Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 544 of 770
Found at i:169165196 original size:40 final size:38
Alignment explanation
Indices: 169165147--169165254 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
169165137 ATCACGATTT
*
169165147 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
169165187 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
169165227 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
169165255 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:169173305 original size:80 final size:80
Alignment explanation
Indices: 169173221--169173369 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
169173211 TATGGTAACC
* * * *
169173221 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
169173285 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
169173301 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
169173366 CCGG
66 CCGG
169173370 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:169173311 original size:40 final size:38
Alignment explanation
Indices: 169173262--169173369 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
169173252 ATCACGATTT
*
169173262 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
169173302 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
169173342 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
169173370 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:169177724 original size:30 final size:30
Alignment explanation
Indices: 169177688--169177818 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
169177678 GACAAGATTG
* * * * *
169177688 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
169177718 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
169177746 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
169177776 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
169177805 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169177819 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:169177779 original size:58 final size:58
Alignment explanation
Indices: 169177688--169177818 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
169177678 GACAAGATTG
* * * * * *
169177688 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
169177746 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
169177805 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169177819 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:169185672 original size:30 final size:30
Alignment explanation
Indices: 169185636--169185766 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
169185626 GACAAGATTG
* * * * *
169185636 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
169185666 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
169185694 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
169185724 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
169185753 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169185767 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:169185727 original size:58 final size:58
Alignment explanation
Indices: 169185636--169185766 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
169185626 GACAAGATTG
* * * * * *
169185636 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
169185694 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
169185753 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169185767 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:169187477 original size:19 final size:19
Alignment explanation
Indices: 169187453--169187491 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
169187443 TTTTAATTAT
* *
169187453 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
169187472 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
169187491 T
1 T
169187492 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:169188106 original size:11 final size:10
Alignment explanation
Indices: 169188078--169188111 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
169188068 AGCCTATAAG
169188078 TATTCTGAAT
1 TATTCTGAAT
*
169188088 TTTTCTGAAT
1 TATTCTGAAT
169188098 ATATTCTGAAT
1 -TATTCTGAAT
169188109 TAT
1 TAT
169188112 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:169194425 original size:28 final size:28
Alignment explanation
Indices: 169194385--169194449 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
169194375 ATGTACTAGA
*
169194385 ATACCCCTATGTATGAAAAATTACCAT-T
1 ATACCCCTATGTATGAAAAATGACC-TCT
*
169194413 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGAAAAATGACCTCT
169194441 ATACCCCTA
1 ATACCCCTA
169194450 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGAAAAATGACCTCT
Found at i:169194613 original size:27 final size:28
Alignment explanation
Indices: 169194565--169194643 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
169194555 CTGGTGGCTA
*
169194565 TGCCACAAATTATCTATTCTGGTAGCCC
1 TGCCACAAATTATCTATTCTGGTAGCAC
* * *
169194593 TGCCACATA-TATCTGTTCTGGTGGCAC
1 TGCCACAAATTATCTATTCTGGTAGCAC
*
169194620 TGCCACAAAATATCTATATCTGGT
1 TGCCACAAATTATCTAT-TCTGGT
169194644 GACTCTGTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 23 0.53
28 14 0.33
29 6 0.14
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (28 bp):
TGCCACAAATTATCTATTCTGGTAGCAC
Found at i:169194663 original size:55 final size:56
Alignment explanation
Indices: 169194555--169194669 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
169194545 AGGAAGCGTC
*
169194555 CTGGTGGCTATGCCACAAATTATCTATTCTGGTAGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTATTCTGGTAGCCCTGCCACATATATCTGTAT
* * *
169194610 CTGGTGGC-ACTGCCACAAAATATCTATATCTGGT-GACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-TCTGGTAG-CCCTGCCACATATATCTGTAT
169194666 CTGG
1 CTGG
169194670 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 31 0.60
56 20 0.38
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTATTCTGGTAGCCCTGCCACATATATCTGTAT
Found at i:169195132 original size:19 final size:19
Alignment explanation
Indices: 169195108--169195146 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
169195098 TTTTAATTAT
* *
169195108 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
169195127 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
169195146 T
1 T
169195147 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:169202125 original size:70 final size:70
Alignment explanation
Indices: 169202008--169202142 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
169201998 TAGCACATAA
* * * * *
169202008 CACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTAGAGTATTACAGCAGCATATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
169202073 CTAAG
66 CTAAG
169202078 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
1 CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
169202143 TAATAAACTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (70 bp):
CACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGCATTACAGCAGCAAATTAATTAG
CTAAG
Found at i:169207869 original size:42 final size:43
Alignment explanation
Indices: 169207810--169208021 Score: 195
Period size: 43 Copynumber: 5.0 Consensus size: 43
169207800 CCTGATTTCA
* * *
169207810 TCACCGGCCA-TA-AGCCTGCTAGACCTTTAAGTCTGA-ATTCA-T
1 TCACCGG-CATTATAGCCTGCTAG-CCTTGAAGCCCGATA-TCATT
* *
169207852 TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCATT
1 TCACCGGCATTATAGCCTGCTAGCCTTGAAGCCCGATATCATT
* * * * * *
169207894 TCACCGGCATTATAGCCTGCTAGGCTCGAGGCTCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGCCTTGAAGCCCGATATCATT
*
169207937 TCACCGGCATTATAGCCTGCTAGGCC-CGAAGCCCGATATCATT
1 TCACCGGCATTATAGCCTGCTA-GCCTTGAAGCCCGATATCATT
* *
169207980 TCACCGGCATCATAGCCTGCTAGGCC-CGAAGCCCGTATATCA
1 TCACCGGCATTATAGCCTGCTA-GCCTTGAAGCCCG-ATATCA
169208022 CATTTCGATA
Statistics
Matches: 146, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 14 0.10
42 30 0.21
43 94 0.64
44 8 0.05
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGCCTTGAAGCCCGATATCATT
Found at i:169207919 original size:43 final size:43
Alignment explanation
Indices: 169207851--169208021 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
169207841 TCTGAATTCA
* **
169207851 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * * *
169207893 TTCACCGGCATTATAGCCTGCTAGGCTCGAGGCTCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
169207936 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
*
169207979 TTCACCGGCATCATAGCCTGCTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
169208022 CATTTCGATA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 12 0.10
43 97 0.84
44 6 0.05
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:169209754 original size:28 final size:28
Alignment explanation
Indices: 169209689--169209760 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
169209679 ATAGTGAATC
*
169209689 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
169209718 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
169209746 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
169209761 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 18 0.44
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:169209838 original size:29 final size:29
Alignment explanation
Indices: 169209777--169209907 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
169209767 TTTTAAATCC
*** *
169209777 GCACACTTAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
169209805 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
*
169209835 GCACACTTAGTGCCATATATTTCCAGTAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
169209864 GCACACTTAGTGCCATATATTTTCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
169209893 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
169209908 ATCTCGTCAC
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
29 87 0.99
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:169211237 original size:17 final size:18
Alignment explanation
Indices: 169211195--169211243 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
169211185 AGTTGAAAAG
169211195 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
169211214 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
169211231 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
169211244 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:169212132 original size:40 final size:40
Alignment explanation
Indices: 169212066--169212232 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
169212056 AAATTGAATG
* * *
169212066 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
169212105 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
169212145 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
169212185 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
169212225 ATATCCGG
1 ATATCCGG
169212233 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:169221602 original size:15 final size:15
Alignment explanation
Indices: 169221563--169221641 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
169221553 GTATCTTGGG
*
169221563 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
169221578 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
169221593 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
169221607 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
169221622 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
169221636 TTTCTT
1 TTTCTT
169221642 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:169221626 original size:29 final size:29
Alignment explanation
Indices: 169221554--169221640 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
169221544 CATAGTATCG
* * * *
169221554 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
169221584 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
169221613 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
169221641 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:169224076 original size:46 final size:46
Alignment explanation
Indices: 169224023--169224198 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
169224013 TATTTGGGCA
169224023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
169224069 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
169224116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
169224162 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
169224199 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:169224178 original size:93 final size:93
Alignment explanation
Indices: 169224019--169224190 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
169224009 GGGATATTTG
* *
169224019 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
169224084 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
169224112 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
169224177 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
169224191 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:169232766 original size:16 final size:17
Alignment explanation
Indices: 169232735--169232768 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
169232725 AATAAAAAAT
169232735 GAATACTACGATATAAA
1 GAATACTACGATATAAA
169232752 GAATACTAC-ATATAAA
1 GAATACTACGATATAAA
169232768 G
1 G
169232769 CAAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (17 bp):
GAATACTACGATATAAA
Found at i:169233269 original size:16 final size:16
Alignment explanation
Indices: 169233235--169233278 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
169233225 AATATGATTT
169233235 AATAATAATAATCATAA
1 AATAAT-ATAATCATAA
169233252 AATAATATAGAT-ATAA
1 AATAATATA-ATCATAA
169233268 AATAATATAAT
1 AATAATATAAT
169233279 TTGCGATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
AATAATATAATCATAA
Found at i:169233357 original size:25 final size:23
Alignment explanation
Indices: 169233312--169233365 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
169233302 ATATATATAT
*
169233312 ATAAAAACAATAAATAATATAAAA
1 ATAAAAACAATAAAGAATAT-AAA
* * *
169233336 ATAAAACATAATAAAGATTATATA
1 ATAAAA-ACAATAAAGAATATAAA
169233360 ATAAAA
1 ATAAAA
169233366 TGTAATATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (23 bp):
ATAAAAACAATAAAGAATATAAA
Found at i:169233478 original size:17 final size:18
Alignment explanation
Indices: 169233456--169233492 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
169233446 AGTAATTAAT
*
169233456 AAATATAAT-ATATGTGA
1 AAATATAATAATATATGA
169233473 AAATATAATAATATATGA
1 AAATATAATAATATATGA
169233491 AA
1 AA
169233493 GAGATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
AAATATAATAATATATGA
Found at i:169233550 original size:10 final size:10
Alignment explanation
Indices: 169233519--169233551 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
169233509 ATTTAAGGAA
169233519 AATAATATAT
1 AATAATATAT
169233529 AATAAGTA-AT
1 AATAA-TATAT
169233539 AATAATATAT
1 AATAATATAT
169233549 AAT
1 AAT
169233552 TAAAAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:169233562 original size:20 final size:20
Alignment explanation
Indices: 169233519--169233562 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
169233509 ATTTAAGGAA
* *
169233519 AATAATATATAATAAGTAAT
1 AATAATATATAATAAGAAAG
169233539 AATAATATATAATTAA-AAAG
1 AATAATATATAA-TAAGAAAG
169233559 AATA
1 AATA
169233563 CTTGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATAATATATAATAAGAAAG
Found at i:169239638 original size:8 final size:8
Alignment explanation
Indices: 169239622--169239660 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
169239612 TAAAATTTAT
*
169239622 TTTGATTA
1 TTTGCTTA
169239630 TTTGCTTA
1 TTTGCTTA
*
169239638 TTTACTTA
1 TTTGCTTA
169239646 TTTGCTTA
1 TTTGCTTA
*
169239654 GTTGCTT
1 TTTGCTT
169239661 CAATTATCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.15, C:0.10, G:0.13, T:0.62
Consensus pattern (8 bp):
TTTGCTTA
Found at i:169240253 original size:9 final size:9
Alignment explanation
Indices: 169240241--169240282 Score: 75
Period size: 9 Copynumber: 4.7 Consensus size: 9
169240231 AGTATTTAGT
169240241 TTATTCGAG
1 TTATTCGAG
169240250 TTATTCGAG
1 TTATTCGAG
169240259 TTATTCGAG
1 TTATTCGAG
*
169240268 TTATTCGAA
1 TTATTCGAG
169240277 TTATTC
1 TTATTC
169240283 AAACTCGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATTCGAG
Found at i:169243556 original size:14 final size:15
Alignment explanation
Indices: 169243524--169243556 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
169243514 TAAGCTAGCC
*
169243524 TTTTAAAATGTTTTA
1 TTTTAAAATGTTGTA
169243539 TTTTAAAA-GTTGTA
1 TTTTAAAATGTTGTA
169243553 TTTT
1 TTTT
169243557 GATTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTTAAAATGTTGTA
Found at i:169245946 original size:44 final size:44
Alignment explanation
Indices: 169245892--169246082 Score: 138
Period size: 44 Copynumber: 4.3 Consensus size: 44
169245882 AGGGCATGTG
*
169245892 ACTTCAATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTA
1 ACTTCGATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTA
* *** * * * *
169245936 GCTTCGATCTACTCTGCTGGAACTTT-AGGAAATAAGA-ATTAGTA
1 ACTTCGATCTACTCCAATGTAA-TTTCAGG-GAGAAGAGATTTGTA
* * * * * * * *
169245980 ATTTCAACCTGAC-CCACTGCAACTTCAGGGAGATA-AGGTCTGTA
1 ACTTCGATCT-ACTCCAATGTAATTTCAGGGAGA-AGAGATTTGTA
*
169246024 ACTTCGATTTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTA
1 ACTTCGATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTA
* *
169246068 GCTTCGATATACTCC
1 ACTTCGATCTACTCC
169246083 GCCGGAACTT
Statistics
Matches: 106, Mismatches: 33, Indels: 16
0.68 0.21 0.10
Matches are distributed among these distances:
43 8 0.08
44 88 0.83
45 10 0.09
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (44 bp):
ACTTCGATCTACTCCAATGTAATTTCAGGGAGAAGAGATTTGTA
Found at i:169252392 original size:40 final size:40
Alignment explanation
Indices: 169252347--169252476 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
169252337 CGGAATACAA
169252347 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
169252387 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
169252427 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
169252467 CCGGATATAA
1 CCGGATATAA
169252477 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:169252491 original size:40 final size:40
Alignment explanation
Indices: 169252347--169252510 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
169252337 CGGAATACAA
* **
169252347 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
169252387 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
169252427 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
169252467 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
169252507 CCGG
1 CCGG
169252511 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:169260402 original size:40 final size:40
Alignment explanation
Indices: 169260357--169260485 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
169260347 CGGAATACAA
169260357 CGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCC
* ** *
169260397 CGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGCC
* * *
169260437 CGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACC
1 CGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGCC
169260477 CGGATATAA
1 CGGATATAA
169260486 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 72 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGCC
Found at i:169260500 original size:40 final size:40
Alignment explanation
Indices: 169260357--169260519 Score: 143
Period size: 40 Copynumber: 4.1 Consensus size: 40
169260347 CGGAATACAA
* **
169260357 CGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGCC
1 CGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGCC
* *
169260397 CGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGCC
1 CGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGCC
* ** * *
169260437 CGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGCC
** * * *
169260477 CGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGCC
1 CGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGCC
169260517 CGG
1 CGG
169260520 GTATCATTCA
Statistics
Matches: 99, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 97 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGCC
Found at i:169263843 original size:39 final size:40
Alignment explanation
Indices: 169263743--169263921 Score: 170
Period size: 40 Copynumber: 4.5 Consensus size: 40
169263733 TCGAATGATG
* * *
169263743 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
169263783 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
169263823 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
169263861 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
169263902 -CCGGGCTTCGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
169263922 TTGAGCGAGT
Statistics
Matches: 114, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 60 0.53
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:169263888 original size:78 final size:80
Alignment explanation
Indices: 169263743--169263893 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
169263733 TCGAATGATG
* * * *
169263743 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
169263808 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
169263823 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
169263885 CGTGCGAGT
65 CGTGCGAGT
169263894 CGCTATAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 1 0.02
78 36 0.57
79 15 0.24
80 11 0.17
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:169263906 original size:78 final size:80
Alignment explanation
Indices: 169263743--169263921 Score: 204
Period size: 78 Copynumber: 2.3 Consensus size: 80
169263733 TCGAATGATG
* * * *
169263743 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
*
169263808 GTGCGAGTTAATAAA
66 GTGCGAGTCAATAAA
* **
169263823 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
**
169263885 CGTGCGAGTCGCTATAA
65 CGTGCGAGTCAATA-AA
**
169263902 -CCGGGCTTCGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
169263922 TTGAGCGAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.55
79 26 0.31
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATAAA
Found at i:169272974 original size:40 final size:39
Alignment explanation
Indices: 169272888--169273033 Score: 125
Period size: 40 Copynumber: 3.7 Consensus size: 39
169272878 GATTTGGACA
* *
169272888 AATGCCTTCGGGTCTTAGCCCAGATAGAATGACTCGCAC
1 AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCAC
*
169272927 GAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTAGCAC
1 -AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTAGCAC
* * * ** * *
169272967 AATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCAGCAT
1 AA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCAC
* *
169273007 AATTGTCTTCGGGGCTTAGCCCGGATA
1 AA-TGCCTTCGGGTCTTAGCCCGGATA
169273034 TCATTCAATT
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 4 0.05
40 80 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (39 bp):
AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTAGCAC
Found at i:169274325 original size:39 final size:40
Alignment explanation
Indices: 169274225--169274406 Score: 169
Period size: 40 Copynumber: 4.6 Consensus size: 40
169274215 TCGAATGATG
* * *
169274225 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
169274265 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
169274305 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * **
169274343 -CCTGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCC-GGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
169274384 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
169274407 TGAGGGAGTC
Statistics
Matches: 117, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
37 2 0.02
38 20 0.17
39 23 0.20
40 61 0.52
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:169274370 original size:78 final size:80
Alignment explanation
Indices: 169274225--169274406 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 80
169274215 TCGAATGATG
* * *
169274225 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
169274290 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
169274305 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTA-AACCTGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTATAACC-GGACTAAGAT-CCGAAGGCAT
***
169274366 TCGTGCGAGTCGCTATAA
64 TCGTGCGAGTTAATA-AA
**
169274384 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
169274407 TGAGGGAGTC
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
77 4 0.05
78 43 0.49
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:169279451 original size:26 final size:26
Alignment explanation
Indices: 169279415--169279522 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
169279405 TGATACAAAT
169279415 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
169279441 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
169279467 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
169279493 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
169279519 TGAT
1 TGAT
169279523 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:169292055 original size:43 final size:44
Alignment explanation
Indices: 169291986--169292145 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 44
169291976 GAAAGCTTGT
*
169291986 TCAATGCCAAC-GTCCCAAACATGGTCTTACATGTAATCAAGTA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATGTAATCAAATA
* * * *
169292029 TCAATGCC-ACTGTCCCAGACAAGGTCTTGCATGAAATCAAATA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATGTAATCAAATA
* * *
169292072 -CGATGCCGA-TGTCCCAAACATGGTCTTACATGTAAATCTCAA-A
1 TCAATGCCAACTGTCCCAAACATGGTCTTACATGT-AATC-AAATA
* * * *
169292115 TCGATGCCAAC-GTCCTAGACGTGGTCTTACA
1 TCAATGCCAACTGTCCCAAACATGGTCTTACA
169292146 CAAAATCACA
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.29
43 41 0.43
44 27 0.28
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
TCAATGCCAACTGTCCCAAACATGGTCTTACATGTAATCAAATA
Found at i:169292636 original size:17 final size:18
Alignment explanation
Indices: 169292614--169292647 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
169292604 CACATTGAAG
169292614 TGTTTTC-TCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
169292631 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
169292648 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:169293767 original size:28 final size:28
Alignment explanation
Indices: 169293719--169293812 Score: 125
Period size: 28 Copynumber: 3.3 Consensus size: 28
169293709 AAGTCTACAT
* *
169293719 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
169293747 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
* *
169293776 ACATTGATACGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
169293804 ACATTCATA
1 ACATTCATA
169293813 GTCATGCAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:169296847 original size:40 final size:39
Alignment explanation
Indices: 169296802--169297009 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
169296792 CGGAATACAA
169296802 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
169296842 CCGGATAGAACGACTTGCACTAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
169296882 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *** *
169296922 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAAT-GCCTTCGGGTCTTAGC
* ** ** * *
169296962 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACGAATGCCTTCGGGTCTTAGC
169297002 CCGGATAT
1 CCGGATAT
169297010 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:169296950 original size:80 final size:80
Alignment explanation
Indices: 169296802--169297008 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
169296792 CGGAATACAA
* * *
169296802 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACTAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACTAATG
*
169296867 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * **
169296882 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCAC-AAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACTAAT
*
169296945 GGCCTTCGGGTCTTAAC
65 -GCCTTCGGGTATTAAC
* ** * ** * *
169296962 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
169297009 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACTAATG
CCTTCGGGTATTAAC
Found at i:169309209 original size:40 final size:40
Alignment explanation
Indices: 169309164--169309331 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
169309154 CGGAATATAA
169309164 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
169309204 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
169309244 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
169309284 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
169309324 CCGGATAT
1 CCGGATAT
169309332 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:169318584 original size:40 final size:39
Alignment explanation
Indices: 169318518--169318721 Score: 246
Period size: 40 Copynumber: 5.1 Consensus size: 39
169318508 TGAATGATAC
* * *
169318518 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
169318558 CCGGATTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
*
169318598 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * * * *
169318638 CCGGGTTGAGAGCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* *
169318678 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
169318718 CCGG
1 CCGG
169318722 CTAAATTCCG
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 142 0.98
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:169320045 original size:40 final size:40
Alignment explanation
Indices: 169320001--169320095 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 40
169319991 TGCAGTAACC
*
169320001 AGTTGTTATATCCGGGTTAAGACCCGAAGGCATTTGTGCG
1 AGTTGTTATATCCGGGTTAAGACCCGAAGGCAATTGTGCG
* * *
169320041 AGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AGTTGTTATATCCGGGTTAAGACCCGAAGGCAATTGTGCG
* *
169320081 TGTGGTTATATCCGG
1 AGTTGTTATATCCGG
169320096 CTAAATTCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
AGTTGTTATATCCGGGTTAAGACCCGAAGGCAATTGTGCG
Found at i:169324643 original size:40 final size:40
Alignment explanation
Indices: 169324582--169324785 Score: 268
Period size: 40 Copynumber: 5.1 Consensus size: 40
169324572 CGGAATTTAG
** *
169324582 CCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
169324622 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
169324662 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
* *
169324702 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
* * * * *
169324742 CCGGATATAATC-ACTAGCATAAATGCCTTTGGGGCTTAGC
1 CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAAC
169324782 CCGG
1 CCGG
169324786 GTAACATTCA
Statistics
Matches: 151, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 150 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
Found at i:169331667 original size:40 final size:40
Alignment explanation
Indices: 169331595--169331758 Score: 190
Period size: 40 Copynumber: 4.1 Consensus size: 40
169331585 CAGAATTTAG
* * *
169331595 CCGGATATAACCA-TAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAAC
* * *
169331635 TCGGGTATAGCAACTCACACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
*
169331675 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
* * *
169331715 CCGGATATAATC-ACT-AGCATAAATGCCTTCGGGGCTTAGC
1 CCGGATATAA-CAACTCA-CACAAATGCCTTCGGGTCTTAAC
169331755 CCGG
1 CCGG
169331759 GTATCATTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
40 104 0.97
41 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTCACACAAATGCCTTCGGGTCTTAAC
Found at i:169336757 original size:40 final size:40
Alignment explanation
Indices: 169336712--169336879 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
169336702 CGGAATACAA
169336712 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
169336752 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
169336792 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
169336832 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
169336872 CCGGATAT
1 CCGGATAT
169336880 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:169339079 original size:40 final size:40
Alignment explanation
Indices: 169339034--169339200 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
169339024 CGGAATACAA
169339034 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
169339074 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
169339114 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * * * *
169339154 CCGGATATAATTTCCAGCA-TAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
169339193 CCGGATAT
1 CCGGATAT
169339201 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 25 0.24
40 80 0.76
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:169349476 original size:40 final size:40
Alignment explanation
Indices: 169349368--169349577 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
169349358 CGGGATTTAA
* * * * *
169349368 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
169349408 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169349448 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169349488 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169349528 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169349568 CCGGATATAT
1 CCGGATATAT
169349578 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:169357605 original size:40 final size:40
Alignment explanation
Indices: 169357497--169357706 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
169357487 CGGGATTTAA
* * * * *
169357497 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
169357537 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169357577 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169357617 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169357657 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
169357697 CCGGATATAT
1 CCGGATATAT
169357707 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:169380382 original size:25 final size:25
Alignment explanation
Indices: 169380327--169380376 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
169380317 AAAAATCACA
*
169380327 ATCAAAGATTCAAGCACATAATTAT
1 ATCAAAGATTCAAACACATAATTAT
*
169380352 ATCAAAGCTTCAAACACATAATTAT
1 ATCAAAGATTCAAACACATAATTAT
169380377 CACAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (25 bp):
ATCAAAGATTCAAACACATAATTAT
Found at i:169380639 original size:15 final size:15
Alignment explanation
Indices: 169380619--169380648 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
169380609 CATTTCTTTC
*
169380619 AATTTGTTTTATTTA
1 AATTTGATTTATTTA
169380634 AATTTGATTTATTTA
1 AATTTGATTTATTTA
169380649 CAAAATTTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
AATTTGATTTATTTA
Found at i:169382291 original size:18 final size:20
Alignment explanation
Indices: 169382268--169382310 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
169382258 ATACGTTATA
169382268 AAATTTATAAA-AA-AATAG
1 AAATTTATAAATAATAATAG
*
169382286 AAATTTATAAATAATTATAG
1 AAATTTATAAATAATAATAG
169382306 AAATT
1 AAATT
169382311 ATTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATTTATAAATAATAATAG
Found at i:169382320 original size:19 final size:20
Alignment explanation
Indices: 169382247--169382323 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 20
169382237 AAAAAATTCT
169382247 AATTTATAAATATACGTTATA-A
1 AATTTATAAATA-A--TTATAGA
*
169382269 AATTTATAAA-AA-AATAGA
1 AATTTATAAATAATTATAGA
169382287 AATTTATAAATAATTATAGA
1 AATTTATAAATAATTATAGA
169382307 AA-TTATTAAA-AATTATA
1 AATTTA-TAAATAATTATA
169382324 TAAAAATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
17 3 0.06
18 11 0.22
19 12 0.24
20 12 0.24
21 1 0.02
22 10 0.20
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTTATAAATAATTATAGA
Found at i:169382329 original size:12 final size:10
Alignment explanation
Indices: 169382293--169382416 Score: 60
Period size: 11 Copynumber: 12.0 Consensus size: 10
169382283 TAGAAATTTA
169382293 TAAATAATTA-
1 TAAA-AATTAT
*
169382303 TAGAAATTAT
1 TAAAAATTAT
169382313 TAAAAATTAT
1 TAAAAATTAT
169382323 ATAAAAATT-T
1 -TAAAAATTAT
**
169382333 TAAATGTTA-
1 TAAAAATTAT
*
169382342 TAACAACTT-T
1 TAA-AAATTAT
169382352 TAGAAAGA-TAT
1 TA-AAA-ATTAT
*
169382363 TATAAAATTTT
1 TA-AAAATTAT
*
169382374 TAGAAAAATAT
1 TA-AAAATTAT
*
169382385 AGAAAAATTAT
1 -TAAAAATTAT
169382396 TAAAACATTAT
1 TAAAA-ATTAT
*
169382407 TAAATATTAT
1 TAAAAATTAT
169382417 AAATTAGAAT
Statistics
Matches: 87, Mismatches: 16, Indels: 22
0.70 0.13 0.18
Matches are distributed among these distances:
9 14 0.16
10 31 0.36
11 41 0.47
12 1 0.01
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:169382335 original size:20 final size:20
Alignment explanation
Indices: 169382301--169382410 Score: 64
Period size: 21 Copynumber: 5.3 Consensus size: 20
169382291 TATAAATAAT
*
169382301 TATAGAAATTATTAAAAATTA
1 TATAAAAATT-TTAAAAATTA
**
169382322 TATAAAAATTTTAAATGTTA
1 TATAAAAATTTTAAAAATTA
* *
169382342 TA-ACAACTTTTAGAAAGA-TA
1 TATAAAAATTTTA-AAA-ATTA
* *
169382362 TTATAAAATTTTTAGAAAAATA
1 -TATAAAAATTTTA-AAAATTA
*
169382384 TAGAAAAATTATTAAAACATTA
1 TATAAAAATT-TTAAAA-ATTA
169382406 T-TAAA
1 TATAAA
169382411 TATTATAAAT
Statistics
Matches: 69, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
19 8 0.12
20 14 0.20
21 26 0.38
22 21 0.30
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (20 bp):
TATAAAAATTTTAAAAATTA
Found at i:169382376 original size:22 final size:23
Alignment explanation
Indices: 169382334--169382384 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
169382324 TAAAAATTTT
*
169382334 AAATGTTATAACAACTTTTAGAA
1 AAATATTATAACAACTTTTAGAA
* *
169382357 AGATATTATAA-AATTTTTAGAA
1 AAATATTATAACAACTTTTAGAA
169382379 AAATAT
1 AAATAT
169382385 AGAAAAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (23 bp):
AAATATTATAACAACTTTTAGAA
Found at i:169384490 original size:68 final size:70
Alignment explanation
Indices: 169384418--169384615 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
169384408 ACACCCTGTA
* * * *
169384418 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
169384480 ATAAAT
65 ATAAAT
*
169384486 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
169384551 ATAAAT
65 ATAAAT
*
169384557 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
169384616 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:169384529 original size:41 final size:41
Alignment explanation
Indices: 169384484--169384601 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
169384474 TGAAAGATAA
169384484 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
169384525 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
169384555 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
169384596 ATGTAG
1 ATGTAG
169384602 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:169384541 original size:71 final size:71
Alignment explanation
Indices: 169384452--169384615 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
169384442 GAGATGTATC
169384452 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
169384517 AGGACA
66 AGGACA
169384523 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
169384588 AGGACA
66 AGGACA
169384594 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
169384616 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:169391185 original size:38 final size:38
Alignment explanation
Indices: 169391113--169391224 Score: 142
Period size: 38 Copynumber: 2.9 Consensus size: 38
169391103 ACGTAGCTTA
*
169391113 TTCAACCGTGTGTCCATG-CATAAT-CTTTCACTAACGC
1 TTCAACC-TGTGTCGATGCCATAATACTTTCACTAACGC
*
169391150 TTCAATCCTGTGTCGATGCCA-AATACTTTCACTAACTC
1 TTCAA-CCTGTGTCGATGCCATAATACTTTCACTAACGC
169391188 TTCAAGGCC-GTGTCGATGCCATAATACTTTCACTAAC
1 TTCAA--CCTGTGTCGATGCCATAATACTTTCACTAAC
169391225 ACTATTCTTT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
37 17 0.25
38 33 0.49
39 17 0.25
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCAACCTGTGTCGATGCCATAATACTTTCACTAACGC
Found at i:169394550 original size:29 final size:29
Alignment explanation
Indices: 169394522--169394623 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
169394512 CCTCCGAGCT
** * * *
169394522 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
169394551 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169394580 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169394609 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
169394624 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:169401822 original size:28 final size:28
Alignment explanation
Indices: 169401781--169401835 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
169401771 GTGCCGTATT
**
169401781 TTTCCAGCTTGCACACTTAGTGCCAATA
1 TTTCCAGCACGCACACTTAGTGCCAATA
169401809 TTTCCAGCACGCACACTTAGTGCCAAT
1 TTTCCAGCACGCACACTTAGTGCCAAT
169401836 CTCGTCACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (28 bp):
TTTCCAGCACGCACACTTAGTGCCAATA
Found at i:169403615 original size:56 final size:56
Alignment explanation
Indices: 169403553--169403664 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
169403543 GTCACAAAAG
*
169403553 CTCTTTTTCCTTCTTTTTCTTTCTTCTATTTGGCCAAGAACAACATGAGAGCTTTT
1 CTCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
** *
169403609 CTCTTTTTTTTTCTTTTTCTTTCTTCTATTCGGCCAAGAATAACATGAGAGCTTTT
1 CTCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
169403665 TTTTTCTTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (56 bp):
CTCTTTTTCCTTCTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGCTTTT
Found at i:169403619 original size:49 final size:49
Alignment explanation
Indices: 169403557--169403677 Score: 122
Period size: 56 Copynumber: 2.4 Consensus size: 49
169403547 CAAAAGCTCT
* *
169403557 TTTTC-CTTCTTTTTCTTTCTTCTATTTGGCCAAGAACAACATGAGAGC
1 TTTTCTCTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC
*
169403605 TTTTCTCTTTTTTTTTCTTTTTCTTTCTTCTATTCGGCCAAGAATAACATGAGAGC
1 TTTTCTC------TTT-TTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC
*
169403661 TTTT-T-TTTTCTTTCTTT
1 TTTTCTCTTTTTTTTCTTT
169403678 TCCTTTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
47 8 0.13
48 8 0.13
49 1 0.02
55 3 0.05
56 41 0.67
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.54
Consensus pattern (49 bp):
TTTTCTCTTTTTTTTCTTTCTTCTATTCGGCCAAGAACAACATGAGAGC
Found at i:169404665 original size:28 final size:28
Alignment explanation
Indices: 169404625--169404744 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
169404615 TGGGAAGTAG
169404625 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
169404653 TTGGGCCTGATGGACCATATGAAGGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
169404681 GTGGGCCTGATGGGCCATGTGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
169404709 TTGGGCTTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
169404737 TTGGGCCT
1 TTGGGCCT
169404745 AAAGGGGCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 81 1.00
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:169405100 original size:27 final size:27
Alignment explanation
Indices: 169405070--169405501 Score: 379
Period size: 27 Copynumber: 16.1 Consensus size: 27
169405060 AAATTACTGG
*
169405070 AATACCCTAGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
169405097 AATACCC-CTAATTTGGAAAATTATCGA
1 AATACCCTC-GATTTGTAAAATTATCGA
* *
169405124 AATACCCTCGA-TTGTGAAGTTA-CTGA
1 AATACCCTCGATTTGTAAAATTATC-GA
*
169405150 AATACCCTCGATTTG-ACAAATTATTGA
1 AATACCCTCGATTTGTA-AAATTATCGA
* *
169405177 AATACCCTCGATTTGAAAAATTA-CTAA
1 AATACCCTCGATTTGTAAAATTATC-GA
*
169405204 AATACCCTCGA-TTGTGAAATTA-CTGA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * *
169405230 AATACCCTCAATTTGTGAAATTA-CAAA
1 AATACCCTCGATTTGTAAAATTATC-GA
* * * *
169405257 AATACCCCCGATTTATGAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * *
169405284 AACACCCTCAATTTGTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
169405311 AATA-CCTTGATTTGTAAAATTATTGA
1 AATACCCTCGATTTGTAAAATTATCGA
**
169405337 AATACCCTTAATTATG--AAATTA-CTGA
1 AATACCCTCGATT-TGTAAAATTATC-GA
* *
169405363 AATACCCTCGATTTATAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* *
169405390 AATATCTTCGATTTGTAAAATTATCGA
1 AATACCCTCGATTTGTAAAATTATCGA
*
169405417 AATACCC-CTGATTTGTAAAATTACCGA
1 AATACCCTC-GATTTGTAAAATTATCGA
* *
169405444 AATACCCTCGATTTCTAAAATTACCGA
1 AATACCCTCGATTTGTAAAATTATCGA
* * *
169405471 AACACACC-CAATTTGTAAAATTATCAA
1 AATAC-CCTCGATTTGTAAAATTATCGA
169405498 AATA
1 AATA
169405502 ACCTTTGTAG
Statistics
Matches: 335, Mismatches: 51, Indels: 38
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.01
26 85 0.25
27 239 0.71
28 9 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATACCCTCGATTTGTAAAATTATCGA
Found at i:169405197 original size:80 final size:78
Alignment explanation
Indices: 169405060--169405501 Score: 403
Period size: 80 Copynumber: 5.5 Consensus size: 78
169405050 TAATAAAGAG
* * * *
169405060 AAATTACTGGAATACCCTAGATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCC-GATTTGAAAAATTA-CGAA
*
169405125 ATACCCTCGATTGTG
64 ATACCCTCGATTGTA
* * *
169405140 AAGTTACTGAAATACCCTCGATTTG-ACAAATTATTGAAATACCCTCGATTTGAAAAATTACTAA
1 AAATTACTGAAATACCCTCGATTTGTA-AAATTATCGAAATACCC-CGATTTGAAAAATTAC-GA
*
169405204 AATACCCTCGATTGTG
63 AATACCCTCGATTGTA
* * * *
169405220 AAATTACTGAAATACCCTCAATTTGTGAAATTA-CAAAAATACCCCCGATTT-ATGAAATTACCG
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATA-CCCCGATTTGA-AAAATTA-CG
* *
169405283 AAACACCCTCAATTTGTA
62 AAATACCCTCGA-TTGTA
* * * **
169405301 AAATTACCGAAATA-CCTTGATTTGTAAAATTATTGAAATACCCTTAATTATG--AAATTACTGA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCC-CGATT-TGAAAAATTAC-GA
*
169405363 AATACCCTCGATTTATA
63 AATACCCTCGA-TTGTA
* * * *
169405380 AAATTACCGAAATATCTTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCC-GATTTGAAAAATTA-CGAA
*
169405445 ATACCCTCGATTTCTA
64 ATACCCTCGA-TTGTA
* * * *
169405461 AAATTACCGAAACACACC-CAATTTGTAAAATTATCAAAATA
1 AAATTACTGAAATAC-CCTCGATTTGTAAAATTATCGAAATA
169405502 ACCTTTGTAG
Statistics
Matches: 303, Mismatches: 39, Indels: 39
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.00
79 44 0.15
80 175 0.58
81 81 0.27
82 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (78 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCCCGATTTGAAAAATTACGAAAT
ACCCTCGATTGTA
Found at i:169405333 original size:160 final size:160
Alignment explanation
Indices: 169405059--169405472 Score: 491
Period size: 160 Copynumber: 2.6 Consensus size: 160
169405049 ATAATAAAGA
* * * *
169405059 GAAATTACTGGAATACCCT-AGATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTATCG
1 GAAATTACTGAAATACCCTCA-ATTTGTAAAATTATCGAAATACCCCTGATTTTG-AAATTACCG
* * * *
169405123 AAATACCCTCGA-TTGTGAAGTTACTGAAATACCCTCGATTTGACAAATTATTGAAATACCCTCG
64 AAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGACAAATTATTGAAATACCCTCA
*
169405187 ATT-TGAAAAATTACTAAAATACCCTCGA-TTGT
129 ATTATG--AAATTACTAAAATACCCTCGATTTAT
* * *
169405219 GAAATTACTGAAATACCCTCAATTTGTGAAATTA-CAAAAATACCCCCGATTTATGAAATTACCG
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTATC-GAAATACCCCTGATTT-TGAAATTACCG
* * * *
169405283 AAACACCCTCAATTTGTAAAATTACCGAAATA-CCTTGATTTGTA-AAATTATTGAAATACCCTT
64 AAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTG-ACAAATTATTGAAATACCCTC
*
169405346 AATTATGAAATTACTGAAATACCCTCGATTTAT
128 AATTATGAAATTACTAAAATACCCTCGATTTAT
* * * * * *
169405379 AAAATTACCGAAATATCTTCGATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTACCGA
1 GAAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGATTT-TGAAATTACCGA
*
169405444 AATACCCTCGATTTCTAAAATTACCGAAA
65 AATACCCTCGATTTGTAAAATTACCGAAA
169405473 CACACCCAAT
Statistics
Matches: 216, Mismatches: 30, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
159 21 0.10
160 173 0.80
161 22 0.10
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (160 bp):
GAAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGATTTTGAAATTACCGAA
ATACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGACAAATTATTGAAATACCCTCAAT
TATGAAATTACTAAAATACCCTCGATTTAT
Found at i:169405519 original size:28 final size:27
Alignment explanation
Indices: 169405484--169405572 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
169405474 ACACCCAATT
*
169405484 TGTAAAATTA-TCAAAATAACCTTTGTAG
1 TGTAAAATTACT-AAAAT-ACCCTTGTAG
* *
169405512 TGTAAAATTACTAGAATACCCTTGTAT
1 TGTAAAATTACTAAAATACCCTTGTAG
* ** *
169405539 TGTAAAATGACCGACATA-CCTTGTAG
1 TGTAAAATTACTAAAATACCCTTGTAG
*
169405565 GGTAAAAT
1 TGTAAAAT
169405573 GATTGTTTTG
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 14 0.28
27 21 0.42
28 14 0.28
29 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (27 bp):
TGTAAAATTACTAAAATACCCTTGTAG
Found at i:169405544 original size:27 final size:28
Alignment explanation
Indices: 169405483--169405546 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
169405473 CACACCCAAT
*
169405483 TTGTAAAATTATCAAAATAACCTTTGTA
1 TTGTAAAATTATCAAAATAACCCTTGTA
* *
169405511 GTGTAAAATTA-CTAGAAT-ACCCTTGTA
1 TTGTAAAATTATC-AAAATAACCCTTGTA
169405538 TTGTAAAAT
1 TTGTAAAAT
169405547 GACCGACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (28 bp):
TTGTAAAATTATCAAAATAACCCTTGTA
Found at i:169412059 original size:40 final size:40
Alignment explanation
Indices: 169412039--169412183 Score: 173
Period size: 40 Copynumber: 3.6 Consensus size: 40
169412029 TTCGCATGAT
* * ** *
169412039 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTCGCACAAA
* *
169412079 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTCGCACAAA
* * * *
169412119 TGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATATAATAACTCGCACAAA
* *
169412159 TGCCTTCGGGACTTAGCCCAGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
169412184 CATTCCAATG
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATAATAACTCGCACAAA
Found at i:169412096 original size:80 final size:80
Alignment explanation
Indices: 169412030--169412183 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
169412020 TTATAGTGAT
* * * ** * *
169412030 TCGCATGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
169412095 CCCGGATATAACAAC
66 CCCGGATATAACAAC
* * * *
169412110 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAG
1 TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
*
169412175 CCCAGATAT
66 CCCGGATAT
169412184 CATTCCAATG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (80 bp):
TCGCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAG
CCCGGATATAACAAC
Found at i:169420107 original size:40 final size:40
Alignment explanation
Indices: 169420024--169420231 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
169420014 CGGGATTTAA
* * * * * *
169420024 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
169420064 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
169420104 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
169420144 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
169420184 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
169420224 CCGGATAT
1 CCGGATAT
169420232 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:169420144 original size:80 final size:80
Alignment explanation
Indices: 169420050--169420231 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
169420040 GCTCGATTGT
* * *** * * * **
169420050 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
169420115 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
169420130 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
169420195 TACTAGCATAATTGC
66 AACTAGCACAAATGC
169420210 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
169420232 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:169422876 original size:40 final size:40
Alignment explanation
Indices: 169422817--169423036 Score: 338
Period size: 40 Copynumber: 5.5 Consensus size: 40
169422807 CATTTGAATG
*
169422817 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
169422857 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
169422897 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
169422936 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
169422976 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
169423016 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
169423037 AAACTTGGGT
Statistics
Matches: 167, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 51 0.31
40 115 0.69
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:169422953 original size:79 final size:80
Alignment explanation
Indices: 169422817--169423036 Score: 338
Period size: 79 Copynumber: 2.8 Consensus size: 80
169422807 CATTTGAATG
*
169422817 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
*
169422882 TTTGTGCGAGTTGTT
66 TTTGTGCGAGTTGCT
169422897 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
169422961 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * * * * *
169422976 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGA-CCCGAAG
169423037 AAACTTGGGT
Statistics
Matches: 130, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 89 0.68
80 40 0.31
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:169423034 original size:119 final size:119
Alignment explanation
Indices: 169422817--169423036 Score: 343
Period size: 119 Copynumber: 1.8 Consensus size: 119
169422807 CATTTGAATG
* *
169422817 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
* * * *
169422882 TTTGTGCGAGTTGTTATATCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
66 ATTGGGCGAGTGGTTATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
169422936 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
*
169423001 ATTGGGCGTGTGGTTATATCCGGCTAA-ATCCCGAAG
66 ATTGGGCGAGTGGTTATATCCGGCTAAGA-CCCGAAG
169423037 AAACTTGGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 1 0.01
119 90 0.99
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
ATTGGGCGAGTGGTTATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:169430884 original size:40 final size:40
Alignment explanation
Indices: 169430817--169430996 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
169430807 CATTTGAATG
169430817 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
169430856 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
169430896 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
169430936 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
169430976 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
169430997 AAACTTGGGT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 26 0.20
40 102 0.79
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:169432642 original size:18 final size:18
Alignment explanation
Indices: 169432619--169432656 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
169432609 CTTGGCTTTA
169432619 TCGGCTAACACGGCGAAC
1 TCGGCTAACACGGCGAAC
169432637 TCGGCTAACACGGCGAAC
1 TCGGCTAACACGGCGAAC
169432655 TC
1 TC
169432657 TCTTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (18 bp):
TCGGCTAACACGGCGAAC
Found at i:169436621 original size:29 final size:29
Alignment explanation
Indices: 169436588--169436719 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
169436578 CCTCCGAACT
** * * *
169436588 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
169436617 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169436646 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169436675 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169436704 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
169436720 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:169438016 original size:11 final size:12
Alignment explanation
Indices: 169437996--169438025 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
169437986 AAGATGAGCA
169437996 TTCTTTTTTTTT
1 TTCTTTTTTTTT
169438008 TTCTTTTTTTTT
1 TTCTTTTTTTTT
169438020 TTCTTT
1 TTCTTT
169438026 ACTAACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTCTTTTTTTTT
Found at i:169444712 original size:29 final size:29
Alignment explanation
Indices: 169444651--169444810 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
169444641 CCTCCGAACT
** * *
169444651 CGCACACCCAGTGCCGTAT-TTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
169444679 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169444708 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169444737 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169444766 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
169444795 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
169444811 ATCTCGTCAC
Statistics
Matches: 123, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 14 0.11
29 109 0.89
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:169447699 original size:27 final size:27
Alignment explanation
Indices: 169447660--169447714 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
169447650 TGCACTAGAG
* *
169447660 TATGGAACGTGTGACATGTGTTTAATC
1 TATGGAACATGTGACATGTATTTAATC
169447687 TATGGAACATGTGACATGTATTTAATC
1 TATGGAACATGTGACATGTATTTAATC
169447714 T
1 T
169447715 CATTATCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (27 bp):
TATGGAACATGTGACATGTATTTAATC
Found at i:169450412 original size:13 final size:13
Alignment explanation
Indices: 169450394--169450418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
169450384 TATATTATAT
169450394 GTGTGAAAATTTC
1 GTGTGAAAATTTC
169450407 GTGTGAAAATTT
1 GTGTGAAAATTT
169450419 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:169451630 original size:56 final size:56
Alignment explanation
Indices: 169451544--169451846 Score: 482
Period size: 56 Copynumber: 5.4 Consensus size: 56
169451534 CCATGGCATC
*
169451544 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT-T
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
** *
169451599 CGATATATGTGTATGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGGTTCT
1 -GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
* *
169451656 GACATATGTGTGCGAGTAAGACCACATTTAATAAGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
* *
169451712 AATATATGTGTGCGAGTAAGACCACATTTAATAAGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
* * *
169451768 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTTT
1 GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
*
169451824 GATATATGTGTACGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
169451847 CTGTCTGGGA
Statistics
Matches: 229, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
56 228 1.00
57 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACATTTAATACGTTGGCATCGATATGTGATTCT
Found at i:169454459 original size:12 final size:12
Alignment explanation
Indices: 169454444--169454468 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
169454434 AAACCGAGCC
169454444 ATAAATATTTTT
1 ATAAATATTTTT
169454456 ATAAATATTTTT
1 ATAAATATTTTT
169454468 A
1 A
169454469 GTGGTTTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:169454638 original size:226 final size:228
Alignment explanation
Indices: 169454240--169454933 Score: 1097
Period size: 226 Copynumber: 3.0 Consensus size: 228
169454230 GGTGTTAGAA
* **
169454240 ATAGTGGTTTTGGGGCCACAAAATTCAACGAGTAAGTTCACAAATATTATTATTTAATATTTACG
1 ATAGTGGTTTTGGGGCCACTAAATTCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACG
*
169454305 AGTCAATTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAATTAAG
66 AGTCGATTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAATTAAG
*
169454370 TTCAAGTGGTAAGACCCTAAGGTCAAGT-TTTTTAGAAAATGAGGTATCGATACCTTGTTTCTAT
131 TTCAAGTGGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATGAGGTATCGATACCTTGTTTCTAT
169454434 AAACCGAGCCATAAATATTTTTATAAATATTTT
196 AAACCGAGCCATAAATATTTTTATAAATATTTT
169454467 -TAGTGGTTTTGGGGCCACTAAATTCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACG
1 ATAGTGGTTTTGGGGCCACTAAATTCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACG
*
169454531 AGTCGGTTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAATTAAG
66 AGTCGATTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAATTAAG
* *
169454596 TTAAAGTGGTAAGACCCTAAGGTCAAGTGGTTTTAG-AAATGAGATATCGATACCTTGTTTCTAT
131 TTCAAGTGGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATGAGGTATCGATACCTTGTTTCTAT
169454660 AAACCGAGCCATAAATATTTTTATAAATATTTTTAGTGGTGTT
196 AAACCGAGCCATAAATATTTTTAT-AA-A----TA-T--T-TT
*
169454703 GGAAATAGTGGTTTTGGGGCCACTAAATTCAATGAGTAAGTTCGTAAATATTATTATTTAATATT
1 ----ATAGTGGTTTTGGGGCCACTAAATTCAACGAGTAAGTTCGTAAATATTATTATTTAATATT
* * *
169454768 TATGAGTCGATTATGGTTTTTAAAAGATTTTTGAAATGGTAATTTAGGTTATTCGGATGATTAAT
62 TACGAGTCGATTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAAT
* *
169454833 TAAGTTCAAGTGGTAAGACCCTAAGGTTAAGTGGTTTTAGAAAATGAGGTATCGATACCTTGTTC
127 TAAGTTCAAGTGGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATGAGGTATCGATACCTTGTTT
* *
169454898 CTATAAACCAAGGCATAAATATTTTTATAAATATTT
192 CTATAAACCGAGCCATAAATATTTTTATAAATATTT
169454934 ATGAAGTTTC
Statistics
Matches: 431, Mismatches: 19, Indels: 29
0.90 0.04 0.06
Matches are distributed among these distances:
226 202 0.47
227 8 0.02
228 1 0.00
232 3 0.01
233 2 0.00
235 2 0.00
236 4 0.01
240 1 0.00
241 160 0.37
242 48 0.11
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (228 bp):
ATAGTGGTTTTGGGGCCACTAAATTCAACGAGTAAGTTCGTAAATATTATTATTTAATATTTACG
AGTCGATTATGGTTTTTAAAAGATTTTTGATATGGTAATTTAGGTTATTCGAATGATTAATTAAG
TTCAAGTGGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATGAGGTATCGATACCTTGTTTCTAT
AAACCGAGCCATAAATATTTTTATAAATATTTT
Found at i:169454685 original size:12 final size:12
Alignment explanation
Indices: 169454670--169454694 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
169454660 AAACCGAGCC
169454670 ATAAATATTTTT
1 ATAAATATTTTT
169454682 ATAAATATTTTT
1 ATAAATATTTTT
169454694 A
1 A
169454695 GTGGTGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:169455791 original size:22 final size:23
Alignment explanation
Indices: 169455747--169455792 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
169455737 GTTGTGGATG
* *
169455747 ATGATTAGGCTTATGTCAAGCTT
1 ATGATTAGGATTATATCAAGCTT
*
169455770 ATGATT-GGATTATATCATGCTT
1 ATGATTAGGATTATATCAAGCTT
169455792 A
1 A
169455793 GTTTTAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (23 bp):
ATGATTAGGATTATATCAAGCTT
Found at i:169457568 original size:39 final size:40
Alignment explanation
Indices: 169457477--169457574 Score: 146
Period size: 39 Copynumber: 2.5 Consensus size: 40
169457467 GGTTATAGCG
*
169457477 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
* * *
169457517 ACTTGCAC-AATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
169457555 ACTCGCACGAATGCCTTCGG
1 ACTCGCACGAATGCCTTCGG
169457575 ATCCTAGTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 22 0.42
39 23 0.44
40 7 0.13
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:169457627 original size:40 final size:38
Alignment explanation
Indices: 169457481--169457627 Score: 150
Period size: 40 Copynumber: 3.7 Consensus size: 38
169457471 ATAGCGACTC
* *
169457481 GCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTT
1 GCAC-AATGCCTTC-GGACTTAGCCCGGATTTAGTAACTT
* * *
169457521 GCACAATGCCTTCGGGCTTAGCCCGGATTTATTAACTC
1 GCACAATGCCTTCGGACTTAGCCCGGATTTAGTAACTT
* * * *
169457559 GCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTT
1 GCAC-AATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTT
*
169457599 AGCACAAAGCCTTCAGGACTTAGCCCGGA
1 -GCACAATGCCTTC-GGACTTAGCCCGGA
169457628 CATCATTCGA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
38 24 0.27
39 20 0.23
40 37 0.42
41 7 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (38 bp):
GCACAATGCCTTCGGACTTAGCCCGGATTTAGTAACTT
Found at i:169462162 original size:30 final size:30
Alignment explanation
Indices: 169462126--169462226 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
169462116 GACAAGATTG
* * *
169462126 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
169462156 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
169462184 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
169462213 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169462227 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:169462238 original size:29 final size:28
Alignment explanation
Indices: 169462155--169462230 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
169462145 AAAATTGTAC
* *
169462155 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
169462183 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
169462212 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
169462231 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:169470047 original size:30 final size:30
Alignment explanation
Indices: 169470011--169470111 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
169470001 GACAAGATTG
* * *
169470011 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
169470041 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
169470069 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
169470098 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
169470112 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:169470123 original size:29 final size:28
Alignment explanation
Indices: 169470040--169470115 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
169470030 AAAATTGTAC
* *
169470040 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
169470068 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
169470097 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
169470116 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:169478257 original size:26 final size:26
Alignment explanation
Indices: 169478228--169478278 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
169478218 AAATTAATGC
169478228 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
169478254 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
169478279 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:169480125 original size:14 final size:15
Alignment explanation
Indices: 169480104--169480140 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
169480094 GTGTACTATA
169480104 TCCCATATTGCTTTT
1 TCCCATATTGCTTTT
*
169480119 T-CCATA-TGTTTTT
1 TCCCATATTGCTTTT
169480132 TCCCATATT
1 TCCCATATT
169480141 ACCTTCTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 7 0.37
14 10 0.53
15 2 0.11
ACGTcount: A:0.16, C:0.24, G:0.05, T:0.54
Consensus pattern (15 bp):
TCCCATATTGCTTTT
Found at i:169480366 original size:26 final size:26
Alignment explanation
Indices: 169480337--169480387 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
169480327 AAATTAATGC
169480337 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
169480363 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
169480388 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:169482879 original size:68 final size:68
Alignment explanation
Indices: 169482732--169482887 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
169482722 AGCCGATTTG
* * * * *
169482732 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
169482797 TATC
65 TATA
* *
169482801 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
169482863 ATATAGTA
62 ATATA-TA
169482871 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
169482888 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:169490359 original size:68 final size:68
Alignment explanation
Indices: 169490212--169490367 Score: 149
Period size: 68 Copynumber: 2.2 Consensus size: 68
169490202 AGCCGATTTG
* * * * *
169490212 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACATA
*
169490277 TATC
65 TATA
* *
169490281 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
169490343 ATATAGTA
62 ATATA-TA
169490351 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
169490368 ACACATGATG
Statistics
Matches: 73, Mismatches: 8, Indels: 13
0.78 0.09 0.14
Matches are distributed among these distances:
67 1 0.01
68 33 0.45
69 7 0.10
70 6 0.08
71 26 0.36
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.35
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACATAT
ATA
Found at i:169492621 original size:26 final size:26
Alignment explanation
Indices: 169492590--169492640 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
169492580 AAATTAATGC
169492590 TAATTAAACT-GAAATATTGAATGTTA
1 TAATTAAA-TAGAAATATTGAATGTTA
169492616 TAATTAAATAGAAATATTGAATGTT
1 TAATTAAATAGAAATATTGAATGTT
169492641 TTCTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (26 bp):
TAATTAAATAGAAATATTGAATGTTA
Found at i:169496899 original size:2 final size:2
Alignment explanation
Indices: 169496892--169496919 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
169496882 TTGGCTGTCT
169496892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
169496920 CCTTCGAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:169499297 original size:27 final size:27
Alignment explanation
Indices: 169499232--169499285 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
169499222 GTAGATCACG
169499232 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
169499259 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
169499286 GATATACCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (27 bp):
AAATTACCCCTAAAGAGCAAAATTACC
Found at i:169501713 original size:17 final size:19
Alignment explanation
Indices: 169501671--169501714 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
169501661 ATGAAATTTT
*
169501671 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
169501690 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
169501708 AA-TATTA
1 AATTATTA
169501715 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:169503562 original size:28 final size:28
Alignment explanation
Indices: 169503530--169503598 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
169503520 GCGTAGATCA
169503530 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
169503558 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
169503586 CGATA-TACCCCTA
1 CGAAATTACCCCTA
169503599 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:169505242 original size:49 final size:49
Alignment explanation
Indices: 169505115--169505386 Score: 448
Period size: 49 Copynumber: 5.7 Consensus size: 49
169505105 CCCTTCGGGA
* *
169505115 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
169505162 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
169505209 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
169505258 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
169505307 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
169505354 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
169505387 GCGTAAAATC
Statistics
Matches: 209, Mismatches: 10, Indels: 10
0.91 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 93 0.44
49 115 0.55
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:169505243 original size:96 final size:96
Alignment explanation
Indices: 169505115--169505386 Score: 435
Period size: 96 Copynumber: 2.8 Consensus size: 96
169505105 CCCTTCGGGA
* *
169505115 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
169505178 ACCTTCACATTCATCACATCGGCCATTAGGC
66 ACCTTCACATTCATCACATCGGCCATTAGGC
169505209 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
169505274 ACACTTTCACATTCATCACATCGGCCATTCGGC
66 AC-C-TTCACATTCATCACATCGGCCATTAGGC
*
169505307 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
169505370 ACACTTTCACATTCATC
64 ACACCTTCACATTCATC
169505387 GCGTAAAATC
Statistics
Matches: 167, Mismatches: 5, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
94 10 0.06
95 1 0.01
96 110 0.66
97 1 0.01
98 45 0.27
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACCTTCACATTCATCACATCGGCCATTAGGC
Found at i:169505323 original size:145 final size:143
Alignment explanation
Indices: 169505115--169505386 Score: 508
Period size: 145 Copynumber: 1.9 Consensus size: 143
169505105 CCCTTCGGGA
* *
169505115 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
169505180 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
169505245 TCGGCCATTAGGC
131 TCGGCCATTAGGC
169505258 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACAT-T-TACACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
169505323 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
64 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
169505387 GCGTAAAATC
Statistics
Matches: 125, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
143 10 0.08
144 1 0.01
145 114 0.91
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (143 bp):
CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:169509170 original size:40 final size:40
Alignment explanation
Indices: 169509069--169509235 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
169509059 CAATTGAATG
* *
169509069 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG--TT
*
169509110 -TATCC-GGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* * *
169509148 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
* *
169509188 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
169509228 ATATCCGG
1 ATATCCGG
169509236 TTGTATTCCG
Statistics
Matches: 112, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
38 5 0.04
39 27 0.24
40 80 0.71
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
Found at i:169509248 original size:79 final size:78
Alignment explanation
Indices: 169509069--169509235 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 78
169509059 CAATTGAATG
* * *
169509069 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGCTAAGACCCGAAGGCAT
1 ATATCCGGGCTAATACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGCTAAGACCCGAAGGCAT
*
169509134 TCGTGCAAGTTGTT
65 TCGTGCAAGTGGTT
*
169509148 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAATACCCGAAGGCAATTGTGCGAGT-GATT-TATCC-GGCTAAGACCCGAAGGC
**
169509212 ATTCGTGCGTGTGGTT
63 ATTCGTGCAAGTGGTT
169509228 ATATCCGG
1 ATATCCGG
169509236 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
78 2 0.03
79 37 0.47
80 39 0.50
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAATACCCGAAGGCAATTGTGCGAGTGATTTATCCGGCTAAGACCCGAAGGCATT
CGTGCAAGTGGTT
Done.