Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 99 of 210
Found at i:33903843 original size:3 final size:3
Alignment explanation
Indices: 33903837--33903903 Score: 86
Period size: 3 Copynumber: 23.3 Consensus size: 3
33903827 AAGCTAAAGA
*
33903837 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA- AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
33903883 AAG AAA AAG AA- AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG AAG A
33903904 GAAAAAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33903915 original size:9 final size:9
Alignment explanation
Indices: 33903836--33903919 Score: 62
Period size: 9 Copynumber: 9.1 Consensus size: 9
33903826 CAAGCTAAAG
*
33903836 AAAGAAGAA
1 AAAGAAAAA
* *
33903845 GAAGAAGAA
1 AAAGAAAAA
* *
33903854 GAAGAAGAA
1 AAAGAAAAA
* *
33903863 GAAGAAGAA
1 AAAGAAAAA
33903872 AAAGAAGAAA
1 AAAGAA-AAA
33903882 AAAGAAAAA
1 AAAGAAAAA
33903891 GAAA-AGAAAA
1 -AAAGA-AAAA
*
33903901 AGAGAAAAA
1 AAAGAAAAA
33903910 AAAGAAAAA
1 AAAGAAAAA
33903919 A
1 A
33903920 TTAAAACAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
9 50 0.76
10 16 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:33903917 original size:6 final size:6
Alignment explanation
Indices: 33903836--33903918 Score: 75
Period size: 6 Copynumber: 14.5 Consensus size: 6
33903826 CAAGCTAAAG
* * * * * *
33903836 AAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA AAAG-A AGA-AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
*
33903882 AAAGAA AAAG-A AAAGAA AAAGAG AAA-AA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
33903919 ATTAAAACAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
5 15 0.22
6 52 0.78
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:33903925 original size:17 final size:16
Alignment explanation
Indices: 33903870--33903919 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
33903860 GAAGAAGAAG
*
33903870 AAAAAGAAGAAAAAAGA
1 AAAAAAAAGAAAAAA-A
*
33903887 AAAAGAAAAGAAAAAGAG
1 AAAA-AAAAGAAAAA-AA
33903905 AAAAAAAAGAAAAAA
1 AAAAAAAAGAAAAAA
33903920 TTAAAACAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 1 0.03
17 14 0.48
18 13 0.45
19 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAA
Found at i:33904219 original size:16 final size:14
Alignment explanation
Indices: 33904204--33904282 Score: 72
Period size: 17 Copynumber: 5.4 Consensus size: 14
33904194 AATAAAAAAG
33904204 AAAGAAAAAGAGAAA
1 AAAGAAAAA-AGAAA
33904219 GAAAGGAAAAAAGAAA
1 -AAA-GAAAAAAGAAA
33904235 AAAGAGAAAGAAGGAAA
1 AAAGA-AAA-AA-GAAA
*
33904252 AAGGAAAAAAGAAA
1 AAAGAAAAAAGAAA
*
33904266 AAA-AAGAAA-AAA
1 AAAGAAAAAAGAAA
33904278 AAAGA
1 AAAGA
33904283 CTCCAATTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
12 6 0.11
13 6 0.11
14 8 0.15
15 8 0.15
16 13 0.24
17 14 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAGAAA
Found at i:33904232 original size:24 final size:24
Alignment explanation
Indices: 33904204--33904277 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
33904194 AATAAAAAAG
33904204 AAAGAAAAAGAGAAAGAAAGGAAA
1 AAAGAAAAAGAGAAAGAAAGGAAA
33904228 AAAGAAAAAAGAGAAAG-AAGGAAA
1 AAAG-AAAAAGAGAAAGAAAGGAAA
* * *
33904252 AAGGAAAAA-AGAAAAAAAAGAAA
1 AAAGAAAAAGAGAAAGAAAGGAAA
33904275 AAA
1 AAA
33904278 AAAGACTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
22 5 0.11
23 13 0.30
24 14 0.32
25 12 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AAAGAAAAAGAGAAAGAAAGGAAA
Found at i:33904245 original size:31 final size:31
Alignment explanation
Indices: 33904204--33904274 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
33904194 AATAAAAAAG
*
33904204 AAAGAAAAAG-AGAAAGAAAGGAAAAAAGAAA
1 AAAGAGAAAGAAGAAA-AAAGGAAAAAAGAAA
*
33904235 AAAGAGAAAGAAGGAAAAAGGAAAAAAGAAA
1 AAAGAGAAAGAAGAAAAAAGGAAAAAAGAAA
*
33904266 AAAAAGAAA
1 AAAGAGAAA
33904275 AAAAAAGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (31 bp):
AAAGAGAAAGAAGAAAAAAGGAAAAAAGAAA
Found at i:33904911 original size:17 final size:17
Alignment explanation
Indices: 33904882--33905090 Score: 97
Period size: 17 Copynumber: 11.9 Consensus size: 17
33904872 TAAAAAAAAA
*
33904882 TCGTATTTC-AAAATTT
1 TCGTGTTTCAAAAATTT
*
33904898 TCGTGTTTCAAAAATTC
1 TCGTGTTTCAAAAATTT
**
33904915 TCGTGAAT-AAAAATTT
1 TCGTGTTTCAAAAATTT
*
33904931 TCGTGTTTTCAAAAAAATTC
1 TCGTG-TTTC--AAAAATTT
* *
33904951 CCGTG-TTCGAAGAA-TT
1 TCGTGTTTC-AAAAATTT
* *
33904967 TCGGGTTTTCAAAATTTT
1 TCGTG-TTTCAAAAATTT
*
33904985 TCGTG--TCAAAAAATTC
1 TCGTGTTTC-AAAAATTT
* * *
33905001 TCATGTATCGAAAATTT
1 TCGTGTTTCAAAAATTT
* * *
33905018 CCTTGTTTTCAAAAAAAATT
1 TCGTG-TTTC--AAAAATTT
* *
33905038 CCGTGTTTTCAAAAAAATT
1 TCGTG-TTTC-AAAAATTT
*
33905057 TCGTGTTTCAAAAATCT
1 TCGTGTTTCAAAAATTT
33905074 TCGTGTTTTCAAAAATT
1 TCGTG-TTTCAAAAATT
33905091 ATTATTGTGT
Statistics
Matches: 146, Mismatches: 32, Indels: 28
0.71 0.16 0.14
Matches are distributed among these distances:
15 2 0.01
16 34 0.23
17 40 0.27
18 31 0.21
19 13 0.09
20 26 0.18
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTT
Found at i:33905033 original size:19 final size:19
Alignment explanation
Indices: 33905011--33905088 Score: 90
Period size: 19 Copynumber: 4.1 Consensus size: 19
33905001 TCATGTATCG
*
33905011 AAAATTTCCTTGTTTTCAAAA
1 AAAATTT-CGTGTTTTC-AAA
*
33905032 AAAATTCCGTGTTTTCAAA
1 AAAATTTCGTGTTTTCAAA
33905051 AAAATTTCGTG-TTTC--A
1 AAAATTTCGTGTTTTCAAA
33905067 AAAATCTTCGTGTTTTCAAA
1 AAAAT-TTCGTGTTTTCAAA
33905087 AA
1 AA
33905089 TTATTATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
16 6 0.12
17 6 0.12
18 8 0.16
19 13 0.26
20 11 0.22
21 6 0.12
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAATTTCGTGTTTTCAAA
Found at i:33905079 original size:36 final size:37
Alignment explanation
Indices: 33905031--33905106 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
33905021 TGTTTTCAAA
33905031 AAAAATTCCGTGTTTTCAAAAA-AATT-TCGTGTTTC
1 AAAAATTCCGTGTTTTCAAAAATAATTATCGTGTTTC
* * *
33905066 AAAAATCTTCGTGTTTTCAAAAATTATTATTGTGTTTC
1 AAAAAT-TCCGTGTTTTCAAAAATAATTATCGTGTTTC
33905104 AAA
1 AAA
33905107 GTTCTCGTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 6 0.17
36 15 0.43
37 3 0.09
38 11 0.31
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (37 bp):
AAAAATTCCGTGTTTTCAAAAATAATTATCGTGTTTC
Found at i:33905089 original size:18 final size:17
Alignment explanation
Indices: 33904887--33905090 Score: 91
Period size: 18 Copynumber: 11.6 Consensus size: 17
33904877 AAAAATCGTA
*
33904887 TTTCAAAATTTTCGTG-
1 TTTCAAAAATTTCGTGT
33904903 TTTCAAAAATTCTCGTG-
1 TTTCAAAAATT-TCGTGT
**
33904920 AAT-AAAAATTTTCGTGT
1 TTTCAAAAA-TTTCGTGT
* **
33904937 TTTCAAAAAAATTCCCGT
1 TTTC-AAAAATTTCGTGT
* * *
33904955 GTTCGAAGAATTTCGGGT
1 TTTC-AAAAATTTCGTGT
*
33904973 TTTCAAAATTTTTCGTG-
1 TTTCAAAA-ATTTCGTGT
*
33904990 --TCAAAAAATTCTCATG-
1 TTTC-AAAAATT-TCGTGT
* * *
33905006 TATCGAAAATTTCCTTGT
1 TTTCAAAAATTT-CGTGT
*
33905024 TTTCAAAAAAAATTCCGTGT
1 TTTC---AAAAATTTCGTGT
33905044 TTTCAAAAAAATTTCGTG-
1 TTTC--AAAAATTTCGTGT
33905062 TTTCAAAAATCTTCGTGT
1 TTTCAAAAAT-TTCGTGT
33905080 TTTCAAAAATT
1 TTTCAAAAATT
33905091 ATTATTGTGT
Statistics
Matches: 144, Mismatches: 27, Indels: 33
0.71 0.13 0.16
Matches are distributed among these distances:
15 4 0.03
16 35 0.24
17 28 0.19
18 45 0.31
19 18 0.12
20 8 0.06
21 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTCAAAAATTTCGTGT
Found at i:33905568 original size:3 final size:3
Alignment explanation
Indices: 33905562--33905601 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
33905552 AACTAATAAG
33905562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33905602 CTTCTTAANN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33918779 original size:96 final size:96
Alignment explanation
Indices: 33918615--33919174 Score: 672
Period size: 96 Copynumber: 5.8 Consensus size: 96
33918605 CCATAGATTA
*
33918615 CAATTTAAAAGATCGAAACCACAACGGCGAATCTTAC-TTCTAGGCGATGCAGCGGAACAGATTG
1 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTC-AGGCGATGCAGCGGAACAGATTG
33918679 AAGCTACAACGGCGAGTCTCACTTCCCCATTG
65 AAGCTACAACGGCGAGTCTCACTTCCCCATTG
* *
33918711 CAATTTAAAATATCGAAGCCACAACGGCGAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTGA
*
33918776 AGCTACAACGGCGAGTCTCACTTCCCAATTG
66 AGCTACAACGGCGAGTCTCACTTCCCCATTG
*
33918807 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGA
1 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTGA
*
33918872 AGCTACAACGGCGAATCTCACTTCCCCATTG
66 AGCTACAACGGCGAGTCTCACTTCCCCATTG
* * *
33918903 CAA--T---AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCAGAATAGATTGA
1 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTGA
*
33918963 AGCTACAACAGCGAGTCTCACTTCCCTGACATTG
66 AGCTACAACGGCGAGTCTCACTTCCC---CATTG
* * * ** * * *
33918997 CAA-TTAAAAGATTGAAGCCATAACGGCGAATCTCA-TTTCCTTGCGGTGTAGTGGAACAGATTG
1 CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTT-CAGGCGATGCAGCGGAACAGATTG
* * * *
33919060 AAGCTACGATGGCGAATCTCGCTTCCCCAACATTG
65 AAGCTACAACGGCGAGTCTCACTT-CCC--CATTG
* * * * * * * * *
33919095 C-AGTCAAATAGATTGAAGCTACAACAGCGAATCTCAC-ATCATTGGCGATACAGTGGAACAGAT
1 CAATTTAAA-AGATCGAAGCCACAACGGCGAATCTTACTTTCA--GGCGATGCAGCGGAACAGAT
33919158 TGAAGCTACAACGGCGA
63 TGAAGCTACAACGGCGA
33919175 ACCTTGTTTT
Statistics
Matches: 407, Mismatches: 42, Indels: 26
0.86 0.09 0.05
Matches are distributed among these distances:
91 76 0.19
94 9 0.02
95 1 0.00
96 184 0.45
97 6 0.01
98 72 0.18
99 28 0.07
100 31 0.08
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (96 bp):
CAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTGA
AGCTACAACGGCGAGTCTCACTTCCCCATTG
Found at i:33918784 original size:49 final size:48
Alignment explanation
Indices: 33918635--33919175 Score: 287
Period size: 49 Copynumber: 11.2 Consensus size: 48
33918625 GATCGAAACC
* *
33918635 ACAACGGCGAATCTTACTTCTAGGCGATGCAGCGGAACAGATTGAAGCT
1 ACAACGGCGAATCTCACTTC-AGGCAATGCAGCGGAACAGATTGAAGCT
* ** * **** * * * *
33918684 ACAACGGCGAGTCTCACTTC-CCCATTGCAATTTAAAATATCGAAGCC
1 ACAACGGCGAATCTCACTTCAGGCAATGCAGCGGAACAGATTGAAGCT
*
33918731 ACAACGGCGAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGAAGCT
1 ACAACGGCGAATCTCAC-TTCAGGCAATGCAGCGGAACAGATTGAAGCT
* * **** * * *
33918780 ACAACGGCGAGTCTCACTTC--CCAATTGCAATTTAAAAGATCGAAGCC
1 ACAACGGCGAATCTCACTTCAGGCAA-TGCAGCGGAACAGATTGAAGCT
*
33918827 ACAACGGCGAATCTTACTTTCAGGCAATGCAGCGGAACAGATTGAAGCT
1 ACAACGGCGAATCTCAC-TTCAGGCAATGCAGCGGAACAGATTGAAGCT
* * * * * *
33918876 ACAACGGCGAATCTCACTTC--CCCAT--TGC--AATAGATCGAAGCC
1 ACAACGGCGAATCTCACTTCAGGCAATGCAGCGGAACAGATTGAAGCT
* * * *
33918918 ACAACGGCGAATCTTACTTCCAGGCGATGCAGCAGAATAGATTGAAGCT
1 ACAACGGCGAATCTCACTT-CAGGCAATGCAGCGGAACAGATTGAAGCT
* * * * * *** * *
33918967 ACAACAGCGAGTCTCACTTCCCTGACATTGCA-ATTAAAAGATTGAAGCC
1 ACAACGGCGAATCTCACTT--CAGGCAATGCAGCGGAACAGATTGAAGCT
* * ** ** * *
33919016 ATAACGGCGAATCTCATTTCCTTGCGGTGTAGTGGAACAGATTGAAGCT
1 ACAACGGCGAATCTCACTT-CAGGCAATGCAGCGGAACAGATTGAAGCT
* * * * * * *
33919065 ACGATGGCGAATCTCGCTTCCCCA-ACATTGCAGTC-AAATAGATTGAAGCT
1 ACAACGGCGAATCTCACTT---CAGGCAATGCAG-CGGAACAGATTGAAGCT
* * * * *
33919115 ACAACAGCGAATCTCACATCATTGGCGATACAGTGGAACAGATTGAAGCT
1 ACAACGGCGAATCTCACTTCA--GGCAATGCAGCGGAACAGATTGAAGCT
33919165 ACAACGGCGAA
1 ACAACGGCGAA
33919176 CCTTGTTTTC
Statistics
Matches: 358, Mismatches: 112, Indels: 43
0.70 0.22 0.08
Matches are distributed among these distances:
42 29 0.08
43 1 0.00
44 2 0.01
45 3 0.01
46 6 0.02
47 64 0.18
48 19 0.05
49 161 0.45
50 71 0.20
51 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (48 bp):
ACAACGGCGAATCTCACTTCAGGCAATGCAGCGGAACAGATTGAAGCT
Found at i:33919765 original size:16 final size:16
Alignment explanation
Indices: 33919744--33919778 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33919734 TTGTGTTTTG
33919744 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
*
33919760 TTTTGACTGCATGACA
1 TTTTGAATGCATGACA
33919776 TTT
1 TTT
33919779 CATTATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:33923039 original size:50 final size:48
Alignment explanation
Indices: 33922917--33923014 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 48
33922907 AAAAGGGTGG
* *
33922917 GACCAAGGTGAAAGCCTACAAAGGGCA-CTTTGAGTCAAAAAAAAAGGA
1 GACCAAGGTGAAACCCTACAAAGGG-AGCCTTGAGTCAAAAAAAAAGGA
33922965 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGT-AAAAAAAAATGGA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTCAAAAAAAAA-GGA
33923013 GA
1 GA
33923015 GGCTAAGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 10 0.22
48 36 0.78
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (48 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTCAAAAAAAAAGGA
Found at i:33923058 original size:19 final size:19
Alignment explanation
Indices: 33923034--33923072 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33923024 GAAAACTCGC
33923034 AAAGGGCACCTTAGACCAA
1 AAAGGGCACCTTAGACCAA
*
33923053 AAAGGGCGCCTTAGACCAA
1 AAAGGGCACCTTAGACCAA
33923072 A
1 A
33923073 GGGGATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.23, T:0.10
Consensus pattern (19 bp):
AAAGGGCACCTTAGACCAA
Found at i:33924564 original size:100 final size:100
Alignment explanation
Indices: 33924437--33925171 Score: 1179
Period size: 100 Copynumber: 7.4 Consensus size: 100
33924427 GCCAGTAATT
*
33924437 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
33924502 TGCAATTAAAAAGATTGAAGCCACAACAGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * * *
33924537 TTATTTCGTTAGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGGTTTCCCTGATG
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCT-GGTTTCCCTGATA
*
33924602 TTGCAATTAAAAAGATTGAAGCCACAACAGCGGATC
65 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* * * * *
33924638 TTACTTCTTTAGCAGTGCAGTGGAAGAGATTGAAGCTACGACGGCAGATCTGGTTTCCTTGATAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
33924703 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
*
33924738 TTACTTCCTTAGCAGTGCAGCGGAATAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
33924803 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
** *
33924838 TTACTTCCTTAGCAGTGCAGCAAAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
*
33924903 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATA
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
33924938 TTATTTCCTTAGCAGTGCAGCGAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG-TAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
33925002 AGCAATTAAAAAGATTGAAGCCACAACGGCGGATA
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
33925037 TTATTTCCTTAGCAGTGCAGCGAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTG-TAT
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
33925101 AGCAATTAAAAAGATTG-AGCCACAACGGGTGGATC
66 TGCAATTAAAAAGATTGAAGCCACAAC-GGCGGATC
* *
33925136 TTACTTCCTTAGCAGTGCGGTGGAACAGATTGAAGC
1 TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
33925172 ANNNNNNNNN
Statistics
Matches: 601, Mismatches: 32, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
98 9 0.01
99 156 0.26
100 342 0.57
101 94 0.16
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:33924567 original size:50 final size:50
Alignment explanation
Indices: 33924441--33925171 Score: 478
Period size: 50 Copynumber: 14.6 Consensus size: 50
33924431 GTAATTTTAC
* * * * **
33924441 TTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * *
33924491 TTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACAGCGGATCTTAT
1 TTCCTTAG-CAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * * **
33924541 TTCGTTAGCAGTGTAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCT-TAT
* * * * *
33924592 TTCCCT-G-ATGTTGCAATTAAAAAGATTGAAGCCACAACAGCGGATCTTAC
1 TTCCTTAGCA-G-TGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * * **
33924642 TTCTTTAGCAGTGCAGTGGAAGAGATTGAAGCTACGACGGCAGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * *
33924692 TTCCTT-GATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
1 TTCCTTAG-CAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * **
33924742 TTCCTTAGCAGTGCAGCGGAATAGATTGAAGCTACGACGGCGGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * *
33924792 TTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTAC
1 TTCCTTAG-CAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * **
33924842 TTCCTTAGCAGTGCAG-CAAAACAGATTGAAGCTACGACGGCAGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAA-AGATTGAAGCCACAACGGCGGATCTTAT
* * * * * *
33924892 TTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATATTAT
1 TTCCTTAG-CAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * **
33924942 TTCCTTAGCAGTGCAGCGAAACAGATTGAAGCTACGACGGCGGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * *
33924992 TTCCCT-GTA-TAGCAATTAAAAAGATTGAAGCCACAACGGCGGATATTAT
1 TTCCTTAGCAGT-GCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * **
33925041 TTCCTTAGCAGTGCAGCGAAACAGATTGAAGCTACGACGGCGGATCTGGT
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
* * * * * *
33925091 TTCCCT-GTA-TAGCAATTAAAAAGATTG-AGCCACAACGGGTGGATCTTAC
1 TTCCTTAGCAGT-GCAGTGAAAAAGATTGAAGCCACAAC-GGCGGATCTTAT
* * *
33925140 TTCCTTAGCAGTGCGGTGGAACAGATTGAAGC
1 TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGC
33925172 ANNNNNNNNN
Statistics
Matches: 493, Mismatches: 165, Indels: 45
0.70 0.23 0.06
Matches are distributed among these distances:
48 9 0.02
49 72 0.15
50 363 0.74
51 48 0.10
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (50 bp):
TTCCTTAGCAGTGCAGTGAAAAAGATTGAAGCCACAACGGCGGATCTTAT
Found at i:33925395 original size:44 final size:44
Alignment explanation
Indices: 33925347--33925522 Score: 107
Period size: 44 Copynumber: 4.0 Consensus size: 44
33925337 CCTGGGCAAC
33925347 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
* ** ** * * *
33925391 AGTGG--CAGATCAAAGATGGC-GAATTTTACCTCCCTGAG--GTT
1 AGTGGAATAGATTGAAGATTACAG-ATCTTATCTCCCTAAGCAG-T
* * * * ** *
33925432 ACAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGC
1 --AGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAGT
33925477 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
33925521 AG
1 AG
33925523 CGGAGCAGAT
Statistics
Matches: 91, Mismatches: 27, Indels: 28
0.62 0.18 0.19
Matches are distributed among these distances:
40 1 0.01
41 5 0.05
42 24 0.26
43 22 0.24
44 30 0.33
45 7 0.08
46 1 0.01
47 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGT
Found at i:33925480 original size:43 final size:43
Alignment explanation
Indices: 33925303--33925493 Score: 124
Period size: 43 Copynumber: 4.4 Consensus size: 43
33925293 NNNNNNNNNN
*
33925303 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAA
1 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * * * **
33925346 CAGTGGAATAGATTGAAG--ATTACAGATCTTATCTCCCTAAGCAG
1 CAGTGGAGTACATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAG
* ** * * * * *
33925390 TAGTGGCAG-ATCAAAGATGGC-G-AATTTTACCTCCCTGAGGTTA-
1 CAGTGG-AGTA-CATTGAAGCCAGTAATTCTATCTCCCTG-GG-CAG
33925433 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* *
33925476 CAGTGGAATAGATTGAAG
1 CAGTGGAGTACATTGAAG
33925494 ATTACAGATC
Statistics
Matches: 105, Mismatches: 30, Indels: 26
0.65 0.19 0.16
Matches are distributed among these distances:
41 3 0.03
42 18 0.17
43 45 0.43
44 33 0.31
45 6 0.06
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (43 bp):
CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
Found at i:33925611 original size:132 final size:130
Alignment explanation
Indices: 33925306--33925616 Score: 509
Period size: 130 Copynumber: 2.4 Consensus size: 130
33925296 NNNNNNNCAG
*
33925306 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATAGATTGAAGATTACAG
1 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
* *
33925371 ATCTTATCTCCCTAAGCAGTAGTGGCAGATCAAAGATGGCGAATTTTACCTCCCTGAGGTTACAG
66 ATCTTATCTCCCTAAGCAGTAGGGGCAGATCAAAGATGGCGAATTTTACCTCCCTGAGGTTACAA
33925436 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
1 TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
*
33925501 ATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCAAAGATGGC-AGATTTTACCTCCCTGAGGTTG
66 ATCTTATCTCCCTAAGCAGTAG-GG-GCAGATCAAAGATGGCGA-ATTTTACCTCCCTGAGGTTA
33925565 CAA
128 CAA
* * *
33925568 TGGAGTATATTGAAGCCAGTAATTCTATC-CCACTGGTCGGCAGTGGAAT
1 TGGAGTACATTGAAGCCAGTAATTCTATCTCC-CTGGGCAGCAGTGGAAT
33925617 CGAAGGAAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
130 86 0.51
131 4 0.02
132 80 0.47
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (130 bp):
TGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAG
ATCTTATCTCCCTAAGCAGTAGGGGCAGATCAAAGATGGCGAATTTTACCTCCCTGAGGTTACAA
Found at i:33925686 original size:45 final size:45
Alignment explanation
Indices: 33925629--33925849 Score: 248
Period size: 45 Copynumber: 4.9 Consensus size: 45
33925619 AAGGAAAAAT
33925629 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
*** * * * *
33925674 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAT
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
* * * * *
33925718 CAGATCTTGTC-TCTCCATACTAGTGGTGGAGTGGATCAAAGAAAT
1 CAGATCTTGTCTTC-CCATACTGGTGGTGAAGTAGATCGAAGAAAG
*
33925763 CAGATATTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
* * ** * *
33925808 CATATATTGTCTTCATATATTGGTGGCGAAGTAGATCGAAGA
1 CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
33925850 TACAAGTCTT
Statistics
Matches: 145, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
43 2 0.01
44 33 0.23
45 108 0.74
46 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAG
Found at i:33925773 original size:89 final size:90
Alignment explanation
Indices: 33925627--33925849 Score: 234
Period size: 89 Copynumber: 2.5 Consensus size: 90
33925617 CGAAGGAAAA
* * * **
33925627 ATCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGT
1 ATCAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCAAAGAAAGCAGATATTGTCTTCACAT
*
33925692 ATTGG-CGTGAAGTAGATCGAAGAT
66 ACTGGTCGTGAAGTAGATCGAAGAT
* * * *
33925716 ATCAGATCTTGTC-TCTCCATACTAGTGGTGGAGTGGATCAAAGAAATCAGATATTGTCTTCCCA
1 ATCAGATCTTGTCTTC-CCATACTAGTGGTGAAGTAGATCAAAGAAAGCAGATATTGTCTTCACA
* *
33925780 TACTGGTGGTGAAGTAGATCGAAGAA
65 TACTGGTCGTGAAGTAGATCGAAGAT
* * * ** * * * *
33925806 AGCATATATTGTCTTCATATATTGGTGGCGAAGTAGATCGAAGA
1 ATCAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCAAAGA
33925850 TACAAGTCTT
Statistics
Matches: 108, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
88 2 0.02
89 57 0.53
90 47 0.44
91 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (90 bp):
ATCAGATCTTGTCTTCCCATACTAGTGGTGAAGTAGATCAAAGAAAGCAGATATTGTCTTCACAT
ACTGGTCGTGAAGTAGATCGAAGAT
Found at i:33927361 original size:21 final size:20
Alignment explanation
Indices: 33927332--33927373 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
33927322 CTTAATTCGT
* *
33927332 TGTTTTATTTTTTATTAATTA
1 TGTTATATTTATTATT-ATTA
33927353 TGTTATATTTATTATTATTA
1 TGTTATATTTATTATTATTA
33927373 T
1 T
33927374 TATTTCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TGTTATATTTATTATTATTA
Found at i:33927664 original size:21 final size:21
Alignment explanation
Indices: 33927604--33927668 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
33927594 TGTACACACA
*
33927604 TTTATA-TATATATTTACA-T
1 TTTATATTATATATATACATT
* *
33927623 TTTATAATTCA-AAATACACATT
1 TTTAT-ATT-ATATATATACATT
33927645 TTTATATTATATATATACATT
1 TTTATATTATATATATACATT
33927666 TTT
1 TTT
33927669 TTATATTGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
19 5 0.14
20 2 0.06
21 22 0.61
22 7 0.19
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTATATTATATATATACATT
Found at i:33930604 original size:11 final size:11
Alignment explanation
Indices: 33930590--33930646 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
33930580 TTCTTGTTAT
33930590 TTTTATTATTA
1 TTTTATTATTA
** *
33930601 TTTTGGTATCA
1 TTTTATTATTA
*
33930612 TTTTATTGTTA
1 TTTTATTATTA
* *
33930623 TGTTGTTATTA
1 TTTTATTATTA
*
33930634 TTTTATTGTTA
1 TTTTATTATTA
33930645 TT
1 TT
33930647 ATTTGGATAT
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.19, C:0.02, G:0.11, T:0.68
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:33930618 original size:22 final size:22
Alignment explanation
Indices: 33930590--33930646 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
33930580 TTCTTGTTAT
*
33930590 TTTTATTATTATTTTGGTATCA
1 TTTTATTGTTATTTTGGTATCA
* * *
33930612 TTTTATTGTTATGTTGTTATTA
1 TTTTATTGTTATTTTGGTATCA
33930634 TTTTATTGTTATT
1 TTTTATTGTTATT
33930647 ATTTGGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.02, G:0.11, T:0.68
Consensus pattern (22 bp):
TTTTATTGTTATTTTGGTATCA
Found at i:33944416 original size:16 final size:18
Alignment explanation
Indices: 33944397--33944435 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
33944387 CTTACTCAAA
33944397 CTTGAACTCAA-TT-AAG
1 CTTGAACTCAAGTTGAAG
*
33944413 CTTGAGCTCAAGTTGAAG
1 CTTGAACTCAAGTTGAAG
33944431 CTTGA
1 CTTGA
33944436 TAATTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 2 0.10
18 8 0.40
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (18 bp):
CTTGAACTCAAGTTGAAG
Found at i:33947607 original size:3 final size:3
Alignment explanation
Indices: 33947599--33947628 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33947589 GTCCTTGACA
33947599 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33947629 GGAAAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:33950492 original size:24 final size:24
Alignment explanation
Indices: 33950465--33950510 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33950455 GAGTCTATAT
*
33950465 CGGGTAGCTCTGAAGAGAACTTAA
1 CGGGAAGCTCTGAAGAGAACTTAA
* *
33950489 CGGGAAGCTCTGGAGAGCACTT
1 CGGGAAGCTCTGAAGAGAACTT
33950511 TAGCAGAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (24 bp):
CGGGAAGCTCTGAAGAGAACTTAA
Found at i:33956369 original size:21 final size:20
Alignment explanation
Indices: 33956343--33956381 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
33956333 AAATCATGGA
33956343 TAAATCCAAGCGACTCTTTCT
1 TAAATCCAAGCGA-TCTTTCT
33956364 TAAATCCAAGCGATCTTT
1 TAAATCCAAGCGATCTTT
33956382 TTGTAGGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (20 bp):
TAAATCCAAGCGATCTTTCT
Found at i:33959354 original size:314 final size:315
Alignment explanation
Indices: 33958785--33959413 Score: 1251
Period size: 314 Copynumber: 2.0 Consensus size: 315
33958775 GTGAATTAAA
33958785 AAAATGTACATGTGCCAAAGTGGATTTAATTGCCAAGTTCAGAGACAAAAAATTATATCGTCCTT
1 AAAATGTACATGTGCCAAAGTGGATTTAATTGCCAAGTTCAGAGACAAAAAATTATATCGTCCTT
33958850 TTATTTATATACAAAAATCTACACAGTCATCTTTAAAAGGTAACATTTAGAGTTTGTTTGGACAA
66 TTATTTATATACAAAAATCTACACAGTCATCTTTAAAAGGTAACATTTAGAGTTTGTTTGGACAA
33958915 CAAGAGTAATTGAATGAAGTAATTACACTCTCTTGTAATTACAAAAAATTGTAATTTCTTATACG
131 CAAGAGTAATTGAATGAAGTAATTACACTCTCTTGTAATTACAAAAAATTGTAATTTCTTATACG
33958980 TGTTTGGTTGACAAAGTCTAATTACATCGTAGTTTCTTATGTCATGTTTGACAGTATAAATTGTA
196 TGTTTGGTTGACAAAGTCTAATTACATCGTAGTTTCTTATGTCATGTTTGACAGTATAAATTGTA
33959045 ATTATGTAGTTACATATTTTATATTTTTAAAAATATATTAT-AAAATATTAGTGT
261 ATTATGTAGTTACATATTTTATATTTTTAAAAATATATTATAAAAATATTAGTGT
33959099 AAAATGTACATGTGCCAAAGTGGATTTAATTGCCAAGTTCAGAGACAAAAAATTATATCGTCCTT
1 AAAATGTACATGTGCCAAAGTGGATTTAATTGCCAAGTTCAGAGACAAAAAATTATATCGTCCTT
33959164 TTATTTATATACAAAAATCTACACAGTCATCTTTAAAAGGTAACATTTAGAGTTTGTTTGGACAA
66 TTATTTATATACAAAAATCTACACAGTCATCTTTAAAAGGTAACATTTAGAGTTTGTTTGGACAA
33959229 CAAGAGTAATTGAATGAAGTAATTACACTCTCTTGTAATTACAAAAAATTGTAATTTCTTATACG
131 CAAGAGTAATTGAATGAAGTAATTACACTCTCTTGTAATTACAAAAAATTGTAATTTCTTATACG
33959294 TGTTTGGTTGACAAAGTCTAATTACATCGTAGTTTCTTATGTCATGTTTGACAGTATAAATTGTA
196 TGTTTGGTTGACAAAGTCTAATTACATCGTAGTTTCTTATGTCATGTTTGACAGTATAAATTGTA
33959359 ATTATGTAGTTACATATTTTATATTTTTAAAAATATATTATAAAAATATTAGTGT
261 ATTATGTAGTTACATATTTTATATTTTTAAAAATATATTATAAAAATATTAGTGT
33959414 GATAAAAATA
Statistics
Matches: 314, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
314 301 0.96
315 13 0.04
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (315 bp):
AAAATGTACATGTGCCAAAGTGGATTTAATTGCCAAGTTCAGAGACAAAAAATTATATCGTCCTT
TTATTTATATACAAAAATCTACACAGTCATCTTTAAAAGGTAACATTTAGAGTTTGTTTGGACAA
CAAGAGTAATTGAATGAAGTAATTACACTCTCTTGTAATTACAAAAAATTGTAATTTCTTATACG
TGTTTGGTTGACAAAGTCTAATTACATCGTAGTTTCTTATGTCATGTTTGACAGTATAAATTGTA
ATTATGTAGTTACATATTTTATATTTTTAAAAATATATTATAAAAATATTAGTGT
Found at i:33961450 original size:29 final size:29
Alignment explanation
Indices: 33961417--33961472 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
33961407 ATAGTTTTGT
* * *
33961417 TTTTATTTCTAGGAATATTGTCTCTATAC
1 TTTTACTTCTACGAATATAGTCTCTATAC
*
33961446 TTTTACTTCTACGAATATAGTTTCTAT
1 TTTTACTTCTACGAATATAGTCTCTAT
33961473 TTTTTAGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.14, G:0.09, T:0.52
Consensus pattern (29 bp):
TTTTACTTCTACGAATATAGTCTCTATAC
Found at i:33977059 original size:25 final size:24
Alignment explanation
Indices: 33977031--33977081 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
33977021 AATGAAAAAG
*
33977031 AAAAAAAAATCTTAAAATCTAATTT
1 AAAAAAAAATCATAAAA-CTAATTT
*
33977056 AAAATAAAATCATAAAACTAATTT
1 AAAAAAAAATCATAAAACTAATTT
33977080 AA
1 AA
33977082 TATATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAAAAAAATCATAAAACTAATTT
Found at i:33979888 original size:23 final size:23
Alignment explanation
Indices: 33979862--33979907 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
33979852 TTAATCACTC
33979862 TAATTTCTTTTTATCAATTTAAT
1 TAATTTCTTTTTATCAATTTAAT
33979885 TAATTTCTTTTTATCAATTTAAT
1 TAATTTCTTTTTATCAATTTAAT
33979908 CATCATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (23 bp):
TAATTTCTTTTTATCAATTTAAT
Found at i:33985181 original size:483 final size:484
Alignment explanation
Indices: 33984275--33985243 Score: 1881
Period size: 483 Copynumber: 2.0 Consensus size: 484
33984265 GCTCTCTTTA
33984275 TAGGGATTTCAATTTTCAATGCCTTCTTTTTCTTTATGAGTGTAGTTTAGGAATCTTTGTGATTG
1 TAGGGATTTCAATTTTCAATGCCTTCTTTTTCTTTATGAGTGTAGTTTAGGAATCTTTGTGATTG
33984340 AAATTAATGAATCTTTTTTTTAACAATAATTTCACCCATCTAGTAATAAAATTAAATATTATATC
66 AAATTAATGAATCTTTTTTTTAACAATAATTTCACCCATCTAGTAATAAAATTAAATATTATATC
33984405 TTTAATCCTTTTTATATATAAAACCTTTCCAACATCTATGGCTTTAATCTTTCATTTTTATATAA
131 TTTAATCCTTTTTATATATAAAACCTTTCCAACATCTATGGCTTTAATCTTTCATTTTTATATAA
33984470 TGGTACTACTAGCTACACTACACTATTATACACTAGGCACTAACTTTTCCCATGTTATCAAAGCA
196 TGGTACTACTAGCTACACTACACTATTATACACTAGGCACTAACTTTTCCCATGTTATCAAAGCA
33984535 TCATGGAACCATCAAATATATATGCACACACATTGGGGAAAACTGGGTTTCCTAGGAAGCACCTC
261 TCATGGAACCATCAAATATATATGCACACACATTGGGGAAAACTGGGTTTCCTAGGAAGCACCTC
33984600 ACTGTGCATCACTGTGAGGGAATTCAAGAAGTGCTTAAAGGGTTGTCTTCCCAAGTATATATATA
326 ACTGTGCATCACTGTGAGGGAATTCAAGAAGTGCTTAAAGGGTTGTCTTCCCAAGTATATATATA
33984665 TATATATATACACATGTTACAGTGTGGCAAAAGTACATACGATTGCAATGTGATCATCTCAACAA
391 TATATATATACACATGTTACAG-GTGGCAAAAGTACATACGATTGCAATGTGATCATCTCAACAA
33984730 -GCAACCACACAAATTAAA-GCTTTATTTG
455 GGCAACCACACAAATTAAAGGCTTTATTTG
33984758 TAGGGATTTCAATTTTCAATGCCTTCTTTTTCTTTATGAGTGTAGTTTAGGAATCTTTGTGATTG
1 TAGGGATTTCAATTTTCAATGCCTTCTTTTTCTTTATGAGTGTAGTTTAGGAATCTTTGTGATTG
33984823 AAATTAATGAATCTTTTTTTTAACAATAATTTCACCCATCTAGTAATAAAATTAAATATTATATC
66 AAATTAATGAATCTTTTTTTTAACAATAATTTCACCCATCTAGTAATAAAATTAAATATTATATC
33984888 TTTAATCCTTTTTATATATAAAACCTTTCCAACATCTATGGCTTTAATCTTTCATTTTTATATAA
131 TTTAATCCTTTTTATATATAAAACCTTTCCAACATCTATGGCTTTAATCTTTCATTTTTATATAA
33984953 TGGTACTACTAGCTACACTACACTATTATACACTAGGCACTAACTTTTCCCATGTTATCAAAGCA
196 TGGTACTACTAGCTACACTACACTATTATACACTAGGCACTAACTTTTCCCATGTTATCAAAGCA
33985018 TCATGGAACCATCAAATATATATGCACACACATTGGGGAAAACTGGGTTTCCTAGGAAGCACCTC
261 TCATGGAACCATCAAATATATATGCACACACATTGGGGAAAACTGGGTTTCCTAGGAAGCACCTC
33985083 ACTGTGCATCACTGTGAGGGAATTCAAGAAGTGCTTAAAGGGTTGTCTTCCCAAGTATATATATA
326 ACTGTGCATCACTGTGAGGGAATTCAAGAAGTGCTTAAAGGGTTGTCTTCCCAAG--TATATATA
33985148 TATATATATATACACATGTTACA-GTGGCAAAAGTACATACGATTGCAATGTGATCATCTCAACA
389 TATATATATATACACATGTTACAGGTGGCAAAAGTACATACGATTGCAATGTGATCATCTCAACA
33985212 ATGGCAACCACACAAATTAAAGGCTTTATTTG
454 A-GGCAACCACACAAATTAAAGGCTTTATTTG
33985244 AGCTTGCCAC
Statistics
Matches: 481, Mismatches: 0, Indels: 7
0.99 0.00 0.01
Matches are distributed among these distances:
483 422 0.88
485 49 0.10
486 10 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (484 bp):
TAGGGATTTCAATTTTCAATGCCTTCTTTTTCTTTATGAGTGTAGTTTAGGAATCTTTGTGATTG
AAATTAATGAATCTTTTTTTTAACAATAATTTCACCCATCTAGTAATAAAATTAAATATTATATC
TTTAATCCTTTTTATATATAAAACCTTTCCAACATCTATGGCTTTAATCTTTCATTTTTATATAA
TGGTACTACTAGCTACACTACACTATTATACACTAGGCACTAACTTTTCCCATGTTATCAAAGCA
TCATGGAACCATCAAATATATATGCACACACATTGGGGAAAACTGGGTTTCCTAGGAAGCACCTC
ACTGTGCATCACTGTGAGGGAATTCAAGAAGTGCTTAAAGGGTTGTCTTCCCAAGTATATATATA
TATATATATACACATGTTACAGGTGGCAAAAGTACATACGATTGCAATGTGATCATCTCAACAAG
GCAACCACACAAATTAAAGGCTTTATTTG
Found at i:33997908 original size:2 final size:2
Alignment explanation
Indices: 33997901--33997937 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
33997891 TCTATTTTAT
33997901 TA TA TA TA TA TA TA TCA TA TA TA TGA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T-A TA TA TA T-A TA TA TA TA TA T
33997938 GATACAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33997922 original size:13 final size:13
Alignment explanation
Indices: 33997901--33997941 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
33997891 TCTATTTTAT
33997901 TATATATATAT-A
1 TATATATATATGA
33997913 TATCATATATATGA
1 TAT-ATATATATGA
33997927 TATATATATATGA
1 TATATATATATGA
33997940 TA
1 TA
33997942 CAATATGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (13 bp):
TATATATATATGA
Found at i:33998491 original size:4 final size:4
Alignment explanation
Indices: 33998482--33998507 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33998472 GCAGCTAAGG
33998482 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
33998508 AAGTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:33999227 original size:6 final size:6
Alignment explanation
Indices: 33999216--33999242 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33999206 TTATTATTAC
33999216 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
33999243 GCAGACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:33999839 original size:2 final size:2
Alignment explanation
Indices: 33999832--33999862 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
33999822 GACCTTAACA
33999832 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33999863 CTAAGACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34011795 original size:43 final size:43
Alignment explanation
Indices: 34011736--34011936 Score: 350
Period size: 43 Copynumber: 4.7 Consensus size: 43
34011726 TTATGAGACA
*
34011736 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
34011779 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
*
34011822 AAACGCCGCTAAAGAACCTGACCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
*
34011865 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-CCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTACCCAC
*
34011908 AAACGCCGCTAAAGAACATGATCTTTAGC
1 AAACGCCGCTAAAGAACATGACCTTTAGC
34011937 AGCGTTTTTT
Statistics
Matches: 152, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
43 148 0.97
44 4 0.03
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTACCCAC
Found at i:34014890 original size:12 final size:12
Alignment explanation
Indices: 34014873--34014900 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34014863 AAGGAAAACT
34014873 CAAATAAATAAA
1 CAAATAAATAAA
34014885 CAAATAAATAAA
1 CAAATAAATAAA
34014897 CAAA
1 CAAA
34014901 AGAAAACCTC
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:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (12 bp):
CAAATAAATAAA
Found at i:34015697 original size:22 final size:21
Alignment explanation
Indices: 34015652--34015698 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
34015642 AAAAGTGAAA
**
34015652 TTTATTTTGAAAAAAAAATGT
1 TTTATTTTGAAAAAAAAACAT
*
34015673 TTTATTTTGAACAAAATAACAT
1 TTTATTTTGAA-AAAAAAACAT
34015695 TTTA
1 TTTA
34015699 ATAAGAAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (21 bp):
TTTATTTTGAAAAAAAAACAT
Found at i:34015960 original size:7 final size:7
Alignment explanation
Indices: 34015950--34015974 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34015940 AAATCTCAAA
34015950 TAAACCT
1 TAAACCT
34015957 TAAACCT
1 TAAACCT
34015964 TAAACCT
1 TAAACCT
34015971 TAAA
1 TAAA
34015975 TTAGCCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:34016169 original size:14 final size:14
Alignment explanation
Indices: 34016150--34016211 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
34016140 CCTTGAATCT
34016150 CTAAATCCTAACCC
1 CTAAATCCTAACCC
*
34016164 CTAAATCCCTAACTC
1 CTAAAT-CCTAACCC
* *
34016179 GT-AACCCATAACCC
1 CTAAATCC-TAACCC
* *
34016193 CTAACTACTAACCC
1 CTAAATCCTAACCC
34016207 CTAAA
1 CTAAA
34016212 CCTTAAATGC
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
13 2 0.06
14 24 0.67
15 10 0.28
ACGTcount: A:0.37, C:0.40, G:0.02, T:0.21
Consensus pattern (14 bp):
CTAAATCCTAACCC
Found at i:34016627 original size:57 final size:58
Alignment explanation
Indices: 34016524--34016632 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 58
34016514 TAAGCTTAAA
* * *
34016524 CCTTAAAACCCTAAACCCATAAACCCTTAACACATAACCTTTAAACCTTAAACCCCAG
1 CCTTAAAACCATAAACCCATAAACCCTAAACACATAACCTATAAACCTTAAACCCCAG
* * *
34016582 CCTTTAAACCATAAA-CCATAACCCCTAAACCCATAATCC-ATAAACCTTAAA
1 CCTTAAAACCATAAACCCATAAACCCTAAACACATAA-CCTATAAACCTTAAA
34016633 ATGGTAACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
57 29 0.66
58 15 0.34
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (58 bp):
CCTTAAAACCATAAACCCATAAACCCTAAACACATAACCTATAAACCTTAAACCCCAG
Found at i:34016632 original size:22 final size:21
Alignment explanation
Indices: 34016500--34016676 Score: 67
Period size: 21 Copynumber: 8.2 Consensus size: 21
34016490 CTAGTTAATC
* *
34016500 TAAACCCTAAACCAT-AAGCT
1 TAAACCATAAACCATAAACCT
* * *
34016520 TAAACCTTAAAACCCTAAACCCA
1 TAAACCAT-AAACCATAAA-CCT
* *
34016543 TAAACCCTTAACACAT-AACCTT
1 TAAACCATAAAC-CATAAACC-T
* ** *
34016565 TAAACCTTAAACC-CCAGCCTT
1 TAAACCATAAACCATAAACC-T
* *
34016586 TAAACCATAAACCATAACCCC
1 TAAACCATAAACCATAAACCT
*
34016607 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCT
***
34016629 TAAAATGGTAACACC-TAAACCT
1 T-AAACCATAA-ACCATAAACCT
* *
34016651 TAAACTC-TAAACCATATACCC
1 TAAAC-CATAAACCATAAACCT
34016672 TAAAC
1 TAAAC
34016677 TATAGTGATA
Statistics
Matches: 117, Mismatches: 28, Indels: 23
0.70 0.17 0.14
Matches are distributed among these distances:
20 10 0.09
21 46 0.39
22 46 0.39
23 15 0.13
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:34016676 original size:14 final size:14
Alignment explanation
Indices: 34016500--34016632 Score: 65
Period size: 15 Copynumber: 9.3 Consensus size: 14
34016490 CTAGTTAATC
34016500 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* * *
34016514 T-AAGCTTAAACCT
1 TAAACCCTAAACCA
34016527 TAAAACCCTAAACCCA
1 T-AAACCCTAAA-CCA
*
34016543 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
* *
34016558 T-AACCTTTAAACCT
1 TAAACC-CTAAACCA
* * *
34016572 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
34016586 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
34016600 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
34016615 TAATCCATAAACCT
1 TAAACCCTAAACCA
34016629 TAAA
1 TAAA
34016633 ATGGTAACAC
Statistics
Matches: 87, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
13 13 0.15
14 29 0.33
15 42 0.48
16 3 0.03
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:34016909 original size:37 final size:38
Alignment explanation
Indices: 34016859--34016931 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
34016849 TAAATCCCTG
* *
34016859 AGCATTAGCGGCGCTTT-CTCAAAAATGCCGCTAAAGT
1 AGCATTAGCGGCGCTTTACTAAAAAACGCCGCTAAAGT
*
34016896 AGCATTAGCGGCGCTTTATTAAAAAACGCCGCTAAA
1 AGCATTAGCGGCGCTTTACTAAAAAACGCCGCTAAA
34016932 TCCTTGAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (38 bp):
AGCATTAGCGGCGCTTTACTAAAAAACGCCGCTAAAGT
Found at i:34017211 original size:114 final size:113
Alignment explanation
Indices: 34016866--34017459 Score: 763
Period size: 114 Copynumber: 5.2 Consensus size: 113
34016856 CTGAGCATTA
* *
34016866 GCGGCGCTTTCTCAAAAATGCCGCTAAAG--T-AGCATTAGCGGCGCTTTATTAAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTACT-AAAAACGCCGC
*** *
34016928 TAAATCCTTGAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTT
65 TAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
* * *
34016977 GCGGCGCTTTCTCAAAATCGCCGCTAAAG-CTCAGCATTAGCGGCGGTTT-CTTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTAC-TAAAAACGCCGC
* * **
34017040 TAAATTCCCGAAAAGCTCAGAAAAC-AGCAG-CATTGGATTTAGGTTTTTTT
65 TAAA-TCCCCAAAAGCTCAGAAAACGA-C-GTCGTTGGGCTTAGGTTTTTTT
* * *
34017090 GCAGCGCTTTCCCAAAAACGCCGCTAATGCCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCGCTTTACTAAAAACGCCGC
*
34017155 -AATATCCCCAAAAGCTCAAAAAACGACGTCGTTGGGCTTAGGTTTTTTT
65 TAA-ATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
*
34017204 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCCTAAAAACGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCC-TGAGCATTAGCGGCGCTTTACTAAAAACGCCGC
* * *
34017269 GAAATCCCCAAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTTTTTT
65 TAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
* * *
34017318 GCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCCTAAAAATGCCGC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCGCTTTACTAAAAACGCCGC
* * * *
34017383 TAAATCCCCGAAAGCTCATAAAACGACGTCGTTGAGCTTAGGCTTTTTT
65 TAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
* * * *
34017432 GTGGCGCTTTCTTAAAAACTCTGCTAAA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAA
34017460 TCCCCAAAAG
Statistics
Matches: 425, Mismatches: 43, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
111 27 0.06
112 17 0.04
113 79 0.19
114 265 0.62
115 36 0.08
116 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTACTAAAAACGCCGCT
AAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGGTTTTTTT
Found at i:34017472 original size:187 final size:187
Alignment explanation
Indices: 34017245--34017641 Score: 623
Period size: 187 Copynumber: 2.1 Consensus size: 187
34017235 TTGAGCATTA
*
34017245 GCGGCGCTTTCCTAAAAACGCCGCGAAATCCCCAAAAGCTCAGAAAACGGCGTCATTGGGCTTAG
1 GCGGCGCTTTCCTAAAAACGCCGCGAAATCCCCAAAAGCTCAGAAAACGACGTCATTGGGCTTAG
*
34017310 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCCTAAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAA
* * * *
34017375 AATGCCGCTAAATCCCCGAAAGCTCATAAAACGACGTCGTTGAGCTTAGGCTTTTTT
131 AACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGAGATTAGGCTTTTTT
* * * * * **
34017432 GTGGCGCTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTAG
1 GCGGCGCTTTCCTAAAAACGCCGCGAAATCCCCAAAAGCTCAGAAAACGACGTCATTGGGCTTAG
*
34017497 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGTATTAGCGGCGCTTTCCTAAA
66 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAA
* * *
34017562 AACGCCGCTAAATACCTGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGCTTTTTT
131 AACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGAGATTAGGCTTTTTT
* *
34017619 GCGGCGTTTTCCCAAAAACGCCG
1 GCGGCGCTTTCCTAAAAACGCCG
34017642 GTAATACCCT
Statistics
Matches: 187, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 187 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (187 bp):
GCGGCGCTTTCCTAAAAACGCCGCGAAATCCCCAAAAGCTCAGAAAACGACGTCATTGGGCTTAG
GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAA
AACGCCGCTAAATACCCGAAAGCTCAGAAAACGACGTCGTTGAGATTAGGCTTTTTT
Found at i:34017480 original size:73 final size:73
Alignment explanation
Indices: 34017359--34017532 Score: 242
Period size: 73 Copynumber: 2.4 Consensus size: 73
34017349 CTGAGCATTA
* *
34017359 GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCGAAAGCTCATAAAACGACGTCGTTGAGCTTAG
1 GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTAG
34017424 GCTTTTTT
66 GCTTTTTT
* * * * *
34017432 GTGGCGCTTTCTTAAAAACT-CTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTA
1 GCGGCGCTTTCCTAAAAA-TGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTA
*
34017496 GGTTTTTTT
65 GGCTTTTTT
* *
34017505 GCGGCGCTTTCCCAAAAACGCCGCTAAA
1 GCGGCGCTTTCCTAAAAATGCCGCTAAA
34017533 GCCCTGAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
73 85 0.99
74 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (73 bp):
GCGGCGCTTTCCTAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGAGCTTAG
GCTTTTTT
Found at i:34017502 original size:301 final size:298
Alignment explanation
Indices: 34017131--34018059 Score: 1218
Period size: 301 Copynumber: 3.1 Consensus size: 298
34017121 CTGAGCATTA
* *
34017131 GCGGCGCTTTACTAAAAACGCCGC-AATATCCCCAAAAGCTCAAAAAACGACGTCGTTGGGCTTA
1 GCGGCGCTTT-CTAAAAACTCCGCTAA-ATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTA
*
34017195 GGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATTAGCGGCGCTTTCCTAA
64 GGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAA
* * *
34017260 AAACGCCGCGAAATCCCCAAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTTTTTTTGCGGCGC
129 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGC
*
34017325 TTTCCCAAAAACGCCGCTAAAGTCCTGAGCATTAGCGGCGCTTTCCTAAAAATGCCGCTAAATCC
194 TTTCCCAAAAACGCCGCTAAAG-CCTGAGCATTAGCGGCGCTTTCCTAAAAATGCCGTTAAATCC
* * * *
34017390 CCGAAAGCTCATAAAACGACGTCGTTGAGCTTAGGCTTTTTT
258 CCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGG-TTTTTT
* * *
34017432 GTGGCGCTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTAG
1 GCGGCGCTTTC-TAAAAACTCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAG
* *
34017497 GTTTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGTATTAGCGGCGCTTTCCTAAA
65 GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAA
* * * * *
34017562 AACGCCGCTAAATACCTGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGCTTTTTTGCGGCGTT
130 AACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCT
* * * * * ** *
34017627 TTCCCAAAAACGCCGGTAATACCCTGAGCATTAGCGACGTTTTCTTAAAAACACCGTTAAATCCT
195 TTCCCAAAAACGCCGCTAA-AGCCTGAGCATTAGCGGCGCTTTCCTAAAAATGCCGTTAAATCCC
* * *
34017692 CAAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTT
259 CGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGG-TTTTTT
* * *
34017733 GCGGCACTTTCCCAAAAA-TGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTA
1 GCGGCGCTTT-CTAAAAACT-CCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTA
* * * * * * *
34017797 GGTTTTTTTGCGGCGCTTTTTCAATAACGCTGCTAAAGCCCTAAGCATTAGCGGCGTTTTCTTGA
64 GGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAA
* * * * *
34017862 AAGCGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCATCGTTGGGCTTA-TTTTTTTTGTGGCGC
129 AAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGC
** * *
34017926 TTTCTAAAAAATGCCGCTAAAGCTCTGAGCATTAGCGGCGC-TTCCTTAAAAAATGTCGTTAAAT
194 TTTCCCAAAAACGCCGCTAAAGC-CTGAGCATTAGCGGCGCTTTCC-T-AAAAATGCCGTTAAAT
*
34017990 CCCCGAGAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTT
256 CCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTT
* * *
34018033 GCGGCGCTTCCTGGAAAACGCCGCTAA
1 GCGGCGCTTTCT-AAAAACTCCGCTAA
34018060 TGATCAATCT
Statistics
Matches: 540, Mismatches: 78, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
299 6 0.01
300 70 0.13
301 460 0.85
302 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (298 bp):
GCGGCGCTTTCTAAAAACTCCGCTAAATCCCCAAAAGCTCAGAAAACGACGTCGTTGGGCTTAGG
TTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCCTAAAA
ACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
TCCCAAAAACGCCGCTAAAGCCTGAGCATTAGCGGCGCTTTCCTAAAAATGCCGTTAAATCCCCG
AAAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTT
Found at i:34017634 original size:114 final size:112
Alignment explanation
Indices: 34017434--34017760 Score: 429
Period size: 114 Copynumber: 2.9 Consensus size: 112
34017424 GCTTTTTTGT
* * * * *
34017434 GGCGCTTTCTTAAAAACTCTGCTAAATCCCCAAAAGCTCAGAAAACGACGTTGTTGGGCTTAGGT
1 GGCGCTTTCTTAAAAACACCGCTAAAT-CCTAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
34017499 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGTATTAGC
65 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA-CCCTGAGCATTAGC
* * * * *
34017548 GGCGCTTTCCTAAAAACGCCGCTAAATACCTGAAAGCTCAGAAAACGGCGTCGTTGGGATTAGGC
1 GGCGCTTTCTTAAAAACACCGCTAAAT-CCTAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* *
34017613 TTTTTTGCGGCGTTTTCCCAAAAACGCCGGTAATACCCTGAGCATTAGC
65 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA-ACCCTGAGCATTAGC
* * * * *
34017662 GACGTTTTCTTAAAAACACCGTTAAATCCTCAAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGGT
1 GGCGCTTTCTTAAAAACACCGCTAAATCCT-AAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
* *
34017727 TTTTTTGCGGCACTTTCCCAAAAATGCCGCTAAA
65 TTTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAA
34017761 TCCCCAAAAG
Statistics
Matches: 184, Mismatches: 27, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
113 4 0.02
114 179 0.97
115 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (112 bp):
GGCGCTTTCTTAAAAACACCGCTAAATCCTAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTT
TTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAACCCTGAGCATTAGC
Found at i:34017758 original size:187 final size:186
Alignment explanation
Indices: 34017546--34017946 Score: 491
Period size: 187 Copynumber: 2.2 Consensus size: 186
34017536 CTGAGTATTA
* * ** *
34017546 GCGGCGCTTTCCTAAAAACGCCGCTAAATACCTGAAAGCTCAGAAAACGGCGTCGTTGGGATTAG
1 GCGGCGCTTTCCAAAAAATGCCGCTAAATACCCAAAAGCTCAGAAAACGACGTCGTTGGGATTAG
* *
34017611 GCTTTTTTGCGGCG-TTTTCCCAAAAACGCCGGTAATA-CCCTGAGCATTAGCGACGTTTTCTTA
66 GCTTTTTTGCGGCGCTTTT-CCAAAAACGCCGCTAA-AGCCCTAAGCATTAGCGACGTTTTCTTA
* * * * * *
34017674 AAAACACCGTTAAATCCTCAAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTT
129 AAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGGGCTTA-GTTTTTTT
* * * * *
34017733 GCGGCACTTTCCCAAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAG
1 GCGGCGCTTTCCAAAAAATGCCGCTAAATACCCAAAAGCTCAGAAAACGACGTCGTTGGGATTAG
* * * * * *
34017798 GTTTTTTTGCGGCGCTTTTTCAATAACGCTGCTAAAGCCCTAAGCATTAGCGGCGTTTTCTTGAA
66 GCTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGTTTTCTTAAA
* * * *
34017863 AGCGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCATCGTTGGGCTTATTTTTTTT
131 AACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGGGCTTAGTTTTTTT
* *
34017919 GTGGCGCTTTCTAAAAAATGCCGCTAAA
1 GCGGCGCTTTCCAAAAAATGCCGCTAAA
34017947 GCTCTGAGCA
Statistics
Matches: 181, Mismatches: 31, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
186 32 0.18
187 145 0.80
188 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (186 bp):
GCGGCGCTTTCCAAAAAATGCCGCTAAATACCCAAAAGCTCAGAAAACGACGTCGTTGGGATTAG
GCTTTTTTGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAAGCATTAGCGACGTTTTCTTAAA
AACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCATCGTTGGGCTTAGTTTTTTT
Found at i:34017832 original size:73 final size:73
Alignment explanation
Indices: 34017673--34017833 Score: 223
Period size: 73 Copynumber: 2.2 Consensus size: 73
34017663 ACGTTTTCTT
* * * * *
34017673 AAAAACACCGTTAAATCCTCAAAAGCTTAGAAAATGGCGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
34017738 ACTTTCCC
66 ACTTTCCC
*
34017746 AAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
* **
34017811 GCTTTTTC
66 ACTTTCCC
* *
34017819 AATAACGCTGCTAAA
1 AAAAACGCCGCTAAA
34017834 GCCCTAAGCA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (73 bp):
AAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
ACTTTCCC
Found at i:34018006 original size:113 final size:113
Alignment explanation
Indices: 34017746--34018059 Score: 376
Period size: 114 Copynumber: 2.8 Consensus size: 113
34017736 GCACTTTCCC
* * *
34017746 AAAAATGCCGCTAAATCCCCAAAAGCTCAGAAAATGACGTCGTTGGGCTTAGGTTTTTTTGCGGC
1 AAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTA-GTTTTTTTGCGGC
* * * * * *
34017811 GCTTTTTCAATAACGCTGCTAAAGCCCTAAGCATTAGCGGCGTTTTCTT
65 GCTTTCTAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTT
* ** * * * *
34017860 GAAAGCGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCATCGTTGGGCTTATTTTTTTTGTGGCG
1 AAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGTTTTTTTGCGGCG
* * *
34017925 CTTTCTAAAAAATGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTCCTT
66 CTTTCTAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTT
* * * *
34017973 AAAAAATGTCGTTAAATCCCCGAGAGCTCAAAAAATGGCGTCGTTGGGCTTAGGTTTTTTGCGGC
1 -AAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGTTTTTTTGCGGC
* **
34018038 GCTTCCTGGAAAACGCCGCTAA
65 GCTTTCTAAAAAACGCCGCTAA
34018060 TGATCAATCT
Statistics
Matches: 165, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
113 51 0.31
114 114 0.69
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (113 bp):
AAAAATGCCGCTAAATCCCCGAAAGCTCAAAAAATGGCGTCGTTGGGCTTAGTTTTTTTGCGGCG
CTTTCTAAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCTTCCTT
Found at i:34018523 original size:43 final size:43
Alignment explanation
Indices: 34018358--34018530 Score: 169
Period size: 43 Copynumber: 4.0 Consensus size: 43
34018348 ACAAAGGATT
*
34018358 TCGATATGTGATCT-CGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATTTGAT-TACGTGTAAGACCACGTCTGGGACAG-TGGCA
* *
34018401 TCGAT-TTGAGATTTACGTGTAAGACCATC-TCTGGGACATTGGCA
1 TCGATATT-TGA-TTACGTGTAAGACCA-CGTCTGGGACAGTGGCA
* * * *
34018445 TCG-TATATGATTTCGTTTAAGACC-CTGTCTTGGACAGTGGCA
1 TCGATATTTGATTACGTGTAAGACCAC-GTCTGGGACAGTGGCA
* *
34018487 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCA
34018530 T
1 T
34018531 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
42 29 0.28
43 43 0.41
44 31 0.30
45 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTACGTGTAAGACCACGTCTGGGACAGTGGCA
Found at i:34031927 original size:21 final size:25
Alignment explanation
Indices: 34031903--34031961 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 25
34031893 TGCAATGTAT
34031903 TTATTTATTTTAAA-C-TT-TA-TA
1 TTATTTATTTTAAATCATTCTATTA
34031924 TTATTTATTTTAAATCATTCTATTA
1 TTATTTATTTTAAATCATTCTATTA
*
34031949 TTACTTATTTTAA
1 TTATTTATTTTAA
34031962 GTTTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 14 0.42
22 1 0.03
23 2 0.06
24 2 0.06
25 14 0.42
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTATTTTAAATCATTCTATTA
Found at i:34034394 original size:43 final size:43
Alignment explanation
Indices: 34034331--34034441 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
34034321 TCTGGGACAT
* *
34034331 TGGCATCG-TATATAATTACGTGCAAAACCCTGACTAGGATAG
1 TGGCATCGTTATTTAATTACGTGCAAAACCCTGACTAGGATAA
* ** * * *
34034373 TGGCATTGTTATTTAATTACGTATAAGACCCTGTCTGGGATAA
1 TGGCATCGTTATTTAATTACGTGCAAAACCCTGACTAGGATAA
* *
34034416 TGGCATCGTTATTTGATTACATGCAA
1 TGGCATCGTTATTTAATTACGTGCAA
34034442 GGCCACGTCT
Statistics
Matches: 55, Mismatches: 13, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 7 0.13
43 48 0.87
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (43 bp):
TGGCATCGTTATTTAATTACGTGCAAAACCCTGACTAGGATAA
Found at i:34041063 original size:26 final size:26
Alignment explanation
Indices: 34041032--34041085 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
34041022 AACTTTCGAC
34041032 ACTTGGTAAGTGTATTCAAATTTAGT
1 ACTTGGTAAGTGTATTCAAATTTAGT
34041058 ACTTGGTAAGTGTATTCAAATTTAGT
1 ACTTGGTAAGTGTATTCAAATTTAGT
34041084 AC
1 AC
34041086 GTTTCTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (26 bp):
ACTTGGTAAGTGTATTCAAATTTAGT
Found at i:34045330 original size:46 final size:46
Alignment explanation
Indices: 34045263--34045493 Score: 399
Period size: 46 Copynumber: 5.0 Consensus size: 46
34045253 ACATTGCTAT
* *
34045263 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
34045309 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
34045355 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
*
34045401 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
34045447 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
34045493 A
1 A
34045494 CTTTGCCATG
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 178 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:34053086 original size:33 final size:33
Alignment explanation
Indices: 34053004--34053095 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 33
34052994 TGGTCCAACA
* * * * *
34053004 ATGGTCTTACGTTCAAAGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATTCCATAACCCAGCT
* * *
34053037 ATGGTCTTTTCA-TTAAAATTCCATAGCCTAGCT
1 ATGGTC-TTACATTTAAAATTCCATAACCCAGCT
34053070 ATGGTCTTACATTTAAACATTTCCAT
1 ATGGTCTTACATTTAAA-A-TTCCAT
34053096 GGTCCAACCA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
32 4 0.09
33 32 0.70
34 4 0.09
35 6 0.13
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATTCCATAACCCAGCT
Found at i:34062544 original size:24 final size:24
Alignment explanation
Indices: 34062482--34062545 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
34062472 TTTGAAATCT
* *
34062482 AAAAAATATATAAACTAAATTTTTA
1 AAAAAATA-ATAAATTAAATTATTA
*
34062507 AAAATAA-AAAAAATTAAA-TATTA
1 AAAA-AATAATAAATTAAATTATTA
34062530 AAAAAATACATAAATT
1 AAAAAATA-ATAAATT
34062546 TTGAGCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
22 2 0.06
23 9 0.28
24 14 0.44
25 5 0.16
26 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAAAATAATAAATTAAATTATTA
Found at i:34063501 original size:22 final size:22
Alignment explanation
Indices: 34063438--34063487 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
34063428 CTAAAATTTG
* *
34063438 AAATTTGAAAAGTGTAAAGACT
1 AAATTTTAAAAGTATAAAGACT
34063460 AAATTTTAAAAGTATAAAGACT
1 AAATTTTAAAAGTATAAAGACT
34063482 AAATTT
1 AAATTT
34063488 CAAATATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (22 bp):
AAATTTTAAAAGTATAAAGACT
Found at i:34068390 original size:32 final size:31
Alignment explanation
Indices: 34068308--34068415 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 31
34068298 TTTATTTTTG
* * *
34068308 GGTCC-AATTAAGTACTTGAACTCGACTTTCTT
1 GGTCCAAATT-AGTGCTTGAACT-TAGTTTCTT
* * *
34068340 GGT-CTAATTAAGTACTTGAACTTGGTTTCTT
1 GGTCCAAATT-AGTGCTTGAACTTAGTTTCTT
* *
34068371 GGTTCAAATCTAGTGCTTGAACTTAGTTTTTT
1 GGTCCAAAT-TAGTGCTTGAACTTAGTTTCTT
34068403 GGTCCAAATTAGT
1 GGTCCAAATTAGT
34068416 ACTTAGTTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
31 14 0.22
32 50 0.77
33 1 0.02
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.42
Consensus pattern (31 bp):
GGTCCAAATTAGTGCTTGAACTTAGTTTCTT
Found at i:34071676 original size:22 final size:21
Alignment explanation
Indices: 34071641--34071682 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
34071631 ATATTTAAAA
*
34071641 AAATAAAATTAATTATAAGTT
1 AAATAAAATAAATTATAAGTT
*
34071662 AAATAAAAATAAATTTTAAGT
1 AAAT-AAAATAAATTATAAGT
34071683 ATGTTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATAAAATAAATTATAAGTT
Found at i:34079410 original size:3 final size:3
Alignment explanation
Indices: 34079404--34079430 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34079394 ATATTGAACT
34079404 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
34079431 ATGATATTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34081762 original size:16 final size:16
Alignment explanation
Indices: 34081737--34081778 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
34081727 TATATAATAT
*
34081737 AATAAT-AAACTAATG
1 AATAATAAAACAAATG
*
34081752 TATAATAAAACAAATG
1 AATAATAAAACAAATG
34081768 AATAAGTAAAA
1 AATAA-TAAAA
34081779 GAAAAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (16 bp):
AATAATAAAACAAATG
Found at i:34081814 original size:11 final size:10
Alignment explanation
Indices: 34081776--34081827 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
34081766 TGAATAAGTA
*
34081776 AAAGAAAAAG
1 AAAGAAACAG
*
34081786 AAAGAAACAA
1 AAAGAAACAG
34081796 AAACGAAACAG
1 AAA-GAAACAG
*
34081807 AAAGGAA-AG
1 AAAGAAACAG
34081816 AAAGAAA-AG
1 AAAGAAACAG
34081825 AAA
1 AAA
34081828 AAGGGAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 13 0.36
10 14 0.39
11 9 0.25
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAGAAACAG
Found at i:34081819 original size:9 final size:9
Alignment explanation
Indices: 34081776--34081847 Score: 58
Period size: 9 Copynumber: 7.8 Consensus size: 9
34081766 TGAATAAGTA
34081776 AAAGAAAAAG
1 AAAG-AAAAG
*
34081786 AAAGAAACAA
1 AAAGAAA-AG
34081796 AAACGAAACAG
1 AAA-GAAA-AG
*
34081807 AAAGGAAAG
1 AAAGAAAAG
34081816 AAAGAAAAG
1 AAAGAAAAG
**
34081825 AAA-AAGGG
1 AAAGAAAAG
34081833 AAAGAAAAG
1 AAAGAAAAG
34081842 -AAGAAA
1 AAAGAAA
34081848 GAAGGAGACG
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 12 0.24
9 19 0.37
10 11 0.22
11 9 0.18
ACGTcount: A:0.74, C:0.04, G:0.22, T:0.00
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:34081835 original size:21 final size:21
Alignment explanation
Indices: 34081805--34081852 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
34081795 AAAACGAAAC
*
34081805 AGAAAGGAAAGAAAGAAAAGAA
1 AGAAGGGAAAGAAA-AAAAGAA
*
34081827 A-AAGGGAAAGAAAAGAAGAA
1 AGAAGGGAAAGAAAAAAAGAA
34081847 AGAAGG
1 AGAAGG
34081853 AGACGAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (21 bp):
AGAAGGGAAAGAAAAAAAGAA
Found at i:34081837 original size:17 final size:18
Alignment explanation
Indices: 34081815--34081848 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
34081805 AGAAAGGAAA
34081815 GAAAGAAAAGAA-AAAGG
1 GAAAGAAAAGAAGAAAGG
34081832 GAAAGAAAAGAAGAAAG
1 GAAAGAAAAGAAGAAAG
34081849 AAGGAGACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (18 bp):
GAAAGAAAAGAAGAAAGG
Found at i:34081839 original size:30 final size:31
Alignment explanation
Indices: 34081782--34081850 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
34081772 AGTAAAAGAA
*
34081782 AAAGAAAG-AAACAAAAACGAAACAGAAAGG
1 AAAGAAAGAAAACAAAAACGAAACAGAAAAG
* * *
34081812 AAAGAAAGAAAAGAAAAAGGGAA-AGAAAAG
1 AAAGAAAGAAAACAAAAACGAAACAGAAAAG
34081842 -AAGAAAGAA
1 AAAGAAAGAA
34081851 GGAGACGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.26
30 14 0.41
31 11 0.32
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.00
Consensus pattern (31 bp):
AAAGAAAGAAAACAAAAACGAAACAGAAAAG
Found at i:34084669 original size:4 final size:4
Alignment explanation
Indices: 34084660--34084687 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34084650 TTTTATTCAT
34084660 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
34084688 CATTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:34095647 original size:40 final size:38
Alignment explanation
Indices: 34095590--34095706 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 38
34095580 AAAGATGACC
*
34095590 AAGGTGAAAACCGGCAAAGGGCATTTTGAGTGCTAAAAAA
1 AAGGTGAAAACCCGCAAAGGGCA-TTTGAGT-CTAAAAAA
34095630 AAGGTGAAAACCCGCAAATGGTGC-TTTGAGTCCT-AAAAA
1 AAGGTGAAAACCCGCAAA-GG-GCATTTGAGT-CTAAAAAA
** * *
34095669 AA-GTGAAAACCCATAACGGGCACTTTGAGTCCAAAAAA
1 AAGGTGAAAACCCGCAAAGGGCA-TTTGAGTCTAAAAAA
34095707 TAAAAAATGA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
36 2 0.03
37 3 0.05
38 24 0.36
39 7 0.11
40 26 0.39
41 2 0.03
42 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (38 bp):
AAGGTGAAAACCCGCAAAGGGCATTTGAGTCTAAAAAA
Found at i:34095677 original size:38 final size:39
Alignment explanation
Indices: 34095590--34095706 Score: 125
Period size: 38 Copynumber: 3.0 Consensus size: 39
34095580 AAAGATGACC
* *
34095590 AAGGTGAAAACCGGCAAAGGGCATTTTGAGTGCTAAAAAA
1 AAGGTGAAAACCCGCAAAGGGCA-TTTGAGTCCTAAAAAA
34095630 AAGGTGAAAACCCGCAAATGGTGC-TTTGAGTCCT-AAAAA
1 AAGGTGAAAACCCGCAAA-GG-GCATTTGAGTCCTAAAAAA
** *
34095669 AA-GTGAAAACCCATAACGGGCACTTTGAGTCC-AAAAAA
1 AAGGTGAAAACCCGCAAAGGGCA-TTTGAGTCCTAAAAAA
34095707 TAAAAAATGA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
36 2 0.03
37 2 0.03
38 26 0.39
39 7 0.10
40 26 0.39
41 2 0.03
42 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (39 bp):
AAGGTGAAAACCCGCAAAGGGCATTTGAGTCCTAAAAAA
Found at i:34096672 original size:24 final size:24
Alignment explanation
Indices: 34096637--34096695 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 24
34096627 ATGTCCCAAA
*
34096637 ATTACAAGTGGATTGAACCTTGAAG
1 ATTAC-AGTGGATTGAACCCTGAAG
34096662 ATTACAGTGGATTGAACCCTGAAG
1 ATTACAGTGGATTGAACCCTGAAG
34096686 ATTACAGTGG
1 ATTACAGTGG
34096696 GGGCAATCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCCTGAAG
Found at i:34097250 original size:88 final size:88
Alignment explanation
Indices: 34096974--34097257 Score: 415
Period size: 88 Copynumber: 3.2 Consensus size: 88
34096964 AGATATAAGC
* * ** *
34096974 CACCAACCTTATCTCCTTGAGCAGCAAAGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCATGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
34097039 CTGGCAGTGAAGTAGATCAAAAG
66 CTGGCAGTGAAGTAGATCAAAAG
* * * *
34097062 CACCAGCCTTATCTCCTTGAGCAGCAGTCGAGTAGGTTGAAGAGTGCAGATCTTGTCTTCCTATA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
*
34097127 CTGGCAGTGAAGTAGATCGAAAG
66 CTGGCAGTGAAGTAGATCAAAAG
* * * *
34097150 CTCAAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTA
1 CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
*
34097215 CTGGCAGTGAAGTAGATCAAAAA
66 CTGGCAGTGAAGTAGATCAAAAG
**
34097238 CACCAGTTTTATCTCCCTGA
1 CACCAGCCTTATCTCCCTGA
34097258 AGTTGCAGTG
Statistics
Matches: 174, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 174 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (88 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAGTGTAGATCTTGTCTTCCTGTA
CTGGCAGTGAAGTAGATCAAAAG
Found at i:34097361 original size:43 final size:43
Alignment explanation
Indices: 34097247--34097362 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
34097237 ACACCAGTTT
* *
34097247 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAACAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAACAAATCC
* * * **
34097290 TATCTCCCTGAAGTTGGAGTGGGGCAGATTGAAGCTATTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-AACAAATCC
* *
34097334 TATCT-CCTGGAGTTGCAATGGAGCAGATT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT
34097363 AAAACGATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 51 0.84
44 10 0.16
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAACAAATCC
Found at i:34100606 original size:37 final size:38
Alignment explanation
Indices: 34100537--34100609 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
34100527 ACGTGTGGAA
* **
34100537 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
34100575 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
34100610 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:34103037 original size:51 final size:50
Alignment explanation
Indices: 34102905--34103059 Score: 135
Period size: 49 Copynumber: 3.1 Consensus size: 50
34102895 CATACATACT
* *
34102905 CATAT-TTTTTTTTATATTTTATAAATTATATACATAT-CTATATA-TATATA
1 CATATATTTTTTTTATATTTTAT-AATTATATATATATAC-ACATACT-TATA
* * * *
34102955 CATATATTTTTTTTCT-TCTCACGAA-TATATATATATACACATACTTATA
1 CATATATTTTTTTTATATTTTA-TAATTATATATATATACACATACTTATA
* * *
34103004 CATATATTTTTTTTATATTTTATAATTTTTATATACATATACATAC--ATA
1 CATATATTTTTTTTATATTTTATAA-TTATATATATATACACATACTTATA
34103053 CATATAT
1 CATATAT
34103060 ATCTTTATTT
Statistics
Matches: 85, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
49 45 0.53
50 15 0.18
51 25 0.29
ACGTcount: A:0.37, C:0.10, G:0.01, T:0.52
Consensus pattern (50 bp):
CATATATTTTTTTTATATTTTATAATTATATATATATACACATACTTATA
Found at i:34103075 original size:47 final size:50
Alignment explanation
Indices: 34102982--34103079 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 50
34102972 CTCACGAATA
* * * *
34102982 TATATATATACACATACTTATACATATATTTTTTTTATATTTTATAATTTT
1 TATATACATACACATAC-TATACATATATTATCTTTATATTCTATAATTTT
*
34103033 TATATACATATACATAC-ATACATATA-TATCTTTAT-TTCTATAATTTT
1 TATATACATACACATACTATACATATATTATCTTTATATTCTATAATTTT
34103080 ATTTATTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 11 0.26
48 7 0.17
49 9 0.21
51 15 0.36
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (50 bp):
TATATACATACACATACTATACATATATTATCTTTATATTCTATAATTTT
Found at i:34103086 original size:4 final size:4
Alignment explanation
Indices: 34103077--34103110 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
34103067 TTTCTATAAT
34103077 TTTA TTTA TTTTA TTTA TTTTA TTTA TTTA TTTA
1 TTTA TTTA -TTTA TTTA -TTTA TTTA TTTA TTTA
34103111 CGTTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:34103086 original size:18 final size:18
Alignment explanation
Indices: 34103063--34103105 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34103053 CATATATATC
34103063 TTTATTTCTA-TAATTTTA
1 TTTATTT-TATTAATTTTA
*
34103081 TTTATTTTATTTATTTTA
1 TTTATTTTATTAATTTTA
34103099 TTTATTT
1 TTTATTT
34103106 ATTTACGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTTATTAATTTTA
Found at i:34103087 original size:9 final size:9
Alignment explanation
Indices: 34103075--34103110 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34103065 TATTTCTATA
34103075 ATTTTATTT
1 ATTTTATTT
34103084 ATTTTATTT
1 ATTTTATTT
34103093 ATTTTATTT
1 ATTTTATTT
34103102 A-TTTATTT
1 ATTTTATTT
34103110 A
1 A
34103111 CGTTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
ATTTTATTT
Found at i:34103095 original size:13 final size:14
Alignment explanation
Indices: 34103077--34103110 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
34103067 TTTCTATAAT
34103077 TTTATTTAT-TTTA
1 TTTATTTATATTTA
34103090 TTTATTT-TATTTA
1 TTTATTTATATTTA
34103103 TTTATTTA
1 TTTATTTA
34103111 CGTTTTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 18 0.95
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTATATTTA
Found at i:34105033 original size:21 final size:21
Alignment explanation
Indices: 34105007--34105060 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
34104997 TTGTTTTACC
* *
34105007 CTTATGGGTTTCCATTCAGCT
1 CTTATGGGTTTCCATTCAACA
* * *
34105028 CTTATGAGCTTCCGTTCAACA
1 CTTATGGGTTTCCATTCAACA
*
34105049 CTTACGGGTTTC
1 CTTATGGGTTTC
34105061 TGTTTAGCAC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.39
Consensus pattern (21 bp):
CTTATGGGTTTCCATTCAACA
Found at i:34105058 original size:42 final size:42
Alignment explanation
Indices: 34104970--34105060 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
34104960 TAACCCTAAT
* * ** ** * *
34104970 GGGTTTCCGTTCAGCTCTTTTGAGCTTTTGTTTTACCCTTAT
1 GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
34105012 GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
1 GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
34105054 GGGTTTC
1 GGGTTTC
34105061 TGTTTAGCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (42 bp):
GGGTTTCCATTCAGCTCTTATGAGCTTCCGTTCAACACTTAC
Found at i:34112656 original size:17 final size:18
Alignment explanation
Indices: 34112631--34112664 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34112621 AATAAGGAAA
34112631 GAAAGAAAAGAA-AAAGG
1 GAAAGAAAAGAAGAAAGG
*
34112648 GAAATAAAAGAAGAAAG
1 GAAAGAAAAGAAGAAAG
34112665 AAGGAGACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (18 bp):
GAAAGAAAAGAAGAAAGG
Found at i:34114925 original size:15 final size:15
Alignment explanation
Indices: 34114900--34114937 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
34114890 GGATTTTTAA
*
34114900 AATATATATTATTTAT
1 AATAAATATTATTT-T
34114916 AA-AAATATTATTTT
1 AATAAATATTATTTT
34114930 AATAAATA
1 AATAAATA
34114938 AATTCATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATAAATATTATTTT
Found at i:34114934 original size:17 final size:19
Alignment explanation
Indices: 34114898--34114935 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
34114888 GTGGATTTTT
*
34114898 AAAATATATATTATTTATA
1 AAAATATATATTATTAATA
34114917 AAAATAT-TATT-TTAATA
1 AAAATATATATTATTAATA
34114934 AA
1 AA
34114936 TAAATTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 4 0.22
19 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATATATTATTAATA
Found at i:34116710 original size:17 final size:17
Alignment explanation
Indices: 34116685--34116718 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34116675 CATGTGTCCA
*
34116685 ATTTCTTTTATATATTT
1 ATTTCTTTTAAATATTT
*
34116702 ATTTTTTTTAAATATTT
1 ATTTCTTTTAAATATTT
34116719 TACTATACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTCTTTTAAATATTT
Found at i:34117115 original size:17 final size:17
Alignment explanation
Indices: 34117093--34117144 Score: 95
Period size: 17 Copynumber: 3.1 Consensus size: 17
34117083 AGGGAAAATG
34117093 TCACATGAAAAGGGATT
1 TCACATGAAAAGGGATT
34117110 TCACATGAAAAGGGATT
1 TCACATGAAAAGGGATT
*
34117127 TCACATGAAAAGGAATT
1 TCACATGAAAAGGGATT
34117144 T
1 T
34117145 AAAGACAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (17 bp):
TCACATGAAAAGGGATT
Found at i:34117735 original size:41 final size:41
Alignment explanation
Indices: 34117666--34117771 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
34117656 GAATTAGTTT
*
34117666 GGGTCTTAGCCCAT-TCAGATACAGTCTCAAAAATACATTA
1 GGGTCTTGGCCCATATCAGATACAGTCTCAAAAATACATTA
* *
34117706 GGGTCTTGGCCCATATTAGATACAGTCTCAGAAATACATTA
1 GGGTCTTGGCCCATATCAGATACAGTCTCAAAAATACATTA
* *
34117747 GGGCCTTGGCCAATATCAGATACAG
1 GGGTCTTGGCCCATATCAGATACAG
34117772 AATGCAAATA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 13 0.22
41 46 0.78
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
GGGTCTTGGCCCATATCAGATACAGTCTCAAAAATACATTA
Found at i:34120328 original size:11 final size:12
Alignment explanation
Indices: 34120303--34120332 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
34120293 TGAGTATGGT
34120303 AAAATATTTTAA
1 AAAATATTTTAA
34120315 AAAATATTTTAA
1 AAAATATTTTAA
34120327 AAAATA
1 AAAATA
34120333 CTAATAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAAATATTTTAA
Found at i:34123454 original size:6 final size:6
Alignment explanation
Indices: 34123443--34123471 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
34123433 TCCTTCTTGT
34123443 TTATGC TTATGC TTATGC TTATGC TTATG
1 TTATGC TTATGC TTATGC TTATGC TTATG
34123472 TTCAATGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (6 bp):
TTATGC
Found at i:34124628 original size:58 final size:59
Alignment explanation
Indices: 34124524--34124637 Score: 169
Period size: 58 Copynumber: 1.9 Consensus size: 59
34124514 TTTGATAGTT
* * * *
34124524 GTCTTCAATTTTAGGATCGTTTTCTGTTAAAGCTTTTATAGTGGCAAGTTTCACATCTA
1 GTCTTCAATTTCAGGATCATTTTCTGTTAAAACTTTTATAGTGGCAAGTATCACATCTA
34124583 GTCTTCAATTTCAGGATCATTTT-TGTTAAAACTTTTATGAG-GGCAAGTATCACAT
1 GTCTTCAATTTCAGGATCATTTTCTGTTAAAACTTTTAT-AGTGGCAAGTATCACAT
34124638 TCTTTCAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 27 0.54
59 23 0.46
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (59 bp):
GTCTTCAATTTCAGGATCATTTTCTGTTAAAACTTTTATAGTGGCAAGTATCACATCTA
Found at i:34131897 original size:18 final size:19
Alignment explanation
Indices: 34131866--34131903 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34131856 TATACTAATA
* *
34131866 AAAAATTATATATATTGTG
1 AAAAATAATATATAGTGTG
34131885 AAAAATAAT-TATAGTGTG
1 AAAAATAATATATAGTGTG
34131903 A
1 A
34131904 TTAATTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (19 bp):
AAAAATAATATATAGTGTG
Found at i:34133276 original size:22 final size:22
Alignment explanation
Indices: 34133228--34133278 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
34133218 ATTTTTAAGT
* *
34133228 AATTTTTAAAATAATTAAAAAG
1 AATTTTAAAAATAATCAAAAAG
*
34133250 AATTTTAAAAAT-ATCAAAATG
1 AATTTTAAAAATAATCAAAAAG
34133271 ATATTTTA
1 A-ATTTTA
34133279 TCTTAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (22 bp):
AATTTTAAAAATAATCAAAAAG
Found at i:34137965 original size:34 final size:34
Alignment explanation
Indices: 34137917--34137989 Score: 137
Period size: 34 Copynumber: 2.1 Consensus size: 34
34137907 TACCTACTTT
*
34137917 TTATTATCTCCTTTATGTGGTGGAAGTTTAGGGC
1 TTATAATCTCCTTTATGTGGTGGAAGTTTAGGGC
34137951 TTATAATCTCCTTTATGTGGTGGAAGTTTAGGGC
1 TTATAATCTCCTTTATGTGGTGGAAGTTTAGGGC
34137985 TTATA
1 TTATA
34137990 TCTACTTAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.21, C:0.11, G:0.25, T:0.44
Consensus pattern (34 bp):
TTATAATCTCCTTTATGTGGTGGAAGTTTAGGGC
Found at i:34144415 original size:21 final size:22
Alignment explanation
Indices: 34144389--34144430 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
34144379 TAGCAGGTAA
34144389 GCTCTCATGC-TTGGTGAGCTC
1 GCTCTCATGCTTTGGTGAGCTC
34144410 GCTCTCATGCTTTGGTGAGCT
1 GCTCTCATGCTTTGGTGAGCT
34144431 TGCACATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.10, C:0.26, G:0.29, T:0.36
Consensus pattern (22 bp):
GCTCTCATGCTTTGGTGAGCTC
Found at i:34144485 original size:18 final size:18
Alignment explanation
Indices: 34144442--34144528 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
34144432 GCACATTTGA
*
34144442 TGAGCTCGTA-TATTTTGG
1 TGAGCTCGTAGT-TCTTGG
* *
34144460 TCAACTCGTAGTTCTTGG
1 TGAGCTCGTAGTTCTTGG
* *
34144478 TGAGCTCGCAGTTCGTAGG
1 TGAGCTCGTAGTTC-TTGG
* *
34144497 TGAGCTCGTA-TCTTTTAG
1 TGAGCTCGTAGT-TCTTGG
34144515 TGAGCTCGTAGTTC
1 TGAGCTCGTAGTTC
34144529 GCAGTTAGCA
Statistics
Matches: 53, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 38 0.72
19 15 0.28
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (18 bp):
TGAGCTCGTAGTTCTTGG
Found at i:34152389 original size:18 final size:19
Alignment explanation
Indices: 34152362--34152397 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34152352 GTTGAACCGA
*
34152362 TTTTTATAATTTTTTTTAC
1 TTTTTATAATTGTTTTTAC
34152381 TTTTT-TAATTGTTTTTA
1 TTTTTATAATTGTTTTTA
34152398 ATAGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTTATAATTGTTTTTAC
Found at i:34154479 original size:6 final size:6
Alignment explanation
Indices: 34154470--34154504 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
34154460 ACTATGATCA
34154470 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
1 CTATGG CTATGG CTATGG CTATGG CTATGG CTATG
34154505 ACCATGACCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
CTATGG
Found at i:34154547 original size:18 final size:18
Alignment explanation
Indices: 34154502--34154547 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
34154492 GGCTATGGCT
*
34154502 ATGACCATGACCGTGATC
1 ATGACCATGACCGTGACC
*
34154520 ATGGCCATGACCGTGACC
1 ATGACCATGACCGTGACC
*
34154538 ATGACTATGA
1 ATGACCATGA
34154548 TCATGGCCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (18 bp):
ATGACCATGACCGTGACC
Found at i:34160245 original size:41 final size:41
Alignment explanation
Indices: 34160195--34160305 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
34160185 CAGCTTTTTG
*
34160195 GGGCATTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
** * *
34160236 GGGCTTTAGCATCGTTTTTGAAAAAGTGACGCTAATGCTCT
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
*** *
34160277 -ATTTTTAGCGGCATTTTTGAAAAAGCGCC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCC
34160306 ACAAAAACCA
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
40 21 0.37
41 36 0.63
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCT
Found at i:34160634 original size:14 final size:14
Alignment explanation
Indices: 34160615--34160811 Score: 107
Period size: 14 Copynumber: 13.8 Consensus size: 14
34160605 ATTACTATAT
*
34160615 TTTAGGGTTTTTGG
1 TTTAGGGTTTATGG
*
34160629 TTTAGGGTATATGG
1 TTTAGGGTTTATGG
* *
34160643 TTTAGAGTTTAAGG
1 TTTAGGGTTTATGG
*
34160657 TTTAGGTGTTACCAT--
1 TTTAGG-GTT--TATGG
*
34160672 TTTAAGGTTTATGG
1 TTTAGGGTTTATGG
*
34160686 ATTATGGGTTTATGG
1 TTTA-GGGTTTATGG
* * *
34160701 GTTATGATTTATGG
1 TTTAGGGTTTATGG
* *
34160715 TTTATGGTTTAAAGG
1 TTTAGGGTTT-ATGG
* * **
34160730 -CTGGGGTTTAAAG
1 TTTAGGGTTTATGG
34160743 TTTAGAGG-TTATGTG
1 TTTAG-GGTTTATG-G
*
34160758 TTAAGGGTTTATGTG
1 TTTAGGGTTTATG-G
* *
34160773 TTTATGGTTTTAGGG
1 TTTA-GGGTTTATGG
34160788 TTTA-GGTTTATGG
1 TTTAGGGTTTATGG
34160801 TTTAGGGTTTA
1 TTTAGGGTTTA
34160812 GAGTAACTAG
Statistics
Matches: 138, Mismatches: 32, Indels: 26
0.70 0.16 0.13
Matches are distributed among these distances:
12 2 0.01
13 14 0.10
14 69 0.50
15 45 0.33
16 7 0.05
17 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:34160722 original size:7 final size:7
Alignment explanation
Indices: 34160615--34160811 Score: 71
Period size: 7 Copynumber: 27.6 Consensus size: 7
34160605 ATTACTATAT
*
34160615 TTTAGGG
1 TTTATGG
*
34160622 TTTTTGG
1 TTTATGG
*
34160629 TTTAGGG
1 TTTATGG
*
34160636 TATATGG
1 TTTATGG
34160643 TTTA-GAG
1 TTTATG-G
*
34160650 TTTAAGG
1 TTTATGG
34160657 TTTA-GG
1 TTTATGG
***
34160663 TGTTACCAT
1 T-TTA-TGG
*
34160672 TTTAAGG
1 TTTATGG
34160679 TTTATGG
1 TTTATGG
*
34160686 ATTATGGG
1 TTTAT-GG
34160694 TTTATGG
1 TTTATGG
* *
34160701 GTTATGA
1 TTTATGG
34160708 TTTATGG
1 TTTATGG
34160715 TTTATGG
1 TTTATGG
*
34160722 TTTAAAGG
1 TTT-ATGG
* **
34160730 -CTGGGG
1 TTTATGG
**
34160736 TTTAAAG
1 TTTATGG
34160743 TTTA-GAG
1 TTTATG-G
*
34160750 GTTATGTG
1 TTTATG-G
* *
34160758 TTAAGGG
1 TTTATGG
34160765 TTTATGTG
1 TTTATG-G
34160773 TTTATGG
1 TTTATGG
*
34160780 TTTTAGGG
1 -TTTATGG
34160788 TTTA-GG
1 TTTATGG
34160794 TTTATGG
1 TTTATGG
*
34160801 TTTAGGG
1 TTTATGG
34160808 TTTA
1 TTTA
34160812 GAGTAACTAG
Statistics
Matches: 140, Mismatches: 37, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
6 12 0.09
7 96 0.69
8 31 0.22
9 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (7 bp):
TTTATGG
Found at i:34160781 original size:15 final size:15
Alignment explanation
Indices: 34160742--34160811 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 15
34160732 GGGGTTTAAA
34160742 GTTTAGAGG-TTATGT
1 GTTTAG-GGTTTATGT
*
34160757 GTTAAGGGTTTATGT
1 GTTTAGGGTTTATGT
* *
34160772 GTTTATGGTTT-TAGG
1 GTTTAGGGTTTAT-GT
34160787 GTTTA-GGTTTATG-
1 GTTTAGGGTTTATGT
34160800 GTTTAGGGTTTA
1 GTTTAGGGTTTA
34160812 GAGTAACTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
13 5 0.11
14 15 0.32
15 27 0.57
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
GTTTAGGGTTTATGT
Found at i:34160798 original size:21 final size:21
Alignment explanation
Indices: 34160742--34160812 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 21
34160732 GGGGTTTAAA
* * *
34160742 GTTTAGAGGTTATGTGTTAAGG
1 GTTTAGTGTTTATG-GTTTAGG
34160764 GTTTATGTGTTTATGGTTTTAGG
1 GTTTA-GTGTTTATGG-TTTAGG
34160787 GTTTAG-GTTTATGGTTTAGG
1 GTTTAGTGTTTATGGTTTAGG
34160807 GTTTAG
1 GTTTAG
34160813 AGTAACTAGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.27
21 8 0.18
22 7 0.16
23 17 0.39
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.49
Consensus pattern (21 bp):
GTTTAGTGTTTATGGTTTAGG
Found at i:34160874 original size:7 final size:7
Alignment explanation
Indices: 34160862--34160915 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
34160852 TATCATTATA
34160862 GTTTAGG
1 GTTTAGG
34160869 GTTTAGG
1 GTTTAGG
*
34160876 GTTTATG
1 GTTTAGG
34160883 GTTTAGG
1 GTTTAGG
* * *
34160890 ATATATG
1 GTTTAGG
34160897 GTTTAGG
1 GTTTAGG
*
34160904 GTTTAAG
1 GTTTAGG
34160911 GTTTA
1 GTTTA
34160916 AGAGTTATTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.46
Consensus pattern (7 bp):
GTTTAGG
Found at i:34160885 original size:14 final size:14
Alignment explanation
Indices: 34160862--34160964 Score: 73
Period size: 14 Copynumber: 7.2 Consensus size: 14
34160852 TATCATTATA
*
34160862 GTTTAGGGTTTAGG
1 GTTTATGGTTTAGG
34160876 GTTTATGGTTTAGG
1 GTTTATGGTTTAGG
* *
34160890 ATATATGGTTTAGG
1 GTTTATGGTTTAGG
* *
34160904 GTTTAAGGTTTAAGA
1 GTTTATGGTTT-AGG
** *
34160919 G-TTATTATCTTAAG
1 GTTTATGGT-TTAGG
*
34160933 GTTTATGGATTATGG
1 GTTTATGGTTTA-GG
* *
34160948 GTTTAGGGGTTAGG
1 GTTTATGGTTTAGG
34160962 GTT
1 GTT
34160965 AAGGATTTAG
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 47 0.70
15 20 0.30
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.45
Consensus pattern (14 bp):
GTTTATGGTTTAGG
Found at i:34160886 original size:21 final size:21
Alignment explanation
Indices: 34160857--34160995 Score: 66
Period size: 21 Copynumber: 6.5 Consensus size: 21
34160847 TTAATTATCA
*
34160857 TTATAGTTTAGGGTTTAGGGT
1 TTATGGTTTAGGGTTTAGGGT
* * *
34160878 TTATGGTTTAGGATATATGGT
1 TTATGGTTTAGGGTTTAGGGT
* * *
34160899 TTAGGGTTTAAGGTTTAAGAG-
1 TTATGGTTTAGGGTTT-AGGGT
** * * *
34160920 TTATTATCTTAAGGTTTATGGA
1 TTATGGT-TTAGGGTTTAGGGT
*
34160942 TTATGGGTTTAGGGGTTAGGG-
1 TTAT-GGTTTAGGGTTTAGGGT
* * *
34160963 TTAAGGATTTAGGGGTTAAGGAT
1 TTATGG-TTTA-GGGTTTAGGGT
*
34160986 TTATAGTTTA
1 TTATGGTTTA
34160996 TGTTTCATGA
Statistics
Matches: 85, Mismatches: 26, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
20 2 0.02
21 42 0.49
22 36 0.42
23 5 0.06
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (21 bp):
TTATGGTTTAGGGTTTAGGGT
Found at i:34160980 original size:15 final size:15
Alignment explanation
Indices: 34160960--34160988 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34160950 TTAGGGGTTA
34160960 GGGTTAAGGATTTAG
1 GGGTTAAGGATTTAG
34160975 GGGTTAAGGATTTA
1 GGGTTAAGGATTTA
34160989 TAGTTTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (15 bp):
GGGTTAAGGATTTAG
Found at i:34163458 original size:87 final size:86
Alignment explanation
Indices: 34163162--34163441 Score: 443
Period size: 86 Copynumber: 3.2 Consensus size: 86
34163152 TCTTTCTACT
* * * ** *
34163162 TTATAAAAGTTGAAAATTTGGTCTGGTTGTTGGTGAATGCATGAACTTGAACTGTTGATTTTTCC
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGC
*
34163227 TAATTTGTTGCACATAAGTTG
66 TAATTTGTTGCATATAAGTTG
*
34163248 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTTATTTTTGC
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGC
34163313 TAATTTGTTGCATATAAGTTG
66 TAATTTGTTGCATATAAGTTG
34163334 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTTG
1 TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGA-TTTTTG
* *
34163399 CTAATTTGTTGCATATAAATCG
65 CTAATTTGTTGCATATAAGTTG
* *
34163421 TTATAGAAATTGAAGATTTAG
1 TTATAAAAATTGAAAATTTAG
34163442 CCCTATTGCC
Statistics
Matches: 180, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
86 135 0.75
87 45 0.25
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (86 bp):
TTATAAAAATTGAAAATTTAGTCTGGTTGTTGGTAAATGCATGAACTTGAACCATTGATTTTTGC
TAATTTGTTGCATATAAGTTG
Found at i:34163551 original size:40 final size:40
Alignment explanation
Indices: 34163507--34163591 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
34163497 TGTTGTAAGA
* * *
34163507 TTGATTTGTGTTAATTTCTTGCATA-TAAATTATTGAAATG
1 TTGATTTGTGATAATTCCTTACATATTAAA-TATTGAAATG
* * *
34163547 TTGATTTTTGATAATTCCTTACATATTACATATTGAAGTG
1 TTGATTTGTGATAATTCCTTACATATTAAATATTGAAATG
34163587 TTGAT
1 TTGAT
34163592 ATTCAAGCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.49
Consensus pattern (40 bp):
TTGATTTGTGATAATTCCTTACATATTAAATATTGAAATG
Found at i:34164813 original size:43 final size:43
Alignment explanation
Indices: 34164766--34164993 Score: 271
Period size: 43 Copynumber: 5.3 Consensus size: 43
34164756 GAATCGTACT
* * *
34164766 TTTAGTGGCGTTTGT-GATAAAAGCGCAGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCGCCGCTAAAGATCATGTTC
* *
34164809 TTTAGCGGCGTTTTTGGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* * *
34164852 TTTAGCGGCGTTTGTGGGTAAAGCGCCGTTAAAGGTCGTGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* ** *
34164895 TTTAGCGGCATTTGTGGGTAAAGCATCGCTAAAGCTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
* *** *
34164938 TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAA-AGTCATGATC
1 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGA-TCATGTTC
34164981 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
34164994 ATGTCTAAAA
Statistics
Matches: 159, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
43 157 0.99
44 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
Done.