Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 41 of 325
Found at i:15091472 original size:133 final size:133
Alignment explanation
Indices: 15091234--15091498 Score: 530
Period size: 133 Copynumber: 2.0 Consensus size: 133
15091224 TTCTTCCAAT
15091234 TTGGTTACTTTACAGTTTGTCTATGGACTTGCTTCTAGAGTTAAAGAAAAAAAAGATCTTCTTTG
1 TTGGTTACTTTACAGTTTGTCTATGGACTTGCTTCTAGAGTTAAAGAAAAAAAAGATCTTCTTTG
15091299 GGCAGCCATCCGCCATCGACGACGGAGGGGTCTGTCGGCGGTGCCTGCTTGGAAGCTTTGAGTTG
66 GGCAGCCATCCGCCATCGACGACGGAGGGGTCTGTCGGCGGTGCCTGCTTGGAAGCTTTGAGTTG
15091364 AAC
131 AAC
15091367 TTGGTTACTTTACAGTTTGTCTATGGACTTGCTTCTAGAGTTAAAGAAAAAAAAGATCTTCTTTG
1 TTGGTTACTTTACAGTTTGTCTATGGACTTGCTTCTAGAGTTAAAGAAAAAAAAGATCTTCTTTG
15091432 GGCAGCCATCCGCCATCGACGACGGAGGGGTCTGTCGGCGGTGCCTGCTTGGAAGCTTTGAGTTG
66 GGCAGCCATCCGCCATCGACGACGGAGGGGTCTGTCGGCGGTGCCTGCTTGGAAGCTTTGAGTTG
15091497 AA
131 AA
15091499 AAAAGTTCAT
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
133 132 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (133 bp):
TTGGTTACTTTACAGTTTGTCTATGGACTTGCTTCTAGAGTTAAAGAAAAAAAAGATCTTCTTTG
GGCAGCCATCCGCCATCGACGACGGAGGGGTCTGTCGGCGGTGCCTGCTTGGAAGCTTTGAGTTG
AAC
Found at i:15096296 original size:23 final size:24
Alignment explanation
Indices: 15096252--15096296 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
15096242 TTATTCGCAT
**
15096252 ATCATGTTTATATTTTTCTTTTGC
1 ATCATGTTTATATTTTAATTTTGC
*
15096276 ATCATG-TTGTATTTTAATTTT
1 ATCATGTTTATATTTTAATTTT
15096297 TTTTTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (24 bp):
ATCATGTTTATATTTTAATTTTGC
Found at i:15103620 original size:53 final size:53
Alignment explanation
Indices: 15103539--15103689 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15103529 CTTACACGGT
* *
15103539 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
15103594 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
15103647 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
15103690 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:15105191 original size:7 final size:7
Alignment explanation
Indices: 15105175--15105206 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
15105165 GACGAGCGTG
*
15105175 AAAGGGA
1 AAAGGAA
15105182 AAAGGAA
1 AAAGGAA
15105189 AAAGGAA
1 AAAGGAA
15105196 AAAGGAA
1 AAAGGAA
15105203 AAAG
1 AAAG
15105207 TTTTAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
AAAGGAA
Found at i:15132740 original size:26 final size:27
Alignment explanation
Indices: 15132691--15132742 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
15132681 AGTTTGTGAT
15132691 AATTATATATTTAAAAATAATTATAAA
1 AATTATATATTTAAAAATAATTATAAA
15132718 AATTATA-ATGTT-AAAATAATTATAA
1 AATTATATAT-TTAAAAATAATTATAA
15132743 TTGAAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AATTATATATTTAAAAATAATTATAAA
Found at i:15140173 original size:71 final size:71
Alignment explanation
Indices: 15140092--15140234 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
15140082 GTTAGCATTT
15140092 TATTGATGTAATATGCAAAAAGATTATTTTTAAAAAATTAAAGTACCATAGAATAATATAACATA
1 TATTGATGTAATATGCAAAAAGATTATTTTTAAAAAATTAAAGTACCATAGAATAATATAACATA
15140157 TTTTAA
66 TTTTAA
15140163 TATTGATGTAATATGCAAAAAGATTATTTTTAAAAAATTAAAGTACCATAGAATAATATAACATA
1 TATTGATGTAATATGCAAAAAGATTATTTTTAAAAAATTAAAGTACCATAGAATAATATAACATA
15140228 TTTTAA
66 TTTTAA
15140234 T
1 T
15140235 TATGGAAGGA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (71 bp):
TATTGATGTAATATGCAAAAAGATTATTTTTAAAAAATTAAAGTACCATAGAATAATATAACATA
TTTTAA
Found at i:15142116 original size:31 final size:30
Alignment explanation
Indices: 15142080--15142143 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
15142070 ATTTTTTTTA
15142080 ATATTTACATTATAATAT-TATATAATAATAT
1 ATATTTA-ATTATAATATGTATAT-ATAATAT
* * *
15142111 ATATTTAATTTTTATGTGTATATATAATAT
1 ATATTTAATTATAATATGTATATATAATAT
15142141 ATA
1 ATA
15142144 AAATAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 17 0.59
31 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (30 bp):
ATATTTAATTATAATATGTATATATAATAT
Found at i:15151445 original size:21 final size:20
Alignment explanation
Indices: 15151415--15151455 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
15151405 ATTCGGGTGG
*
15151415 ATTAACTCTTTTGAGCTTCT
1 ATTAACTCTTATGAGCTTCT
15151435 ATTAAGCTCTTATGAGCTTCT
1 ATTAA-CTCTTATGAGCTTCT
15151456 GTTGGTGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (20 bp):
ATTAACTCTTATGAGCTTCT
Found at i:15157953 original size:33 final size:33
Alignment explanation
Indices: 15157916--15157980 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
15157906 AAAATATGAA
15157916 AAGACAAAAATATTCACAAAAATAATAATAGTC
1 AAGACAAAAATATTCACAAAAATAATAATAGTC
15157949 AAGACAAAAATATTCACAAAAATAATAATAGT
1 AAGACAAAAATATTCACAAAAATAATAATAGT
15157981 TATTTAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.62, C:0.11, G:0.06, T:0.22
Consensus pattern (33 bp):
AAGACAAAAATATTCACAAAAATAATAATAGTC
Found at i:15157978 original size:18 final size:18
Alignment explanation
Indices: 15157924--15157978 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
15157914 AAAAGACAAA
15157924 AATATTCACAAAAATAAT
1 AATATTCACAAAAATAAT
* * *
15157942 AATAGTCA-AGACA-AA-
1 AATATTCACAAAAATAAT
15157957 AATATTCACAAAAATAAT
1 AATATTCACAAAAATAAT
15157975 AATA
1 AATA
15157979 GTTATTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 5 0.18
18 11 0.39
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.24
Consensus pattern (18 bp):
AATATTCACAAAAATAAT
Found at i:15160925 original size:20 final size:20
Alignment explanation
Indices: 15160888--15160925 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15160878 TGATGGGGAG
*
15160888 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
15160908 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
15160926 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:15165590 original size:33 final size:33
Alignment explanation
Indices: 15165553--15165617 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
15165543 AAAATATGAA
15165553 AAGACAAAAATATTCACAAAAATAATAATAGTC
1 AAGACAAAAATATTCACAAAAATAATAATAGTC
15165586 AAGACAAAAATATTCACAAAAATAATAATAGT
1 AAGACAAAAATATTCACAAAAATAATAATAGT
15165618 TATTTAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.62, C:0.11, G:0.06, T:0.22
Consensus pattern (33 bp):
AAGACAAAAATATTCACAAAAATAATAATAGTC
Found at i:15165615 original size:18 final size:18
Alignment explanation
Indices: 15165561--15165615 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
15165551 AAAAGACAAA
15165561 AATATTCACAAAAATAAT
1 AATATTCACAAAAATAAT
* * *
15165579 AATAGTCA-AGACA-AA-
1 AATATTCACAAAAATAAT
15165594 AATATTCACAAAAATAAT
1 AATATTCACAAAAATAAT
15165612 AATA
1 AATA
15165616 GTTATTTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
15 7 0.25
16 5 0.18
17 5 0.18
18 11 0.39
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.24
Consensus pattern (18 bp):
AATATTCACAAAAATAAT
Found at i:15168562 original size:20 final size:20
Alignment explanation
Indices: 15168525--15168562 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15168515 TGATGGGGAG
*
15168525 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
15168545 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
15168563 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:15171009 original size:19 final size:19
Alignment explanation
Indices: 15170984--15171028 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15170974 AACGAAAAGC
15170984 AGGGAAAAAAAGA-AAGAA
1 AGGGAAAAAAAGAGAAGAA
*
15171002 A-GGAGAAAAGAGAGAAGAA
1 AGGGA-AAAAAAGAGAAGAA
15171021 AGGGAAAA
1 AGGGAAAA
15171029 TTGAAGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.13
18 8 0.35
19 9 0.39
20 3 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
AGGGAAAAAAAGAGAAGAA
Found at i:15173223 original size:25 final size:25
Alignment explanation
Indices: 15173195--15173262 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
15173185 TAGCACATTT
15173195 GTGCTCTCTGATATTTAGCACGCCA
1 GTGCTCTCTGATATTTAGCACGCCA
*
15173220 GTGCTCTCTGAT-TACTAGCACGCCA
1 GTGCTCTCTGATAT-TTAGCACGCCA
* *
15173245 ATGCTCTTTGATATTTAG
1 GTGCTCTCTGATATTTAG
15173263 TGTAATGTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (25 bp):
GTGCTCTCTGATATTTAGCACGCCA
Found at i:15182140 original size:46 final size:46
Alignment explanation
Indices: 15182090--15182258 Score: 251
Period size: 46 Copynumber: 3.8 Consensus size: 46
15182080 TGGTTGAGCA
15182090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
15182136 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C--GTGGAT--GAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
15182176 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15182222 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15182259 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
40 33 0.30
42 6 0.05
44 6 0.05
46 66 0.59
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15182160 original size:20 final size:20
Alignment explanation
Indices: 15182135--15182200 Score: 73
Period size: 20 Copynumber: 3.3 Consensus size: 20
15182125 GGATGCGAAT
15182135 GTCCGAACTCGTTGAGTTGA
1 GTCCGAACTCGTTGAGTTGA
** *
15182155 GTCCGAGTTCG-TG-GATGAA
1 GTCCGAACTCGTTGAGTTG-A
15182174 TGTCCGAACTCGTTGAGTTGA
1 -GTCCGAACTCGTTGAGTTGA
15182195 GTCCGA
1 GTCCGA
15182201 GTTCACTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 24 0.67
21 3 0.08
22 3 0.08
ACGTcount: A:0.20, C:0.20, G:0.32, T:0.29
Consensus pattern (20 bp):
GTCCGAACTCGTTGAGTTGA
Found at i:15182235 original size:86 final size:86
Alignment explanation
Indices: 15182090--15182251 Score: 297
Period size: 86 Copynumber: 1.9 Consensus size: 86
15182080 TGGTTGAGCA
* *
15182090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
15182155 GTCCGAGTTCGTGGATGAATG
66 GTCCGAGTTCGTGGATGAATG
*
15182176 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
15182241 GTCCGAGTTCG
66 GTCCGAGTTCG
15182252 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (86 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGGATGAATG
Found at i:15189681 original size:19 final size:18
Alignment explanation
Indices: 15189639--15189684 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
15189629 ATGTATGGTT
*
15189639 ATAAATAAATACAAATGT
1 ATAAATAAATACAAATGA
* *
15189657 ACAAATAATATACACATGA
1 ATAAATAA-ATACAAATGA
15189676 ATAAATAAA
1 ATAAATAAA
15189685 GAATACTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (18 bp):
ATAAATAAATACAAATGA
Found at i:15189823 original size:20 final size:18
Alignment explanation
Indices: 15189790--15189834 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
15189780 AACGAAAAGC
15189790 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
*
15189808 AGGAGAAAAGAGAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
15189827 AGGGAAAA
1 AGGGAAAA
15189835 TTGAAGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 9 0.38
20 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:15191625 original size:13 final size:13
Alignment explanation
Indices: 15191607--15191632 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15191597 ACCATGGCAG
15191607 CCTGATATGAAAT
1 CCTGATATGAAAT
15191620 CCTGATATGAAAT
1 CCTGATATGAAAT
15191633 GTGTAAGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CCTGATATGAAAT
Found at i:15191656 original size:59 final size:59
Alignment explanation
Indices: 15191562--15191678 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
15191552 AGTGTGCTCT
*
15191562 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATC
* *
15191621 CTGATATGAAATGTGTAAGACCATGGTTGACAGATACCATGGCAACGTGATATGAAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
15191679 GAACAAGACC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (59 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATC
Found at i:15191674 original size:46 final size:46
Alignment explanation
Indices: 15191622--15191761 Score: 174
Period size: 46 Copynumber: 3.0 Consensus size: 46
15191612 TATGAAATCC
* * *
15191622 TGATATGAAATGTGTAAGACCATGGTTGACAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
**
15191668 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
15191714 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
15191760 TG
1 TG
15191762 TCAAAGATAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 80 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:15194447 original size:33 final size:32
Alignment explanation
Indices: 15194401--15194464 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
15194391 TCCTTCCCAT
** *
15194401 ATTTTTAGGTTAGGTTTCTTTTCTTATCTTTTC
1 ATTTTTAAATTAGGTTT-TTCTCTTATCTTTTC
*
15194434 ATTTTTAAATTAGGTTTTTCTCTTTTCTTTT
1 ATTTTTAAATTAGGTTTTTCTCTTATCTTTT
15194465 TAGAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.14, C:0.11, G:0.09, T:0.66
Consensus pattern (32 bp):
ATTTTTAAATTAGGTTTTTCTCTTATCTTTTC
Found at i:15195239 original size:12 final size:12
Alignment explanation
Indices: 15195222--15195247 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15195212 CAACTTAAGC
15195222 TTTTAGTGGCAT
1 TTTTAGTGGCAT
15195234 TTTTAGTGGCAT
1 TTTTAGTGGCAT
15195246 TT
1 TT
15195248 GGACCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (12 bp):
TTTTAGTGGCAT
Found at i:15195380 original size:41 final size:40
Alignment explanation
Indices: 15195295--15195421 Score: 137
Period size: 41 Copynumber: 3.1 Consensus size: 40
15195285 TTTTCTTAAA
* * * *
15195295 AAACGCTGCAAAAGGCAAGACAATAGCAGCATTTCTCTCGT
1 AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTTC-CAT
15195336 AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTTACCAT
1 AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTT-CCAT
* * * * * *
15195377 AAACGCAGCAAATGGTAAAGCAACAGCGGCGTTTTTCCCAT
1 AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTT-CCAT
15195418 AAAC
1 AAAC
15195422 ATTACGAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 73 0.99
42 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (40 bp):
AAACGCTGCAAAAGGTAAGGCAATAGCAGCATTTTTCCAT
Found at i:15195516 original size:22 final size:22
Alignment explanation
Indices: 15195486--15195560 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
15195476 ACTGGTTCCC
*
15195486 TTTTCTTTCGCAAACGATGCTG
1 TTTTATTTCGCAAACGATGCTG
* *** * *
15195508 TTTTATTTCTCCCCCGATTCTC
1 TTTTATTTCGCAAACGATGCTG
* * *
15195530 TTTTCTTTCGCAAATGATGTTG
1 TTTTATTTCGCAAACGATGCTG
15195552 TTTTATTTC
1 TTTTATTTC
15195561 TCTCCCCCGA
Statistics
Matches: 36, Mismatches: 17, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTTATTTCGCAAACGATGCTG
Found at i:15195554 original size:44 final size:46
Alignment explanation
Indices: 15195481--15195584 Score: 167
Period size: 44 Copynumber: 2.3 Consensus size: 46
15195471 TACAAACTGG
15195481 TTCCCTTTTCTTTCGCAAACGATGCTGTTTTA-TT-TCTCCCCCGA
1 TTCCCTTTTCTTTCGCAAACGATGCTGTTTTATTTCTCTCCCCCGA
* * *
15195525 TTCTCTTTTCTTTCGCAAATGATGTTGTTTTATTTCTCTCCCCCGA
1 TTCCCTTTTCTTTCGCAAACGATGCTGTTTTATTTCTCTCCCCCGA
15195571 TTCCCTTTTCTTTC
1 TTCCCTTTTCTTTC
15195585 TTAGCCTTTC
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 29 0.54
45 2 0.04
46 23 0.43
ACGTcount: A:0.12, C:0.30, G:0.10, T:0.49
Consensus pattern (46 bp):
TTCCCTTTTCTTTCGCAAACGATGCTGTTTTATTTCTCTCCCCCGA
Found at i:15198878 original size:153 final size:154
Alignment explanation
Indices: 15198608--15198889 Score: 458
Period size: 153 Copynumber: 1.8 Consensus size: 154
15198598 TTATCTTTTT
*
15198608 ACTTTTAAATTGATGATATTAATTGTGGTAATGGGAAAATCCATTCATACATACCAACTATGGTG
1 ACTTTTAAATTGATGATATTAATTGAGGTAATGGGAAAATCCATTCATACATACCAACTATGGTG
* * * * *
15198673 TGGGGCAGCTTATGCTTACAATTTTGTTGCCAATTTATTGGCTGACATTGTAAGCTTCCATTTGC
66 GGGGGCAGCTAATGCTTACAATTTTGTTGCCAACTTATTGGCTGACACTGTAAACTTCCATTTGC
15198738 CAATAATTTTTCCATTATGTTTGA
131 CAATAATTTTTCCATTATGTTTGA
* *
15198762 ACTTTTAAATTGATGATATTAATTGAGGTGATGGGAAAAT-CGTTCATACATACCAACTATGGTG
1 ACTTTTAAATTGATGATATTAATTGAGGTAATGGGAAAATCCATTCATACATACCAACTATGGTG
* * *
15198826 GGGGGTAGCTAATGCTTACAATTTTGTTGCCAGCTTATTGGCTGACACTGTAAACTTCCTTTTG
66 GGGGGCAGCTAATGCTTACAATTTTGTTGCCAACTTATTGGCTGACACTGTAAACTTCCATTTG
15198890 TTGGCTGATT
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
153 79 0.68
154 38 0.32
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (154 bp):
ACTTTTAAATTGATGATATTAATTGAGGTAATGGGAAAATCCATTCATACATACCAACTATGGTG
GGGGGCAGCTAATGCTTACAATTTTGTTGCCAACTTATTGGCTGACACTGTAAACTTCCATTTGC
CAATAATTTTTCCATTATGTTTGA
Found at i:15199122 original size:6 final size:6
Alignment explanation
Indices: 15199106--15199153 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
15199096 TTTCCTTTCC
15199106 TTTTATA TTTTTA TTTTTA TTTTTGA -TTTTA -TTTT- TTTTTA TTTTTA
1 TTTT-TA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
15199153 T
1 T
15199154 AATTTTAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 9 0.24
6 24 0.63
7 5 0.13
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:15199220 original size:23 final size:23
Alignment explanation
Indices: 15199194--15199242 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
15199184 AATACTATGT
15199194 TAAATTATATTTT-TACATTTTTA
1 TAAATTATATTTTATA-ATTTTTA
*
15199217 TAAATTTTATTTTATAATTTTTA
1 TAAATTATATTTTATAATTTTTA
15199240 TAA
1 TAA
15199243 TTTTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
TAAATTATATTTTATAATTTTTA
Found at i:15199253 original size:23 final size:23
Alignment explanation
Indices: 15199210--15199253 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15199200 ATATTTTTAC
*
15199210 ATTTTTATAAATTTTATTTTATA
1 ATTTTTATAAATTTTAATTTATA
15199233 ATTTTTAT-AATTTTAAATTTA
1 ATTTTTATAAATTTT-AATTTA
15199254 GCTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTTATAAATTTTAATTTATA
Found at i:15202994 original size:23 final size:23
Alignment explanation
Indices: 15202922--15202982 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
15202912 ACGGCACATT
15202922 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
15202943 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
15202964 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
15202983 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:15203390 original size:15 final size:15
Alignment explanation
Indices: 15203365--15203422 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
15203355 TCATATATAT
15203365 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
15203381 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
15203396 AATAATTTCAATCAA
1 TATAAATTCAATCAA
15203411 TATAAATTCAAT
1 TATAAATTCAAT
15203423 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:15204630 original size:5 final size:5
Alignment explanation
Indices: 15204622--15204673 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
15204612 TTTAGTTTAT
15204622 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
15204672 AT
1 AT
15204674 TAAAACATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:15207337 original size:23 final size:23
Alignment explanation
Indices: 15207307--15207354 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
15207297 TCTTTTCATG
15207307 AATGATTAAGGCAAATTGTATGC
1 AATGATTAAGGCAAATTGTATGC
*
15207330 AATGATTAGGGCAAATTGTATGC
1 AATGATTAAGGCAAATTGTATGC
15207353 AA
1 AA
15207355 CTGAAGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (23 bp):
AATGATTAAGGCAAATTGTATGC
Found at i:15210253 original size:17 final size:17
Alignment explanation
Indices: 15210231--15210266 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15210221 CGTCAGGCAG
15210231 GAAACCTGGGCCGACAA
1 GAAACCTGGGCCGACAA
15210248 GAAACCTGGGCCGACAA
1 GAAACCTGGGCCGACAA
15210265 GA
1 GA
15210267 GACCGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.28, G:0.31, T:0.06
Consensus pattern (17 bp):
GAAACCTGGGCCGACAA
Found at i:15211520 original size:19 final size:20
Alignment explanation
Indices: 15211478--15211520 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
15211468 ATTTTATCAA
* *
15211478 ATTTAGTATTTGAGTTTGAT
1 ATTTAGTATTTCACTTTGAT
15211498 -TTTAGTA-TTCACTTTGAT
1 ATTTAGTATTTCACTTTGAT
15211516 ATTTA
1 ATTTA
15211521 AAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.56
Consensus pattern (20 bp):
ATTTAGTATTTCACTTTGAT
Found at i:15212569 original size:25 final size:27
Alignment explanation
Indices: 15212521--15212585 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 27
15212511 ATTGTAAAAA
**
15212521 TTAATTTAAATATATAACGGTTATATT
1 TTAATTTAAATATATAACCATTATATT
15212548 TTAA-TTAAA-ATATAACCATTATA--
1 TTAATTTAAATATATAACCATTATATT
15212571 --AATTTAAATATATAA
1 TTAATTTAAATATATAA
15212586 TTTTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.06
22 5 0.15
23 6 0.18
25 12 0.35
26 5 0.15
27 4 0.12
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (27 bp):
TTAATTTAAATATATAACCATTATATT
Found at i:15212653 original size:17 final size:17
Alignment explanation
Indices: 15212633--15212667 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15212623 TTATATACTT
*
15212633 AATATAATATTATATAA
1 AATATAATATAATATAA
*
15212650 AATATATTATAATATAA
1 AATATAATATAATATAA
15212667 A
1 A
15212668 TAAGAGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATATAATATAATATAA
Found at i:15216339 original size:31 final size:31
Alignment explanation
Indices: 15216296--15216357 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
15216286 AATGGATAAG
15216296 TATTGAGAGTTAAATTGATAAATTTTGTAAA
1 TATTGAGAGTTAAATTGATAAATTTTGTAAA
* * * * *
15216327 TATTGAGGGTTAAGTTTATTAATTTTTTAAA
1 TATTGAGAGTTAAATTGATAAATTTTGTAAA
15216358 AATTTAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (31 bp):
TATTGAGAGTTAAATTGATAAATTTTGTAAA
Found at i:15217354 original size:21 final size:21
Alignment explanation
Indices: 15217330--15217369 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15217320 ATTTTCACTG
15217330 ATTAAAATTT-TATATATAGGC
1 ATTAAAATTTATAT-TATAGGC
*
15217351 ATTAATATTTATATTATAG
1 ATTAAAATTTATATTATAG
15217370 TATTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTAAAATTTATATTATAGGC
Found at i:15217374 original size:20 final size:21
Alignment explanation
Indices: 15217338--15217389 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
15217328 TGATTAAAAT
15217338 TTTATATATAGGCATTA-ATA
1 TTTATATATAGGCATTATATA
*
15217358 TTTATATTATA-GTATTATATA
1 TTTATA-TATAGGCATTATATA
15217379 TTACTATATAT
1 TT--TATATAT
15217390 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 9 0.33
22 3 0.11
23 4 0.15
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (21 bp):
TTTATATATAGGCATTATATA
Found at i:15220577 original size:42 final size:42
Alignment explanation
Indices: 15220530--15220628 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 42
15220520 GAAGTCCAAA
** *
15220530 GGTTGAACAGAAGCTCATGGGAGCAAAACAGAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAACAAAACAGAAACCCATAAG
* ** *
15220572 GGTTGAAC-GAAAGCTCGTAAGAACTGAACGGAAACCCATAAG
1 GGTTGAACAG-AAGCTCATAAGAACAAAACAGAAACCCATAAG
**
15220614 GGTCAAACAGAAGCT
1 GGTTGAACAGAAGCT
15220629 TAAAAGAGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.26, T:0.13
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAACAAAACAGAAACCCATAAG
Found at i:15224272 original size:25 final size:25
Alignment explanation
Indices: 15224244--15224295 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
15224234 TTTGGCTTGA
**
15224244 CATTTACTAAGCAATATTGAATATT
1 CATTTACTAAGCAATATCAAATATT
* *
15224269 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
15224294 CA
1 CA
15224296 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:15225541 original size:11 final size:11
Alignment explanation
Indices: 15225525--15225549 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15225515 TTCAGCTGAT
15225525 GAAAATGAAGA
1 GAAAATGAAGA
15225536 GAAAATGAAGA
1 GAAAATGAAGA
15225547 GAA
1 GAA
15225550 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:15228540 original size:39 final size:41
Alignment explanation
Indices: 15228449--15228544 Score: 106
Period size: 45 Copynumber: 2.3 Consensus size: 41
15228439 CTGTTACCGC
* * *
15228449 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAACATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGT---ACA-TGA
15228494 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGT-CA-GA
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTACATGA
*
15228533 TATTGTTACCGT
1 TACTGTTACCGT
15228545 ACTATTACTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 12 0.26
41 2 0.04
45 33 0.70
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (41 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTACATGA
Found at i:15231889 original size:16 final size:17
Alignment explanation
Indices: 15231868--15231902 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15231858 TAATGTCTAT
15231868 GAAAATTA-TTAATTGA
1 GAAAATTACTTAATTGA
15231884 GAAAATTAGCTTAATTGA
1 GAAAATTA-CTTAATTGA
15231902 G
1 G
15231903 GGGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (17 bp):
GAAAATTACTTAATTGA
Found at i:15240884 original size:46 final size:46
Alignment explanation
Indices: 15240824--15241327 Score: 749
Period size: 46 Copynumber: 11.0 Consensus size: 46
15240814 TTTGACATGA
* * * * * *
15240824 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
15240870 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
15240916 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
15240962 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *** *
15241008 TGCCATGGTATCTTTTAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
15241054 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
15241100 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*** *
15241146 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
15241192 TGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
15241238 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
15241284 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
15241328 AGAGCACACT
Statistics
Matches: 418, Mismatches: 39, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
45 4 0.01
46 414 0.99
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:15241072 original size:138 final size:138
Alignment explanation
Indices: 15240824--15241326 Score: 846
Period size: 138 Copynumber: 3.6 Consensus size: 138
15240814 TTTGACATGA
* * * * * * *
15240824 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTATCTTTCAA
15240888 CCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
15240953 ATATCAGGT
130 ATATCAGGT
* *
15240962 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGCTGCCATGGTATCTTTTAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
*
15241027 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCA
66 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
*
15241092 TATCAAGT
131 TATCAGGT
15241100 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
*
15241165 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCA
66 CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
15241230 TATCAGGT
131 TATCAGGT
*
15241238 TGCCATGGTATCTTTCAATCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
***
15241303 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTGTTCATTTCATATCA
15241327 GAGAGCACAC
Statistics
Matches: 344, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
137 4 0.01
138 340 0.99
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (138 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTATCTTTCAAC
CATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA
TATCAGGT
Found at i:15244134 original size:29 final size:30
Alignment explanation
Indices: 15244087--15244154 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
15244077 TGGCCCAAGA
* * *
15244087 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
15244117 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
15244147 GCAAATAT
1 GTAAATAT
15244155 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:15248812 original size:9 final size:9
Alignment explanation
Indices: 15248795--15248832 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
15248785 TATTTTGTCA
15248795 TTATTATTT
1 TTATTATTT
*
15248804 TTATCATTT
1 TTATTATTT
15248813 TTATTATTT
1 TTATTATTT
15248822 ATT-TTATTT
1 -TTATTATTT
15248831 TT
1 TT
15248833 CTTTGATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTATTATTT
Found at i:15250654 original size:15 final size:17
Alignment explanation
Indices: 15250634--15250671 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
15250624 GTATAAAACG
15250634 TTTTTTAAAGAAC-C-T
1 TTTTTTAAAGAACTCAT
*
15250649 TTTTTTATAGAACTCAT
1 TTTTTTAAAGAACTCAT
15250666 TTTTTT
1 TTTTTT
15250672 TGCCATGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 12 0.60
16 1 0.05
17 7 0.35
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTTTAAAGAACTCAT
Found at i:15251279 original size:21 final size:23
Alignment explanation
Indices: 15251239--15251288 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
15251229 GTTTTCCAAT
15251239 ATATTACTAAATTAATTTTAAAA
1 ATATTACTAAATTAATTTTAAAA
*
15251262 ATATTA-TAATTTAA-TTTAAAA
1 ATATTACTAAATTAATTTTAAAA
*
15251283 TTATTA
1 ATATTA
15251289 ATTTAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 7 0.28
23 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATATTACTAAATTAATTTTAAAA
Found at i:15252249 original size:17 final size:19
Alignment explanation
Indices: 15252219--15252255 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
15252209 TTAGTAGTTA
15252219 TATTATAAACAAATAATTT
1 TATTATAAACAAATAATTT
*
15252238 TATTA-AAA-AAATTATTT
1 TATTATAAACAAATAATTT
15252255 T
1 T
15252256 CTCCTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATAAACAAATAATTT
Found at i:15252818 original size:16 final size:16
Alignment explanation
Indices: 15252797--15252865 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
15252787 TTTGGTTCGC
*
15252797 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
15252813 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15252829 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
15252846 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
15252862 TGTA
1 TGTA
15252866 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:15252843 original size:33 final size:32
Alignment explanation
Indices: 15252797--15252865 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
15252787 TTTGGTTCGC
15252797 TGTATTGGATTAGAGATGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAGG
*
15252829 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGATGTATTGGATTAGAGG
15252862 TGTA
1 TGTA
15252866 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAGG
Found at i:15252930 original size:44 final size:45
Alignment explanation
Indices: 15252846--15252936 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15252836 GGATTAGAGG
* * *
15252846 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
15252891 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
15252935 TG
1 TG
15252937 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:15253121 original size:16 final size:16
Alignment explanation
Indices: 15253081--15253122 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15253071 TTAATCATAT
15253081 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATTA
*
15253097 TT-AAATATATTTTTA
1 TTAAAATATATTATTA
15253112 TTAAAATATAT
1 TTAAAATATAT
15253123 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAAATATATTATTA
Found at i:15253364 original size:47 final size:47
Alignment explanation
Indices: 15253304--15253445 Score: 143
Period size: 47 Copynumber: 3.1 Consensus size: 47
15253294 ATATAATTTA
* *
15253304 ATAATAATATATAATTTCATAAAATTCTTGATAATAAATTTTCTTAT
1 ATAATGATATATAATTTCATAAAATTCTTAATAATAAATTTTCTTAT
* ** * *
15253351 ATGAAT-TTATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-
1 AT-AATGATATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTAT
*
15253395 ATAATGATATATAATTTCATAAAATTCTTAATAATAAATATTCTTAT
1 ATAATGATATATAATTTCATAAAATTCTTAATAATAAATTTTCTTAT
15253442 ATAA
1 ATAA
15253446 GTTACTAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.34
45 7 0.09
46 6 0.08
47 30 0.41
48 3 0.04
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (47 bp):
ATAATGATATATAATTTCATAAAATTCTTAATAATAAATTTTCTTAT
Found at i:15253406 original size:44 final size:43
Alignment explanation
Indices: 15253289--15253411 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
15253279 TTATATTTTA
** *
15253289 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
15253336 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
15253380 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
15253412 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:15253439 original size:16 final size:16
Alignment explanation
Indices: 15253413--15253445 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15253403 ATATAATTTC
15253413 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
15253428 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
15253445 A
1 A
15253446 GTTACTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:15253793 original size:66 final size:66
Alignment explanation
Indices: 15253687--15253817 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
15253677 CGCAAATGTG
* *
15253687 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
15253752 C
66 C
* *
15253753 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
15253818 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:15263702 original size:28 final size:27
Alignment explanation
Indices: 15263666--15263725 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
15263656 TCCCATATTA
15263666 ATGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGTATAGGAAAAGTCTCATAACTT
** * *
15263693 ATGGGTTATAGGAAGGGTTTTATAACTT
1 ATGGG-TATAGGAAAAGTCTCATAACTT
15263721 ATGGG
1 ATGGG
15263726 GTTGATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (27 bp):
ATGGGTATAGGAAAAGTCTCATAACTT
Found at i:15265600 original size:20 final size:20
Alignment explanation
Indices: 15265556--15265594 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15265546 ATATATCAAC
*
15265556 GTTATAAAAACTATTTAAAA
1 GTTATAAAAACTATTAAAAA
15265576 GTTATAAAAACT-TTAAAAA
1 GTTATAAAAACTATTAAAAA
15265595 TTTTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
GTTATAAAAACTATTAAAAA
Found at i:15266752 original size:22 final size:21
Alignment explanation
Indices: 15266727--15266792 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 21
15266717 TCCCCTTTCA
15266727 TATTTCTATTTTTCATATATGT
1 TATTTCTATTTTTCATATAT-T
*
15266749 TATTGTCTTTCTTTTGC-TATATT
1 TATT-TCTAT-TTTT-CATATATT
*
15266772 TGATTTTTTATTTTTCATATA
1 T-A-TTTCTATTTTTCATATA
15266793 CTCCTTTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
22 5 0.14
23 14 0.40
24 13 0.37
25 3 0.09
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.65
Consensus pattern (21 bp):
TATTTCTATTTTTCATATATT
Found at i:15271514 original size:3 final size:3
Alignment explanation
Indices: 15271506--15271542 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
15271496 AAAAACTGAA
* *
15271506 TTC TTC TTC TTC TTC TTC TTC TTA TTC TTA TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
15271543 GACAGGCGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:15277105 original size:18 final size:18
Alignment explanation
Indices: 15277064--15277099 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15277054 CCTAAATTTG
15277064 AATAATCCTAATAATTAT
1 AATAATCCTAATAATTAT
15277082 AATAATCCTAATAATTAT
1 AATAATCCTAATAATTAT
15277100 CTTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATCCTAATAATTAT
Found at i:15282738 original size:30 final size:30
Alignment explanation
Indices: 15282704--15282760 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15282694 TAAAATTTGT
15282704 AAAT-GTTGGTGCAATAAAATTAATTTTCTA
1 AAATGGTT-GTGCAATAAAATTAATTTTCTA
*
15282734 AAATGGTTGTGCAATAAAATTATTTTT
1 AAATGGTTGTGCAATAAAATTAATTTT
15282761 TAGTAATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (30 bp):
AAATGGTTGTGCAATAAAATTAATTTTCTA
Found at i:15283139 original size:21 final size:20
Alignment explanation
Indices: 15283114--15283166 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
15283104 CAAAATTAGT
15283114 AGAAGGAA-AAAGAGAGAAAGA
1 AGAAGGAAGAAAG-GA-AAAGA
15283135 AGAAGGGAAGAAAGGAAAAGA
1 AGAA-GGAAGAAAGGAAAAGA
15283156 AGAA-GAAGAAA
1 AGAAGGAAGAAA
15283167 AATAAGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 7 0.23
21 13 0.43
22 6 0.20
23 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (20 bp):
AGAAGGAAGAAAGGAAAAGA
Found at i:15286501 original size:33 final size:33
Alignment explanation
Indices: 15286464--15286631 Score: 174
Period size: 33 Copynumber: 5.1 Consensus size: 33
15286454 AGAATGTCGA
* *
15286464 TGGATACGAGCCAGAAGGAACGGAGTACGGTGG
1 TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
**
15286497 TGGATACGAGCTAGAAATAGCGGAGTACGGTGG
1 TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
* ** *
15286530 TGGATATGAGCTAGAATAAGCGGAGTATGGTGG
1 TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
* * ** **
15286563 TGGATACGAGTTGGAAGGAGTAGAGTATTGTGG
1 TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
** * *
15286596 TGGATACGAGCCGGAATGAGCGGAGTACGATGG
1 TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
15286629 TGG
1 TGG
15286632 GCTGAAGATA
Statistics
Matches: 111, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.29, C:0.10, G:0.42, T:0.20
Consensus pattern (33 bp):
TGGATACGAGCTAGAAGGAGCGGAGTACGGTGG
Found at i:15289223 original size:26 final size:28
Alignment explanation
Indices: 15289194--15289255 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
15289184 TATAATCTTA
15289194 AATTACTAAA-A-AAATAATTT-TAAAAT
1 AATTACTAAACACAAA-AATTTATAAAAT
*
15289220 AATTAC-AAACACAAAAATTTATCAAAT
1 AATTACTAAACACAAAAATTTATAAAAT
15289247 AATT-CTAAA
1 AATTACTAAA
15289256 TTACTAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 3 0.10
26 13 0.42
27 15 0.48
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (28 bp):
AATTACTAAACACAAAAATTTATAAAAT
Found at i:15289311 original size:3 final size:3
Alignment explanation
Indices: 15289303--15289343 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
15289293 TACTAACCTT
15289303 TTC TTC TTC TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC T
15289344 CTTTTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:15289355 original size:25 final size:25
Alignment explanation
Indices: 15289301--15289353 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
15289291 ATTACTAACC
15289301 TTTTCTTCTTCTTCTTCTTCTTCTT
1 TTTTCTTCTTCTTCTTCTTCTTCTT
* *
15289326 CTTTCTTCTTCTTCTTC-TCTTTTT
1 TTTTCTTCTTCTTCTTCTTCTTCTT
15289350 TTTT
1 TTTT
15289354 TCATCAGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (25 bp):
TTTTCTTCTTCTTCTTCTTCTTCTT
Found at i:15303517 original size:31 final size:32
Alignment explanation
Indices: 15303466--15303526 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
15303456 ATTCAAATCT
* * *
15303466 TTTTCAAAATGTTGATTGTCAACTTTAACTTG
1 TTTTCAAAAAGTTGAATGTCAAATTTAACTTG
15303498 TTTT-AAAAAGTTGAATGTCAAATTTAACT
1 TTTTCAAAAAGTTGAATGTCAAATTTAACT
15303527 AAAAAATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (32 bp):
TTTTCAAAAAGTTGAATGTCAAATTTAACTTG
Found at i:15308139 original size:22 final size:22
Alignment explanation
Indices: 15308114--15308161 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15308104 TTTGCTGATA
*
15308114 TTTTATACAT-TTTTTTGAAAAC
1 TTTTAGACATATTTTTTG-AAAC
*
15308136 TTTTAGATATATTTTTTGAAAC
1 TTTTAGACATATTTTTTGAAAC
15308158 TTTT
1 TTTT
15308162 TTTAAATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTTTAGACATATTTTTTGAAAC
Found at i:15309146 original size:18 final size:18
Alignment explanation
Indices: 15309095--15309148 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
15309085 TTTTTAATAG
*
15309095 TTTTTATAACTTTTGATATT
1 TTTTTATAA-TTTT-TTATT
**
15309115 TTTAAATAATTTTTTATT
1 TTTTTATAATTTTTTATT
15309133 TTTTTATAATTTTTTA
1 TTTTTATAATTTTTTA
15309149 AAAACTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 18 0.62
19 4 0.14
20 7 0.24
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATAATTTTTTATT
Found at i:15309148 original size:10 final size:10
Alignment explanation
Indices: 15309095--15309148 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
15309085 TTTTTAATAG
*
15309095 TTTTTATAAC
1 TTTTTATAAT
*
15309105 TTTTGAT-AT
1 TTTTTATAAT
*
15309114 TTTTAAATAAT
1 TTTT-TATAAT
15309125 TTTTTAT--T
1 TTTTTATAAT
15309133 TTTTTATAAT
1 TTTTTATAAT
15309143 TTTTTA
1 TTTTTA
15309149 AAAACTATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 8 0.22
9 5 0.14
10 17 0.47
11 6 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:15311102 original size:8 final size:8
Alignment explanation
Indices: 15311089--15311113 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15311079 CCCCTTAAAG
15311089 AATTTTAA
1 AATTTTAA
15311097 AATTTTAA
1 AATTTTAA
15311105 AATTTTAA
1 AATTTTAA
15311113 A
1 A
15311114 TTAGTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTAA
Found at i:15311193 original size:25 final size:25
Alignment explanation
Indices: 15311163--15311211 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15311153 ATAAAATTCT
* * *
15311163 GATTTAATCTTTTAAAAATTATAAA
1 GATTTAAGCTATTAAAAATCATAAA
*
15311188 GATTTAGGCTATTAAAAATCATAA
1 GATTTAAGCTATTAAAAATCATAA
15311212 TTTCAATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (25 bp):
GATTTAAGCTATTAAAAATCATAAA
Found at i:15314324 original size:31 final size:31
Alignment explanation
Indices: 15314265--15314344 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
15314255 ACACATATAT
*
15314265 ATATACTAAATAAAATAATAAAATAATAATAA
1 ATAT-CTAATTAAAATAATAAAATAATAATAA
* *
15314297 ATATCTTATTAAAAT-ATTAAATAAATAATAA
1 ATATCTAATTAAAATAATAAAAT-AATAATAA
*
15314328 TTATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
15314345 TATAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 10 0.24
31 27 0.66
32 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
ATATCTAATTAAAATAATAAAATAATAATAA
Found at i:15314330 original size:23 final size:23
Alignment explanation
Indices: 15314271--15314330 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 23
15314261 ATATATATAC
15314271 TAAAT-AA-AATAA-TAAAATAA
1 TAAATAAATAATAATTAAAATAA
* * *
15314291 T-AATAAATATCTTATTAAAATAT
1 TAAATAAATA-ATAATTAAAATAA
15314314 TAAATAAATAATAATTA
1 TAAATAAATAATAATTA
15314331 TCTAATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 1 0.03
22 2 0.07
23 13 0.43
24 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATAAATAATAATTAAAATAA
Found at i:15324084 original size:3 final size:3
Alignment explanation
Indices: 15324076--15324100 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
15324066 TCCTACTCTT
15324076 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
15324101 ATTCTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:15325163 original size:18 final size:18
Alignment explanation
Indices: 15325140--15325175 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15325130 ATCACCCGAA
15325140 TCCAATGCTTCTAGTTAT
1 TCCAATGCTTCTAGTTAT
15325158 TCCAATGCTTCTAGTTAT
1 TCCAATGCTTCTAGTTAT
15325176 CGAGTTCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (18 bp):
TCCAATGCTTCTAGTTAT
Found at i:15327031 original size:16 final size:15
Alignment explanation
Indices: 15326992--15327040 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
15326982 TCAGTTTGAT
*
15326992 TTATTTTTAAATTTA
1 TTATTTTTATATTTA
*
15327007 TAATATTTTATATTATA
1 TTAT-TTTTATATT-TA
15327024 TTATTTTTATATATTA
1 TTATTTTTATAT-TTA
15327040 T
1 T
15327041 ATAATCTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 3 0.11
16 19 0.68
17 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTTTTATATTTA
Found at i:15327550 original size:30 final size:30
Alignment explanation
Indices: 15327509--15327567 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
15327499 TGGAATTTTT
* * *
15327509 TCTTAACAATAATTTTAAAAAATTAAAAAA
1 TCTTAAAAATAAATATAAAAAATTAAAAAA
*
15327539 TCTTAAAAATAAATATAAAATATTAAAAA
1 TCTTAAAAATAAATATAAAAAATTAAAAA
15327568 TTATGTTAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (30 bp):
TCTTAAAAATAAATATAAAAAATTAAAAAA
Found at i:15327644 original size:20 final size:19
Alignment explanation
Indices: 15327621--15327670 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
15327611 TTTTAACATA
15327621 ATTTTTAATAATTTATATTT
1 ATTTTTAATAATTTA-ATTT
**
15327641 ATTTTTAATTTTTTAATTT
1 ATTTTTAATAATTTAATTT
15327660 -TTTTTAA-AATT
1 ATTTTTAATAATT
15327671 GTTGTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 7 0.27
19 4 0.15
20 13 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTAATAATTTAATTT
Found at i:15337865 original size:20 final size:21
Alignment explanation
Indices: 15337840--15337878 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15337830 AATTTTATAA
*
15337840 TTAATTGAT-TGAGTATTAAC
1 TTAATTGATATGAATATTAAC
15337860 TTAATTGATATGAATATTA
1 TTAATTGATATGAATATTA
15337879 TTGTCAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.03, G:0.13, T:0.46
Consensus pattern (21 bp):
TTAATTGATATGAATATTAAC
Found at i:15353189 original size:23 final size:23
Alignment explanation
Indices: 15353163--15353207 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
15353153 TACTAAATAT
*
15353163 ATATATATATTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
15353186 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
15353208 TTTAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:15353325 original size:24 final size:26
Alignment explanation
Indices: 15353296--15353344 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
15353286 CTTGTTTTAA
* *
15353296 TATTTG-TTT-TTATGTTTTTAAATG
1 TATTTGATTTATTATATTTTAAAATG
15353320 TATTTGATTTATTATATTTTAAAAT
1 TATTTGATTTATTATATTTTAAAAT
15353345 TTTTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (26 bp):
TATTTGATTTATTATATTTTAAAATG
Found at i:15354470 original size:15 final size:15
Alignment explanation
Indices: 15354432--15354473 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15354422 TATCGTACGT
15354432 ATTGAATTTTAATCA
1 ATTGAATTTTAATCA
* *
15354447 ATT-ATATTTTTATTA
1 ATTGA-ATTTTAATCA
15354462 ATTGAATTTTAA
1 ATTGAATTTTAA
15354474 GGAGAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (15 bp):
ATTGAATTTTAATCA
Found at i:15366708 original size:21 final size:21
Alignment explanation
Indices: 15366684--15366723 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
15366674 ACTATTTATT
15366684 TATAT-TATTTTTAAATATACA
1 TATATATA-TTTTAAATATACA
15366705 TATATATATTTTAAATATA
1 TATATATATTTTAAATATA
15366724 TTATTTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TATATATATTTTAAATATACA
Found at i:15366715 original size:31 final size:32
Alignment explanation
Indices: 15366654--15366715 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
15366644 GTATATAAAT
* *
15366654 TATTATTTTTAAAATATTCTACTATTTATTTA
1 TATTATTTTTAAAATATACTACTATATATTTA
15366686 TATTATTTTT-AAATATACATA-TATATATTT
1 TATTATTTTTAAAATATAC-TACTATATATTT
15366716 TAAATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (32 bp):
TATTATTTTTAAAATATACTACTATATATTTA
Found at i:15367527 original size:15 final size:13
Alignment explanation
Indices: 15367507--15367549 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
15367497 CTTATTATTA
15367507 TTTTCTGTTTTTTCT
1 TTTTCT-TTTTTT-T
15367522 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
*
15367535 TTTTGTTTTGTTTT
1 TTTTCTTTT-TTTT
15367549 T
1 T
15367550 AGGTTCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:15368178 original size:19 final size:19
Alignment explanation
Indices: 15368156--15368193 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15368146 TATTTTTGAA
15368156 AAATAATTTACTTTTCTAG
1 AAATAATTTACTTTTCTAG
* *
15368175 AAATGATTTATTTTTCTAG
1 AAATAATTTACTTTTCTAG
15368194 TGTTTGGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (19 bp):
AAATAATTTACTTTTCTAG
Found at i:15371575 original size:57 final size:57
Alignment explanation
Indices: 15371508--15371623 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 57
15371498 AATATTTAAG
*
15371508 AAGTTGAAGAACGGAAG-AGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGGAAA
1 AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGAT-GAAA
* *
15371565 AAGTTGAAGAACAGAAGAAGAAGAAGAAGACTTACCTGGATGAAGAAGGGGATGAAA
1 AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGAAA
15371622 AA
1 AA
15371624 TGTCTTACAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
57 22 0.40
58 33 0.60
ACGTcount: A:0.50, C:0.07, G:0.31, T:0.12
Consensus pattern (57 bp):
AAGTTGAAGAACAGAAGAAGAAGAAAAAGACTTACCTGGATGAAGAAGGAGATGAAA
Found at i:15372040 original size:25 final size:24
Alignment explanation
Indices: 15371993--15372040 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15371983 TATTTTTTAT
**
15371993 TTTTATTTTTTAAAAAATTAAATA
1 TTTTATTTTTTAAAAAAGAAAATA
*
15372017 TTTTATTTTTTAAATTAAGAAAAT
1 TTTTATTTTTTAAA-AAAGAAAAT
15372041 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTATTTTTTAAAAAAGAAAATA
Found at i:15374726 original size:14 final size:14
Alignment explanation
Indices: 15374707--15374733 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15374697 TCATAACCTC
15374707 GTTATGAGGCATTG
1 GTTATGAGGCATTG
15374721 GTTATGAGGCATT
1 GTTATGAGGCATT
15374734 ATCGGACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.33, T:0.37
Consensus pattern (14 bp):
GTTATGAGGCATTG
Found at i:15376369 original size:5 final size:5
Alignment explanation
Indices: 15376351--15376381 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
15376341 TTTCTTTTAT
15376351 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
15376382 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:15376418 original size:31 final size:33
Alignment explanation
Indices: 15376361--15376427 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 33
15376351 ATATAATAAT
*
15376361 AATATAATATAATATAATATACTTAAT-TATTA
1 AATATAATATAATATAATATACTTAATCAATTA
**
15376393 AATA-AATAT-ATATATATATTTTTAATCAATTA
1 AATATAATATAATATA-ATATACTTAATCAATTA
15376425 AAT
1 AAT
15376428 CTTTGATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 5 0.17
31 14 0.47
32 11 0.37
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
AATATAATATAATATAATATACTTAATCAATTA
Found at i:15387363 original size:21 final size:21
Alignment explanation
Indices: 15387324--15387374 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
15387314 TAACGGTGGC
* *
15387324 GGTGAGATTAGTTAATGTAGT
1 GGTGAGATTAGATAATGTAAT
* *
15387345 GGTGAGATTGGATATTGTAAT
1 GGTGAGATTAGATAATGTAAT
*
15387366 AGTGAGATT
1 GGTGAGATT
15387375 CAAAACAACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
GGTGAGATTAGATAATGTAAT
Found at i:15387632 original size:7 final size:7
Alignment explanation
Indices: 15387620--15387660 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
15387610 ATCAAAATAA
15387620 TTAAAAT
1 TTAAAAT
15387627 TTAAAAT
1 TTAAAAT
15387634 TTAAAAT
1 TTAAAAT
15387641 TTAAAA-
1 TTAAAAT
*
15387647 TAAATAAT
1 TTAA-AAT
15387655 TTAAAA
1 TTAAAA
15387661 GTAGTTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 3 0.10
7 24 0.80
8 3 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TTAAAAT
Found at i:15395113 original size:14 final size:14
Alignment explanation
Indices: 15395096--15395124 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15395086 ATATCAAACA
15395096 TAAAATATATTTAT
1 TAAAATATATTTAT
15395110 TAAAATATATTTAT
1 TAAAATATATTTAT
15395124 T
1 T
15395125 TATGCGCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATATATTTAT
Found at i:15400119 original size:54 final size:54
Alignment explanation
Indices: 15400061--15400169 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
15400051 AGAAAATGAA
15400061 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
1 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
15400115 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
1 ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
15400169 A
1 A
15400170 ATCATTTTAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (54 bp):
ATTGCATTCTCTTTTTAGATTTGTAAATCCATTTCTTCATATTGAAAATGATTC
Found at i:15402364 original size:40 final size:40
Alignment explanation
Indices: 15402309--15402388 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
15402299 TAAAACGTTT
15402309 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
1 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
15402349 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
1 TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
15402389 CACATGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (40 bp):
TGAATACAAGTTGGATCGACATTTTTGTCCCCTTCTCCGA
Found at i:15407990 original size:18 final size:18
Alignment explanation
Indices: 15407956--15407990 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15407946 CCCAAAACAC
* *
15407956 AAGAAAAAGAAAGAAAGA
1 AAGAAAAAAAAAAAAAGA
15407974 AAGAAAAAAAAAAAAAG
1 AAGAAAAAAAAAAAAAG
15407991 GAATACCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAAAAAAGA
Found at i:15416232 original size:22 final size:22
Alignment explanation
Indices: 15416207--15416250 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15416197 TAGTCATATG
15416207 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15416229 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15416251 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15416261 original size:20 final size:22
Alignment explanation
Indices: 15416221--15416262 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
15416211 ATTATTAATA
*
15416221 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
15416243 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
15416263 CAATTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:15416288 original size:13 final size:14
Alignment explanation
Indices: 15416270--15416311 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
15416260 TTTCAATTCT
15416270 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
15416283 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
15416298 ATTTTAAATAATAT
1 ATTTT-AATAATAT
15416312 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:15416296 original size:16 final size:16
Alignment explanation
Indices: 15416274--15416310 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15416264 AATTCTATTT
15416274 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15416291 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15416306 TAATA
1 TAATA
15416311 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15416763 original size:14 final size:14
Alignment explanation
Indices: 15416753--15416793 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
15416743 AATATTTTTA
15416753 AAAAATCATTTTCC
1 AAAAATCATTTTCC
*
15416767 AGAAATCATTTTCC
1 AAAAATCATTTTCC
*
15416781 AAAAGTCATTTTC
1 AAAAATCATTTTC
15416794 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (14 bp):
AAAAATCATTTTCC
Found at i:15416778 original size:28 final size:27
Alignment explanation
Indices: 15416741--15416793 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
15416731 TGACTTTTAT
*
15416741 GAAATATTTTTAAAAAATCATTTTCCA
1 GAAATATTTTCAAAAAATCATTTTCCA
* *
15416768 GAAATCATTTTCCAAAAGTCATTTTC
1 GAAAT-ATTTTCAAAAAATCATTTTC
15416794 AGTGAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.40
Consensus pattern (27 bp):
GAAATATTTTCAAAAAATCATTTTCCA
Found at i:15418212 original size:46 final size:46
Alignment explanation
Indices: 15418156--15418331 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
15418146 TGGTTGAGCA
15418156 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
15418202 TTCGAACTCGTTGGGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
15418247 CATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
15418295 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15418332 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 57 0.55
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15418313 original size:93 final size:93
Alignment explanation
Indices: 15418153--15418323 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
15418143 GGATGGTTGA
* * * *
15418153 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGGGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
15418218 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
15418246 GCATCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCGTTGAG
15418310 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
15418324 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15433144 original size:5 final size:5
Alignment explanation
Indices: 15433134--15433170 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
15433124 ATGTGTGTTC
15433134 TTTAT TTTAT TTTA- TTT-T TTTATT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
15433171 CAAAAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 6 0.21
5 18 0.62
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:15433162 original size:19 final size:18
Alignment explanation
Indices: 15433134--15433170 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
15433124 ATGTGTGTTC
15433134 TTTATTTTATTTTATTTT
1 TTTATTTTATTTTATTTT
15433152 TTTATTTTTATTTTATTTT
1 TTTA-TTTTATTTTATTTT
15433171 CAAAAATTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTATTTTATTTTATTTT
Found at i:15435610 original size:53 final size:53
Alignment explanation
Indices: 15435454--15435619 Score: 203
Period size: 53 Copynumber: 3.1 Consensus size: 53
15435444 GACGAAAAAT
* * **
15435454 ATGTGATAAGTGTG-C-CCGTTTAAGACCGTAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
15435506 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * * *
15435559 ATGTGATAATGTGATTTCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
15435613 TATGTGA
1 -ATGTGA
15435620 ACCGTGTAAG
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 79 0.78
54 1 0.01
55 6 0.06
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:15436714 original size:53 final size:53
Alignment explanation
Indices: 15436633--15436783 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
15436623 CTTACACGGT
* *
15436633 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
15436688 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
15436741 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
15436784 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:15441485 original size:5 final size:5
Alignment explanation
Indices: 15441475--15441507 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
15441465 CTGTATGTTC
15441475 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
15441508 CACAGTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Done.