Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold172
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: 1975206
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.26
Warning! 344189 characters in sequence are not A, C, G, or T
File 1 of 11
Found at i:790 original size:10 final size:10
Alignment explanation
Indices: 775--819 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
765 AAGAAACACA
775 AAAAAAAATG
1 AAAAAAAATG
785 AAAAAAAATG
1 AAAAAAAATG
795 ---AAAAATG
1 AAAAAAAATG
802 AGAAAAAAA-G
1 A-AAAAAAATG
812 AAAAAAAA
1 AAAAAAAA
820 GCATGAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
7 7 0.23
9 7 0.23
10 12 0.39
11 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:798 original size:17 final size:17
Alignment explanation
Indices: 774--816 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
764 TAAGAAACAC
774 AAAA-AAAAATGA-AAA
1 AAAAGAAAAATGAGAAA
789 AAAATGAAAAATGAGAAA
1 AAAA-GAAAAATGAGAAA
807 AAAAGAAAAA
1 AAAAGAAAAA
817 AAAGCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
17 14 0.56
18 7 0.28
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAATGAGAAA
Found at i:2163 original size:32 final size:34
Alignment explanation
Indices: 2122--2185 Score: 89
Period size: 33 Copynumber: 1.9 Consensus size: 34
2112 TTCATGTGCA
*
2122 TTTGCCATTTTAC-TGATACTT-GCATTTGCATCG
1 TTTGCCATTTTACATGACA-TTGGCATTTGCATCG
2155 TTTG-CATTTTACATGACATTGGCATTTGCAT
1 TTTGCCATTTTACATGACATTGGCATTTGCAT
2186 TATTCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (34 bp):
TTTGCCATTTTACATGACATTGGCATTTGCATCG
Found at i:2813 original size:89 final size:89
Alignment explanation
Indices: 2584--3244 Score: 654
Period size: 89 Copynumber: 7.4 Consensus size: 89
2574 CTAATCATAT
* * * * *
2584 ACCACTAG-TGGTATTGATGCATCACCAAGCCTGATTTCCTTAGGGCAAGGTGTAGCCTACACAT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
*
2648 TCTTAATCATATCCCT-TTTATCCAA
66 TCCTAATCATATCCCTCTTTAT-C-A
* * * * ** *
2673 ACCACTATATGGTATTGACGCACCACCAAGCCTAATTTCCTTAAGGAAAGGTGCAGCCCATACAC
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
*
2738 TCCTAATCATATCCCTCTTTCTCA
66 TCCTAATCATATCCCTCTTTATCA
* * * * *
2762 ACCACTAGATGGTACTGATGCATCACCCAGCCTGATTTCCTTGGGGCAAGGTGCAACTCATACGC
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
* * * *
2827 TCCCAATCATATCTCTATTTTTCA
66 TCCTAATCATATCCCTCTTTATCA
* * *
2851 ACCACTAGATGG-ATTGATGCATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCATACAT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
* *
2915 TCCCAATCATATCCCTCTTTTCTCA
66 TCCTAATCATATCCCTC-TTTATCA
* ** * *
2940 ACCACTAAATGGTATTGATATATCACCAAGCCTGATTTCCTTAGGGCAAGGTGTAG-CC-TACAC
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
**
3003 ATTTTAATCATATCCC-CTTTATCCAA
66 -TCCTAATCATATCCCTCTTTAT-C-A
* * * * * * *
3029 ACCACTAGATAGCATTGATTCATCACCAAGCTTGATTTCCTTGGGACAAGGTGCAGCCTACACAC
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
* *
3094 TCCCAATCATATCCCTCTTTCTCA
66 TCCTAATCATATCCCTCTTTATCA
** * *** * ** * *
3118 ACCACTAGATGGTATTGATATATCA-TAAAAATAATTTCCTTGGGGCAAAATGCAGCCCACACAT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
* * *
3182 TCCCTAATCGTATCTCCTGTATAT-A
66 T-CCTAATCATATC-CCTCTTTATCA
**
3207 ACCACTAGATGGTATTGATGCATCATAAAGCCTGATTT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTT
3245 TCCTAGGGAA
Statistics
Matches: 467, Mismatches: 92, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
87 4 0.01
88 95 0.20
89 228 0.49
90 127 0.27
91 13 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (89 bp):
ACCACTAGATGGTATTGATGCATCACCAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCATACAC
TCCTAATCATATCCCTCTTTATCA
Found at i:3067 original size:267 final size:267
Alignment explanation
Indices: 2584--3257 Score: 749
Period size: 267 Copynumber: 2.5 Consensus size: 267
2574 CTAATCATAT
* * *
2584 ACCACTAG-TGGTATTGATGCATCACCAAGCCTGATTTCCTT-AGGGCAAGGTGTAGCCTACACA
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTAATTTCCTTGA-GGCAAGGTGCAGCCCACACA
** * * * *
2647 TTCTTAATCATATCCCTTTTATC-CAAACCACTATATGGTATTGACGCACCACCAAGCCTAATTT
65 TTCCCAATCATATCCCTTTT-TCTC-AACCACTAAATGGTATTGATGCATCACCAAGCCTGATTT
* * * *
2711 CCTTAAGGAAAGGTGCAGCCCATACACTCCTAATCATATCCCTCTTTCTCAACCACTAGATGGTA
128 CCTTAGGGAAAGGTGCAGCCCATACACTCCTAATCATATCCCTCTTTATCAACCACTAGATAGCA
* * * *
2776 CTGATGCATCACCCAGCCTGATTTCCTTGGGGCAAGGTGCAA-CTCATACGCTCCCAATCATATC
193 CTGATGCATCACCAAGCCTGATTTCCTTGGGACAAGGTGCAACCT-ACACACTCCCAATCATATC
* *
2840 TCTATTTTTCA
257 CCTATTTCTCA
*
2851 ACCACTAGATGG-ATTGATGCATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCATACAT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCACACAT
**
2915 TCCCAATCATATCCCTCTTTTCTCAACCACTAAATGGTATTGATATATCACCAAGCCTGATTTCC
66 TCCCAATCATATCCCT-TTTTCTCAACCACTAAATGGTATTGATGCATCACCAAGCCTGATTTCC
* * **
2980 TTAGGGCAAGGTGTAG-CC-TACACATTTTAATCATATCCC-CTTTATCCAAACCACTAGATAGC
130 TTAGGGAAAGGTGCAGCCCATACAC-TCCTAATCATATCCCTCTTTAT-C-AACCACTAGATAGC
* * * *
3042 ATTGATTCATCACCAAGCTTGATTTCCTTGGGACAAGGTGCAGCCTACACACTCCCAATCATATC
192 ACTGATGCATCACCAAGCCTGATTTCCTTGGGACAAGGTGCAACCTACACACTCCCAATCATATC
*
3107 CCTCTTTCTCA
257 CCTATTTCTCA
** * *** * **
3118 ACCACTAGATGGTATTGATATATCA-TAAAAATAATTTCCTTGGGGCAAAATGCAGCCCACACAT
1 ACCACTAGATGGTATTGATGCATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCACACAT
* * * * * **
3182 TCCCTAATCGTATCTCCTGTATAT-AACCACTAGATGGTATTGATGCATCATAAAGCCTGATTTT
66 TCCC-AATCATATC-CCTTTTTCTCAACCACTAAATGGTATTGATGCATCACCAAGCCTGA-TTT
3246 CC-TAGGGAAAGG
128 CCTTAGGGAAAGG
3258 ATATCTCGAC
Statistics
Matches: 344, Mismatches: 51, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
265 10 0.03
266 16 0.05
267 279 0.81
268 36 0.10
269 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (267 bp):
ACCACTAGATGGTATTGATGCATCACCAAGCCTAATTTCCTTGAGGCAAGGTGCAGCCCACACAT
TCCCAATCATATCCCTTTTTCTCAACCACTAAATGGTATTGATGCATCACCAAGCCTGATTTCCT
TAGGGAAAGGTGCAGCCCATACACTCCTAATCATATCCCTCTTTATCAACCACTAGATAGCACTG
ATGCATCACCAAGCCTGATTTCCTTGGGACAAGGTGCAACCTACACACTCCCAATCATATCCCTA
TTTCTCA
Found at i:3507 original size:36 final size:36
Alignment explanation
Indices: 3460--3970 Score: 472
Period size: 36 Copynumber: 14.4 Consensus size: 36
3450 TCTTTTATCT
* * *
3460 TTTGACTGTATCTAGTCAAACTTTTTTCCATCATCA
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
3496 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* * * **
3532 TTTGACTCTATCTGGTCAAAC-TCTCTCCACCATTA
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
** *
3567 TTTGACTACATCTAGTCAAACTTCTTTCCATCATCG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
*
3603 TTTGACTGTATCTGGTCAAAC-TCTTTCCATCATAG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* * * **
3638 TTTGACTGTATCTTGTTAAA-TTC-TCCTCATCATTA
1 TTTGACTGTATCTGGTCAAACTTCTTTC-CATCATCG
* *
3673 TTTGACTGCATCTAGTCAAACTTCTTTCCATCATCG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* *
3709 TTTGA-TCGTTTCTGGTCAAAC-TCTCTCCA-CTATCG
1 TTTGACT-GTATCTGGTCAAACTTCTTTCCATC-ATCG
** *
3744 TTTGACTACATCTGGTCAAACTTCTTTCCATTATCG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* * *
3780 TTTGACTATATCTGGTCAAAC-TCTCTCCACCATCG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* * * * *
3815 TTTGACTGCATCTAGTCAAACTT-TTCTCTACCATCA
1 TTTGACTGTATCTGGTCAAACTTCTT-TCCATCATCG
* * * *
3851 TTTGA-TAATATCTGGTCAAACTTCGTTCCACCATTG
1 TTTGACT-GTATCTGGTCAAACTTCTTTCCATCATCG
* * * *
3887 TTTGATTGTATTTGATCAAACGTT-TTT-CATCATTG
1 TTTGACTGTATCTGGTCAAAC-TTCTTTCCATCATCG
* * *
3922 TTTGATTATATCTGGTCAAAC-TCTTTCCATCATAG
1 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
* *
3957 TTTAATTGTATCTG
1 TTTGACTGTATCTG
3971 TTAGACTCCT
Statistics
Matches: 390, Mismatches: 67, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
33 1 0.00
34 6 0.02
35 187 0.48
36 190 0.49
37 6 0.02
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
Found at i:3592 original size:71 final size:72
Alignment explanation
Indices: 3460--3959 Score: 442
Period size: 71 Copynumber: 7.0 Consensus size: 72
3450 TCTTTTATCT
* * * *
3460 TTTGACTGTATCTAGTCAAACTTTTTTCCATCATCATTTGACTGTATCTGGTCAAACTTCTTTCC
1 TTTGACTCTATCTGGTCAAACTTCTTTCCATCATCATTTGACTATATCTGGTCAAACTTCTTTCC
3525 ATCATCG
66 ATCATCG
* * * * *
3532 TTTGACTCTATCTGGTCAAAC-TCTCTCCACCATTATTTGACTACATCTAGTCAAACTTCTTTCC
1 TTTGACTCTATCTGGTCAAACTTCTTTCCATCATCATTTGACTATATCTGGTCAAACTTCTTTCC
3596 ATCATCG
66 ATCATCG
* * * * *
3603 TTTGACTGTATCTGGTCAAAC-TCTTTCCATCAT-AGTTTGACTGTATCTTGTTAAA-TTC-TCC
1 TTTGACTCTATCTGGTCAAACTTCTTTCCATCATCA-TTTGACTATATCTGGTCAAACTTCTTTC
**
3664 TCATCATTA
65 -CATCATCG
* * *
3673 TTTGACTGC-ATCTAGTCAAACTTCTTTCCATCATCGTTTGATCGT-T-TCTGGTCAAAC-TCTC
1 TTTGACT-CTATCTGGTCAAACTTCTTTCCATCATCATTTGA-C-TATATCTGGTCAAACTTCTT
3734 TCCA-CTATCG
63 TCCATC-ATCG
* * *
3744 TTTGACTAC-ATCTGGTCAAACTTCTTTCCATTATCGTTTGACTATATCTGGTCAAAC-TCTCTC
1 TTTGACT-CTATCTGGTCAAACTTCTTTCCATCATCATTTGACTATATCTGGTCAAACTTCTTTC
*
3807 CACCATCG
65 CATCATCG
* * * *
3815 TTTGACTGC-ATCTAGTCAAACTT-TTCTCTACCATCATTTGA-TAATATCTGGTCAAACTTCGT
1 TTTGACT-CTATCTGGTCAAACTTCTT-TCCATCATCATTTGACT-ATATCTGGTCAAACTTCTT
* *
3877 TCCACCATTG
63 TCCATCATCG
* * * * ** *
3887 TTTGATTGTATTTGATCAAACGTT-TTT-CATCATTGTTTGATTATATCTGGTCAAAC-TCTTTC
1 TTTGACTCTATCTGGTCAAAC-TTCTTTCCATCATCATTTGACTATATCTGGTCAAACTTCTTTC
*
3949 CATCATAG
65 CATCATCG
3957 TTT
1 TTT
3960 AATTGTATCT
Statistics
Matches: 357, Mismatches: 52, Indels: 40
0.80 0.12 0.09
Matches are distributed among these distances:
69 3 0.01
70 48 0.13
71 250 0.70
72 51 0.14
73 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (72 bp):
TTTGACTCTATCTGGTCAAACTTCTTTCCATCATCATTTGACTATATCTGGTCAAACTTCTTTCC
ATCATCG
Found at i:3928 original size:35 final size:35
Alignment explanation
Indices: 3460--3970 Score: 266
Period size: 35 Copynumber: 14.4 Consensus size: 35
3450 TCTTTTATCT
* * **
3460 TTTGACTGTATCT-AGTCAAACTTTTTTCCATCATCA
1 TTTGATTGTATCTGA-TCAAAC-TCTTTCCATCATTG
* * *
3496 TTTGACTGTATCTGGTCAAACTTCTTTCCATCATCG
1 TTTGATTGTATCTGATCAAAC-TCTTTCCATCATTG
* * * * * *
3532 TTTGACTCTATCTGGTCAAACTCTCTCCACCATTA
1 TTTGATTGTATCTGATCAAACTCTTTCCATCATTG
* ** *
3567 TTTGACTACATCT-AGTCAAACTTCTTTCCATCATCG
1 TTTGATTGTATCTGA-TCAAAC-TCTTTCCATCATTG
* * *
3603 TTTGACTGTATCTGGTCAAACTCTTTCCATCATAG
1 TTTGATTGTATCTGATCAAACTCTTTCCATCATTG
* * * * *
3638 TTTGACTGTATCTTG-TTAAATTC-TCCTCATCATTA
1 TTTGATTGTATC-TGATCAAACTCTTTC-CATCATTG
* * *
3673 TTTGACTGCATCT-AGTCAAACTTCTTTCCATCATCG
1 TTTGATTGTATCTGA-TCAAAC-TCTTTCCATCATTG
* * * * *
3709 TTTGATCGTTTCTGGTCAAACTCTCTCCA-CTATCG
1 TTTGATTGTATCTGATCAAACTCTTTCCATC-ATTG
* ** * * *
3744 TTTGACTACATCTGGTCAAACTTCTTTCCATTATCG
1 TTTGATTGTATCTGATCAAAC-TCTTTCCATCATTG
* * * * * *
3780 TTTGACTATATCTGGTCAAACTCTCTCCACCATCG
1 TTTGATTGTATCTGATCAAACTCTTTCCATCATTG
* * * **
3815 TTTGACTGCATCT-AGTCAAACT-TTTCTCTACCATCA
1 TTTGATTGTATCTGA-TCAAACTCTTTC-C-ATCATTG
** * * *
3851 TTTGATAATATCTGGTCAAACTTCGTTCCACCATTG
1 TTTGATTGTATCTGATCAAAC-TCTTTCCATCATTG
* *
3887 TTTGATTGTATTTGATCAAACGT-TTTTCATCATTG
1 TTTGATTGTATCTGATCAAAC-TCTTTCCATCATTG
* * *
3922 TTTGATTATATCTGGTCAAACTCTTTCCATCATAG
1 TTTGATTGTATCTGATCAAACTCTTTCCATCATTG
*
3957 TTTAATTGTATCTG
1 TTTGATTGTATCTG
3971 TTAGACTCCT
Statistics
Matches: 379, Mismatches: 75, Indels: 43
0.76 0.15 0.09
Matches are distributed among these distances:
34 8 0.02
35 185 0.49
36 179 0.47
37 4 0.01
38 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (35 bp):
TTTGATTGTATCTGATCAAACTCTTTCCATCATTG
Found at i:3949 original size:177 final size:177
Alignment explanation
Indices: 3460--3959 Score: 607
Period size: 177 Copynumber: 2.8 Consensus size: 177
3450 TCTTTTATCT
* *
3460 TTTGACTGTATCTAGTCAAACTTTTTTCCATCATCATTTGACTGTATCTGGTCAAACTTCTTTCC
1 TTTGACTGTATCTAGTCAAACTTTTCTCTATCATCATTTGACTGTATCTGGTCAAACTTCTTTCC
* * * * *
3525 ATCATCGTTTGACTCTATCTGGTCAAACTCTCTCCACCATTATTTGACTACATCTAGTCAAACTT
66 ATCATCGTTTGATTGTATTTGGTCAAACTCTCTCCA-CATTGTTTGACTACATCTGGTCAAACTT
* * *
3590 CTTTCCATCATCGTTTGACTGTATCTGGTCAAACTCTTTCCATCATAG
130 CTTTCCATCATCGTTTGACTATATCTGGTCAAACTCTCTCCACCATAG
* * * * * *
3638 TTTGACTGTATCTTGTTAAA-TTCTC-CTCATCATTATTTGACTGCATCTAGTCAAACTTCTTTC
1 TTTGACTGTATCTAGTCAAACTTTTCTCT-ATCATCATTTGACTGTATCTGGTCAAACTTCTTTC
* *
3701 CATCATCGTTTGATCGT-TTCTGGTCAAACTCTCTCCACTATCGTTTGACTACATCTGGTCAAAC
65 CATCATCGTTTGATTGTATT-TGGTCAAACTCTCTCCAC-ATTGTTTGACTACATCTGGTCAAAC
* *
3765 TTCTTTCCATTATCGTTTGACTATATCTGGTCAAACTCTCTCCACCATCG
128 TTCTTTCCATCATCGTTTGACTATATCTGGTCAAACTCTCTCCACCATAG
* * * *
3815 TTTGACTGCATCTAGTCAAACTTTTCTCTACCATCATTTGA-TAATATCTGGTCAAACTTCGTTC
1 TTTGACTGTATCTAGTCAAACTTTTCTCTATCATCATTTGACT-GTATCTGGTCAAACTTCTTTC
* * * * * * *
3879 CACCATTGTTTGATTGTATTTGATCAAACGT-TTTTCATCATTGTTTGATTATATCTGGTCAAAC
65 CATCATCGTTTGATTGTATTTGGTCAAAC-TCTCTCCA-CATTGTTTGACTACATCTGGTCAAAC
*
3943 -TCTTTCCATCATAGTTT
128 TTCTTTCCATCATCGTTT
3960 AATTGTATCT
Statistics
Matches: 272, Mismatches: 41, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
176 3 0.01
177 166 0.61
178 97 0.36
179 6 0.02
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (177 bp):
TTTGACTGTATCTAGTCAAACTTTTCTCTATCATCATTTGACTGTATCTGGTCAAACTTCTTTCC
ATCATCGTTTGATTGTATTTGGTCAAACTCTCTCCACATTGTTTGACTACATCTGGTCAAACTTC
TTTCCATCATCGTTTGACTATATCTGGTCAAACTCTCTCCACCATAG
Found at i:4193 original size:81 final size:81
Alignment explanation
Indices: 4039--4644 Score: 460
Period size: 81 Copynumber: 7.4 Consensus size: 81
4029 CCACCCTTGC
*
4039 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTT-TCAATCTGTTGGCTTTATC-GATTAT-GCCC
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCT-AATCTGTTGGCTTTATCAG-TT-TCGCCC
* *
4101 TAGCCAGCTTTTCAATTGG
63 TGGCCAACTTTTCAATTGG
** * * * *
4120 TTGACTCCATCGGTTTTGCCCTGGTCAACACTTCTAATCTGTTGGTTTTATCAGTTTCACCCTGG
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCTGTTGGCTTTATCAGTTTCGCCCTGG
4185 CCAACTTTTCAATTGG
66 CCAACTTTTCAATTGG
* * * ** * * *
4201 TTGACTTTATCGGATTTGCCCTAGTCAACCTTTCTAACCCATTGGCTTTATCAATTTTGTCCTGG
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCTGTTGGCTTTATCAGTTTCGCCCTGG
* *
4266 CCAACCCTTTT-AAGTGT
66 CCAA--CTTTTCAATTGG
* * * * * *
4283 TTCGACTTTATCAGTTTTGCCTTGGTTAACCCTTCTAA-CTCGTTGGCTTTATCGGTTACGCCCT
1 TT-GACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCT-GTTGGCTTTATCAGTTTCGCCCT
* *
4347 GGCCAACCTTTTTAATTAG
64 GGCCAA-CTTTTCAATTGG
* * ** * * *
4366 TTAACTTTATCAGTTTTGCCCT-GATCGGCCTTTCTAATCTGTTGGTTTTATCAGTTTCGCCTTG
1 TTGACTTTATCGGTTTTGCCCTAG-TCAACCCTTCTAATCTGTTGGCTTTATCAGTTTCGCCCTG
** *
4430 GCTGACATTTCAATTGG
65 GCCAACTTTTCAATTGG
* * * * * * * * *
4447 TTGACTTTATCGATTTTGCCCTAGTTAACCCTTCTAACCCGTTGACTTTAT-TGATTTTGCCTTC
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCTGTTGGCTTTATCAG-TTTCGCCCTG
* *
4511 GCTAACCCTTTT-AATTAG
65 GCCAA--CTTTTCAATTGG
* * * * * *
4529 TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAA-CTCATTGGCTTTATCGGCTTCG-CTTG
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCT-GTTGGCTTTATCAGTTTCGCCCTG
* * *
4592 ACTAATCTTTT-AATTAG
65 GCCAA-CTTTTCAATTGG
* * * *
4609 TTGACTTTATCGGTTTGGCCTTGGTCAACCCATCTA
1 TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTA
4645 TTCGCTTGAC
Statistics
Matches: 417, Mismatches: 92, Indels: 33
0.77 0.17 0.06
Matches are distributed among these distances:
80 43 0.10
81 189 0.45
82 116 0.28
83 69 0.17
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (81 bp):
TTGACTTTATCGGTTTTGCCCTAGTCAACCCTTCTAATCTGTTGGCTTTATCAGTTTCGCCCTGG
CCAACTTTTCAATTGG
Found at i:4387 original size:41 final size:41
Alignment explanation
Indices: 4039--4580 Score: 174
Period size: 41 Copynumber: 13.3 Consensus size: 41
4029 CCACCCTTGC
* * * *
4039 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTTTCAATCT-G
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAA-CTAG
* * * * * * *
4080 TTGGCTTTATC-GATTATGCCCTAGCC-AGCTTTTCAATTGG
1 TTGACTTTATCAG-TTTTGCCCTGGCCAACCTTTTTAACTAG
** * * *
4120 TTGACTCCATCGGTTTTGCCCTGGTCAACAC-TTCTAATCT-G
1 TTGACTTTATCAGTTTTGCCCTGGCCAAC-CTTTTTAA-CTAG
** ** * * *
4161 TTGGTTTTATCAGTTTCACCCTGGCCAA-CTTTTCAATTGG
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
* * * * * *
4201 TTGACTTTATCGGATTTGCCCTAGTCAACCTTTCTAACCCA-
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAA-CTAG
* * * * *
4242 TTGGCTTTATCAATTTTGTCCTGGCCAACCCTTTTAAGT-G
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
* ** * * *
4282 TTTCGACTTTATCAGTTTTGCCTTGGTTAACCCTTCTAACTCG
1 -TT-GACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
* * ** *
4325 TTGGCTTTATCGGTTACGCCCTGGCCAACCTTTTTAATTAG
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
* ** ** *
4366 TTAACTTTATCAGTTTTGCCCTGATCGGCCTTTCTAATCT-G
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAA-CTAG
** * * ** * * * *
4407 TTGGTTTTATCAGTTTCGCCTTGGCTGA-CATTTCAATTGG
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
* ** * * **
4447 TTGACTTTATC-GATTTTGCCCTAGTTAACCCTTCTAACCCG
1 TTGACTTTATCAG-TTTTGCCCTGGCCAACCTTTTTAACTAG
* * * * * *
4488 TTGACTTTAT-TGATTTTGCCTTCGCTAACCCTTTTAATTAG
1 TTGACTTTATCAG-TTTTGCCCTGGCCAACCTTTTTAACTAG
* * * * *
4529 TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAACTCA-
1 TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACT-AG
*
4570 TTGGCTTTATC
1 TTGACTTTATC
4581 GGCTTCGCTT
Statistics
Matches: 356, Mismatches: 124, Indels: 42
0.68 0.24 0.08
Matches are distributed among these distances:
39 5 0.01
40 78 0.22
41 236 0.66
42 36 0.10
43 1 0.00
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.42
Consensus pattern (41 bp):
TTGACTTTATCAGTTTTGCCCTGGCCAACCTTTTTAACTAG
Found at i:4484 original size:246 final size:245
Alignment explanation
Indices: 4039--4624 Score: 688
Period size: 246 Copynumber: 2.4 Consensus size: 245
4029 CCACCCTTGC
* *
4039 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTT-TCAA-TCTGTTGGCTTTATCGATTATGCCCT
1 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTTCT-AACTC-GTTGGCTTTATCGGTTACGCCCT
* * * * ** *
4102 AGCC-AGCTTTTCAATTGGTTGACTCCATCGGTTTTGCCCTGGTCAACACTTCTAATCTGTTGGT
64 GGCCAACCTTTTTAATTAGTTGACTTTATCGGTTTTGCCCTGATCAACACTTCTAATCTGTTGGT
*
4166 TTTATCAGTTTCACCCTGGCCAACTTTTCAATTGGTTGACTTTATCGGATTTGCCCTAGTCAACC
129 TTTATCAGTTTCACCCTGGCCAACATTTCAATTGGTTGACTTTATCGGATTTGCCCTAGTCAACC
* * *
4231 TTTCTAACCCATTGGCTTTATCAATTTTGTCC-TGGCCAACCCTTTTAAGT-G
194 CTTCTAACCCATTGACTTTATCAATTTTG-CCTTCGCCAACCCTTTTAAGTAG
* * *
4282 TTTCGACTTTATCAGTTTTGCCTTGGTTAACCCTTCTAACTCGTTGGCTTTATCGGTTACGCCCT
1 -TT-GACTTTATCAGTTTTGCCCTAGTCAACCCTTCTAACTCGTTGGCTTTATCGGTTACGCCCT
* * **
4347 GGCCAACCTTTTTAATTAGTTAACTTTATCAGTTTTGCCCTGATCGGC-CTTTCTAATCTGTTGG
64 GGCCAACCTTTTTAATTAGTTGACTTTATCGGTTTTGCCCTGATCAACAC-TTCTAATCTGTTGG
* * ** *
4411 TTTTATCAGTTTCGCCTTGGCTGACATTTCAATTGGTTGACTTTATC-GATTTTGCCCTAGTTAA
128 TTTTATCAGTTTCACCCTGGCCAACATTTCAATTGGTTGACTTTATCGGA-TTTGCCCTAGTCAA
* ** * *
4475 CCCTTCTAACCCGTTGACTTTATTGATTTTGCCTTCGCTAACCCTTTTAATTAG
192 CCCTTCTAACCCATTGACTTTATCAATTTTGCCTTCGCCAACCCTTTTAAGTAG
* * * * *
4529 TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAACTCATTGGCTTTATCGGCTT-CG-CTTG
1 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTTCTAACTCGTTGGCTTTATCGG-TTACGCCCTG
* * *
4592 ACTAATC-TTTTAATTAGTTGACTTTATCGGTTT
65 GCCAACCTTTTTAATTAGTTGACTTTATCGGTTT
4625 GGCCTTGGTC
Statistics
Matches: 290, Mismatches: 43, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
243 24 0.08
244 9 0.03
245 106 0.37
246 150 0.52
247 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.16, T:0.42
Consensus pattern (245 bp):
TTGACTTTATCAGTTTTGCCCTAGTCAACCCTTCTAACTCGTTGGCTTTATCGGTTACGCCCTGG
CCAACCTTTTTAATTAGTTGACTTTATCGGTTTTGCCCTGATCAACACTTCTAATCTGTTGGTTT
TATCAGTTTCACCCTGGCCAACATTTCAATTGGTTGACTTTATCGGATTTGCCCTAGTCAACCCT
TCTAACCCATTGACTTTATCAATTTTGCCTTCGCCAACCCTTTTAAGTAG
Found at i:4563 original size:163 final size:165
Alignment explanation
Indices: 4039--4580 Score: 426
Period size: 163 Copynumber: 3.3 Consensus size: 165
4029 CCACCCTTGC
* * * ** * *
4039 TTGACTTTATCAGTTTTGCCCTAGTCAACCCTTTC-AATCTGTTGGCTTTATCGATTAT-GCCCT
1 TTGACTTTATCGGTATTGCCCTAGTCAA-CCTTTCTAACCCATTGGCTTTATCAATT-TCGTCCT
* * * * ** * * * * * * *
4102 AGCC-AGCTTTTCAATTGGTT-GACTCCATCGGTTTTGCCCTGGTCAACACTTCTAATCTGTTGG
64 GGCCAACCATTTCAAGTGGTTCGACTTTATCAGTTTTGCCCTAGTTAACCCTTCTAACCCGTTGA
* * * * *
4165 TTTTATC-AGTTTCACCCTGGCCAA--CTTTTCAATTGG
129 CTTTATCGA-TTACGCCCTCGCCAACCCTTTT-AATTAG
*
4201 TTGACTTTATCGG-ATTTGCCCTAGTCAACCTTTCTAACCCATTGGCTTTATCAATTTTGTCCTG
1 TTGACTTTATCGGTA-TTGCCCTAGTCAACCTTTCTAACCCATTGGCTTTATCAATTTCGTCCTG
* * * * * * *
4265 GCCAACCCTTTTAAGTGTTTCGACTTTATCAGTTTTGCCTTGGTTAACCCTTCTAACTCGTTGGC
65 GCCAACCATTTCAAGTGGTTCGACTTTATCAGTTTTGCCCTAGTTAACCCTTCTAACCCGTTGAC
* * *
4330 TTTATCGGTTACGCCCTGGCCAACCTTTTTAATTAG
130 TTTATCGATTACGCCCTCGCCAACCCTTTTAATTAG
* * * ** * ** * *
4366 TTAACTTTATCAGTTTTGCCCT-GATCGGCCTTTCTAATCTGTTGGTTTTATCAGTTTCG-CCTT
1 TTGACTTTATCGGTATTGCCCTAG-TCAACCTTTCTAACCCATTGGCTTTATCAATTTCGTCC-T
** *
4429 GGCTGA-CATTTCAATTGGTT-GACTTTATC-GATTTTGCCCTAGTTAACCCTTCTAACCCGTTG
64 GGCCAACCATTTCAAGTGGTTCGACTTTATCAG-TTTTGCCCTAGTTAACCCTTCTAACCCGTTG
* ** * *
4491 ACTTTATTGATTTTGCCTTCGCTAACCCTTTTAATTAG
128 ACTTTATCGATTACGCCCTCGCCAACCCTTTTAATTAG
*
4529 TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAACTCATTGGCTTTATC
1 TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAACCCATTGGCTTTATC
4581 GGCTTCGCTT
Statistics
Matches: 300, Mismatches: 67, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
161 7 0.02
162 50 0.17
163 117 0.39
164 67 0.22
165 55 0.18
166 4 0.01
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.42
Consensus pattern (165 bp):
TTGACTTTATCGGTATTGCCCTAGTCAACCTTTCTAACCCATTGGCTTTATCAATTTCGTCCTGG
CCAACCATTTCAAGTGGTTCGACTTTATCAGTTTTGCCCTAGTTAACCCTTCTAACCCGTTGACT
TTATCGATTACGCCCTCGCCAACCCTTTTAATTAG
Found at i:4947 original size:43 final size:41
Alignment explanation
Indices: 4900--5194 Score: 123
Period size: 43 Copynumber: 7.0 Consensus size: 41
4890 TGTACCTGTT
*
4900 GGTTTAGTCCTAAGTAAATCTTTTCATCCTTTGTTGACTTATC
1 GGTTTAGTCCT-GGTAAATCTTTT-ATCCTTTGTTGACTTATC
* * * * * * *
4943 GGTTTAGCCCTGGTCAACCTTTTATCCCTTATTTACATATC
1 GGTTTAGTCCTGGTAAATCTTTTATCCTTTGTTGACTTATC
* * * * *
4984 GGCTCAGTCCTTGGTGAACTCCTTTATCCTTTGTTGATTTATC
1 GGTTTAGTCC-TGGT-AAATCTTTTATCCTTTGTTGACTTATC
* * *
5027 GGTTTAG-CCTTGGTCAA-CTTTTCATCTCTAT-TT-ACTTGTC
1 GGTTTAGTCC-TGGTAAATCTTTT-ATC-CTTTGTTGACTTATC
* * * ** *
5067 GGCTCAGTCCCTAGTAAACTCCCTTA-CCTTTTATTGACTTATC
1 GGTTTAGT-CCTGGTAAA-TCTTTTATCC-TTTGTTGACTTATC
* ** * * * * * *
5110 GGTTCAACCCTGGTCAACCTTTCATCCCTTGTTTACCTATC
1 GGTTTAGTCCTGGTAAATCTTTTATCCTTTGTTGACTTATC
*** * *
5151 AACTTAGTCCCGAGTAAATTTCTTTATCCTTTGTTGACTTATC
1 GGTTTAGTCCTG-GTAAATCT-TTTATCCTTTGTTGACTTATC
5194 G
1 G
5195 ATTCTATCCC
Statistics
Matches: 174, Mismatches: 64, Indels: 28
0.65 0.24 0.11
Matches are distributed among these distances:
40 15 0.09
41 53 0.30
42 42 0.24
43 64 0.37
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (41 bp):
GGTTTAGTCCTGGTAAATCTTTTATCCTTTGTTGACTTATC
Found at i:5039 original size:42 final size:42
Alignment explanation
Indices: 4925--5045 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
4915 AAATCTTTTC
* *
4925 ATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAAC-CTTTT
1 ATCCTTTGTTGACTTATCGGTTTAGCCTTGGTCAACTCCTTT
* * * * * * *
4966 ATCCCTTATTTACATATCGGCTCAGTCCTTGGTGAACTCCTTT
1 ATCCTTTGTTGACTTATCGGTTTAG-CCTTGGTCAACTCCTTT
*
5009 ATCCTTTGTTGATTTATCGGTTTAGCCTTGGTCAACT
1 ATCCTTTGTTGACTTATCGGTTTAGCCTTGGTCAACT
5046 TTTCATCTCT
Statistics
Matches: 61, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
41 19 0.31
42 20 0.33
43 22 0.36
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.43
Consensus pattern (42 bp):
ATCCTTTGTTGACTTATCGGTTTAGCCTTGGTCAACTCCTTT
Found at i:5212 original size:84 final size:84
Alignment explanation
Indices: 4912--5194 Score: 313
Period size: 84 Copynumber: 3.4 Consensus size: 84
4902 TTTAGTCCTA
* *
4912 AGTAAA-TCTTTTCATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAACCTTTTATCCCTTATT
1 AGTAAACTCCTTT-ATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAACCTTTCATCCCTTATT
*
4976 TACATATCGGCTCAGTCCTTG
65 TACATATCGGCTCAGTCC-CG
* * * * *
4997 -GTGAACTCCTTTATCCTTTGTTGATTTATCGGTTTAGCCTTGGTCAACTTTTCATCTC-TATTT
1 AGTAAACTCCTTTATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAACCTTTCATCCCTTATTT
* * *
5060 ACTTGTCGGCTCAGTCCCT
66 ACATATCGGCTCAGTCCCG
* * * * *
5079 AGTAAACTCCCTTA-CCTTTTATTGACTTATCGGTTCAACCCTGGTCAACCTTTCATCCCTTGTT
1 AGTAAACTCCTTTATCC-TTTGTTGACTTATCGGTTTAGCCCTGGTCAACCTTTCATCCCTTATT
* ** *
5143 TACCTATCAACTTAGTCCCG
65 TACATATCGGCTCAGTCCCG
* *
5163 AGTAAATTTCTTTATCCTTTGTTGACTTATCG
1 AGTAAACTCCTTTATCCTTTGTTGACTTATCG
5195 ATTCTATCCC
Statistics
Matches: 162, Mismatches: 31, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
82 2 0.01
83 66 0.41
84 87 0.54
85 7 0.04
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (84 bp):
AGTAAACTCCTTTATCCTTTGTTGACTTATCGGTTTAGCCCTGGTCAACCTTTCATCCCTTATTT
ACATATCGGCTCAGTCCCG
Found at i:5808 original size:20 final size:21
Alignment explanation
Indices: 5772--5811 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
5762 AATTTTTCTA
5772 TTTTTGAAAATATTTTGAAAT
1 TTTTTGAAAATATTTTGAAAT
5793 TTTTCTGAAAA-A-TTTGAAA
1 TTTT-TGAAAATATTTTGAAA
5812 AATTAGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTTTGAAAATATTTTGAAAT
Found at i:6669 original size:164 final size:167
Alignment explanation
Indices: 6301--6696 Score: 403
Period size: 166 Copynumber: 2.4 Consensus size: 167
6291 AAATTACAAG
* * * *
6301 GTTTTCTTCTCCGTAAATTTTTTCGGGAGGA-TTTTCATGGGTTTAAAATTTTTTTGAATTCTTT
1 GTTTTCTACTCCGTAAATATTTTCGGGAGGATTTTTCAT-GGTTTAAAA-TTTTTTGAATTCATC
* * * * **
6365 AAATATTATTATTTAATTACTATTAAAGTAATTTTCAAAAATTCATTTATCTTCATGAGTTTTTC
64 AAATATTATCACTTAATTACTATTAAAGTAATTTTCAAAAATTCATTCATCTTCATAAGTTTTGA
* * *
6430 ATTTTTTTCCTTGAAATTTTCCATGTTTCTGAAATACAGA
129 ATTTTTTT-CTTGAAATTTCCCATATTTCTGAAAAACAGA
* * **
6470 GTTTTCTACGCCGTAAATGTTTTCTGGG-GGATTTTTCATGGTTTTTAA-TTTTT-AATTCATCA
1 GTTTTCTACTCCGTAAATATTTTC-GGGAGGATTTTTCATGGTTTAAAATTTTTTGAATTCATCA
* * * ** *
6532 AATATTATCACTTGATTCAC-ATTAAATTAGTTTTGGAAAATTCATTCATTTTCATAAGTTTTGA
65 AATATTATCACTTAATT-ACTATTAAAGTAATTTTCAAAAATTCATTCATCTTCATAAGTTTTGA
*
6596 ATTTTTTT-TTGAAA-TTCCCTTATTTC-GAAAAAAACAGA
129 ATTTTTTTCTTGAAATTTCCCATATTTCTG--AAAAACAGA
* * * * **
6634 GTTTTCTACTCCATAAATATTTTCGGGAAGATTTTTCTTGGTTTAAGATTTTTAAAATTCATC
1 GTTTTCTACTCCGTAAATATTTTCGGGAGGATTTTTCATGGTTTAAAATTTTTTGAATTCATC
6697 TAACATTCTT
Statistics
Matches: 187, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
162 1 0.01
163 12 0.06
164 50 0.27
165 4 0.02
166 72 0.39
167 7 0.04
169 31 0.17
170 10 0.05
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (167 bp):
GTTTTCTACTCCGTAAATATTTTCGGGAGGATTTTTCATGGTTTAAAATTTTTTGAATTCATCAA
ATATTATCACTTAATTACTATTAAAGTAATTTTCAAAAATTCATTCATCTTCATAAGTTTTGAAT
TTTTTTCTTGAAATTTCCCATATTTCTGAAAAACAGA
Found at i:8668 original size:155 final size:155
Alignment explanation
Indices: 8380--8960 Score: 546
Period size: 155 Copynumber: 3.8 Consensus size: 155
8370 ATACCTATCG
* * * * * * *
8380 GGGCATTTTCGTAATTTTCTATAATCGAGTCCTAGGTTATCACCGAGTTTGATTTTATG-CTAAT
1 GGGCATTTTCGTAATTTTCTAAAATCAACTCCTAGGTTGTCACCGAGTTCGCTTTTATGCCGAAT
* * * * * * *
8444 GGTGAGTATTTAGGATAAGTTCATCCCGC-CA-ATAATTCTTTTCGAG-CCTTTTAGGGGTATTA
66 -GTGGGTATTTAGGATAGGTTCA-CCC-CATATATAATCCTTTTCAAGTCC-TTTAGGGATATTG
* * * * *
8506 GGCACTTTTACGTCAAAGATATCTCGTAG
127 GGTACTTTTACGTTAAAGGTATCCCGTAA
* * * * * *
8535 GGGTATTTTTGTAATTTTTTAAAATCAAGTCCTAGGTTGTCATCGGGTTCGCTTTTATGCCGAAT
1 GGGCATTTTCGTAATTTTCTAAAATCAACTCCTAGGTTGTCACCGAGTTCGCTTTTATGCCGAAT
* * *
8600 GTGGGTTTTTAGGATAGGTTCACCCCATATATAATCCTTTTTAAGTCTTTTAGGGATATTGGGTA
66 GTGGGTATTTAGGATAGGTTCACCCCATATATAATCCTTTTCAAGTCCTTTAGGGATATTGGGTA
* * * *
8665 CTTTTACATTGAAGGTAACCCTTAA
131 CTTTTACGTTAAAGGTATCCCGTAA
* * *
8690 GGGCATTTTTGTAATTTTTTAAAA-CTAACTCCTAGGTTGTCACCGAGTTCGCTTTTATGTCGAA
1 GGGCATTTTCGTAATTTTCTAAAATC-AACTCCTAGGTTGTCACCGAGTTCGCTTTTATGCCGAA
* * * * * * * * *
8754 AGTGGGTATTTAGGATAGGTTCATCCCTTTTA-AAACCATTTCAAGGTCCTTTAAGGTTATCGGG
65 TGTGGGTATTTAGGATAGGTTCACCCCATATATAATCCTTTTCAA-GTCCTTTAGGGATATTGGG
*
8818 TACTTTTATGTTAAAGGTATCCCGTAA
129 TACTTTTACGTTAAAGGTATCCCGTAA
* * * * * * *
8845 GGGCATATTCGTAATTTTCCAAAACCAACTCCTAAGTTGTCACCGGGTTCGCTTTTATGCCAAAG
1 GGGCATTTTCGTAATTTTCTAAAATCAACTCCTAGGTTGTCACCGAGTTCGCTTTTATGCCGAAT
** * * *
8910 GTGGGTATTTAGGATAGGTTCATTCCATCTAT-ATTCTTTTTAAGTCCTTTA
66 GTGGGTATTTAGGATAGGTTCACCCCATATATAATCCTTTTCAAGTCCTTTA
8961 AGGTTACCAA
Statistics
Matches: 350, Mismatches: 68, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
153 1 0.00
154 22 0.06
155 321 0.92
156 6 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (155 bp):
GGGCATTTTCGTAATTTTCTAAAATCAACTCCTAGGTTGTCACCGAGTTCGCTTTTATGCCGAAT
GTGGGTATTTAGGATAGGTTCACCCCATATATAATCCTTTTCAAGTCCTTTAGGGATATTGGGTA
CTTTTACGTTAAAGGTATCCCGTAA
Found at i:11184 original size:20 final size:21
Alignment explanation
Indices: 11136--11186 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
11126 TTGAAAATAT
11136 TGTATCGATACAATAAGGTAA
1 TGTATCGATACAATAAGGTAA
*
11157 TGT-GCGATAC-ATAA-GTGAA
1 TGTATCGATACAATAAGGT-AA
11176 TGTATCGATAC
1 TGTATCGATAC
11187 GTGTTTGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 9 0.35
20 12 0.46
21 3 0.12
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAATAAGGTAA
Found at i:11366 original size:49 final size:49
Alignment explanation
Indices: 11307--11408 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
11297 AATGTATCAT
*
11307 ACATTCTTCAATGTATAGATACATCCAGTTAAATTTAAATATTTCGAGC
1 ACATTCTTCAATGTATAGATACATCCAGTTAAATTTAAACATTTCGAGC
11356 ACATTCTTCAATGTATAGATACATCCAGTTAAATTTAAACATTTCGAGC
1 ACATTCTTCAATGTATAGATACATCCAGTTAAATTTAAACATTTCGAGC
11405 -CATT
1 ACATT
11409 TTTAGCCTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 4 0.08
49 48 0.92
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (49 bp):
ACATTCTTCAATGTATAGATACATCCAGTTAAATTTAAACATTTCGAGC
Found at i:14584 original size:21 final size:23
Alignment explanation
Indices: 14551--14605 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
14541 CCATTTTGTC
**
14551 TTTTCTTAATTAATTC-TCTATT
1 TTTTCTTCTTTAATTCTTCTATT
*
14573 TTTTC-TCTTTAATTCTTCTTTT
1 TTTTCTTCTTTAATTCTTCTATT
14595 TTTTCTTCTTT
1 TTTTCTTCTTT
14606 GCTGACTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.29
22 15 0.54
23 5 0.18
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTTCTTTAATTCTTCTATT
Found at i:16956 original size:20 final size:20
Alignment explanation
Indices: 16931--16986 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
16921 TTTTTACCCA
*
16931 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTATC
* *
16951 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTATC
*
16971 AATGTATCAATACATT
1 AATGTATCGATACATT
16987 CTGTCTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTATC
Found at i:23014 original size:155 final size:154
Alignment explanation
Indices: 22528--23014 Score: 509
Period size: 155 Copynumber: 3.2 Consensus size: 154
22518 TACATCAAAA
* * * *
22528 TCGATTCTATAAAATTTAC-CAAAAT-GCCTTCGGGTATACCTTCAACATGAAAGTATCTCGATA
1 TCGATTCTAAAAAAATTACACAAAATCCCCTTC-GGTATACCTTCAACATGAAAGTATCCCGATA
* * * * * * *
22591 GCCTTAAAGGGCACGAAAGGATTGTAAAAGGTCAAACCTATCCTATA-TGTACACCTTTGGCATA
65 ACCCTAAAGGACACGAAAAGATCGTAAAAGGGCAAACCTATCCTA-AGTGTAGACCTTTGGCATA
* * *
22655 AAAGCGA-CTCAGTAACAACCTAGGAT
129 AAAGCGACCT-AGTGACTACCTAGGAC
* * * * * * * ** ** *
22681 TTGATTGTAAAAAAATTACAAAAAATGCCCTTAGGTTTATCTTTGATGTGAAAGTATCCTGATAA
1 TCGATTCTAAAAAAATTACACAAAATCCCCTTCGGTATACCTTCAACATGAAAGTATCCCGATAA
* * * **
22746 CCCTAAAGGATACGAAAAGATCGTAAAAAGGCAAACCTATCCTAAGTGTAGAACTTTGATATAAA
66 CCCTAAAGGACACGAAAAGATCGTAAAAGGGCAAACCTATCCTAAGTGTAGACCTTTGGCATAAA
*
22811 AGCGACCAAGTGACTACCTAGGAC
131 AGCGACCTAGTGACTACCTAGGAC
* * *
22835 TC-AGTTCTAGAAAAAATAAC-CAAAATACCCCTTCGGTATACCTTCAACATGAAAGCATCCCAA
1 TCGA-TTCTA-AAAAAATTACACAAAAT-CCCCTTCGGTATACCTTCAACATGAAAGTATCCCGA
* *
22898 TAACCCTAAAGGACACAAAAAGATCGTAAAAGGGCGAACCTATCCTAAGTGTAGACCTTTGGCAT
63 TAACCCTAAAGGACACGAAAAGATCGTAAAAGGGCAAACCTATCCTAAGTGTAGACCTTTGGCAT
* *
22963 AAAAGCAACCTAGTGACTATCTAGGAC
128 AAAAGCGACCTAGTGACTACCTAGGAC
* *
22990 TCGATTCTAAGAAAATTCCACAAAA
1 TCGATTCTAAAAAAATTACACAAAA
23015 AATTTTATGA
Statistics
Matches: 266, Mismatches: 59, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
153 17 0.06
154 115 0.43
155 133 0.50
156 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (154 bp):
TCGATTCTAAAAAAATTACACAAAATCCCCTTCGGTATACCTTCAACATGAAAGTATCCCGATAA
CCCTAAAGGACACGAAAAGATCGTAAAAGGGCAAACCTATCCTAAGTGTAGACCTTTGGCATAAA
AGCGACCTAGTGACTACCTAGGAC
Found at i:29243 original size:11 final size:11
Alignment explanation
Indices: 29227--29254 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
29217 TGCATGTGTT
29227 TTCTTTCCAAA
1 TTCTTTCCAAA
29238 TTCTTTCCAAA
1 TTCTTTCCAAA
29249 TTCTTT
1 TTCTTT
29255 TCTTACAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (11 bp):
TTCTTTCCAAA
Found at i:37422 original size:41 final size:43
Alignment explanation
Indices: 37348--37434 Score: 160
Period size: 41 Copynumber: 2.1 Consensus size: 43
37338 GGGTGCTAGA
37348 ATTGGCAGTTTCTTAATATACTACTTATGTTCCAAATATTTTT
1 ATTGGCAGTTTCTTAATATACTACTTATGTTCCAAATATTTTT
37391 ATTGGCAGTTTCTT-A-ATACTACTTATGTTCCAAATATTTTT
1 ATTGGCAGTTTCTTAATATACTACTTATGTTCCAAATATTTTT
37432 ATT
1 ATT
37435 TGTTATCACA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
41 29 0.66
42 1 0.02
43 14 0.32
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (43 bp):
ATTGGCAGTTTCTTAATATACTACTTATGTTCCAAATATTTTT
Found at i:39836 original size:34 final size:35
Alignment explanation
Indices: 39798--39891 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 35
39788 TGCTTTTATT
*
39798 TTTTATCTAATAAATATATCTTATTAT-TAAAAAA
1 TTTTATCTAATAAATATATCTAATTATGTAAAAAA
* **
39832 TTTTAT-TACATAAAAATATAAAATTATGTAAAAAA
1 TTTTATCTA-ATAAATATATCTAATTATGTAAAAAA
* * *
39867 ATTTA-CTAA-ATATATATCTATTTAT
1 TTTTATCTAATAAATATATCTAATTAT
39892 TTTTACTAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
33 13 0.28
34 21 0.45
35 13 0.28
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (35 bp):
TTTTATCTAATAAATATATCTAATTATGTAAAAAA
Found at i:40708 original size:134 final size:134
Alignment explanation
Indices: 40468--40736 Score: 405
Period size: 134 Copynumber: 2.0 Consensus size: 134
40458 ATTCAAAGTA
* * * * *
40468 AAAATATGTGATTTATCAATACATATACTATTAGTATCAATGCACAAGGTTGACTTAGGCTATAA
1 AAAATACGTGATGTATCAATACATATACTATTAGTATCAATACACAAGGTTGACTTAGACTACAA
40533 AGGGTCAAAACCCTTGATTGTATCGATACACACCTAGATGTATCGATACATTTTG-TGTAGTATC
66 AGGGTCAAAACCCTTGATTGTATCGATACACACCTAGATGTATCGATACATTTTGCT-TAGTATC
40597 GATAC
130 GATAC
* *
40602 AAAATACGTGATGTATCAATACATATACTATTGGTATCAATACATAAGGTTGACTTAGACTACAA
1 AAAATACGTGATGTATCAATACATATACTATTAGTATCAATACACAAGGTTGACTTAGACTACAA
* * * * * *
40667 ATGGTCTAAACCTTTGATTGTATCGATACACATCTAGATGTATCGATATATTTTGCTTAGTATTG
66 AGGGTCAAAACCCTTGATTGTATCGATACACACCTAGATGTATCGATACATTTTGCTTAGTATCG
40732 ATAC
131 ATAC
40736 A
1 A
40737 TAAAACTGGT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
134 120 0.99
135 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (134 bp):
AAAATACGTGATGTATCAATACATATACTATTAGTATCAATACACAAGGTTGACTTAGACTACAA
AGGGTCAAAACCCTTGATTGTATCGATACACACCTAGATGTATCGATACATTTTGCTTAGTATCG
ATAC
Found at i:40811 original size:24 final size:24
Alignment explanation
Indices: 40777--40889 Score: 127
Period size: 24 Copynumber: 4.7 Consensus size: 24
40767 ACTGTTCATA
*
40777 ACTATTAATCACTGTTTATATATC
1 ACTATTCATCACTGTTTATATATC
* *
40801 ACTATTCATCACTGTTCATGTATC
1 ACTATTCATCACTGTTTATATATC
* *
40825 ATTATTCATCACTGTTCATATATC
1 ACTATTCATCACTGTTTATATATC
* * *
40849 ACTGTTCATCACTATTTATGTATC
1 ACTATTCATCACTGTTTATATATC
* * *
40873 AGTGTTCATCAATGTTT
1 ACTATTCATCACTGTTT
40890 CATGTATCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (24 bp):
ACTATTCATCACTGTTTATATATC
Found at i:40846 original size:48 final size:48
Alignment explanation
Indices: 40779--40897 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
40769 TGTTCATAAC
* * * *
40779 TATTAATCACTGTTTATATATCACTATTCATCACTGTTCATGTATCAT
1 TATTCATCACTGTTCATATATCACTATTCATCACTATTCATGTATCAG
* *
40827 TATTCATCACTGTTCATATATCACTGTTCATCACTATTTATGTATCAG
1 TATTCATCACTGTTCATATATCACTATTCATCACTATTCATGTATCAG
* * *
40875 TGTTCATCAATGTTTCATGTATC
1 TATTCATCACTG-TTCATATATC
40898 GATATATGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 52 0.85
49 9 0.15
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (48 bp):
TATTCATCACTGTTCATATATCACTATTCATCACTATTCATGTATCAG
Found at i:41742 original size:18 final size:18
Alignment explanation
Indices: 41715--41749 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41705 AATAAAATAT
41715 ATGTAATAAAAATTATTA
1 ATGTAATAAAAATTATTA
* *
41733 ATGTATTAAAATTTATT
1 ATGTAATAAAAATTATT
41750 TAAATATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (18 bp):
ATGTAATAAAAATTATTA
Found at i:44270 original size:97 final size:98
Alignment explanation
Indices: 44084--44292 Score: 230
Period size: 97 Copynumber: 2.1 Consensus size: 98
44074 TTGAAAAATG
* * * * ** *
44084 GGGTTGGAGTATCTCCTCAGAAGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGCGAGA
1 GGGTTGGAGTATCCCCTCAGAAGAATAGGGTTAGAGTGTCCCCAACAATGACAATTTAAGCAAGA
*
44149 ATAAGATTTAAACTTTGATGAG-TTT-AAGAGTA
66 ATAAGATTTAAACTTTGATGAGTTTTAAAAAG-A
* * * *
44181 GGGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCAACAATGATAATTTAGGCAAGA
1 GGGTTGGAGTATCCCCTCAGAAGAATAGGGTTAGAGTGTCCCCAACAATGACAATTTAAGCAAGA
*
44246 ATAAG-TTTCAAA-TCTTGACT-AGTTTTAAAAAGG
66 ATAAGATTT-AAACT-TTGA-TGAGTTTTAAAAAGA
44279 GGGTTGGAGTATCC
1 GGGTTGGAGTATCC
44293 TTTCAGAGAA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
96 4 0.04
97 68 0.72
98 18 0.19
99 4 0.04
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (98 bp):
GGGTTGGAGTATCCCCTCAGAAGAATAGGGTTAGAGTGTCCCCAACAATGACAATTTAAGCAAGA
ATAAGATTTAAACTTTGATGAGTTTTAAAAAGA
Found at i:46533 original size:20 final size:20
Alignment explanation
Indices: 46508--46584 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
46498 GTAAAAAGAC
*
46508 AGAATGCATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
46528 AGAATGTATCGATATATTCA
1 AGAATGTATCGATACATTGA
*
46548 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
* *
46568 AAAATATATCGATACAT
1 AGAATGTATCGATACAT
46585 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:46568 original size:91 final size:90
Alignment explanation
Indices: 46460--46631 Score: 290
Period size: 91 Copynumber: 1.9 Consensus size: 90
46450 TTTTAATTAG
* *
46460 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAAGACAGAATGCATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCGATACATCTAGGT-AAAAGACAGAATGCATCAATACAT
* *
46525 TGAAGAATGTATCGATATATTCATAC
65 TAAAAAATGTATCGATATATTCATAC
*
46551 ATGTATCGATACATTGAAAAATATATCGATACATCTAGGTAAAAGACAGAATGTATCAATACATT
1 ATGTATCGATACATTGAAAAATATATCGATACATCTAGGTAAAAGACAGAATGCATCAATACATT
46616 AAAAAATGTATCGATA
66 AAAAAATGTATCGATA
46632 CATCTAGGTA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 37 0.49
91 39 0.51
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATATATCGATACATCTAGGTAAAAGACAGAATGCATCAATACATT
AAAAAATGTATCGATATATTCATAC
Found at i:46644 original size:24 final size:21
Alignment explanation
Indices: 46600--46648 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 21
46590 TAAAAGACAG
*
46600 AATGTATCAATACATTA-AAA
1 AATGTATCGATACATTAGAAA
46620 AATGTATCGATACATCTAGGTAAA
1 AATGTATCGATACAT-TA-G-AAA
46644 AATGT
1 AATGT
46649 GACTTTCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 14 0.58
21 2 0.08
24 8 0.33
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATTAGAAA
Found at i:48587 original size:18 final size:19
Alignment explanation
Indices: 48552--48589 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
48542 TCTTTTTACC
* *
48552 TTTAATTTTTTTATTTTCA
1 TTTAATTTTTATAATTTCA
48571 TTTAA-TTTTATAATTTCA
1 TTTAATTTTTATAATTTCA
48589 T
1 T
48590 AAACATTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTAATTTTTATAATTTCA
Found at i:50085 original size:20 final size:20
Alignment explanation
Indices: 50023--50086 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
50013 CGAAATGAAG
*
50023 ATACATATCAAAATGTATCA
1 ATACATCTCAAAATGTATCA
*
50043 ATACAATACAT-AATATGT-T-A
1 ATAC-AT-C-TCAAAATGTATCA
50063 ATACATCTCAAAATGTATCA
1 ATACATCTCAAAATGTATCA
50083 ATAC
1 ATAC
50087 TCTAAGCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
17 1 0.03
18 7 0.20
19 3 0.09
20 14 0.40
21 3 0.09
22 6 0.17
23 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (20 bp):
ATACATCTCAAAATGTATCA
Found at i:51536 original size:35 final size:35
Alignment explanation
Indices: 51497--51634 Score: 93
Period size: 35 Copynumber: 3.9 Consensus size: 35
51487 ATGAAAAAGC
51497 AACAG-AAAAGCTAGAAAAAAGAAAACAAGAAATGA
1 AACAGCAAAAG-TAGAAAAAAGAAAACAAGAAATGA
* * * **
51532 AACAGCAATAGTAGAGAAGAGAAAACAAGAAACAA
1 AACAGCAAAAGTAGAAAAAAGAAAACAAGAAATGA
* * * * * *
51567 AATAGCAATTA-TAGAGAAGAGAAAGCAGGAAATGA
1 AACAGCAA-AAGTAGAAAAAAGAAAACAAGAAATGA
* * *
51602 TAA-AGCAATAGGAGAAAAAGAGAAAGCAAGAAA
1 -AACAGCAAAAGTAGAAAAA-AGAAAACAAGAAA
51635 CAAAAACAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
34 2 0.02
35 62 0.74
36 20 0.24
ACGTcount: A:0.62, C:0.08, G:0.22, T:0.08
Consensus pattern (35 bp):
AACAGCAAAAGTAGAAAAAAGAAAACAAGAAATGA
Found at i:51771 original size:22 final size:21
Alignment explanation
Indices: 51746--51797 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
51736 CAATAGCCGA
51746 CAACAATAAACACAACAAGAAG
1 CAACAATAAACACAACAA-AAG
* * *
51768 CAACAATAAGCACACCAATAG
1 CAACAATAAACACAACAAAAG
51789 CAACAATAA
1 CAACAATAA
51798 TAGCAAGCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.60, C:0.25, G:0.08, T:0.08
Consensus pattern (21 bp):
CAACAATAAACACAACAAAAG
Found at i:67552 original size:89 final size:90
Alignment explanation
Indices: 67414--67654 Score: 297
Period size: 89 Copynumber: 2.7 Consensus size: 90
67404 CATGGAGCAA
* * * * * *
67414 GGTATAGATAACATATTTCCCAGTCATATCCTTTTCCCTT-AATTACCAGATGATATTGGTGCGT
1 GGTACAGACAACACATTTCTCAGTCATATCCTTTT-CCTTCAATTGCCAGATGATATTGATGCGT
* * *
67478 TCCAGATCCTAACACCTTGGGGCAAG
65 CCCAGATCCTAACACCTTAGGGAAAG
* * * * *
67504 GGTGCAGACCACACATTTCTCAGTCATATCC-CTTCATTCAATTGCCAGATGATATTGATGTGTC
1 GGTACAGACAACACATTTCTCAGTCATATCCTTTTCCTTCAATTGCCAGATGATATTGATGCGTC
*
67568 CCAGATCCTAATACCTTAGGGAAAG
66 CCAGATCCTAACACCTTAGGGAAAG
* * *
67593 GGTACAGACAACACATTTCTTAGTCATATCCTTTTCCTTCATTTGCTAGATGATATTGATGC
1 GGTACAGACAACACATTTCTCAGTCATATCCTTTTCCTTCAATTGCCAGATGATATTGATGC
67655 ATCACGGAGC
Statistics
Matches: 126, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
88 3 0.02
89 73 0.58
90 50 0.40
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (90 bp):
GGTACAGACAACACATTTCTCAGTCATATCCTTTTCCTTCAATTGCCAGATGATATTGATGCGTC
CCAGATCCTAACACCTTAGGGAAAG
Found at i:68439 original size:42 final size:42
Alignment explanation
Indices: 68279--68820 Score: 368
Period size: 42 Copynumber: 13.0 Consensus size: 42
68269 TTCTCTATAT
* * * *
68279 CTTTTGTCTGCCCGTCAGCTTTGA-CTCGAGAGACTT-TATATC
1 CTTTTGTCTGCCCATCGGCTTTGACCT-AAGAGACTTCTTTA-C
* *
68321 C-TTTGTCTGCCCATCAGCTTTGACCTAGGAGACTT-TTTAC
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
* *** * * * *
68361 CTTTTATCTGCTTGTCGACTTTTACCCT-GGACACTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGA-CCTAAGAGACTTCTTTAC
* * * * *
68403 CCTTTGTTTGCCCATCGGCTTAGACCTAAGAGACTTCTATAT
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
* * * * * *
68445 CTTTTGTCTTCCCATCAGCTTTAACCCGAA-AAACTTTTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGA-CCTAAGAGACTTCTTTAC
* * * * **
68487 CCTTTGTCTGCTCGTCGACTTTGACCCGAGAGACTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
* * * *
68529 CCTTTGTCTGCCCGTCAGCTTTGACTTGAA-AGACTTCTTTAAC
1 CTTTTGTCTGCCCATCGGCTTTGACCT-AAGAGACTTCTTT-AC
* * *
68572 C--TTGTCTGCCCGTCGACTTAGACCCT-AGAGACTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGA-CCTAAGAGACTTCTTTAC
* * **
68612 CTTTTGTTTGCCCATCGGCTTTGATCTTGGAGACTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
** * *
68654 CTTTTGTCTGCCTGTCGGCTTTGACCCTTA-AGACTTTTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGA-CCTAAGAGACTTCTTTAC
* * * **
68696 CTTTTGTCTGCCTATTGGCTTCGACCTGGGAGACTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
* * ** *
68738 CTTTTGTCTGTCCATCGGCTTTGACTTGGGAGATTTCTTTAC
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
* * * * * **
68780 CTTTTGTTTGCACGTTGGCTTTGATCTGGGAGACTTCTTTA
1 CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTA
68821 TTCTTTGCTT
Statistics
Matches: 395, Mismatches: 89, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
40 6 0.02
41 92 0.23
42 286 0.72
43 11 0.03
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
CTTTTGTCTGCCCATCGGCTTTGACCTAAGAGACTTCTTTAC
Found at i:68563 original size:126 final size:125
Alignment explanation
Indices: 68281--68678 Score: 353
Period size: 125 Copynumber: 3.2 Consensus size: 125
68271 CTCTATATCT
* * *
68281 TTTGTCTGCCCGTCAGCTTTGACTCGAGAGACTT-TATATCCTTTGTCTGCCCATCAGCTTTGAC
1 TTTGTCTGCCCGTCAGCTTTGACTTGAAAGACTTCTATATCCTTTGTCTGCCCATCAGCTTTAAC
* * * * * *
68345 CTAGGAGACTTTTTACCTTTTATCTGCTTGTCGACTTTTACCCTGGACACTTCTTTACCC
66 CGAGAAAACTTTTTACCCTTTATCTGCTCGTCGACTTTGACCCTGGACACTTCTTTACCC
* * * * * * *
68405 TTTGTTTGCCCATCGGCTTAGACCT-AAGAGACTTCTATATCTTTTGTCTTCCCATCAGCTTTAA
1 TTTGTCTGCCCGTCAGCTTTGACTTGAA-AGACTTCTATATCCTTTGTCTGCCCATCAGCTTTAA
* *
68469 CCCGA-AAAACTTTTTTACCCTTTGTCTGCTCGTCGACTTTGACCC-GAGAGACTTCTTTACCC
65 -CCGAGAAAAC-TTTTTACCCTTTATCTGCTCGTCGACTTTGACCCTG-GACACTTCTTTACCC
* * *
68531 TTTGTCTGCCCGTCAGCTTTGACTTGAAAGACTTCTTTAACC-TTGTCTGCCCGTC-GAC-TTAG
1 TTTGTCTGCCCGTCAGCTTTGACTTGAAAGACTTCTATATCCTTTGTCTGCCCATCAG-CTTTA-
* * * * * * * * * * * *
68593 ACCCTAG-AGACTTCTTTACCTTTTGTTTGCCCATCGGCTTTGATCTTGGAGACTTCTTTACCT
64 A-CCGAGAAAACTT-TTTACCCTTTATCTGCTCGTCGACTTTGACCCTGGACACTTCTTTACCC
* *
68656 TTTGTCTGCCTGTCGGCTTTGAC
1 TTTGTCTGCCCGTCAGCTTTGAC
68679 CCTTAAGACT
Statistics
Matches: 223, Mismatches: 40, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
123 1 0.00
124 31 0.14
125 110 0.49
126 79 0.35
127 2 0.01
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.39
Consensus pattern (125 bp):
TTTGTCTGCCCGTCAGCTTTGACTTGAAAGACTTCTATATCCTTTGTCTGCCCATCAGCTTTAAC
CGAGAAAACTTTTTACCCTTTATCTGCTCGTCGACTTTGACCCTGGACACTTCTTTACCC
Found at i:68594 original size:167 final size:168
Alignment explanation
Indices: 68393--68707 Score: 381
Period size: 167 Copynumber: 1.9 Consensus size: 168
68383 TACCCTGGAC
* * * *
68393 ACTTCTTTACCCTTTGTTTGCCCATCGGCTTAGA-CCTAAGAGACTTCTATATCTTTTGTCTT-C
1 ACTTCTTTAACCTTTGTCTGCCCATCGACTTAGACCCT-AGAGACTTCTATACCTTTTGT-TTGC
*
68456 CCATCAGCTTT-AACCCGAAAAACTTTTTTACCCTTTGTCTG-CTCGTCGACTTTGACCC-GAGA
64 CCATCAGCTTTGAACCCG-AAAACTTCTTTACCCTTTGTCTGCCT-GTCGACTTTGACCCTGA-A
68518 GACTTCTTTACCCTTTGTCTGCCCGTCAGCTTTGACTTGAAAG
126 GACTTCTTTACCCTTTGTCTGCCCGTCAGCTTTGACTTGAAAG
* *
68561 ACTTCTTTAACC-TTGTCTGCCCGTCGACTTAGACCCTAGAGACTTCTTTACCTTTTGTTTGCCC
1 ACTTCTTTAACCTTTGTCTGCCCATCGACTTAGACCCTAGAGACTTCTATACCTTTTGTTTGCCC
* * ** * * * * *
68625 ATCGGCTTTGATCTTGGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCCTTAAGACTT
66 ATCAGCTTTGAACCCGAAAACTTCTTTACCCTTTGTCTGCCTGTCGACTTTGACCCTGAAGACTT
* *
68690 TTTTACCTTTTGTCTGCC
131 CTTTACCCTTTGTCTGCC
68708 TATTGGCTTC
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
166 2 0.02
167 102 0.82
168 20 0.16
ACGTcount: A:0.17, C:0.28, G:0.16, T:0.40
Consensus pattern (168 bp):
ACTTCTTTAACCTTTGTCTGCCCATCGACTTAGACCCTAGAGACTTCTATACCTTTTGTTTGCCC
ATCAGCTTTGAACCCGAAAACTTCTTTACCCTTTGTCTGCCTGTCGACTTTGACCCTGAAGACTT
CTTTACCCTTTGTCTGCCCGTCAGCTTTGACTTGAAAG
Found at i:68647 original size:209 final size:207
Alignment explanation
Indices: 68281--68782 Score: 544
Period size: 209 Copynumber: 2.4 Consensus size: 207
68271 CTCTATATCT
* * *
68281 TTTGTCTGCCCGTC-AGCTTTGACTCGAGAGACTT-TATATCCTTTGTCTGCCCATCAGCTTTGA
1 TTTGTCTG-CCGTCGA-CTTTGACCCGAGAGACTTCTTTACCCTTTGTCTGCCCATCAGCTTTGA
* ** ** *
68344 CCT-AGGAGACTT-TTTACCTTTTATCTGCTTGTCGACTTTTACCCTGGACACTTCTTTACCCTT
64 CTTGA-GAGACTTCTTTACC--TTATCTGCCCGTCGACTTAGACCCTAGACACTTCTTTACCCTT
* *
68407 TGTTTGCCCATCGGCTTAGACCTAAGAGACTTCTATATCTTTTGTCTTCCCATCAGCTTTAACCC
126 TGTTTGCCCATCGGCTTAGACCTAAGAGACTTCTATACCTTTTGTCTGCCCATCAGCTTTAACCC
68472 GAAAAACTTTTTTACCC
191 GAAAAACTTTTTTACCC
*
68489 TTTGTCTGCTCGTCGACTTTGACCCGAGAGACTTCTTTACCCTTTGTCTGCCCGTCAGCTTTGAC
1 TTTGTCTGC-CGTCGACTTTGACCCGAGAGACTTCTTTACCCTTTGTCTGCCCATCAGCTTTGAC
* * * *
68554 TTGAAAGACTTCTTTAACCTTGTCTGCCCGTCGACTTAGACCCTAGAGACTTCTTTACCTTTTGT
65 TTGAGAGACTTCTTT-ACCTTATCTGCCCGTCGACTTAGACCCTAGACACTTCTTTACCCTTTGT
* * ** * ** * * **
68619 TTGCCCATCGGCTTTGATCTTGGAGACTTCTTTACCTTTTGTCTGCCTGTCGGCTTTGACCCTTA
129 TTGCCCATCGGCTTAGACCTAAGAGACTTCTATACCTTTTGTCTGCCCATCAGCTTTAACCCGAA
* *
68684 AGACTTTTTTACCT
194 AAACTTTTTTACCC
* * * * * * * * *
68698 TTTGTCTGCCTATTGGCTTCGACCTGGGAGACTTCTTTACCTTTTGTCTGTCCATCGGCTTTGAC
1 TTTGTCTGCC-GTCGACTTTGACCCGAGAGACTTCTTTACCCTTTGTCTGCCCATCAGCTTTGAC
* *
68763 TTGGGAGATTTCTTTACCTT
65 TTGAGAGACTTCTTTACCTT
68783 TTGTTTGCAC
Statistics
Matches: 245, Mismatches: 42, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
207 1 0.00
208 35 0.14
209 202 0.82
210 4 0.02
211 3 0.01
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (207 bp):
TTTGTCTGCCGTCGACTTTGACCCGAGAGACTTCTTTACCCTTTGTCTGCCCATCAGCTTTGACT
TGAGAGACTTCTTTACCTTATCTGCCCGTCGACTTAGACCCTAGACACTTCTTTACCCTTTGTTT
GCCCATCGGCTTAGACCTAAGAGACTTCTATACCTTTTGTCTGCCCATCAGCTTTAACCCGAAAA
ACTTTTTTACCC
Found at i:69367 original size:20 final size:21
Alignment explanation
Indices: 69341--69382 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 21
69331 TCAGTTTATT
69341 TAAAAAAAT-AAATAA-AAAA
1 TAAAAAAATAAAATAATAAAA
69360 TAAAAAAATAAAATAATAAAA
1 TAAAAAAATAAAATAATAAAA
69381 TA
1 TA
69383 TTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
20 6 0.29
21 6 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAAAAATAAAATAATAAAA
Found at i:69377 original size:16 final size:16
Alignment explanation
Indices: 69345--69382 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69335 TTTATTTAAA
69345 AAAATAAATAAAAAAT
1 AAAATAAATAAAAAAT
69361 AAAA-AAATAAAATAAT
1 AAAATAAATAAAA-AAT
69377 AAAATA
1 AAAATA
69383 TTAATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 11 0.55
17 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:69381 original size:8 final size:8
Alignment explanation
Indices: 69345--69382 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
69335 TTTATTTAAA
69345 AAAATAAAT
1 AAAAT-AAT
69354 AAAA-AAT
1 AAAATAAT
*
69361 AAAAAAAT
1 AAAATAAT
69369 AAAATAAT
1 AAAATAAT
69377 AAAATA
1 AAAATA
69383 TTAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 7 0.26
8 16 0.59
9 4 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAATAAT
Found at i:69737 original size:70 final size:70
Alignment explanation
Indices: 69639--69774 Score: 206
Period size: 71 Copynumber: 1.9 Consensus size: 70
69629 AAAAAGCAAA
* *
69639 AGAAAAGAAAACAAGAAATGAAACAGCAATAGTAG-AGAAGAGAAAGCAAGAAATG-AAATAGCA
1 AGAAAAGAAAACAAGAAATGAAACAGCAATAGGAGAAAAAGAGAAAGCAAGAAATGAAAATAGCA
69702 ATAGT
66 ATAGT
69707 AGAAAAGAGAAAGCAAGAAATGATAA-AGCAATAGGAGAAAAAGAGAAAGCAAGAAATGAAAATA
1 AGAAAAGA-AAA-CAAGAAATGA-AACAGCAATAGGAGAAAAAGAGAAAGCAAGAAATGAAAATA
69771 GCAA
63 GCAA
69775 AGAAAAAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
68 8 0.13
69 3 0.05
70 20 0.33
71 21 0.34
72 9 0.15
ACGTcount: A:0.62, C:0.07, G:0.23, T:0.09
Consensus pattern (70 bp):
AGAAAAGAAAACAAGAAATGAAACAGCAATAGGAGAAAAAGAGAAAGCAAGAAATGAAAATAGCA
ATAGT
Found at i:69756 original size:36 final size:35
Alignment explanation
Indices: 69639--69774 Score: 197
Period size: 35 Copynumber: 3.9 Consensus size: 35
69629 AAAAAGCAAA
*
69639 AGAAAAGA-AAA-CAAGAAATGAAACAGCAATAGT
1 AGAAAAGAGAAAGCAAGAAATGAAATAGCAATAGT
*
69672 AGAGAAGAGAAAGCAAGAAATGAAATAGCAATAGT
1 AGAAAAGAGAAAGCAAGAAATGAAATAGCAATAGT
*
69707 AGAAAAGAGAAAGCAAGAAATGATAA-AGCAATAGG
1 AGAAAAGAGAAAGCAAGAAATGA-AATAGCAATAGT
69742 AGAAAAAGAGAAAGCAAGAAATGAAAATAGCAA
1 AG-AAAAGAGAAAGCAAGAAATG-AAATAGCAA
69775 AGAAAAAAAA
Statistics
Matches: 93, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
33 7 0.08
34 3 0.03
35 53 0.57
36 24 0.26
37 6 0.06
ACGTcount: A:0.62, C:0.07, G:0.23, T:0.09
Consensus pattern (35 bp):
AGAAAAGAGAAAGCAAGAAATGAAATAGCAATAGT
Found at i:77811 original size:13 final size:13
Alignment explanation
Indices: 77793--77819 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
77783 ATACATTATG
77793 CTTTGTATCGATA
1 CTTTGTATCGATA
77806 CTTTGTATCGATA
1 CTTTGTATCGATA
77819 C
1 C
77820 ATGCACAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (13 bp):
CTTTGTATCGATA
Found at i:77910 original size:33 final size:32
Alignment explanation
Indices: 77873--77937 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
77863 TATCACTATT
77873 TGTATCAATACATG-GCACATTGTATCGATACAA
1 TGTATCAATACATGAG-A-ATTGTATCGATACAA
* *
77906 TGTATCGATCCATGATGAATTGTATCGATACA
1 TGTATCAATACATGA-GAATTGTATCGATACA
77938 TTATCCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (32 bp):
TGTATCAATACATGAGAATTGTATCGATACAA
Found at i:78265 original size:13 final size:13
Alignment explanation
Indices: 78247--78271 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78237 TAATGTTCTT
78247 TGTATCGATACAA
1 TGTATCGATACAA
78260 TGTATCGATACA
1 TGTATCGATACA
78272 TAGGTTTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78897 original size:13 final size:13
Alignment explanation
Indices: 78879--78904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
78869 TACATAAAGT
78879 ATGTATCGATACA
1 ATGTATCGATACA
78892 ATGTATCGATACA
1 ATGTATCGATACA
78905 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:78902 original size:32 final size:33
Alignment explanation
Indices: 78861--78924 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
78851 TAGCCAAACT
* **
78861 TGTATCGATACATAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
78893 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
78925 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:81915 original size:13 final size:13
Alignment explanation
Indices: 81897--81923 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
81887 ATACATTATG
81897 CTTTGTATCGATA
1 CTTTGTATCGATA
81910 CTTTGTATCGATA
1 CTTTGTATCGATA
81923 C
1 C
81924 ATGAAACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (13 bp):
CTTTGTATCGATA
Found at i:90833 original size:20 final size:21
Alignment explanation
Indices: 90802--90852 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
90792 TAAGCTTTAT
* *
90802 TATCAATGCATTCACTTA-TG
1 TATCAATACATTAACTTATTG
*
90822 TATCGATACATTAACTTATTG
1 TATCAATACATTAACTTATTG
90843 TATCAATACA
1 TATCAATACA
90853 AATTGTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (21 bp):
TATCAATACATTAACTTATTG
Found at i:91859 original size:37 final size:37
Alignment explanation
Indices: 91811--91891 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
91801 ACTTAAGGAG
91811 TTTG-AAAAGGTTCGGTTGCCACTAACTCATATGGAC
1 TTTGAAAAAGGTTCGGTTGCCACTAACTCATATGGAC
* * ** * *
91847 TTTGAAAAAGGTTTGGTTGCCATTGGCTTATGTGGAC
1 TTTGAAAAAGGTTCGGTTGCCACTAACTCATATGGAC
91884 TTTGAAAA
1 TTTGAAAA
91892 GAGAGCCACC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
36 4 0.11
37 34 0.89
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (37 bp):
TTTGAAAAAGGTTCGGTTGCCACTAACTCATATGGAC
Found at i:92070 original size:31 final size:31
Alignment explanation
Indices: 91877--92607 Score: 377
Period size: 31 Copynumber: 23.5 Consensus size: 31
91867 CATTGGCTTA
* * *
91877 TGTGGACTTTGAAAAGAG-AGCCACCAATTTG
1 TGTGGACTTTGAAAA-AGTTGCCACTAACTTG
* *
91908 TGTGG-CTTAAGAAAAAGTTACCACTAACTTG
1 TGTGGACTT-TGAAAAAGTTGCCACTAACTTG
* *
91939 TGTGGACTTTTGAAAAGGTTGCCACCAACTCTG
1 TGTGGAC-TTTGAAAAAGTTGCCACTAACT-TG
* * * *
91972 TG-GG-CTTAAGAAAAGGTTGCCACCAACTTA
1 TGTGGACTT-TGAAAAAGTTGCCACTAACTTG
* * * *
92002 TGTAGACTTTTGAAAAGGTTGTCACCAACTTG
1 TGTGGAC-TTTGAAAAAGTTGCCACTAACTTG
*
92034 TGTGGACTTTGAAAAAGTTGCCACCAACTTG
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
*
92065 TGTGGACTTTGAAAATA-TTGTCACTAAC-T-
1 TGTGGACTTTGAAAA-AGTTGCCACTAACTTG
* * * **
92094 TATGGACTTT-AAAAATGTTGCTACCAACTCA
1 TGTGGACTTTGAAAAA-GTTGCCACTAACTTG
* *
92125 TGTGGACTTTGAAAAGGGTGCCACTAAC-T-
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
* * *
92154 TGTGGATTTTGAAAAGGTTGCCACTGACTCT-
1 TGTGGACTTTGAAAAAGTTGCCACTAACT-TG
* * *
92185 TGT-GACTTTGAAAAGGGTGTCACTAAC-T-
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
*
92213 TGTGGACTTTGAAAAA-TGTGCCACTGA-TT-
1 TGTGGACTTTGAAAAAGT-TGCCACTAACTTG
* * * * ***
92242 TATGGGCTTTTAAAAGGTTTAGTTGCCACTGACCCA
1 TGTGGACTTTGAAAA-----AGTTGCCACTAACTTG
92278 TGTGGACTTTGAAAAAGTTCAATTGCCACTAACTCT-
1 TGTGGACTTTGAAAAAG-----TTGCCACTAACT-TG
* * *
92314 TATGGACTTTGAAAAAGGTTTGGTTACCACTGACTCG
1 TGTGGACTTTGAAAAA-G-TT-G---CCACTAACTTG
* * **
92351 TGTGGACTTTGAAAAAGGTGCCACCAACTCA
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
* * * **
92382 TGTGGGC-TTAAAAAGAGGTTGCCACCAACTCA
1 TGTGGACTTTGAAAA-A-GTTGCCACTAACTTG
* *
92414 TGTGGACTTTTGAAAAGGTTGCCACCAACTTG
1 TGTGGAC-TTTGAAAAAGTTGCCACTAACTTG
* * * *
92446 TGTGGACTTTTAAAAGGTTGCCACCAACTCG
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
* *
92477 TGTGGACTTTGAAAAGGGTAG-CACTAAC-T-
1 TGTGGACTTTGAAAA-AGTTGCCACTAACTTG
* *
92506 TGTGGACTTTGAAAAGGTTGCCACAAACTTG
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
* *
92537 T-TCAGACTTTGAAAAAGGTGCCACTAACTT-
1 TGT-GGACTTTGAAAAAGTTGCCACTAACTTG
* * * *
92567 AG-GGACTTT-CAAAAGGTGCCA-TGAC-T-
1 TGTGGACTTTGAAAAAGTTGCCACTAACTTG
92593 TGTGGACTTTGAAAA
1 TGTGGACTTTGAAAA
92608 GGTGTGATTG
Statistics
Matches: 560, Mismatches: 88, Indels: 107
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.00
27 11 0.02
28 26 0.05
29 100 0.18
30 39 0.07
31 196 0.35
32 94 0.17
33 10 0.02
34 18 0.03
35 2 0.00
36 38 0.07
37 24 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (31 bp):
TGTGGACTTTGAAAAAGTTGCCACTAACTTG
Found at i:92122 original size:60 final size:60
Alignment explanation
Indices: 91873--92610 Score: 394
Period size: 63 Copynumber: 11.8 Consensus size: 60
91863 TTGCCATTGG
* * * * * * * * *
91873 CTTATGTGGACTTTGAAAAGAG-AGCCACCAATTTGTGTGGCTTAAGAAAAAGTTACCACTAA
1 CTTATGTGGACTTTGAAAAG-GTTGTCACTAACTTGTG-GACTTTA-AAAAGGTTGCCACCAA
* * * * *
91935 CTTGTGTGGACTTTTGAAAAGGTTGCCACCAACTCTGTGGGCTTAAGAAAAGGTTGCCACCAA
1 CTTATGTGGAC-TTTGAAAAGGTTGTCACTAACT-TGTGGACTTTA-AAAAGGTTGCCACCAA
* *
91998 CTTATGTAGACTTTTGAAAAGGTTGTCACCAACTTGTGTGGACTTTGAAAAA-GTTGCCACCAA
1 CTTATGTGGAC-TTTGAAAAGGTTGTCACTAAC-T-TGTGGACTTT-AAAAAGGTTGCCACCAA
* ** * * *
92061 CTTGTGTGGACTTTGAAAATATTGTCACTAACTTATGGACTTTAAAAATGTTGCTACCAA
1 CTTATGTGGACTTTGAAAAGGTTGTCACTAACTTGTGGACTTTAAAAAGGTTGCCACCAA
* * * * * **
92121 CTCATGTGGACTTTGAAAAGGGTGCCACTAACTTGTGGATTTTGAAAAGGTTGCCACTGA
1 CTTATGTGGACTTTGAAAAGGTTGTCACTAACTTGTGGACTTTAAAAAGGTTGCCACCAA
* * **
92181 CTCT-TGT-GACTTTGAAAAGGGTGTCACTAACTTGTGGACTTTGAAAAATG-TGCCACTGA
1 CT-TATGTGGACTTTGAAAAGGTTGTCACTAACTTGTGGACTTT-AAAAAGGTTGCCACCAA
* * * * *
92240 TTTATG-GG-CTTTTAAAAGGTTTAGTTGCCACTGACCCATGTGGACTTTGAAAAAGTTCAATTG
1 CTTATGTGGACTTTGAAAAGG-TT-G-T--CACT-A-ACTTGTGGACTTT-AAAAAG----GTTG
*
92303 CCACTAA
54 CCACCAA
* *
92310 CTCT-TATGGACTTTGAAAAAGGTTTGGTTACCACTGACTCGTGTGGACTTTGAAAAAGG-TGCC
1 CT-TATGTGGACTTTG-AAAAGG-TT-G-T--CACTAACT--TGTGGACTTT-AAAAAGGTTGCC
92373 ACCAA
56 ACCAA
* * ** * * *
92378 CTCATGTGGGCTTAAAAAGAGGTTGCCACCAACTCATGTGGACTTTTGAAAAGGTTGCCACCAA
1 CTTATGTGGACTTTGAAA-AGGTTGTCACTAACT--TGTGGAC-TTTAAAAAGGTTGCCACCAA
* * * * * * *
92442 CTTGTGTGGACTTTTAAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGGTAG-CACTAA
1 CTTATGTGGACTTTGAAAAGGTTGTCACTAACT--TGTGGACTTT-AAAAAGGTTGCCACCAA
* * * *
92504 C-T-TGTGGACTTTGAAAAGGTTGCCACAAACTTGTTCAGACTTTGAAAAAGG-TGCCACTAA
1 CTTATGTGGACTTTGAAAAGGTTGTCACTAACTTG-T-GGACTTT-AAAAAGGTTGCCACCAA
* * * *
92564 CTTA-G-GGACTTTCAAAAGG-TGCCA-TGACTTGTGGACTTTGAAAAGGT
1 CTTATGTGGACTTTGAAAAGGTTGTCACTAACTTGTGGACTTTAAAAAGGT
92611 GTGATTGCCA
Statistics
Matches: 552, Mismatches: 85, Indels: 84
0.77 0.12 0.12
Matches are distributed among these distances:
55 6 0.01
56 6 0.01
57 1 0.00
58 18 0.03
59 59 0.11
60 137 0.25
61 5 0.01
62 38 0.07
63 143 0.26
64 43 0.08
65 18 0.03
66 1 0.00
67 5 0.01
68 20 0.04
70 10 0.02
71 4 0.01
72 4 0.01
73 34 0.06
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (60 bp):
CTTATGTGGACTTTGAAAAGGTTGTCACTAACTTGTGGACTTTAAAAAGGTTGCCACCAA
Found at i:92357 original size:37 final size:37
Alignment explanation
Indices: 92253--92369 Score: 146
Period size: 37 Copynumber: 3.2 Consensus size: 37
92243 ATGGGCTTTT
*
92253 AAAAGGTTTAGTTGCCACTGACCCATGTGGACTTTGA
1 AAAAGGTTTAGTTGCCACTGACTCATGTGGACTTTGA
* * * * *
92290 AAAA-GTTCAATTGCCACTAACTCTTATGGACTTTGA
1 AAAAGGTTTAGTTGCCACTGACTCATGTGGACTTTGA
* * *
92326 AAAAGGTTTGGTTACCACTGACTCGTGTGGACTTTGA
1 AAAAGGTTTAGTTGCCACTGACTCATGTGGACTTTGA
92363 AAAAGGT
1 AAAAGGT
92370 GCCACCAACT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
36 30 0.45
37 36 0.55
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (37 bp):
AAAAGGTTTAGTTGCCACTGACTCATGTGGACTTTGA
Found at i:92431 original size:63 final size:62
Alignment explanation
Indices: 91951--92610 Score: 295
Period size: 60 Copynumber: 10.6 Consensus size: 62
91941 TGGACTTTTG
* * * * **
91951 AAAAGGTTGCCACCAACTC-TGTGGGCTTAAGAAAAGGTTGCCACCAACTTATGTAGACTTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTT-TGAAAAGGTTGCCACCAACTCATGTGGAC-TTAA
* * * ** **
92014 AAAAGGTTGTCACCAACTTGTGTGGACTTTGAAAAAGTTGCCACCAACTTGTGTGGACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAA
** * * * * * * **
92076 AAAATATTGTCACTAACT--TATGGACTTTAAAAATGTTGCTACCAACTCATGTGGACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAA
* * * ** * **
92136 AAAAGGGTGCCACTAACT--TGTGGATTTTGAAAAGGTTGCCACTGACTCTTGT-GACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAA
* * * * ** * * *
92195 AAAAGGGTGTCACTAACT--TGTGGACTTTGAAAA-ATGTGCCACTGATTTATG-GG-CTTTTA
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGT-TGCCACCAACTCATGTGGAC-TTAA
* ** * * * * * *
92254 AAAGGTTTAGTTGCCACTGACCCATGTGGACTTTGAAAAAGTTCAATTGCCACTAACTCTTATGG
1 AAAAG----GTTGCCACCAACTCGTGTGGACTTTG-AAAAG----GTTGCCACCAACTCATGTGG
*
92319 ACTTTGA
57 AC-TTAA
** *
92326 AAAAGGTTTGGTTACCACTGACTCGTGTGGACTTTGAAAAAGG-TGCCACCAACTCATGTGGGCT
1 AAAAGG-TT-G---CCACCAACTCGTGTGGACTTTG-AAAAGGTTGCCACCAACTCATGTGGACT
92390 TAA
60 TAA
* ** **
92393 AAAGAGGTTGCCACCAACTCATGTGGACTTTTGAAAAGGTTGCCACCAACTTGTGTGGACTTTT
1 AAA-AGGTTGCCACCAACTCGTGTGGAC-TTTGAAAAGGTTGCCACCAACTCATGTGGACTTAA
* * **
92457 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGGTAG-CACTAACT--TGTGGACTTTG
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAA-GGTTGCCACCAACTCATGTGGACTTAA
* * * * * **
92517 AAAAGGTTGCCACAAACTTGT-TCAGACTTTGAAAAAGG-TGCCACTAACTTA-G-GGACTTTC
1 AAAAGGTTGCCACCAACTCGTGT-GGACTTTG-AAAAGGTTGCCACCAACTCATGTGGACTTAA
**
92577 AAAAGG-TGCCA-TGACT--TGTGGACTTTGAAAAGGT
1 AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGT
92611 GTGATTGCCA
Statistics
Matches: 488, Mismatches: 75, Indels: 75
0.76 0.12 0.12
Matches are distributed among these distances:
55 6 0.01
56 8 0.02
57 1 0.00
58 5 0.01
59 65 0.13
60 135 0.28
61 5 0.01
62 34 0.07
63 99 0.20
64 34 0.07
65 11 0.02
66 5 0.01
67 8 0.02
68 20 0.04
69 2 0.00
70 11 0.02
71 4 0.01
72 9 0.02
73 26 0.05
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (62 bp):
AAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGTTGCCACCAACTCATGTGGACTTAA
Found at i:93987 original size:149 final size:147
Alignment explanation
Indices: 93804--94215 Score: 388
Period size: 149 Copynumber: 2.8 Consensus size: 147
93794 TTAGAGGACA
* * * * *
93804 TAAAAAGGAAAAGTAAACCTAAGCCTAGTACGTACCTTCAGCATAGAATAGACCCGGTGAAAAAT
1 TAAAAAGGAAAAGCAAACCTCA-CCTAATACGTACCTT-AGCATAGAATAGACCCAGTGATAAAT
* * ** * *
93869 TAAGACTTGGTTCTAAAAAAATTACAAAAATACCCCTATGGGCATACCTTTTATATGAAAGTATC
64 TAGGACTTGGTTCTAAAAAAATTACAAAAATGCCCCTATGGGCATACCTTGGACATGAAAATATC
*
93934 -CTGATAACCCTAAAAGACT
129 TC-GATAACACTAAAAGACT
* * *
93953 TAAAAAGAAAAAGCAAACCTGCACCTAATACGTACCCTTGGCATAAAAGT-GACCCAGTGATAAA
1 TAAAAAGGAAAAGCAAACCT-CACCTAATACGTA-CCTTAGCATAGAA-TAGACCCAGTGATAAA
* * ** * *
94017 TTAGGACTTAGTTCTAGAAAAATTATGAAAATGCCCTTATGGGTATACCTTGGACATGAAAATAT
63 TTAGGACTTGGTTCTAAAAAAATTACAAAAATGCCCCTATGGGCATACCTTGGACATGAAAATAT
* * *
94082 CTCGGTAATATTAAAAGACT
128 CTCGATAACACTAAAAGACT
* * *
94102 TAAAAGGGAAAAGCGAAA-CT-ACGCTTAATACGTACGC-TAGGCATAGAA-ACGACTCAATGAT
1 TAAAAAGGAAAAGC-AAACCTCAC-C-TAATACGTAC-CTTA-GCATAGAATA-GACCCAGTGAT
* * * *
94163 AAAGTAGGACTTGATTCTAAAAAAATTACAAAAATGCCTCTA-GGGGATACCTT
60 AAATTAGGACTTGGTTCTAAAAAAATTACAAAAATGCCCCTATGGGCATACCTT
94216 CGACTTAGAA
Statistics
Matches: 213, Mismatches: 39, Indels: 23
0.77 0.14 0.08
Matches are distributed among these distances:
147 2 0.01
148 13 0.06
149 188 0.88
150 10 0.05
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (147 bp):
TAAAAAGGAAAAGCAAACCTCACCTAATACGTACCTTAGCATAGAATAGACCCAGTGATAAATTA
GGACTTGGTTCTAAAAAAATTACAAAAATGCCCCTATGGGCATACCTTGGACATGAAAATATCTC
GATAACACTAAAAGACT
Found at i:95225 original size:13 final size:13
Alignment explanation
Indices: 95207--95265 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
95197 TACACAAAGT
95207 ATGTATCGATACA
1 ATGTATCGATACA
95220 ATGTATCGATACACAAAAA
1 ATGTATCGAT--AC----A
95239 ATTGTATCGATACA
1 A-TGTATCGATACA
95253 ATGTATCGATACA
1 ATGTATCGATACA
95266 TTGGCTTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 9 0.23
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:95230 original size:32 final size:33
Alignment explanation
Indices: 95189--95265 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
95179 TAGCTAAACT
**
95189 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
95221 TGTATCGATACACAAAAAATTGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
95254 TGTATCGATACA
1 TGTATCGATACA
95266 TTGGCTTGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 17 0.40
33 25 0.60
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:95444 original size:15 final size:15
Alignment explanation
Indices: 95424--95453 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
95414 CTACAACAAC
95424 ATTGAAGCCTATAAA
1 ATTGAAGCCTATAAA
95439 ATTGAAGCCTATAAA
1 ATTGAAGCCTATAAA
95454 TAAAAGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
ATTGAAGCCTATAAA
Found at i:99347 original size:15 final size:15
Alignment explanation
Indices: 99327--99357 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
99317 TAAAAATGTC
*
99327 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
99342 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
99357 C
1 C
99358 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:101456 original size:13 final size:13
Alignment explanation
Indices: 101438--101475 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
101428 CATTTTTCTT
101438 TGTATCGATACAA
1 TGTATCGATACAA
*
101451 TGTATCGATACAC
1 TGTATCGATACAA
*
101464 TATATCGATACA
1 TGTATCGATACA
101476 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:101630 original size:20 final size:20
Alignment explanation
Indices: 101587--101632 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
101577 AAATCTTTTG
101587 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
101608 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
101628 CAAAA
1 CAAAA
101633 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:103292 original size:21 final size:20
Alignment explanation
Indices: 103246--103294 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
103236 AGAGAATAGA
103246 TGTATGTGCAAATAAATTTT
1 TGTATGTGCAAATAAATTTT
*
103266 TGTATGTGCGAATAAATTTT
1 TGTATGTGCAAATAAATTTT
103286 TGATATGTG
1 TG-TATGTG
103295 TGTAAATTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.31, C:0.04, G:0.20, T:0.45
Consensus pattern (20 bp):
TGTATGTGCAAATAAATTTT
Found at i:104062 original size:13 final size:13
Alignment explanation
Indices: 104044--104069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104034 TACACAAAGT
104044 ATGTATCGATACA
1 ATGTATCGATACA
104057 ATGTATCGATACA
1 ATGTATCGATACA
104070 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:104088 original size:34 final size:32
Alignment explanation
Indices: 104026--104090 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
104016 TAGCCAAACT
**
104026 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
104058 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
104091 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:105491 original size:164 final size:163
Alignment explanation
Indices: 105184--105555 Score: 392
Period size: 165 Copynumber: 2.3 Consensus size: 163
105174 TTTCAAAACC
* * * * * *
105184 AATTTAATATGAGTTAATTTATGATATTTAATGAATTTTAAAGATTTTAAACCAAGAAAAATCCT
1 AATTTAATATAAGTTAAATGATGATATTTAATGAAATTTAAAGAATATAAACCAAGAAAAATCCT
* * * * * *
105249 CTCAAAAACATTTATGGAGTAGAAAACTCCGTATTTCAAAAATAAAAAAATTTCAAGGAAAAAAT
66 CCCAAAAAAATTTACGGAGTAAAAAACTACATATTTCAAAAATAAAAAAATTTCAAGG-AAAAAT
*
105314 AAAAAATTCATGAAAATAAATTTATTTTTAAAATT
130 AAAAAACTCATG-AAATAAATTTATTTTTAAAATT
*
105349 AATTTAATATAAGTTAAATGATGATATTTGATGAAATTTAAA-AATATAAACCAAGAAAAATCCT
1 AATTTAATATAAGTTAAATGATGATATTTAATGAAATTTAAAGAATATAAACCAAGAAAAATCCT
* * *
105413 CCCAAAAAAATTTACGGAGTAAAAAACTACATATTTTAGAAATAGAAAGAA-TTCTAATGG-AAA
66 CCCAAAAAAATTTACGGAGTAAAAAACTACATATTTCAAAAATA-AAAAAATTTC-AA-GGAAAA
* * *** * *
105476 ATCAATAACTCATGAAATAAAAGGAAATTTTCAAAACT
128 ATAAAAAACTCATGAAAT-AAA-TTTATTTTTAAAATT
* * * *
105514 AATTTCATAGTAA-TTAAATAATGATATTTAAAGAATTTTAAA
1 AATTTAATA-TAAGTTAAATGATGATATTTAATGAAATTTAAA
105556 ATTAAAAATT
Statistics
Matches: 172, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
163 4 0.02
164 76 0.44
165 87 0.51
166 5 0.03
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (163 bp):
AATTTAATATAAGTTAAATGATGATATTTAATGAAATTTAAAGAATATAAACCAAGAAAAATCCT
CCCAAAAAAATTTACGGAGTAAAAAACTACATATTTCAAAAATAAAAAAATTTCAAGGAAAAATA
AAAAACTCATGAAATAAATTTATTTTTAAAATT
Found at i:106635 original size:85 final size:85
Alignment explanation
Indices: 106541--106706 Score: 208
Period size: 85 Copynumber: 2.0 Consensus size: 85
106531 ATAAAAGGGG
* * * * * *
106541 TTACTTAGGACTAAGCCGATAGGTAAACAAAAGAGAACAAA-GTTGACCAGGATTAAACCGATAA
1 TTACCTAGGACTAAGCCGATAGGGAAACAAAAGAGAA-AAAGGTTAACCAAGATTAAACCAACAA
106605 GTCAACAAAAGATAAAAAGAT
65 GTCAACAAAAGATAAAAAGAT
** * * *
106626 TTACCTAGGACTAAGTTGATAGGGAAACAAAGGATAAAAAGGTTAACCAAGATTGAACCAACAAG
1 TTACCTAGGACTAAGCCGATAGGGAAACAAAAGAGAAAAAGGTTAACCAAGATTAAACCAACAAG
*
106691 TCAACAAAGGATAAAA
66 TCAACAAAAGATAAAA
106707 GACTTAACCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 3 0.04
85 65 0.96
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.17
Consensus pattern (85 bp):
TTACCTAGGACTAAGCCGATAGGGAAACAAAAGAGAAAAAGGTTAACCAAGATTAAACCAACAAG
TCAACAAAAGATAAAAAGAT
Found at i:106901 original size:35 final size:35
Alignment explanation
Indices: 106862--107520 Score: 584
Period size: 35 Copynumber: 19.1 Consensus size: 35
106852 TCAAATGAAA
* * * * *
106862 ATGAAAAGGGTTTGACTAGATAAAGGCAAACAATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* *
106897 ATGAAAAGAGTTTGACCAGATACA-ACTAAACGAT-
1 ATGAAAAGAGTTTGACCAGATATAGTC-AAACGATG
** * * *
106931 AAAAAAAGAGTTTGACCAGATACAATCAAACAATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
*
106966 ATGAAAAGAGTTTGACCAGATATAGCCAAACGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * ** *
107001 ATGGAAAA-AGTTTGACTAGATACAACCAAAAGATG
1 AT-GAAAAGAGTTTGACCAGATATAGTCAAACGATG
* *
107036 ATGAAAAGAGTTTGACCATATATAGTCAAATGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * * *
107071 AT-AGAATGAGTTTAACCAGATA-CGATTAAACGATG
1 ATGA-AAAGAGTTTGACCAGATATAG-TCAAACGATG
* * * *
107106 ATGAAAAGAGTTTGACCAAATACAATCAAACAATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * *
107141 ATGGAAAGAGTTTGACTAG--ATA--C-AATGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* *
107171 --GAAAAG-GTTTGACCAGATATAG-CCAATGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * *
107202 ATGAAAAGAGTTTGACTAGATACAGTCAAATGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * * *
107237 ATGACAAGAGTTTGACTAGATATAGTTAAATGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* *
107272 ATGAAAAGAGTTTGACCA-A-AT-G-CAACCAATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* *
107303 ATGTTAAAAAGAGTTTGACTAGATATAGTCAAATGATG
1 ATG---AAAAGAGTTTGACCAGATATAGTCAAACGATG
* * **
107341 ATGAAAAGAGTTTGACTAGATACAGTTGAACGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
*
107376 ATGAAAAGAGTTTGACCAGATATAGTCGAACGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
* * * *
107411 AT-AGAAAGAGCTTGACCGGATATAGCCAAATGATG
1 ATGA-AAAGAGTTTGACCAGATATAGTCAAACGATG
* * *
107446 ATGGAAAGAGTTTGACTAGATATAGCCAAACGATG
1 ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
*
107481 ATGGAAAA-AGTTTGACCAGATATAGCCAAACGATG
1 AT-GAAAAGAGTTTGACCAGATATAGTCAAACGATG
107516 ATGAA
1 ATGAA
107521 TTGGTTGGCT
Statistics
Matches: 516, Mismatches: 81, Indels: 55
0.79 0.12 0.08
Matches are distributed among these distances:
27 9 0.02
28 5 0.01
29 3 0.01
30 6 0.01
31 16 0.03
32 1 0.00
33 10 0.02
34 69 0.13
35 375 0.73
36 12 0.02
37 1 0.00
38 9 0.02
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (35 bp):
ATGAAAAGAGTTTGACCAGATATAGTCAAACGATG
Found at i:107173 original size:27 final size:27
Alignment explanation
Indices: 107135--107225 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 27
107125 ATACAATCAA
107135 ACAATGATGGAAAGAGTTTGACTAGAT
1 ACAATGATGGAAAGAGTTTGACTAGAT
*
107162 ACAATGATGGAAA-AGGTTTGACCAGATAT
1 ACAATGATGGAAAGA-GTTTGACTAG--AT
107191 AGCCAATGATGATGAAAAGAGTTTGACTAGAT
1 A--CAATGATG--G-AAAGAGTTTGACTAGAT
107223 ACA
1 ACA
107226 GTCAAATGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
26 1 0.02
27 22 0.42
29 3 0.06
30 2 0.04
31 8 0.15
32 3 0.06
33 1 0.02
34 12 0.23
35 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.24
Consensus pattern (27 bp):
ACAATGATGGAAAGAGTTTGACTAGAT
Found at i:107484 original size:340 final size:340
Alignment explanation
Indices: 106862--107502 Score: 802
Period size: 340 Copynumber: 1.9 Consensus size: 340
106852 TCAAATGAAA
*
106862 ATGAAAAGGGTTTGACTAGATAAAGGCAAACAATGATGAAAAGAGTTTGACCAGATACAACTAAA
1 ATGAAAAGAGTTTGACTAGATAAAGGCAAACAATGATGAAAAGAGTTTGACCAGATACAACTAAA
* *
106927 CGATAAAAAAAGAGTTTGACCAGATACAATCAAACAATGATGAAAAGAGTTTGACCAGATATAGC
66 CGATAAAAAAAGAGTTTGACCAAATACAATCAAACAATGATAAAAAGAGTTTGACCAGATATAGC
*
106992 CAAACGATGATGGAAAAAGTTTGACTAGATACAACCAAAAGATGATGAAAAGAGTTTGACCATAT
131 CAAACGATGATGGAAAAAGTTTGACTAGATACAACCAAAAGATGATGAAAAGAGTTTGACCAGAT
* * * * **
107057 ATAGTCAAATGATGATAGAATGAGTTTAACCAGATACGATTAAACGATGATGAAAAGAGTTTGAC
196 ATAGTCAAACGATGATAGAAAGAGCTTAACCAGATAAGACCAAACGATGATGAAAAGAGTTTGAC
* * *
107122 CAAATACAATCAAACAATGATGGAAAGAGTTTGACTAGATACAATGATGGAAAAGGTTTGACCAG
261 CAAATACAACCAAACAATGATGGAAAAAGTTTGACCAGATACAATGATGGAAAAGGTTTGACCAG
107187 ATATAGCCAATGATG
326 ATATAGCCAATGATG
* * ** * * * **
107202 ATGAAAAGAGTTTGACTAGATACAGTCAAATGATGATGACAAGAGTTTGACTAGATATAGTTAAA
1 ATGAAAAGAGTTTGACTAGATAAAGGCAAACAATGATGAAAAGAGTTTGACCAGATACAACTAAA
* ** * * ** * *
107267 TGATGATGAAAAGAGTTTGACCAAATGCAA-CCAATGATGTTAAAAAGAGTTTGACTAGATATAG
66 CGAT-AAAAAAAGAGTTTGACCAAATACAATCAAACAATGATAAAAAGAGTTTGACCAGATATAG
* * **** *
107331 TCAAATGATGAT-GAAAAGAGTTTGACTAGATACAGTTGAACGATGATGAAAAGAGTTTGACCAG
130 CCAAACGATGATGGAAAA-AGTTTGACTAGATACAACCAAAAGATGATGAAAAGAGTTTGACCAG
* * * * *
107395 ATATAGTCGAACGATGATAGAAAGAGCTTGACCGGATATAG-CCAAATGATGATGGAAAGAGTTT
194 ATATAGTCAAACGATGATAGAAAGAGCTTAACCAGATA-AGACCAAACGATGATGAAAAGAGTTT
* * * * *
107459 GACTAGATATAGCCAAACGATGATGGAAAAAGTTTGACCAGATA
258 GACCAAATACAACCAAACAATGATGGAAAAAGTTTGACCAGATA
107503 TAGCCAAACG
Statistics
Matches: 250, Mismatches: 48, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
339 5 0.02
340 223 0.89
341 22 0.09
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (340 bp):
ATGAAAAGAGTTTGACTAGATAAAGGCAAACAATGATGAAAAGAGTTTGACCAGATACAACTAAA
CGATAAAAAAAGAGTTTGACCAAATACAATCAAACAATGATAAAAAGAGTTTGACCAGATATAGC
CAAACGATGATGGAAAAAGTTTGACTAGATACAACCAAAAGATGATGAAAAGAGTTTGACCAGAT
ATAGTCAAACGATGATAGAAAGAGCTTAACCAGATAAGACCAAACGATGATGAAAAGAGTTTGAC
CAAATACAACCAAACAATGATGGAAAAAGTTTGACCAGATACAATGATGGAAAAGGTTTGACCAG
ATATAGCCAATGATG
Found at i:108912 original size:88 final size:89
Alignment explanation
Indices: 108792--109014 Score: 233
Period size: 87 Copynumber: 2.5 Consensus size: 89
108782 GTGTGTAACG
* * ** *
108792 ATGCAACCATTAATAAAGTGGCAAATGCATATGAAATGATGCAAATGTC-AATGTCATCTAAAGT
1 ATGCAAACATCAATAAAAAGGCAAATGCATATGAAATGATGCAAATGTCTAATGTCATCTAAAAT
* * *
108856 GC-TGGTGT-GAGTGAAATAATGCAA
66 GCAT-ATATAG-GTGAAAGAATGCAA
* * *
108880 ATGCAAGCATCAATAAAAAGGCAAATGCATATG-AATGATGCAAAT-ACTAATGTTATCTAAAAT
1 ATGCAAACATCAATAAAAAGGCAAATGCATATGAAATGATGCAAATGTCTAATGTCATCTAAAAT
* *
108943 GCATATATAGGTGGAAGGATGCAA
66 GCATATATAGGTGAAAGAATGCAA
* * *
108967 ATGAAAACATCAACAAAGAA-TCAAATGCATATGAAATGATGCAAATGT
1 ATGCAAACATCAATAAA-AAGGCAAATGCATATGAAATGATGCAAATGT
109015 GAATATGGTC
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
86 1 0.01
87 66 0.59
88 45 0.40
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.24
Consensus pattern (89 bp):
ATGCAAACATCAATAAAAAGGCAAATGCATATGAAATGATGCAAATGTCTAATGTCATCTAAAAT
GCATATATAGGTGAAAGAATGCAA
Found at i:114691 original size:13 final size:13
Alignment explanation
Indices: 114675--114705 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
114665 CTAAGTATTG
114675 ATACATTGTATCA
1 ATACATTGTATCA
*
114688 ATACATTGTATCG
1 ATACATTGTATCA
114701 ATACA
1 ATACA
114706 GGGTTACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (13 bp):
ATACATTGTATCA
Found at i:116290 original size:15 final size:15
Alignment explanation
Indices: 116270--116301 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
116260 TTATTTTTCC
116270 TCTAGTGACGATGAG
1 TCTAGTGACGATGAG
116285 TCTAGTGACGATGAG
1 TCTAGTGACGATGAG
116300 TC
1 TC
116302 GTAGGATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (15 bp):
TCTAGTGACGATGAG
Found at i:117246 original size:20 final size:20
Alignment explanation
Indices: 117221--117272 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
117211 ACTCTAGAAA
117221 GTATCGATACATATCCAGA-T
1 GTATCGATACATATCCA-ATT
*
117241 GTATCGATACATATTCAATT
1 GTATCGATACATATCCAATT
117261 GTATCGATACAT
1 GTATCGATACAT
117273 GAAATTGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
GTATCGATACATATCCAATT
Found at i:118939 original size:3 final size:3
Alignment explanation
Indices: 118924--118955 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
118914 AACCATCAAA
*
118924 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
118956 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:122157 original size:26 final size:26
Alignment explanation
Indices: 122128--122183 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
122118 TTTTATTAAA
*
122128 ACAAAAGGAAAAGAA-ATTTTAATAGT
1 ACAAAAGGAAAA-AATATTGTAATAGT
**
122154 ACAAGTGGAAAAAATATTGTAATAGT
1 ACAAAAGGAAAAAATATTGTAATAGT
122180 ACAA
1 ACAA
122184 GTATACATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.23
Consensus pattern (26 bp):
ACAAAAGGAAAAAATATTGTAATAGT
Found at i:122184 original size:26 final size:26
Alignment explanation
Indices: 122134--122185 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
122124 TAAAACAAAA
*
122134 GGAAAAGAAATTTTAATAGTACAAGT
1 GGAAAAGAAATTGTAATAGTACAAGT
122160 GGAAAA-AATATTGTAATAGTACAAGT
1 GGAAAAGAA-ATTGTAATAGTACAAGT
122186 ATACATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (26 bp):
GGAAAAGAAATTGTAATAGTACAAGT
Found at i:127044 original size:42 final size:43
Alignment explanation
Indices: 126992--127077 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
126982 AGAGCTTACA
* * *
126992 AAGTCCAATGTTGCTCGCCTT-AATTAGCACATTGGCACCTTT
1 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
*
127034 AAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
127077 A
1 A
127078 CTATATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 18 0.46
43 21 0.54
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (43 bp):
AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
Found at i:127109 original size:52 final size:50
Alignment explanation
Indices: 127031--127327 Score: 188
Period size: 52 Copynumber: 5.8 Consensus size: 50
127021 CATTGGCACC
*
127031 TTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACTAT
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTAC-AT
** * *
127082 ATTTAAGTCCAATGTCATTGGCCTTGAATCAGCACA-TAGCACC-TT-CAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACAT
* * * ** * *
127130 CTTTAAGTCCTATCTCGCTGGCCTTGAATCAATATATTGGCATCTTTAACAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACAT
* * * * *
127182 TCCTAAGCCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCA-TTATTCTCAT
1 T-TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCT-TT-ACAT
* * * * * * * * **
127234 CTTCAAGTCTAATGTCGCTGGCCGTGAATTAGCATATTGACATTCTTCGCAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CCTTTACAT
* * * * *
127286 TCCTAAGCCCAATGTTGCTGGCCTTGAATCAACACATTGGCA
1 T-TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA
127328 TTTTTCTCAT
Statistics
Matches: 185, Mismatches: 50, Indels: 20
0.73 0.20 0.08
Matches are distributed among these distances:
48 30 0.16
49 6 0.03
50 4 0.02
51 9 0.05
52 133 0.72
53 2 0.01
54 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (50 bp):
TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACAT
Found at i:127169 original size:100 final size:100
Alignment explanation
Indices: 127030--127216 Score: 227
Period size: 100 Copynumber: 1.9 Consensus size: 100
127020 ACATTGGCAC
* * * *
127030 CTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACTATAT-TTAAGTCCA
1 CTTTAAGTCTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAAC-AT-TCCTAAGCCCA
* *
127093 ATGTCATTGGCCTTGAATCAGCACATAGCACCTTCAT
64 ATGTCACTAGCCTTGAATCAGCACATAGCACCTTCAT
* * * *
127130 CTTTAAGTCCT-ATCTCGCTGGCCTTGAATCAATATATTGGCATCTTTAACATTCCTAAGCCCAA
1 CTTTAAGT-CTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAACATTCCTAAGCCCAA
*
127194 TGTCGCTAGCCTTGAATCAGCAC
65 TGTCACTAGCCTTGAATCAGCAC
127217 GTTGGCATTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
99 1 0.01
100 68 0.93
101 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (100 bp):
CTTTAAGTCTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAACATTCCTAAGCCCAAT
GTCACTAGCCTTGAATCAGCACATAGCACCTTCAT
Found at i:127271 original size:104 final size:104
Alignment explanation
Indices: 127126--127348 Score: 288
Period size: 104 Copynumber: 2.1 Consensus size: 104
127116 CATAGCACCT
* * * *
127126 TCATCTTTAAGTCCT-ATCTCGCTGGCCTTGAATCAATATATTGGCA-TCTTTAACATTCCTAAG
1 TCATCTTCAAGT-CTAATCTCGCTGGCCGTGAATCAACATATTGACATTC-TTAACATTCCTAAG
* *
127189 CCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCATTATTC
64 CCCAATGTCGCTAGCCTTGAATCAACACATTGGCATTATTC
* * * **
127230 TCATCTTCAAGTCTAATGTCGCTGGCCGTGAATTAGCATATTGACATTCTTCGCATTCCTAAGCC
1 TCATCTTCAAGTCTAATCTCGCTGGCCGTGAATCAACATATTGACATTCTTAACATTCCTAAGCC
* * *
127295 CAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTC
66 CAATGTCGCTAGCCTTGAATCAACACATTGGCATTATTC
127334 TCATCTTCAAGTCTA
1 TCATCTTCAAGTCTA
127349 GAGTATTCAT
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
103 2 0.02
104 99 0.96
105 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (104 bp):
TCATCTTCAAGTCTAATCTCGCTGGCCGTGAATCAACATATTGACATTCTTAACATTCCTAAGCC
CAATGTCGCTAGCCTTGAATCAACACATTGGCATTATTC
Found at i:130524 original size:13 final size:13
Alignment explanation
Indices: 130508--130538 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
130498 CTAAGTATTG
130508 ATACATTGTATCA
1 ATACATTGTATCA
*
130521 ATACATTGTATCG
1 ATACATTGTATCA
130534 ATACA
1 ATACA
130539 GGGTTACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (13 bp):
ATACATTGTATCA
Found at i:132123 original size:15 final size:15
Alignment explanation
Indices: 132103--132134 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
132093 TTATTTTTCC
132103 TCTAGTGACGATGAG
1 TCTAGTGACGATGAG
132118 TCTAGTGACGATGAG
1 TCTAGTGACGATGAG
132133 TC
1 TC
132135 GTAGGATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (15 bp):
TCTAGTGACGATGAG
Found at i:133079 original size:20 final size:20
Alignment explanation
Indices: 133054--133105 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
133044 ACTCTAGAAA
133054 GTATCGATACATATCCAGA-T
1 GTATCGATACATATCCA-ATT
*
133074 GTATCGATACATATTCAATT
1 GTATCGATACATATCCAATT
133094 GTATCGATACAT
1 GTATCGATACAT
133106 GAAACTGGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (20 bp):
GTATCGATACATATCCAATT
Found at i:134772 original size:3 final size:3
Alignment explanation
Indices: 134757--134788 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
134747 AACCATCAAA
*
134757 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
134789 AGTTGACTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.34, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:137990 original size:26 final size:26
Alignment explanation
Indices: 137961--138016 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
137951 TTTTATTAAA
*
137961 ACAAAAGGAAAAGAA-ATTTTAATAGT
1 ACAAAAGGAAAA-AATATTGTAATAGT
**
137987 ACAAGTGGAAAAAATATTGTAATAGT
1 ACAAAAGGAAAAAATATTGTAATAGT
138013 ACAA
1 ACAA
138017 GTATACATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.23
Consensus pattern (26 bp):
ACAAAAGGAAAAAATATTGTAATAGT
Found at i:138017 original size:26 final size:26
Alignment explanation
Indices: 137967--138018 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
137957 TAAAACAAAA
*
137967 GGAAAAGAAATTTTAATAGTACAAGT
1 GGAAAAGAAATTGTAATAGTACAAGT
137993 GGAAAA-AATATTGTAATAGTACAAGT
1 GGAAAAGAA-ATTGTAATAGTACAAGT
138019 ATACATGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.50, C:0.04, G:0.19, T:0.27
Consensus pattern (26 bp):
GGAAAAGAAATTGTAATAGTACAAGT
Found at i:142872 original size:21 final size:21
Alignment explanation
Indices: 142848--142914 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 21
142838 GTTGCTCGCC
142848 TTAATCAGCACATTGGCACCT
1 TTAATCAGCACATTGGCACCT
* *
142869 TTAAGTC--TA-ATGTCGCTAGCCT
1 TTAA-TCAGCACAT-TGGC-A-CCT
*
142891 TGAATCAGCACATTGGCACCT
1 TTAATCAGCACATTGGCACCT
142912 TTA
1 TTA
142915 CTATATTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 12 0.36
22 9 0.27
23 4 0.12
24 2 0.06
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (21 bp):
TTAATCAGCACATTGGCACCT
Found at i:142881 original size:42 final size:43
Alignment explanation
Indices: 142829--142914 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
142819 AGAGCTTACA
* *
142829 AAGTCCAATGTTGCTCGCCTT-AATCAGCACATTGGCACCTTT
1 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
*
142871 AAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
1 AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
142914 A
1 A
142915 CTATATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 18 0.45
43 22 0.55
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (43 bp):
AAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT
Found at i:142946 original size:52 final size:50
Alignment explanation
Indices: 142868--143275 Score: 196
Period size: 52 Copynumber: 7.9 Consensus size: 50
142858 CATTGGCACC
*
142868 TTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACTAT
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTAC-AT
** *
142919 ATTTAAGTCCAATGTCATTAGCCTTGAATCAGCACA-TAGCACC-TT-CAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACAT
* * * ** * *
142967 CTTTAAGTCCTATCTCGCTGGCCTTGAATCAATATATTGGCATCTTTAACAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACAT
* * * * *
143019 TCCTAAGCCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCA-TTATTCTCAT
1 T-TTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCT-TT-ACAT
* * * * * * * * * **
143071 CTTCAAGTCTAATATCGCTGGCCGTGAATTAGCATATTGTACATTCTTCGCAT
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTG-GCA-CCTTTACAT
* * * * ** *
143124 TCCTAAG-CCTAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTCTCAT
1 T-TTAAGTCC-AATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACAT
* * * * * * * * * *
143176 CTTCAAGTCTAATGTCGTTGGCCGTGAATCAGCACGTTGACATTCTTTGCACC
1 -TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCA-CCTTTACA-T
* * * * *
143229 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTA
1 TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTA
143276 TCATCCTTTT
Statistics
Matches: 261, Mismatches: 78, Indels: 35
0.70 0.21 0.09
Matches are distributed among these distances:
48 29 0.11
49 6 0.02
50 4 0.02
51 15 0.06
52 167 0.64
53 38 0.15
54 1 0.00
55 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (50 bp):
TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTTACAT
Found at i:142996 original size:100 final size:100
Alignment explanation
Indices: 142867--143053 Score: 236
Period size: 100 Copynumber: 1.9 Consensus size: 100
142857 ACATTGGCAC
* * * *
142867 CTTTAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGGCACCTTT-ACTATAT-TTAAGTCCA
1 CTTTAAGTCTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAAC-AT-TCCTAAGCCCA
*
142930 ATGTCATTAGCCTTGAATCAGCACATAGCACCTTCAT
64 ATGTCACTAGCCTTGAATCAGCACATAGCACCTTCAT
* * * *
142967 CTTTAAGTCCT-ATCTCGCTGGCCTTGAATCAATATATTGGCATCTTTAACATTCCTAAGCCCAA
1 CTTTAAGT-CTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAACATTCCTAAGCCCAA
*
143031 TGTCGCTAGCCTTGAATCAGCAC
65 TGTCACTAGCCTTGAATCAGCAC
143054 GTTGGCATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
99 1 0.01
100 69 0.93
101 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (100 bp):
CTTTAAGTCTAATCTCGCTAGCCTTGAATCAACACATTGGCACCTTTAACATTCCTAAGCCCAAT
GTCACTAGCCTTGAATCAGCACATAGCACCTTCAT
Found at i:143164 original size:105 final size:104
Alignment explanation
Indices: 143016--143267 Score: 337
Period size: 105 Copynumber: 2.4 Consensus size: 104
143006 GCATCTTTAA
* *
143016 CATTCCTAAGCCCAATGTCGCTAGCCTTGAATCAGCACGTTGGCATTATTCTCATCTTCAAGTCT
1 CATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTATTCTCATCTTCAAGTCT
* *
143081 AATATCGCTGGCCGTGAATTAGCATATTGTACATTCTTCG
66 AATATCGCTGGCCGTGAATCAGCACATTG-ACATTCTTCG
* * * *
143121 CATTCCTAAGCCTAATGTTGCTGGCCTTGAATCAACACATTGGCATTTTTCTCATCTTCAAGTCT
1 CATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTATTCTCATCTTCAAGTCT
* * * *
143186 AATGTCGTTGGCCGTGAATCAGCACGTTGACATTCTTTG
66 AATATCGCTGGCCGTGAATCAGCACATTGACATTCTTCG
* *
143225 CA--CCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGG
1 CATTCC--TAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGG
143268 TACCTTTATC
Statistics
Matches: 128, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
102 2 0.02
104 43 0.34
105 83 0.65
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (104 bp):
CATTCCTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTATTCTCATCTTCAAGTCT
AATATCGCTGGCCGTGAATCAGCACATTGACATTCTTCG
Found at i:144057 original size:51 final size:51
Alignment explanation
Indices: 143999--144128 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 51
143989 AGATAATATT
* * * * *
143999 GATACATTATTCATTATATTGATATATTCTAGGTTTTTACCTAGATGTATC
1 GATACATTATTCATTATATCGATACATTATAGGGTTTTACCCAGATGTATC
* *
144050 GATACATTCA-TCATTGTATCGATACATTATGGGGTTTTACCCAGATGTATC
1 GATACATT-ATTCATTATATCGATACATTATAGGGTTTTACCCAGATGTATC
* *
144101 GATACATTATTCAATGTATCGATACATT
1 GATACATTATTCATTATATCGATACATT
144129 TCGACAAATT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
50 1 0.01
51 67 0.97
52 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (51 bp):
GATACATTATTCATTATATCGATACATTATAGGGTTTTACCCAGATGTATC
Found at i:149123 original size:148 final size:149
Alignment explanation
Indices: 148943--149363 Score: 447
Period size: 149 Copynumber: 2.8 Consensus size: 149
148933 CTTGGTGATT
* ** *
148943 CTAAAGGACTTAAAAAGGAAAAGCAAACCTACGCCTAATAGGAACCCTCGGCATAAAAGCAACCT
1 CTAAAGGACTTAAAAAAGAAAAATAAACCTACGCCTAATACGAACCCTCGGCATAAAAGCAACCT
* ** *
149008 AGTGAAAAATTAGGGCAT-GGTTCTA-AAAAATTACAAAAATACCCCTATAGGCATACCTTTGAC
66 AGTGAAAAATTAGGAC-TCAATTCTAGAAAAATTACAAAAATACCCCTATAGGCATACCTTTAAC
*
149071 ATAAAAGTATCTCGGTAACC
130 ATAAAAGTACCTCGGTAACC
* * * *
149091 CTAAAGGACTTAAAAAAGAAAAATAAACCTACGCCTAATACGTACCCTTGGCATAGAAGCGACCT
1 CTAAAGGACTTAAAAAAGAAAAATAAACCTACGCCTAATACGAACCCTCGGCATAAAAGCAACCT
* ** * * *
149156 AGTGACAAATTAGGACTCAATTCTAGAAAAATTATGAAAATGCCCCTATAGGTATGCCTTTAACA
66 AGTGAAAAATTAGGACTCAATTCTAGAAAAATTACAAAAATACCCCTATAGGCATACCTTTAACA
* *
149221 TGAAAGTACCTTGGTAACC
131 TAAAAGTACCTCGGTAACC
* * * * * **
149240 CTAAAGGACTT-AAAAAGAAAAAACTGAACCTACGCCTAATACGTACCATCGGAACAAAAGTGA-
1 CTAAAGGACTTAAAAAAG-AAAAA-TAAACCTACGCCTAATACGAACCCTCGGCATAAAAGCAAC
* * * * * * * * *
149303 CTAATGAGAAATCAGGACTTAGTTCTAGAAAACTTACAAAAATGCCTCTA-AGGGATACCTT
64 CTAGTGAAAAATTAGGACTCAATTCTAGAAAAATTACAAAAATACCCCTATAGGCATACCTT
149364 CAACTTAGAA
Statistics
Matches: 230, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
147 1 0.00
148 91 0.40
149 106 0.46
150 32 0.14
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (149 bp):
CTAAAGGACTTAAAAAAGAAAAATAAACCTACGCCTAATACGAACCCTCGGCATAAAAGCAACCT
AGTGAAAAATTAGGACTCAATTCTAGAAAAATTACAAAAATACCCCTATAGGCATACCTTTAACA
TAAAAGTACCTCGGTAACC
Found at i:150796 original size:22 final size:23
Alignment explanation
Indices: 150770--150820 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
150760 GTCTCCTTTA
* *
150770 TTTTTCTATGATTTTTTTAATTC
1 TTTTTCCATGACTTTTTTAATTC
*
150793 TTTTTCCATGACTTTTTT-ATTT
1 TTTTTCCATGACTTTTTTAATTC
150815 TTTTTC
1 TTTTTC
150821 ACTTTCCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTTCCATGACTTTTTTAATTC
Found at i:150993 original size:29 final size:29
Alignment explanation
Indices: 150937--151323 Score: 381
Period size: 29 Copynumber: 13.4 Consensus size: 29
150927 ATATTATGTA
* * * *
150937 AAAAGGGTGCTACTGACCTGTAGACTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
150966 AAAATGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
** * *
150995 AAAAGTTTACCACTGACTTGTGGGC-TTA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
151023 AAAAGGTTG-CACTAACTTGTGAGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
151050 AAAAGGGGTGCTACTGACTTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACTTGTGGGCTTTG
* * *
151080 -AAAGGGATGCCATTAACTTGTGAGCTTTG
1 AAAAGGG-TGCCACTGACTTGTGGGCTTTG
* *
151109 AAAAAGGTGCCACTGACTTGTAGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* ** * *
151138 -AAAGGATGCCACCAACTTGTGAGCTTTA
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
151166 AAAAGGGTGCCACTGACTTGTAGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
151195 -AATGGGATGCCACTGACTTGTGGGCTTTG
1 AAAAGGG-TGCCACTGACTTGTGGGCTTTG
* *
151224 AAAAGGATGCCACTGACTTATGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
151253 AAAGGGGTGCCACTGATTTGTAGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
151282 AAAAGGGTGCTACTAACTTATGGACTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
151311 AAAAGGTTGCCAC
1 AAAAGGGTGCCAC
151324 CAACTCATGT
Statistics
Matches: 288, Mismatches: 61, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
27 17 0.06
28 44 0.15
29 218 0.76
30 9 0.03
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (29 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:151196 original size:115 final size:113
Alignment explanation
Indices: 150935--151328 Score: 434
Period size: 115 Copynumber: 3.4 Consensus size: 113
150925 ACATATTATG
* * *
150935 TAAAAAGGGTGCTACTGACCTGTAGACTTTGAAAATGG-TGCCACTAACTTGTGGGCTTTGAAAA
1 TAAAAAGGGTGCTACTGACTTGTAGGCTTTG-AAAGGGATGCCACTAACTTGTGGGCTTTGAAAA
* * ** * *
150999 GTTTACCACTGACTTGTGGGCTTAAAAAGGTTGCACTAACTTGTGAGCTT
65 G-GTGCCACTGACTTGTGGGCTTTGAAAGGATGCACCAACTTGTGAGCTT
* * * *
151049 TAAAAGGGGTGCTACTGACTTGTGGGCTTTGAAAGGGATGCCATTAACTTGTGAGCTTTGAAAAA
1 TAAAAAGGGTGCTACTGACTTGTAGGCTTTGAAAGGGATGCCACTAACTTGTGGGCTTTG-AAAA
*
151114 GGTGCCACTGACTTGTAGGCTTTGAAAGGATGCCACCAACTTGTGAGCTT
65 GGTGCCACTGACTTGTGGGCTTTGAAAGGATG-CACCAACTTGTGAGCTT
* * *
151164 TAAAAAGGGTGCCACTGACTTGTAGGCTTTGAATGGGATGCCACTGACTTGTGGGCTTTGAAAAG
1 TAAAAAGGGTGCTACTGACTTGTAGGCTTTGAAAGGGATGCCACTAACTTGTGGGCTTTGAAAAG
* * ** *
151229 GATGCCACTGACTTATGGGCTTTGAAAGGGGTGCCACTGATTTGT-AGGCTT
66 G-TGCCACTGACTTGTGGGCTTTGAAA-GGATG-CACCAACTTGTGA-GCTT
* * * * * *
151280 TGAAAAGGGTGCTACTAACTTAT-GGACTTTGAAAAGGTTGCCACCAACT
1 TAAAAAGGGTGCTACTGACTTGTAGG-CTTTGAAAGGGATGCCACTAACT
151329 CATGTGAACT
Statistics
Matches: 237, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
113 5 0.02
114 78 0.33
115 100 0.42
116 54 0.23
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (113 bp):
TAAAAAGGGTGCTACTGACTTGTAGGCTTTGAAAGGGATGCCACTAACTTGTGGGCTTTGAAAAG
GTGCCACTGACTTGTGGGCTTTGAAAGGATGCACCAACTTGTGAGCTT
Found at i:152332 original size:33 final size:33
Alignment explanation
Indices: 152285--152351 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
152275 GAAGGCTTGC
* *
152285 TTGATAAGAAAGGTGATACAATTTGATTTATTT
1 TTGACAAGAAAGGTGATACAATTTGATTCATTT
* *
152318 TTGACAAGAAAGGTGATACGATTTGGTTCATTT
1 TTGACAAGAAAGGTGATACAATTTGATTCATTT
152351 T
1 T
152352 CAACAAAACG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (33 bp):
TTGACAAGAAAGGTGATACAATTTGATTCATTT
Found at i:156488 original size:21 final size:21
Alignment explanation
Indices: 156464--156512 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
156454 ACTTTGACAT
*
156464 ATCCTTAAATCCATGTTAATA
1 ATCCTTAAATCCAAGTTAATA
156485 ATCCTTAAATCCAAGTTAATA
1 ATCCTTAAATCCAAGTTAATA
156506 ATCCTTA
1 ATCCTTA
156513 TTGATTGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (21 bp):
ATCCTTAAATCCAAGTTAATA
Found at i:157767 original size:20 final size:20
Alignment explanation
Indices: 157742--157817 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
157732 AATTGCCTAC
157742 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* * * *
157762 ATGTATTGATATAATG-AGTG
1 ATGTATCGATACATTGAAG-A
* * *
157782 ATATATTGATACATTGAAAGC
1 ATGTATCGATACATTG-AAGA
*
157803 ATGCATCGATACATT
1 ATGTATCGATACATT
157818 TTCTCCGGTA
Statistics
Matches: 42, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.05
20 26 0.62
21 12 0.29
22 2 0.05
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:157921 original size:20 final size:20
Alignment explanation
Indices: 157892--157941 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
157882 TACAATAAGC
157892 CTTA-GTATCAATATATTAA
1 CTTATGTATCAATATATTAA
157911 CTTATGTATCAATATATTAA
1 CTTATGTATCAATATATTAA
157931 CTTATTGTATC
1 CTTA-TGTATC
157942 TATACAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.14
20 19 0.66
21 6 0.21
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (20 bp):
CTTATGTATCAATATATTAA
Found at i:159566 original size:52 final size:52
Alignment explanation
Indices: 159482--159922 Score: 275
Period size: 52 Copynumber: 8.3 Consensus size: 52
159472 TTAAAGATAA
** * * *
159482 TAAAGATGAGAAGGGTGCCAATGTGCTAATTCAAGGCTAACAACATTGGACT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
* * * * *
159534 TGAAGATGAGAAGAATGCCAATGTTCTGATTCAAGACCAGCAACGTTAGACT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
* * ** ** ** * * *
159586 TAAAAATGACAAGGGTGCCAATACGCAAATTCATGGCCAGCAACATTAGGCT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
** * *
159638 TAGAA-ATGAGAA-AGATAACTATGTGCTGATTCAAGGCCAACAACATTAAACT
1 TA-AAGATGAGAAGA-ATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
* * * **
159690 TAGAA-AAGA-AAAAGATGCCGATATGT-C-GATTCAAGGCCAACGATGTTAGACT
1 TA-AAGATGAGAAGA-ATGCC-A-ATGTGCTGATTCAAGGCCAACAACATTAGACT
* * * * *
159742 TAAAGATGATAAGGGTGAGAAAAATGCCAATGTGCTGATTCACA-GCTAGCGACAATAGACT
1 T-AA-A-G---A---TGAGAAGAATGCCAATGTGCTGATTCA-AGGCCAACAACATTAGACT
* *
159803 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
* * * * ** * *
159855 TAAAAATTAGAAGAATGCCAATGTGCTAATTCAAGGCTAATGACATTGGGCT
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
*
159907 TAAAGATGAAAAGAAT
1 TAAAGATGAGAAGAAT
159923 AATAAAGGTG
Statistics
Matches: 300, Mismatches: 69, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
51 3 0.01
52 245 0.82
53 5 0.02
54 4 0.01
55 1 0.00
58 2 0.01
59 5 0.02
60 4 0.01
61 26 0.09
62 5 0.02
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (52 bp):
TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTAGACT
Found at i:159846 original size:165 final size:167
Alignment explanation
Indices: 159658--160226 Score: 559
Period size: 165 Copynumber: 3.4 Consensus size: 167
159648 AAAGATAACT
** *
159658 ATGTGCTGATTCAAGGCCAACAACATTAAACTTAGAAA-AGAAAAAGATGCCGATATGTC-GATT
1 ATGTGCTGATTCAAGGCCAACAACATTGGACTTAGAAAGAGAAAAAGATGCCGATATGTCTAATT
* * *
159721 CAAGGCCAACGATGTTAGACTTAAAGATGATAAGGGTGAGAAAAATGCCAATGTGCTGATTCACA
66 CAAGGCCAACGATGTTAGACTTAAAGATGATAAGAGTGAGAAAAGTGCCAATGTGCTAATTCACA
* *
159786 GCTAGCGACAATAGACTTAAAGATGAGAAGAATGCCA
131 GCCAGCGACATTAGACTTAAAGATGAGAAGAATGCCA
* ** *
159823 ATGTGCTGATTCAAGGCCAACAACATTGGTCTTA-AAA-ATTAGAAGAATGCC-A-ATGTGCTAA
1 ATGTGCTGATTCAAGGCCAACAACATTGGACTTAGAAAGAGAAAAAG-ATGCCGATATGT-CTAA
* * ** * * * * * * * *
159884 TTCAAGGCTAATGACATTGGGCTTAAAGATGAAAAGAATAATAAAGGTGCCAATATGCTAATTCA
64 TTCAAGGCCAACGATGTTAGACTTAAAGATGATAAGAGTGAGAAAAGTGCCAATGTGCTAATTCA
* * * * * *
159949 -AGGCCAGCGATATTGGGCTCAAAGATAACAA-AAGTGCCA
129 CA-GCCAGCGACATTAGACTTAAAGATGAGAAGAA-TGCCA
* * * * *
159988 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAGAAAGAGATAAAAG-TGCTGATAT-ACTGAT
1 ATGTGCTGATTCAAGGCCAACAACATTGGACTTAGAAAGAGA-AAAAGATGCCGATATGTCTAAT
* * * *
160051 TCAAGGCCAACGATGTCAGACTTTAAAGATGATAAGAGTGAGAAGAGTGCCAACGTACTAATTCA
65 TCAAGGCCAACGATGTTAGAC-TTAAAGATGATAAGAGTGAGAAAAGTGCCAATGTGCTAATTCA
* * **
160116 CAGCCAACGACATTAGACTTGAAGATGAGAAGAATGCTT
129 CAGCCAGCGACATTAGACTTAAAGATGAGAAGAATGCCA
* * * * * *
160155 ATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATA-ATAAAGATGCCAATATG-CTAATT
1 ATGTGCTGATTCAAGGCCAACAACATTGGACTTAGAAAGAGAAAAAGATGCCGATATGTCTAATT
160218 CAAGGCCAA
66 CAAGGCCAA
160227 TGATATCGAA
Statistics
Matches: 318, Mismatches: 71, Indels: 29
0.76 0.17 0.07
Matches are distributed among these distances:
163 4 0.01
164 13 0.04
165 148 0.47
166 46 0.14
167 98 0.31
168 9 0.03
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (167 bp):
ATGTGCTGATTCAAGGCCAACAACATTGGACTTAGAAAGAGAAAAAGATGCCGATATGTCTAATT
CAAGGCCAACGATGTTAGACTTAAAGATGATAAGAGTGAGAAAAGTGCCAATGTGCTAATTCACA
GCCAGCGACATTAGACTTAAAGATGAGAAGAATGCCA
Found at i:159987 original size:52 final size:53
Alignment explanation
Indices: 159916--160016 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 53
159906 TTAAAGATGA
* * *
159916 AAAGAATAATAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTC
1 AAAGAATAACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTC
* *
159969 AAAG-ATAACAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 AAAGAATAACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTGG
160017 ACTTAGAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 39 0.91
53 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAAGAATAACAAAAGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGGCTC
Found at i:160151 original size:332 final size:323
Alignment explanation
Indices: 159482--160354 Score: 838
Period size: 332 Copynumber: 2.7 Consensus size: 323
159472 TTAAAGATAA
** * * * * *
159482 TAAAGATGAGAAGGGTGCCAATGTGCTAATTCAAGGCTAACAACATTGGACTT-GAAGATGA-GA
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTTAGAA-ATAATAA
* * * * * * *
159545 AGAATGCCAATGTTCTGATTCAAGACC-A-G-CAACGTTAGACTTAAAAATGACAAGGGTGCCAA
65 AG-ATGCCAATATGCTAATTCAAGGCCAATGACATCG--A-ACTTAAAGATGACAAAGGTGCCAA
** * ** * * * * * ** *
159607 TACGCAAATTCATGGCCAGCAACATTAGGCTTAGAAATG-AGAAAGATAACTATGTGCTGATTCA
126 TATACTAATTCAAAGCCAGCAATATTAAGCTTACAAAAGAAAAAAG-TGCCAATGTGCTGATTCA
* * ** *
159671 AGGCCAACAACATTAAACTTAGAAA-AGA-AAAAGATGCCGATATGTCGATTCAAGGCCAACGAT
190 AGGCCAGCGACATTGGACTTAGAAAGAGATAAAAGATGCCGATATCTCGATTCAAGGCCAACGAT
* * * * * * *
159734 GTTAGACTTAAAGATGATAAGGGTGAGAAAAATGCCAATGTGCTGATTCACAGCTAGCGACAATA
255 GTCAGACTTAAAGATGATAAGAGTGAGAAAAATGCCAACGTACTAATTCACAGCCAACGACAATA
159799 GACT
320 GACT
* *
159803 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTA-AAA-ATTAGA
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTTAGAAATAATA-A
* * * ** *
159866 AGAATGCCAATGTGCTAATTCAAGGCTAATGACATTGGGCTTAAAGATGAAAAGAATAATAAAGG
65 AG-ATGCCAATATGCTAATTCAAGGCCAATGACATCGAACTTAAAGAT-----G----ACAAAGG
* * * ** *
159931 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-CAAAGATAACAAAAGTGCCAATGTGC
120 TGCCAATATACTAATTCAAAGCCAGCAATATTAAGCTTACAAA-AGAA-AAAAGTGCCAATGTGC
*
159994 TGATTCAAGGCCAGCGACATTGGACTTAGAAAGAGATAAAAG-TGCTGATATACT-GATTCAAGG
183 TGATTCAAGGCCAGCGACATTGGACTTAGAAAGAGATAAAAGATGCCGATAT-CTCGATTCAAGG
* *
160057 CCAACGATGTCAGACTTTAAAGATGATAAGAGTGAGAAGAGTGCCAACGTACTAATTCACAGCCA
247 CCAACGATGTCAGAC-TTAAAGATGATAAGAGTGAGAAAAATGCCAACGTACTAATTCACAGCCA
*
160122 ACGACATTAGACT
311 ACGACAATAGACT
* ** * *
160135 TGAAGATGAGAAGAATGCTTATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATAATAAA
1 TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTTAGAAATAATAAA
*
160200 GATGCCAATATGCTAATTCAAGGCCAATGATATCGAACTTAAAGATGACAAAGGTGCCAATATAC
66 GATGCCAATATGCTAATTCAAGGCCAATGACATCGAACTTAAAGATGACAAAGGTGCCAATATAC
* * * * *
160265 TGATTCAAAGCTAGCAATATTAAGCTTAACAAAAGAAAAAGGTGTCAATATGCTGATTCAAGGCC
131 TAATTCAAAGCCAGCAATATTAAGCTT-ACAAAAGAAAAAAGTGCCAATGTGCTGATTCAAGGCC
160330 AGCGACATTGGACTTAGAAAGAGAT
195 AGCGACATTGGACTTAGAAAGAGAT
160355 GGTTTGACAA
Statistics
Matches: 452, Mismatches: 73, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
320 1 0.00
321 82 0.18
322 1 0.00
323 36 0.08
324 54 0.12
325 3 0.01
326 5 0.01
327 1 0.00
328 3 0.01
329 1 0.00
330 72 0.16
331 38 0.08
332 146 0.32
333 6 0.01
334 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (323 bp):
TAAAGATGAGAAGAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGCTTAGAAATAATAAA
GATGCCAATATGCTAATTCAAGGCCAATGACATCGAACTTAAAGATGACAAAGGTGCCAATATAC
TAATTCAAAGCCAGCAATATTAAGCTTACAAAAGAAAAAAGTGCCAATGTGCTGATTCAAGGCCA
GCGACATTGGACTTAGAAAGAGATAAAAGATGCCGATATCTCGATTCAAGGCCAACGATGTCAGA
CTTAAAGATGATAAGAGTGAGAAAAATGCCAACGTACTAATTCACAGCCAACGACAATAGACT
Found at i:160223 original size:52 final size:51
Alignment explanation
Indices: 160158--160345 Score: 153
Period size: 52 Copynumber: 3.6 Consensus size: 51
160148 AATGCTTATG
** * *
160158 TGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATAATAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGAACTTA-AAATAAAAAAGGTGCCAATA
* ** * * * *
160210 TGCTAATTCAAGGCCAATGATATCGAACTTAAAGATGACAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGAACTTAAA-ATAAAAAAGGTGCCAATA
* * * * * * *
160262 TACTGATTCAAAGCTAGCAATATT-AAGCTTAACAAAAGAAAAAGGTGTCAATA
1 TGCTGATTCAAGGCCAGCGACATTGAA-CTTAA-AATA-AAAAAGGTGCCAATA
*
160315 TGCTGATTCAAGGCCAGCGACATTGGACTTA
1 TGCTGATTCAAGGCCAGCGACATTGAACTTA
160346 GAAAGAGATG
Statistics
Matches: 103, Mismatches: 28, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
51 4 0.04
52 61 0.59
53 37 0.36
54 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (51 bp):
TGCTGATTCAAGGCCAGCGACATTGAACTTAAAATAAAAAAGGTGCCAATA
Found at i:160432 original size:31 final size:31
Alignment explanation
Indices: 160397--161195 Score: 611
Period size: 32 Copynumber: 25.2 Consensus size: 31
160387 CCAATGACAT
* * *
160397 TGGGC-TTAGAAGGAGATGCCACCAACTTATG
1 TGGGCTTTAGAAGG-GTTGCCACCGACTTGTG
*
160428 TGGGCTTTTGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGA-AGGGTTGCCACCGACTTGTG
* * * * *
160460 TAGGCTTTTGAAGAGGGTTGCCGCTGACTTATG
1 TGGGCTTTAG-A-AGGGTTGCCACCGACTTGTG
* *
160493 TTGGCTTTAGAAAGGG-TGCCACCGACTTTTG
1 TGGGCTTTAG-AAGGGTTGCCACCGACTTGTG
* ** *
160524 TGGGCTTTAGAAGGGGTGCCACTAACTTTTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
*
160555 TGGGCTTTAGAAGGGAGTTGCCACCAACTTGTG
1 TGGGCTTTAGAA-GG-GTTGCCACCGACTTGTG
160588 TGGGCTTTAG-AGGGATTGCCACCGACTTGTG
1 TGGGCTTTAGAAGGG-TTGCCACCGACTTGTG
* * *
160619 TGGCCTTTAGAAAAAGGTTACCACCGACTTGTG
1 TGGGCTTTAG--AAGGGTTGCCACCGACTTGTG
* * *
160652 T-GACTTTTAAAAGAGGTTGCCACCAAC---T-
1 TGGGC-TTTAGAAG-GGTTGCCACCGACTTGTG
*
160680 T-GGCTTTAGAGAAGGGTTGGCACCGACTTGTG
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTG
* * *
160712 CGGGCTTTAGAGAAGGTTTGCCACTGACTTGTG
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTG
* *
160745 TGGGCTTTAGTAA-GGTTGCCACCGATTTTTG
1 TGGGCTTTAG-AAGGGTTGCCACCGACTTGTG
*
160776 TGGGC-TTAGAAGAAGAGTTGCCACTGACTTGTG
1 TGGGCTTTAGAAG--G-GTTGCCACCGACTTGTG
*
160809 TGGGCTTTA-AGAGAGGTTGCCACCGACTTGTA
1 TGGGCTTTAGA-AG-GGTTGCCACCGACTTGTG
* *
160841 TGGGCTTTGAGAAGGGTTCCCACAGACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
* * **
160873 TAGGCTTTATAAGGGCGTTGCCACAAACTTGTG
1 TGGGCTTTAGAA-GG-GTTGCCACCGACTTGTG
* ** *
160906 T-GGCTTTTGAAGGGTTGCCATAGACTAGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
* * * *
160936 TGAGTTTTGAGAAGGGTTGCCATCGACTAGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
* **
160968 TGGGTTTTGAGAAGGGTTGCCACTAACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
* *
161000 TGGGCTTTAAAAAAGGGTTGCCACCAACTTGTG
1 TGGGCTTT--AGAAGGGTTGCCACCGACTTGTG
* *
161033 TGGGCTTTGAGAAGGGTTGCCACGGACTTGTA
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
* * * *
161065 TAGGCATTGAGAAGGGTTACCACTGACTTGTG
1 TGGGC-TTTAGAAGGGTTGCCACCGACTTGTG
* * * * *
161097 TAGGCTTTGGAAAGGCTGCCACCAACTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
*
161128 TGGGCTTTGAGAAGGGTTGCCACTGACTTGTG
1 TGGGCTTT-AGAAGGGTTGCCACCGACTTGTG
* * ** *
161160 TGTGTTTTA-AAGGG-TGCCAGTGAGTTGTG
1 TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
161189 TGGGCTT
1 TGGGCTT
161196 AAAAAGAGAA
Statistics
Matches: 633, Mismatches: 100, Indels: 72
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.00
28 14 0.02
29 25 0.04
30 30 0.05
31 137 0.22
32 232 0.37
33 183 0.29
34 9 0.01
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (31 bp):
TGGGCTTTAGAAGGGTTGCCACCGACTTGTG
Found at i:160594 original size:95 final size:95
Alignment explanation
Indices: 160397--161195 Score: 602
Period size: 95 Copynumber: 8.4 Consensus size: 95
160387 CCAATGACAT
* * * * *
160397 TGGGC-TTAG-AAGGAGATGCCACCAACTTATGTGGGCTTTTGAGAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAAAGG-GTTGCCACCGACTTGTGTGGGCTTTAGA-AGGGTTGCCACCAACTTGTG
* * * *
160460 TAGGCTTTTGA-AGAGGGTTGCCGCTGACTTATG
64 TGGGC-TTTGAGA-AGGGTTGCCACCGACTTGTG
* * * * *
160493 TTGGCTTTAGAAAGGG-TGCCACCGACTTTTGTGGGCTTTAGAAGGGGTGCCACTAACTTTTGTG
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCAACTTGTGTG
*
160557 GGCTTT-AGAAGGGAGTTGCCACCAACTTGTG
66 GGCTTTGAGAA-GG-GTTGCCACCGACTTGTG
* * * *
160588 TGGGCTTTAG--AGGGATTGCCACCGACTTGTGTGGCCTTTAGAAAAAGGTTACCACCGACTTGT
1 TGGGCTTTAGAAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG--AAGGGTTGCCACCAACTTGT
* * * *
160651 GT-GACTTTTAAAAGAGGTTGCCACCAAC---T-
63 GTGGGCTTTGAGAAG-GGTTGCCACCGACTTGTG
* * * **
160680 T-GGCTTTAGAGAAGGGTTGGCACCGACTTGTGCGGGCTTTAGAGAAGGTTTGCCACTGACTTGT
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGT
* *
160744 GTGGGCTTT-AGTAA-GGTTGCCACCGATTTTTG
63 GTGGGCTTTGAG-AAGGGTTGCCACCGACTTGTG
* * *
160776 TGGGC-TTAGAAGAAGAGTTGCCACTGACTTGTGTGGGCTTTA-AGAGAGGTTGCCACCGACTTG
1 TGGGCTTTAG-A-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AG-GGTTGCCACCAACTTG
* * *
160839 TATGGGCTTTGAGAAGGGTTCCCACAGACTTGTG
62 TGTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* * * ** * * *
160873 TAGGCTTTATAAGGGCGTTGCCACAAACTTGTGT-GGCTTTTGAAGGGTTGCCA-TAGACTAGTG
1 TGGGCTTTAGAAAGG-GTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCA-ACTTGTG
* * * *
160936 TGAGTTTTGAGAAGGGTTGCCATCGACTAGTG
64 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* ** *
160968 TGGG-TTTTGAGAAGGGTTGCCACTAACTTGTGTGGGCTTTAAAAAAGGGTTGCCACCAACTTGT
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTGTGGGCTTT--AGAAGGGTTGCCACCAACTTGT
* *
161032 GTGGGCTTTGAGAAGGGTTGCCACGGACTTGTA
63 GTGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* * * * * * * *
161065 TAGGCATT-GAGAAGGGTTACCACTGACTTGTGTAGGCTTTGGAAAGGCTGCCACCAACTTGTGT
1 TGGGCTTTAGA-AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCAACTTGTGT
*
161129 GGGCTTTGAGAAGGGTTGCCACTGACTTGTG
65 GGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* * ** *
161160 TGTG-TTT-TAAAGGG-TGCCAGTGAGTTGTGTGGGCTT
1 TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTT
161196 AAAAAGAGAA
Statistics
Matches: 568, Mismatches: 97, Indels: 80
0.76 0.13 0.11
Matches are distributed among these distances:
91 8 0.01
92 30 0.05
93 52 0.09
94 42 0.07
95 173 0.30
96 85 0.15
97 168 0.30
98 10 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (95 bp):
TGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGGGTTGCCACCAACTTGTGTG
GGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:161239 original size:63 final size:61
Alignment explanation
Indices: 161165--161451 Score: 170
Period size: 68 Copynumber: 4.5 Consensus size: 61
161155 TTGTGTGTGT
** * * * *
161165 TTTAAAGGGTGCCAGTGAGTTGTGTGGGCTTAAAAAGAGAAAGGATGCCATGGAGTTATTGAC
1 TTTAAAGGGTGCCACAGAG-T-TGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
* *
161228 TTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
* *
161289 TTTTAAAAGGAAAAGGTGCCAC-GAAGTTGTGGACTTTAAAAGAAAATTA-G-TGCCAGGGAGTT
1 -TTT-AAA-G----GGTGCCACAG-AGTTGTGGACTTAAAAAGAAAA--AGGATGCCACGGAGTT
*
161351 GTGGAC
56 ATGGAC
* * *** * ** *
161357 TTAAAAAGAAAAAGATGCCTTGGAGTTGTGGACTTTAAAAGAAAAAGG-TGCCACAAAGTTTTGG
1 TT-TAAAG-----GGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGG
161421 AC
60 AC
* *
161423 -TTAAAGGGGTGCCACGGAGTTGTAGACTT
1 TTTAAA-GGGTGCCACAGAGTTGTGGACTT
161452 TTAGTCATGG
Statistics
Matches: 186, Mismatches: 23, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
60 18 0.10
61 35 0.19
62 4 0.02
63 20 0.11
64 4 0.02
65 3 0.02
66 16 0.09
67 37 0.20
68 47 0.25
69 1 0.01
70 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (61 bp):
TTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
Found at i:161275 original size:61 final size:63
Alignment explanation
Indices: 161165--161291 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 63
161155 TTGTGTGTGT
** * * * *
161165 TTTAAAGGGTGCCAGTGAGTTGTGTGGGCTTAAAAAGAGAAAGGATGCCATGGAGTTATTGAC
1 TTTAAAGGGTGCCACAGAGTTGTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
* *
161228 TTTAAAGGGTGCCACAGAG-T-TGTGGACTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTAAAGGGTGCCACAGAGTTGTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
161289 TTT
1 TTT
161292 TAAAAGGAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
61 38 0.68
62 1 0.02
63 17 0.30
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (63 bp):
TTTAAAGGGTGCCACAGAGTTGTGTGGACTTAAAAAGAAAAAGGATGCCACGGAGTTATGGAC
Found at i:161402 original size:33 final size:33
Alignment explanation
Indices: 161235--161424 Score: 229
Period size: 34 Copynumber: 5.7 Consensus size: 33
161225 GACTTTAAAG
* *
161235 GGTGCCACAGAGTTGTGGACTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTAAAAGAAAAA
*
161268 GGGTGCCACGGAGTTGTGGACTTTTAAAAGGAAAA
1 -GGTGCCACGGAGTTGTGGAC-TTTAAAAGAAAAA
*
161303 GGTGCCACGAAGTTGTGGACTTTAAAAGAAAATTA
1 GGTGCCACGGAGTTGTGGACTTTAAAAGAAAA--A
* *
161338 -GTGCCAGGGAGTTGTGGACTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTAAAAGAAAAA
* **
161370 GATGCCTTGGAGTTGTGGACTTTAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTAAAAGAAAAA
** *
161403 GGTGCCACAAAGTTTTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
161425 AAAGGGGTGC
Statistics
Matches: 134, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.01
33 55 0.41
34 66 0.49
35 12 0.09
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.24
Consensus pattern (33 bp):
GGTGCCACGGAGTTGTGGACTTTAAAAGAAAAA
Found at i:174969 original size:34 final size:35
Alignment explanation
Indices: 174931--174996 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
174921 CCTTACAACA
*
174931 CTATCTTTT-CGAAGGCTAAGATAGAACCTCTTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCT
174965 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
1 CTATCTTTTACAAAGGCTAAGATAGAACCTCT
174997 CAATCACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 9 0.30
35 21 0.70
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (35 bp):
CTATCTTTTACAAAGGCTAAGATAGAACCTCTTCT
Found at i:175601 original size:33 final size:32
Alignment explanation
Indices: 175545--175608 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
175535 CATTTAATGT
* *
175545 TGTATCGATACAAAGAACATGTATCGATACAA
1 TGTATCAATACAAAGAACATGTATCAATACAA
* *
175577 TGTATCAATACTAAGCAATATGTATCAATACA
1 TGTATCAATACAAAG-AACATGTATCAATACA
175609 TCTGGTGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCAATACAA
Found at i:177178 original size:77 final size:78
Alignment explanation
Indices: 177032--177205 Score: 251
Period size: 77 Copynumber: 2.2 Consensus size: 78
177022 GGTTGCTAGG
* * *
177032 ATACTTTCATATCAAATGTATACCTTATGGGCATTTTTAATGATTAATCTTAAAATCAAGTCCTT
1 ATACTTTCATGTCAAATGTATACCTTAGGGGCATTTTTAATAATTAATCTTAAAATCAAGTCCTT
177097 TAGGCTCATCGAA
66 TAGGCTCATCGAA
* * * * *
177110 ATACTTTCATGTCAAATTTATACCTTAGGGGTA-TTTTAGTAATTAATCTTAGAATCAAGTCTTT
1 ATACTTTCATGTCAAATGTATACCTTAGGGGCATTTTTAATAATTAATCTTAAAATCAAGTCCTT
* *
177174 TAGGCTCATTGAG
66 TAGGCTCATCGAA
177187 ATACTTTCATGTCAAATGT
1 ATACTTTCATGTCAAATGT
177206 GCACTTTAAG
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
77 56 0.66
78 29 0.34
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (78 bp):
ATACTTTCATGTCAAATGTATACCTTAGGGGCATTTTTAATAATTAATCTTAAAATCAAGTCCTT
TAGGCTCATCGAA
Done.