Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008925.1 Hibiscus syriacus cultivar Beakdansim tig00112230_pilon, whole genome shotgun sequence
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: 2702387
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 11
Found at i:301 original size:17 final size:18
Alignment explanation
Indices: 274--309 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
264 TAGTAATAAA
274 AAAATAACCTCACAAAAC
1 AAAATAACCTCACAAAAC
*
292 AAAA-AACCTCACCAAAC
1 AAAATAACCTCACAAAAC
309 A
1 A
310 CTCCAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.31, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAATAACCTCACAAAAC
Found at i:970 original size:17 final size:16
Alignment explanation
Indices: 944--975 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
934 GGTAAGTATA
944 AATGTGTTGTCGTGGC
1 AATGTGTTGTCGTGGC
960 AATGTTGTTGTCGTGG
1 AATG-TGTTGTCGTGG
976 TAAGTGCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.09, G:0.38, T:0.41
Consensus pattern (16 bp):
AATGTGTTGTCGTGGC
Found at i:1379 original size:23 final size:23
Alignment explanation
Indices: 1353--1397 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
1343 CTTCAAAGTT
1353 GGATG-ATATTCTAGATCATTTGG
1 GGATGAATATTCTAGAT-ATTTGG
1376 GGATGAATATTCTAGATATTTG
1 GGATGAATATTCTAGATATTTG
1398 AAGCTGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (23 bp):
GGATGAATATTCTAGATATTTGG
Found at i:1405 original size:23 final size:24
Alignment explanation
Indices: 1354--1406 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
1344 TTCAAAGTTG
**
1354 GATG-ATATTCTAGATCATTTGGG
1 GATGAATATTCTAGATCATTTGAA
1377 GATGAATATTCTAGAT-ATTTGAA
1 GATGAATATTCTAGATCATTTGAA
*
1400 GCTGAAT
1 GATGAAT
1407 TTGGCCTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (24 bp):
GATGAATATTCTAGATCATTTGAA
Found at i:4221 original size:71 final size:72
Alignment explanation
Indices: 4126--4309 Score: 214
Period size: 71 Copynumber: 2.6 Consensus size: 72
4116 TTACATGTGG
* * * *
4126 GGGGATGTAAG-CTTCTGATGCATGTAAAATTTTGGTTCTTACCTCAAGGCTTGAAAGGCCATAG
1 GGGGATGTAAGTTTTCTGATCCATGTAAAATTTAGGTTCTTACCTCAAGGCTCGAAAGGCCATAG
*
4190 GTAGGTT
66 GTAGGCT
* ** *
4197 GGGGATGTAAGTTTTC-GATCCATGTAAAATTTAGGTTTTTACCTTGAGGCTCGAAGGGCCATAG
1 GGGGATGTAAGTTTTCTGATCCATGTAAAATTTAGGTTCTTACCTCAAGGCTCGAAAGGCCATAG
4261 GTAGGCT
66 GTAGGCT
* ** * *
4268 AGGGATGTAAG-TTTCTGATTTATATGAAATTT-GGTTCTTACC
1 GGGGATGTAAGTTTTCTGATCCATGTAAAATTTAGGTTCTTACC
4310 CCGAGACCCT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
70 13 0.14
71 80 0.83
72 3 0.03
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (72 bp):
GGGGATGTAAGTTTTCTGATCCATGTAAAATTTAGGTTCTTACCTCAAGGCTCGAAAGGCCATAG
GTAGGCT
Found at i:9455 original size:60 final size:61
Alignment explanation
Indices: 9356--9473 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 61
9346 TATTTTTGGT
* * *
9356 ATATTTAGGCATTTTGTTCAAAATATCGAAGTTAATTTCAGCATCGATACTCAGGGTATTG
1 ATATTTAGGCATTTTGTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTATTG
9417 ATATTTAGGCATTTT-TTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTA
1 ATATTTAGGCATTTTGTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTA
9474 ATATTGGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 39 0.72
61 15 0.28
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (61 bp):
ATATTTAGGCATTTTGTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTATTG
Found at i:12110 original size:86 final size:86
Alignment explanation
Indices: 11810--12448 Score: 811
Period size: 86 Copynumber: 7.5 Consensus size: 86
11800 TCGTCAGTGT
* * * * * * * *
11810 TTTTTTTGTCAGATAGCCCTTCTCGCCTTGAGTTAAGCTGTAAATTTGATATGCCTCTGCGCTTA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
* * *
11875 ATGAAATCGAACTCGAATGTC
66 GTGTAATCGAACTCGAAGGTC
* * ** * * *
11896 -TTTGATGACAAATAACCCTTCTTACCTTGATTTATGCTGTAAATTTGCTATGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
* * * * *
11960 ATATAATTGAACTCTAAGG-A
66 GTGTAATCGAACTCGAAGGTC
* * * * * *
11980 TTTTGATGACAGATAGCCCTTTTCGCCTAGAGCTATGCTGTAAATTGGATGTGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
*
12045 GTGTAATCGAACTCGAAGATC
66 GTGTAATCGAACTCGAAGGTC
* *
12066 TTTTGTTGGCAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGG-TATGCCTTTGAGCTG
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA-TTGGATATGCCTTTGAGCTG
12130 AGTGTAATCGAACTCGAAGGTC
65 AGTGTAATCGAACTCGAAGGTC
* **
12152 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATGTGAATTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
* *
12217 GTGTAATCAAACTCGAATGTC
66 GTGTAATCGAACTCGAAGGTC
* * *
12238 TTTTGTTGACAGATAACCCTTCTCGTCTTGAGTTATGCTATAAATT-TAGTATGCCTTTGAGCTG
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGA-TATGCCTTTGAGCTG
*
12302 ATTGTAATCGAACTCGAAGGTC
65 AGTGTAATCGAACTCGAAGGTC
* * * *
12324 TTTTATTGACATATAACCCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGA
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
12389 GTGTAATCGAACTCGAAGGTC
66 GTGTAATCGAACTCGAAGGTC
*
12410 -TTTGATGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
1 TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTG
12449 CACTGGGTTG
Statistics
Matches: 475, Mismatches: 72, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
85 172 0.36
86 298 0.63
87 5 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (86 bp):
TTTTGTTGACAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGA
GTGTAATCGAACTCGAAGGTC
Found at i:12719 original size:121 final size:121
Alignment explanation
Indices: 12504--12897 Score: 646
Period size: 121 Copynumber: 3.3 Consensus size: 121
12494 ATATCCGTCA
* * *
12504 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCATTGTGAAGTTGAGCTCT
1 GGCACAATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
* * *
12569 GAATTGGATATCCTTCGTCGTGAACTTGAAATCCAAGGGTTGTATTGCTGCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
12625 GGCACAATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
1 GGCACAATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
*
12690 AAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
* *
12746 GGCACAATATCCTTTGTCATGAAGTTGAAATCGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACAATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
*** *
12811 GAATTGGATATCCTTAAACGTGAAGTTAAAATCCAAGGGTTGCATT-CTTCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
* *
12866 AGCACGATATCCTTCGTCATGAAGTTGAAATC
1 GGCACAATATCCTTCGTCATGAAGTTGAAATC
12898 TAAGGGTTGC
Statistics
Matches: 256, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
120 38 0.15
121 218 0.85
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (121 bp):
GGCACAATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTTCTTGTG
Found at i:12903 original size:54 final size:55
Alignment explanation
Indices: 12831--12952 Score: 201
Period size: 55 Copynumber: 2.2 Consensus size: 55
12821 TCCTTAAACG
* *
12831 TGAAGTTAAAATCCAAGGGTTGCATT-CTTCTTGTGAGCACGATATCCTTCGTCA
1 TGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGAGCACGATATCCTTCGTCA
* *
12885 TGAAGTTGAAATCTAAGGGTTGCATTGCTGCTTGTGGGCACGATATCCTTCGTCA
1 TGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGAGCACGATATCCTTCGTCA
12940 TGAAGTTGAAATC
1 TGAAGTTGAAATC
12953 ATGGATGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
54 24 0.38
55 39 0.62
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (55 bp):
TGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTGAGCACGATATCCTTCGTCA
Found at i:13044 original size:64 final size:64
Alignment explanation
Indices: 12957--13144 Score: 315
Period size: 64 Copynumber: 2.9 Consensus size: 64
12947 GAAATCATGG
*
12957 ATGAAACTGGAAAGTTGA-TTGTTGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGA
1 ATGAAACTGGAAAGTT-ATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
*
13021 ATGAAATTGGAAAGTTATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
1 ATGAAACTGGAAAGTTATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
* * *
13085 ATGAAACTGGAAAGTTGTTTGTTGAGTTCAATATCCTTCGTTGTGAAGTTAAAATTGACT
1 ATGAAACTGGAAAGTTATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
13145 ATAAAACCTG
Statistics
Matches: 117, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
63 1 0.01
64 116 0.99
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (64 bp):
ATGAAACTGGAAAGTTATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
Found at i:14245 original size:95 final size:96
Alignment explanation
Indices: 14082--14274 Score: 316
Period size: 95 Copynumber: 2.0 Consensus size: 96
14072 AATGTCATTG
* *
14082 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGTGTTTAACCAATTGCTTTA
1 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGCTCTA
14147 GAGGGACAACTCAAGCTTTATTATATAT-TA
66 GAGGGACAACTCAAGCTTTATTATATATATA
* * *
14177 TAATCGCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGACAGGGTGTTTAACCAATTGCTCTA
1 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGCTCTA
* *
14242 GAGGGACAGCTCAAGCTTTATTGTATATATA
66 GAGGGACAACTCAAGCTTTATTATATATATA
14273 TA
1 TA
14275 TAATTATAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 86 0.96
96 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (96 bp):
TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGCTCTA
GAGGGACAACTCAAGCTTTATTATATATATA
Found at i:14839 original size:35 final size:35
Alignment explanation
Indices: 14768--14843 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
14758 TGAAATATCC
* * *
14768 TTACAAAATGAAATATGAGAAAGTTCAAAAGCAAG
1 TTACAAAAAGAAATATGAGAAAGTTAAAAAACAAG
14803 TTACAAAAAGAAATATGAGAAAG-TAAAAAACAAAG
1 TTACAAAAAGAAATATGAGAAAGTTAAAAAAC-AAG
14838 TT-CAAA
1 TTACAAA
14844 CAGGATGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 10 0.27
35 27 0.73
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.18
Consensus pattern (35 bp):
TTACAAAAAGAAATATGAGAAAGTTAAAAAACAAG
Found at i:16742 original size:13 final size:13
Alignment explanation
Indices: 16726--16755 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16716 TTTAATTGCG
16726 AAAATTAAAAGTT
1 AAAATTAAAAGTT
*
16739 AAAATTAAAATTT
1 AAAATTAAAAGTT
16752 AAAA
1 AAAA
16756 CATTCATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAGTT
Found at i:16833 original size:10 final size:9
Alignment explanation
Indices: 16818--16842 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16808 TATGTTAGAG
16818 AAAAAAATA
1 AAAAAAATA
16827 AAAAAAATA
1 AAAAAAATA
16836 AAAAAAA
1 AAAAAAA
16843 GAAGAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:17001 original size:24 final size:24
Alignment explanation
Indices: 16944--17011 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
16934 AAAAATGGAA
*
16944 AAAATAAATAAAAC-AAAAAAAATAG
1 AAAAT-AA-AAAACGAAATAAAATAG
*
16969 TAAATAAAAAACGAAATAAAAT-G
1 AAAATAAAAAACGAAATAAAATAG
*
16992 AAAATGAAAAAAAGAAATAA
1 AAAAT-AAAAAACGAAATAA
17012 TAACAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 10 0.27
24 23 0.62
25 4 0.11
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.13
Consensus pattern (24 bp):
AAAATAAAAAACGAAATAAAATAG
Found at i:17019 original size:24 final size:23
Alignment explanation
Indices: 16944--17019 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 23
16934 AAAAATGGAA
* *
16944 AAAATAAATAAAACAAAAAAAAT-
1 AAAATAAA-AAAAGAAATAAAATC
* *
16967 AGTAAATAAAAAACGAAATAAAATG
1 A--AAATAAAAAAAGAAATAAAATC
16992 AAAATGAAAAAAAGAAATAATAA-C
1 AAAAT-AAAAAAAGAAATAA-AATC
17016 AAAA
1 AAAA
17020 GGTTAAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 5 0.12
24 28 0.65
25 10 0.23
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAATAAAAAAAGAAATAAAATC
Found at i:19112 original size:24 final size:24
Alignment explanation
Indices: 19050--19115 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
19040 ATATATACTT
* *
19050 TAATGTATAATAT-ATATATTTAA
1 TAATATATACTATAATATATTTAA
* *
19073 AAACTATATAC-A-AATATATTTTA
1 TAA-TATATACTATAATATATTTAA
19096 TAATATATACTATAATATAT
1 TAATATATACTATAATATAT
19116 GCTTTACTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 7 0.21
23 15 0.44
24 12 0.35
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
TAATATATACTATAATATATTTAA
Found at i:19126 original size:22 final size:22
Alignment explanation
Indices: 19099--19142 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
19089 TATTTTATAA
*
19099 TATATACTATAATATATGCTTTAC
1 TATATA-TAT-ATATACGCTTTAC
19123 TATATATATATATACGCTTT
1 TATATATATATATACGCTTT
19143 CTAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (22 bp):
TATATATATATATACGCTTTAC
Found at i:19394 original size:14 final size:15
Alignment explanation
Indices: 19358--19397 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
19348 TCTAAACCCT
19358 AAAAATATAATATTTA
1 AAAAAT-TAATATTTA
19374 AATAAATTAAT-TTTA
1 AA-AAATTAATATTTA
19389 AAAAATTAA
1 AAAAATTAA
19398 ATAATCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 6 0.26
17 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATTAATATTTA
Found at i:20526 original size:22 final size:23
Alignment explanation
Indices: 20492--20535 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
20482 TCAATCACTT
* *
20492 AAATTAATTATTATATTTTAATAA
1 AAATTAA-TATTAAATTATAATAA
20516 AAATTAA-ATTAAATTATAAT
1 AAATTAATATTAAATTATAAT
20536 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTAATATTAAATTATAATAA
Found at i:20557 original size:33 final size:33
Alignment explanation
Indices: 20515--20591 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
20505 TATTTTAATA
*
20515 AAAATTAAATTAAATTATAATTCTATTAAAAGT
1 AAAATTAAATTAAATTATAAATCTATTAAAAGT
20548 AAAATTAAATTAAATTATAAATCTATTAAAAGT
1 AAAATTAAATTAAATTATAAATCTATTAAAAGT
20581 AAAATTAAATT
1 AAAATTAAATT
20592 TTAATTAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAATTAAATTAAATTATAAATCTATTAAAAGT
Found at i:20818 original size:2 final size:2
Alignment explanation
Indices: 20811--20862 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
20801 AACTCTTCAT
*
20811 TC TC TC TC TC TG TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
20853 TC TC TC TC TC
1 TC TC TC TC TC
20863 CCCCCCCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27403 original size:9 final size:10
Alignment explanation
Indices: 27387--27424 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
27377 TTTTTCAAAA
27387 CAAAAAAAGG
1 CAAAAAAAGG
*
27397 CAAAAAAAAG
1 CAAAAAAAGG
27407 CAAAAAAAGG
1 CAAAAAAAGG
27417 CAAAAAAA
1 CAAAAAAA
27425 AAACAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.76, C:0.11, G:0.13, T:0.00
Consensus pattern (10 bp):
CAAAAAAAGG
Found at i:27404 original size:11 final size:11
Alignment explanation
Indices: 27388--27425 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
27378 TTTTCAAAAC
27388 AAAAAAAGGCA
1 AAAAAAAGGCA
27399 AAAAAAA-GC-
1 AAAAAAAGGCA
27408 AAAAAAAGGCA
1 AAAAAAAGGCA
27419 AAAAAAA
1 AAAAAAA
27426 AACAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 4 0.16
11 14 0.56
ACGTcount: A:0.79, C:0.08, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAGGCA
Found at i:27412 original size:20 final size:19
Alignment explanation
Indices: 27383--27441 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 19
27373 TATTTTTTTC
27383 AAAACAAAAAAAGGCAAAA
1 AAAACAAAAAAAGGCAAAA
27402 AAAAGCAAAAAAAGGCAAAA
1 AAAA-CAAAAAAAGGCAAAA
* *
27422 AAAAAACAAAAAAGCCAAAA
1 AAAACA-AAAAAAGGCAAAA
27442 TTTTAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.78, C:0.12, G:0.10, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAAAGGCAAAA
Found at i:27434 original size:10 final size:10
Alignment explanation
Indices: 27383--27425 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
27373 TATTTTTTTC
27383 AAAA-CAAAA
1 AAAAGCAAAA
*
27392 AAAGGCAAAA
1 AAAAGCAAAA
27402 AAAAGCAAAA
1 AAAAGCAAAA
*
27412 AAAGGCAAAA
1 AAAAGCAAAA
27422 AAAA
1 AAAA
27426 AACAAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 3 0.10
10 26 0.90
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:31769 original size:22 final size:22
Alignment explanation
Indices: 31744--31786 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31734 CAATTCATTT
31744 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
31766 ATCTTATTTTTATCTTGTTTT
1 ATCTTATTTTTATCTTGTTTT
31787 CAGCACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:33619 original size:3 final size:3
Alignment explanation
Indices: 33611--33670 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
33601 TTTTTTCAAT
* *
33611 TTA TTA TTA TTA TTA CTA TTA -TA TTA TTA TTTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
33656 ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
33671 CAAACAGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:35369 original size:119 final size:118
Alignment explanation
Indices: 35246--35488 Score: 251
Period size: 119 Copynumber: 2.0 Consensus size: 118
35236 TTATTTTATT
* * * *
35246 TAAATTATTTTATTAAAAATCATCACATTT-TCAATATTTAA-TATGTATTTATTTTTCAATATT
1 TAAATTATCTTATT-AAAATAATCA-ATTTATAAATATTTAATTA-ATATTTATTTTTCAATATT
* * * *
35309 AATAAAGGGCAGTCTTAAAGCAATTAAATGT-TCATTTTCTGATATTTTTAAATACA
63 AAGAAAGGACAGTCTTAAAGCAACTAAATGTCT-ATTTTCTGATATTTTTAAATAAA
*** * * *
35365 TAAA-TATCTTATTTTTATAATTATTTTAGATAAATATTTTATTAATATTTATTTTTCAATATTA
1 TAAATTATCTTATTAAAATAATCAATTT--ATAAATATTTAATTAATATTTATTTTTCAATATTA
* * *
35429 AGAAATGACAGTCTTAAAGCAACTAGATGTCTATTTTTTGATATTTTTAAATAAA
64 AGAAAGGACAGTCTTAAAGCAACTAAATGTCTATTTTCTGATATTTTTAAATAAA
35484 TAAAT
1 TAAAT
35489 AACTTATATA
Statistics
Matches: 101, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
116 3 0.03
117 5 0.05
118 8 0.08
119 82 0.81
120 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (118 bp):
TAAATTATCTTATTAAAATAATCAATTTATAAATATTTAATTAATATTTATTTTTCAATATTAAG
AAAGGACAGTCTTAAAGCAACTAAATGTCTATTTTCTGATATTTTTAAATAAA
Found at i:35552 original size:15 final size:16
Alignment explanation
Indices: 35500--35543 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
35490 ACTTATATAT
* *
35500 ATATATATTAAAATAAA
1 ATATAT-TTTAAATTAA
*
35517 AAATATTTTAAATTAA
1 ATATATTTTAAATTAA
35533 ATATATTTTAA
1 ATATATTTTAA
35544 TTATTTATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATTTTAAATTAA
Found at i:36190 original size:28 final size:27
Alignment explanation
Indices: 36159--36212 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
36149 TAATTCTTTC
*
36159 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
**
36187 TTTTCCTAATATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
36213 TTATTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:36220 original size:24 final size:22
Alignment explanation
Indices: 36181--36235 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
36171 TTATATATAC
*
36181 TTATTATTTTCCTAATATTTATA
1 TTATTATTTTACTAATATTT-TA
* *
36204 TATATTATTTTATTAATGTTTTA
1 T-TATTATTTTACTAATATTTTA
36227 TT-TTATTTT
1 TTATTATTTT
36236 TAATGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 4 0.14
24 16 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATTTTACTAATATTTTA
Found at i:37786 original size:20 final size:20
Alignment explanation
Indices: 37758--37809 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
37748 CATTCTTATT
37758 TTTGCATCGTTGTATTTGCA
1 TTTGCATCGTTGTATTTGCA
*
37778 TTTGTATCGTTGTATTTGCA
1 TTTGCATCGTTGTATTTGCA
37798 TTTGCATCGTTG
1 TTTGCATCGTTG
37810 CATAGTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.52
Consensus pattern (20 bp):
TTTGCATCGTTGTATTTGCA
Found at i:44340 original size:113 final size:112
Alignment explanation
Indices: 44141--44463 Score: 529
Period size: 113 Copynumber: 2.8 Consensus size: 112
44131 CAAAGATTCA
*
44141 AATTCATTACTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATTCATCACTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
44206 ATGAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCTCG
66 A-GAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCTCG
* * *
44254 AATTCATCACTTGATGGATCAGCATTGCCATGTAGAGTTCATAATGAGAAGAACTCATCTAAAGA
1 AATTCATCACTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
44319 AGGAAGAGGAAGTTCAAAATGAGAAGAATTTGTTCAACCTTTCGCTCG
66 A-GAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCTCG
* *
44367 AATTCATCACTTGATAGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATTTGAAGA
1 AATTCATCACTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
*
44432 AGAGAGAAGAAAGTTCATAATGAGAAGAACTT
66 AGA-AG-AGGAAGTTCATAATGAGAAGAACTT
44464 ATCTGAAGAT
Statistics
Matches: 193, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
112 2 0.01
113 169 0.88
114 22 0.11
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (112 bp):
AATTCATCACTTGATGGATCAGTATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTCGCTCG
Found at i:44483 original size:36 final size:39
Alignment explanation
Indices: 44402--44499 Score: 130
Period size: 41 Copynumber: 2.5 Consensus size: 39
44392 TGCCAGGTAG
* *
44402 AGTTCATAATGAGAAGAACTCATTTGAAGAAGAGAGAAGAA
1 AGTTCATAATGAGAAGAACTTATCT--AGAAGAGAGAAGAA
*
44443 AGTTCATAATGAGAAGAACTTATCT-GAAGA-TGAAG-A
1 AGTTCATAATGAGAAGAACTTATCTAGAAGAGAGAAGAA
44479 AGTTCATAATGAGAAGAACTT
1 AGTTCATAATGAGAAGAACTT
44500 GTTCAGCCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
36 22 0.41
37 4 0.07
38 5 0.09
41 23 0.43
ACGTcount: A:0.46, C:0.08, G:0.22, T:0.23
Consensus pattern (39 bp):
AGTTCATAATGAGAAGAACTTATCTAGAAGAGAGAAGAA
Found at i:57988 original size:22 final size:22
Alignment explanation
Indices: 57960--58002 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
57950 TTAAAGATTA
57960 TAATTCAGATTATAAGTCTTTG
1 TAATTCAGATTATAAGTCTTTG
57982 TAATTCAGATTATAAGTCTTT
1 TAATTCAGATTATAAGTCTTT
58003 AATGTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (22 bp):
TAATTCAGATTATAAGTCTTTG
Found at i:67572 original size:17 final size:17
Alignment explanation
Indices: 67550--67606 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
67540 TTTAATAAAC
67550 GAACTAGTTTGATGAAT
1 GAACTAGTTTGATGAAT
* *** *
67567 GAACTACTTCCCTAAAT
1 GAACTAGTTTGATGAAT
67584 GAACTAGTTTGATGAAT
1 GAACTAGTTTGATGAAT
67601 GAACTA
1 GAACTA
67607 CTTCCCTAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (17 bp):
GAACTAGTTTGATGAAT
Found at i:67593 original size:34 final size:34
Alignment explanation
Indices: 67545--67624 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
67535 GTTAATTTAA
*
67545 TAAACGAACTAGTTTGATGAATGAACTACTTCCC
1 TAAATGAACTAGTTTGATGAATGAACTACTTCCC
67579 TAAATGAACTAGTTTGATGAATGAACTACTTCCC
1 TAAATGAACTAGTTTGATGAATGAACTACTTCCC
67613 TAAATGAACTAG
1 TAAATGAACTAG
67625 ATGATTTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (34 bp):
TAAATGAACTAGTTTGATGAATGAACTACTTCCC
Found at i:67618 original size:17 final size:17
Alignment explanation
Indices: 67564--67623 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
67554 TAGTTTGATG
67564 AATGAACTACTTCCCTA
1 AATGAACTACTTCCCTA
* *** *
67581 AATGAACTAGTTTGATG
1 AATGAACTACTTCCCTA
67598 AATGAACTACTTCCCTA
1 AATGAACTACTTCCCTA
67615 AATGAACTA
1 AATGAACTA
67624 GATGATTTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (17 bp):
AATGAACTACTTCCCTA
Found at i:72340 original size:17 final size:18
Alignment explanation
Indices: 72313--72348 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
72303 TAGTAATAAA
72313 AAAATAACCTCACAAAAC
1 AAAATAACCTCACAAAAC
*
72331 AAAA-AACCTCACCAAAC
1 AAAATAACCTCACAAAAC
72348 A
1 A
72349 CTCCAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.31, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAATAACCTCACAAAAC
Found at i:72673 original size:16 final size:16
Alignment explanation
Indices: 72652--72689 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
72642 CTCTTTAAAC
72652 TTTTTTCTTTCTTTTA
1 TTTTTTCTTTCTTTTA
* *
72668 TTTTTTGTTTTTTTTA
1 TTTTTTCTTTCTTTTA
72684 TTTTTT
1 TTTTTT
72690 TACTAACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTA
Found at i:73019 original size:18 final size:18
Alignment explanation
Indices: 72991--73034 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
72981 GGTGAAGTAT
72991 AAATG-TGTTGTCGTGGC
1 AAATGTTGTTGTCGTGGC
*
73008 AAATGTTGTTGTCGTGGT
1 AAATGTTGTTGTCGTGGC
*
73026 AAGTGTTGT
1 AAATGTTGT
73035 AAGGTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.18, C:0.07, G:0.34, T:0.41
Consensus pattern (18 bp):
AAATGTTGTTGTCGTGGC
Found at i:73431 original size:23 final size:23
Alignment explanation
Indices: 73407--73452 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
73397 CTTCAAAGTT
73407 GGATGAATATTCTAGATCATTTTGG
1 GGATGAATATTCTAGAT-ATTTT-G
73432 GGATGAATATTCTAGATATTT
1 GGATGAATATTCTAGATATTT
73453 GAAGCTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (23 bp):
GGATGAATATTCTAGATATTTTG
Found at i:73461 original size:23 final size:25
Alignment explanation
Indices: 73408--73462 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
73398 TTCAAAGTTG
**
73408 GATGAATATTCTAGATCATTTTGGG
1 GATGAATATTCTAGATCATTTTGAA
73433 GATGAATATTCTAGAT-A-TTTGAA
1 GATGAATATTCTAGATCATTTTGAA
*
73456 GCTGAAT
1 GATGAAT
73463 TTGGCCTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 10 0.37
24 1 0.04
25 16 0.59
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.38
Consensus pattern (25 bp):
GATGAATATTCTAGATCATTTTGAA
Found at i:75866 original size:20 final size:20
Alignment explanation
Indices: 75823--75863 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
75813 AAAAACGATC
* *
75823 ATAATAGAGCAGCTTATTAA
1 ATAATAGAGCAACATATTAA
75843 ATAATAGTAGCAACATATTAA
1 ATAATAG-AGCAACATATTAA
75864 TAAATACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
ATAATAGAGCAACATATTAA
Found at i:76289 original size:71 final size:71
Alignment explanation
Indices: 76190--76378 Score: 236
Period size: 71 Copynumber: 2.7 Consensus size: 71
76180 CTTACATGTG
* * *
76190 GGCTAGGGATGTAAGCTTCTGATGCATGTAAAATTTTGGTTCTTACCTCAAGGCTTGAAAGGCCA
1 GGCTAGGGATGTAAGTTTCTGATCCATGTAAAATTTTGGTTCTTACCTCAAGGCTCGAAAGGCCA
76255 TAGGTA
66 TAGGTA
* * * * ** *
76261 GGTTGGGGATGTAAGTTT-TCGATCCATGTAAAATTTAGGTTTTTACCTTGAGGCTCGAAGGGCC
1 GGCTAGGGATGTAAGTTTCT-GATCCATGTAAAATTTTGGTTCTTACCTCAAGGCTCGAAAGGCC
76325 ATAGGTA
65 ATAGGTA
** * *
76332 GGCTAGGGATGTAAGTTTCTGATTTATATGAAATTTTGGTTCTTACC
1 GGCTAGGGATGTAAGTTTCTGATCCATGTAAAATTTTGGTTCTTACC
76379 CCGAGACCCT
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
70 1 0.01
71 96 0.98
72 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (71 bp):
GGCTAGGGATGTAAGTTTCTGATCCATGTAAAATTTTGGTTCTTACCTCAAGGCTCGAAAGGCCA
TAGGTA
Found at i:81551 original size:60 final size:61
Alignment explanation
Indices: 81454--81571 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 61
81444 TATTTTTGGT
* * *
81454 ATATTTAGGCATTTTTTTCAAAATATCGAAGTTAATTTCAGCATCGATACTCAGGGTATTG
1 ATATTTAGGCATTTTTTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTATTG
81515 ATATTTAGGCA-TTTTTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTA
1 ATATTTAGGCATTTTTTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTA
81572 ATATTGGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
60 43 0.80
61 11 0.20
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (61 bp):
ATATTTAGGCATTTTTTTCAAAACATCAAAGCTAATTTCAGCATCGATACTCAGGGTATTG
Found at i:82370 original size:17 final size:17
Alignment explanation
Indices: 82350--82413 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
82340 TAAAAATGGA
82350 AAAAAATAAAAAAAAAT
1 AAAAAATAAAAAAAAAT
* *
82367 AAAAAATGAAATAAAAT
1 AAAAAATAAAAAAAAAT
* * *
82384 -GAAAATGAAAATAAAT
1 AAAAAATAAAAAAAAAT
*
82400 AAATAATAACAAAA
1 AAAAAATAA-AAAA
82414 GGTTAAATTC
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 13 0.36
17 20 0.56
18 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:84209 original size:86 final size:86
Alignment explanation
Indices: 83924--84553 Score: 786
Period size: 86 Copynumber: 7.4 Consensus size: 86
83914 TTGTTTTTGT
* * * * * * *
83924 CAGATAGCCCTTCTCGCCTTGAGTTAAGCTGTAAATTTGATATGCCTCT-ACGCTTAATGAAATC
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGA-GCTGAGTGTAATC
** *
83988 GAACTCGAATTTC-TTTGATGA
65 GAACTCGAAGGTCTTTTGTTGA
* ** * * * * * *
84009 CAAATAACCCTTCTTACCTTGATTTATGCTGTAAATTTGCTATGCCTTTGAGCTGAATATAATTG
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCG
* * *
84074 AACTCTAAGG-ATTTTGATGA
66 AACTCGAAGGTCTTTTGTTGA
* * * * * *
84094 CAGATAGCCCTTTTCGCCTAGAGCTATGTTGTAAATTGGATGTGCCTTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCG
* *
84159 AACTCGAAGATCTTTTGTTGG
66 AACTCGAAGGTCTTTTGTTGA
*
84180 CAGATAACCCTTCTCGCCTTGAGTTATGTTGTAAATTTGG-TATGCCTTTGAGCTGAGTGTAATC
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAA-TTGGATATGCCTTTGAGCTGAGTGTAATC
84244 GAACTCGAAGGTCTTTTGTTGA
65 GAACTCGAAGGTCTTTTGTTGA
* * **
84266 CAGATAACCCTTCTCGCCTTGAGTTATGCTATAAATTGGATGTGAATTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCG
84331 AACTCGAAGGTCTTTTGTTGA
66 AACTCGAAGGTCTTTTGTTGA
* * * *
84352 CAGATAACCCTTCTCGTCTTGAGTTATGCTATAAATT-TAGTATGCCTTTGAGCTGATTGTAATC
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGA-TATGCCTTTGAGCTGAGTGTAATC
*
84416 AAACTCGAAGGTCTTTTGTTGA
65 GAACTCGAAGGTCTTTTGTTGA
* * * *
84438 CATATAACTCTTCTCGCCTTGAGTTATGATGTAAATTTGATATGCCTTTGAGCTGAGTGTAATCG
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCG
*
84503 AACTCGAAGGTC-TTTGATGA
66 AACTCGAAGGTCTTTTGTTGA
84523 CAGATAACCCTTCTCGCCTTGAGTTATGCTG
1 CAGATAACCCTTCTCGCCTTGAGTTATGCTG
84554 CACTGGGTTG
Statistics
Matches: 471, Mismatches: 67, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
85 164 0.35
86 302 0.64
87 5 0.01
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (86 bp):
CAGATAACCCTTCTCGCCTTGAGTTATGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCG
AACTCGAAGGTCTTTTGTTGA
Found at i:84897 original size:121 final size:121
Alignment explanation
Indices: 84609--84999 Score: 599
Period size: 121 Copynumber: 3.3 Consensus size: 121
84599 ATATCCGTCA
**
84609 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTTATTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
* * * *
84674 AAATTAGATATCCTTCGTCGTGAA-CTGAAATCCAAGGGTTGTATTGCTGCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
84729 GGCAC-ATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
* *
84793 GAATTGGATATCCTTCGTCGTGAAGTTGAAATACAAGGGTTGCATTGCTTCTTGTG
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
* * * *
84849 GGCACAATATCCTTTGTCATGAAGTTGAAATTGTGGATGGCTCATTCGTTGTGAAGTTGAGCTTT
1 GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
* * * * *
84914 GAATTGGATATCTTTAGTCGTGAAGTTAAAATCCAAGGGTTGCATT-ATGCTTGTA
66 GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
*
84969 AGCACGATATCCTTCGTCATGAAGTTGAAAT
1 GGCACGATATCCTTCGTCATGAAGTTGAAAT
85000 GTAAGGGTTG
Statistics
Matches: 248, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
119 79 0.32
120 71 0.29
121 98 0.40
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (121 bp):
GGCACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCTCCTTCGTTGTGAAGTTGAGCTTT
GAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTGCTTGTG
Found at i:85006 original size:54 final size:55
Alignment explanation
Indices: 84920--85055 Score: 175
Period size: 55 Copynumber: 2.5 Consensus size: 55
84910 CTTTGAATTG
* * * *
84920 GATATCTTTAGTCGTGAAGTTAAAATCCAAGGGTTGCATT-ATGCTTGTAAGCAC
1 GATATCCTTCGTCATGAAGTTGAAATCCAAGGGTTGCATTGATGCTTGTAAGCAC
** * **
84974 GATATCCTTCGTCATGAAGTTGAAATGTAAGGGTTGCATTGCTGCTTGTGGGCAC
1 GATATCCTTCGTCATGAAGTTGAAATCCAAGGGTTGCATTGATGCTTGTAAGCAC
*
85029 GATATCCTTCCTCATGAAGTTGAAATC
1 GATATCCTTCGTCATGAAGTTGAAATC
85056 ATGGATGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
54 34 0.49
55 36 0.51
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (55 bp):
GATATCCTTCGTCATGAAGTTGAAATCCAAGGGTTGCATTGATGCTTGTAAGCAC
Found at i:85146 original size:64 final size:63
Alignment explanation
Indices: 85060--85247 Score: 288
Period size: 64 Copynumber: 2.9 Consensus size: 63
85050 GAAATCATGG
* *
85060 ATGAAACTT-GAAAGTTTATTGTTGAGTCCAATATCCATCATTGTGAAGTTGAAATTGACTCTGA
1 ATGAAA-TTGGAAAGTTT-TTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
85124 ATGAAATTGGAAAGTTATTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
1 ATGAAATTGGAAAGTT-TTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
* * *
85188 ATGAAACTGGAAAGTTGTTTGTTGAGTTCAATATCCTTCGTTGTGAAGTTAAAATTGACT
1 ATGAAATTGGAAAGTT-TTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACT
85248 ATAAAACCTG
Statistics
Matches: 116, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
63 2 0.02
64 113 0.97
65 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (63 bp):
ATGAAATTGGAAAGTTTTTGTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
Found at i:86348 original size:95 final size:96
Alignment explanation
Indices: 86185--86379 Score: 302
Period size: 95 Copynumber: 2.0 Consensus size: 96
86175 AATGTCATTG
* *
86185 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGCCAGGGTGTTTAACCAATTGATTTA
1 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGATCTA
86250 GAGGGACAACTCAAGCTTTATTATATAT-TA
66 GAGGGACAACTCAAGCTTTATTATATATATA
* * * * *
86280 TAATCGCCTTTATCAGGCTAGCTGAATCTTATCCATAAAGACGGGGTGTTTAACCAATTGCTCTA
1 TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGATCTA
* *
86345 GAGGGACAGCTCAAGCTTTATTGTATATATA
66 GAGGGACAACTCAAGCTTTATTATATATATA
86376 TAAT
1 TAAT
86380 TATAATTTGG
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 84 0.93
96 6 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (96 bp):
TAATCACCTTTATCAGGCTAACTGAATATTATCCATAAAGACAGGGTGTTTAACCAATTGATCTA
GAGGGACAACTCAAGCTTTATTATATATATA
Found at i:86941 original size:35 final size:35
Alignment explanation
Indices: 86870--86945 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
86860 TGAAATATCC
* * *
86870 TTACAAAATGAAATATGAGAAAGTTCAAAAGCAAG
1 TTACAAAAAGAAATATGAGAAAGTTAAAAAACAAG
86905 TTACAAAAAGAAATATGAGAAAG-TAAAAAACAAAG
1 TTACAAAAAGAAATATGAGAAAGTTAAAAAAC-AAG
86940 TT-CAAA
1 TTACAAA
86946 CAGGATGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 10 0.27
35 27 0.73
ACGTcount: A:0.59, C:0.08, G:0.14, T:0.18
Consensus pattern (35 bp):
TTACAAAAAGAAATATGAGAAAGTTAAAAAACAAG
Found at i:88843 original size:7 final size:6
Alignment explanation
Indices: 88827--88869 Score: 59
Period size: 7 Copynumber: 6.7 Consensus size: 6
88817 TTTAATTGCG
88827 AAAATT AAAAGTT AAAATT AAAAGTT AAAATT AAAATTT AAAA
1 AAAATT AAAA-TT AAAATT AAAA-TT AAAATT AAAA-TT AAAA
88870 CATTCATTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 16 0.47
7 18 0.53
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:88843 original size:13 final size:13
Alignment explanation
Indices: 88827--88869 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
88817 TTTAATTGCG
88827 AAAATTAAAAGTT
1 AAAATTAAAAGTT
88840 AAAATTAAAAGTT
1 AAAATTAAAAGTT
*
88853 AAAATTAAAATTT
1 AAAATTAAAAGTT
88866 AAAA
1 AAAA
88870 CATTCATTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (13 bp):
AAAATTAAAAGTT
Found at i:88947 original size:10 final size:9
Alignment explanation
Indices: 88932--88956 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
88922 TATGTTAGAG
88932 AAAAAAATA
1 AAAAAAATA
88941 AAAAAAATA
1 AAAAAAATA
88950 AAAAAAA
1 AAAAAAA
88957 GAAGAAAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAATA
Found at i:89105 original size:24 final size:23
Alignment explanation
Indices: 89061--89127 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 23
89051 ATGGAAAAAA
*
89061 TAAATAAAACAAATAAA-AAAATAG
1 TAAATAAAA-AAAGAAATAAAAT-G
*
89085 TAAATAAAAAACGAAATAAAATG
1 TAAATAAAAAAAGAAATAAAATG
*
89108 AAAATGAAAAAAAGAAATAA
1 TAAAT-AAAAAAAGAAATAA
89128 TAACAAAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.27
24 27 0.73
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (23 bp):
TAAATAAAAAAAGAAATAAAATG
Found at i:89135 original size:24 final size:23
Alignment explanation
Indices: 89086--89135 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
89076 AAAAAATAGT
* *
89086 AAATAAAAAACGAAATAAAATGA
1 AAATAAAAAAAGAAATAAAATCA
89109 AAATGAAAAAAAGAAATAATAA-CA
1 AAAT-AAAAAAAGAAATAA-AATCA
89133 AAA
1 AAA
89136 GGTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 17 0.74
25 2 0.09
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (23 bp):
AAATAAAAAAAGAAATAAAATCA
Found at i:91225 original size:13 final size:15
Alignment explanation
Indices: 91174--91240 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
91164 TACTTTAATG
91174 TATAATATATATAT-
1 TATAATATATATATA
*
91188 T-TAA-AAACTATATA
1 TATAATATA-TATATA
* * *
91202 CA-AATATATATTTT
1 TATAATATATATATA
91216 TATAATATATATATA
1 TATAATATATATATA
91231 TATAATATAT
1 TATAATATAT
91241 GCTTTACTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
12 2 0.05
13 8 0.20
14 8 0.20
15 22 0.55
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATATATATATA
Found at i:91228 original size:29 final size:31
Alignment explanation
Indices: 91196--91262 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
91186 ATTTAAAAAC
* *
91196 TATATACA-AATATAT-ATTT-TTATAATATA
1 TATATACATAATATATGCTTTACTAT-ATATA
*
91225 TATATATATAATATATGCTTTACTATATATA
1 TATATACATAATATATGCTTTACTATATATA
91256 TATATAC
1 TATATAC
91263 GCTTTCTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 14 0.45
32 3 0.10
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (31 bp):
TATATACATAATATATGCTTTACTATATATA
Found at i:91251 original size:23 final size:22
Alignment explanation
Indices: 91225--91267 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
91215 TTATAATATA
*
91225 TATATATATAATATATGCTTTAC
1 TATATATAT-ATATACGCTTTAC
91248 TATATATATATATACGCTTT
1 TATATATATATATACGCTTT
91268 CTAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (22 bp):
TATATATATATATACGCTTTAC
Found at i:91517 original size:14 final size:15
Alignment explanation
Indices: 91481--91520 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
91471 TCTAAACCCT
91481 AAAAATATAATATTTA
1 AAAAAT-TAATATTTA
91497 AATAAATTAAT-TTTA
1 AA-AAATTAATATTTA
91512 AAAAATTAA
1 AAAAATTAA
91521 ATAATCAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 6 0.26
17 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAATTAATATTTA
Found at i:92602 original size:22 final size:23
Alignment explanation
Indices: 92568--92611 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
92558 TCAATCACTT
* *
92568 AAATTAATTATTATATTTTAATAA
1 AAATTAA-TATTAAATTATAATAA
92592 AAATTAA-ATTAAATTATAAT
1 AAATTAATATTAAATTATAAT
92612 TCTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
24 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATTAATATTAAATTATAATAA
Found at i:92633 original size:33 final size:33
Alignment explanation
Indices: 92591--92667 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
92581 TATTTTAATA
*
92591 AAAATTAAATTAAATTATAATTCTATTAAAAGT
1 AAAATTAAATTAAATTATAAATCTATTAAAAGT
92624 AAAATTAAATTAAATTATAAATCTATTAAAAGT
1 AAAATTAAATTAAATTATAAATCTATTAAAAGT
92657 AAAATTAAATT
1 AAAATTAAATT
92668 TTAACTAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (33 bp):
AAAATTAAATTAAATTATAAATCTATTAAAAGT
Found at i:92896 original size:2 final size:2
Alignment explanation
Indices: 92889--92916 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92879 CTCTTCATTT
92889 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
92917 CCCCAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:99435 original size:21 final size:21
Alignment explanation
Indices: 99410--99450 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99400 CTATTTTTTT
* *
99410 AAAAACCAAAAAAGGCAAAAA
1 AAAAAACAAAAAAGCCAAAAA
99431 AAAAAACAAAAAAGCCAAAA
1 AAAAAACAAAAAAGCCAAAA
99451 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAAACAAAAAAGCCAAAAA
Found at i:103754 original size:21 final size:21
Alignment explanation
Indices: 103730--103770 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
103720 CAATTCATTT
103730 ATCTT-TTCTTTATCTTGTTTA
1 ATCTTATT-TTTATCTTGTTTA
103751 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
103771 CAGCACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (21 bp):
ATCTTATTTTTATCTTGTTTA
Found at i:105590 original size:3 final size:3
Alignment explanation
Indices: 105584--105643 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
105574 TTTTTTCAAT
* *
105584 TTA TTA TTA TTA TTA CTA TTA -TA TTA TTA TTTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* *
105629 ATA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA
105644 CAAACAGACT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:107162 original size:21 final size:21
Alignment explanation
Indices: 107137--107193 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
107127 TTAAATAAGA
107137 ATATTTATTTATTTTTTTATT
1 ATATTTATTTATTTTTTTATT
*
107158 ATATTATATTT-TATTTTTATT
1 ATATT-TATTTATTTTTTTATT
*
107179 -TATTTAAATTATTTT
1 ATATTT-ATTTATTTT
107194 ATTAAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 17 0.57
22 5 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (21 bp):
ATATTTATTTATTTTTTTATT
Found at i:108094 original size:28 final size:27
Alignment explanation
Indices: 108063--108116 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
108053 TAATTCTTTC
*
108063 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
**
108091 TTTTCCTAATATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
108117 TTATTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:108124 original size:24 final size:22
Alignment explanation
Indices: 108085--108139 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 22
108075 TTATATATAC
*
108085 TTATTATTTTCCTAATATTTATA
1 TTATTATTTTACTAATATTT-TA
* *
108108 TATATTATTTTATTAATGTTTTA
1 T-TATTATTTTACTAATATTTTA
108131 TT-TTATTTT
1 TTATTATTTT
108140 TAATGTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 7 0.25
22 1 0.04
23 4 0.14
24 16 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTATTTTACTAATATTTTA
Found at i:109896 original size:302 final size:305
Alignment explanation
Indices: 109325--109933 Score: 1124
Period size: 302 Copynumber: 2.0 Consensus size: 305
109315 AATGACAATT
109325 ACAAGAATTAATACACAAGATGAAAGAGAATGTTATGGAAGAAGCTGTAATCCAGACAAGCAATA
1 ACAAGAATTAATA-ACAAGATGAAAGAGAATGTTATGGAAGAAGCTGTAATCCAGACAAGCAATA
109390 TGGCCCACAAGCTGATAGAATAACTTGTCTTTAGGAGGGAAAGGTTATCCCCTATATGTAAAGTT
65 TGGCCCACAAGCTGATAGAATAACTTGTCTTTAGGAGGGAAAGGTTATCCCCTATATGTAAAGTT
109455 TTGCTGAAGTTAGGACTGAAAATATGTCCTTTAATAGTAAAAGTTTTGTTTGATGCACGGAAACT
130 TTGCTGAAGTTAGGACTGAAAATATGTCCTTTAATAGTAAAAGTTTTGTTTGATGCACGGAAACT
109520 TTTGTGTTAATGAAATCTGTTTAAGATGATCACTCTTGAGTAACACCTCTTCATACTGCATTTGA
195 TTTGTGTTAATGAAATCTGTTTAAGATGATCACTCTTGAGTAACACCTCTTCATACTGCATTTGA
109585 ATCTTGCATTTTCA-TTTACA-TTGTTGTTTGCTTTTGTATTGCAC
260 ATCTTGCATTTTCATTTTACATTTGTTGTTTGCTTTTGTATTGCAC
109629 ACAAGAATTAAT-ACAAGATGAAAGAGAATGTTATGGAAGAAGCTGTAATCCAGACAAGCAATAT
1 ACAAGAATTAATAACAAGATGAAAGAGAATGTTATGGAAGAAGCTGTAATCCAGACAAGCAATAT
109693 GGCCCACAAGCTGATAGAATAACTTGTCTTTAGGAGGGAAAGGTTATCCCCTATATGTAAAGTTT
66 GGCCCACAAGCTGATAGAATAACTTGTCTTTAGGAGGGAAAGGTTATCCCCTATATGTAAAGTTT
109758 TGCTGAAGTTAGGACTG-AAATATGTCCTTT-AT-GTAAAAGTTTTG-TTGATGCACGGAAACTT
131 TGCTGAAGTTAGGACTGAAAATATGTCCTTTAATAGTAAAAGTTTTGTTTGATGCACGGAAACTT
109819 TTGTGTTTAATGAAATCTGTTCTAAGATGATCACTCTTGAGTAACACCTCTTCATACATGCATTT
196 TTGTG-TTAATGAAATCTGTT-TAAGATGATCACTCTTGAGTAACACCTCTTCATAC-TGCATTT
109884 GAATCTTTGCATTTTCATTTTACATTTGTTGTTTGCTTTTGTATTGCAC
258 GAATC-TTGCATTTTCATTTTACATTTGTTGTTTGCTTTTGTATTGCAC
109933 A
1 A
109934 ATTTACATTC
Statistics
Matches: 299, Mismatches: 0, Indels: 12
0.96 0.00 0.04
Matches are distributed among these distances:
298 22 0.07
299 27 0.09
300 37 0.12
301 25 0.08
302 145 0.48
303 6 0.02
304 37 0.12
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (305 bp):
ACAAGAATTAATAACAAGATGAAAGAGAATGTTATGGAAGAAGCTGTAATCCAGACAAGCAATAT
GGCCCACAAGCTGATAGAATAACTTGTCTTTAGGAGGGAAAGGTTATCCCCTATATGTAAAGTTT
TGCTGAAGTTAGGACTGAAAATATGTCCTTTAATAGTAAAAGTTTTGTTTGATGCACGGAAACTT
TTGTGTTAATGAAATCTGTTTAAGATGATCACTCTTGAGTAACACCTCTTCATACTGCATTTGAA
TCTTGCATTTTCATTTTACATTTGTTGTTTGCTTTTGTATTGCAC
Found at i:109977 original size:20 final size:20
Alignment explanation
Indices: 109949--110000 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
109939 CATTCTTATT
109949 TTTGCATCGTTGTATTTGCA
1 TTTGCATCGTTGTATTTGCA
*
109969 TTTGTATCGTTGTATTTGCA
1 TTTGCATCGTTGTATTTGCA
109989 TTTGCATCGTTG
1 TTTGCATCGTTG
110001 CATAGTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.13, C:0.13, G:0.21, T:0.52
Consensus pattern (20 bp):
TTTGCATCGTTGTATTTGCA
Found at i:115317 original size:22 final size:23
Alignment explanation
Indices: 115289--115341 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
115279 GGTCACTGAT
* *
115289 ATAATTTACCTTT-TATTTTTAA
1 ATAATTTACCTTTAAATTTTGAA
115311 ATAATTTACCTTTAAATTTTGAA
1 ATAATTTACCTTTAAATTTTGAA
*
115334 CTAATTTA
1 ATAATTTA
115342 TAATTTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
ATAATTTACCTTTAAATTTTGAA
Found at i:123308 original size:32 final size:32
Alignment explanation
Indices: 123272--123346 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
123262 CCATATACAT
*
123272 TGTGTCCATTACATATATATTACATCATTATA
1 TGTGTACATTACATATATATTACATCATTATA
123304 TGTGTACATTACATATATATTACATCATTATA
1 TGTGTACATTACATATATATTACATCATTATA
123336 TGTGTACATTA
1 TGTGTACATTA
123347 TAACGCATAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (32 bp):
TGTGTACATTACATATATATTACATCATTATA
Found at i:123332 original size:19 final size:19
Alignment explanation
Indices: 123278--123333 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
123268 ACATTGTGTC
123278 CATTACATATATATTACAT
1 CATTACATATATATTACAT
* *
123297 CATT--ATATGT-GT--A-
1 CATTACATATATATTACAT
123310 CATTACATATATATTACAT
1 CATTACATATATATTACAT
123329 CATTA
1 CATTA
123334 TATGTGTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
13 4 0.15
14 1 0.04
15 5 0.19
16 2 0.07
17 5 0.19
18 1 0.04
19 9 0.33
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (19 bp):
CATTACATATATATTACAT
Found at i:123343 original size:16 final size:16
Alignment explanation
Indices: 123292--123344 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
123282 ACATATATAT
123292 TACATCATTATATGTG
1 TACATCATTATATGTG
*
123308 TACATTACA-TATATAT-
1 TACA-T-CATTATATGTG
123324 TACATCATTATATGTG
1 TACATCATTATATGTG
123340 TACAT
1 TACAT
123345 TATAACGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 2 0.06
15 7 0.23
16 13 0.42
17 7 0.23
18 2 0.06
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.43
Consensus pattern (16 bp):
TACATCATTATATGTG
Found at i:124664 original size:33 final size:32
Alignment explanation
Indices: 124599--124662 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
124589 TTTTAATTTC
*
124599 ATTTATTTTCCTTTTTAATATTAGCCATTTTT
1 ATTTATTTTACTTTTTAATATTAGCCATTTTT
*
124631 ATTTATTTTTACTTTTTAAT-TTAGCTATTTTT
1 ATTTA-TTTTACTTTTTAATATTAGCCATTTTT
124663 TAGGGTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (32 bp):
ATTTATTTTACTTTTTAATATTAGCCATTTTT
Found at i:124705 original size:91 final size:92
Alignment explanation
Indices: 124535--124706 Score: 219
Period size: 91 Copynumber: 1.9 Consensus size: 92
124525 TATTTTTTGG
*
124535 TTTTATTTATTTTCCTTTTTTAAATTTAGCTAACTTTTTAGGTTTTTACTTTTTTTTTAATTTCA
1 TTTTATTTATTTTACTTTTTTAAATTTAGCTAACTTTTTAGGTTTTTACTTTTTTTTTAATTTCA
*
124600 TTTATTTTCCTTTTTAATATTAGCCAT
66 TTTATTTTCATTTTTAATATTAGCCAT
* *
124627 TTTTATTTATTTTTAC-TTTTT-AATTTAGCT-ATTTTTTAGGGTTTTTA-TATTTTTATTTCAT
1 TTTTATTTA-TTTTACTTTTTTAAATTTAGCTAACTTTTTA-GGTTTTTACT-TTTTT-TTTAAT
* *
124688 TTTATTT-TTTTTATTTTTA
62 TTCATTTATTTTCATTTTTA
124707 TTTTGGTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
90 8 0.11
91 32 0.46
92 25 0.36
93 5 0.07
ACGTcount: A:0.20, C:0.08, G:0.05, T:0.68
Consensus pattern (92 bp):
TTTTATTTATTTTACTTTTTTAAATTTAGCTAACTTTTTAGGTTTTTACTTTTTTTTTAATTTCA
TTTATTTTCATTTTTAATATTAGCCAT
Found at i:125739 original size:13 final size:13
Alignment explanation
Indices: 125692--125739 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
125682 TCTCACTAAC
*
125692 TTTTTTCATTTT-
1 TTTTTTTATTTTA
125704 TTTTTCTT-TCTTTA
1 TTTTT-TTAT-TTTA
125718 TTTTTTTATTTTA
1 TTTTTTTATTTTA
125731 TTTTTTTAT
1 TTTTTTTAT
125740 CATTTACATC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 6 0.19
13 19 0.61
14 6 0.19
ACGTcount: A:0.10, C:0.06, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:129138 original size:21 final size:21
Alignment explanation
Indices: 129114--129155 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
129104 CAACACGGCT
129114 TGGCCGGCCACCACGAGTCAC
1 TGGCCGGCCACCACGAGTCAC
*
129135 TGGCCGGCCATCACGAGTCAC
1 TGGCCGGCCACCACGAGTCAC
129156 CGTCGAATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (21 bp):
TGGCCGGCCACCACGAGTCAC
Found at i:129882 original size:51 final size:54
Alignment explanation
Indices: 129816--129926 Score: 174
Period size: 53 Copynumber: 2.1 Consensus size: 54
129806 GTGCATGGTG
* *
129816 GGAAATGATGGGGTTTTTAAATAAT-A-AGAAATAGTATTTAATTGGGGTAGT-
1 GGAAATGATGAGGTTTTTAAATAATAATAAAAATAGTATTTAATTGGGGTAGTA
*
129867 GGAAATGGTGAGGTTTTTAAATAATAATAAAAATAGTATTTAATTGGGGTAGTA
1 GGAAATGATGAGGTTTTTAAATAATAATAAAAATAGTATTTAATTGGGGTAGTA
129921 GGAAAT
1 GGAAAT
129927 AGTGGAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
51 23 0.43
52 1 0.02
53 24 0.44
54 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (54 bp):
GGAAATGATGAGGTTTTTAAATAATAATAAAAATAGTATTTAATTGGGGTAGTA
Found at i:130218 original size:48 final size:47
Alignment explanation
Indices: 130163--130366 Score: 214
Period size: 48 Copynumber: 4.3 Consensus size: 47
130153 TCACTCAGGA
* * *
130163 AATATCAAATCTTGCATG-AGAGGGATTTGTTCCACTT-TTGCTGAAGGG
1 AATATCAAATCTTG-A-GAAGAGAGATTTGTTCCGCTTACT-CTGAAGGG
* * * *
130211 TATATCAAATCTTGAAGAAGAAAGACTTGTTCCGCTTACTCCGAAGGG
1 AATATCAAATCTTG-AGAAGAGAGATTTGTTCCGCTTACTCTGAAGGG
*
130259 AATATCAAATCTTGGAGAAGAGAGATCTGTTCCGCTTACTCTGAAGGG
1 AATATCAAATCTT-GAGAAGAGAGATTTGTTCCGCTTACTCTGAAGGG
* ** * *
130307 AATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGG
1 AATATCAAATCTTG-AGAAGAGAGATTTGTTCCGCTTACTCTGAAGGG
*
130355 AATATCAGATCT
1 AATATCAAATCT
130367 GGGGGAGTTA
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
47 2 0.02
48 129 0.97
49 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (47 bp):
AATATCAAATCTTGAGAAGAGAGATTTGTTCCGCTTACTCTGAAGGG
Found at i:130290 original size:96 final size:96
Alignment explanation
Indices: 130138--130366 Score: 281
Period size: 96 Copynumber: 2.4 Consensus size: 96
130128 GAATCTGGGT
* * *
130138 AGACTTGTTCCGCTGTCACT-C--AGGAAATATCAAATCTTGCATGAGAGGGATTTGTTCCACTT
1 AGACTTGTTCCGCT-T-ACTCCGAAGGGAATATCAAATCTTGCATGAGAGAGATCTGTTCCACTT
* *
130200 -TTGCTGAAGGGTATATCAAATCTTGAAGAAGAA-
64 ACT-CTGAAGGGAATATCAAATCTTGAAGAA-AAG
* *
130233 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGGA-GAAGAGAGATCTGTTCCGCTTA
1 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGCATG-AGAGAGATCTGTTCCACTTA
130297 CTCTGAAGGGAATATCAAATCTTGAAGAAAAG
65 CTCTGAAGGGAATATCAAATCTTGAAGAAAAG
* * *
130329 AGACATGTTCCACTTACTCCGAAGGGAATATCAGATCT
1 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCT
130367 GGGGGAGTTA
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
93 3 0.03
94 2 0.02
95 17 0.14
96 95 0.81
97 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (96 bp):
AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGCATGAGAGAGATCTGTTCCACTTAC
TCTGAAGGGAATATCAAATCTTGAAGAAAAG
Found at i:130456 original size:46 final size:48
Alignment explanation
Indices: 130394--130518 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 48
130384 GAATCGAAAC
130394 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAG-A-AG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
*
130440 AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
* *
130488 AGACCTGTTCCATTTACTCTGAAGGGAATAT
1 AGACTTGTTCCACTTACTCTGAAGGGAATAT
130519 TAGATCTGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 42 0.58
47 1 0.01
48 30 0.41
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (48 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
Found at i:130524 original size:159 final size:159
Alignment explanation
Indices: 130233--130638 Score: 625
Period size: 159 Copynumber: 2.5 Consensus size: 159
130223 TGAAGAAGAA
* * * *
130233 AGACTTGTTCCGCTTACTCCGAAGGGAATATCAAATCTTGGAGAAGAGAGATCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGA-CT-TGTTCCGCTTAC
130298 TCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAG
64 TCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAG
*
130363 ATCTGGGGGAGTTAATCCATTGAATCGAAAC
129 ATCTGGGGGAATTAATCCATTGAATCGAAAC
130394 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGACTTGTTCCGCTTACTC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGACTTGTTCCGCTTACTC
* * * * *
130459 TGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCATTTACTCTGAAGGGAATATTAGAT
66 TGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAGAT
* *
130524 CTGGGGGAATTGATCCATTGAATCGAAGC
131 CTGGGGGAATTAATCCATTGAATCGAAAC
*
130553 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCGCTTAC
1 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAG--AAGAGACTTGTTCCGCTTAC
* *
130618 TAC-GAAGAGAATATCAGATCT
64 T-CTGAAGGGAATATCAAATCT
130639 GGGGGAGTTG
Statistics
Matches: 227, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
159 143 0.63
160 1 0.00
161 82 0.36
162 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (159 bp):
AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGACTTGTTCCGCTTACTC
TGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCACTTACTCCGAAGGGAATATCAGAT
CTGGGGGAATTAATCCATTGAATCGAAAC
Found at i:130573 original size:113 final size:113
Alignment explanation
Indices: 130436--130977 Score: 890
Period size: 113 Copynumber: 4.8 Consensus size: 113
130426 AAATCTTGAA
*
130436 GAAG-AGACTTGTTCCGCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
1 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
* *
130500 TTTACTCTGAAGGGAATATTAGATCTGGGGGAATTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
* *
130548 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACCTGTTCCG
1 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
* *
130613 CTTACTAC-GAAGAGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
66 CTTACT-CTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
*
130661 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTATTCCA
1 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
*
130726 CTTACTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
* * * *
130774 AAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTAAAGAAGAGAGACTTGTTCCG
1 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
**
130839 CTTACTCCAAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
66 CTTACTCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
* * *
130887 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAGAGACATGTTCCT
1 GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
*
130952 CTTACTCTGAAGGGAATATCAAATCT
66 CTTACTCTGAAGGGAATATCAGATCT
130978 TGAAGAAGAG
Statistics
Matches: 400, Mismatches: 27, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
112 5 0.01
113 394 0.99
114 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (113 bp):
GAAGCAGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAGAGACCTGTTCCA
CTTACTCTGAAGGGAATATCAGATCTGGGGGAATTGATCCATTGAATC
Found at i:130949 original size:48 final size:48
Alignment explanation
Indices: 130892--131023 Score: 228
Period size: 48 Copynumber: 2.8 Consensus size: 48
130882 GAATCGAAGC
*
130892 AGACTTGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAG
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAG
* *
130940 AGACATGTTCCTCTTACTCTGAAGGGAATATCAAATCTTGAAGAAGAG
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAG
*
130988 AGACATATTCCACTTACTCTGAAGGGAATATCAAAT
1 AGACATGTTCCACTTACTCTGAAGGGAATATCAAAT
131024 ATGGAGAAGT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (48 bp):
AGACATGTTCCACTTACTCTGAAGGGAATATCAAATCTTGAAGAAAAG
Found at i:132215 original size:18 final size:18
Alignment explanation
Indices: 132194--132233 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
132184 TTTATTTTTC
132194 TTTTCCTTTTTCCTCATT
1 TTTTCCTTTTTCCTCATT
* **
132212 TTTTCTTTTTTTTTCATT
1 TTTTCCTTTTTCCTCATT
132230 TTTT
1 TTTT
132234 TCCATTCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTCCTTTTTCCTCATT
Found at i:132245 original size:11 final size:11
Alignment explanation
Indices: 132231--132256 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
132221 TTTTTCATTT
132231 TTTTCCATTCA
1 TTTTCCATTCA
132242 TTTTCCATTCA
1 TTTTCCATTCA
132253 TTTT
1 TTTT
132257 TTCAGGCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTCCATTCA
Found at i:135818 original size:12 final size:12
Alignment explanation
Indices: 135797--135830 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
135787 ATAATAATAT
135797 ATAAAAAAAGAA
1 ATAAAAAAAGAA
*
135809 ATAAAGAAAGAA
1 ATAAAAAAAGAA
135821 ATAAATAAAA
1 ATAAA-AAAA
135831 CAGTGGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (12 bp):
ATAAAAAAAGAA
Found at i:144030 original size:21 final size:21
Alignment explanation
Indices: 144006--144046 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
143996 AACACGGCTC
144006 GGCCGGCCACCACGAGTCACT
1 GGCCGGCCACCACGAGTCACT
*
144027 GGCCGGCCATCACGAGTCAC
1 GGCCGGCCACCACGAGTCAC
144047 CGTCGAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.41, G:0.29, T:0.10
Consensus pattern (21 bp):
GGCCGGCCACCACGAGTCACT
Found at i:144762 original size:51 final size:53
Alignment explanation
Indices: 144706--144815 Score: 179
Period size: 52 Copynumber: 2.1 Consensus size: 53
144696 GTGCATGGTG
* *
144706 GGAAATGATGGGGTTTTTAAATAAT-AAGAAATAGTATTTAATTGGGGTAGT-
1 GGAAATGATGAGGTTTTTAAATAATAAAAAAATAGTATTTAATTGGGGTAGTA
*
144757 GGAAATGGTGAGGTTTTTAAATAATAAAAAAATAGTATTTAATTGGGGTAGTA
1 GGAAATGATGAGGTTTTTAAATAATAAAAAAATAGTATTTAATTGGGGTAGTA
144810 GGAAAT
1 GGAAAT
144816 AGTGGAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 23 0.43
52 25 0.46
53 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (53 bp):
GGAAATGATGAGGTTTTTAAATAATAAAAAAATAGTATTTAATTGGGGTAGTA
Found at i:148276 original size:231 final size:230
Alignment explanation
Indices: 147866--148722 Score: 1187
Period size: 231 Copynumber: 3.7 Consensus size: 230
147856 CAATGGAGGT
* * * * *
147866 ATCTAACTCAAAGCTCAATTTCACAGCGAATGATCCATCCATGATTTCAACTTCACGATGAAGGA
1 ATCTAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACGATTTCAACTTCACGACGAAGGA
* * * * *
147931 TATCATACCCAAAAGATTAACCTAACTTCACAACAAATTAGTCATCTATGACACAACAATGAAAA
66 TATCGTACCCAAAAGATTAACCCAACTTCACGACGAATGAGTCATCTATGACACAACAATGAAAA
* * * * * *
147996 ACCAGTTTCATTGAGAGTAAATTTTAACTTCAGAGTGAAAGGTATTGAACTCGAAAGCGATGCAA
131 ACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAGCGATGCAA
*
148061 TTTACAAGAGTGGAGTTCAACTTCACAATGAAAGAC
196 TTTACAAGAGTGGATTTCAACTTCACAA-GAAAGAC
* * *
148097 ATCTAATTCAAAGCTCAACATT-ACAGTGAATGAGCCATCCACGATTTCAACTTCACGATGAAGA
1 ATCTAATTCAAAGCTCAAC-TTCACAGCGAATGAGCCATCCACGATTTCAACTTCACGACGAAGG
* * * ** *
148161 ATATCGTACCTAAAAGATTGACCCAACTTCATGGTGAATGAGTCATCTGTGACACAACAATGAAA
65 ATATCGTACCCAAAAGATTAACCCAACTTCACGACGAATGAGTCATCTATGACACAACAATGAAA
* *
148226 AATCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAGTGATGCA
130 AACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAGCGATGCA
* *
148291 ATTTACAAGAGTGGATTTCAACTTCACAACATAGGAC
195 ATTTACAAGAGTGGATTTCAACTTCACAAGA-AAGAC
*
148328 ATCTAATTCAAAGCTCAACTTCACAGCGAATGTGCCATCCACGATTTCAACTTCACGACGAAGGA
1 ATCTAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACGATTTCAACTTCACGACGAAGGA
* *** * *
148393 TATCGTACCCAAAAGATTGATATAACTTCACGACGAATTAGTCATCTGTGACACAACAATGAAAA
66 TATCGTACCCAAAAGATTAACCCAACTTCACGACGAATGAGTCATCTATGACACAACAATGAAAA
* *
148458 ACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAACGATACAA
131 ACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAGCGATGCAA
*
148523 TTTACAAGAGTGGATTTCAACTTCACAACGAATGAC
196 TTTACAAGAGTGGATTTCAACTTCACAA-GAAAGAC
* * * * * * *
148559 ATCCAATTCAAAGCTCAACTTCACAGCGAATTAGACATCCATGATTTTAATTTCATGACGAAGGA
1 ATCTAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACGATTTCAACTTCACGACGAAGGA
* *
148624 TATCGTACCTAAAAGATTAACCCAACTTCACGACGAATGAGTTATCTATGACACAACAATGAAAA
66 TATCGTACCCAAAAGATTAACCCAACTTCACGACGAATGAGTCATCTATGACACAACAATGAAAA
* * *
148689 ATCAATTTCATTCAG-GTCAAATTTCAGCTTCACA
131 ACCAGTTTCATTCAGAGTC-AATTTCAACTTCACA
148723 ATGAAGGACA
Statistics
Matches: 556, Mismatches: 65, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
230 6 0.01
231 547 0.98
232 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (230 bp):
ATCTAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACGATTTCAACTTCACGACGAAGGA
TATCGTACCCAAAAGATTAACCCAACTTCACGACGAATGAGTCATCTATGACACAACAATGAAAA
ACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAGCGATGCAA
TTTACAAGAGTGGATTTCAACTTCACAAGAAAGAC
Found at i:148834 original size:173 final size:173
Alignment explanation
Indices: 148536--148891 Score: 543
Period size: 173 Copynumber: 2.1 Consensus size: 173
148526 ACAAGAGTGG
* * * *
148536 ATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGCGAATTAGACATCCAT
1 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGACATCCAC
* * *
148601 GATTTTAATTTCATGACGAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACGAATGAGT
66 GATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACGAATAAGT
* *
148666 TATCTATGACACAACAATGAAAAATCAATTTCATTCAG-GTCAA
131 CATCTATGACACAACAATGAAAAACCAATTTCATTCAGAGTC-A
* * * *
148709 ATTTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCAC
1 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGACATCCAC
* *
148774 GATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGT
66 GATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACGAATAAGT
* *
148839 CATCTATGACACAACAATGAAAAGCCAGTTTCATTCAGAGTCA
131 CATCTATGACACAACAATGAAAAACCAATTTCATTCAGAGTCA
148882 ATTTCAACTT
1 ATTTCAACTT
148892 TATAGCAAAA
Statistics
Matches: 164, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 161 0.98
174 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (173 bp):
ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGACATCCAC
GATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACGAATAAGT
CATCTATGACACAACAATGAAAAACCAATTTCATTCAGAGTCA
Found at i:148834 original size:404 final size:404
Alignment explanation
Indices: 148305--149126 Score: 1207
Period size: 404 Copynumber: 2.0 Consensus size: 404
148295 ACAAGAGTGG
* * *
148305 ATTTCAACTTCACAACATAGGACATCTAATTCAAAGCTCAACTTCACAGCGAATGTGCCATCCAC
1 ATTTCAACTTCACAACATAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
* * *
148370 GATTTCAACTTCACGACGAAGGATATCGTACCCAAAAGATTGATATAACTTCACGACGAATTAGT
66 GATTTCAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACACAACTTCACGACGAATAAGT
* *
148435 CATCTGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGA
131 CATCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGA
* * *
148500 TATTGAACTCGAAAACGATACAATTTACAAGAGTGGATTTCAACTTCACAACGAATGACATCCAA
196 TATTAAACTCGAAAACGATACAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCCAA
** * * * *
148565 TTCAAAGCTCAACTTCACAGCGAATTAGACATCCATGATTTTAATTTCATGACGAAGGATATCGT
261 TTCAAAGCTCAACTTCACAGCGAAGGAGACATCCACGATTTCAACTTCACGACGAAGGATATCGT
* * * * *
148630 ACCTAAAAGATTAACCCAACTTCACGACGAATGAGTTATCTATGACACAACAATGAAAAATCAAT
326 ACCCAAAAGATTAACCCAACTTCACAACGAATAAGTCATCTATGACACAACAATGAAAAACCAAT
148695 TTCATTCAG-GTCAA
391 TTCATTCAGAGTC-A
* * *
148709 ATTTCAGCTTCACAATGA-AGGACATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCA
1 ATTTCAACTTCACAA-CATAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCA
* * * *
148773 CGATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAG
65 CGATTTCAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACACAACTTCACGACGAATAAG
* * * *
148838 TCATCTATGACACAACAATGAAAAGCCAGTTTCATTCAGAGTCAATTTCAACTTTATAGCAAAAT
130 TCATCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAG
* * * * *
148903 ATATTAAACTTGAAAATGATGCAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGGCATCTA
195 ATATTAAACTCGAAAACGATACAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCCA
* * *
148968 ATTCAAAGCTGAACTTCACAGCGAAGGAGTCATCCACGATTTCACCTTCACGACGAAGGATATCG
260 ATTCAAAGCTCAACTTCACAGCGAAGGAGACATCCACGATTTCAACTTCACGACGAAGGATATCG
* * * *
149033 TACCCAAAAGATTGACCCAACTTCACAACGAATAAGTCATTTGTGACACAACAATGAAAAACCAG
325 TACCCAAAAGATTAACCCAACTTCACAACGAATAAGTCATCTATGACACAACAATGAAAAACCAA
149098 TTTCATTCAGAGTCA
390 TTTCATTCAGAGTCA
149113 ATTTCAACTTCACA
1 ATTTCAACTTCACA
149127 TCGAAAGATA
Statistics
Matches: 370, Mismatches: 46, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
404 366 0.99
405 4 0.01
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (404 bp):
ATTTCAACTTCACAACATAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCAC
GATTTCAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACACAACTTCACGACGAATAAGT
CATCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGA
TATTAAACTCGAAAACGATACAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCCAA
TTCAAAGCTCAACTTCACAGCGAAGGAGACATCCACGATTTCAACTTCACGACGAAGGATATCGT
ACCCAAAAGATTAACCCAACTTCACAACGAATAAGTCATCTATGACACAACAATGAAAAACCAAT
TTCATTCAGAGTCA
Found at i:149119 original size:231 final size:231
Alignment explanation
Indices: 148709--149357 Score: 886
Period size: 231 Copynumber: 2.8 Consensus size: 231
148699 TTCAGGTCAA
* * * *
148709 ATTTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCAC
1 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGACATCCAC
* *
148774 GATTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGT
66 GATTTTAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACGACGAATAAGT
* * * * * *
148839 CATCTATGACACAACAATGAAAAGCCAGTTTCATTCAGAGTCAATTTCAACTTTATAGCAAAATA
131 CATATGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGA
* * *
148904 TATTAAACTTGAAAATGATGCAATTTACAAGAGTGG
196 TATTAAACTCGAAAACGATGCAATTTAAAAGAGTGG
* * * * * * *
148940 ATTTCAACTTCACAACAAAGGGCATCTAATTCAAAGCTGAACTTCACAGCGAAGGAGTCATCCAC
1 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGACATCCAC
* * *
149005 GATTTCACCTTCACGACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACAACGAATAAGT
66 GATTTTAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACGACGAATAAGT
* * *
149070 CATTTGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAAGA
131 CATATGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGA
* *
149135 TATTGAACTCGAAAGCGATGCAATTTAAAAGAGTGG
196 TATTAAACTCGAAAACGATGCAATTTAAAAGAGTGG
* *
149171 ATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGTGAATTAGACATCCAC
1 ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGACATCCAC
** * * * * * *
149236 GATTTTAACTTCACGATAAAGGATATTGTACCCTAAATATTGAACCAACTTCACGACAAATGAGT
66 GATTTTAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACGACGAATAAGT
* * * *
149301 CATATGTGATACAACAATGAAAAACCAATTTCATTCAG-GTCAAATTTTAGCTTCACA
131 CATATGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTC-AATTTCAACTTCACA
149358 ACGAAGGACA
Statistics
Matches: 364, Mismatches: 53, Indels: 2
0.87 0.13 0.00
Matches are distributed among these distances:
230 3 0.01
231 361 0.99
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (231 bp):
ATTTCAACTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGACATCCAC
GATTTTAACTTCACGACGAAGGATATCGTACCCAAAAGATTGACCCAACTTCACGACGAATAAGT
CATATGTGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGA
TATTAAACTCGAAAACGATGCAATTTAAAAGAGTGG
Found at i:149291 original size:635 final size:635
Alignment explanation
Indices: 148076--149433 Score: 2155
Period size: 635 Copynumber: 2.1 Consensus size: 635
148066 AAGAGTGGAG
* * *
148076 TTCAACTTCACAATGAAAGACATCTAATTCAAAGCTCAACATT-ACAGTGAATGAGCCATCCACG
1 TTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAAC-TTCACAGTGAATGAGCCATCCACG
* * ** *
148140 ATTTCAACTTCACGATGAAGAATATCGTACCTAAAAGATTGACCCAACTTCATGGTGAATGAGTC
65 ATTTCAACTTCACGAAGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGTC
* * *
148205 ATCTGTGACACAACAATGAAAAATCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGAT
130 ATCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGAT
* * *
148270 ATTGAACTCGAAAGTGATGCAATTTACAAGAGTGGATTTCAACTTCACAACATAGGACATCTAAT
195 ATTAAACTCGAAAATGATGCAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCTAAT
* *
148335 TCAAAGCTCAACTTCACAGCGAATGTGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTA
260 TCAAAGCTCAACTTCACAGCGAAGGAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTA
* * * *
148400 CCCAAAAGATTGATATAACTTCACGACGAATTAGTCATCTGTGACACAACAATGAAAAACCAGTT
325 CCCAAAAGATTGACACAACTTCACAACGAATAAGTCATCTGTGACACAACAATGAAAAACCAGTT
*
148465 TCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAACGATACAATTTACAA
390 TCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAACGATACAATTTAAAA
148530 GAGTGGATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGCGAATTAGAC
455 GAGTGGATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGCGAATTAGAC
* * * * *
148595 ATCCATGATTTTAATTTCATGACGAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACGA
520 ATCCACGATTTTAACTTCACGACAAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACAA
* * *
148660 ATGAGTTATCTATGACACAACAATGAAAAATCAATTTCATTCAGGTCAAAT
585 ATGAGTCATATATGACACAACAATGAAAAACCAATTTCATTCAGGTCAAAT
*
148711 TTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCATCCACGA
1 TTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGCCATCCACGA
* *
148776 TTTTAACTTCACGACGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGTCA
66 TTTCAACTTCACGAAGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGTCA
* * * *
148841 TCTATGACACAACAATGAAAAGCCAGTTTCATTCAGAGTCAATTTCAACTTTATAGCAAAATATA
131 TCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGATA
* *
148906 TTAAACTTGAAAATGATGCAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGGCATCTAATT
196 TTAAACTCGAAAATGATGCAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCTAATT
* * *
148971 CAAAGCTGAACTTCACAGCGAAGGAGTCATCCACGATTTCACCTTCACGACGAAGGATATCGTAC
261 CAAAGCTCAACTTCACAGCGAAGGAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTAC
* *
149036 CCAAAAGATTGACCCAACTTCACAACGAATAAGTCATTTGTGACACAACAATGAAAAACCAGTTT
326 CCAAAAGATTGACACAACTTCACAACGAATAAGTCATCTGTGACACAACAATGAAAAACCAGTTT
* * *
149101 CATTCAGAGTCAATTTCAACTTCACATCGAAAGATATTGAACTCGAAAGCGATGCAATTTAAAAG
391 CATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAACGATACAATTTAAAAG
*
149166 AGTGGATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGTGAATTAGACA
456 AGTGGATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGCGAATTAGACA
* * *
149231 TCCACGATTTTAACTTCACGATAAAGGATATTGTACCCT-AAATATTGAA-CCAACTTCACGACA
521 TCCACGATTTTAACTTCACGACAAAGGATATCGTA-CCTAAAAGATT-AACCCAACTTCACGACA
* *
149294 AATGAGTCATATGTGATACAACAATGAAAAACCAATTTCATTCAGGTCAAAT
584 AATGAGTCATATATGACACAACAATGAAAAACCAATTTCATTCAGGTCAAAT
* * * *
149346 TTTAGCTTCACAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGCCATCCACAA
1 TTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGCCATCCACGA
*
149411 TTTCAACTTCACGAATAAGGATA
66 TTTCAACTTCACGAAGAAGGATA
149434 AGTGCCCAAA
Statistics
Matches: 661, Mismatches: 59, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
634 2 0.00
635 654 0.99
636 5 0.01
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (635 bp):
TTCAGCTTCACAATGAAGGACATCCAATTCAAAGCTCAACTTCACAGTGAATGAGCCATCCACGA
TTTCAACTTCACGAAGAAGGATATCGTACCTAAAAGATTGACCCAACTTCATGACGAATAAGTCA
TCTATGACACAACAATGAAAAACCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCAAAAGATA
TTAAACTCGAAAATGATGCAATTTACAAGAGTGGATTTCAACTTCACAACAAAGGACATCTAATT
CAAAGCTCAACTTCACAGCGAAGGAGCCATCCACGATTTCAACTTCACGACGAAGGATATCGTAC
CCAAAAGATTGACACAACTTCACAACGAATAAGTCATCTGTGACACAACAATGAAAAACCAGTTT
CATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGAACTCGAAAACGATACAATTTAAAAG
AGTGGATTTCAACTTCACAACGAATGACATCCAATTCAAAGCTCAACTTCACAGCGAATTAGACA
TCCACGATTTTAACTTCACGACAAAGGATATCGTACCTAAAAGATTAACCCAACTTCACGACAAA
TGAGTCATATATGACACAACAATGAAAAACCAATTTCATTCAGGTCAAAT
Found at i:150821 original size:27 final size:26
Alignment explanation
Indices: 150794--150874 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 26
150784 TAAACCTTCC
*
150794 TTTCATGAATTTTTAGTTATGGCATCC
1 TTTCATG-ATTTTTAGTTATGGCATCA
**
150821 TTTCAT--TCATTA---AT-GCATCA
1 TTTCATGATTTTTAGTTATGGCATCA
150841 TTTCATGCATTTTTAGTTATGGCATCA
1 TTTCATG-ATTTTTAGTTATGGCATCA
150868 TTTCATG
1 TTTCATG
150875 CCTTAATGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
20 11 0.26
21 2 0.05
23 4 0.10
24 4 0.10
26 2 0.05
27 19 0.45
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (26 bp):
TTTCATGATTTTTAGTTATGGCATCA
Found at i:150825 original size:47 final size:47
Alignment explanation
Indices: 150757--150894 Score: 195
Period size: 47 Copynumber: 2.9 Consensus size: 47
150747 ATACATGTAA
* ** *
150757 TTTTATTTATGGCATCATTTCATGCCTTAAACCTTCCTTTCATGAAT
1 TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGAAT
* * * * *
150804 TTTTAGTTATGGCATCCTTTCATTCATTAATGCATCATTTCATGCAT
1 TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGAAT
150851 TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATG
1 TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATG
150895 GCAATAATGC
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.46
Consensus pattern (47 bp):
TTTTAGTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGAAT
Found at i:151015 original size:34 final size:34
Alignment explanation
Indices: 150977--151267 Score: 195
Period size: 34 Copynumber: 7.6 Consensus size: 34
150967 TTTCATGTCA
150977 ATAATGCACCCATATGCATTATTCTTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
**
151011 ATAATGCACCCATATGCATTTCAGCTATGACATTATTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T-T--C--T-TTT-ATGCTG
151056 ATAATGCACCCATATGCATTATTCTTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
* **
151090 ATAATGCACCCATATGCATTTCAGCTATGTAATCCTTTCATGCCA
1 ATAATGCACCCATATGCA--T----TA--T--T-CTTTTATGCTG
*
151135 ATAATGCACCCATATGCATTATTATTTTATGCTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
* **
151169 ACAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCAA
1 ATAATGCACCCATATGCA-TT-A--T-T--C-T--TTT-ATGCTG
*
151214 ATAATGCACCCATATGCATTATTCTTTTATGTTG
1 ATAATGCACCCATATGCATTATTCTTTTATGCTG
151248 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
151268 TCAACTATGG
Statistics
Matches: 205, Mismatches: 19, Indels: 66
0.71 0.07 0.23
Matches are distributed among these distances:
34 87 0.42
35 11 0.05
36 4 0.02
37 2 0.01
38 4 0.02
39 4 0.02
40 4 0.02
41 3 0.01
42 2 0.01
43 4 0.02
44 11 0.05
45 69 0.34
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCTG
Found at i:151015 original size:79 final size:79
Alignment explanation
Indices: 150884--151322 Score: 718
Period size: 79 Copynumber: 5.6 Consensus size: 79
150874 GCCTTAATGC
* * *
150884 ATCCTTTCATGGCAATAATGCACCCATATACATTATTCTTTTATGCTGATAATGCAACCATATGC
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
150949 ATTTCAGCTATGGA
66 ATTTCAGCTATGGA
*
150963 ATCCTTTCATGTCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
151028 ATTTCAGCTAT-GA
66 ATTTCAGCTATGGA
**
151041 CATTATTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATG
1 -ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATG
*
151106 CATTTCAGCTATGTA
65 CATTTCAGCTATGGA
* *
151121 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTATTTTATGCTGACAATGCACCCATATGC
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
*
151186 ATTTCAGCTATGGC
66 ATTTCAGCTATGGA
* *
151200 ATCCTTTCATGCAAATAATGCACCCATATGCATTATTCTTTTATGTTGATAATGCACCCATATGC
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
* *
151265 ATTTCAACTATGGC
66 ATTTCAGCTATGGA
* *
151279 ATCATTTCATTCCAATAATGCACCCATATGCATTATTCTTTTAT
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAT
151323 TCATTCATTA
Statistics
Matches: 337, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
78 2 0.01
79 334 0.99
80 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (79 bp):
ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGATAATGCACCCATATGC
ATTTCAGCTATGGA
Found at i:151141 original size:45 final size:44
Alignment explanation
Indices: 151090--151233 Score: 155
Period size: 45 Copynumber: 3.5 Consensus size: 44
151080 TTTTATGCTG
*
151090 ATAATGCACCCATATGCATTTCAGCTATGTAATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAGCTATGT-ATCCTTTCATGCAA
**
151135 ATAATGCACCCATATGCA--T----TAT-TAT--TTT-ATGCTG
1 ATAATGCACCCATATGCATTTCAGCTATGTATCCTTTCATGCAA
* *
151169 ACAATGCACCCATATGCATTTCAGCTATGGCATCCTTTCATGCAA
1 ATAATGCACCCATATGCATTTCAGCTAT-GTATCCTTTCATGCAA
151214 ATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATT
151234 ATTCTTTTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 22
0.74 0.06 0.20
Matches are distributed among these distances:
34 21 0.26
35 3 0.04
36 1 0.01
37 2 0.02
38 1 0.01
39 3 0.04
40 3 0.04
42 2 0.02
43 1 0.01
44 3 0.04
45 41 0.51
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (44 bp):
ATAATGCACCCATATGCATTTCAGCTATGTATCCTTTCATGCAA
Found at i:151850 original size:95 final size:95
Alignment explanation
Indices: 151729--151929 Score: 237
Period size: 95 Copynumber: 2.1 Consensus size: 95
151719 TACTACTAAT
* * * *** *
151729 CTGGTA-CTGATACTTCTATACTATGGTACCGACATGTCCTTCC-AGTATCGATACTAATTTTAG
1 CTGGTATC-GATACTACCATACTATGGTACCAACACCCCCTTCCGA-TATCGATACCAATTTTAG
* *
151792 GTTTGATGTTG-TCTGGTATCGATAACCTTACC
64 CTTTGATGATGCT-TGGTATCGATAACCTTACC
*
151824 CTGGTATCGATACTACCATACTATGGTACCAATACCCCCTTCCGATATCGATACCAATTTTAGCT
1 CTGGTATCGATACTACCATACTATGGTACCAACACCCCCTTCCGATATCGATACCAATTTTAGCT
* *
151889 TTGGTGATGCTTGGTATCGATACCCTTACC
66 TTGATGATGCTTGGTATCGATAACCTTACC
*
151919 ATGGTATCGAT
1 CTGGTATCGAT
151930 GCTAATTGAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
95 87 0.97
96 3 0.03
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (95 bp):
CTGGTATCGATACTACCATACTATGGTACCAACACCCCCTTCCGATATCGATACCAATTTTAGCT
TTGATGATGCTTGGTATCGATAACCTTACC
Found at i:158812 original size:21 final size:21
Alignment explanation
Indices: 158787--158862 Score: 134
Period size: 21 Copynumber: 3.6 Consensus size: 21
158777 CTTATCTAAC
*
158787 AACTCTTGCAATTGATTCTTT
1 AACTCTTACAATTGATTCTTT
*
158808 AACTCTTGCAATTGATTCTTT
1 AACTCTTACAATTGATTCTTT
158829 AACTCTTACAATTGATTCTTT
1 AACTCTTACAATTGATTCTTT
158850 AACTCTTACAATT
1 AACTCTTACAATT
158863 CTTTCGGAGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.46
Consensus pattern (21 bp):
AACTCTTACAATTGATTCTTT
Found at i:161342 original size:23 final size:23
Alignment explanation
Indices: 161308--161371 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
161298 TAGCTTGTAT
*
161308 AAATGCATCGAAGTGCCACATAG
1 AAATGCACCGAAGTGCCACATAG
* * *
161331 AATTGCACCGAAGTGCCGCGTAG
1 AAATGCACCGAAGTGCCACATAG
* *
161354 AAATGAACCGTAGTGCCA
1 AAATGCACCGAAGTGCCA
161372 TATAAGATGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACATAG
Found at i:162060 original size:65 final size:64
Alignment explanation
Indices: 161940--162066 Score: 150
Period size: 65 Copynumber: 2.0 Consensus size: 64
161930 TTTTTCCTTT
* * * *
161940 AGGGTGTATCGATACCCTACTGGGGGTATCGGTACCCTCATAACATTCTATAATTTTTTCGTCA
1 AGGGGGTATCGATACCCAACTGGGGGTATCGATACCCTCATAACATTCTATAATTTTCTCGTCA
* * *
162004 AGGGGGTATCGGTACCCAACTGGGGGGTATCGATACCC-CTATGATATTCTGA-AATTTTCTCGT
1 AGGGGGTATCGATACCCAACT-GGGGGTATCGATACCCTC-ATAACATTCT-ATAATTTTCTCGT
162067 TTGAGAGGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
64 19 0.36
65 33 0.62
66 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (64 bp):
AGGGGGTATCGATACCCAACTGGGGGTATCGATACCCTCATAACATTCTATAATTTTCTCGTCA
Found at i:169467 original size:17 final size:17
Alignment explanation
Indices: 169445--169482 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
169435 AATATTATTA
169445 AGACAACTTTATGTTGC
1 AGACAACTTTATGTTGC
169462 AGACAACTTTATGTTGC
1 AGACAACTTTATGTTGC
169479 AGAC
1 AGAC
169483 TTTTGTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (17 bp):
AGACAACTTTATGTTGC
Found at i:171943 original size:2 final size:2
Alignment explanation
Indices: 171938--172217 Score: 165
Period size: 2 Copynumber: 145.5 Consensus size: 2
171928 AAAATGATAA
* * *
171938 AT AT AT AT GT AT A- AT A- AA AT AT -T AT AT A- AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
171976 AT AT AT AT -T CACT AT AT A- AT AT AT AA AT AT ACT AT AT CAT AT
1 AT AT AT AT AT -A-T AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT
* *
172018 AT AA AGT AT AA AT AT AT A- AT GAT AT AT AT AT AT AT AT AT A- AT
1 AT AT A-T AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
* *
172060 AT AA AT AT ACT AT AT A- AT AT AT AT AA AT AT AT A- AT A- AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
172100 A- AT AT AA AT AT AT A- AT AT A- AT AT AA AT AT AT A- AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * *
172139 A- AT A- AGT AT AT CCT AT AT A- AT AT AA AT AT ACT AT A- AG AT
1 AT AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
*
172178 AT AT A- AT AT AT AA AT AT AT A- AT A- AT AT A- AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
172217 A
1 A
172218 AAAAGGGTCG
Statistics
Matches: 217, Mismatches: 26, Indels: 70
0.69 0.08 0.22
Matches are distributed among these distances:
1 23 0.11
2 175 0.81
3 18 0.08
4 1 0.00
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:171959 original size:18 final size:19
Alignment explanation
Indices: 171934--172217 Score: 206
Period size: 18 Copynumber: 14.8 Consensus size: 19
171924 CAAAAAAATG
*
171934 ATAAATATATATGTATAAT
1 ATAAATATATATATATAAT
171953 A-AAATAT-TATATA-ATAT
1 ATAAATATATATATATA-AT
*
171970 ATAAATATATATAT-TCACT
1 ATAAATATATATATAT-AAT
171989 AT--ATA-ATATATA-AAT
1 ATAAATATATATATATAAT
*
172004 AT-ACTATATCATATATAAAGT
1 ATAAATATAT-ATATAT-AA-T
172025 ATAAATATATA-ATGAT-AT
1 ATAAATATATATAT-ATAAT
172043 AT--ATATATATATATAAT
1 ATAAATATATATATATAAT
172060 ATAAATATACTATATAATATAT
1 ATAAATATA-TATAT-ATA-AT
172082 ATAAATATATAATAATATAAT
1 ATAAATATAT-AT-ATATAAT
172103 ATAAATATATA-ATATAAT
1 ATAAATATATATATATAAT
172121 ATAAATATATA-ATCAT-AT
1 ATAAATATATATAT-ATAAT
* *
172139 AATAAGTATATCCTATATAAT
1 -ATAAATATAT-ATATATAAT
*
172160 ATAAATATACTATA-AGATAT
1 ATAAATATA-TATATATA-AT
*
172180 ATAATATATAAATATATAAT
1 ATAA-ATATATATATATAAT
172200 AATATAATATACTATATA
1 -ATA-AATATA-TATATA
172218 AAAAGGGTCG
Statistics
Matches: 217, Mismatches: 13, Indels: 67
0.73 0.04 0.23
Matches are distributed among these distances:
15 4 0.02
16 18 0.08
17 19 0.09
18 42 0.19
19 28 0.13
20 34 0.16
21 42 0.19
22 28 0.13
23 2 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
ATAAATATATATATATAAT
Found at i:171964 original size:5 final size:5
Alignment explanation
Indices: 171947--172215 Score: 127
Period size: 5 Copynumber: 54.8 Consensus size: 5
171937 AATATATATG
* * *
171947 TATAA TAAAA TATTA TATAA TAT-A TA-AA TAT-A TATAT TCACT-A TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T-A-TAA TATAA
*
171995 TAT-A TA-AA TATAC TAT-A TCAT-A TATAAA GTATAA -AT-A TATAA
1 TATAA TATAA TATAA TATAA T-ATAA TAT-AA -TATAA TATAA TATAA
172037 TGAT-A TATATA TATATA TATAA TATAAA TATACTA TATAA TAT-A TATAA
1 T-ATAA TATA-A TATA-A TATAA TAT-AA TATA--A TATAA TATAA TATAA
172086 -ATATA TAATAA TATAA TATAA -AT-A TATAA TATAA TATAA -AT-A TATAA
1 TATA-A T-ATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
* * *
172133 TCAT-A TAATAA GTAT-A TCCT-A TATAA TATAAA TATAC TATAA GAT-A
1 T-ATAA T-ATAA -TATAA T-ATAA TATAA TAT-AA TATAA TATAA TATAA
*
172179 TATAA TAT-A TA-AA TAT-A TAATAA TATAA TATAC TATA
1 TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATA
172216 TAAAAAGGGT
Statistics
Matches: 209, Mismatches: 16, Indels: 78
0.69 0.05 0.26
Matches are distributed among these distances:
3 3 0.01
4 54 0.26
5 102 0.49
6 37 0.18
7 13 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:172061 original size:84 final size:79
Alignment explanation
Indices: 171934--172218 Score: 277
Period size: 82 Copynumber: 3.5 Consensus size: 79
171924 CAAAAAAATG
* * *
171934 ATAAATATATATGTATAATA-AAATATTATATAATATATAAATATATATATTCACTATATAATAT
1 ATAAATATAAATATATAATATATATA-TATAT-ATATAT-AATATATATA-TCACTATATAATAT
171998 ATAAATATACTATATCATAT
62 ATAAATATACTATA--ATAT
*
172018 ATAAAGTATAAATATATAATGATATATATATATATATATAATATAAATAT-ACTATATAATATAT
1 ATAAA-TATAAATATATAAT-ATATATATATATATATATAATATATATATCACTATATAATATAT
172082 ATAA-ATA-TATAATA-
64 A-AATATACTATAATAT
172096 ATATAATATAAATATATAATATAATATAAATATATAATCATATAATA-AGTATATC-CTATAT-A
1 ATA-AATATAAATATATAATAT-ATAT--ATATAT-AT-ATATAATATA-TATATCACTATATAA
172158 -ATATAAATATACTATAAGATAT
59 TATATAAATATACTAT-A-ATAT
172180 ATAATATATAAATATATAATA-ATATA-ATATACTATATAA
1 ATAA-ATATAAATATATAATATATATATATATA-TATATAA
172219 AAAGGGTCGA
Statistics
Matches: 177, Mismatches: 5, Indels: 44
0.78 0.02 0.19
Matches are distributed among these distances:
77 2 0.01
78 28 0.16
79 12 0.07
80 15 0.08
81 11 0.06
82 41 0.23
83 7 0.04
84 33 0.19
85 18 0.10
86 6 0.03
87 4 0.02
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (79 bp):
ATAAATATAAATATATAATATATATATATATATATATAATATATATATCACTATATAATATATAA
ATATACTATAATAT
Found at i:172105 original size:105 final size:103
Alignment explanation
Indices: 171996--172218 Score: 271
Period size: 105 Copynumber: 2.1 Consensus size: 103
171986 ACTATATAAT
171996 ATATAAATATACT-ATATCATATATAAAGTATA-AAT-ATATAATGATATATATATATATATATA
1 ATATAAATATA-TAATAT-A-ATATAAA-TATATAATCATATAATGATA-ATATATATATATATA
172058 ATATAAATATACTATATAATATATATAAATATATAATAATATA
61 ATATAAATATACTATATAATATATATAAATATATAATAATATA
* **
172101 ATATAAATATATAATATAATATAAATATATAATCATATAAT-A-AGTATAT-CCTATATAATATA
1 ATATAAATATATAATATAATATAAATATATAATCATATAATGATAATATATATATATATAATATA
172163 AATATACTATAAGATATATAATATATAAATATATAATAATATA
66 AATATACTAT---ATA-AT-ATATATAAATATATAATAATATA
*
172206 ATAT-ACTATATAA
1 ATATAAATATATAA
172219 AAAGGGTCGA
Statistics
Matches: 106, Mismatches: 4, Indels: 17
0.83 0.03 0.13
Matches are distributed among these distances:
100 21 0.20
101 5 0.05
102 5 0.05
103 14 0.13
104 19 0.18
105 42 0.40
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (103 bp):
ATATAAATATATAATATAATATAAATATATAATCATATAATGATAATATATATATATATAATATA
AATATACTATATAATATATATAAATATATAATAATATA
Found at i:184656 original size:90 final size:89
Alignment explanation
Indices: 184491--184667 Score: 291
Period size: 90 Copynumber: 2.0 Consensus size: 89
184481 CCTAACACAC
* * *
184491 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAGTTAATTAAATCTGTA
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAAATAAATCTATA
* *
184556 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
*
184580 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAAATAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAAATAAATCTAT
184645 ATTTAATTAATTGAAATTAAATA
65 ATTTAATTAATTGAAATTAAATA
184668 TTCGGGATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 34 0.42
90 47 0.58
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAAATAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:186500 original size:2 final size:2
Alignment explanation
Indices: 186495--186672 Score: 145
Period size: 2 Copynumber: 95.5 Consensus size: 2
186485 AAAATGATAA
* *
186495 AT AT AT AT GT AT A- AT A- AA AT A- AT AT AT A- AT A- AT AGT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * *
186532 AT AT AT A- AT AA AT A- AT AT AT AA AT AT AA AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
186571 AT AT AT AT AT A- AT AT AT A- AT AT AT A- AT AT AT AA AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
*
186611 AT AT ACT AT AT AT AA AT AT A- AT AT AT AT AT AT AT AT -T AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
186652 A- AT AT A- AT AT AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
186673 AAAAGGGTCG
Statistics
Matches: 142, Mismatches: 15, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
1 16 0.11
2 120 0.85
3 6 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:186583 original size:66 final size:67
Alignment explanation
Indices: 186486--186674 Score: 223
Period size: 66 Copynumber: 2.9 Consensus size: 67
186476 AAAACAAAAA
* *
186486 AAATGATAAATAT-ATATGTATA-ATAAAATAATATATAATAATAGTAATATATAATAAATA-AT
1 AAAT-ATAAATATAATATATATATAT-ATATAATATATAATAATA-TAATATATAATAAATACAT
186548 ATA-T
63 ATACT
*
186552 AAATATAAATATAATATATATATATATATAATATATAAT-ATATAATATATAA-ATATACTATAT
1 AAATATAAATATAATATATATATATATATAATATATAATAATATAATATATAATAAATAC-ATAT
186615 ACT
65 ACT
* *
186618 ATATATAAATATAATATATATATATATATTATATA-ATATAATATAA-ATATATATAAA
1 AAATATAAATATAATATATATATATATATAATATATA-ATAATATAATATATA-ATAAA
186675 AAGGGTCGGA
Statistics
Matches: 108, Mismatches: 6, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
63 4 0.04
64 10 0.09
65 17 0.16
66 66 0.61
67 9 0.08
68 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (67 bp):
AAATATAAATATAATATATATATATATATAATATATAATAATATAATATATAATAAATACATATA
CT
Found at i:186671 original size:57 final size:55
Alignment explanation
Indices: 186493--186672 Score: 199
Period size: 57 Copynumber: 3.2 Consensus size: 55
186483 AAAAAATGAT
*
186493 AAATATATATGTATA-ATAAA-ATAATATATA-ATAATAGTAATATATAATA-AATA
1 AAATATATATATATATATAAATATAATATATATAT-ATA-TAATATATAATATAATA
* * *
186546 ATATATAAATATAAATATAATATATATATATATATAATATATAATATATAATAT-ATA
1 AAATATATATATATATATAA-ATATA-ATATATAT-ATATATAATATATAATATAATA
*
186603 AATATACTATATACTATATATAAATATAATATATATATATATATTATATAATATAATA
1 AA-ATA-TATATA-TATATATAAATATAATATATATATATATAATATATAATATAATA
186661 TAAATATATATA
1 -AAATATATATA
186673 AAAAGGGTCG
Statistics
Matches: 107, Mismatches: 8, Indels: 20
0.79 0.06 0.15
Matches are distributed among these distances:
53 11 0.10
54 4 0.04
55 1 0.01
56 3 0.03
57 46 0.43
58 20 0.19
59 14 0.13
60 8 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (55 bp):
AAATATATATATATATATAAATATAATATATATATATATAATATATAATATAATA
Found at i:195610 original size:16 final size:16
Alignment explanation
Indices: 195549--195807 Score: 117
Period size: 16 Copynumber: 16.7 Consensus size: 16
195539 TTTAGTATCA
195549 ATATTATATA-TATAT
1 ATATTATATATTATAT
*
195564 ATA-TATA-ATT-TTT
1 ATATTATATATTATAT
*
195577 ATATTATATGTTAT-T
1 ATATTATATATTATAT
195592 -TA-TATATATTATAT
1 ATATTATATATTATAT
*
195606 AT-TATATACATTATAT
1 ATAT-TATATATTATAT
**
195622 AATATT-CGTATTATAT
1 -ATATTATATATTATAT
* * *
195638 ATATTAGATAATATTT
1 ATATTATATATTATAT
195654 ATATTATATATTATAT
1 ATATTATATATTATAT
195670 AGTA-TATATA-TATAT
1 A-TATTATATATTATAT
* *
195685 AT-TAAGTATAGTAT-T
1 ATATTA-TATATTATAT
* * *
195700 TTTTTAGTATATAATATT
1 ATATTA-TATATTATA-T
**
195718 ATATTATGCATTATAT
1 ATATTATATATTATAT
195734 ATATTATACTATT-TAT
1 ATATTATA-TATTATAT
*
195750 ATA-TAGTATACTATAT
1 ATATTA-TATATTATAT
*
195766 ACTATATAGAATATTATAT
1 A-TAT-TA-TATATTATAT
195785 -T-TT-TAGT-TTATAT
1 ATATTATA-TATTATAT
195798 AT-TTATATAT
1 ATATTATATAT
195808 ATTACAGATA
Statistics
Matches: 186, Mismatches: 30, Indels: 56
0.68 0.11 0.21
Matches are distributed among these distances:
13 22 0.12
14 19 0.10
15 33 0.18
16 78 0.42
17 17 0.09
18 6 0.03
19 11 0.06
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
ATATTATATATTATAT
Found at i:195619 original size:25 final size:25
Alignment explanation
Indices: 195549--195811 Score: 134
Period size: 25 Copynumber: 10.0 Consensus size: 25
195539 TTTAGTATCA
*
195549 ATATTATATATATATATATATAATTTTT
1 ATATTATATATAT-TATATAT-A-TTAT
*
195577 ATATTATATGTTATTTATATATATTAT
1 ATATTATAT-ATA-TTATATATATTAT
* *
195604 ATATTATATACATTATATAATATT-C
1 ATATTATATATATTATAT-ATATTAT
* *
195629 GTATTATATATATTAGATAATATT-T
1 ATATTATATATATTATAT-ATATTAT
195654 ATATTATATATTATATAGTATATATATAT
1 ATATTATATA-TAT-TA-TATATAT-TAT
* *
195683 ATATTAAGTATAGTATT-TTTTTAGTATAT
1 ATATT-A-TATA-TATTATATATA-T-TAT
195712 AATATTATATTATGCATTATATATATTAT
1 -ATATTATA-TAT--ATTATATATATTAT
*
195741 ACTATTTATATATAGTATACTATA-TACT
1 A-TA-TTATATATATTATA-TATATTA-T
*
195769 ATA-TAGA-ATATTATAT-T-TT-T
1 ATATTATATATATTATATATATTAT
195789 AGT-TTATATAT-TTATATATATTA
1 A-TATTATATATATTATATATATTA
195812 CAGATATAAC
Statistics
Matches: 188, Mismatches: 20, Indels: 58
0.71 0.08 0.22
Matches are distributed among these distances:
20 2 0.01
21 10 0.05
22 5 0.03
23 3 0.02
24 7 0.04
25 39 0.21
26 9 0.05
27 27 0.14
28 27 0.14
29 31 0.16
30 17 0.09
31 11 0.06
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (25 bp):
ATATTATATATATTATATATATTAT
Done.