TATTAAAATTATATAAAATCATAAAAAG
Found at i:4356110 original size:37 final size:37
Alignment explanation
Indices: 4356069--4356141 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
4356059 TAAAAAAACA
* * *
4356069 TATTAAATTTCTATAAAATCATAAAAAGTATTAAAAT
1 TATTAAAATTATATAAAATCATAAAAAGTATAAAAAT
* *
4356106 TATTAAAATTATATAAAATTATAAAAATTATAAAAA
1 TATTAAAATTATATAAAATCATAAAAAGTATAAAAA
4356142 AATCATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (37 bp):
TATTAAAATTATATAAAATCATAAAAAGTATAAAAAT
Found at i:4356152 original size:9 final size:9
Alignment explanation
Indices: 4355892--4356141 Score: 75
Period size: 9 Copynumber: 26.8 Consensus size: 9
4355882 ATATTTTCTC
*
4355892 ATAAAAATA
1 ATAAAAATT
4355901 ATAAAAAATT
1 AT-AAAAATT
* *
4355911 ATAAATATC
1 ATAAAAATT
4355920 A-AAAAA-T
1 ATAAAAATT
*
4355927 ATCTAAAA-T
1 AT-AAAAATT
*
4355936 ATAAAAATG
1 ATAAAAATT
*
4355945 AT-TAAATAT
1 ATAAAAAT-T
*
4355954 AAAAAAATAT
1 ATAAAAAT-T
*
4355964 ATGAAAATT
1 ATAAAAATT
*
4355973 GATATAAACTT
1 -ATA-AAAATT
*
4355984 ATAAATATT
1 ATAAAAATT
4355993 AT-AAAA--
1 ATAAAAATT
*
4355999 AT-AAATTT
1 ATAAAAATT
*
4356007 CTAAAAAATT
1 AT-AAAAATT
* *
4356017 CTAAAAAAT
1 ATAAAAATT
4356026 ATATAAAATT
1 ATA-AAAATT
4356036 AATAAAATATAT
1 -ATAAAA-AT-T
* *
4356048 TTAAAATTTT
1 ATAAAA-ATT
*
4356058 ATAAAAAAACAT
1 AT--AAAAA-TT
* *
4356070 ATTAAATTT
1 ATAAAAATT
* *
4356079 CTATAAAATC
1 ATA-AAAATT
*
4356089 ATAAAAAGT
1 ATAAAAATT
*
4356098 ATTAAAATT
1 ATAAAAATT
*
4356107 ATTAAAATT
1 ATAAAAATT
4356116 ATATAAAATT
1 ATA-AAAATT
4356126 ATAAAAATT
1 ATAAAAATT
4356135 ATAAAAA
1 ATAAAAA
4356142 AATCATAAAA
Statistics
Matches: 177, Mismatches: 43, Indels: 42
0.68 0.16 0.16
Matches are distributed among these distances:
6 5 0.03
7 1 0.01
8 16 0.09
9 70 0.40
10 60 0.34
11 17 0.10
12 8 0.05
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4356702 original size:9 final size:9
Alignment explanation
Indices: 4356625--4356745 Score: 58
Period size: 9 Copynumber: 13.6 Consensus size: 9
4356615 CTTCTAATAC
4356625 ATTTTT-TA
1 ATTTTTATA
*
4356633 AGTTTTACTA
1 ATTTTTA-TA
4356643 A-TTTTAT-
1 ATTTTTATA
*
4356650 TTTTTTATA
1 ATTTTTATA
4356659 ATTTATTAT-
1 ATTT-TTATA
4356668 ATTTTTATA
1 ATTTTTATA
* *
4356677 ATATTTACA
1 ATTTTTATA
4356686 AGTTTTTTTATA
1 A---TTTTTATA
*
4356698 ATTTTAATAA
1 ATTTTTAT-A
* *
4356708 ATTTATATT
1 ATTTTTATA
*
4356717 CTTTTTA-A
1 ATTTTTATA
4356725 ATTTTTAT-
1 ATTTTTATA
*
4356733 -TTTTTACA
1 ATTTTTATA
4356741 ATTTT
1 ATTTT
4356746 AATGAGTTTT
Statistics
Matches: 84, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
7 6 0.07
8 22 0.26
9 35 0.42
10 14 0.17
12 7 0.08
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:4356755 original size:64 final size:63
Alignment explanation
Indices: 4356626--4356746 Score: 151
Period size: 64 Copynumber: 1.9 Consensus size: 63
4356616 TTCTAATACA
* * *
4356626 TTTTTTAAGTTTTACTAATTTTATTTTTTTATAATTTATTATATTTTTATAATATTTACAAGT
1 TTTTTTAAATTTTAATAATTTTATTTTTTTATAATTTATTATATTTTTACAATATTTACAAGT
4356689 TTTTTTATAATTTTAATAAATTTATATTCTTTTTA-AATTT-TTAT-TTTTTACAAT-TTTA
1 TTTTTTA-AATTTTAAT-AATTT-TATT-TTTTTATAATTTATTATATTTTTACAATATTTA
4356747 ATGAGTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
63 11 0.22
64 16 0.31
65 9 0.18
66 9 0.18
67 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (63 bp):
TTTTTTAAATTTTAATAATTTTATTTTTTTATAATTTATTATATTTTTACAATATTTACAAGT
Found at i:4358577 original size:72 final size:73
Alignment explanation
Indices: 4358492--4358626 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 73
4358482 AAATTAAAAG
* * **
4358492 AAGGGGAGGAGATGCCAGAAGAACAGGAAGGTATTTTGGAG-GTAGAGGAAGCTGAGAAGGTGAA
1 AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTA-TTTGGAGACAAGAGGAAGCTGAGAAGGTGAA
4358556 TTTAAAGGA
65 TTTAAAGGA
* * * * *
4358565 AAGGGG-GAAGATGCTAAAAGAATATGCAGGTATTTGGAGACAAGGGGAAGCTGAGAAGGTGA
1 AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTATTTGGAGACAAGAGGAAGCTGAGAAGGTGA
4358627 GTAATTGTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
71 7 0.13
72 39 0.75
73 6 0.12
ACGTcount: A:0.39, C:0.06, G:0.39, T:0.16
Consensus pattern (73 bp):
AAGGGGAGAAGATGCCAAAAGAACAGGAAGGTATTTGGAGACAAGAGGAAGCTGAGAAGGTGAAT
TTAAAGGA
Found at i:4363782 original size:25 final size:26
Alignment explanation
Indices: 4363754--4363805 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
4363744 AAAGCTAAAG
4363754 ATAATA-ATTT-AAATAATTAAT-TTTT
1 ATAATATATTTCAAA-AA-TAATATTTT
4363779 ATAATATATTTCAAAAATAATATTTT
1 ATAATATATTTCAAAAATAATATTTT
4363805 A
1 A
4363806 AAAAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.42
26 11 0.46
27 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAATATATTTCAAAAATAATATTTT
Found at i:4363811 original size:15 final size:16
Alignment explanation
Indices: 4363779--4363813 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4363769 ATTAATTTTT
*
4363779 ATAATATATTTCAAAA
1 ATAATATATTTAAAAA
4363795 ATAATAT-TTTAAAAA
1 ATAATATATTTAAAAA
4363810 ATAA
1 ATAA
4363814 AATTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAATATATTTAAAAA
Found at i:4373226 original size:3 final size:3
Alignment explanation
Indices: 4373218--4373249 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4373208 TATCAAAATG
*
4373218 AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4373250 ATTAGCTGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4380488 original size:11 final size:12
Alignment explanation
Indices: 4380474--4380511 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4380464 ACAAAGCGAA
4380474 GAAAAAGAAA-T
1 GAAAAAGAAATT
*
4380485 GAAAAAAAAATT
1 GAAAAAGAAATT
*
4380497 GAAAAAGAACTT
1 GAAAAAGAAATT
4380509 GAA
1 GAA
4380512 TAGAAGAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.68, C:0.03, G:0.16, T:0.13
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:4383578 original size:24 final size:23
Alignment explanation
Indices: 4383517--4383583 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
4383507 GATGAAATCG
4383517 AGGGTGGAGATGAAAATGAAGACA
1 AGGGTGGAGATGAAAATG-AGACA
** *
4383541 ATTGTAGAGATGAAAATGAGTACA
1 AGGGTGGAGATGAAAATGAG-ACA
* *
4383565 AGGGTGGAGGTGAAGATGA
1 AGGGTGGAGATGAAAATGA
4383584 AGAAGATGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (23 bp):
AGGGTGGAGATGAAAATGAGACA
Found at i:4394719 original size:29 final size:28
Alignment explanation
Indices: 4394675--4394765 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
4394665 ATAATTTTGC
* * *
4394675 ATAAATTAAATTAAATTAATATTTCATGT
1 ATAAATTAAATAAAATCAA-AATTCATGT
*
4394704 ATAAATTATATAAAATCAAAATTCATGT
1 ATAAATTAAATAAAATCAAAATTCATGT
** *
4394732 ATAACATTACACATTGAACCAAAATTCATGT
1 ATAA-ATTA-A-ATAAAATCAAAATTCATGT
4394763 ATA
1 ATA
4394766 GATGAAATCT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 12 0.24
29 20 0.39
31 19 0.37
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.36
Consensus pattern (28 bp):
ATAAATTAAATAAAATCAAAATTCATGT
Found at i:4395800 original size:53 final size:53
Alignment explanation
Indices: 4395720--4395823 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
4395710 TTACCGATTC
*
4395720 TCTCTCTCGGTCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
1 TCTCTCTCGATCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
* *
4395773 TCTCTCTCGATCTTTTTTTTTCA-TTTTTCCCTGTCATTTTTTGTGGTTTTT
1 TCTCTCTCGATC-TCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTT
4395824 GAAATCCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
53 38 0.81
54 9 0.19
ACGTcount: A:0.07, C:0.20, G:0.12, T:0.62
Consensus pattern (53 bp):
TCTCTCTCGATCTCTTTTTTCATTTTTTCCCTGTCATTTGTTGTGGTTTTTAA
Found at i:4400295 original size:47 final size:47
Alignment explanation
Indices: 4400227--4400464 Score: 198
Period size: 47 Copynumber: 5.2 Consensus size: 47
4400217 ATGATTTCAG
4400227 TAAATTCATATAAGA-ATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATT-ATATAAGATATATTTATTATTAAGAATTTTATGAAATTATA
* * **
4400274 TATCATTAT-TAA-ATTATATTTAATATTAATTA-TTT-T-AAATTATA
1 TA-AATTATATAAGA-TATATTTATTATTAAGAATTTTATGAAATTATA
* *
4400318 TAAATTCATATAAGAAAT-TTTATTATCAAGAATTTTATGAAATTATA
1 TAAATT-ATATAAGATATATTTATTATTAAGAATTTTATGAAATTATA
* * **
4400365 TATCATTAT-TAA-ATTATATTTAATATTAATTA-TTT-T-AAATTATA
1 TA-AATTATATAAGA-TATATTTATTATTAAGAATTTTATGAAATTATA
* * *
4400409 TAAATTTATATAAGA-AAATTTATTCTCAAGAATTTTATGAAATTATA
1 TAAA-TTATATAAGATATATTTATTATTAAGAATTTTATGAAATTATA
4400456 T-AATTATAT
1 TAAATTATAT
4400465 TTAATAATAA
Statistics
Matches: 150, Mismatches: 23, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
43 4 0.03
44 47 0.31
45 24 0.16
46 20 0.13
47 49 0.33
48 6 0.04
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (47 bp):
TAAATTATATAAGATATATTTATTATTAAGAATTTTATGAAATTATA
Found at i:4400341 original size:91 final size:90
Alignment explanation
Indices: 4400227--4400591 Score: 399
Period size: 91 Copynumber: 4.0 Consensus size: 90
4400217 ATGATTTCAG
*
4400227 TAAATTCATATAAG-AATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAAAT-TTTATTATCAAGAATTTTATGAAATTATATAT-ATTATTAAATTAT
*
4400291 ATTTAATATTAATTATTTTAAATTATA
64 ATTTAATAATAATTATTTTAAATTATA
4400318 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATAT-ATTATTAAATTATA
*
4400383 TTTAATATTAATTATTTTAAATTATA
65 TTTAATAATAATTATTTTAAATTATA
* * *
4400409 TAAATTTATATAAGAAAATTTATTCTCAAGAATTTTATG--A--A-AT-TA-TA-T-AATTATAT
1 TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATATTATTAAATTATAT
*
4400465 TTAATAATAATTATATTAAATTATA
66 TTAATAATAATTATTTTAAATTATA
* * * * * *
4400490 CAAATTCATATAAGAAAAATTATTACTAATAATTAATTTAAATTTTATTAAATCATATATTTTAA
1 TAAATTCATATAAG--AAATT-TTA-T--T-ATCAA---GAATTTTATGAAATTATATATATT-A
* *
4400555 TTAAAATATATTTAATAATAATTATTTCAAATTATA
55 TTAAATTATATTTAATAATAATTATTTTAAATTATA
4400591 T
1 T
4400592 TTTATACTAT
Statistics
Matches: 235, Mismatches: 18, Indels: 32
0.82 0.06 0.11
Matches are distributed among these distances:
81 43 0.18
82 1 0.00
83 6 0.03
84 4 0.02
85 2 0.01
86 2 0.01
87 2 0.01
88 3 0.01
89 1 0.00
91 130 0.55
92 3 0.01
93 1 0.00
95 1 0.00
96 2 0.01
97 1 0.00
98 1 0.00
99 1 0.00
100 1 0.00
101 30 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (90 bp):
TAAATTCATATAAGAAATTTTATTATCAAGAATTTTATGAAATTATATATATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATA
Found at i:4400606 original size:59 final size:57
Alignment explanation
Indices: 4400516--4400825 Score: 191
Period size: 61 Copynumber: 5.3 Consensus size: 57
4400506 AAATTATTAC
*
4400516 TAATAATTAATTTAAATT-T-TATTA-A-ATCATATATTTTAATTAAAATATATTTAA
1 TAATAATT-ATTTAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
* * ** * * *
4400570 TAATAATTATTTCAAATTATATTTTATACTATCATATATTATGATTTTAGTAAATTCATA
1 TAATAATTATTT-AAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * * *
4400630 TAAGAA-TATTGATTATTAAGAATTTTATTAAATCATGTATTTTAATTAAAATATATTTAA
1 TAATAATTATTTA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
* * ** * * *
4400690 TAATAATTATCTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATA
1 TAATAATTAT-TTAAATTATATTTTATA-TATCATATATTTTAATTAAAATATATTTA-A
* * * * * *
4400750 TAAGAA-TATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTA-AATT-A-TATTTTA-TATATCATATATTTTAATTAAAATATATTTAA
4400810 TAATAATTATGTTAAA
1 TAATAATTAT-TTAAA
4400826 ATATGATTAA
Statistics
Matches: 185, Mismatches: 50, Indels: 35
0.69 0.19 0.13
Matches are distributed among these distances:
53 4 0.02
54 13 0.07
55 1 0.01
56 4 0.02
57 1 0.01
58 5 0.03
59 60 0.32
60 27 0.15
61 62 0.34
62 8 0.04
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (57 bp):
TAATAATTATTTAAATTATATTTTATATATCATATATTTTAATTAAAATATATTTAA
Found at i:4400671 original size:120 final size:120
Alignment explanation
Indices: 4400530--4400825 Score: 531
Period size: 120 Copynumber: 2.5 Consensus size: 120
4400520 AATTAATTTA
4400530 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTT-AAATTATATTT
*
4400594 TATACTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
4400650 AATTTTATTAAATCATGTATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
*
4400715 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
4400770 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAA
4400826 ATATGATTAA
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
120 167 0.99
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATCTTAAATTATATTTT
ATACTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:4400799 original size:18 final size:17
Alignment explanation
Indices: 4400771--4400805 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4400761 ATTATTAAGA
*
4400771 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
4400788 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
4400806 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:4401479 original size:16 final size:16
Alignment explanation
Indices: 4401458--4401490 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4401448 GAAAAATTCA
4401458 ATTTTTT-AGATAAATT
1 ATTTTTTCA-ATAAATT
4401474 ATTTTTTCAATAAATT
1 ATTTTTTCAATAAATT
4401490 A
1 A
4401491 CGTCTACATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTTTCAATAAATT
Found at i:4406455 original size:11 final size:11
Alignment explanation
Indices: 4406441--4406472 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
4406431 TATGTTTGAC
4406441 ATAATAGTTTT
1 ATAATAGTTTT
4406452 ATAATAG-TTT
1 ATAATAGTTTT
4406462 ATAATAGTTTT
1 ATAATAGTTTT
4406473 CTTTTGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (11 bp):
ATAATAGTTTT
Found at i:4406974 original size:28 final size:27
Alignment explanation
Indices: 4406929--4406981 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
4406919 CAAATGCCTA
*
4406929 TTTTTGTAATTATTTTATTTTCTATACC
1 TTTTTGTAATTATATTATTTT-TATACC
4406957 TTTTTCGTAATTA-ATTATTTTTATA
1 TTTTT-GTAATTATATTATTTTTATA
4406982 TTATTTGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTGTAATTATATTATTTTTATACC
Found at i:4407987 original size:22 final size:24
Alignment explanation
Indices: 4407962--4408007 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4407952 GAATACAACC
4407962 TTTA-AAAATTTT-TATATTTATT
1 TTTACAAAATTTTATATATTTATT
**
4407984 TTTACATGATTTTATATATTTATT
1 TTTACAAAATTTTATATATTTATT
4408008 ATGTACCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTACAAAATTTTATATATTTATT
Found at i:4410710 original size:28 final size:27
Alignment explanation
Indices: 4410627--4410711 Score: 66
Period size: 28 Copynumber: 3.0 Consensus size: 27
4410617 TATTAAGTTA
*
4410627 TTTAAATATGATTTATTATTATATTTTAAAT
1 TTTAAATA--ATTTATTAAT-TA-TTTAAAT
* *
4410658 TTTAAATTATTTCATGT-A-TAATTAAAT
1 TTTAAATAATTT-AT-TAATTATTTAAAT
4410685 TTATAAATAATTTATTAATTATTTAAA
1 TT-TAAATAATTTATTAATTATTTAAA
4410712 ATGTATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
26 1 0.02
27 11 0.25
28 18 0.41
29 4 0.09
30 2 0.05
31 8 0.18
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (27 bp):
TTTAAATAATTTATTAATTATTTAAAT
Found at i:4424412 original size:11 final size:11
Alignment explanation
Indices: 4424398--4424422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4424388 AAATTTGGAG
4424398 GAACCCTCAAA
1 GAACCCTCAAA
4424409 GAACCCTCAAA
1 GAACCCTCAAA
4424420 GAA
1 GAA
4424423 AAGAGTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.32, G:0.12, T:0.08
Consensus pattern (11 bp):
GAACCCTCAAA
Found at i:4433411 original size:74 final size:74
Alignment explanation
Indices: 4433006--4433694 Score: 797
Period size: 74 Copynumber: 9.4 Consensus size: 74
4432996 AGGTATTTTT
* * * * * *
4433006 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGT-ATTTTAGTTTATGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
4433069 TTT-----A
66 TTTCAAAAA
** * *
4433073 AATTGACTCATATTGCGAGA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
4433137 TTTTC---AA
65 TTTTCAAAAA
*
4433144 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
4433209 TGTCAAAAAA
66 TTTC-AAAAA
**
4433219 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT-TGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-
4433283 TTTTC----A
65 TTTTCAAAAA
*
4433289 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
4433354 TGTCAAAAA
66 TTTCAAAAA
* * ** *
4433363 AATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
*
4433428 TTTCAAGAA
66 TTTCAAAAA
* * *
4433437 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCGTTGAGGTATTTCAATTCCTGTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG----T-AA-T--T-TC
*
4433502 AATTTATGTTTTC--AAA
57 AATTTCTGTTTTCAAAAA
4433518 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
***
4433583 TTTTTCAAA
66 TTTCAAAAA
* * * * * *
4433592 AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAGCACGCCGAGGTATTTTCAAATTATA
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTAATTTCAATTTCTG
*
4433656 CTTTCAAAAA
65 TTTTCAAAAA
4433666 AATCAACTCATATTGCGAGAGGTG-GTTGA
1 AATCAACTCATATTGCGAGAGGTGAGTTGA
4433695 ACAACTTTTA
Statistics
Matches: 542, Mismatches: 52, Indels: 50
0.84 0.08 0.08
Matches are distributed among these distances:
66 13 0.02
67 30 0.06
68 10 0.02
69 4 0.01
70 63 0.12
71 24 0.04
72 54 0.10
73 9 0.02
74 201 0.37
75 65 0.12
76 2 0.00
77 1 0.00
78 1 0.00
79 1 0.00
80 1 0.00
81 48 0.09
82 1 0.00
83 14 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (74 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
TTTCAAAAA
Found at i:4433559 original size:155 final size:148
Alignment explanation
Indices: 4433006--4433694 Score: 742
Period size: 155 Copynumber: 4.7 Consensus size: 148
4432996 AGGTATTTTT
* * * * *
4433006 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTATTTTAGTTT--A--
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCAATT
* **
4433066 -TGTT-T--TAAATTGACTCATATTGCGAGA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 TTGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
4433126 TCAATTTTTGTTTTTCAA
131 TCAATTTCTGTTTTTCAA
*
4433144 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC--T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCAAT
* * ** *
4433207 GTTGTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
65 TTTGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
4433272 TTCAATTT-TGTTTTTC-A
130 TTCAATTTCTGTTTTTCAA
*
4433289 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC--T
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTCAATTTCAAT
* * * * * * ** *
4433352 GTTGTCA-AAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATT
65 TTTGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
4433416 TTCAATTTCTG-TTTTCAAGAA
130 TTCAATTTCTGTTTTTC---AA
* * *
4433437 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCGTTGAGGTATTTCAATTCCTGTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAA-T--T-TC
* *
4433502 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
62 AATTT-TGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGG
4433567 TAATTTCAATTTCTGTTTTTTCAAA
126 TAATTTCAATTTCTG-TTTTTC-AA
* * *
4433592 AATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAGCACGCCGAGGTATTTTCAAATT--A
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTA-TTTCAATTTCAA
* * * *
4433654 TACTT-TCA-AAAAAATCAACTCATATTGCGAGAGGTG-GTTGA
64 T-TTTGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGA
4433695 ACAACTTTTA
Statistics
Matches: 481, Mismatches: 42, Indels: 47
0.84 0.07 0.08
Matches are distributed among these distances:
138 33 0.07
139 12 0.02
140 8 0.02
143 3 0.01
144 63 0.13
145 73 0.15
146 27 0.06
147 52 0.11
148 75 0.16
149 1 0.00
150 4 0.01
151 3 0.01
152 1 0.00
153 3 0.01
154 5 0.01
155 107 0.22
156 6 0.01
157 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (148 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCAATTTCAATT
TTGTTATCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTTTCAA
Found at i:4433574 original size:229 final size:216
Alignment explanation
Indices: 4433006--4433826 Score: 904
Period size: 229 Copynumber: 3.8 Consensus size: 216
4432996 AGGTATTTTT
* * * * * *
4433006 AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGT-ATTTTAGTTTATG-
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT-TGT
** *
4433068 TTTT-AAATTGACTCATATTGCGAGA-ATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
65 TTTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* *
4433131 TTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
130 TTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* *
4433195 ATTTCAATTTCTGTTGTCAAAAAA
194 TTTTCAATTTCTGTTTTC-AAAAA
** *
4433219 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTTGTT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTGTT
*
4433284 TTTCAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
66 TTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * **
4433349 TCTGTTGTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTA
131 TCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
4433414 TTTTCAATTTCTGTTTTCAAGAA
194 TTTTCAATTTCTGTTTTCAAAAA
* *
4433437 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCGTTGAGGTATTTCAATTCCTGTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG----T-AA-T--T-TC
4433502 AATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
57 AATTT-TGTTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
4433566 GTAATTTCAATTTCTGTTTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGA
119 GTAATTTCAATTTCTG--TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * **
4433630 GCACGCCGAGGTATTTTCAAATTATACTTTCAAAAA
182 -CACGCTGAGGTATTTTCAATTTCTGTTTTCAAAAA
* *
4433666 AATCAACTCATATTGCGAGAGGTG-GTT--G-----A-ACA-----A-CT--TTT-AATTTTACT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTT-GT
* *
4433713 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGAACACGCTGAGGTAATTTCAA
65 TTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
* **
4433778 TTTCTGTTGTCAAAAAATCAACTCATATTGCGA-AAATGAGTTGAGCCTC
129 TTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
4433827 GGTTCACATG
Statistics
Matches: 536, Mismatches: 46, Indels: 65
0.83 0.07 0.10
Matches are distributed among these distances:
200 18 0.03
201 21 0.04
202 69 0.13
203 6 0.01
204 1 0.00
206 1 0.00
210 1 0.00
213 34 0.06
214 14 0.03
215 13 0.02
216 22 0.04
217 41 0.08
218 48 0.09
219 64 0.12
220 2 0.00
221 1 0.00
222 1 0.00
223 2 0.00
224 1 0.00
226 2 0.00
227 12 0.02
228 7 0.01
229 151 0.28
231 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (216 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTTGTT
TTTCAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
TTCAATTTCTGTTTTCAAAAA
Found at i:4435159 original size:11 final size:11
Alignment explanation
Indices: 4435143--4435173 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
4435133 GGATTCCCCT
4435143 CTTCTCTCTCC
1 CTTCTCTCTCC
4435154 CTTCTCTCTCC
1 CTTCTCTCTCC
4435165 C-TCTCTCTC
1 CTTCTCTCTC
4435174 TTTTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (11 bp):
CTTCTCTCTCC
Found at i:4435651 original size:3 final size:3
Alignment explanation
Indices: 4435636--4435696 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
4435626 CCTTGTTTTA
* * * * *
4435636 TAT TAT TAG TAT TAT TAG TAT TAC CAT TAT TAT TAT TAT GTAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
4435682 TAT ATAT T-T TAT TAT
1 TAT -TAT TAT TAT TAT
4435697 GTACGTGTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 2 0.04
3 37 0.82
4 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:4435693 original size:22 final size:22
Alignment explanation
Indices: 4435640--4435699 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
4435630 GTTTTATATT
*
4435640 ATTAGTATTATTA-GTATTACC
1 ATTATTATTATTATGTATTACC
**
4435661 ATTATTATTATTATGTATTAGT
1 ATTATTATTATTATGTATTACC
4435683 ATATATT-TTATTATGTA
1 AT-TATTATTATTATGTA
4435700 CGTGTATACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.35
22 18 0.53
23 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (22 bp):
ATTATTATTATTATGTATTACC
Found at i:4435706 original size:22 final size:23
Alignment explanation
Indices: 4435663--4435707 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4435653 GTATTACCAT
*
4435663 TATTATTATTATGTATTAGTATA
1 TATTATTATTATGTAGTAGTATA
4435686 TATT-TTATTATGTACGT-GTATA
1 TATTATTATTATGTA-GTAGTATA
4435708 CCTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (23 bp):
TATTATTATTATGTAGTAGTATA
Found at i:4437976 original size:20 final size:20
Alignment explanation
Indices: 4437951--4437995 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4437941 TTTGATCGAT
4437951 ATTTTT-ATTTTTTAATAAAA
1 ATTTTTGATTTTTTAA-AAAA
* *
4437971 ATTTTTGGTTTTTTAAATAA
1 ATTTTTGATTTTTTAAAAAA
4437991 ATTTT
1 ATTTT
4437996 GGTTATAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTTTGATTTTTTAAAAAA
Found at i:4437995 original size:19 final size:21
Alignment explanation
Indices: 4437958--4437999 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
4437948 GATATTTTTA
4437958 TTTTTTAATAAAAATTTTTGG
1 TTTTTTAATAAAAATTTTTGG
*
4437979 TTTTTTAA-ATAAA-TTTTGG
1 TTTTTTAATAAAAATTTTTGG
4437998 TT
1 TT
4438000 ATAGGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.60
Consensus pattern (21 bp):
TTTTTTAATAAAAATTTTTGG
Found at i:4440244 original size:61 final size:61
Alignment explanation
Indices: 4440170--4440288 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 61
4440160 TATTTTATAA
* *
4440170 CTTTTAAAATTAGAACTAAAATGACAGATTTTGTAAACA-TTAAGGGCTAAATTTGTTAAAT
1 CTTTTAAAATTAGAACTAAAATGACAGAATCTGTAAACATTTAA-GGCTAAATTTGTTAAAT
* * * **
4440231 CTTTTAAATTTAGAATTAAACTGGTAGAATCTGTAAACATTTAAGGCTAAATTTGTTA
1 CTTTTAAAATTAGAACTAAAATGACAGAATCTGTAAACATTTAAGGCTAAATTTGTTA
4440289 TTAAGCCAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 46 0.92
62 4 0.08
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (61 bp):
CTTTTAAAATTAGAACTAAAATGACAGAATCTGTAAACATTTAAGGCTAAATTTGTTAAAT
Found at i:4452234 original size:16 final size:16
Alignment explanation
Indices: 4452213--4452246 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4452203 AACTTAAAAG
4452213 TTAAAACTAATTGTTA
1 TTAAAACTAATTGTTA
*
4452229 TTAAAATTAATTGTTA
1 TTAAAACTAATTGTTA
4452245 TT
1 TT
4452247 GAATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (16 bp):
TTAAAACTAATTGTTA
Found at i:4457199 original size:29 final size:28
Alignment explanation
Indices: 4457120--4457213 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 28
4457110 TTGAGAAAAG
*
4457120 AAAATCTATCATATTTTTTAAATAATTTT
1 AAAAT-TATAATATTTTTTAAATAATTTT
* * * * *
4457149 AAAACTACAACATCTTTCTAAATATTTTT
1 AAAATTATAATAT-TTTTTAAATAATTTT
*
4457178 TAAATTATAATATTTTTATAAAATTAAATTTT
1 AAAATTATAATATTTTT-T-AAA-T-AATTTT
4457210 AAAA
1 AAAA
4457214 ATAACAAAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 7
0.70 0.19 0.10
Matches are distributed among these distances:
28 8 0.17
29 27 0.57
30 3 0.06
31 1 0.02
32 8 0.17
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAATTATAATATTTTTTAAATAATTTT
Found at i:4457479 original size:30 final size:29
Alignment explanation
Indices: 4457417--4457479 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 29
4457407 TCTAATATGT
* *
4457417 AATTTTATACATAAACTTTGATTTTGTAC
1 AATTTTATACATAAAATTTGATTTTATAC
*
4457446 AATTTTATACATGAAAATTTGATTTTATCC
1 AATTTTATACAT-AAAATTTGATTTTATAC
4457476 AATT
1 AATT
4457480 CTCACAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (29 bp):
AATTTTATACATAAAATTTGATTTTATAC
Found at i:4457666 original size:29 final size:31
Alignment explanation
Indices: 4457613--4457691 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
4457603 GGTTTCACCA
*
4457613 AAATTAAAGTTTCATGT-GCATAATTG-CACT
1 AAATTAAAG-TTCATGTATCATAATTGACACT
*
4457643 AAATTAAAGTTCATGTATCA-AATTGTACATT
1 AAATTAAAGTTCATGTATCATAATTG-ACACT
* *
4457674 TAATAAAAGTTCATGTAT
1 AAATTAAAGTTCATGTAT
4457692 AATTTTGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 12 0.29
30 11 0.26
31 19 0.45
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (31 bp):
AAATTAAAGTTCATGTATCATAATTGACACT
Found at i:4460855 original size:11 final size:11
Alignment explanation
Indices: 4460839--4460880 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
4460829 AAAAATGGAG
4460839 TTAAGAGAAAC
1 TTAAGAGAAAC
*
4460850 TTAAGAGGAAC
1 TTAAGAGAAAC
*
4460861 TTAAGAGGAAC
1 TTAAGAGAAAC
4460872 TTAAGAGAA
1 TTAAGAGAA
4460881 TTTTTGAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:4465195 original size:12 final size:12
Alignment explanation
Indices: 4465131--4465207 Score: 52
Period size: 12 Copynumber: 6.2 Consensus size: 12
4465121 TTCTATTATA
*
4465131 TATTTATCTATT
1 TATTTATATATT
4465143 CTATTATATATATT
1 -TATT-TATATATT
*
4465157 CTA-ATATATA-T
1 -TATTTATATATT
4465168 TAGTATTATA-ATT
1 TA-T-TTATATATT
4465181 TATTTATATATT
1 TATTTATATATT
* *
4465193 TATTAATTTATT
1 TATTTATATATT
4465205 TAT
1 TAT
4465208 AATATATTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.04
11 6 0.11
12 24 0.45
13 11 0.21
14 10 0.19
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (12 bp):
TATTTATATATT
Found at i:4465201 original size:20 final size:20
Alignment explanation
Indices: 4465115--4465208 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 20
4465105 GATGTTAGAA
4465115 TATTAATTCTA-TTATATATT
1 TATTAATT-TATTTATATATT
4465135 TATCT-ATTCTA-TTATATATAT
1 TAT-TAATT-TATTTATATAT-T
* * *
4465156 T-CTAATATATATTA-GTA-T
1 TATTAATTTAT-TTATATATT
4465174 TA-TAATTTATTTATATATT
1 TATTAATTTATTTATATATT
4465193 TATTAATTTATTTATA
1 TATTAATTTATTTATA
4465209 ATATATTCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
17 3 0.05
18 11 0.18
19 6 0.10
20 34 0.57
21 6 0.10
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (20 bp):
TATTAATTTATTTATATATT
Found at i:4476778 original size:23 final size:22
Alignment explanation
Indices: 4476736--4476778 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
4476726 AATAAAAACT
*
4476736 AGTAAAACTATTGTTTTATAAA
1 AGTAAAACTATTGTTATATAAA
4476758 AGTATAAACTTATT-TTATATA
1 AGTA-AAAC-TATTGTTATATA
4476779 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (22 bp):
AGTAAAACTATTGTTATATAAA
Found at i:4480319 original size:30 final size:30
Alignment explanation
Indices: 4480273--4480339 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
4480263 CGTTTAAGAA
* *
4480273 CTTGAGAAGACCCAATAT-CTTGTTCAGGAT
1 CTTGGGAAGACCCAATATGC-CGTTCAGGAT
*
4480303 CTTGGGAAGACTCAATATGCCGTTCAGGAT
1 CTTGGGAAGACCCAATATGCCGTTCAGGAT
*
4480333 TTTGGGA
1 CTTGGGA
4480340 TTAAGAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (30 bp):
CTTGGGAAGACCCAATATGCCGTTCAGGAT
Found at i:4480383 original size:66 final size:66
Alignment explanation
Indices: 4480277--4480438 Score: 182
Period size: 66 Copynumber: 2.5 Consensus size: 66
4480267 TAAGAACTTG
** * * * ** *
4480277 AGAAGACCCAATATCTTGTTCAGGATCTTGGGAAGACTCAATA-TGCCGTTCAGGATTTTGGGAT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTG-CGTTCAGGAGCTTAGGAT
4480341 TA
65 TA
* **
4480343 AGAAGACTTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTTTGGAGCTTAGGATT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTCAGGAGCTTAGGATT
4480408 A
66 A
* * *
4480409 AGAAGGCCTGATATCTCATTCAGAAGCTTG
1 AGAAGACCTGATATCTCGTTCAGGAGCTTG
4480439 GAAAGATCTA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
66 78 0.98
67 2 0.03
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (66 bp):
AGAAGACCTGATATCTCGTTCAGGAGCTTGAGAAGACTCAATATTGCGTTCAGGAGCTTAGGATT
A
Found at i:4483185 original size:19 final size:19
Alignment explanation
Indices: 4483148--4483186 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4483138 TTTTGCTACA
*
4483148 TAGACTAAATCGTAAAAAC
1 TAGACTAAATCGAAAAAAC
4483167 TAGACTAAATC-AAATAAAC
1 TAGACTAAATCGAAA-AAAC
4483186 T
1 T
4483187 TCAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (19 bp):
TAGACTAAATCGAAAAAAC
Found at i:4493241 original size:20 final size:22
Alignment explanation
Indices: 4493193--4493242 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
4493183 AAATAAAATT
*
4493193 ACGTAACAAATATATTTATAAA
1 ACGTAAAAAATATATTTATAAA
**
4493215 AATTAAAAAATA-ATTT-TAAA
1 ACGTAAAAAATATATTTATAAA
4493235 ACGTAAAA
1 ACGTAAAA
4493243 GGTTAGACTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 10 0.43
21 4 0.17
22 9 0.39
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (22 bp):
ACGTAAAAAATATATTTATAAA
Found at i:4495551 original size:16 final size:16
Alignment explanation
Indices: 4495530--4495581 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4495520 CGGCCAAATT
4495530 TTTATTTAAAGGTAAA
1 TTTATTTAAAGGTAAA
***
4495546 TTTATTT-TTTGT-AA
1 TTTATTTAAAGGTAAA
4495560 -TTATTTAAAGGTAAA
1 TTTATTTAAAGGTAAA
4495575 TTTATTT
1 TTTATTT
4495582 TTAGTTTTGG
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 4 0.15
16 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.56
Consensus pattern (16 bp):
TTTATTTAAAGGTAAA
Found at i:4496579 original size:12 final size:12
Alignment explanation
Indices: 4496562--4496589 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4496552 CATGTTTGAT
4496562 TTGAAATACAAC
1 TTGAAATACAAC
4496574 TTGAAATACAAC
1 TTGAAATACAAC
4496586 TTGA
1 TTGA
4496590 TATTCACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (12 bp):
TTGAAATACAAC
Found at i:4496899 original size:22 final size:24
Alignment explanation
Indices: 4496868--4496912 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4496858 TTATAGTAAA
4496868 TTAATGTTTT-A-AAACTTTTGAC
1 TTAATGTTTTAACAAACTTTTGAC
*
4496890 TTAATTTTTTAACAAACTTTTGA
1 TTAATGTTTTAACAAACTTTTGA
4496913 TTTTTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 1 0.05
24 10 0.50
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (24 bp):
TTAATGTTTTAACAAACTTTTGAC
Found at i:4514809 original size:15 final size:15
Alignment explanation
Indices: 4514791--4514936 Score: 80
Period size: 15 Copynumber: 9.8 Consensus size: 15
4514781 AAGCCAAAGG
*
4514791 AGCTGGTGGTGGGGT
1 AGCTGGTGGTGGAGT
* *
4514806 AGCTGGAGGAGGAGT
1 AGCTGGTGGTGGAGT
* * *
4514821 AGCAGGAGG-GGAGA
1 AGCTGGTGGTGGAGT
* *
4514835 AGCAGGTGGTGGGGT
1 AGCTGGTGGTGGAGT
* *
4514850 AGCCT-GAGGTGGAGA
1 AG-CTGGTGGTGGAGT
* *
4514865 AGCCGGTGGGGGAGT
1 AGCTGGTGGTGGAGT
* * * *
4514880 TGCGGGAGGTGGGGT
1 AGCTGGTGGTGGAGT
* *
4514895 AGCTGGGGGAGGAGT
1 AGCTGGTGGTGGAGT
* * *
4514910 AGCCGGTGGAGGAGA
1 AGCTGGTGGTGGAGT
4514925 AGCTGGTGGTGG
1 AGCTGGTGGTGG
4514937 GGAGCTAACG
Statistics
Matches: 97, Mismatches: 31, Indels: 6
0.72 0.23 0.04
Matches are distributed among these distances:
14 13 0.13
15 83 0.86
16 1 0.01
ACGTcount: A:0.18, C:0.09, G:0.58, T:0.15
Consensus pattern (15 bp):
AGCTGGTGGTGGAGT
Found at i:4514889 original size:30 final size:31
Alignment explanation
Indices: 4514816--4514937 Score: 92
Period size: 30 Copynumber: 4.1 Consensus size: 31
4514806 AGCTGGAGGA
4514816 GGAGTAGCAGGAGG-GGAGAAGCAGGTGGTG
1 GGAGTAGCAGGAGGTGGAGAAGCAGGTGGTG
** *
4514846 GG-GTAGCCTGAGGTGGAGAAGCCGGTGG-G
1 GGAGTAGCAGGAGGTGGAGAAGCAGGTGGTG
* * * * *
4514875 GGAGTTGCGGGAGGTGGGGTAGCTGG-GG-G
1 GGAGTAGCAGGAGGTGGAGAAGCAGGTGGTG
* * * *
4514904 AGGAGTAGCCGGTGGAGGAGAAGCTGGTGGTG
1 -GGAGTAGCAGGAGGTGGAGAAGCAGGTGGTG
4514936 GG
1 GG
4514938 GAGCTAACGG
Statistics
Matches: 72, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
29 15 0.21
30 52 0.72
31 4 0.06
32 1 0.01
ACGTcount: A:0.19, C:0.09, G:0.58, T:0.14
Consensus pattern (31 bp):
GGAGTAGCAGGAGGTGGAGAAGCAGGTGGTG
Found at i:4514936 original size:45 final size:44
Alignment explanation
Indices: 4514791--4514942 Score: 173
Period size: 45 Copynumber: 3.4 Consensus size: 44
4514781 AAGCCAAAGG
* *
4514791 AGCTGGTGGTGGGGTAGCTGGAGGAGGAGTAGCAGGAGGGGAGA
1 AGCTGGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGGGGAGA
* * * *
4514835 AGCAGGTGGTGGGGTAGCCT-GAGGTGGAGAAGCCGGTGGGGGAGT
1 AGCTGGTGGTGGGGTAG-CTGGAGGAGGAGTAGCCGGT-GGGGAGA
* * * *
4514880 TGCGGGAGGTGGGGTAGCTGGGGGAGGAGTAGCCGGTGGAGGAGA
1 AGCTGGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGG-GGAGA
4514925 AGCTGGTGGTGGGG-AGCT
1 AGCTGGTGGTGGGGTAGCT
4514943 AACGGGCGGG
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
44 37 0.42
45 51 0.58
ACGTcount: A:0.18, C:0.09, G:0.57, T:0.15
Consensus pattern (44 bp):
AGCTGGTGGTGGGGTAGCTGGAGGAGGAGTAGCCGGTGGGGAGA
Found at i:4518134 original size:24 final size:24
Alignment explanation
Indices: 4518102--4518151 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4518092 TTGTGCACAA
4518102 CTGACGTCCTCCATTATTTTTCCC
1 CTGACGTCCTCCATTATTTTTCCC
4518126 CTGACGTCCTCCATTATTTTTCCC
1 CTGACGTCCTCCATTATTTTTCCC
4518150 CT
1 CT
4518152 TTTGTATAAT
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:0.12, C:0.38, G:0.08, T:0.42
Consensus pattern (24 bp):
CTGACGTCCTCCATTATTTTTCCC
Found at i:4524205 original size:20 final size:21
Alignment explanation
Indices: 4524167--4524206 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4524157 TTATTAATTT
*
4524167 TTTTAAAAAAATTATACAAAA
1 TTTTAAAAAAATTAAACAAAA
4524188 TTTTAAAAAAA-TAAACAAA
1 TTTTAAAAAAATTAAACAAA
4524207 TACTACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TTTTAAAAAAATTAAACAAAA
Found at i:4527170 original size:101 final size:103
Alignment explanation
Indices: 4526986--4527179 Score: 252
Period size: 104 Copynumber: 1.9 Consensus size: 103
4526976 AAAAATTTAA
* * ** **
4526986 TTTTTTTTTGTATATTGATATCTGATTTTACCACGAAAAAAAAAAGAAATTTTTTTTTTAAAATT
1 TTTTTTTTTGTATACTGATATCTGATTTGACCACGAAAAAAAAAAGAAATAATAATTTT-AAATT
* *
4527051 GTACTGGGTGCTGGCCATTGACAGGCCAGCATTCAATTT
65 GTACTGGGTGCCGACCATTGACAGGCCAGCATTCAATTT
4527090 TTTTTTTTTGTATACTGATATCTGATTCTGA-CACGAAAAAAAAGAA-AAA-AATAATTTT-AAT
1 TTTTTTTTTGTATACTGATATCTGATT-TGACCACGAAAAAAAA-AAGAAATAATAATTTTAAAT
*
4527151 TGTACTGGGTGCCGACCATTGAGAGGCCA
64 TGTACTGGGTGCCGACCATTGACAGGCCA
4527180 ACACCCAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
101 29 0.37
103 5 0.06
104 41 0.52
105 4 0.05
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (103 bp):
TTTTTTTTTGTATACTGATATCTGATTTGACCACGAAAAAAAAAAGAAATAATAATTTTAAATTG
TACTGGGTGCCGACCATTGACAGGCCAGCATTCAATTT
Found at i:4527194 original size:101 final size:103
Alignment explanation
Indices: 4526986--4527198 Score: 245
Period size: 101 Copynumber: 2.1 Consensus size: 103
4526976 AAAAATTTAA
* * ** **
4526986 TTTTTTTTTGTATATTGATATCTGATTTTACCACGAAAAAAAAAAGAAATTTTTTTTTTAAAATT
1 TTTTTTTTTGTATACTGATATCTGATTTGACCACGAAAAAAAAAAGAAATAATAATTTT-AAATT
* * * ** **
4527051 GTACTGGGTGCTGGCCATTGACAGGCCAGCATTCAATTT
65 GTACTGGGTGCCGACCATTGACAGGCCAACACCCAAAAT
4527090 TTTTTTTTTGTATACTGATATCTGATTCTGA-CACGAAAAAAAAGAA-AAA-AATAATTTT-AAT
1 TTTTTTTTTGTATACTGATATCTGATT-TGACCACGAAAAAAAA-AAGAAATAATAATTTTAAAT
*
4527151 TGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAAT
64 TGTACTGGGTGCCGACCATTGACAGGCCAACACCCAAAAT
4527191 TTTTTTTT
1 TTTTTTTT
4527199 AATTTTATTC
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
101 43 0.46
103 5 0.05
104 41 0.44
105 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (103 bp):
TTTTTTTTTGTATACTGATATCTGATTTGACCACGAAAAAAAAAAGAAATAATAATTTTAAATTG
TACTGGGTGCCGACCATTGACAGGCCAACACCCAAAAT
Found at i:4527469 original size:205 final size:208
Alignment explanation
Indices: 4527148--4527537 Score: 533
Period size: 205 Copynumber: 1.9 Consensus size: 208
4527138 AAATAATTTT
* * *
4527148 AATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAT
1 AATTATACTGGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAC
* * **
4527213 ATTGATATCTGATTTTGACATGAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
66 ACTGATATCTGATTCTGACAACAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
* * *
4527278 CCAGCATCC-AATT-TTTTTTTAAAT-TTTTTTCGTATATTGATATCTGAATCTGATTTTGACAC
131 CCAACACCCAAATTATTTTTTT---TCGTTTTTCGTATATTGATATCTGAATCTGATTTTGACAC
4527340 GAAAAAAAAATTAAAA
193 GAAAAAAAAATTAAAA
* * *
4527356 AATTATACTGGGTGCCGGCTATTGACATGCCAACACCC-AAATTTTTTTTT-ATTTT-TTCGTAC
1 AATTATACTGGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAC
* *
4527418 ACTGATATCTGATTCTGA-AACAAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGATAG
66 ACTGATATCTGATTCTGACAACAAAAAAAAATTTAAAA-TTGTACTGGGTGCCGGCCATTGAAAG
*
4527482 GCCAACACCCAAAAATTATTTTTTTTCGTTTTTCGTATATTGATATCTGATTCTGA
130 GCCAACACCC--AAATTATTTTTTTTCGTTTTTCGTATATTGATATCTGAATCTGA
4527538 CACGAAAAAT
Statistics
Matches: 160, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
204 16 0.10
205 55 0.34
206 6 0.04
207 39 0.24
208 37 0.23
209 7 0.04
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (208 bp):
AATTATACTGGGTGCCGACCATTGACAGGCCAACACCCAAAATTTTTTTTTAATTTTATTCGTAC
ACTGATATCTGATTCTGACAACAAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGG
CCAACACCCAAATTATTTTTTTTCGTTTTTCGTATATTGATATCTGAATCTGATTTTGACACGAA
AAAAAAATTAAAA
Found at i:4527486 original size:98 final size:101
Alignment explanation
Indices: 4527135--4527555 Score: 439
Period size: 101 Copynumber: 4.1 Consensus size: 101
4527125 AAAAAAAAGA
* *
4527135 AAAAAATAATTTT--AATTGTACTGGGTGCCGACCATTGAGAGGCCAACACCCAAAATTTTTTTT
1 AAAAAA-AATTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAACACCCAAAATTTTTTTT
* * *
4527198 TAATTTTATTCGTATATTGATATCTGATTTTGA-CATG
65 TAATTTT-TTCGTATATTGATATCTGATTCTGATAACG
* * *
4527235 AAAAAAAAATTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAGCATCC--AATTTTTTTTT
1 AAAAAAAATTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAACACCCAAAATTTTTTTTT
*
4527298 AAATTTTTTTCGTATATTGATATCTGAATCTGATTTTGACACG
66 -AA-TTTTTTCGTATATTGATATCTGATTCTGA---T-A-ACG
** * * * *
4527341 AAAAAAAAATTAAAAAATTATACTGGGTGCCGGCTATTGACATGCCAACACCC-AAATTTTTTTT
1 -AAAAAAAATTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAACACCCAAAATTTTTTTT
* *
4527405 T-ATTTTTTCGTACACTGATATCTGATTCTGA-AAC-
65 TAATTTTTTCGTATATTGATATCTGATTCTGATAACG
*
4527439 AAAAAAAATTTTAAAATTTGTACTGGGTGCCGGCCATTGATAGGCCAACACCCAAAAATTATTTT
1 AAAAAAAATTTTAAAA-TTGTACTGGGTGCCGGCCATTGAAAGGCCAACACCC-AAAATT-TTTT
*** *
4527504 TTTTCGTTTTTCGTATATTGATATCTGATTCTGA-CACG
63 TTTAATTTTTTCGTATATTGATATCTGATTCTGATAACG
4527542 AAAAATATAATTTT
1 AAAAA-A-AATTTT
4527556 TTTTTGTACA
Statistics
Matches: 269, Mismatches: 32, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
97 14 0.05
98 32 0.12
99 18 0.07
100 37 0.14
101 45 0.17
102 28 0.10
103 5 0.02
104 1 0.00
105 32 0.12
106 3 0.01
107 43 0.16
108 11 0.04
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (101 bp):
AAAAAAAATTTTAAAATTGTACTGGGTGCCGGCCATTGAAAGGCCAACACCCAAAATTTTTTTTT
AATTTTTTCGTATATTGATATCTGATTCTGATAACG
Found at i:4530225 original size:22 final size:22
Alignment explanation
Indices: 4530200--4530249 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4530190 ATTTAAAAAG
*
4530200 ATATATATGTATGTATATTA-AA
1 ATATATATATATGTAT-TTACAA
*
4530222 ATATATGTATATGTATTTACAA
1 ATATATATATATGTATTTACAA
4530244 A-ATATA
1 ATATATA
4530250 AAAAAATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (22 bp):
ATATATATATATGTATTTACAA
Found at i:4530565 original size:24 final size:23
Alignment explanation
Indices: 4530526--4530578 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
4530516 GGTGTAACCG
4530526 AATA-AATAATAATAATAAGTAAT
1 AATATAATAATAATAAT-AGTAAT
* *
4530549 AATATAATAATATTAATAGTATT
1 AATATAATAATAATAATAGTAAT
4530572 AA-ATAAT
1 AATATAAT
4530579 TACTTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 5 0.19
23 11 0.41
24 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
AATATAATAATAATAATAGTAAT
Found at i:4533848 original size:13 final size:13
Alignment explanation
Indices: 4533815--4533848 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4533805 AAATTCAATA
*
4533815 ATGTGTGATTGTC
1 ATGTGTGGTTGTC
4533828 ATGTGTGGTTGTC
1 ATGTGTGGTTGTC
4533841 ATGTGTGG
1 ATGTGTGG
4533849 ATTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.06, G:0.38, T:0.44
Consensus pattern (13 bp):
ATGTGTGGTTGTC
Found at i:4534444 original size:7 final size:7
Alignment explanation
Indices: 4534432--4534507 Score: 55
Period size: 7 Copynumber: 10.9 Consensus size: 7
4534422 TACACTTTTT
4534432 GGTTTAG
1 GGTTTAG
4534439 GGTTTATG
1 GGTTTA-G
* *
4534447 GTTTTAA
1 GGTTTAG
*
4534454 GGTTTAA
1 GGTTTAG
* *
4534461 AGTTTAA
1 GGTTTAG
4534468 GGTTTAG
1 GGTTTAG
4534475 GG-TTAG
1 GGTTTAG
** *
4534481 TATTTAA
1 GGTTTAG
4534488 GGTTTAG
1 GGTTTAG
*
4534495 GGCTTAG
1 GGTTTAG
4534502 GGTTTA
1 GGTTTA
4534508 TGGTATAATG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:4534448 original size:14 final size:14
Alignment explanation
Indices: 4534432--4534521 Score: 56
Period size: 14 Copynumber: 6.4 Consensus size: 14
4534422 TACACTTTTT
*
4534432 GGTTTAGGGTTTAT
1 GGTTTAGGGTTTAA
*
4534446 GGTTTTAAGGTTTAA
1 GG-TTTAGGGTTTAA
* *
4534461 AGTTTAAGGTTT-A
1 GGTTTAGGGTTTAA
* **
4534474 GGGTTAGTATTTAA
1 GGTTTAGGGTTTAA
* *
4534488 GGTTTAGGGCTTAG
1 GGTTTAGGGTTTAA
* *
4534502 GGTTTATGGTATAA
1 GGTTTAGGGTTTAA
*
4534516 TGTTTA
1 GGTTTA
4534522 TTATTTTCGG
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
13 8 0.14
14 37 0.66
15 11 0.20
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:4534565 original size:28 final size:28
Alignment explanation
Indices: 4534533--4534592 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
4534523 TATTTTCGGA
* * *
4534533 TTAGAATTT-TGAGTTTTGCGTTTATGGT
1 TTAGAATTTGTG-GTTTGGAGTTTAAGGT
*
4534561 TTAGAGTTTGTGGTTTGGAGTTTAAGGT
1 TTAGAATTTGTGGTTTGGAGTTTAAGGT
4534589 TTAG
1 TTAG
4534593 GGTTTAGTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 25 0.93
29 2 0.07
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (28 bp):
TTAGAATTTGTGGTTTGGAGTTTAAGGT
Found at i:4534569 original size:14 final size:14
Alignment explanation
Indices: 4534552--4534598 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
4534542 TGAGTTTTGC
4534552 GTTTATGGTTTAGA
1 GTTTATGGTTTAGA
* *
4534566 GTTTGTGGTTTGGA
1 GTTTATGGTTTAGA
* *
4534580 GTTTAAGGTTTAGG
1 GTTTATGGTTTAGA
4534594 GTTTA
1 GTTTA
4534599 GTATTTAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (14 bp):
GTTTATGGTTTAGA
Found at i:4535434 original size:43 final size:43
Alignment explanation
Indices: 4535309--4535438 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
4535299 CACCGTCGCT
** * *
4535309 AGACCAAGACCATTAGCGGCGCTTCTTTCACAAACACCGTTAA
1 AGACCAAGACCATTAGCGGCGCTTCTCCCACAAACGCCGCTAA
* * * *
4535352 AGACCATGACCTTTAGCGGTGCTTTTCCCACAAACGCCGCTAA
1 AGACCAAGACCATTAGCGGCGCTTCTCCCACAAACGCCGCTAA
* * * *
4535395 AGACCAAGACCATTAGCAGCGCTTCTCGCAAAAATGCCGCTAA
1 AGACCAAGACCATTAGCGGCGCTTCTCCCACAAACGCCGCTAA
4535438 A
1 A
4535439 AACATAACCT
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.32, C:0.31, G:0.18, T:0.20
Consensus pattern (43 bp):
AGACCAAGACCATTAGCGGCGCTTCTCCCACAAACGCCGCTAA
Found at i:4537148 original size:33 final size:33
Alignment explanation
Indices: 4537106--4537169 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
4537096 CTAAAACTTC
4537106 CTTCATACCAAACAAAGACAGTATATCGATATT
1 CTTCATACCAAACAAAGACAGTATATCGATATT
4537139 CTTCATACCAAACAAAGACAGTATATCGATA
1 CTTCATACCAAACAAAGACAGTATATCGATA
4537170 AGCTTAGTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (33 bp):
CTTCATACCAAACAAAGACAGTATATCGATATT
Found at i:4537211 original size:16 final size:16
Alignment explanation
Indices: 4537190--4537221 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4537180 TAAAGGCCCG
4537190 AGCATTAGCGGCGCTT
1 AGCATTAGCGGCGCTT
4537206 AGCATTAGCGGCGCTT
1 AGCATTAGCGGCGCTT
4537222 CTTCAAAAAC
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:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (16 bp):
AGCATTAGCGGCGCTT
Found at i:4537405 original size:40 final size:40
Alignment explanation
Indices: 4537293--4537415 Score: 112
Period size: 40 Copynumber: 3.1 Consensus size: 40
4537283 TTTGCAGCGC
4537293 TTTTTA-GAAAA-CGCCGCTAATGCTTATTTTTAGC-G-G
1 TTTTTATGAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
* ** **
4537329 TATTTTCTGAAAAGCATCGCTAATGCTCTACCTTTAGCGGCG
1 T-TTTTATGAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
* * *
4537371 TTTTTAT-AAAAGTGCCGCTAATGCTTGATTTTTAGTGACG
1 TTTTTATGAAAAGCGCCGCTAATGCTT-ATTTTTAGCGGCG
4537411 TTTTT
1 TTTTT
4537416 TGCCCAAACG
Statistics
Matches: 67, Mismatches: 13, Indels: 10
0.74 0.14 0.11
Matches are distributed among these distances:
36 1 0.01
37 4 0.06
38 5 0.07
39 12 0.18
40 37 0.55
41 6 0.09
42 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (40 bp):
TTTTTATGAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:4537676 original size:126 final size:124
Alignment explanation
Indices: 4537453--4537725 Score: 325
Period size: 126 Copynumber: 2.2 Consensus size: 124
4537443 TTGTGTAGTG
* * * * * *
4537453 ATGCCACAACAATGTCTTAAAAATTATACAAAACGGGGCCGTTTGGTTACAAGAATTTAATTTTT
1 ATGCCACAACAATGTATTAAAAAGTACACAAAACGGCGCCGTTTGCTAACAAGAATTTAATTTTT
* * *
4537518 AGTGGTGTTTTTCTCCACAACGCCGCAAAAGGTATGCAATAGCGGCG-TTTGTTATAAAA
66 AGTGGCGTTTTTCTCCACAACACCGCAAAAGGTAAGCAATAGCGGCGTTTTG-TATAAAA
* * * * *
4537577 ATGCCACAACAATGTATTAAAAAGTGCACAAAAACTGCGTCGTTTGCTAACAGGATTTTAACTTT
1 ATGCCACAACAATGTATTAAAAAGTACAC-AAAACGGCGCCGTTTGCTAACAAGAATTTAA-TTT
* * *
4537642 TTAGTGGCGTTTTTCT-CAGAATCACCGCAAAAGGTAAGCATTAGCGGCGTTTTGTCTAAAA
64 TTAGTGGCGTTTTTCTCCACAA-CACCGCAAAAGGTAAGCAATAGCGGCGTTTTGTATAAAA
* *
4537703 ACGCCGCAACAATGTATTAAAAA
1 ATGCCACAACAATGTATTAAAAA
4537726 TTGTTCAGAA
Statistics
Matches: 126, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
124 25 0.20
125 28 0.22
126 69 0.55
127 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (124 bp):
ATGCCACAACAATGTATTAAAAAGTACACAAAACGGCGCCGTTTGCTAACAAGAATTTAATTTTT
AGTGGCGTTTTTCTCCACAACACCGCAAAAGGTAAGCAATAGCGGCGTTTTGTATAAAA
Found at i:4537851 original size:20 final size:20
Alignment explanation
Indices: 4537828--4537868 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4537818 CGCACCCAGC
4537828 CCCTAATTCCCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
4537848 CCCTAATTCCCCTTCGAAAT
1 CCCTAATTCCCCTTCCAAAT
4537868 C
1 C
4537869 TCTTCCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.44, G:0.02, T:0.29
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:4538693 original size:17 final size:17
Alignment explanation
Indices: 4538671--4538709 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
4538661 TTGGTTAATG
4538671 TTGCTGCAAGTTCTTTT
1 TTGCTGCAAGTTCTTTT
4538688 TTGCTGCAAGTTCTTTT
1 TTGCTGCAAGTTCTTTT
4538705 TTGCT
1 TTGCT
4538710 CCATTTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.18, G:0.18, T:0.54
Consensus pattern (17 bp):
TTGCTGCAAGTTCTTTT
Found at i:4539813 original size:9 final size:9
Alignment explanation
Indices: 4539796--4539887 Score: 87
Period size: 9 Copynumber: 10.0 Consensus size: 9
4539786 AAATATATAT
*
4539796 CATAGCTTA
1 CATAACTTA
4539805 CATAACTTA
1 CATAACTTA
**
4539814 CATAACTCG
1 CATAACTTA
4539823 CATAACTTA
1 CATAACTTA
* *
4539832 TATATATCATA
1 CATA-A-CTTA
4539843 CCATAACTTA
1 -CATAACTTA
* *
4539853 AATAACTCA
1 CATAACTTA
4539862 CATAACTTA
1 CATAACTTA
4539871 CATAACTTA
1 CATAACTTA
4539880 -ATAACTTA
1 CATAACTTA
4539888 TATATATTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
8 8 0.12
9 48 0.72
10 4 0.06
11 4 0.06
12 3 0.04
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:4539859 original size:48 final size:47
Alignment explanation
Indices: 4539788--4539879 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 47
4539778 AACTTAAAAA
* * * * *
4539788 ATATATATCATAGCTTACATAACTTACATAACTCGCATAACTTATAT
1 ATATATACCATAACTTAAATAACTCACATAACTCACATAACTTATAT
*
4539835 ATATCATACCATAACTTAAATAACTCACATAACTTACATAACTTA
1 ATAT-ATACCATAACTTAAATAACTCACATAACTCACATAACTTA
4539880 ATAACTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
47 4 0.11
48 34 0.89
ACGTcount: A:0.43, C:0.21, G:0.02, T:0.34
Consensus pattern (47 bp):
ATATATACCATAACTTAAATAACTCACATAACTCACATAACTTATAT
Found at i:4541165 original size:21 final size:21
Alignment explanation
Indices: 4541141--4541237 Score: 65
Period size: 23 Copynumber: 4.4 Consensus size: 21
4541131 AGATATTAAA
*
4541141 AAAATAATAT-ATGATAAATTT
1 AAAATAATATAATAAT-AATTT
*
4541162 AAAA-CATATCAATAATAATTT
1 AAAATAATAT-AATAATAATTT
*
4541183 AAAATAATAGT-ATATTACATTTT
1 AAAATAATA-TAATAATA-A-TTT
*
4541206 AAAATTATACTAATAATAAGTTT
1 AAAATAATA-TAATAATAA-TTT
4541229 AAAAGTAAT
1 AAAA-TAAT
4541238 GTCAAACTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 4 0.07
21 18 0.31
22 8 0.14
23 21 0.36
24 8 0.14
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATAATATAATAATAATTT
Found at i:4541363 original size:3 final size:3
Alignment explanation
Indices: 4541355--4541382 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4541345 AATATAAAGA
4541355 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4541383 GGATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4542794 original size:56 final size:56
Alignment explanation
Indices: 4542733--4543009 Score: 418
Period size: 56 Copynumber: 5.0 Consensus size: 56
4542723 GGGTTATTAC
4542733 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
4542789 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
4542845 ATATATCATACCATAACTTAAAATAACTCACAT-A---ACTTAACTTAATAACTTAT
1 ATATATCATACCATAACTT-AAATAACTCACATAACTTACTTAACTTAATAACTTAT
* * * *
4542898 ATATATCATACTATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
* * * * * *
4542954 ATATATCATATCATAACTTACATAACTCAGAGAACTTACATAAGTTACATAACTTA
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTA-ATAACTTA
4543010 ATTATACTTA
Statistics
Matches: 205, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
52 12 0.06
53 37 0.18
56 135 0.66
57 21 0.10
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (56 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
Found at i:4542896 original size:109 final size:108
Alignment explanation
Indices: 4542733--4542991 Score: 401
Period size: 109 Copynumber: 2.4 Consensus size: 108
4542723 GGGTTATTAC
4542733 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTATATATATCAT
1 ATATATCATACCATAACTTAAATAACTCACAT-A---ACTTAACTTAATAACTTATATATATCAT
*
4542798 ACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
62 ACCATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
*
4542845 ATATATCATACCATAACTTAAAATAACTCACATAACTTAACTTAATAACTTATATATATCATACT
1 ATATATCATACCATAACTT-AAATAACTCACATAACTTAACTTAATAACTTATATATATCATACC
* *
4542910 ATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
65 ATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * * *
4542954 ATATATCATATCATAACTTACATAACTCAGAGAACTTA
1 ATATATCATACCATAACTTAAATAACTCACATAACTTA
4542992 CATAAGTTAC
Statistics
Matches: 138, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
108 16 0.12
109 89 0.64
112 20 0.14
113 13 0.09
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (108 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTAACTTAATAACTTATATATATCATACCA
TAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
Found at i:4542943 original size:9 final size:9
Alignment explanation
Indices: 4542744--4543009 Score: 161
Period size: 9 Copynumber: 29.0 Consensus size: 9
4542734 TATATCATAC
4542744 CATAACTTA
1 CATAACTTA
* *
4542753 AATAACTCA
1 CATAACTTA
4542762 CATAACTTA
1 CATAACTTA
*
4542771 CTTAACTTA
1 CATAACTTA
4542780 -ATAACTTA
1 CATAACTTA
* *
4542788 TATATATCATA
1 CATA-A-CTTA
4542799 CCATAACTTA
1 -CATAACTTA
* *
4542809 AATAACTCA
1 CATAACTTA
4542818 CATAACTTA
1 CATAACTTA
*
4542827 CTTAACTTA
1 CATAACTTA
4542836 -ATAACTTA
1 CATAACTTA
* *
4542844 TATATATCATA
1 CATA-A-CTTA
4542855 CCATAACTTAA
1 -CATAACTT-A
* *
4542866 AATAACTCA
1 CATAACTTA
4542875 CATAAC-T-
1 CATAACTTA
4542882 --TAACTTA
1 CATAACTTA
4542889 -ATAACTTA
1 CATAACTTA
* *
4542897 TATATATCATA
1 CATA-A-CTTA
*
4542908 CTATAATTTA
1 C-ATAACTTA
*
4542918 CATAACTCA
1 CATAACTTA
4542927 CATAACTTA
1 CATAACTTA
4542936 CATAACTTA
1 CATAACTTA
4542945 -ATAACTTA
1 CATAACTTA
* *
4542953 TATATATCATA
1 CATA-A-CTTA
4542964 TCATAACTTA
1 -CATAACTTA
*
4542974 CATAACTCA
1 CATAACTTA
* *
4542983 GAGAACTTA
1 CATAACTTA
*
4542992 CATAAGTTA
1 CATAACTTA
4543001 CATAACTTA
1 CATAACTTA
4543010 ATTATACTTA
Statistics
Matches: 197, Mismatches: 40, Indels: 40
0.71 0.14 0.14
Matches are distributed among these distances:
5 4 0.02
6 1 0.01
8 29 0.15
9 113 0.57
10 21 0.11
11 17 0.09
12 12 0.06
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:4543022 original size:109 final size:108
Alignment explanation
Indices: 4542733--4543022 Score: 338
Period size: 109 Copynumber: 2.6 Consensus size: 108
4542723 GGGTTATTAC
4542733 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAACTTA-ATAACTT-ATATATATC
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAA-TTACATAACTTAAT-TATA-C
* *
4542796 ATACCATAACTTAAATAACTCACATAACTTACTTAACTTAATAACTTAT
63 -T--TATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * *
4542845 ATATATCATACCATAACTTAAAATAACTCACATAACTTAACTTAATAAC-TTA-TATATATCATA
1 ATATATCATACCATAACTT-AAATAACTCACATAACTT-ACTTAATTACATAACT-TA-ATTATA
* *
4542908 C-TATAATTTACATAACTCACATAACTTACATAACTTAATAACTTAT
62 CTTATAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
* * * * *
4542954 ATATATCATATCATAACTTACATAACTCAGAGAACTTACATAAGTTACATAACTTAATTATACTT
1 ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAA-TTACATAACTTAATTATACTT
4543019 ATAA
65 ATAA
4543023 ATAACCATGA
Statistics
Matches: 153, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
107 5 0.03
108 24 0.16
109 68 0.44
110 1 0.01
112 20 0.13
113 24 0.16
114 9 0.06
115 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (108 bp):
ATATATCATACCATAACTTAAATAACTCACATAACTTACTTAATTACATAACTTAATTATACTTA
TAACTTAAATAACTCACATAACTTACATAACTTAATAACTTAT
Found at i:4548853 original size:43 final size:43
Alignment explanation
Indices: 4548785--4549008 Score: 306
Period size: 43 Copynumber: 5.2 Consensus size: 43
4548775 TCTGCCAAAA
* * * *
4548785 TTAGTGGCGTTTTCAATAAAAGCGCCGCTAAAGAATATGACAT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
*
4548828 TTAGCGTCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
* * *
4548871 TTAGCGGCG-TTTCTTATAAAAGCCCCGCTAAAGAATATGACAT
1 TTAGCGGCGTTTTC-TATAAAAGCGCCGCTAAAGAACATGACCT
* *
4548914 TTAGCGGCGTTTGCTATAAAGGCGCCGCTAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
* * *
4548957 TTAGCGGCGTTTGCTATAAAAGCGGCGATAAAGAACATGACCT
1 TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
*
4549000 TTAGTGGCG
1 TTAGCGGCG
4549009 CTTATCTTTA
Statistics
Matches: 161, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.02
43 154 0.96
44 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
TTAGCGGCGTTTTCTATAAAAGCGCCGCTAAAGAACATGACCT
Found at i:4552528 original size:4 final size:4
Alignment explanation
Indices: 4552521--4552574 Score: 108
Period size: 4 Copynumber: 13.5 Consensus size: 4
4552511 TCATTCATGT
4552521 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
4552569 CATA CA
1 CATA CA
4552575 GAATAGAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 50 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:4553944 original size:29 final size:30
Alignment explanation
Indices: 4553893--4553952 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
4553883 GTTAGTTGAG
*
4553893 TATAAATATTTTTTAAAATTTTATTTTCAA
1 TATAAATATTTTTTAAAAATTTATTTTCAA
4553923 TATAAATA-TTTTTAAAAATTTATTTTCAA
1 TATAAATATTTTTTAAAAATTTATTTTCAA
4553952 T
1 T
4553953 TTATTGGGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (30 bp):
TATAAATATTTTTTAAAAATTTATTTTCAA
Found at i:4557720 original size:111 final size:111
Alignment explanation
Indices: 4557520--4557731 Score: 275
Period size: 111 Copynumber: 1.9 Consensus size: 111
4557510 CAGCTCCGGG
* * * *
4557520 AAGCCTTTCATTTGCTCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAATCCAT
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAACCCAT
*
4557585 AGCTCGAACTGAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
66 AGCTCGAACTAAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
* * * * *
4557631 AAGCCTCTCACTTGATCTCAAACTTTGCCTTCTTGCATTGCTTACACTGA-CTGCATTTAACCCA
1 AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACAC-CATCTGCATTTAACCCA
* **
4557695 TTGCTCGATAC-AAGCTCGCTGGTACCTTCATCAAACC
65 TAGCTCGA-ACTAAGCTCGCCAGTACCTTCATCAAACC
4557732 GCACTGATGA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 83 0.97
112 3 0.03
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.31
Consensus pattern (111 bp):
AAGCCTCTCACTTGATCTCAAACTTTGCCTGCTTGAACTGCTAACACCATCTGCATTTAACCCAT
AGCTCGAACTAAGCTCGCCAGTACCTTCATCAAACCCTTCTCTAGC
Found at i:4559771 original size:19 final size:19
Alignment explanation
Indices: 4559749--4559817 Score: 72
Period size: 18 Copynumber: 3.7 Consensus size: 19
4559739 AAAGTTATAA
4559749 AAAAATATTAAATTTTAAT
1 AAAAATATTAAATTTTAAT
* *
4559768 AAAAATA-TAAAGTTTATT
1 AAAAATATTAAATTTTAAT
4559786 AAAAAT-TGTAAAATTTT-AT
1 AAAAATAT-T-AAATTTTAAT
*
4559805 AAAAATAATAAAT
1 AAAAATATTAAAT
4559818 AATTATAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 19 0.46
19 16 0.39
20 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATATTAAATTTTAAT
Found at i:4559780 original size:37 final size:37
Alignment explanation
Indices: 4559727--4559816 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 37
4559717 GGAAAAACAA
*
4559727 TTATAAAAA-ATAAAAG-TTATAAAAAAATATTAAATT
1 TTATAAAAATAT-AAAGTTTATAAAAAAATATAAAATT
* * *
4559763 TTAATAAAAATATAAAGTTTATTAAAAATTGTAAAATT
1 TT-ATAAAAATATAAAGTTTATAAAAAAATATAAAATT
4559801 TTATAAAAATAATAAA
1 TTATAAAAAT-ATAAA
4559817 TAATTATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
36 2 0.04
37 19 0.41
38 25 0.54
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (37 bp):
TTATAAAAATATAAAGTTTATAAAAAAATATAAAATT
Found at i:4559825 original size:10 final size:9
Alignment explanation
Indices: 4559725--4559827 Score: 50
Period size: 10 Copynumber: 11.1 Consensus size: 9
4559715 GTGGAAAAAC
4559725 AATTATAAA
1 AATTATAAA
4559734 AA--ATAAA
1 AATTATAAA
*
4559741 AGTTATAAAA
1 AATTAT-AAA
*
4559751 AAATATTAAA
1 AATTA-TAAA
**
4559761 TTTTAATAAA
1 AATT-ATAAA
4559771 AA-TATAAA
1 AATTATAAA
**
4559779 GTTTATTAAA
1 AATTA-TAAA
*
4559789 AATTGTAAA
1 AATTATAAA
*
4559798 ATTTTATAAA
1 A-ATTATAAA
*
4559808 AATAATAAA
1 AATTATAAA
4559817 TAATTATAAA
1 -AATTATAAA
4559827 A
1 A
4559828 TGTATCAAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
7 6 0.09
8 5 0.07
9 19 0.28
10 35 0.52
11 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
AATTATAAA
Found at i:4560036 original size:22 final size:22
Alignment explanation
Indices: 4559989--4560036 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
4559979 TAGAAAAATT
**
4559989 ATAAAATGCTTCTTTAAATATT
1 ATAAAATGCTTCTTTAAATACG
**
4560011 ATAAAATGCTTCTTTTGATACG
1 ATAAAATGCTTCTTTAAATACG
4560033 ATAA
1 ATAA
4560037 TTTTTATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (22 bp):
ATAAAATGCTTCTTTAAATACG
Found at i:4560087 original size:21 final size:21
Alignment explanation
Indices: 4560063--4560107 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4560053 TGAATTTTTA
* *
4560063 TTTCTTTAC-ATTTTTTATAAT
1 TTTC-TTACAATTTTATAAAAT
4560084 TTTCTTACAATTTTATAAAAT
1 TTTCTTACAATTTTATAAAAT
4560105 TTT
1 TTT
4560108 ACCATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTCTTACAATTTTATAAAAT
Found at i:4560152 original size:11 final size:10
Alignment explanation
Indices: 4560130--4560173 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
4560120 ATTGTTTTTT
4560130 ATTTTT-ATA
1 ATTTTTAATA
4560139 ATTTGTTAATA
1 ATTT-TTAATA
4560150 ATTTTTAAT-
1 ATTTTTAATA
4560159 ATTTTT-AT-
1 ATTTTTAATA
4560167 ATTTTTA
1 ATTTTTA
4560174 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.25
9 10 0.31
10 7 0.22
11 7 0.22
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:4560153 original size:20 final size:19
Alignment explanation
Indices: 4560111--4560156 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
4560101 AAATTTTACC
** *
4560111 ATTTTTATAATTGTTTTTT
1 ATTTTTATAATTGTTAATA
4560130 ATTTTTATAATTTGTTAATA
1 ATTTTTATAA-TTGTTAATA
4560150 ATTTTTA
1 ATTTTTA
4560157 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTTATAATTGTTAATA
Found at i:4560172 original size:8 final size:8
Alignment explanation
Indices: 4560124--4560174 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 8
4560114 TTTATAATTG
4560124 TTTTT-TA
1 TTTTTATA
4560131 TTTTTATAA
1 TTTTTAT-A
4560140 TTTGTTAATAA
1 TTT-TT-AT-A
4560151 TTTTTAATA
1 TTTTT-ATA
4560160 TTTTTATA
1 TTTTTATA
4560168 TTTTTAT
1 TTTTTAT
4560175 TAAAAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.12
8 11 0.28
9 10 0.25
10 7 0.17
11 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:4560511 original size:87 final size:89
Alignment explanation
Indices: 4560334--4560554 Score: 237
Period size: 87 Copynumber: 2.6 Consensus size: 89
4560324 CAAATGGTAT
* * * * *
4560334 TTTTTTTATGCATTTTAACAATTCAAGTACCCAATTG-A-GTATAAAAAAA--A--GGTTTAATT
1 TTTTTTGATGCATTTTGACAATTCAAATACCTAATTGAATGCA-AAAAAAAGCAGGGGTTTAATT
*
4560393 GCTTTTTTCTGAAAAGTTTGAGGGC
65 GCTTTTTTCTGAAAAGTTTGAGAGC
* *
4560418 TTTTTTGATGTATTTTGA-AAGTTTAAATA-CTCAATTGAATGCAAAAAAAAGCAGGGGTTTAAT
1 TTTTTTGATGCATTTTGACAA-TTCAAATACCT-AATTGAATGCAAAAAAAAGCAGGGGTTTAAT
** *
4560481 TGCTTTTTT-T-TTAAGTTTGAGAGT
64 TGCTTTTTTCTGAAAAGTTTGAGAGC
*
4560505 TTTTTTGATGCATTTTGACAATTCAAATACCTAATTGAGTGCAAAAAAAA
1 TTTTTTGATGCATTTTGACAATTCAAATACCTAATTGAATGCAAAAAAAA
4560555 AAGAGAGCAG
Statistics
Matches: 113, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
83 3 0.03
84 26 0.23
85 8 0.07
86 2 0.02
87 52 0.46
88 5 0.04
89 17 0.15
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (89 bp):
TTTTTTGATGCATTTTGACAATTCAAATACCTAATTGAATGCAAAAAAAAGCAGGGGTTTAATTG
CTTTTTTCTGAAAAGTTTGAGAGC
Found at i:4563763 original size:21 final size:20
Alignment explanation
Indices: 4563739--4563808 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
4563729 AGTTTACAAA
4563739 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* **
4563759 CAAAAAGTTTTAAATAATTTT
1 -AAAAAATTCAAAATAATTTT
* *
4563780 -TAAAATTCAAAATTTATATTT
1 AAAAAATTCAAAA-TAAT-TTT
4563801 AAAAAATT
1 AAAAAATT
4563809 ATAAAAATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
19 8 0.22
20 3 0.08
21 20 0.54
22 6 0.16
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:4564508 original size:16 final size:18
Alignment explanation
Indices: 4564474--4564512 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
4564464 TTTATGAAAA
4564474 TATAAAAATCAATTTTTT
1 TATAAAAATCAATTTTTT
4564492 TATAAAAATC-A-TTTTT
1 TATAAAAATCAATTTTTT
4564508 TATAA
1 TATAA
4564513 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAAAATCAATTTTTT
Found at i:4566695 original size:29 final size:29
Alignment explanation
Indices: 4566649--4566720 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
4566639 ACAACACTTT
*
4566649 AACATAAGTGACTAAAATGTAACAATTCA
1 AACATAAGTGACTAAAATATAACAATTCA
* * * *
4566678 AACATAAGTGGCTGAAATATAATAATTGA
1 AACATAAGTGACTAAAATATAACAATTCA
*
4566707 AACATAAGTAACTA
1 AACATAAGTGACTA
4566721 TTTTAACAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.25
Consensus pattern (29 bp):
AACATAAGTGACTAAAATATAACAATTCA
Found at i:4568235 original size:20 final size:20
Alignment explanation
Indices: 4568210--4568247 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4568200 GTTAACATGC
4568210 ATAATG-AAATAATAAATACG
1 ATAATGTAAATAA-AAATACG
4568230 ATAATGTAAATAAAAATA
1 ATAATGTAAATAAAAATA
4568248 ATACGAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATAATGTAAATAAAAATACG
Done.