Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 41 of 235
Found at i:13380889 original size:21 final size:21
Alignment explanation
Indices: 13380860--13380912 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
13380850 AAATTTCATG
*
13380860 CAATACATACACACAAGTCCA
1 CAATTCATACACACAAGTCCA
13380881 CAATTCATACACACAAGTCCA
1 CAATTCATACACACAAGTCCA
*
13380902 TAATTCATACA
1 CAATTCATACA
13380913 TTTATCATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.30, G:0.04, T:0.21
Consensus pattern (21 bp):
CAATTCATACACACAAGTCCA
Found at i:13387131 original size:21 final size:22
Alignment explanation
Indices: 13387107--13387163 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
13387097 GTCTCTGGTC
13387107 CACACGGGCGTGTGCCT-TAGT
1 CACACGGGCGTGTGCCTCTAGT
*** **
13387128 CACACGATAGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTAGT
13387150 CACACGGGCGTGTG
1 CACACGGGCGTGTG
13387164 GCTCCTCTTC
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.25
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTAGT
Found at i:13387175 original size:23 final size:22
Alignment explanation
Indices: 13387107--13387181 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
13387097 GTCTCTGGTC
**
13387107 CACACGGGCGTGTGCCT-TAGT
1 CACACGGGCGTGTGCCTCTCTT
***
13387128 CACACGATAGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCTCTT
*
13387150 CACACGGGCGTGTGGCTCCTCTT
1 CACACGGGCGTGTGCCT-CTCTT
*
13387173 CACATGGGC
1 CACACGGGC
13387182 TTTTGACCTC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
21 14 0.33
22 15 0.36
23 13 0.31
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.25
Consensus pattern (22 bp):
CACACGGGCGTGTGCCTCTCTT
Found at i:13394181 original size:21 final size:21
Alignment explanation
Indices: 13394157--13394204 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
13394147 TTTGGGTGGC
13394157 TCAGCTCTTACGTG-GTTT-TGT
1 TCAGCTCTTA--TGAGTTTCTGT
13394178 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGTTTCTGT
13394199 TCAGCT
1 TCAGCT
13394205 TTAAAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 19 0.76
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (21 bp):
TCAGCTCTTATGAGTTTCTGT
Found at i:13396265 original size:8 final size:8
Alignment explanation
Indices: 13396251--13396281 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
13396241 ATTTAAGTAA
13396251 ATATTATT
1 ATATTATT
*
13396259 TTATTATT
1 ATATTATT
13396267 ATATTATT
1 ATATTATT
13396275 ATATTAT
1 ATATTAT
13396282 ATTAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
ATATTATT
Found at i:13396479 original size:25 final size:23
Alignment explanation
Indices: 13396440--13396519 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 23
13396430 AAAATAAGCA
13396440 AAAGAAA-AAA-GAAAAAGGAAG
1 AAAGAAAGAAACGAAAAAGGAAG
*
13396461 AACAGAATAGAAACGAAAAACAGGGAG
1 AA-AGAA-AGAAACG-AAAA-AGGAAG
*
13396488 AAAGAAAGAAAGGAAAAAGGGCAAG
1 AAAGAAAGAAACGAAAAA-GG-AAG
13396513 AAAGAAA
1 AAAGAAA
13396520 AGGAAAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
21 2 0.04
22 4 0.08
23 2 0.04
24 9 0.19
25 16 0.33
26 8 0.17
27 7 0.15
ACGTcount: A:0.68, C:0.05, G:0.26, T:0.01
Consensus pattern (23 bp):
AAAGAAAGAAACGAAAAAGGAAG
Found at i:13397498 original size:40 final size:41
Alignment explanation
Indices: 13397382--13397498 Score: 175
Period size: 40 Copynumber: 2.9 Consensus size: 41
13397372 CCTTCTCGAG
13397382 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTA-AAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
*
13397423 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAATA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
* * *
13397464 TA-TAAAGTGGATAGGATTTGTTCCTGATTCACTAT
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAT
13397499 GGTAACTTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 62 0.87
41 9 0.13
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (41 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAAAGA
Found at i:13397514 original size:40 final size:38
Alignment explanation
Indices: 13397382--13397522 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 38
13397372 CCTTCTCGAG
* *
13397382 AATTAAAAGTGAATAGGATTTATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGGATAGGATTTATTCCTGATTCACT--ATGA
* *
13397423 AATTAAAGTGAATAGGATTTATTCCTGATTCACTATAA
1 AATTAAAGTGGATAGGATTTATTCCTGATTCACTATGA
*
13397461 ATATATAAAGTGGATAGGATTTGTTCCTGATTCACTATGGTA
1 A-AT-TAAAGTGGATAGGATTTATTCCTGATTCACTAT-G-A
* *
13397503 ACTTAAGGTGGATAGGATTT
1 AATTAAAGTGGATAGGATTT
13397523 TCCTTAAAAT
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
38 3 0.03
39 2 0.02
40 77 0.87
41 5 0.06
42 2 0.02
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.35
Consensus pattern (38 bp):
AATTAAAGTGGATAGGATTTATTCCTGATTCACTATGA
Found at i:13399191 original size:3 final size:3
Alignment explanation
Indices: 13399183--13399399 Score: 79
Period size: 3 Copynumber: 70.0 Consensus size: 3
13399173 ATTTTATAGT
* * * * *
13399183 ATA ATA ATA ATA GAAA ATA ATA GTA ATA GAAA ATA ACA GTA CATTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA ATA ATA -A-TA ATA
* * *
13399232 ATA ATA TATG TTAA ACA ATA ATA AT- ATA A-A A-A ATA GGA-A ATA ATA
1 ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA
* * * *
13399277 AT- ATA CTA ATA ATA ATA ATA GATTA ATA ATA ATA ATG GTA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
* * * * *
13399323 ATA AAA ATA A-A AGTA ATA ATA ATA CGTTA AGTT GTA ATA GTA A-A ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA --ATA A-TA ATA ATA ATA ATA ATA
* * *
13399370 ATG ATA ATA GTG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13399400 CGATAAAAAT
Statistics
Matches: 156, Mismatches: 38, Indels: 40
0.67 0.16 0.17
Matches are distributed among these distances:
2 13 0.08
3 123 0.79
4 13 0.08
5 7 0.04
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:13409027 original size:35 final size:36
Alignment explanation
Indices: 13408981--13409091 Score: 172
Period size: 35 Copynumber: 3.0 Consensus size: 36
13408971 GGAGAAATTT
13408981 TGATTTATATTTATGTTAGGTATAAG-TTAAAATGA
1 TGATTTATATTTATGTTAGGTATAAGTTTAAAATGA
13409016 TGATTTATATTTATGTTAGGTATAGTATAGTTTAAAATGA
1 TGATTTATATTTATGTTAGG--TA-TA-AGTTTAAAATGA
13409056 TGATTTATATTTATGTTAGGTAT-AGTTTAAAATGA
1 TGATTTATATTTATGTTAGGTATAAGTTTAAAATGA
13409091 T
1 T
13409092 TATTATGTGG
Statistics
Matches: 71, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
35 33 0.46
37 3 0.04
38 4 0.06
39 2 0.03
40 29 0.41
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (36 bp):
TGATTTATATTTATGTTAGGTATAAGTTTAAAATGA
Found at i:13409051 original size:40 final size:38
Alignment explanation
Indices: 13408981--13409081 Score: 163
Period size: 40 Copynumber: 2.7 Consensus size: 38
13408971 GGAGAAATTT
13408981 TGATTTATATTTATGTTAGG--TA-TAAGTTAAAATGA
1 TGATTTATATTTATGTTAGGTATAGTAAGTTAAAATGA
13409016 TGATTTATATTTATGTTAGGTATAGTATAGTTTAAAATGA
1 TGATTTATATTTATGTTAGGTATAGTA-AG-TTAAAATGA
13409056 TGATTTATATTTATGTTAGGTATAGT
1 TGATTTATATTTATGTTAGGTATAGT
13409082 TTAAAATGAT
Statistics
Matches: 61, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
35 20 0.33
37 2 0.03
38 2 0.03
39 2 0.03
40 35 0.57
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.49
Consensus pattern (38 bp):
TGATTTATATTTATGTTAGGTATAGTAAGTTAAAATGA
Found at i:13411822 original size:79 final size:82
Alignment explanation
Indices: 13411711--13411895 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
13411701 GCTACTCGTT
* * *
13411711 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13411774 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13411791 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13411854 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13411871 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13411896 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13411895 original size:40 final size:40
Alignment explanation
Indices: 13411692--13411895 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
13411682 CGGAATTTAA
** *
13411692 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
13411732 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13411772 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13411811 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13411851 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13411891 CCGGA
1 CCGGA
13411896 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13419291 original size:40 final size:39
Alignment explanation
Indices: 13419254--13419345 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
13419244 GCTACTCGTT
*
13419254 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
13419294 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
13419333 CAAATGCCTTCGG
1 CAAATGCCTTCGG
13419346 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:13419325 original size:39 final size:40
Alignment explanation
Indices: 13419235--13419398 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
13419225 CGGAATTTAA
** *
13419235 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
13419275 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13419314 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13419354 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13419394 CCGGA
1 CCGGA
13419399 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13421844 original size:21 final size:21
Alignment explanation
Indices: 13421820--13421876 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
13421810 AACTGGGCAG
13421820 ACGCCCGTGTGGTCAGGCAAC
1 ACGCCCGTGTGGTCAGGCAAC
*
13421841 ACGCCCGTGTGGTCGGGCAAC
1 ACGCCCGTGTGGTCAGGCAAC
* *
13421862 ATGCCCATGTGGTCA
1 ACGCCCGTGTGGTCA
13421877 TTACAACATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.32, G:0.33, T:0.18
Consensus pattern (21 bp):
ACGCCCGTGTGGTCAGGCAAC
Found at i:13424853 original size:49 final size:49
Alignment explanation
Indices: 13424768--13424944 Score: 227
Period size: 47 Copynumber: 3.7 Consensus size: 49
13424758 GTATATTTGA
*
13424768 ATGAATGCGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCAACGTG
1 ATGAATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCAACGTG
* * *
13424819 ATGAATGTGAGAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTG
* * * *
13424868 ATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTG
*
13424915 ATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGAATGTGAAAGTGTATATATATGTGATAAG
13424945 TCCCGAAGGG
Statistics
Matches: 110, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
47 48 0.44
48 1 0.01
49 48 0.44
51 13 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (49 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAACGTG
Found at i:13425119 original size:37 final size:37
Alignment explanation
Indices: 13425063--13425141 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
13425053 CCGAGCTCTA
* *
13425063 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
13425100 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
13425137 AAGAC
1 AAGAC
13425142 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13427081 original size:20 final size:20
Alignment explanation
Indices: 13427056--13427095 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13427046 AAGAAGGATG
13427056 ATATCATCCCTTTTCATCTT
1 ATATCATCCCTTTTCATCTT
13427076 ATATCATCCCTTTTCATCTT
1 ATATCATCCCTTTTCATCTT
13427096 CTTCCTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATCATCCCTTTTCATCTT
Found at i:13428065 original size:46 final size:46
Alignment explanation
Indices: 13427916--13428137 Score: 223
Period size: 46 Copynumber: 4.7 Consensus size: 46
13427906 TCACTTGTGT
* * * **
13427916 GAGCTAGTGTAAGACATATCTGGGACATGCATTGGCCACGTTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGA
* * * * *
13427962 AAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCTCGAGATGA
* *
13428010 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATG-A
* * *
13428057 -AGCCAGTGTAAGAAATGTCTGAGACATGCATTGG-CTATGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCT-CGAGATGA
* *
13428102 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATTG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTG
13428138 ACACCTTACC
Statistics
Matches: 144, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
45 3 0.02
46 74 0.51
47 38 0.26
48 29 0.20
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGA
Found at i:13428136 original size:94 final size:94
Alignment explanation
Indices: 13427918--13428137 Score: 279
Period size: 94 Copynumber: 2.3 Consensus size: 94
13427908 ACTTGTGTGA
* ** * *
13427918 GCTAGTGTAAGACATATCTGGGACATGCATTGGCCACGTTATGAAAGCCAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAAAGCCAGTGTAAGACAATGTC
*
13427983 TGGGACATGGCATTGGCATTGAGACGAGT
66 TGAGACATGGCATTGGCATTGAGACGAGT
* *
13428012 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATGTAAGCCAGTGTAAGA-AATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAAAGCCAGTGTAAGACAATGTC
*
13428076 TGAGACAT-GCATTGGC-TATGAGATGA-T
66 TGAGACATGGCATTGGCAT-TGAGACGAGT
13428103 AG-TCAGTGTAAGACCATGTCTGGGACATGGCATTG
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATTG
13428138 ACACCTTACC
Statistics
Matches: 112, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
91 3 0.03
92 25 0.22
93 25 0.22
94 59 0.53
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACGAGATGAAAGCCAGTGTAAGACAATGTC
TGAGACATGGCATTGGCATTGAGACGAGT
Found at i:13432240 original size:14 final size:15
Alignment explanation
Indices: 13432223--13432278 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
13432213 TAGTAGGTAT
13432223 GATATG-CAATCTTA
1 GATATGACAATCTTA
13432237 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13432254 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
13432272 GATATGA
1 GATATGA
13432279 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13432251 original size:17 final size:17
Alignment explanation
Indices: 13432229--13432291 Score: 90
Period size: 17 Copynumber: 3.5 Consensus size: 17
13432219 GTATGATATG
13432229 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
13432246 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
13432264 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
13432281 TGCAATCTTAG
1 --CAATCTTAG
13432292 TAGATATGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.39
18 16 0.39
19 9 0.22
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:13432271 original size:35 final size:37
Alignment explanation
Indices: 13432202--13432299 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 37
13432192 ATAATCTTCA
** *
13432202 ATGATATGCAATAGTAGGTATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
13432240 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
13432275 ATGATATGCAATCTTAG-TA-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
13432300 ATTTTGTAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
35 22 0.41
36 17 0.31
37 9 0.17
38 6 0.11
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:13432299 original size:17 final size:19
Alignment explanation
Indices: 13432202--13432299 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
13432192 ATAATCTTCA
** *
13432202 ATGATATGCAATAGTAGGT
1 ATGATATGCAATCTTAGAT
13432221 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13432240 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13432257 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13432275 ATGATATGCAATCTTAG-T
1 ATGATATGCAATCTTAGAT
13432293 A-GATATG
1 ATGATATG
13432300 ATTTTGTAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
17 22 0.30
18 18 0.25
19 33 0.45
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13432314 original size:23 final size:22
Alignment explanation
Indices: 13432202--13432318 Score: 86
Period size: 19 Copynumber: 6.0 Consensus size: 22
13432192 ATAATCTTCA
*
13432202 ATGATATGCAA---TAGTAGGT
1 ATGATATGCAATCTTAGTAGAT
13432221 ATGATATGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
13432240 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGTAGAT
13432257 ATGAT-TGCAATC-T--TAGAT
1 ATGATATGCAATCTTAGTAGAT
13432275 ATGATATGCAATCTTAGTAGAT
1 ATGATATGCAATCTTAGTAGAT
* *
13432297 ATGATTTTGTAATCTTAG-AGAT
1 ATGA-TATGCAATCTTAGTAGAT
13432319 TTAATTTGTA
Statistics
Matches: 84, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
17 15 0.18
18 15 0.18
19 28 0.33
20 1 0.01
21 1 0.01
22 13 0.15
23 11 0.13
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGTAGAT
Found at i:13432608 original size:18 final size:17
Alignment explanation
Indices: 13432585--13432618 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13432575 TTCCCTGAAT
*
13432585 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
13432603 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
13432619 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:13440710 original size:46 final size:46
Alignment explanation
Indices: 13440637--13440808 Score: 265
Period size: 46 Copynumber: 3.7 Consensus size: 46
13440627 TGTAACCCGC
* * * * *
13440637 CCATAAGTGAACTCAGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
**
13440683 TTA-AGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATA-AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13440729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
13440775 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
13440809 AGATGCTCAA
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 113 0.98
47 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13445718 original size:78 final size:78
Alignment explanation
Indices: 13445614--13445901 Score: 398
Period size: 78 Copynumber: 3.7 Consensus size: 78
13445604 ACAGATTTTC
* * * * * *
13445614 CATCTCCATATTCGACAGGGAGCAGATCAAAGACATAGCAGATTTGACCTTCATTGAAGCATATC
1 CATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATC
*
13445679 CAAAATGATTTGG
66 CAAGATGATTTGG
* * * *
13445692 CATCCCTATATTAGACGGGGAGCAGATCGAAGACACAACAGATCTAACCTTCATTGAAGCAGATC
1 CATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATC
13445757 CAAGATGATTTGG
66 CAAGATGATTTGG
* *
13445770 CATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TGGACCTTCATTAAAGCAGAT
1 CATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGATCT-GACCTTCATTGAAGCAGAT
13445834 CCAAGATGATTTGG
65 CCAAGATGATTTGG
* * * * *
13445848 CATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGATCTGACTTTCAT
1 CATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCAT
13445902 GTGTTTACAT
Statistics
Matches: 187, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 185 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (78 bp):
CATCTCTATATTAGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATTGAAGCAGATC
CAAGATGATTTGG
Found at i:13445994 original size:45 final size:45
Alignment explanation
Indices: 13445841--13446114 Score: 277
Period size: 45 Copynumber: 6.1 Consensus size: 45
13445831 GATCCAAGAT
* *
13445841 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAG--ATAACA
* * * * * * * * *
13445888 GATCTGAC-TTTCATGTGTTTACATC--GAAGTAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCGAAGATAACA
* * *
13445933 GATTTGGCATCTCTGTATTCGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
13445978 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* *
13446022 GATTGGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
* * * *
13446067 GATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
13446112 GAT
1 GAT
13446115 ATCACCTTCC
Statistics
Matches: 182, Mismatches: 38, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
43 1 0.01
44 43 0.24
45 108 0.59
46 6 0.03
47 20 0.11
48 4 0.02
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGATAACA
Found at i:13446046 original size:89 final size:90
Alignment explanation
Indices: 13445918--13446114 Score: 281
Period size: 89 Copynumber: 2.2 Consensus size: 90
13445908 ACATCGAAGT
* * * * *
13445918 AGATCCAAGAT-GACAGATTTGGCATCTCTGTATTCGACGGGGAGCAAATCGGAGATAACAGATT
1 AGATCAAAGATAG-CAGATTGGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATT
*
13445982 TGGCATCTCTGTATTAGACGGGGAGC
65 TAGCATCTCTGTATTAGACGGGGAGC
** *
13446008 AGATTGAAGA-AGCAGATTGGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATAACAGATTT
1 AGATCAAAGATAGCAGATTGGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATTT
*
13446072 AGCGTCTCTGTATTAGACGGGGAGC
66 AGCATCTCTGTATTAGACGGGGAGC
13446097 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
13446115 ATCACCTTCC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 78 0.83
90 16 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (90 bp):
AGATCAAAGATAGCAGATTGGGCATCTCTATATTAGACGGGGAGCAAATCGAAGATAACAGATTT
AGCATCTCTGTATTAGACGGGGAGC
Found at i:13446485 original size:19 final size:19
Alignment explanation
Indices: 13446461--13446533 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
13446451 ATAATCTTCA
* *
13446461 ATGATATGCAATCGTGGAT
1 ATGATATGCAATCTTAGAT
13446480 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13446499 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13446516 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
13446534 GATTTAATTA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13446499 original size:14 final size:15
Alignment explanation
Indices: 13446482--13446519 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
13446472 TCGTGGATAT
13446482 GATATG-CAATCTTA
1 GATATGACAATCTTA
13446496 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13446513 GATATGA
1 GATATGA
13446520 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13446652 original size:17 final size:17
Alignment explanation
Indices: 13446628--13446662 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13446618 TGTTTCCCTG
*
13446628 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
13446646 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
13446663 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:13450222 original size:21 final size:22
Alignment explanation
Indices: 13450198--13450241 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
13450188 ATAAGATTTC
*
13450198 AAATGGGGGTAGTATTTT-GCA
1 AAATGGGGGTACTATTTTAGCA
13450219 AAATGGGGGTACTATTTTAGCA
1 AAATGGGGGTACTATTTTAGCA
13450241 A
1 A
13450242 CTTTAAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (22 bp):
AAATGGGGGTACTATTTTAGCA
Found at i:13451032 original size:46 final size:44
Alignment explanation
Indices: 13450886--13451100 Score: 171
Period size: 46 Copynumber: 4.6 Consensus size: 44
13450876 TGCGTGAGCT
* * **
13450886 AGTGTAAGACATATCTGGAACATGCATCGGCCATGTTATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGATG-AAGCC
* * * * *
13450932 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTGAGATGA-AGCC
* *
13450980 AGTGTAAGACATGTTTGGGACATGCATCGTCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATG-AAGCC
* * * *
13451026 AGTGTAAGAAATGTCTGGGACATGCGTCGGCTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CTGAGATGA-AGCC
*
13451072 AATGTAAGACCAT-TCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
13451101 AACACCTTAC
Statistics
Matches: 136, Mismatches: 23, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
45 2 0.01
46 77 0.57
47 34 0.25
48 23 0.17
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATGAAGCC
Found at i:13453167 original size:48 final size:47
Alignment explanation
Indices: 13453096--13453310 Score: 210
Period size: 46 Copynumber: 4.6 Consensus size: 47
13453086 AAGCTGACGC
*
13453096 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCATAAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTG-ATATC-TAAGGTCGATG
* *
13453144 CATGTCCCAGACATGTCTTACACTAGCTCTCG-TCTC-AATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-GATATCTAAGGTCGATG
* * * *
13453190 CATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-GATATCT-AAGGTCGATG
* * **
13453238 CATG-CCTCAGACATGTCTTACACTGGCTCTCATA-CTGTGG-CTGATG
1 CATGTCC-CAGACATGTCTTACACTAGCTCTGATATCTAAGGTC-GATG
*
13453284 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
13453311 ACACATATCA
Statistics
Matches: 144, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.01
46 68 0.47
47 6 0.04
48 65 0.45
49 2 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTGATATCTAAGGTCGATG
Found at i:13453196 original size:94 final size:94
Alignment explanation
Indices: 13453002--13453310 Score: 276
Period size: 94 Copynumber: 3.3 Consensus size: 94
13452992 ATGCCGAAGC
** ** * *
13453002 CATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATGCCATGTCC-CAGACAG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCTCAAGGCCGATG-CATG-CCTCAGACAT
* * * * *
13453066 GTCTTACA-TTGACACACA-AC-A-AGCTGACG
63 GTCTTACACTAG-CTCTCATACTATGGCTGATG
* ** *
13453095 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCAT-AAGGTCGATGCATGTCC-CAGACAT
1 -CATGTCCCAGACATGTCTTACACTAGCTTAAATATC-TCAAGGCCGATGCATG-CCTCAGACAT
* *
13453158 GTCTTACACTAGCTCTCGT-CTCAATGTC-GATG
63 GTCTTACACTAGCTCTCATACT--ATGGCTGATG
* *
13453190 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGCCTCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCAAGGCCGATGCATGCCTCAGACATGTC
* *
13453255 TTACACTGGCTCTCATACTGTGGCTGATG
66 TTACACTAGCTCTCATACTATGGCTGATG
*
13453284 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
13453311 ACACATATCA
Statistics
Matches: 177, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
92 25 0.14
93 35 0.20
94 110 0.62
95 6 0.03
96 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTCAAGGCCGATGCATGCCTCAGACATGTC
TTACACTAGCTCTCATACTATGGCTGATG
Found at i:13453204 original size:46 final size:45
Alignment explanation
Indices: 13453002--13453310 Score: 200
Period size: 48 Copynumber: 6.6 Consensus size: 45
13452992 ATGCCGAAGC
* * *
13453002 CATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-TTCATCT--CAAGGTCGATG
* * * * * *
13453051 CCATGTCCCAGACAGGTCTTACA-TTGAC-ACA-CAACAAGCT-GACG
1 -CATGTCCCAGACATGTCTTACACTAG-CTTCATC-TCAAGGTCGATG
* * *
13453095 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCATAAGGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTT-CATCTC--AAGGTCGATG
* *
13453144 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TCATCTCAAGGTCGATG
* * * *
13453190 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT---CATCTCAAGGTCGATG
* **
13453238 CATG-CCTCAGACATGTCTTACACTGGCTCTCATACT-GTGG-CTGATG
1 CATGTCC-CAGACATGTCTTACACTAGCT-TCAT-CTCAAGGTC-GATG
*
13453284 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
13453311 ACACATATCA
Statistics
Matches: 210, Mismatches: 31, Indels: 40
0.75 0.11 0.14
Matches are distributed among these distances:
44 27 0.13
45 7 0.03
46 69 0.33
47 8 0.04
48 72 0.34
49 14 0.07
50 13 0.06
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCATCTCAAGGTCGATG
Found at i:13456750 original size:19 final size:19
Alignment explanation
Indices: 13456726--13456762 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13456716 TGAAAATGTG
13456726 TAAGTTATGCCTAGGAATT
1 TAAGTTATGCCTAGGAATT
*
13456745 TAAGTTATGCCTATGAAT
1 TAAGTTATGCCTAGGAAT
13456763 CTATGATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TAAGTTATGCCTAGGAATT
Found at i:13462754 original size:46 final size:47
Alignment explanation
Indices: 13462700--13462798 Score: 112
Period size: 46 Copynumber: 2.1 Consensus size: 47
13462690 GATATTATGT
* * * * *
13462700 CAAA-AAATTGGCTATCACAAACCTTCTTCAA-GGCTACTATTACAC
1 CAAACAAATTGGATATCACAAAACTCCTTCAATGGATAATATTACAC
* * *
13462745 TAAACAAATTGTATTTCACAAAACTCCTTCAATGGATAATATTACAC
1 CAAACAAATTGGATATCACAAAACTCCTTCAATGGATAATATTACAC
13462792 CAAACAA
1 CAAACAA
13462799 TTTTGCCTCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
45 3 0.07
46 22 0.51
47 18 0.42
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.27
Consensus pattern (47 bp):
CAAACAAATTGGATATCACAAAACTCCTTCAATGGATAATATTACAC
Found at i:13463327 original size:30 final size:31
Alignment explanation
Indices: 13463271--13463328 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
13463261 ACAACTCCCG
13463271 TTCCTAGCCACAAAGCCTAATTGAGCAAATA
1 TTCCTAGCCACAAAGCCTAATTGAGCAAATA
*
13463302 TTCCTAGCCACAAAG-CTAGTTGAGCAA
1 TTCCTAGCCACAAAGCCTAATTGAGCAA
13463329 GAATTCTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (31 bp):
TTCCTAGCCACAAAGCCTAATTGAGCAAATA
Found at i:13471738 original size:17 final size:17
Alignment explanation
Indices: 13471712--13471745 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13471702 CTTAATATTC
*
13471712 ATAATTAATTCATTCTA
1 ATAATCAATTCATTCTA
*
13471729 ATAATCAATTGATTCTA
1 ATAATCAATTCATTCTA
13471746 CTCAACCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
ATAATCAATTCATTCTA
Found at i:13472957 original size:14 final size:13
Alignment explanation
Indices: 13472938--13472975 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
13472928 ATTTAATGTT
13472938 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
13472952 TAATTATTAAGGA
1 TAATTATTTAGGA
13472965 TAATTATTTAG
1 TAATTATTTAG
13472976 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:13473014 original size:10 final size:10
Alignment explanation
Indices: 13472996--13473058 Score: 65
Period size: 10 Copynumber: 6.3 Consensus size: 10
13472986 AGGATTCAAT
*
13472996 TTTATTTATC
1 TTTAATTATC
13473006 TTTAATTATC
1 TTTAATTATC
*
13473016 TCTAATTATC
1 TTTAATTATC
*
13473026 TCTAATTATC
1 TTTAATTATC
*
13473036 TTTATTTAT-
1 TTTAATTATC
*
13473045 TTGTATTTATC
1 TT-TAATTATC
13473056 TTT
1 TTT
13473059 TAAAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
9 2 0.04
10 43 0.91
11 2 0.04
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTAATTATC
Found at i:13473044 original size:20 final size:20
Alignment explanation
Indices: 13472996--13473058 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
13472986 AGGATTCAAT
*
13472996 TTTATTTATCTTTAATTATC
1 TTTATTTATCTCTAATTATC
* *
13473016 TCTAATTATCTCTAATTATC
1 TTTATTTATCTCTAATTATC
* * *
13473036 TTTATTTATTTGTATTTATC
1 TTTATTTATCTCTAATTATC
13473056 TTT
1 TTT
13473059 TAAAATTTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.24, C:0.11, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTATTTATCTCTAATTATC
Found at i:13476670 original size:22 final size:22
Alignment explanation
Indices: 13476645--13476748 Score: 85
Period size: 22 Copynumber: 4.7 Consensus size: 22
13476635 AGGCAACCCA
*
13476645 ATTTGTATT-TTTCTTTATTTTT
1 ATTT-TATTATTTATTTATTTTT
13476667 ATTTTATTATTTATTTA--TTT
1 ATTTTATTATTTATTTATTTTT
*
13476687 A-TTCATTACTTTATTT-TATTTT
1 ATTTTATTA-TTTATTTAT-TTTT
13476709 ATTATTCATTATTTTATTT-TATTTT
1 ATT-TT-ATTA-TTTATTTAT-TTTT
13476734 ATTTTATTATTTATT
1 ATTTTATTATTTATT
13476749 ACTTTATTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
19 6 0.09
20 11 0.16
21 4 0.06
22 21 0.30
23 5 0.07
24 3 0.04
25 20 0.29
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (22 bp):
ATTTTATTATTTATTTATTTTT
Found at i:13476673 original size:5 final size:5
Alignment explanation
Indices: 13476645--13476741 Score: 69
Period size: 5 Copynumber: 18.6 Consensus size: 5
13476635 AGGCAACCCA
13476645 ATTTGT ATTTT -TCTTT ATTTTT ATTTT ATTATT -TATTT A-TTT ATTCATT
1 ATTT-T ATTTT AT-TTT A-TTTT ATTTT ATT-TT AT-TTT ATTTT ATT--TT
*
13476694 ACTTT ATTTT ATTTT A--TT ATTCATT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATT--TT ATTTT ATTTT ATTTT ATTTT ATT
13476742 ATTTATTACT
Statistics
Matches: 76, Mismatches: 2, Indels: 27
0.72 0.02 0.26
Matches are distributed among these distances:
3 3 0.04
4 5 0.07
5 47 0.62
6 11 0.14
7 10 0.13
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:13476689 original size:20 final size:23
Alignment explanation
Indices: 13476658--13476748 Score: 102
Period size: 25 Copynumber: 4.0 Consensus size: 23
13476648 TGTATTTTTC
13476658 TTTATTTTTATTTTATTA-TTTA-
1 TTTA-TTTTATTTTATTACTTTAT
*
13476680 TTTA-TTTA-TTCATTACTTTAT
1 TTTATTTTATTTTATTACTTTAT
*
13476701 TTTATTTTATTATTCATTATTTTAT
1 TTTATTTTATT-TT-ATTACTTTAT
13476726 TTTATTTTATTTTATTA-TTTAT
1 TTTATTTTATTTTATTACTTTAT
13476748 T
1 T
13476749 ACTTTATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.10
20 8 0.13
21 4 0.07
22 14 0.23
23 5 0.08
24 3 0.05
25 20 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTATTTTATTTTATTACTTTAT
Found at i:13476730 original size:30 final size:30
Alignment explanation
Indices: 13476658--13476758 Score: 123
Period size: 30 Copynumber: 3.3 Consensus size: 30
13476648 TGTATTTTTC
*
13476658 TTTATTTTTATTTTATTAT-TTATTTATTTAT
1 TTTA-TTTTATTTTATTTTATTATTTA-TTAT
* *
13476689 TCATTACTTTATTTTATTTTATTATTCATTAT
1 T--TTATTTTATTTTATTTTATTATTTATTAT
*
13476721 TTTATTTTATTTTATTTTATTATTTATTAC
1 TTTATTTTATTTTATTTTATTATTTATTAT
13476751 TTTATTTT
1 TTTATTTT
13476759 GTTTGGGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
30 34 0.56
31 1 0.02
32 17 0.28
33 9 0.15
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTATTTTATTTTATTTTATTATTTATTAT
Found at i:13482592 original size:39 final size:39
Alignment explanation
Indices: 13482548--13482668 Score: 199
Period size: 39 Copynumber: 3.1 Consensus size: 39
13482538 AATTATATTA
*
13482548 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
13482587 CCAGCACGAAGCCTGCGGGACTTTAGCCTC-GATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAG-CTCGGATACATTT
* *
13482626 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
13482665 CCAG
1 CCAG
13482669 TGTCTTGCTT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
38 2 0.03
39 72 0.94
40 3 0.04
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCTCGGATACATTT
Found at i:13485369 original size:18 final size:20
Alignment explanation
Indices: 13485325--13485368 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
13485315 TTATAACAAC
*
13485325 AAGAGAGATTATCAAGCTTA
1 AAGAGATATTATCAAGCTTA
13485345 AAGAGATATTATCAAGCTTA
1 AAGAGATATTATCAAGCTTA
13485365 AAGA
1 AAGA
13485369 TCAATCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.18, T:0.25
Consensus pattern (20 bp):
AAGAGATATTATCAAGCTTA
Found at i:13487583 original size:19 final size:19
Alignment explanation
Indices: 13487534--13487583 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
13487524 AATAACAGTC
13487534 AATTATTCAGTAAAAATTA
1 AATTATTCAGTAAAAATTA
* * *
13487553 GA-TATACAGTAACAATTA
1 AATTATTCAGTAAAAATTA
13487571 AATTATTCAGTAA
1 AATTATTCAGTAA
13487584 TAGTCGAACT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (19 bp):
AATTATTCAGTAAAAATTA
Found at i:13487772 original size:53 final size:53
Alignment explanation
Indices: 13487707--13487827 Score: 197
Period size: 53 Copynumber: 2.3 Consensus size: 53
13487697 CCGGAACAGT
* *
13487707 AACAGTAACAGTAGCAGTACGGTACATAAAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
* * *
13487760 AACAGTAACAGTAACATTACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
13487813 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
13487828 GGTAACAGTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
Found at i:13487772 original size:59 final size:58
Alignment explanation
Indices: 13487701--13487837 Score: 185
Period size: 53 Copynumber: 2.4 Consensus size: 58
13487691 CCGAAGCCGG
*
13487701 AACAGTAACAGTAACAGTAGCAGTACGGTACATAAAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTAACAGTA-CAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
* *
13487760 AACAGTAACAGTAACA-T----TACGGTACACAGAGTACCTCATCGGAACAAATCTGA
1 AACAGTAACAGTAACAGTACAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
*
13487813 AACAGTAACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGT-ACAGTA
13487838 ACAATATCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
53 48 0.71
54 1 0.01
58 1 0.01
59 18 0.26
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (58 bp):
AACAGTAACAGTAACAGTACAGTACGGTACACAAAGTACCTCATCGGAACAAATCCGA
Found at i:13492098 original size:21 final size:22
Alignment explanation
Indices: 13492050--13492098 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
13492040 TAAAGTTTTT
* *
13492050 AAATTTTATTTAATATTTTTAT
1 AAATTTTATATAATATTTTTAC
* *
13492072 AGATTTTA-ATAATTTTTTTAC
1 AAATTTTATATAATATTTTTAC
13492093 AAATTT
1 AAATTT
13492099 ATCAAAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
AAATTTTATATAATATTTTTAC
Found at i:13492129 original size:18 final size:17
Alignment explanation
Indices: 13492108--13492150 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
13492098 TATCAAAAAA
*
13492108 TTAAAATTTATTTTTTAT
1 TTAAAAATTA-TTTTTAT
13492126 TTAAAAAATTATTTTTAT
1 TT-AAAAATTATTTTTAT
13492144 TTAAAAA
1 TTAAAAA
13492151 AAAGCTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 11 0.48
19 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAAAAATTATTTTTAT
Found at i:13493653 original size:13 final size:13
Alignment explanation
Indices: 13493635--13493659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13493625 GAAAATTAAA
13493635 AAAATGAAAAAAG
1 AAAATGAAAAAAG
13493648 AAAATGAAAAAA
1 AAAATGAAAAAA
13493660 TTGGCTGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAAAG
Found at i:13499441 original size:43 final size:42
Alignment explanation
Indices: 13499381--13499543 Score: 132
Period size: 43 Copynumber: 3.8 Consensus size: 42
13499371 AAGCTCGTAC
* * *
13499381 AATGCCAACATCCCAGACGTGGTCTTAAATGTAATCAAATAT
1 AATGCCAATATCCCAGACGTGGTCTTAAACGAAATCAAATAT
* * *
13499423 CAATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAAATAT
1 -AATGCCAATATCCCAGAC-GTGGTCTTAAACGAAATCAAATAT
* * * * * *
13499466 GATGCCAATATCCCAGACATGGTCTTACACATAAAACATAAGT-C
1 AATGCCAATATCCCAGACGTGGTCTTAAAC-GAAATCA-AA-TAT
* * *
13499510 GATGCCAACATCCCAGACGTGGTCTTACACGAAA
1 AATGCCAATATCCCAGACGTGGTCTTAAACGAAA
13499544 ACACATATCG
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.25
43 42 0.42
44 31 0.31
45 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (42 bp):
AATGCCAATATCCCAGACGTGGTCTTAAACGAAATCAAATAT
Found at i:13500889 original size:90 final size:90
Alignment explanation
Indices: 13500776--13500942 Score: 264
Period size: 90 Copynumber: 1.9 Consensus size: 90
13500766 GGGCTATTAA
* *
13500776 AGCTAAACAATTAAATGAAAAGAAAAATTTAAATATATGTTTGTTTCATTTAAAATAGCTTTTTT
1 AGCTAAACAATTAAAAGAAAAGAAAAATTCAAATATATGTTTGTTTCATTTAAAATAGCTTTTTT
13500841 GAAATATTTTCAAGAAAGTGAATTT
66 GAAATATTTTCAAGAAAGTGAATTT
* * * *
13500866 AGCT-AACTAATTAAAAGACAAGAAAAATTCAAATGTATGTTTGTTTCGTTTAAAATATCTTTTT
1 AGCTAAAC-AATTAAAAGAAAAGAAAAATTCAAATATATGTTTGTTTCATTTAAAATAGCTTTTT
13500930 TGAAATATTTTCA
65 TGAAATATTTTCA
13500943 GGGAATCTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 3 0.04
90 67 0.96
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.40
Consensus pattern (90 bp):
AGCTAAACAATTAAAAGAAAAGAAAAATTCAAATATATGTTTGTTTCATTTAAAATAGCTTTTTT
GAAATATTTTCAAGAAAGTGAATTT
Found at i:13500968 original size:32 final size:33
Alignment explanation
Indices: 13500932--13501003 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
13500922 ATCTTTTTTG
** *
13500932 AAATATTTT-CAGGGAATCTACCAAACAACAGA
1 AAATATTTTACACAGAATCAACCAAACAACAGA
* *
13500964 AAATATTTTACACAGATTCAACCAAACAGCAGA
1 AAATATTTTACACAGAATCAACCAAACAACAGA
13500997 AAATATT
1 AAATATT
13501004 AGTTTTTCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 9 0.26
33 25 0.74
ACGTcount: A:0.49, C:0.18, G:0.10, T:0.24
Consensus pattern (33 bp):
AAATATTTTACACAGAATCAACCAAACAACAGA
Found at i:13508979 original size:15 final size:15
Alignment explanation
Indices: 13508940--13508983 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13508930 GTGTTGTAAA
*
13508940 TTGGATTTCCTTATC
1 TTGGATTTCTTTATC
* * *
13508955 ATGAAATTCTTTATC
1 TTGGATTTCTTTATC
13508970 TTGGATTTCTTTAT
1 TTGGATTTCTTTAT
13508984 TCTGGGCTTC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:13511543 original size:23 final size:23
Alignment explanation
Indices: 13511517--13511591 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
13511507 ACTTGATGAG
13511517 ATTTATGAGTGCATGATAAGTGC
1 ATTTATGAGTGCATGATAAGTGC
* * *
13511540 ATTTATTGA-TGCCTAAT-TGTATG-
1 ATTTA-TGAGTGCATGATAAG--TGC
13511563 ATTTATGAGTGCATGATAAGTGC
1 ATTTATGAGTGCATGATAAGTGC
13511586 ATTTAT
1 ATTTAT
13511592 TGATGGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
22 6 0.15
23 28 0.70
24 6 0.15
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (23 bp):
ATTTATGAGTGCATGATAAGTGC
Found at i:13514391 original size:19 final size:19
Alignment explanation
Indices: 13514369--13514405 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13514359 AACTAAGTGA
13514369 AATTAATGC-CTAGATCTGT
1 AATTAA-GCACTAGATCTGT
13514388 AATTAAGCACTAGATCTG
1 AATTAAGCACTAGATCTG
13514406 AAGTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
AATTAAGCACTAGATCTGT
Found at i:13514885 original size:18 final size:17
Alignment explanation
Indices: 13514855--13514888 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13514845 ATACATATAA
*
13514855 ATATTGTGTGCGAGCCT
1 ATATTGTGAGCGAGCCT
13514872 ATATATGTGAGCGAGCC
1 ATAT-TGTGAGCGAGCC
13514889 ATACATTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (17 bp):
ATATTGTGAGCGAGCCT
Found at i:13515032 original size:17 final size:18
Alignment explanation
Indices: 13515010--13515044 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13515000 TATACGAGCT
*
13515010 TATATG-CATGTGTGAAC
1 TATATGTCATGTGCGAAC
13515027 TATATGTCATGTGCGAAC
1 TATATGTCATGTGCGAAC
13515045 CCATACATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (18 bp):
TATATGTCATGTGCGAAC
Found at i:13517735 original size:17 final size:17
Alignment explanation
Indices: 13517715--13517757 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
13517705 AGGGTAGGAT
*
13517715 AAGAGCCAGGGGGTTTG
1 AAGAGCCAGGGGGTTCG
13517732 AAGAGCCAGGGGGTTCG
1 AAGAGCCAGGGGGTTCG
*
13517749 AAAAGCCAG
1 AAGAGCCAG
13517758 TTGCTAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.16, G:0.42, T:0.12
Consensus pattern (17 bp):
AAGAGCCAGGGGGTTCG
Found at i:13530777 original size:52 final size:52
Alignment explanation
Indices: 13530699--13530801 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
13530689 TTGTTAAAAC
13530699 TACAAGGAATGAAAAGGAGGGAGTAAGCATAAATGCTTAGTAAGTTCACATA
1 TACAAGGAATGAAAAGGAGGGAGTAAGCATAAATGCTTAGTAAGTTCACATA
*
13530751 TACAAGGAATGAAAAGGAGGGAGTAAGCATAAATGCTTAGTACGTTCACAT
1 TACAAGGAATGAAAAGGAGGGAGTAAGCATAAATGCTTAGTAAGTTCACAT
13530802 GAAAATAGCA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.43, C:0.11, G:0.25, T:0.21
Consensus pattern (52 bp):
TACAAGGAATGAAAAGGAGGGAGTAAGCATAAATGCTTAGTAAGTTCACATA
Found at i:13531238 original size:47 final size:47
Alignment explanation
Indices: 13531169--13531337 Score: 177
Period size: 47 Copynumber: 3.6 Consensus size: 47
13531159 ATCCATAAGT
13531169 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
* * * ***
13531216 GAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-T-CCC
*
13531262 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
* * *
13531309 AAACTCGGACTCAAATCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
13531338 CATTCGCATC
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 27 0.28
47 53 0.54
48 1 0.01
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
Found at i:13531238 original size:93 final size:93
Alignment explanation
Indices: 13531123--13531387 Score: 458
Period size: 93 Copynumber: 2.8 Consensus size: 93
13531113 GCCCATAAGT
* * *
13531123 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13531188 CGAGCTCGGATGCCTAGTTACATCTCCC
66 CGAGCTCGGATGCCTAGTTACATCTCCC
*
13531216 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13531281 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCCC
* *
13531309 AAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
13531374 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
13531388 CAAATATCCT
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 163 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCCC
Found at i:13531383 original size:46 final size:46
Alignment explanation
Indices: 13531115--13531383 Score: 259
Period size: 46 Copynumber: 5.8 Consensus size: 46
13531105 TGTAACCCGC
* *
13531115 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13531161 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*** * *
13531211 -C-T-CCCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13531254 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
13531304 CTC-TCA---AACTCGGACTCAAATCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
13531347 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13531384 TGCCCAAATA
Statistics
Matches: 182, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
42 5 0.03
43 11 0.06
44 3 0.02
45 1 0.01
46 90 0.49
47 53 0.29
48 1 0.01
49 3 0.02
50 10 0.05
51 5 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:13533818 original size:30 final size:30
Alignment explanation
Indices: 13533783--13533862 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
13533773 CAAGAAAATC
*
13533783 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
13533813 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* * *
13533843 GGATAGAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
13533863 CGATACTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 38 0.90
31 2 0.05
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Found at i:13533822 original size:15 final size:15
Alignment explanation
Indices: 13533783--13533853 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
13533773 CAAGAAAATC
13533783 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
13533798 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
13533813 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
13533828 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
* *
13533843 GGATAGAGAAA
1 GAATAAAGAAA
13533854 CCCAAGATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
14 1 0.02
15 44 0.96
16 1 0.02
ACGTcount: A:0.56, C:0.13, G:0.20, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:13533862 original size:15 final size:15
Alignment explanation
Indices: 13533785--13533862 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
13533775 AGAAAATCGA
13533785 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13533800 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13533814 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13533829 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
* *
13533845 ATAGAGAAACCCAAG
1 ATAAAGAAATCCAAG
13533860 ATA
1 ATA
13533863 CGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 4 0.08
15 44 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13536888 original size:46 final size:46
Alignment explanation
Indices: 13536821--13536995 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
13536811 TGTAACCCGC
* *
13536821 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * *
13536867 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * * * *
13536917 CTC-TCA---AACTCGGACTCAAATCAGCGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
*
13536960 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
13536996 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 59 0.57
47 23 0.22
48 1 0.01
49 1 0.01
50 8 0.08
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:13536989 original size:93 final size:93
Alignment explanation
Indices: 13536830--13537000 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
13536820 CCCATAAGTG
* * * * *
13536830 AACTCGGACTCAACTCAATGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
13536895 GA-TCTCGGATGCCTAGTTACATCTCTCA
66 GAGT-TCGGATGCCTAGTTACATCTCTCA
* *
13536923 AACTCGGACTCAAATCAGCGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
13536988 GAGTTCGGATGCC
66 GAGTTCGGATGCC
13537001 CAAATATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
AACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCTCA
Found at i:13541538 original size:180 final size:181
Alignment explanation
Indices: 13541233--13541595 Score: 665
Period size: 180 Copynumber: 2.0 Consensus size: 181
13541223 TGTATCTCTT
*
13541233 AAAAGGGAAATGATACATTTTATACATTCCTCGGGATTCAATGACAATTCATCAAATACTCATAT
1 AAAAGGGAAACGATACATTTTATACATTCCTCGGGATTCAATGACAATTCATCAAATACTCATAT
*
13541298 TGTCTTTTCTAACCAAAACTCAGCCCTTTCAGCATCATCATTTGTTGTAGCTCGGAACTCTTCGG
66 TGTCTTTTCTAACCAAAACTCAGCCCTTTCAGCATCATCATTTGTTGTAGCTCAGAACTCTTCGG
* *
13541363 CCC-TACTTTCTAATATTGTCAACTGGTGGTCTACTTAACTGGACTGATTC
131 CCCATACTTTCTAATATTGTCAACTGGTGGTCTACTTAACTGAACTAATTC
*
13541413 AAAAGGGAAACGATACATTTTATGCATTCCTCGGGATTCAATGACAATTCATCAAATACTCATAT
1 AAAAGGGAAACGATACATTTTATACATTCCTCGGGATTCAATGACAATTCATCAAATACTCATAT
13541478 TGTCTTTTCTAACCAAAACTCAGCCCTTTCAGCATCATCATTTGTTGTAGCTCAGAACTCTTCGG
66 TGTCTTTTCTAACCAAAACTCAGCCCTTTCAGCATCATCATTTGTTGTAGCTCAGAACTCTTCGG
13541543 CCCTATACTTTCTAATATTGTCAACTGGTGGTCTACTTAACTGAACTAATTC
131 CCC-ATACTTTCTAATATTGTCAACTGGTGGTCTACTTAACTGAACTAATTC
13541595 A
1 A
13541596 CTGGTGGCAT
Statistics
Matches: 176, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
180 130 0.74
182 46 0.26
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (181 bp):
AAAAGGGAAACGATACATTTTATACATTCCTCGGGATTCAATGACAATTCATCAAATACTCATAT
TGTCTTTTCTAACCAAAACTCAGCCCTTTCAGCATCATCATTTGTTGTAGCTCAGAACTCTTCGG
CCCATACTTTCTAATATTGTCAACTGGTGGTCTACTTAACTGAACTAATTC
Found at i:13551767 original size:45 final size:45
Alignment explanation
Indices: 13551710--13551795 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
13551700 TATAATCCTC
* *
13551710 ATTCCTGTTATCAACCTCATCAAAATATGGTTTTAATCGGGAGTT
1 ATTCCTGCTATCAACCTCATCAAAATAGGGTTTTAATCGGGAGTT
*
13551755 ATTCCTGCTATCAATCTCATCAAAATAGGGTTTTAATCGGG
1 ATTCCTGCTATCAACCTCATCAAAATAGGGTTTTAATCGGG
13551796 TGTTGTTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (45 bp):
ATTCCTGCTATCAACCTCATCAAAATAGGGTTTTAATCGGGAGTT
Found at i:13566760 original size:37 final size:36
Alignment explanation
Indices: 13566699--13566774 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
13566689 AGATAATACT
13566699 TTAATATTAAATTAAAAAATACTATT-AAAATAAGTA
1 TTAATATTAAATTAAAAAATACTATTAAAAATAA-TA
13566735 TTAA-ATTAAATTTAATAATAA-ACTATTAAAAATAATA
1 TTAATATTAAA-TTAA-AA-AATACTATTAAAAATAATA
13566772 TTA
1 TTA
13566775 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
35 6 0.17
36 8 0.22
37 13 0.36
38 9 0.25
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (36 bp):
TTAATATTAAATTAAAAAATACTATTAAAAATAATA
Found at i:13571647 original size:27 final size:26
Alignment explanation
Indices: 13571616--13571793 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
13571606 TAAATTGTAC
13571616 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
13571643 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
13571669 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
13571697 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
13571725 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
13571752 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
13571779 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
13571794 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:13571732 original size:82 final size:81
Alignment explanation
Indices: 13571617--13571772 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
13571607 AAATTGTACA
* * *
13571617 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
13571681 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
13571698 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
13571763 TGCGAGTTGA
65 TGCGAATTGA
13571773 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:13571784 original size:82 final size:81
Alignment explanation
Indices: 13571613--13571793 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
13571603 GATTAAATTG
* * *
13571613 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
13571678 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
13571694 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
13571758 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
13571776 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
13571794 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:13603227 original size:16 final size:16
Alignment explanation
Indices: 13603206--13603236 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13603196 TTACAGATTA
*
13603206 AATAACAATTTCTTTG
1 AATAACAATCTCTTTG
13603222 AATAACAATCTCTTT
1 AATAACAATCTCTTT
13603237 ATTGAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (16 bp):
AATAACAATCTCTTTG
Found at i:13610252 original size:24 final size:23
Alignment explanation
Indices: 13610189--13610304 Score: 112
Period size: 24 Copynumber: 4.9 Consensus size: 23
13610179 GGACTCACCG
*
13610189 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACTG-T-T-T
* *
13610215 CAGCTCTTAAGAGCTTACTGTTCT
1 CAGCTCGTATGAGCTTACTGTT-T
13610239 CAGCTCGTATGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTTT
*
13610262 -AGCTCTTCA-GAGCTTACTGTTT
1 CAGCTCGT-ATGAGCTTACTGTTT
*
13610284 CAGCT-GAATAGAGCTTACTGT
1 CAGCTCGTAT-GAGCTTACTGT
13610305 GTATCAACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
21 1 0.01
22 19 0.25
23 17 0.22
24 22 0.29
25 1 0.01
26 17 0.22
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:13610280 original size:46 final size:48
Alignment explanation
Indices: 13610189--13610310 Score: 153
Period size: 46 Copynumber: 2.6 Consensus size: 48
13610179 GGACTCACCG
*
13610189 CAGCTCGTATGAGCTTACCGATATATCAGCTCTTAAGAGCTTACTGTTCT
1 CAGCTCGTATGAGCTTACTG-TATATCAGCTCTTAAGAGCTTACTGTT-T
*
13610239 CAGCTCGTATGAGCTTACTGT-T-T-AGCTCTTCAGAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACTGTATATCAGCTCTTAAGAGCTTACTGTTT
* *
13610284 CAGCT-GAATAGAGCTTACTGTGTATCA
1 CAGCTCGTAT-GAGCTTACTGTATATCA
13610311 ACTTAGGAGG
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
44 3 0.05
45 17 0.26
46 21 0.32
47 2 0.03
48 2 0.03
49 1 0.02
50 19 0.29
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (48 bp):
CAGCTCGTATGAGCTTACTGTATATCAGCTCTTAAGAGCTTACTGTTT
Found at i:13610296 original size:23 final size:23
Alignment explanation
Indices: 13610224--13610304 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 23
13610214 TCAGCTCTTA
*
13610224 AGAGCTTACTGTTCTCAGCTCGTAT
1 AGAGCTTACTGTT-TCAGCT-GAAT
**
13610249 -GAGCTTACTGTTT-AGCT-CTT
1 AGAGCTTACTGTTTCAGCTGAAT
13610269 CAGAGCTTACTGTTTCAGCTGAAT
1 -AGAGCTTACTGTTTCAGCTGAAT
13610293 AGAGCTTACTGT
1 AGAGCTTACTGT
13610305 GTATCAACTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.02
22 17 0.35
23 17 0.35
24 13 0.27
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTGAAT
Found at i:13617221 original size:39 final size:39
Alignment explanation
Indices: 13617177--13617255 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13617167 CATTTTAGGG
*
13617177 AATGCCGGATTGACCTTTTGGGAACCTTTTCTTTGGAAA
1 AATGCCGAATTGACCTTTTGGGAACCTTTTCTTTGGAAA
13617216 AATGCCGAATTGACCTTTTGGGAACCTTTTCTTTGGAAA
1 AATGCCGAATTGACCTTTTGGGAACCTTTTCTTTGGAAA
13617255 A
1 A
13617256 CCAATTAGTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (39 bp):
AATGCCGAATTGACCTTTTGGGAACCTTTTCTTTGGAAA
Found at i:13628555 original size:19 final size:19
Alignment explanation
Indices: 13628530--13628618 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
13628520 ATAATCTTCA
*
13628530 ATGATATGCAATCTTCGAT
1 ATGATATGCAATCTTAGAT
*
13628549 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13628568 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
13628585 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
13628603 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
13628619 AAAGATATGA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
17 16 0.25
18 16 0.25
19 31 0.49
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:13628570 original size:14 final size:15
Alignment explanation
Indices: 13628551--13628606 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
13628541 TCTTCGATGT
13628551 GATATG-CAATCTTA
1 GATATGACAATCTTA
13628565 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
13628582 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
13628600 GATATGA
1 GATATGA
13628607 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:13628599 original size:35 final size:37
Alignment explanation
Indices: 13628538--13628618 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
13628528 CAATGATATG
* *
13628538 CAATCTTCGATGTGATATGCAATCTTAGATATG-ATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGAATA
13628574 CAATCTTAGATATGAT-TGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGA-ATA
13628611 CAATCTTA
1 CAATCTTA
13628619 AAAGATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 16 0.39
36 14 0.34
37 11 0.27
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGAATA
Found at i:13634628 original size:8 final size:8
Alignment explanation
Indices: 13634617--13634655 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
13634607 CTTCTATTTC
13634617 AAAAAAAG
1 AAAAAAAG
13634625 AAAAAAAG
1 AAAAAAAG
13634633 AAGAAAAAAG
1 -A-AAAAAAG
*
13634643 AAGAAAAG
1 AAAAAAAG
13634651 AAAAA
1 AAAAA
13634656 GAAAAGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 18 0.67
9 2 0.07
10 7 0.26
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13634636 original size:11 final size:10
Alignment explanation
Indices: 13634617--13634666 Score: 64
Period size: 11 Copynumber: 4.7 Consensus size: 10
13634607 CTTCTATTTC
13634617 AAAAAAAGAA
1 AAAAAAAGAA
13634627 AAAAAGAAGAA
1 AAAAA-AAGAA
*
13634638 AAAAGAAGAA
1 AAAAAAAGAA
13634648 AAGAAAAAGAA
1 AA-AAAAAGAA
13634659 AAGAAAAA
1 AA-AAAAA
13634667 TGGAGAGGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 12 0.33
11 24 0.67
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:13634641 original size:18 final size:18
Alignment explanation
Indices: 13634617--13634666 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
13634607 CTTCTATTTC
13634617 AAAAAAAGAAAAAAAGAA
1 AAAAAAAGAAAAAAAGAA
* *
13634635 GAAAAAAGAAGAAAAGAA
1 AAAAAAAGAAAAAAAGAA
13634653 AAAGAAAAGAAAAA
1 AAA-AAAAGAAAAA
13634667 TGGAGAGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAGAA
Found at i:13634646 original size:21 final size:20
Alignment explanation
Indices: 13634617--13634665 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
13634607 CTTCTATTTC
13634617 AAAAAAAGAAAA-AAAGAAGA
1 AAAAAAAGAAAAGAAA-AAGA
13634637 AAAAAGAAGAAAAGAAAAAGA
1 AAAAA-AAGAAAAGAAAAAGA
13634658 AAAGAAAA
1 AAA-AAAA
13634666 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAAAGA
Found at i:13646198 original size:41 final size:39
Alignment explanation
Indices: 13646135--13646255 Score: 108
Period size: 39 Copynumber: 3.1 Consensus size: 39
13646125 ATAAAAATAA
*
13646135 TAAAAATAATATA-ATAAGTAAAAAATAAATAATATATAG
1 TAAAAATAATACATATAA-TAAAAAATAAATAATATATAG
*
13646174 TAAAAATATATAACATATAATAAAATATAAAT-ATA-ATAG
1 TAAAAATA-AT-ACATATAATAAAAAATAAATAATATATAG
* * * * *
13646213 -AATAAATAATATATATATTAAAAAA-ATATAACATATAA
1 TAA-AAATAATACATATAATAAAAAATAAATAATATATAG
13646251 TAAAA
1 TAAAA
13646256 TTTATAAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
36 3 0.04
37 14 0.21
38 9 0.13
39 19 0.28
40 5 0.07
41 13 0.19
42 4 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (39 bp):
TAAAAATAATACATATAATAAAAAATAAATAATATATAG
Found at i:13646248 original size:20 final size:19
Alignment explanation
Indices: 13646120--13646255 Score: 102
Period size: 20 Copynumber: 7.1 Consensus size: 19
13646110 TATGATAGAT
*
13646120 AAAATATAAAAATAATAAA
1 AAAATATAAATATAATAAA
*
13646139 AATAATAT-AATA-AGTAAA
1 AA-AATATAAATATAATAAA
* *
13646157 AAATAAATAATATATAGTAAA
1 AAA-ATATAA-ATATAATAAA
*
13646178 AATATATAACATATAAT---
1 AAAATATAA-ATATAATAAA
13646195 AAAATATAAATATAATAGAA
1 AAAATATAAATATAATA-AA
* * *
13646215 TAAATAATATATATATTAAA
1 AAAAT-ATAAATATAATAAA
13646235 AAAATATAACATATAATAAA
1 AAAATATAA-ATATAATAAA
13646255 A
1 A
13646256 TTTATAAAAA
Statistics
Matches: 92, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.08
17 9 0.10
18 10 0.11
19 9 0.10
20 39 0.42
21 18 0.20
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAATATAAATATAATAAA
Found at i:13646255 original size:17 final size:17
Alignment explanation
Indices: 13646181--13646256 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 17
13646171 TAGTAAAAAT
13646181 ATATAACATATAATAAA
1 ATATAACATATAATAAA
13646198 ATATAA-ATATAATAGAATAA
1 ATATAACATATAAT---A-AA
* *
13646218 ATAATATATATATTAAAAAA
1 AT-ATA-ACATA-TAATAAA
13646238 ATATAACATATAATAAA
1 ATATAACATATAATAAA
13646255 AT
1 AT
13646257 TTATAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
16 7 0.15
17 14 0.29
18 4 0.08
19 4 0.08
20 8 0.17
21 4 0.08
22 1 0.02
23 3 0.06
24 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (17 bp):
ATATAACATATAATAAA
Found at i:13646261 original size:19 final size:19
Alignment explanation
Indices: 13646118--13646262 Score: 90
Period size: 19 Copynumber: 7.7 Consensus size: 19
13646108 TATATGATAG
13646118 ATAAAATATA-AA-A-ATA
1 ATAAAATATATAACATATA
*
13646134 ATAAAAATAATATAATA-AGTA
1 AT-AAAAT-ATATAACATA-TA
* *
13646155 A-AAAATAAATAATATATA
1 ATAAAATATATAACATATA
*
13646173 GTAAAAATATATAACATATA
1 AT-AAAATATATAACATATA
13646193 AT-AAA-ATATAA-ATATA
1 ATAAAATATATAACATATA
* * *
13646209 ATAGAATAAATAATATATA
1 ATAAAATATATAACATATA
*
13646228 TATTAAAAAAATATAACATATA
1 -A-T-AAAATATATAACATATA
*
13646250 ATAAAATTTATAA
1 ATAAAATATATAA
13646263 AAAAATGTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 25
0.73 0.09 0.18
Matches are distributed among these distances:
16 9 0.09
17 13 0.13
18 20 0.20
19 22 0.22
20 20 0.20
21 5 0.05
22 13 0.13
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATATATAACATATA
Found at i:13646263 original size:59 final size:61
Alignment explanation
Indices: 13646120--13646256 Score: 189
Period size: 57 Copynumber: 2.4 Consensus size: 61
13646110 TATGATAGAT
*
13646120 AAAATATAA-AAATAATAAAA-AT-AATATAATAAGTAAAAAATAAATAATATATAGTAAA
1 AAAATATAACATATAATAAAATATAAATATAATAAGTAAAAAATAAATAATATATAGTAAA
* * *
13646178 AATATATAACATATAATAAAATATAAATATAAT-AG-AATAAAT-AAT-ATATATATTAAA
1 AAAATATAACATATAATAAAATATAAATATAATAAGTAAAAAATAAATAATATATAGTAAA
13646235 AAAATATAACATATAATAAAAT
1 AAAATATAACATATAATAAAAT
13646257 TTATAAAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
57 32 0.45
58 11 0.15
59 16 0.23
60 4 0.06
61 8 0.11
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (61 bp):
AAAATATAACATATAATAAAATATAAATATAATAAGTAAAAAATAAATAATATATAGTAAA
Found at i:13668523 original size:18 final size:19
Alignment explanation
Indices: 13668475--13668526 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
13668465 AAAATAAAGA
*
13668475 AAAAGCAAAAAGAATAGAAGC
1 AAAAG-AAAAA-AACAGAAGC
13668496 AAAAGAAAAAAACAGAAGC
1 AAAAGAAAAAAACAGAAGC
*
13668515 AAAGGAAAAAAA
1 AAAAGAAAAAAA
13668527 TAACTGTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 19 0.66
20 5 0.17
21 5 0.17
ACGTcount: A:0.73, C:0.08, G:0.17, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAAAACAGAAGC
Found at i:13671124 original size:24 final size:24
Alignment explanation
Indices: 13671086--13671222 Score: 72
Period size: 23 Copynumber: 5.8 Consensus size: 24
13671076 TATCGATATA
* *
13671086 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCATATGAGCTTACTGTTT
* *
13671110 TTAGCTCAT-TGGAGCTTACTG-AT
1 TCAGCTCATAT-GAGCTTACTGTTT
*
13671133 TCAGCTCGTATGAGCTTACTG--T
1 TCAGCTCATATGAGCTTACTGTTT
* * *
13671155 TCAGCTTGATA-GAGTTTATTGTTT
1 TCAGC-TCATATGAGCTTACTGTTT
* * *
13671179 T-AGCTCA-ATAAAGCTTACTATTCA
1 TCAGCTCATAT-GAGCTTACTGTT-T
*
13671203 TCAGCTCAGTAGGAGCTTAC
1 TCAGCTCA-TATGAGCTTAC
13671223 CGATCATGGC
Statistics
Matches: 84, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
21 1 0.01
22 16 0.19
23 32 0.38
24 21 0.25
25 6 0.07
26 7 0.08
27 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (24 bp):
TCAGCTCATATGAGCTTACTGTTT
Found at i:13671147 original size:23 final size:22
Alignment explanation
Indices: 13671086--13671160 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 22
13671076 TATCGATATA
*
13671086 TCAGCTCGTAAGAGCTTACTGTTT
1 TCAGCTCGTATGAGCTTACTG--T
* *
13671110 TTAGCTCAT-TGGAGCTTACTGAT
1 TCAGCTCGTAT-GAGCTTACTG-T
13671133 TCAGCTCGTATGAGCTTACTGT
1 TCAGCTCGTATGAGCTTACTGT
13671155 TCAGCT
1 TCAGCT
13671161 TGATAGAGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.16
23 18 0.42
24 18 0.42
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (22 bp):
TCAGCTCGTATGAGCTTACTGT
Found at i:13682209 original size:15 final size:15
Alignment explanation
Indices: 13682189--13682225 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
13682179 TAGTTTTTAT
13682189 CAAAAATCCTAAACC
1 CAAAAATCCTAAACC
*
13682204 CAAAAACCCTAAACC
1 CAAAAATCCTAAACC
*
13682219 TAAAAAT
1 CAAAAAT
13682226 ATTAAAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (15 bp):
CAAAAATCCTAAACC
Found at i:13684323 original size:21 final size:21
Alignment explanation
Indices: 13684299--13684350 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
13684289 ACATATTGAG
*
13684299 CCAAAAATGCCTATATCCCTT
1 CCAAAAATGCCTAGATCCCTT
*
13684320 CCAAAAATGCCTAGATTCCTT
1 CCAAAAATGCCTAGATCCCTT
**
13684341 TTAAAAATGC
1 CCAAAAATGC
13684351 ACCACAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (21 bp):
CCAAAAATGCCTAGATCCCTT
Found at i:13684777 original size:15 final size:16
Alignment explanation
Indices: 13684757--13684789 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13684747 AGTAACAAGA
*
13684757 ATTTAATTGTT-AAAT
1 ATTTAATTATTCAAAT
13684772 ATTTAATTATTCAAAT
1 ATTTAATTATTCAAAT
13684788 AT
1 AT
13684790 CATGTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTAATTATTCAAAT
Found at i:13685459 original size:35 final size:35
Alignment explanation
Indices: 13685413--13685481 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
13685403 TTATAAATAC
* *
13685413 CGCAAAAATCGCCGCTATAGATAACGCCGCTAAAA
1 CGCAAAAATCGCCACTATAAATAACGCCGCTAAAA
*
13685448 CGCAAAAATCGCCACTATAAATAATGCCGCTAAA
1 CGCAAAAATCGCCACTATAAATAACGCCGCTAAA
13685482 GGTCATGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (35 bp):
CGCAAAAATCGCCACTATAAATAACGCCGCTAAAA
Found at i:13685573 original size:43 final size:43
Alignment explanation
Indices: 13685473--13685694 Score: 256
Period size: 42 Copynumber: 5.3 Consensus size: 43
13685463 TATAAATAAT
* * * *
13685473 GCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCC-AAAAAT
1 GCCGCTAAAGATCATGACCTTTAGCGACGCTTTCCCAAAAAAC
* *
13685515 GCCTCTAAA-AGTCATGACCTTTAGCTACGCTTTCCCAAAAAAC
1 GCCGCTAAAGA-TCATGACCTTTAGCGACGCTTTCCCAAAAAAC
* ** * *
13685558 ACCGCTAAAGATCATGACCTTTAGTAACGCTATCCCCAAAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGACGCTTTCCCAAAAAAC
*
13685601 GCCGCTAAAGA-CATGACCTTTAGCGACGTTTTCCCAAAAAA-
1 GCCGCTAAAGATCATGACCTTTAGCGACGCTTTCCCAAAAAAC
* * *
13685642 ACCGCTAAAGA-CATGATCTTTAGCGACGCTTTCCCCAAAAAC
1 GCCGCTAAAGATCATGACCTTTAGCGACGCTTTCCCAAAAAAC
*
13685684 GCCACTAAAGA
1 GCCGCTAAAGA
13685695 CCATATATAT
Statistics
Matches: 152, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
41 37 0.24
42 64 0.42
43 50 0.33
44 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGATCATGACCTTTAGCGACGCTTTCCCAAAAAAC
Found at i:13685617 original size:85 final size:83
Alignment explanation
Indices: 13685474--13685695 Score: 284
Period size: 85 Copynumber: 2.6 Consensus size: 83
13685464 ATAAATAATG
* * * * * * *
13685474 CCGCTAAAGGTCATGACTTTTAGCGGCGCTTTCCCAAAAATGCCTCTAAAAGTCATGACCTTTAG
1 CCGCTAAAGATCATGACCTTTAGCGACGCTTCCCCAAAAACGCCACT-AAAGACATGACCTTTAG
*
13685539 CTACGCTTTCCCAAAAAACA
65 CGACGCTTTCCCAAAAAA-A
** *
13685559 CCGCTAAAGATCATGACCTTTAGTAACGCTATCCCCAAAAACGCCGCTAAAGACATGACCTTTAG
1 CCGCTAAAGATCATGACCTTTAGCGACGCT-TCCCCAAAAACGCCACTAAAGACATGACCTTTAG
*
13685624 CGACGTTTTCCCAAAAAAA
65 CGACGCTTTCCCAAAAAAA
*
13685643 CCGCTAAAGA-CATGATCTTTAGCGACGCTTTCCCCAAAAACGCCACTAAAGAC
1 CCGCTAAAGATCATGACCTTTAGCGACGC-TTCCCCAAAAACGCCACTAAAGAC
13685696 CATATATATT
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
83 37 0.31
84 12 0.10
85 57 0.47
86 14 0.12
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (83 bp):
CCGCTAAAGATCATGACCTTTAGCGACGCTTCCCCAAAAACGCCACTAAAGACATGACCTTTAGC
GACGCTTTCCCAAAAAAA
Found at i:13687549 original size:21 final size:21
Alignment explanation
Indices: 13687509--13687549 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13687499 TCACATTTGC
* *
13687509 CTCTTTTGCTTTAAGTTCCTT
1 CTCTCTTGCTTTAAGATCCTT
*
13687530 CTCTCTTGCTTTTAGATCCT
1 CTCTCTTGCTTTAAGATCCT
13687550 AGATTTGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.10, T:0.54
Consensus pattern (21 bp):
CTCTCTTGCTTTAAGATCCTT
Found at i:13692737 original size:31 final size:30
Alignment explanation
Indices: 13692681--13692740 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
13692671 TGTAAGGCTA
*
13692681 TTAATTATAATTTATTAAATAAAAATAATC
1 TTAATTAAAATTTATTAAATAAAAATAATC
*
13692711 TTAATTAAAATATTATTTTAAT-AAAATAAT
1 TTAATTAAAAT-TTA-TTAAATAAAAATAAT
13692741 TAAATTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 10 0.38
31 11 0.42
32 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
TTAATTAAAATTTATTAAATAAAAATAATC
Found at i:13693546 original size:5 final size:5
Alignment explanation
Indices: 13693536--13693565 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
13693526 GGAGCGAGCG
13693536 AGGGA AGGGA AGGGA AGGGA AGGG- AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
13693566 AGATAGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:13693618 original size:5 final size:5
Alignment explanation
Indices: 13693610--13693640 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
13693600 TGGTTGGATT
13693610 GGTCA GGTCA GGTCA GGTCA GGTCA GGTCA G
1 GGTCA GGTCA GGTCA GGTCA GGTCA GGTCA G
13693641 TGAGCGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.19
Consensus pattern (5 bp):
GGTCA
Found at i:13705647 original size:22 final size:22
Alignment explanation
Indices: 13705619--13705660 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
13705609 AAAGAGAAAG
13705619 TTATTAAAGAGAGTCTACAAAC
1 TTATTAAAGAGAGTCTACAAAC
13705641 TTATTAAAGAGAGTCTACAA
1 TTATTAAAGAGAGTCTACAA
13705661 GCTATGCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (22 bp):
TTATTAAAGAGAGTCTACAAAC
Found at i:13720772 original size:40 final size:39
Alignment explanation
Indices: 13720674--13720896 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
13720664 TCCTCGTTCA
* * ** * *
13720674 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
13720713 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
13720752 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
13720792 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
13720832 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
13720873 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
13720897 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:13720830 original size:80 final size:79
Alignment explanation
Indices: 13720672--13720896 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
13720662 GCTCCTCGTT
* * ** * *
13720672 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
13720737 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
13720751 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
13720816 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
13720831 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
13720894 GGA
63 GGA
13720897 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:13720896 original size:120 final size:119
Alignment explanation
Indices: 13720674--13720896 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
13720664 TCCTCGTTCA
* * *
13720674 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
13720739 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
13720793 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
13720857 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
13720897 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:13723579 original size:50 final size:50
Alignment explanation
Indices: 13723503--13723605 Score: 188
Period size: 50 Copynumber: 2.1 Consensus size: 50
13723493 ATGTCGCCAT
*
13723503 ATTTTTAAAGCAAACACGATGACAGCTAGTTCGAGATCATGGGTTGGATA
1 ATTTTTAAAGCAAACACGATGACAGCTAGTTCGAGATCATGGGTCGGATA
*
13723553 ATTTTTAAAGCAAACACGATGGCAGCTAGTTCGAGATCATGGGTCGGATA
1 ATTTTTAAAGCAAACACGATGACAGCTAGTTCGAGATCATGGGTCGGATA
13723603 ATT
1 ATT
13723606 CCTCTCGTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (50 bp):
ATTTTTAAAGCAAACACGATGACAGCTAGTTCGAGATCATGGGTCGGATA
Found at i:13729109 original size:22 final size:22
Alignment explanation
Indices: 13729070--13729114 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13729060 TGAATAAACC
* *
13729070 AAATAAACTTTATTTCTGCAAA
1 AAATAAACTTAATATCTGCAAA
*
13729092 AAATAAACTTAATATCTGTAAA
1 AAATAAACTTAATATCTGCAAA
13729114 A
1 A
13729115 TGATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATAAACTTAATATCTGCAAA
Found at i:13732914 original size:50 final size:50
Alignment explanation
Indices: 13732859--13732959 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
13732849 AAATATATGC
* *
13732859 TTAAACTAAATATGATGAGAAAAATAAGTATATAACCTCAATAATAAATA
1 TTAAACTAAATATGATGAAAAAAATAAGTATATAAACTCAATAATAAATA
13732909 TTAAACTAAATATGATGAAAAAAATAAGTATATAAACTCAATAATAAATA
1 TTAAACTAAATATGATGAAAAAAATAAGTATATAAACTCAATAATAAATA
13732959 T
1 T
13732960 CAATGGACTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (50 bp):
TTAAACTAAATATGATGAAAAAAATAAGTATATAAACTCAATAATAAATA
Found at i:13734374 original size:22 final size:23
Alignment explanation
Indices: 13734346--13734388 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
13734336 TTGAGAATGA
13734346 ATTGATTC-TTTATT-ATTTTTGG
1 ATTGATTCGTTT-TTCATTTTTGG
13734368 ATTGATTCGTTTTTCATTTTT
1 ATTGATTCGTTTTTCATTTTT
13734389 AATCTTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.16, C:0.07, G:0.12, T:0.65
Consensus pattern (23 bp):
ATTGATTCGTTTTTCATTTTTGG
Done.