Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 59 of 214
Found at i:16592301 original size:13 final size:13
Alignment explanation
Indices: 16592283--16592323 Score: 73
Period size: 13 Copynumber: 3.1 Consensus size: 13
16592273 CCGTCATTGC
16592283 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16592296 TTTTCATTTTTCA
1 TTTTCATTTTTCA
16592309 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
16592323 T
1 T
16592324 ATTTTTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:16598046 original size:410 final size:410
Alignment explanation
Indices: 16597286--16598206 Score: 1790
Period size: 410 Copynumber: 2.2 Consensus size: 410
16597276 ATGATAAGGC
16597286 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16597351 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
* *
16597416 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTTACCAAATTCTCAAATATCAGTTATTGCCT
131 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCAGATATTGCCT
16597481 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACA
196 TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACA
*
16597546 TTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACGATTTTTATTAAAAAAGAGATACTCA
261 TTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACAATTTTTATTAAAAAAGAGATACTCA
16597611 ATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
326 ATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
16597676 TTCGGATATCGAGTCTTGTT
391 TTCGGATATCGAGTCTTGTT
16597696 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16597761 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
16597826 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATC-GAATATTGCC
131 AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCAG-ATATTGCC
16597890 TTTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAC
195 TTTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAAC
16597955 ATTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACAATTTTTATTAAAAAAGAGATACTC
260 ATTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACAATTTTTATTAAAAAAGAGATACTC
16598020 AATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAA
325 AATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAA
16598085 TTTCGGATATCGAGTCTTGTT
390 TTTCGGATATCGAGTCTTGTT
*
16598106 TCATTTAATTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
1 TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
16598171 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGA
66 AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGA
16598207 AGAAATAGCT
Statistics
Matches: 506, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
409 1 0.00
410 505 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (410 bp):
TCATTTATTTTAAAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCA
AAATTAAGTTTGACTTTTAGAACCTGTACATTTTGAGAAGGATATTTGATTCTTTAGGTCAAATG
AGAAGATGAAAACCCAGTAAGTTAGGGTTCGATTTCACCAAATTCTCAAATATCAGATATTGCCT
TTATTTTTATTTAATCCTTAATTCGAGGTAGCAAAATATCATATCCAGTGAGTTAGAATCCAACA
TTTTTAAAATCTCAAAAAAACTTTATTTAGAAATTGTACAATTTTTATTAAAAAAGAGATACTCA
ATTATTCGAATTTAACGAGATAAAAATTGAAGCCCAGTAAGTTAGGGCACAATCTTCTCAAAAAT
TTCGGATATCGAGTCTTGTT
Found at i:16598221 original size:88 final size:88
Alignment explanation
Indices: 16598118--16598294 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
16598108 ATTTAATTTA
16598118 AAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTAAGTTTG
1 AAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTAAGTTTG
16598183 ACTTTTAGAACCTGTACATTTTG
66 ACTTTTAGAACCTGTACATTTTG
16598206 AAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTAAGTTTG
1 AAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTAAGTTTG
16598271 ACTTTTAGAACCTGTACATTTTG
66 ACTTTTAGAACCTGTACATTTTG
16598294 A
1 A
16598295 GAAGGATATT
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (88 bp):
AAGAAATAGCTTGTCATACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAAAATTAAGTTTG
ACTTTTAGAACCTGTACATTTTG
Found at i:16600454 original size:26 final size:26
Alignment explanation
Indices: 16600418--16600470 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
16600408 GGGTGAGTTT
16600418 TCTCTTTGATTTCAACAAAGAAACTG
1 TCTCTTTGATTTCAACAAAGAAACTG
16600444 TCTCTTTGATTTCAACAAAGAAACTG
1 TCTCTTTGATTTCAACAAAGAAACTG
16600470 T
1 T
16600471 GATTTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (26 bp):
TCTCTTTGATTTCAACAAAGAAACTG
Found at i:16601879 original size:18 final size:17
Alignment explanation
Indices: 16601856--16601890 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16601846 TTTATATTAG
*
16601856 CAATTCATATCATCATTT
1 CAATTCAAAT-ATCATTT
16601874 CAATTCAAATATCATTT
1 CAATTCAAATATCATTT
16601891 ATCCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (17 bp):
CAATTCAAATATCATTT
Found at i:16607371 original size:21 final size:21
Alignment explanation
Indices: 16607345--16607398 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
16607335 ACTATAGGGT
*
16607345 GTGTCACGATATCGAACCCTA
1 GTGTCACGACATCGAACCCTA
16607366 GTGTCACGACATCGAACCCTA
1 GTGTCACGACATCGAACCCTA
16607387 GTGTCACGACAT
1 GTGTCACGACAT
16607399 AAGCAATCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (21 bp):
GTGTCACGACATCGAACCCTA
Found at i:16609657 original size:18 final size:18
Alignment explanation
Indices: 16609627--16609674 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16609617 TGTCGTTCGT
16609627 TTTCAAAAT-ATTATTC-A
1 TTTC-AAATCATTATTCAA
16609644 TTTACAAATCATTATTCAA
1 TTT-CAAATCATTATTCAA
*
16609663 TTTCAAAACATT
1 TTTCAAATCATT
16609675 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.26
18 16 0.59
19 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTCAAATCATTATTCAA
Found at i:16615177 original size:39 final size:40
Alignment explanation
Indices: 16615082--16615304 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
16615072 TTGAATGATG
*
16615082 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
16615120 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
16615161 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16615200 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
16615239 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
16615278 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
16615305 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:16615268 original size:79 final size:81
Alignment explanation
Indices: 16615082--16615304 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
16615072 TTGAATGATG
* * *
16615082 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
16615144 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
16615161 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
16615222 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
16615239 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
16615303 TG
66 TG
16615305 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:16615326 original size:79 final size:79
Alignment explanation
Indices: 16615082--16615337 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
16615072 TTGAATGATG
* * * *
16615082 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
16615143 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
16615161 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
16615225 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
16615239 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
16615302 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
16615319 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16615338 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:16623158 original size:39 final size:40
Alignment explanation
Indices: 16623064--16623285 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
16623054 TTGAATGATG
*
16623064 TCCGGGCTAAGTCCC-AAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
16623101 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
16623142 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
16623181 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
16623220 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
16623259 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
16623286 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 12 0.07
39 81 0.50
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:16623307 original size:79 final size:79
Alignment explanation
Indices: 16623115--16623318 Score: 213
Period size: 79 Copynumber: 2.6 Consensus size: 79
16623105 GGACTAAGAT
** * *
16623115 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
16623178 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** *
16623193 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
16623257 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* * *
16623273 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
16623319 TACGTGATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 37 0.34
79 47 0.43
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:16627663 original size:16 final size:16
Alignment explanation
Indices: 16627642--16627675 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16627632 GCTCTTTTGG
16627642 CACATGTTATGGACAC
1 CACATGTTATGGACAC
16627658 CACATGTTATGGACAC
1 CACATGTTATGGACAC
16627674 CA
1 CA
16627676 TTCCATTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (16 bp):
CACATGTTATGGACAC
Found at i:16629086 original size:17 final size:17
Alignment explanation
Indices: 16629058--16629101 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16629048 ATCCGCAAGG
*
16629058 CAATACTATTCGCCAAA
1 CAATACTGTTCGCCAAA
* *
16629075 CGATACTGTTCGCCAAC
1 CAATACTGTTCGCCAAA
16629092 CAATACTGTT
1 CAATACTGTT
16629102 TCCCAAGTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (17 bp):
CAATACTGTTCGCCAAA
Found at i:16629165 original size:17 final size:17
Alignment explanation
Indices: 16629108--16629172 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
16629098 TGTTTCCCAA
* *
16629108 GTAATACTATTTGCTAG
1 GTAATACTATCTGCCAG
* * *
16629125 GCAATA-TAATTTGACAG
1 GTAATACT-ATCTGCCAG
*
16629142 GTGATACTATCTGCCAG
1 GTAATACTATCTGCCAG
*
16629159 GTAATACTGTCTGC
1 GTAATACTATCTGC
16629173 TAATGTTGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 1 0.03
17 35 0.95
18 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (17 bp):
GTAATACTATCTGCCAG
Found at i:16633788 original size:27 final size:27
Alignment explanation
Indices: 16633757--16633813 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
16633747 GACGGATTCA
16633757 AAAGATATTTTCAAATCTATTTTAACT
1 AAAGATATTTTCAAATCTATTTTAACT
*
16633784 AAAGATATTTTCGAATCTATTTTAACT
1 AAAGATATTTTCAAATCTATTTTAACT
16633811 AAA
1 AAA
16633814 TGTTTTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (27 bp):
AAAGATATTTTCAAATCTATTTTAACT
Found at i:16634191 original size:13 final size:13
Alignment explanation
Indices: 16634169--16634199 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16634159 TTTAAATACC
16634169 AATT-TATAAAAA
1 AATTATATAAAAA
16634181 AATTATATAAAAA
1 AATTATATAAAAA
16634194 AATTAT
1 AATTAT
16634200 TTAATCAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTATATAAAAA
Found at i:16634387 original size:13 final size:15
Alignment explanation
Indices: 16634369--16634405 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
16634359 TCATTAGGTG
16634369 AAAGATAA-TG-ATA
1 AAAGATAAGTGAATA
16634382 AAAGATAAGTGAATA
1 AAAGATAAGTGAATA
16634397 AACAGATAA
1 AA-AGATAA
16634406 CAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 2 0.10
15 5 0.24
16 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.16, T:0.19
Consensus pattern (15 bp):
AAAGATAAGTGAATA
Found at i:16635713 original size:29 final size:29
Alignment explanation
Indices: 16635654--16635713 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
16635644 TACGATTTAA
* *
16635654 TGTGTAATTATATATATAAATTTTAATTT
1 TGTGTAATTATATAAATAAATTTTAAGTT
*
16635683 TGTGTAATTTTATAAATAAAATTTT-AGTT
1 TGTGTAATTATATAAAT-AAATTTTAAGTT
16635712 TG
1 TG
16635714 ATCAAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (29 bp):
TGTGTAATTATATAAATAAATTTTAAGTT
Found at i:16644603 original size:37 final size:37
Alignment explanation
Indices: 16644560--16644633 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
16644550 GTAAGTCTGT
16644560 CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
1 CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
16644597 CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
1 CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
16644634 GTTCCTAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (37 bp):
CTCTCATGGAGGTTAATTTTCCTATTTTTATAACACA
Found at i:16657599 original size:16 final size:15
Alignment explanation
Indices: 16657573--16657602 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16657563 TTTGTTGCTA
16657573 ATTTTACTTTTTCAT
1 ATTTTACTTTTTCAT
16657588 ATTTTCACTTTTTCA
1 ATTTT-ACTTTTTCA
16657603 CTTTCAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTTACTTTTTCAT
Found at i:16657888 original size:51 final size:51
Alignment explanation
Indices: 16657826--16658019 Score: 236
Period size: 51 Copynumber: 3.8 Consensus size: 51
16657816 GATACCGGTT
* *
16657826 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
* * *
16657877 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTGGTA
* * * *
16657928 CGCATAATAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTGGTA
*
16657978 -AAATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
16658020 TTCACTTTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
48 4 0.03
49 32 0.27
50 8 0.07
51 73 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTGGTA
Found at i:16658010 original size:100 final size:102
Alignment explanation
Indices: 16657828--16658011 Score: 293
Period size: 102 Copynumber: 1.8 Consensus size: 102
16657818 TACCGGTTCA
* * **
16657828 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGATACACGTAGTAGCCTGCA
1 CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACAAATAGTAGCCTGCA
16657893 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
*
16657930 CATAATAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA-AAATAGTAGCCTGC
1 CATAATAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCTGATACAAATAGTAGCCTGC
16657992 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
16658012 CCATCACTTT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
100 32 0.42
101 6 0.08
102 34 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAATAGCCTGCACATAGTACTACACATGCGACCATCACTATCTGATACAAATAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:16664958 original size:25 final size:25
Alignment explanation
Indices: 16664930--16664979 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16664920 CAGGTAAGGC
* * *
16664930 TCCTTCTCCTTTTTTCGTTCTTCAT
1 TCCTTCTCCTTCTTCCCTTCTTCAT
*
16664955 TCCTTTTCCTTCTTCCCTTCTTCAT
1 TCCTTCTCCTTCTTCCCTTCTTCAT
16664980 CTTCTCTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.04, C:0.36, G:0.02, T:0.58
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCCTTCTTCAT
Found at i:16667639 original size:14 final size:14
Alignment explanation
Indices: 16667602--16667632 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
16667592 CCAGAAAAGT
16667602 AAATCATTTTCCAG
1 AAATCATTTTCCAG
16667616 AAATCATTTTCCAG
1 AAATCATTTTCCAG
16667630 AAA
1 AAA
16667633 ATATTTTACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:16667777 original size:45 final size:45
Alignment explanation
Indices: 16667710--16667844 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 45
16667700 TATATATATG
* *
16667710 GCATCACGAATCAAACGAGTAAGACCATAGCTGAAAGACGCTATA
1 GCATCATGAATCAAACGAGTAAGACCATAGCTGAAAGACACTATA
* * * * *
16667755 GCATCATGATTCAAACGTGTAAGATCATAGTTGAAAGACACTATG
1 GCATCATGAATCAAACGAGTAAGACCATAGCTGAAAGACACTATA
* * ** * *
16667800 GCAACATGACGA-AAAATAAATAAGACCATAGTTGAAAGACACTAT
1 GCATCATGA--ATCAAACGAGTAAGACCATAGCTGAAAGACACTAT
16667845 GGCACCAGGT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
45 46 0.63
46 27 0.37
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.20
Consensus pattern (45 bp):
GCATCATGAATCAAACGAGTAAGACCATAGCTGAAAGACACTATA
Found at i:16667881 original size:45 final size:46
Alignment explanation
Indices: 16667774--16667883 Score: 123
Period size: 46 Copynumber: 2.4 Consensus size: 46
16667764 TTCAAACGTG
* * *
16667774 TAAGATCATAGTTGAAAGACACTATGGCAACATGACGAAAAATAAA
1 TAAGACCATAGCTGAAAGACACTATGGCAACAGGACGAAAAATAAA
* * * **
16667820 TAAGACCATAGTTGAAAGACACTATGGCACCAGGTCG-GGAATAAA
1 TAAGACCATAGCTGAAAGACACTATGGCAACAGGACGAAAAATAAA
* *
16667865 TAAGACCGTGGCTGAAAGA
1 TAAGACCATAGCTGAAAGA
16667884 TGCCATGGCA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
45 22 0.40
46 33 0.60
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (46 bp):
TAAGACCATAGCTGAAAGACACTATGGCAACAGGACGAAAAATAAA
Found at i:16673533 original size:54 final size:54
Alignment explanation
Indices: 16673461--16673568 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
16673451 TTAAAATACC
*
16673461 TCCTAACTCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTGCTCA
1 TCCTAACTCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTACTCA
16673515 TCCTAACTCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTACTCA
1 TCCTAACTCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTACTCA
16673569 AAGACTACAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (54 bp):
TCCTAACTCAGAAAGAACTTAATTTAAGGAAAAGGAGATGGATCAAGCTACTCA
Found at i:16675555 original size:23 final size:22
Alignment explanation
Indices: 16675529--16675573 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 22
16675519 CAGTAAAAAA
16675529 AAGGTATGTTAATTAATCCAAAG
1 AAGGTATGTTAATTAAT-CAAAG
16675552 AAGGTATGTTAATTAATCAAAG
1 AAGGTATGTTAATTAATCAAAG
16675574 GTCCAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.31
Consensus pattern (22 bp):
AAGGTATGTTAATTAATCAAAG
Found at i:16679166 original size:36 final size:33
Alignment explanation
Indices: 16679101--16679167 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
16679091 GTGAATGAAG
*
16679101 TGAGTGAAAAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
* *
16679134 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAAAAAG-AGAGAGAGCT-AAA-ACAAGG
16679168 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.48, C:0.09, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAAAAAGAGAGAGAGCTAAAACAAGGAA
Found at i:16686021 original size:11 final size:12
Alignment explanation
Indices: 16685997--16686024 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16685987 TGAGTTTAGT
16685997 AAAATATTTAAA
1 AAAATATTTAAA
16686009 AAAATATTTAAA
1 AAAATATTTAAA
16686021 AAAA
1 AAAA
16686025 GAGATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATATTTAAA
Found at i:16686434 original size:22 final size:22
Alignment explanation
Indices: 16686391--16686434 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16686381 AACAAAATAT
* **
16686391 AAAAAATAGAAATTATTTTGTA
1 AAAAAATAGAAAATATAGTGTA
*
16686413 AAAAAATATAAAATATAGTGTA
1 AAAAAATAGAAAATATAGTGTA
16686435 GTCTTTAATC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAAAATAGAAAATATAGTGTA
Found at i:16691893 original size:22 final size:22
Alignment explanation
Indices: 16691861--16691906 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
16691851 TTTTATTGAC
*
16691861 TTAGTGGAATTCAATAGCTCTA
1 TTAGTGCAATTCAATAGCTCTA
*
16691883 TTAGTGCAATTCAATGGCTCTA
1 TTAGTGCAATTCAATAGCTCTA
16691905 TT
1 TT
16691907 TTAGGTGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (22 bp):
TTAGTGCAATTCAATAGCTCTA
Found at i:16692405 original size:138 final size:137
Alignment explanation
Indices: 16692099--16692406 Score: 323
Period size: 138 Copynumber: 2.2 Consensus size: 137
16692089 ATTTTAACTG
* * * * * *
16692099 GGAACGTAGGTTCGCTAGCTATTTTTGAGGTTGCGATCTTAAACCAACAAACCTTTATGACATCA
1 GGAACGTAGGTCCACTAGCT-TTTTAGAGGTTACAATCTTAAACCAACAAACATTTATGACATCA
* * * * * *
16692164 GCTGGGAGTGTTGGTCCACTAGCTATATTAGAGGCTACGATCATAAACCGATAAGCCTTTAGAGT
65 GCTAGGAGCGTAGGTCCACTAGCTATATTAGAGGCGACAATCATAAACCGACAAGCCTTTAGAGT
*
16692229 ATCAGTTA
130 ATCAGCTA
* * * * **
16692237 GGAACATAAGTCCCCTAGTTGTTTTAGAGGTTACAATCTTAAATCGGA-AAACATTTATGACATC
1 GGAACGTAGGTCCACTAGCT-TTTTAGAGGTTACAATCTTAAA-CCAACAAACATTTATGACATC
* * * * * *
16692301 AGTTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAACC-AGCGAGCCTTTAGA
64 AGCTAGGAGCGTAGGTCCACTAGCTATATTAGAGGCGACAATCATAAACCGA-CAAGCCTTTAGA
16692365 GTATCAGCTA
128 GTATCAGCTA
*
16692375 GGAACGTAGGTCCACTAGCTTTGTTGGAGGTT
1 GGAACGTAGGTCCACTAGCTTT-TTAGAGGTT
16692407 GCGATCATAA
Statistics
Matches: 137, Mismatches: 30, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
137 3 0.02
138 132 0.96
139 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (137 bp):
GGAACGTAGGTCCACTAGCTTTTTAGAGGTTACAATCTTAAACCAACAAACATTTATGACATCAG
CTAGGAGCGTAGGTCCACTAGCTATATTAGAGGCGACAATCATAAACCGACAAGCCTTTAGAGTA
TCAGCTA
Found at i:16692414 original size:207 final size:207
Alignment explanation
Indices: 16692176--16692577 Score: 477
Period size: 207 Copynumber: 1.9 Consensus size: 207
16692166 TGGGAGTGTT
* *
16692176 GGTCCACTAGCTATATTAGAGGCTACGATCATAAACCGA-TAAGCCTTTAGAGTATCAGTTAGGA
1 GGTCCACTAGCTATATTAGAGGCTACGATCATAAA-CGAGCAAGCCTTTAGAGTATCAGCTAGGA
* * * *
16692240 ACATAAGTCCCCTAGTTGTTTTAGAGGTTACAATCTTAAATCGGA-AAACATTTATGACATCAGT
65 ACATAAGTCACCTAGCTATTTTAGAGGTTACAATCTTAAAT-GGATAAACATTTATGACATCAGC
16692304 TAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTA
129 TAGGAGCGTAGGTCCACTAG-TTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTA
16692368 TCAGCTAGGAACGTA
193 TCAGCTAGGAACGTA
* * * * * * * * *
16692383 GGTCCACTAGCTTTGTTGGAGGTTGCGATCATAAACTAGCGAGCCTTTAGAGTATTAGCTAGTAA
1 GGTCCACTAGCTATATTAGAGGCTACGATCATAAACGAGCAAGCCTTTAGAGTATCAGCTAGGAA
* * * * * * * * *
16692448 CGTAGGTTAGCTAGCTATTTTAGAGGTTACGATCTTAAATTGATGAACCTTTATGACATCAGCTG
66 CATAAGTCACCTAGCTATTTTAGAGGTTACAATCTTAAATGGATAAACATTTATGACATCAGCTA
** * * * **
16692513 GGAGCGTAGGTCTGCTAGTTGTGTTGGAGGCTGCGATCATAAACTATTGAGCCTTTAGAGTATCA
131 GGAGCGTAGGTCCACTAGTTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCA
16692578 TTTGGGAAGG
Statistics
Matches: 161, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
206 6 0.04
207 155 0.96
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (207 bp):
GGTCCACTAGCTATATTAGAGGCTACGATCATAAACGAGCAAGCCTTTAGAGTATCAGCTAGGAA
CATAAGTCACCTAGCTATTTTAGAGGTTACAATCTTAAATGGATAAACATTTATGACATCAGCTA
GGAGCGTAGGTCCACTAGTTGTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTAGAGTATCA
GCTAGGAACGTA
Found at i:16692584 original size:69 final size:69
Alignment explanation
Indices: 16692298--16692577 Score: 273
Period size: 69 Copynumber: 4.1 Consensus size: 69
16692288 CATTTATGAC
* * * *
16692298 ATCAGTTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAACCAGCGAGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
16692363 GAGT
66 GAGT
* *
16692367 ATCAGCTAGGAACGTAGGTCCACTAGCTTTGTTGGAGGTTGCGATCATAAACTAGCGAGCCTTTA
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
16692432 GAGT
66 GAGT
* * * * * * * * * * *
16692436 ATTAGCTAGTAACGTAGGT-TAGCTAGCTATT-TTAGAGGTTACGATCTTAAA-TTGATGAACCT
1 ATCAGCTAGGAGCGTAGGTCCA-CTAGCT-TTGTTGGAGGCTGCGATCATAAACTAG-CGAGCCT
*
16692498 TTATGA-C
63 TTA-GAGT
* ** **
16692505 ATCAGCTGGGAGCGTAGGTCTGCTAG-TTGTGTTGGAGGCTGCGATCATAAACTATTGAGCCTTT
1 ATCAGCTAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTT
16692569 AGAGT
65 AGAGT
16692574 ATCA
1 ATCA
16692578 TTTGGGAAGG
Statistics
Matches: 173, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
67 1 0.01
68 7 0.04
69 159 0.92
70 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (69 bp):
ATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCTGCGATCATAAACTAGCGAGCCTTTA
GAGT
Found at i:16692591 original size:138 final size:137
Alignment explanation
Indices: 16692345--16692751 Score: 403
Period size: 138 Copynumber: 2.9 Consensus size: 137
16692335 GCGGCAATCA
* * * * * *
16692345 TAAACCAGCGAGCCTTTA-GAGTATCAGCTAGGAACGTAGGTCCACTAGCTT-TGTTGGAGGTTG
1 TAAACCTGCGAACCTTTATGA-CATCAGCTGGGAACGTAGGTCCGCTAG-TTGTGTTGGAGGCTG
* * * **
16692408 CGATCATAAACTAGCGAGCCTTTAGAGTATTAGCTAGTAACGTAGGTTAGCTAGCTATTTTAGAG
64 CGATCATAAACTA-CGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAG
* *
16692473 GTTACGATCT
128 GTTACAACCT
* * * *
16692483 TAAA-TTGATGAACCTTTATGACATCAGCTGGGAGCGTAGGTCTGCTAGTTGTGTTGGAGGCTGC
1 TAAACCTG-CGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGC
* ** * * *
16692547 GATCATAAACTATTGAGCCTTTAGAGTATCATTTGGGAAGGTAGGTCCGTTAGCTGA-TTTGGAG
65 GATCATAAACTA-CGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCT-ATTTTAGAG
*
16692611 GTGACAACCT
128 GTTACAACCT
* * * *
16692621 TAAACCTGCGAACCTTTATGACACCAGCTGGAAACATAGGTCCGCTAGCTGTGTTGGAGGCTGC-
1 TAAACCTGCGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGCG
* * * *
16692685 AGTCATAAATCGACAAGCCTTTAGAGTGA-CAGCTGGGAATGTAAGTCCGCTAGCTATTTTAGAG
66 A-TCATAAA-CTACGAGCCTTTAGAGT-ATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAG
16692749 GTT
128 GTT
16692752 GAGATATTAA
Statistics
Matches: 217, Mismatches: 43, Indels: 18
0.78 0.15 0.06
Matches are distributed among these distances:
137 5 0.02
138 204 0.94
139 8 0.04
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (137 bp):
TAAACCTGCGAACCTTTATGACATCAGCTGGGAACGTAGGTCCGCTAGTTGTGTTGGAGGCTGCG
ATCATAAACTACGAGCCTTTAGAGTATCAGCTGGGAACGTAGGTCCGCTAGCTATTTTAGAGGTT
ACAACCT
Found at i:16692670 original size:207 final size:207
Alignment explanation
Indices: 16692219--16692670 Score: 448
Period size: 207 Copynumber: 2.2 Consensus size: 207
16692209 AACCGATAAG
* * * * * * * *
16692219 CCTTTAGAGTATCAGTTAGGAACATAAGTCCCCTAGTTGTTTTAGAGGTTACAATCTTAAATCGG
1 CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACAATCTTAAATCGG
*
16692284 AAAACATTTATGACATCAGTTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
66 AAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
* * *
16692349 CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTTTGTTGGAGGTTGCGATCA
131 CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTATGTTGGAGGTTGCAACCA
*
16692414 TAAACTAGCGAG
196 TAAACTAGCGAA
* ** * * ** * *
16692426 CCTTTAGAGTATTAGCTAGTAACGTAGGTTAGCTAGCTATTTTAGAGGTTACGATCTTAAAT-TG
1 CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACAATCTTAAATCGG
* * * ** * *
16692490 ATGAACCTTTATGACATCAGCTGGGAGCGTAGGTCTGCTAG-TTGTGTTGGAGGCTGCGATCATA
66 A-AAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTT-TGTTGGAGGCGGCAATCATA
* ** ** * * **
16692554 AACTATTGAGCCTTTAGAGTATCATTTGGGAAGGTAGGTCCGTTAGCTGAT-TTGGAGG-TGACA
129 AACCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCT-ATGTTGGAGGTTG-CA
*
16692617 ACCTTAAACCT-GCGAA
192 ACCATAAA-CTAGCGAA
*
16692633 CCTTTATGA-CACCAGCTGGAAACATAGGTCCGCTAGCT
1 CCTTTA-GAGCACCAGCTAGAAACATAGGTCCGCTAGCT
16692671 GTGTTGGAGG
Statistics
Matches: 197, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
206 6 0.03
207 186 0.94
208 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (207 bp):
CCTTTAGAGCACCAGCTAGAAACATAGGTCCGCTAGCTATTTTAGAGGTTACAATCTTAAATCGG
AAAACATTTATGACATCAGCTAGGAGCGTAGGTCCACTAGCTTTGTTGGAGGCGGCAATCATAAA
CCAGCGAGCCTTTAGAGTATCAGCTAGGAACGTAGGTCCACTAGCTATGTTGGAGGTTGCAACCA
TAAACTAGCGAA
Found at i:16695064 original size:10 final size:10
Alignment explanation
Indices: 16695051--16695086 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
16695041 AAAGCTAAAT
16695051 TGAGCTCAAA
1 TGAGCTCAAA
* *
16695061 TGAGCTGAAT
1 TGAGCTCAAA
16695071 TGAGCTCAAA
1 TGAGCTCAAA
16695081 TGAGCT
1 TGAGCT
16695087 GATTGGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:16695096 original size:20 final size:20
Alignment explanation
Indices: 16695043--16695088 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16695033 GCTGAAAGAA
*
16695043 AGCTAAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
16695063 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAATG
16695083 AGCTGA
1 AGCTGA
16695089 TTGGAGCTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAATG
Found at i:16697239 original size:18 final size:18
Alignment explanation
Indices: 16697218--16697252 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16697208 TTTTTCTTTT
16697218 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
16697236 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
16697253 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:16697303 original size:18 final size:18
Alignment explanation
Indices: 16697282--16697325 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
16697272 TTTTCTCTCA
*
16697282 CTTTTTCGATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
16697300 CTTTTGCAATTTCTTTTT
1 CTTTTTCAATTTCTTTTT
*
16697318 CTCTTTCA
1 CTTTTTCA
16697326 CATGCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.05, T:0.66
Consensus pattern (18 bp):
CTTTTTCAATTTCTTTTT
Found at i:16699702 original size:20 final size:20
Alignment explanation
Indices: 16699674--16699719 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
16699664 GCTGAAAGAA
* * * *
16699674 AGCTAAATTGAGCTCGAATG
1 AGCTGAATTAAGCTCAAACG
16699694 AGCTGAATTAAGCTCAAACG
1 AGCTGAATTAAGCTCAAACG
16699714 AGCTGA
1 AGCTGA
16699720 TTGGAGTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (20 bp):
AGCTGAATTAAGCTCAAACG
Found at i:16701690 original size:8 final size:8
Alignment explanation
Indices: 16701677--16701710 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
16701667 AAAGAAAAGT
16701677 GAAAGTGA
1 GAAAGTGA
16701685 GAAAGTGA
1 GAAAGTGA
16701693 GAAAGTGA
1 GAAAGTGA
*
16701701 GAAAGAGA
1 GAAAGTGA
16701709 GA
1 GA
16701711 TGTGTGTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.38, T:0.09
Consensus pattern (8 bp):
GAAAGTGA
Found at i:16716225 original size:42 final size:41
Alignment explanation
Indices: 16716151--16716387 Score: 210
Period size: 42 Copynumber: 5.6 Consensus size: 41
16716141 ACCGGAAAAC
** *
16716151 ATTGAATAAAAAGGGGTTGCTAAGTGCTGATTCCCCGAATT
1 ATTGAATTTAAAGGGGTTGCTAAGTGCTGATTCCCCGTATT
* * *
16716192 ATTGACTTTAAAGGTGGTCGCTAAGTGCCGATTCCACCGTATCT
1 ATTGAATTTAAAGG-GGTTGCTAAGTGCTGATTCC-CCGTAT-T
*
16716236 -TT-AATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATT
1 ATTGAATT-T-AAAGGGGTTGCTAAGTGCTGATTCCCCGTATT
* * *
16716277 ACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 ATTGAATTTAAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATT
* * * * * *
16716320 CTTGACTATGAAAGGGGTTGCTATGTGCTGATTCTCCGTATC
1 ATTGAAT-TTAAAGGGGTTGCTAAGTGCTGATTCCCCGTATT
* *
16716362 ACTAAATTT-AAGGTGGTTGCTAAGTG
1 ATTGAATTTAAAGG-GGTTGCTAAGTG
16716388 TTGAATCCAC
Statistics
Matches: 158, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
40 4 0.03
41 29 0.18
42 58 0.37
43 56 0.35
44 11 0.07
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
ATTGAATTTAAAGGGGTTGCTAAGTGCTGATTCCCCGTATT
Found at i:16716303 original size:85 final size:84
Alignment explanation
Indices: 16716160--16716387 Score: 312
Period size: 85 Copynumber: 2.7 Consensus size: 84
16716150 CATTGAATAA
* * * * *
16716160 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGACTTTAAAGGTGGTCGCTAAGTGCCGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGA-ATTAAAGGTGGTTGCTAAGTGCCGATT
* * *
16716225 CCACCGTATCTTTAATTGTG
65 CCACCGTATCCTTAACTATG
*
16716245 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATATAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAAT-TAAAGGTGGTTGCTAAGTGCCGATT
*
16716310 CCACCGTATCCTTGACTATG
65 CCACCGTATCCTTAACTATG
* * * *
16716330 AAAGGGGTTGCTATGTGCTGATTCTCCGTATCACTAAATTTAAGGTGGTTGCTAAGTG
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTG
16716388 TTGAATCCAC
Statistics
Matches: 128, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
84 19 0.15
85 109 0.85
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTAAAGGTGGTTGCTAAGTGCCGATTC
CACCGTATCCTTAACTATG
Found at i:16723656 original size:24 final size:24
Alignment explanation
Indices: 16723627--16723674 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16723617 GTACAGTTTA
*
16723627 TCTATAGTAGTCTC-AGTATATACT
1 TCTATAGCAGTCTCAAG-ATATACT
*
16723651 TCTATAGCAGTTTCAAGATATACT
1 TCTATAGCAGTCTCAAGATATACT
16723675 ATCAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (24 bp):
TCTATAGCAGTCTCAAGATATACT
Found at i:16725039 original size:18 final size:17
Alignment explanation
Indices: 16725016--16725049 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16725006 CATATTGTCG
16725016 GCCTGTATGGGCCCACAT
1 GCCTGTAT-GGCCCACAT
*
16725034 GCCTGTGTGGCCCACA
1 GCCTGTATGGCCCACA
16725050 CGGCCCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.35, G:0.29, T:0.21
Consensus pattern (17 bp):
GCCTGTATGGCCCACAT
Found at i:16726314 original size:51 final size:49
Alignment explanation
Indices: 16726190--16726372 Score: 206
Period size: 51 Copynumber: 3.6 Consensus size: 49
16726180 AAAGTGATAG
* *
16726190 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGGATG-ATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGTAT-GA
* * * * * *
16726240 TCGCATGTGTAGTACTATCTGCAGGCTATTATGCGTACCGGATAGTTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GTAT-GA
* * *
16726291 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GT-ATGA
16726342 TCACATGTGTAGTACTATGTGCAGGCTACTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTA
16726373 TGTGAACCAA
Statistics
Matches: 110, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
49 4 0.04
50 34 0.31
51 71 0.65
52 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGTATGA
Found at i:16726317 original size:101 final size:102
Alignment explanation
Indices: 16726190--16726374 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
16726180 AAAGTGATAG
* *
16726190 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGGATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGATAATGCTCACATGTGTAGT
*
16726253 ACTATCTGCAGGCTATTATGCGTACCGGATAGTTTCGA
65 ACTATCTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* *
16726291 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGCTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGCTCACATGTGTAGTA
*
16726356 CTATGTGCAGGCTACTATG
66 CTATCTGCAGGCTACTATG
16726375 TGAACCAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 6 0.08
101 39 0.51
102 31 0.41
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGCTCACATGTGTAGTA
CTATCTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:16726376 original size:26 final size:26
Alignment explanation
Indices: 16726296--16726376 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
16726286 TTCGATCACG
16726296 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * * *
16726322 CGTGTA-T-CGGATG-GTAATGCTCAC-A
1 TGTGTAGTAC-TATGTG-CAGGCT-ACTA
16726347 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
16726373 TGTG
1 TGTG
16726377 AACCAAACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.05
25 16 0.40
26 20 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:16732715 original size:35 final size:35
Alignment explanation
Indices: 16732616--16732723 Score: 110
Period size: 35 Copynumber: 3.1 Consensus size: 35
16732606 ATAACCAACC
* * * *
16732616 AGTGCAAGGCACAATTATTATCAGTTTATCCGACC
1 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
* * ** *
16732651 AGTGCTGGGTGTA-AAGCATTGTCGATTTATCCGACT
1 AGTGC-AGG-GCACAATTATTGTCGGTTTATCCGACT
16732687 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
1 AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
16732722 AG
1 AG
16732724 CACTGGGCGC
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
34 2 0.04
35 29 0.52
36 23 0.41
37 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (35 bp):
AGTGCAGGGCACAATTATTGTCGGTTTATCCGACT
Found at i:16732751 original size:71 final size:71
Alignment explanation
Indices: 16732615--16732802 Score: 182
Period size: 71 Copynumber: 2.6 Consensus size: 71
16732605 TATAACCAAC
* * * * * * * * **
16732615 CAGTGCAAGGCACAATTATTATCAGTTTATCCGACCAGTGCTGGGTGTAAAGCATTGTCGATTTA
1 CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAACGTCGATTTA
16732680 TCCGA-
66 TCCGAT
*
16732685 CTAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCACTGGGCGCAAAACAACGTC-AGTT
1 C-AGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAACGTCGA-TT
16732749 TATCCGAT
64 TATCCGAT
* * ** * * *
16732757 CACTGCTGGGCACAACAATTGTCGATTTATTCAACTAGCGCTGGGC
1 CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGC
16732803 ATAAAAATTT
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
70 2 0.02
71 93 0.97
72 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (71 bp):
CAGTGCAGGGCACAATTATTGTCGGTTTATCCGACTAGCGCTGGGCGCAAAACAACGTCGATTTA
TCCGAT
Found at i:16737398 original size:15 final size:16
Alignment explanation
Indices: 16737369--16737398 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16737359 GATAGTTTTG
16737369 TAAAATGTAGAATTAA
1 TAAAATGTAGAATTAA
16737385 TAAAATGT-GAATTA
1 TAAAATGTAGAATTA
16737399 TTCTTATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAAATGTAGAATTAA
Found at i:16742510 original size:164 final size:164
Alignment explanation
Indices: 16742239--16742571 Score: 576
Period size: 164 Copynumber: 2.0 Consensus size: 164
16742229 ATATCAAACC
* * *
16742239 AAGAATTAAGCACACATAATTGATAACAAGATCTAAGCATTTATTGGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
* *
16742304 GACAAAATTCATTATAGGGTTCATCTCCCTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
66 GACAAAATTCATCATAAGGTTCATCTCCCTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
16742369 AAACATCCAATATACAGTATAATCGAAAGAAATA
131 AAACATCCAATATACAGTATAATCGAAAGAAATA
* *
16742403 AAGAATTAAGCACACATAATCGAGACCAAGATCTAAGTATTTATTAGGTAAAATAAAAATCAAAC
1 AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
* * *
16742468 GACAGAGTTCATCATAAGGTTCATCTCCTTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
66 GACAAAATTCATCATAAGGTTCATCTCCCTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
16742533 AAACATCCAATATACAGTATAATCGAAAGAAATA
131 AAACATCCAATATACAGTATAATCGAAAGAAATA
16742567 AAGAA
1 AAGAA
16742572 ACTCATCATA
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
164 159 1.00
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (164 bp):
AAGAATTAAGCACACATAATCGAGAACAAGATCTAAGCATTTATTAGGTAAAATAAAAATCAAAC
GACAAAATTCATCATAAGGTTCATCTCCCTAGGTATTTAGAAAATTAGTTCATGCTTAAAAATAA
AAACATCCAATATACAGTATAATCGAAAGAAATA
Found at i:16759391 original size:42 final size:42
Alignment explanation
Indices: 16759320--16759404 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
16759310 AAATTGTTGG
*
16759320 ATATATATATGTATGCATTCGACATATGTGAATT-ATAAGTAT
1 ATATATATATGTATGCATTCGACACATGTG-ATTGATAAGTAT
* * ** *
16759362 ATATATATGTGTGTGCATTCGGTACATGTGGTTGATAAGTAT
1 ATATATATATGTATGCATTCGACACATGTGATTGATAAGTAT
16759404 A
1 A
16759405 ATTATTTGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.06
42 34 0.94
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (42 bp):
ATATATATATGTATGCATTCGACACATGTGATTGATAAGTAT
Found at i:16771359 original size:16 final size:17
Alignment explanation
Indices: 16771326--16771360 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
16771316 TAATAACATG
16771326 TCACATATCATCATCTCA
1 TCACATATCA-CATCTCA
16771344 TCACATATCA-ATCTCA
1 TCACATATCACATCTCA
16771360 T
1 T
16771361 ACAATGCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (17 bp):
TCACATATCACATCTCA
Found at i:16784053 original size:27 final size:27
Alignment explanation
Indices: 16784009--16784076 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
16783999 TAAAAGAAGG
**
16784009 CCTTTGTGGCGCAA-TATGAAATGAACA
1 CCTTTGTGGCG-AATTATGAAAAAAACA
**
16784036 CCTTTGTGGCGAATTATGAAAAAAATG
1 CCTTTGTGGCGAATTATGAAAAAAACA
16784063 CCTTTGTGGCGAAT
1 CCTTTGTGGCGAAT
16784077 CAAGAAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCGAATTATGAAAAAAACA
Found at i:16784083 original size:27 final size:27
Alignment explanation
Indices: 16784036--16784088 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
16784026 GAAATGAACA
* *
16784036 CCTTTGTGGCGAATTATGAAAAAAATG
1 CCTTTGTGGCGAATCAAGAAAAAAATG
*
16784063 CCTTTGTGGCGAATCAAGAAAGAAAT
1 CCTTTGTGGCGAATCAAGAAAAAAAT
16784089 TTCATTGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (27 bp):
CCTTTGTGGCGAATCAAGAAAAAAATG
Found at i:16784096 original size:27 final size:27
Alignment explanation
Indices: 16784039--16784100 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
16784029 ATGAACACCT
* * *
16784039 TTGTGGCGAATTATGAAAAAAATGCCT
1 TTGTGGCGAATCAAGAAAAAAATGCCA
* **
16784066 TTGTGGCGAATCAAGAAAGAAATTTCA
1 TTGTGGCGAATCAAGAAAAAAATGCCA
16784093 TTGTGGCG
1 TTGTGGCG
16784101 GATTATGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (27 bp):
TTGTGGCGAATCAAGAAAAAAATGCCA
Found at i:16784980 original size:36 final size:35
Alignment explanation
Indices: 16784919--16785027 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 35
16784909 TGAATGCATT
* * *
16784919 TATATATATAATTATTCAAATACATGTGCCAAAAGCA
1 TATAT-TATACTTA-TCAATTACATGTGCCAAATGCA
*
16784956 TATATTTATACTTATCAATTACATGTGCCGAATGCA
1 TATA-TTATACTTATCAATTACATGTGCCAAATGCA
* * *
16784992 CATA-TATACTTAT-AATCCACATATGCCAAATGCA
1 TATATTATACTTATCAAT-TACATGTGCCAAATGCA
16785026 TA
1 TA
16785028 CATATATATA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
33 3 0.05
34 24 0.39
36 22 0.36
37 11 0.18
38 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.34
Consensus pattern (35 bp):
TATATTATACTTATCAATTACATGTGCCAAATGCA
Found at i:16785252 original size:41 final size:41
Alignment explanation
Indices: 16785207--16785311 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 41
16785197 TAAAATAGAT
* **
16785207 TCACCGGCACTTAGCCTGTTAGGCTTA-AAGCCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAA-CCTAATTCAGA
16785248 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
* *
16785289 TCACCAGCACTTAGCCTACTAGG
1 TCACCGGCACTTAGCCTGCTAGG
16785312 TTTTAAAACT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 56 0.97
42 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGA
Found at i:16786176 original size:78 final size:78
Alignment explanation
Indices: 16786059--16786336 Score: 470
Period size: 78 Copynumber: 3.6 Consensus size: 78
16786049 ACATTCAACA
*
16786059 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16786123 AACATACATACTT
66 AACATACATACTT
16786136 TTAACTAAATTCAAGAA-TTCATTCATGTATATACATATATATCCGAACTTTATATATATAAATA
1 TTAACTAAATTCAAGAACTT-ATTCATGTATATACATATATATCCGAACTTTATATATATAAATA
*
16786200 TAACATACATACTG
65 TAACATACATACTT
* * *
16786214 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATTCGAGCTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16786279 AACATACATACTT
66 AACATACATACTT
*
16786292 TTAACTAAATTCAAGAACTTATACATGTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16786337 ACTATTAGTT
Statistics
Matches: 189, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
77 16 0.08
78 167 0.88
79 6 0.03
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.38
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16792061 original size:78 final size:78
Alignment explanation
Indices: 16791944--16792221 Score: 477
Period size: 78 Copynumber: 3.6 Consensus size: 78
16791934 ACATTCAACA
*
16791944 TTAACTAAATTCAA-AACTTATTCATGTATATACACATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16792008 AACATACATACTT
66 AACATACATACTT
*
16792021 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16792086 AACATACATACTT
66 AACATACATACTT
* **
16792099 TTAACTAAATTCAAGAATTTATTCATGTATATACATATATATTTGAACTTTATATATATAAATAT
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
16792164 AACATACATACTT
66 AACATACATACTT
* *
16792177 TTAACTAAATTCAAGAACTTATACATTTATATACATATATTATCC
1 TTAACTAAATTCAAGAACTTATTCATGTATATACATATA-TATCC
16792222 ACTATTAGTT
Statistics
Matches: 190, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
77 14 0.07
78 173 0.91
79 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (78 bp):
TTAACTAAATTCAAGAACTTATTCATGTATATACATATATATCCGAACTTTATATATATAAATAT
AACATACATACTT
Found at i:16793386 original size:37 final size:37
Alignment explanation
Indices: 16793344--16793418 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
16793334 CAATAAAATT
16793344 AATTTATGAAACTTTCACACATGTAAATTAACACATA
1 AATTTATGAAACTTTCACACATGTAAATTAACACATA
16793381 AATTTATGAAACTTTCACACATGTAAATTAACACATA
1 AATTTATGAAACTTTCACACATGTAAATTAACACATA
16793418 A
1 A
16793419 TAAATACAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (37 bp):
AATTTATGAAACTTTCACACATGTAAATTAACACATA
Found at i:16794587 original size:7 final size:7
Alignment explanation
Indices: 16794575--16794599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16794565 TTCAAGTATT
16794575 ATTTTCA
1 ATTTTCA
16794582 ATTTTCA
1 ATTTTCA
16794589 ATTTTCA
1 ATTTTCA
16794596 ATTT
1 ATTT
16794600 GTATGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTTCA
Found at i:16806842 original size:12 final size:12
Alignment explanation
Indices: 16806825--16806867 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
16806815 AAAAACAAAA
16806825 TATATATATGTG
1 TATATATATGTG
16806837 TATATATAT-T-
1 TATATATATGTG
16806847 TATATATATGTG
1 TATATATATGTG
16806859 TATATATAT
1 TATATATAT
16806868 TTAAGCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.31
11 2 0.07
12 18 0.62
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (12 bp):
TATATATATGTG
Found at i:16806853 original size:22 final size:22
Alignment explanation
Indices: 16806825--16806870 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
16806815 AAAAACAAAA
16806825 TATATATATGTGTATATATATT
1 TATATATATGTGTATATATATT
16806847 TATATATATGTGTATATATATT
1 TATATATATGTGTATATATATT
16806869 TA
1 TA
16806871 AGCAAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (22 bp):
TATATATATGTGTATATATATT
Found at i:16806936 original size:41 final size:41
Alignment explanation
Indices: 16806891--16806971 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
16806881 AAAAAAAGGT
*
16806891 ATACAGATGTATAT-AGATATGTATATAAAT-TATAAAATATA
1 ATACAAATGTATATAAG-TATGTATATAAATAT-TAAAATATA
*
16806932 ATACAAATGTATATAAGTATGTATATATATATTAAAATAT
1 ATACAAATGTATATAAGTATGTATATAAATATTAAAATAT
16806972 GTATATGTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
41 33 0.92
42 3 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (41 bp):
ATACAAATGTATATAAGTATGTATATAAATATTAAAATATA
Found at i:16812073 original size:23 final size:24
Alignment explanation
Indices: 16812043--16812094 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
16812033 ACTCGAACCC
* *
16812043 TAAAATT-AATCAAGGGCTGATAT
1 TAAAATTAAATCAAAGGATGATAT
16812066 TAAAATTAAATCAAAGGATGATAT
1 TAAAATTAAATCAAAGGATGATAT
*
16812090 AAAAA
1 TAAAA
16812095 CATTTATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.27
Consensus pattern (24 bp):
TAAAATTAAATCAAAGGATGATAT
Found at i:16812553 original size:14 final size:14
Alignment explanation
Indices: 16812534--16812563 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16812524 GATGTGTTTA
*
16812534 AAACTAAATTTACT
1 AAACTAAATTAACT
16812548 AAACTAAATTAACT
1 AAACTAAATTAACT
16812562 AA
1 AA
16812564 GAACTCAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (14 bp):
AAACTAAATTAACT
Found at i:16813447 original size:30 final size:32
Alignment explanation
Indices: 16813386--16813449 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
16813376 CACGAGTTGG
* *
16813386 CACATGGGCGTGTGTGTCCAACCCGTGTGGCT
1 CACATGGGCGTGTATGTCCAACCCGTATGGCT
* *
16813418 CACAT-GG-GTGTATGTCCAGCCTGTATGGCT
1 CACATGGGCGTGTATGTCCAACCCGTATGGCT
16813448 CA
1 CA
16813450 TGAAATCTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 21 0.75
31 2 0.07
32 5 0.18
ACGTcount: A:0.16, C:0.27, G:0.31, T:0.27
Consensus pattern (32 bp):
CACATGGGCGTGTATGTCCAACCCGTATGGCT
Found at i:16816396 original size:21 final size:21
Alignment explanation
Indices: 16816372--16816415 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
16816362 AATATTAATA
*
16816372 CTCATTCATCAATCTTAAATT
1 CTCAATCATCAATCTTAAATT
* * *
16816393 CTCAATCCTCAATTTTCAATT
1 CTCAATCATCAATCTTAAATT
16816414 CT
1 CT
16816416 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (21 bp):
CTCAATCATCAATCTTAAATT
Found at i:16816399 original size:14 final size:14
Alignment explanation
Indices: 16816375--16816440 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
16816365 ATTAATACTC
*
16816375 ATTCATCAATCTTAA
1 ATTC-TCAATCTTCA
*
16816390 ATTCTCAATCCTCA
1 ATTCTCAATCTTCA
*
16816404 ATTTTCAATTCTT-A
1 ATTCTCAA-TCTTCA
* * *
16816418 ATTTTTAATTTTCA
1 ATTCTCAATCTTCA
16816432 ATTCTCAAT
1 ATTCTCAAT
16816441 TATTTTTTGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 3 0.07
14 31 0.76
15 7 0.17
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTCTCAATCTTCA
Found at i:16818484 original size:6 final size:6
Alignment explanation
Indices: 16818473--16818501 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16818463 AGGTTTCCAA
16818473 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
16818502 ATCCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:16818911 original size:23 final size:23
Alignment explanation
Indices: 16818885--16818928 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
16818875 GTAATTGTAA
16818885 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
16818908 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
16818929 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:16818931 original size:21 final size:22
Alignment explanation
Indices: 16818885--16818934 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
16818875 GTAATTGTAA
16818885 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATA-GT
* *
16818908 ATACATTTGTAATTAATATA-T
1 ATACATGTGTAATAAATATAGT
16818929 ATACAT
1 ATACAT
16818935 ACTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.28
23 18 0.72
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (22 bp):
ATACATGTGTAATAAATATAGT
Found at i:16819020 original size:18 final size:18
Alignment explanation
Indices: 16818987--16819025 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
16818977 TTAATTAAGC
16818987 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
16819006 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
16819023 AAA
1 AAA
16819026 GATAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:16820236 original size:22 final size:20
Alignment explanation
Indices: 16820211--16820270 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
16820201 GCTCTGCCGA
16820211 TCAGGCACTTATGTGTCATATT
1 TCAGGCACTTATGTGTC--ATT
**
16820233 TCAGGCACCTCGTGTGTCATT
1 TCAGGCA-CTTATGTGTCATT
16820254 TCAGGCACTTATGTGTC
1 TCAGGCACTTATGTGTC
16820271 GTATACTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 8 0.24
21 10 0.30
22 7 0.21
23 8 0.24
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCATT
Found at i:16823130 original size:34 final size:35
Alignment explanation
Indices: 16823086--16823152 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
16823076 CAGTAAAATA
*
16823086 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
16823120 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
16823153 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:16828388 original size:17 final size:17
Alignment explanation
Indices: 16828352--16828389 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
16828342 ATTATTTTAA
*
16828352 TAATTTAATATTAAATT
1 TAATTTAATATTAAACT
16828369 TAATTTAATACTT-AACT
1 TAATTTAATA-TTAAACT
16828386 TAAT
1 TAAT
16828390 AGTGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTTAATATTAAACT
Found at i:16840227 original size:36 final size:36
Alignment explanation
Indices: 16840187--16840255 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
16840177 GAATTCTTTC
16840187 TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
1 TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
* * * *
16840223 TTCTTGATTTTCCAGCTTCTGTCCAGCAACCAA
1 TTCTTAATTTTCCAACTCCTATCCAGCAACCAA
16840256 GCACTTAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.28, C:0.32, G:0.07, T:0.33
Consensus pattern (36 bp):
TTCTTAATTTTCCAACTCCTATCCAGCAACCAAACA
Found at i:16842831 original size:11 final size:11
Alignment explanation
Indices: 16842817--16842892 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
16842807 GATAATCACT
16842817 TTAATATTAAA
1 TTAATATTAAA
16842828 TTAATA--AAA
1 TTAATATTAAA
*
16842837 -TACTATTAAGA
1 TTAATATTAA-A
*
16842848 TAAATATTAAA
1 TTAATATTAAA
16842859 TTAA-ATTTAATA
1 TTAATA-TTAA-A
16842871 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
16842884 ATAATATTA
1 TTAATATTA
16842893 TTTTTAGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:16842870 original size:17 final size:17
Alignment explanation
Indices: 16842785--16842878 Score: 63
Period size: 17 Copynumber: 5.5 Consensus size: 17
16842775 GTAGATAAAC
*
16842785 ATTACATTAAATTTAAT
1 ATTAAATTAAATTTAAT
16842802 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAA--A-TTTAAT
**
16842822 ATTAAATT-AATAAAAT
1 ATTAAATTAAATTTAAT
* *
16842838 ACT--ATTAAGA-TAAAT
1 ATTAAATTAA-ATTTAAT
16842853 ATTAAATTAAATTTAAT
1 ATTAAATTAAATTTAAT
16842870 ATTAAATTA
1 ATTAAATTA
16842879 TTAAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 8 0.13
17 26 0.43
18 1 0.02
19 3 0.05
20 12 0.20
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTAAATTAAATTTAAT
Found at i:16847902 original size:9 final size:10
Alignment explanation
Indices: 16847877--16847906 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
16847867 AGAAATATTT
16847877 TTAAAAAATA
1 TTAAAAAATA
16847887 TTAAAAAATA
1 TTAAAAAATA
16847897 TTAAAAAATA
1 TTAAAAAATA
16847907 AAGAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:16847915 original size:38 final size:38
Alignment explanation
Indices: 16847843--16847916 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
16847833 TTAAATCAAT
* *
16847843 AAAATATAAAAAAATATTAAATAGAGAAATATTTTTAA
1 AAAATATAAAAAAATATTAAATAAAGAAAAATTTTTAA
* *
16847881 AAAATATTAAAAAATATTAAA-AAATAAAGAATTTTT
1 AAAATATAAAAAAATATTAAATAAAGAAA-AATTTTT
16847917 TTAAAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 5 0.16
38 26 0.84
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (38 bp):
AAAATATAAAAAAATATTAAATAAAGAAAAATTTTTAA
Found at i:16853393 original size:124 final size:124
Alignment explanation
Indices: 16853210--16853478 Score: 421
Period size: 124 Copynumber: 2.2 Consensus size: 124
16853200 CGACGCTAGC
* *
16853210 GCTTACCTTTTGCGGCGTTTTCAGCAAAAATGCCACTAAAAAATTAAATTCCTGTACTGAAACGG
1 GCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAAAAATTAAATTCCTGCACTGAAACGG
* * * * * *
16853275 TGCCATTTTGAAAAATTTTAACACATAGTTGCGGCGTTTTTGGTCCAAACGCCACTATT
66 CGCCATGTTGAAAAATGTTAACACATAGTTGCGACGTTTATAGTCCAAACGCCACTATT
* * *
16853334 TCTTACCTTTTGTGGCGTTTTCACCAAAAATGCCACTAAAAAATTAAATTCTTGCACTGAAACGG
1 GCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAAAAATTAAATTCCTGCACTGAAACGG
* *
16853399 CGCCATGTTGAAAAATGTTAATACATATTTGCGACGTTTATAGTCCAAACGCCACTATT
66 CGCCATGTTGAAAAATGTTAACACATAGTTGCGACGTTTATAGTCCAAACGCCACTATT
16853458 GCTTACCTTTTGCGGCGTTTT
1 GCTTACCTTTTGCGGCGTTTT
16853479 TCTCATAAAC
Statistics
Matches: 130, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 130 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (124 bp):
GCTTACCTTTTGCGGCGTTTTCACCAAAAATGCCACTAAAAAATTAAATTCCTGCACTGAAACGG
CGCCATGTTGAAAAATGTTAACACATAGTTGCGACGTTTATAGTCCAAACGCCACTATT
Found at i:16853591 original size:6 final size:6
Alignment explanation
Indices: 16853580--16853605 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16853570 AAGATTTTAA
16853580 AATTTT AATTTT AATTTT AATTTT AA
1 AATTTT AATTTT AATTTT AATTTT AA
16853606 AAATGGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
AATTTT
Found at i:16854396 original size:14 final size:14
Alignment explanation
Indices: 16854377--16854504 Score: 55
Period size: 14 Copynumber: 8.8 Consensus size: 14
16854367 CCTGAGCCCT
16854377 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
16854391 TAAACCCATAACCTTAAAA
1 TAAACCC-TAAAC-T---A
* *
16854410 TTACACCCTAAACTG
1 -TAAACCCTAAACTA
* *
16854425 TAAACACTAAACTC
1 TAAACCCTAAACTA
* *
16854439 TTAACACTAAA-TGA
1 TAAACCCTAAACT-A
*
16854453 TAAACACTAAAC-A
1 TAAACCCTAAACTA
*
16854466 TTAAACCCTAAACCA
1 -TAAACCCTAAACTA
* **
16854481 TAAA-CCTATACCC
1 TAAACCCTAAACTA
16854494 TAAACCCTAAA
1 TAAACCCTAAA
16854505 AATATATATT
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
13 13 0.15
14 58 0.65
15 5 0.06
16 1 0.01
18 1 0.01
19 5 0.06
20 6 0.07
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:16854510 original size:20 final size:20
Alignment explanation
Indices: 16854470--16854510 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16854460 TAAACATTAA
**
16854470 ACCCTAAACCATAAACCTAT
1 ACCCTAAACCATAAAAATAT
*
16854490 ACCCTAAACCCTAAAAATAT
1 ACCCTAAACCATAAAAATAT
16854510 A
1 A
16854511 TATTACAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.20
Consensus pattern (20 bp):
ACCCTAAACCATAAAAATAT
Found at i:16854562 original size:7 final size:7
Alignment explanation
Indices: 16854552--16854618 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
16854542 ATCTTAAATA
16854552 CTAAACT
1 CTAAACT
16854559 CTAAACT
1 CTAAACT
16854566 CTAAA-T
1 CTAAACT
* *
16854572 CCCAAACC
1 -CTAAACT
*
16854580 CCAAACT
1 CTAAACT
16854587 CTAAAC-
1 CTAAACT
16854593 CATAAAC-
1 C-TAAACT
16854600 CATAAACT
1 C-TAAACT
*
16854608 CAAAACT
1 CTAAACT
16854615 CTAA
1 CTAA
16854619 TTCAAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 2 0.04
7 47 0.94
8 1 0.02
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (7 bp):
CTAAACT
Found at i:16854570 original size:21 final size:21
Alignment explanation
Indices: 16854546--16854591 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16854536 AAAAGAATCT
* * *
16854546 TAAATACTAAACTCTAAACTC
1 TAAATACCAAACCCCAAACTC
*
16854567 TAAATCCCAAACCCCAAACTC
1 TAAATACCAAACCCCAAACTC
16854588 TAAA
1 TAAA
16854592 CCATAAACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAATACCAAACCCCAAACTC
Found at i:16854606 original size:28 final size:28
Alignment explanation
Indices: 16854554--16854618 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
16854544 CTTAAATACT
*
16854554 AAACTCTAAACTCTAAATCCCAAACCCC
1 AAACTCTAAACTCTAAATCCCAAACCCA
* *
16854582 AAACTCTAAAC-CATAAA-CCATAAACTCA
1 AAACTCTAAACTC-TAAATCC-CAAACCCA
16854610 AAACTCTAA
1 AAACTCTAA
16854619 TTCAAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.18
Consensus pattern (28 bp):
AAACTCTAAACTCTAAATCCCAAACCCA
Found at i:16854840 original size:40 final size:40
Alignment explanation
Indices: 16854796--16854886 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
16854786 CGGTGTTTTC
*
16854796 CAAAAAGCGCCACTAATGCTTGGA-CTATAGCAGCGTTT-A
1 CAAAAAGCGCCACTAATGC-TCGATCTATAGCAGCGTTTGA
* * *
16854835 TCAAAAAGCGTCGCTAATGCTCGATCTATTGCAGCGTTTGA
1 -CAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGTTTGA
*
16854876 CATAAAGCGCC
1 CAAAAAGCGCC
16854887 GCGAATGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.07
40 39 0.91
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAAAGCGCCACTAATGCTCGATCTATAGCAGCGTTTGA
Found at i:16855018 original size:40 final size:41
Alignment explanation
Indices: 16854955--16855044 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
16854945 GCGTTTTCCA
*
16854955 AAATGCACCGCTAATGGTTGATCTATAGCGGCATTTTTTAG-
1 AAAT-CACCGCTAATGGTTGATCTATAGCGGCACTTTTTAGT
* *
16854996 AAATCACCGCTAAT-GTTCGATCTATTGCGGCGCTTTTTAGT
1 AAATCACCGCTAATGGTT-GATCTATAGCGGCACTTTTTAGT
16855037 AAA-CACCG
1 AAATCACCG
16855045 AGAATGCTCG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
39 3 0.07
40 34 0.77
41 7 0.16
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
AAATCACCGCTAATGGTTGATCTATAGCGGCACTTTTTAGT
Found at i:16855064 original size:40 final size:40
Alignment explanation
Indices: 16854974--16855066 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
16854964 GCTAATGGTT
* ** ** *
16854974 GATCTATAGCGGCATTTTTTAGAAATCACCGCTAATGTTC
1 GATCTATTGCGGCGCTTTTTAGAAATCACCGAGAATGCTC
16855014 GATCTATTGCGGCGCTTTTTAGTAAA-CACCGAGAATGCTC
1 GATCTATTGCGGCGCTTTTTAG-AAATCACCGAGAATGCTC
* *
16855054 GGTCTTTTGCGGC
1 GATCTATTGCGGC
16855067 ATTTGTGAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
40 41 0.93
41 3 0.07
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (40 bp):
GATCTATTGCGGCGCTTTTTAGAAATCACCGAGAATGCTC
Found at i:16855201 original size:40 final size:40
Alignment explanation
Indices: 16855151--16855275 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
16855141 CGTTTTGCAG
* * * *
16855151 AAAGCGCCGCTAATGCTTGATCTATAGCGACGTTTCTGAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
* * * * * *
16855191 AAAGCACCGCTAATTCTCGAGCTATTGTGGCATTTTTTAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
* * *
16855231 AAAGCACTGCTAATGCTCGATCTTTTGCGGCGTTTGTGAA
1 AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
16855271 AAAGC
1 AAAGC
16855276 GTCGTTGATG
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (40 bp):
AAAGCACCGCTAATGCTCGATCTATTGCGGCGTTTCTGAA
Found at i:16855257 original size:195 final size:195
Alignment explanation
Indices: 16854921--16855298 Score: 494
Period size: 195 Copynumber: 1.9 Consensus size: 195
16854911 AGTAAACAAT
* * *
16854921 GTTGTTTTGTTCAACTTTTTTGTGGCGTTTTCCAAAATGCACCGCTAATGGTTGATCTATAGCGG
1 GTTGTTTTGTTCAACTTTTTTATGGCGTTTTCCAAAATGCACCGCTAATGCTTGATCTATAGCGA
* * * * * * *
16854986 CATTTTTTAGAAATCACCGCTAATGTTCGATCTATTGCGGCGCTTTTTAGTAAACACCGAGAATG
66 CATTTCTGAAAAAGCACCGCTAATGTTCGAGCTATTGCGGCACTTTTTAGAAAACACCGAGAATG
*
16855051 CTCGGTCTTTTGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGC
131 CTCGATCTTTTGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGC
* *
16855116 GTTGTTTT-TCTCAACTTTTTTATGGCGTTTTGCAGAAA-GCGCCGCTAATGCTTGATCTATAGC
1 GTTGTTTTGT-TCAACTTTTTTATGGCGTTTTCCA-AAATGCACCGCTAATGCTTGATCTATAGC
* * * * **
16855179 GACGTTTCTGAAAAAGCACCGCTAAT-TCTCGAGCTATTGTGGCATTTTTTA-AAAAGCACTGCT
64 GACATTTCTGAAAAAGCACCGCTAATGT-TCGAGCTATTGCGGCACTTTTTAGAAAA-CACCGAG
* * *
16855242 AATGCTCGATCTTTTGCGGCGTTTGTGAAAAAGCGTCGTTGATGCCAATAAAGCTCA
127 AATGCTCGATCTTTTGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCA
16855299 ACGACATTGT
Statistics
Matches: 157, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
194 5 0.03
195 149 0.95
196 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (195 bp):
GTTGTTTTGTTCAACTTTTTTATGGCGTTTTCCAAAATGCACCGCTAATGCTTGATCTATAGCGA
CATTTCTGAAAAAGCACCGCTAATGTTCGAGCTATTGCGGCACTTTTTAGAAAACACCGAGAATG
CTCGATCTTTTGCGGCATTTGTGAAAAAGCATCGCTGATGCCAATAAAGCTCACTGAAAAACAGC
Found at i:16855425 original size:38 final size:39
Alignment explanation
Indices: 16855335--16855448 Score: 97
Period size: 39 Copynumber: 2.9 Consensus size: 39
16855325 GTTTTGCGGG
* * * * * *
16855335 AAGCACCACTATTGCTTGATCTATAGTGGCATTTTTCAGT-
1 AAGCGCCACTAATGCTCGATCTATGGCGGCGTTTTT-A-TC
* *
16855375 AAGCGCCACTAATTCTCG-TCTATGGCGGTGTTTTTATC
1 AAGCGCCACTAATGCTCGATCTATGGCGGCGTTTTTATC
* * *
16855413 AAGCGCCGCTAATGCTCGATCTTTTGCGGCGTTTTT
1 AAGCGCCACTAATGCTCGATCTATGGCGGCGTTTTT
16855449 TGTTCAAACG
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
37 1 0.02
38 17 0.29
39 27 0.46
40 14 0.24
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (39 bp):
AAGCGCCACTAATGCTCGATCTATGGCGGCGTTTTTATC
Found at i:16866349 original size:27 final size:26
Alignment explanation
Indices: 16866263--16866349 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
16866253 AAAACACATA
* *
16866263 AATAAAATACAAAAGTATACAAATCAC
1 AATAATATACAAAAGAAT-CAAATCAC
16866290 AATAATA-A-AAAA-AAT-AATATCAC
1 AATAATATACAAAAGAATCAA-ATCAC
*
16866313 AATTATATATACAAAAGCATGCAAATCAC
1 AA-TA-ATATACAAAAGAAT-CAAATCAC
16866342 AATAATAT
1 AATAATAT
16866350 CACTTGAACT
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
22 2 0.04
23 7 0.14
24 4 0.08
25 7 0.14
26 2 0.04
27 14 0.29
28 4 0.08
29 7 0.14
30 2 0.04
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (26 bp):
AATAATATACAAAAGAATCAAATCAC
Found at i:16867434 original size:19 final size:18
Alignment explanation
Indices: 16867402--16867440 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16867392 TTAAACATGC
* *
16867402 TAAAAAATAGAAAATATT
1 TAAAAAATAAAAAAAATT
16867420 TAAAAGAATAAAAAAAATT
1 TAAAA-AATAAAAAAAATT
16867439 TA
1 TA
16867441 TTCAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAAAAATAAAAAAAATT
Found at i:16874511 original size:235 final size:235
Alignment explanation
Indices: 16874100--16874574 Score: 797
Period size: 235 Copynumber: 2.0 Consensus size: 235
16874090 TTACAAGGCA
* *
16874100 TGGCCTCAAGGGAGCCCCCTATACACATGAATGACACCCACACTTCTACCTCCACCTAGCGTTGT
1 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
*
16874165 CTAGCTTGGCCCTCCACTTGATTCTTGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
66 CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
* ** *
16874230 AAGTTCAAATGAACTTAGTGAGATTCTATGTAATGACCGTATAACAAGATTCAAAACTTCAAGAA
131 AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
**
16874295 ATGAAGTTTTAAATAGAGATTTCAACTCCCTGGTCATCCT
196 ACAAAGTTTTAAATAGAGATTTCAACTCCCTGGTCATCCT
*
16874335 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGTGTTGT
1 TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
* * *
16874400 CTAGCTTGGCCCTCTACTTGATTCTCGAGTGAAAACCTTATCCTGCAAGTAAGCAAACAATTTGT
66 CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
* *
16874465 AAGTTCAAATGAACTTAGTGAGATTCTGTATAATGACAATATAACAAGATTCAAAACTTTAAAAA
131 AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
* *
16874530 ACAAAGTTTTAAGTAGATATTTCAACTCCCTGGTCATCCT
196 ACAAAGTTTTAAATAGAGATTTCAACTCCCTGGTCATCCT
16874570 TGGCC
1 TGGCC
16874575 ATTCGTAGAT
Statistics
Matches: 223, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
235 223 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (235 bp):
TGGCCTCAAGGGAGCCCCCTATACACATGAACGACACCCACACCTCTACCTCCACCTAGCGTTGT
CTAGCTTGGCCCTCCACTTGATTCTCGAGTGAAAACCTTACCCTGCAAGTAAACAAACAATTTGT
AAGTTCAAATGAACTTAGTGAGATTCTATATAATGACAATATAACAAGATTCAAAACTTCAAAAA
ACAAAGTTTTAAATAGAGATTTCAACTCCCTGGTCATCCT
Found at i:16876205 original size:20 final size:20
Alignment explanation
Indices: 16876180--16876218 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16876170 TTGCTTCATC
16876180 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
16876200 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
16876219 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:16876563 original size:50 final size:50
Alignment explanation
Indices: 16876491--16876615 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
16876481 TATCCTAGAT
** ** * * *
16876491 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACGGGGGACATCTCATATCGGTGCCAACGCCATGTCCCAAAC
* * *
16876541 ATGGTTTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACGGGGGACATCTCATATCGGTGCCAACGCCATGTCCCAAAC
* *
16876591 ATGGTCTTATGTGGGACATCTCATA
1 ATGGTCTTACGGGGGACATCTCATA
16876616 ACCTCAATAA
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACGGGGGACATCTCATATCGGTGCCAACGCCATGTCCCAAAC
Found at i:16881919 original size:21 final size:21
Alignment explanation
Indices: 16881878--16881919 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16881868 TGAGTCAAAA
**
16881878 ATTTTCAAAAATGTTTTAATT
1 ATTTTCAAAAATGTTAGAATT
16881899 ATTTTCAAACAA-GTTAGAATT
1 ATTTTCAAA-AATGTTAGAATT
16881920 GCTCTAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (21 bp):
ATTTTCAAAAATGTTAGAATT
Found at i:16886316 original size:22 final size:22
Alignment explanation
Indices: 16886291--16886350 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 22
16886281 ATTTCTTTTT
16886291 TTAGTTTTTTTTATTCAGTTCA
1 TTAGTTTTTTTTATTCAGTTCA
* *
16886313 TTAGTTATTATTATTATTCTGTTTA
1 TTAGTT-TT-TT-TTATTCAGTTCA
*
16886338 TTA-TTTCTTTTAT
1 TTAGTTTTTTTTAT
16886351 ACATACCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.12
22 8 0.25
23 3 0.09
24 4 0.12
25 13 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (22 bp):
TTAGTTTTTTTTATTCAGTTCA
Found at i:16890955 original size:17 final size:19
Alignment explanation
Indices: 16890917--16890956 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
16890907 GTAGTTATCA
16890917 CAATT-TTTATTAAATTAT
1 CAATTATTTATTAAATTAT
16890935 -AATTATTT-TTAAA-TAT
1 CAATTATTTATTAAATTAT
16890951 CAATTA
1 CAATTA
16890957 GTAATAAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.15
17 14 0.70
18 3 0.15
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
CAATTATTTATTAAATTAT
Found at i:16900078 original size:17 final size:18
Alignment explanation
Indices: 16900047--16900080 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16900037 GTGATGTATC
*
16900047 TTATGAAATTCACTTATG
1 TTATGAAATTAACTTATG
16900065 TTAT-AAATTAACTTAT
1 TTATGAAATTAACTTAT
16900081 ATGTGATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (18 bp):
TTATGAAATTAACTTATG
Found at i:16904463 original size:13 final size:14
Alignment explanation
Indices: 16904447--16904477 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16904437 TAAATAAAAC
16904447 TTAATTAAAATT-A
1 TTAATTAAAATTAA
16904460 TTAATTAAAATTAA
1 TTAATTAAAATTAA
16904474 TTAA
1 TTAA
16904478 AAGTTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTAATTAAAATTAA
Found at i:16906650 original size:41 final size:42
Alignment explanation
Indices: 16906593--16906691 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
16906583 GATCTCAGTA
* * *
16906593 TCGCACATTTAGTGCCCGTTCTTC-ACATCGTCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
16906634 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
*
16906676 TCACACACTTAGTGCC
1 TCGCACACTTAGTGCC
16906692 ATTCATATAG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 22 0.42
42 31 0.58
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCATCATTTTAGTT
Found at i:16908414 original size:43 final size:43
Alignment explanation
Indices: 16908366--16908595 Score: 232
Period size: 43 Copynumber: 5.4 Consensus size: 43
16908356 ATTTCCTTAG
* * *
16908366 GTTTATCTAATGATGCACTATTTGTGCCAATATGATTGCTTCA
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * * * **
16908409 ATTTATTTGATGATGCACTATGCGTGCCAGTATGAAAT-CTTTG
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATG-ATTGCTTCA
* *
16908452 GTTTATCCGATGATGCACTATGTGTGCTAGTATGATTGCTTCA
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * * **
16908495 GTTAATCTGATGATCCACTATGTGTGTCAGTATGATTGCTTTG
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
* * * *
16908538 GTTTATTTGATGATGCACTATGTGT-ACAGTAT-ATTTCCTTCG
1 GTTTATCTGATGATGCACTATGTGTGCCAGTATGA-TTGCTTCA
*
16908580 GTTTATTTGATGATGC
1 GTTTATCTGATGATGC
16908596 TTTGCGTTGC
Statistics
Matches: 154, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
41 1 0.01
42 30 0.19
43 121 0.79
44 2 0.01
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (43 bp):
GTTTATCTGATGATGCACTATGTGTGCCAGTATGATTGCTTCA
Found at i:16908465 original size:86 final size:86
Alignment explanation
Indices: 16908365--16908562 Score: 263
Period size: 86 Copynumber: 2.3 Consensus size: 86
16908355 TATTTCCTTA
* * * * *
16908365 GGTTTATCTAATGATGCACTATTTGTGCCAATATGATTGCTTCAATTTATTTGATGATGCACTAT
1 GGTTTATCTGATGATGCACTATGTGTGCCAATATGATTGCTTCAATTAATCTGATGATCCACTAT
16908430 GCGTGCCAGTATGAAAT-CTTT
66 GCGTGCCAGTATG-AATGCTTT
* * * *
16908451 GGTTTATCCGATGATGCACTATGTGTGCTAGTATGATTGCTTCAGTTAATCTGATGATCCACTAT
1 GGTTTATCTGATGATGCACTATGTGTGCCAATATGATTGCTTCAATTAATCTGATGATCCACTAT
* * *
16908516 GTGTGTCAGTATGATTGCTTT
66 GCGTGCCAGTATGAATGCTTT
*
16908537 GGTTTATTTGATGATGCACTATGTGT
1 GGTTTATCTGATGATGCACTATGTGT
16908563 ACAGTATATT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 2 0.02
86 95 0.98
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.41
Consensus pattern (86 bp):
GGTTTATCTGATGATGCACTATGTGTGCCAATATGATTGCTTCAATTAATCTGATGATCCACTAT
GCGTGCCAGTATGAATGCTTT
Found at i:16910560 original size:27 final size:27
Alignment explanation
Indices: 16910520--16910594 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
16910510 TCTACAAGAC
**
16910520 GTTAAACATGAGATAGCCTGACAGGAA
1 GTTAAACACAAGATAGCCTGACAGGAA
* **
16910547 GTTAAACACAAGATAGTCC-AATGGGAA
1 GTTAAACACAAGATAG-CCTGACAGGAA
* *
16910574 GTTAAACACAGGATAGTCTGA
1 GTTAAACACAAGATAGCCTGA
16910595 AGGGACGTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.03
27 35 0.92
28 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (27 bp):
GTTAAACACAAGATAGCCTGACAGGAA
Found at i:16910599 original size:27 final size:27
Alignment explanation
Indices: 16910543--16910620 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
16910533 TAGCCTGACA
*
16910543 GGAAGTTAAACACAAGATAGTCCAATG
1 GGAAGTTAAACACAGGATAGTCCAATG
*
16910570 GGAAGTTAAACACAGGATAGTCTGAA-G
1 GGAAGTTAAACACAGGATAGTC-CAATG
* * *
16910597 GGACGTTAGACACTGGATAGTCCA
1 GGAAGTTAAACACAGGATAGTCCA
16910621 CTGAGACACT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.02
27 41 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.19
Consensus pattern (27 bp):
GGAAGTTAAACACAGGATAGTCCAATG
Found at i:16917902 original size:43 final size:43
Alignment explanation
Indices: 16917841--16917932 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
16917831 TTTAAGTACA
16917841 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
1 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
16917884 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
1 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
16917927 TCATCG
1 TCATCG
16917933 AACGAACTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (43 bp):
TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
Found at i:16917961 original size:43 final size:43
Alignment explanation
Indices: 16917841--16917951 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
16917831 TTTAAGTACA
* * *
16917841 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
1 TCATCGCGATACTCGAAGCAAATATACTGACACACGAGATGCG
* * *
16917884 TCATCGGGATAGTCGAAGCAATTATACTGACACACGAGATGCG
1 TCATCGCGATACTCGAAGCAAATATACTGACACACGAGATGCG
16917927 TCATCGAACGA-ACT-GAAGCAAATAT
1 TCATCG--CGATACTCGAAGCAAATAT
16917952 TCTAGCACAC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
43 59 0.94
44 2 0.03
45 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (43 bp):
TCATCGCGATACTCGAAGCAAATATACTGACACACGAGATGCG
Found at i:16918041 original size:42 final size:42
Alignment explanation
Indices: 16917995--16918075 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
16917985 ATCATGTTGG
*
16917995 CACATAAGTACATCATT-GGATGTAACAAAGCAAATATACTAT
1 CACATAAGTACATC-TTCGGATATAACAAAGCAAATATACTAT
* * *
16918037 CACATAAGTGCATCTTCGGATATACCAAAGCAATTATAC
1 CACATAAGTACATCTTCGGATATAACAAAGCAAATATAC
16918076 AGGCACGCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (42 bp):
CACATAAGTACATCTTCGGATATAACAAAGCAAATATACTAT
Found at i:16929869 original size:40 final size:40
Alignment explanation
Indices: 16929814--16929947 Score: 135
Period size: 40 Copynumber: 3.4 Consensus size: 40
16929804 GCATTAATGG
* * * *
16929814 CGCTTTTT-AACAAATGCCGCAATAGATCAAGAATTTGTGA
1 CGCTTTTTGAA-AAATGCCGCTATAGATCAAGAAATAGCGA
* *
16929854 CGCTTTTTGAAAAATGCCGCTATAGATAAAGAAATAGCGG
1 CGCTTTTTGAAAAATGCCGCTATAGATCAAGAAATAGCGA
* * * * * *
16929894 CGCTTTTTGAGAAATGCCACTATAGATCAAGCATTAACGG
1 CGCTTTTTGAAAAATGCCGCTATAGATCAAGAAATAGCGA
*
16929934 CGCTTTTTGGAAAA
1 CGCTTTTTGAAAAA
16929948 CGTCCAAAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 77 0.97
41 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (40 bp):
CGCTTTTTGAAAAATGCCGCTATAGATCAAGAAATAGCGA
Found at i:16930214 original size:197 final size:193
Alignment explanation
Indices: 16929667--16930259 Score: 601
Period size: 195 Copynumber: 3.0 Consensus size: 193
16929657 TTTGTGGTGC
* * * *
16929667 TTTTTAACAAACGTCACTAAAGATCAAGCAATAGCGGCG-TTTAGT-GTAAAACGCCGCTATATA
1 TTTTTAA-AAACGCCGCTAAAGATCAAGCAATAGCGGCGCTTTA-TAG-AAAGCG-CGCTATAGA
* * * *
16929730 TCAAGCATTAATGGTGATTTTTGGAAAACGCCGCAATAAAGTTTAGCAAAATGA--CA---TCGT
62 TCAAGCATT-ATGGCGATTTTTGGAAAACGCCGCAAAAAAGTTGAGCAAAATGACTCATTTTCTT
* * ** * *
16929790 TTTGAGCTTTAGTGGCATTAATGGCGCTTTTTAACAAATGCCGCAATAGATCAAGAATTTGTGAC
126 TTTGAGCTTTAGTGGCATTAGTGGCGCTTTTTAACAAACGCCGCAATAGATTGAGAATTAGTGGC
16929855 GCT
191 GCT
* * * * * * *
16929858 TTTTGAAAAATGCCGCTATAGATAAAGAAATAGCGGCGCTTTTTGAGAAATGC-CACTATAGATC
1 TTTTTAAAAACGCCGCTAAAGATCAAGCAATAGCGGCGCTTTAT-AGAAA-GCGCGCTATAGATC
* * * * **
16929922 AAGCATTAACGGCGCTTTTTGGAAAACGTC-CAAAAAAGTTGAGCAACATGACATTGTTTTCTTT
64 AAGCATT-ATGGCGATTTTTGGAAAACGCCGCAAAAAAGTTGAGCAAAATGAC-TCATTTTCTTT
* * * * *
16929986 TTGAGTTTTAGTGGCATTAGTGGCCCTTTTTAACAAACGCCACAAAAGATTGAGAATTAGCGGCG
127 TTGAGCTTTAGTGGCATTAGTGGCGCTTTTTAACAAACGCCGCAATAGATTGAGAATTAGTGGCG
16930051 CT
192 CT
* *
16930053 TTTTTAAAAACGCCGTTAAAGATCAAGCAATAGCGGTGCTTTATAGAAAGCGCTGCTATAGATCA
1 TTTTTAAAAACGCCGCTAAAGATCAAGCAATAGCGGCGCTTTATAGAAAGCGC-GCTATAGATCA
* * * *
16930118 AGCATTAGTGGGCGGTTGTTGGAAAATGCCGCAAAAAAGTTGAGCAAAACGACGTCATTTTCTTT
65 AGCATTA-T-GGCGATTTTTGGAAAACGCCGCAAAAAAGTTGAGCAAAATGAC-TCATTTTCTTT
* * ** * *
16930183 TTTAGCTTTAGTGGCATTAGCGGCGCTTTTTAACAAACATCGCAATAGAATGAGAATTAGTGGTG
127 TTGAGCTTTAGTGGCATTAGTGGCGCTTTTTAACAAACGCCGCAATAGATTGAGAATTAGTGGCG
16930248 CT
192 CT
16930250 TTTTGTAAAA
1 TTTT-TAAAA
16930260 TGCCACAAAA
Statistics
Matches: 324, Mismatches: 62, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
189 18 0.06
190 61 0.19
191 12 0.04
192 2 0.01
193 2 0.01
194 7 0.02
195 112 0.35
196 16 0.05
197 89 0.27
198 5 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (193 bp):
TTTTTAAAAACGCCGCTAAAGATCAAGCAATAGCGGCGCTTTATAGAAAGCGCGCTATAGATCAA
GCATTATGGCGATTTTTGGAAAACGCCGCAAAAAAGTTGAGCAAAATGACTCATTTTCTTTTTGA
GCTTTAGTGGCATTAGTGGCGCTTTTTAACAAACGCCGCAATAGATTGAGAATTAGTGGCGCT
Found at i:16930322 original size:14 final size:14
Alignment explanation
Indices: 16930303--16930357 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
16930293 TGAGCTTTAT
16930303 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
16930317 TTTAGGGTTT-TAAGG
1 TTTAGGGTTTAT-A-G
16930332 TTTTAGGGTTTAGTA-
1 -TTTAGGGTTTA-TAG
*
16930347 TTTAAGGTTTA
1 TTTAGGGTTTA
16930358 ATGTCTATAG
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 1 0.03
14 21 0.60
15 1 0.03
16 10 0.29
17 1 0.03
18 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Done.