Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007763.1 Hibiscus syriacus cultivar Beakdansim tig00110034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 397934
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2285 original size:21 final size:21
Alignment explanation
Indices: 2259--2298 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
2249 CGAAACATCA
2259 TTCGTGTTCAGTAAAAAACAT
1 TTCGTGTTCAGTAAAAAACAT
2280 TTCGTGTTCAGTAAAAAAC
1 TTCGTGTTCAGTAAAAAAC
2299 TAATTGCTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (21 bp):
TTCGTGTTCAGTAAAAAACAT
Found at i:3255 original size:83 final size:83
Alignment explanation
Indices: 3037--3239 Score: 271
Period size: 83 Copynumber: 2.4 Consensus size: 83
3027 TTTTTTTGTC
* * * *
3037 AAAACGCCGCCAATTTACCGCTCTATTGCGGCGTTTTGACTCAATCACCGCAAAATTTATACTCT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
** *
3102 ATTGTGGCGTTTGTGGTA
66 ATTGAAGCGTTTGTGATA
* * * *
3120 AAAACGCTGCCAGTTTACCACTATATTGCGGCGTTTTGGCTAAATCGCCGCAAAATTTATAATCT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
3185 ATTGAAGCGTTTGTGATA
66 ATTGAAGCGTTTGTGATA
* * * *
3203 TAAACGCCGCTAATTTAGCACCCTATTGCGGCGTTTT
1 AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTT
3240 TCTAAAAACG
Statistics
Matches: 102, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
83 102 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (83 bp):
AAAACGCCGCCAATTTACCACTCTATTGCGGCGTTTTGACTAAATCGCCGCAAAATTTATAATCT
ATTGAAGCGTTTGTGATA
Found at i:4650 original size:79 final size:78
Alignment explanation
Indices: 4554--4698 Score: 263
Period size: 79 Copynumber: 1.8 Consensus size: 78
4544 GATAATTCCT
*
4554 TAAAATAATATCTTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAGATA
1 TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAGATA
4619 AGATAAAATATAA
66 AGATAAAATATAA
*
4632 TAAAGATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATTCCTAAAGAT
1 TAAA-ATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAGAT
4697 AA
65 AA
4699 AACTACAATA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
78 4 0.06
79 60 0.94
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (78 bp):
TAAAATAATATCCTAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAGATA
AGATAAAATATAA
Found at i:8043 original size:43 final size:43
Alignment explanation
Indices: 7982--8235 Score: 244
Period size: 43 Copynumber: 5.9 Consensus size: 43
7972 TGTGAACGAA
7982 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCATAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCATAC
* * * * **
8025 AAACACCGCAATACGTGTTAATTTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCATAC
* * *
8068 AAACGCCGCAATAGGTGTTGAGATTTAGTGGCGGTTTT-ATCAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCAT-AC
* * * * * *
8111 AAATGTCGCAATATGTCTTG-TGATTTAGCGGCGTTTTTCTTGC
1 AAACGCCGCAATAGGTGTTGAT-ATTTAGCGGCGTTTTTCATAC
* * * *
8154 AAATGCCGCAATAGGTGTTGAGATTTTGCGGCGTTTTTTGATAC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCG-TTTTTCATAC
* * * * *
8198 AAACGTCGCAAAAGGT-CTGGTATATAGCGGCGTTTTTC
1 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTC
8236 GGATATAAAC
Statistics
Matches: 165, Mismatches: 41, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
42 5 0.03
43 139 0.84
44 21 0.13
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCATAC
Found at i:8138 original size:86 final size:85
Alignment explanation
Indices: 7982--8235 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 85
7972 TGTGAACGAA
* ** * *
7982 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCATACAAACACCGCAATACGTGTTAAT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAACGTCGCAATACGTCTT-GT
*
8047 TTTTAGCGGCGTTTTTCCCAC
65 ATTTAGCGGCGTTTTTCCCAC
* * * *
8068 AAACGCCGCAATAGGTGTTGAGATTTAGTGGCGGTTTT-ATCACAAATGTCGCAATATGTCTTGT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCAT-ACAAACGTCGCAATACGTCTTGT
***
8132 GATTTAGCGGCGTTTTTCTTGC
65 -ATTTAGCGGCGTTTTTCCCAC
* * * * * *
8154 AAATGCCGCAATAGGTGTTGAGATTTTGCGGCGTTTTTTGATACAAACGTCGCAAAAGGTCTGGT
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCG-TTTTTCATACAAACGTCGCAATACGTCTTGT
*
8219 ATATAGCGGCGTTTTTC
65 ATTTAGCGGCGTTTTTC
8236 GGATATAAAC
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
85 3 0.02
86 114 0.80
87 23 0.16
88 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (85 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCATACAAACGTCGCAATACGTCTTGTA
TTTAGCGGCGTTTTTCCCAC
Found at i:17041 original size:21 final size:21
Alignment explanation
Indices: 16993--17043 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
16983 AGGCAATTAG
* *
16993 CTTTTCCTGGGACGTAACCAA
1 CTTTTCTTGGGACATAACCAA
17014 CTTTTCTTGGGACATAACCAA
1 CTTTTCTTGGGACATAACCAA
17035 CTTTTCTTG
1 CTTTTCTTG
17044 TGAAATTGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (21 bp):
CTTTTCTTGGGACATAACCAA
Found at i:19372 original size:76 final size:76
Alignment explanation
Indices: 19234--19724 Score: 496
Period size: 76 Copynumber: 6.5 Consensus size: 76
19224 TGTCCAACTC
* ** * *
19234 CACCAGTGAAATGAATACGTAATTCAAGAACTAAACTTATCACATAATTCCTGCAGTTAAATTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTA
*
19299 TCATTGACTTA
66 ACATTGACTTA
* * * * * *
19310 CATCAGTGTAATGAATACGTAATTCAAGCACTAAACTTATCACATCATTTCAACATTGAAATTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTA
19375 ACATTGACTTA
66 ACATTGACTTA
* * * *
19386 CACCAGTAAAATGAATACGTAATTCCAG-AGCTAAACTTATCACATAATTCCAATAATGAAACTT
1 CACCAGTGAAATGAATACGTAATTCAAGCA-CTAAACTTATCACATAATTCCAACAGTGAAACTT
* *
19450 ATCATTAACTTA
65 AACATTGACTTA
** *
19462 CACCAGTGATTTGAATACGTAATTCCAA-CACT--A---ATCACATAATTCCTACAGTGAAACTT
1 CACCAGTGAAATGAATACGTAATT-CAAGCACTAAACTTATCACATAATTCCAACAGTGAAACTT
19521 AACATTGACTTA
65 AACATTGACTTA
** * * * * * * * **
19533 CACCAACGAAATAAATACATAATTCCATCATTAAATTTATCACCTAATTCCAGTAGTGAAACTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTA
19598 ACATTGACTTA
66 ACATTGACTTA
* * * * * *
19609 AACCAATGAAATGAATACGTAATTTTAA-CACTAAACTTTTCACATAAGT-CAAGGAGTGAAACT
1 CACCAGTGAAATGAATACGTAA-TTCAAGCACTAAACTTATCACATAATTCCAA-CAGTGAAACT
* *
19672 GAACATTAACTTA
64 TAACATTGACTTA
* * *
19685 CACTAGTGAAATGAATACGTAATTCCAGCAATAAACTTAT
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTAT
19725 GATTTCACAT
Statistics
Matches: 339, Mismatches: 64, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
70 2 0.01
71 54 0.16
73 1 0.00
74 1 0.00
75 6 0.02
76 269 0.79
77 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (76 bp):
CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTA
ACATTGACTTA
Found at i:19593 original size:147 final size:146
Alignment explanation
Indices: 19264--19642 Score: 402
Period size: 147 Copynumber: 2.5 Consensus size: 146
19254 AATTCAAGAA
* * * * *
19264 CTAAACTTATCACATAATTCCTGCAGTTAAATTTATCATTGACTTACATCAGTG-TAATGAATAC
1 CTAAACTTATCACATAATTCCAGTAGTGAAACTTATCATTGACTTACACCAGTGAT-ATGAATAC
* * * * **
19328 GTAATTCAAGCACTAAACTTATCACATCATTTCAACATTGAAATTTAACATTGACTTACACCAGT
65 GTAATTCAA-CACT--A---ATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAAC
* * *
19393 AAAATGAATACGTAATTCCAGAG
124 AAAATAAATACATAATTCCACAG
* * * *
19416 CTAAACTTATCACATAATTCCAATAATGAAACTTATCATTAACTTACACCAGTGATTTGAATACG
1 CTAAACTTATCACATAATTCCAGTAGTGAAACTTATCATTGACTTACACCAGTGATATGAATACG
* *
19481 TAATTCCAACACTAATCACATAATTCCTACAGTGAAACTTAACATTGACTTACACCAACGAAATA
66 TAATT-CAACACTAATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAACAAAATA
19546 AATACATAATTCCATCA-
130 AATACATAATTCCA-CAG
* * * * * * *
19563 TTAAATTTATCACCTAATTCCAGTAGTGAAACTTAACATTGACTTAAACCAATGAAATGAATACG
1 CTAAACTTATCACATAATTCCAGTAGTGAAACTTATCATTGACTTACACCAGTGATATGAATACG
*
19628 TAATTTTAACACTAA
66 TAA-TTCAACACTAA
19643 ACTTTTCACA
Statistics
Matches: 191, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
147 120 0.63
148 3 0.02
150 1 0.01
152 63 0.33
153 4 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (146 bp):
CTAAACTTATCACATAATTCCAGTAGTGAAACTTATCATTGACTTACACCAGTGATATGAATACG
TAATTCAACACTAATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAACAAAATAA
ATACATAATTCCACAG
Found at i:19627 original size:223 final size:223
Alignment explanation
Indices: 19234--19711 Score: 537
Period size: 223 Copynumber: 2.1 Consensus size: 223
19224 TGTCCAACTC
* * * * *
19234 CACCAGTGAAATGAATACGTAATTCAAGAACTAAACTTATCACATAATTCCTGCAGTTAAATTTA
1 CACCAGTGAAATGAATACGTAATTC--CAAC---ACTAATCACATAATTCCTACAGTGAAACTTA
* * ** * * * * *
19299 TCATTGACTTACATCAGTGTAATGAATACGTAATTCAAGCACTAAACTTATCACATCATTTCAAC
61 ACATTGACTTACACCAACGAAATAAATACATAATTCAAGCACTAAACTTATCACATAATTCCAAC
* * * * *
19364 ATTGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAGA-GCTAAACTTATCA
126 AGTGAAACTTAACATTGACTTAAACCAATAAAATGAATACGTAATTCCA-ACACTAAACTTATCA
* * * *
19428 CATAATTCCAA-TAATGAAACTTATCATTAACTTA
190 CATAAGT-CAAGGAATGAAACTGAACATTAACTTA
**
19462 CACCAGTGATTTGAATACGTAATTCCAACACTAATCACATAATTCCTACAGTGAAACTTAACATT
1 CACCAGTGAAATGAATACGTAATTCCAACACTAATCACATAATTCCTACAGTGAAACTTAACATT
* * * * * **
19527 GACTTACACCAACGAAATAAATACATAATTCCATCATTAAATTTATCACCTAATTCCAGTAGTGA
66 GACTTACACCAACGAAATAAATACATAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGA
* ** *
19592 AACTTAACATTGACTTAAACCAATGAAATGAATACGTAATTTTAACACTAAACTTTTCACATAAG
131 AACTTAACATTGACTTAAACCAATAAAATGAATACGTAATTCCAACACTAAACTTATCACATAAG
*
19657 TCAAGGAGTGAAACTGAACATTAACTTA
196 TCAAGGAATGAAACTGAACATTAACTTA
*
19685 CACTAGTGAAATGAATACGTAATTCCA
1 CACCAGTGAAATGAATACGTAATTCCA
19712 GCAATAAACT
Statistics
Matches: 208, Mismatches: 40, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
222 4 0.02
223 178 0.86
226 3 0.01
228 23 0.11
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (223 bp):
CACCAGTGAAATGAATACGTAATTCCAACACTAATCACATAATTCCTACAGTGAAACTTAACATT
GACTTACACCAACGAAATAAATACATAATTCAAGCACTAAACTTATCACATAATTCCAACAGTGA
AACTTAACATTGACTTAAACCAATAAAATGAATACGTAATTCCAACACTAAACTTATCACATAAG
TCAAGGAATGAAACTGAACATTAACTTA
Found at i:20095 original size:19 final size:21
Alignment explanation
Indices: 20064--20105 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
20054 TTCCCCTCAC
20064 ATTTGTGATTCTT-A-CCTTA
1 ATTTGTGATTCTTCACCCTTA
20083 ATTTGT-ATGTCTTCACCCTTA
1 ATTTGTGAT-TCTTCACCCTTA
20104 AT
1 AT
20106 CACCTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.10
19 10 0.50
20 1 0.05
21 7 0.35
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTGTGATTCTTCACCCTTA
Found at i:23241 original size:28 final size:29
Alignment explanation
Indices: 23178--23253 Score: 118
Period size: 28 Copynumber: 2.6 Consensus size: 29
23168 ACGATTAGGT
23178 GCTCCCGTGCAAGTCACTCTAATCCTTCAGG
1 GCTCCCGTGCAAGTCACTC--ATCCTTCAGG
*
23209 ACTCCCGTGCAAGTCACTC-TCCTTCAGG
1 GCTCCCGTGCAAGTCACTCATCCTTCAGG
23237 GCTCCCGTGCAAGTCAC
1 GCTCCCGTGCAAGTCAC
23254 CCGAAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
28 25 0.58
31 18 0.42
ACGTcount: A:0.18, C:0.38, G:0.20, T:0.24
Consensus pattern (29 bp):
GCTCCCGTGCAAGTCACTCATCCTTCAGG
Found at i:23646 original size:76 final size:76
Alignment explanation
Indices: 23553--23714 Score: 236
Period size: 76 Copynumber: 2.1 Consensus size: 76
23543 TCACAATTCT
* *
23553 AGCAGTGAAACGTAACATTGATTTACAGC-AGTGAAATGAATACGCAATTCTAGCACTAAACTTA
1 AGCAGTGAAACGTAACATTGACTTACA-CTAGTGAAATGAATACGCAATTCAAGCACTAAACTTA
*
23617 TGACATGATTTC
65 TGACATCATTTC
* * *
23629 AGTAGTGAAACTTAACATTGACTTACACTAGTGAAATGAATACGTAATTCAAGCACTAAACTTAT
1 AGCAGTGAAACGTAACATTGACTTACACTAGTGAAATGAATACGCAATTCAAGCACTAAACTTAT
* *
23694 TACATCATTTT
66 GACATCATTTC
23705 AGCAGTGAAA
1 AGCAGTGAAA
23715 TTTAGCAATG
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
75 1 0.01
76 75 0.99
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (76 bp):
AGCAGTGAAACGTAACATTGACTTACACTAGTGAAATGAATACGCAATTCAAGCACTAAACTTAT
GACATCATTTC
Found at i:24325 original size:24 final size:24
Alignment explanation
Indices: 24293--24348 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
24283 CTATTCTTTC
24293 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
24317 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
24341 GCTTCAAT
1 GCTTCAAT
24349 CGAACTTCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:24606 original size:20 final size:21
Alignment explanation
Indices: 24581--24636 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
24571 GCGGTTCAAA
24581 CCGGTT-TTGCCGGTTTTCAG
1 CCGGTTCTTGCCGGTTTTCAG
***
24601 CCGGTTCACCCCGGTTTTCAG
1 CCGGTTCTTGCCGGTTTTCAG
24622 CCGGTTCTT-CCGGTT
1 CCGGTTCTTGCCGGTT
24637 CTTTACCGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.05, C:0.32, G:0.27, T:0.36
Consensus pattern (21 bp):
CCGGTTCTTGCCGGTTTTCAG
Found at i:24904 original size:76 final size:76
Alignment explanation
Indices: 24742--25100 Score: 508
Period size: 76 Copynumber: 4.8 Consensus size: 76
24732 TTAATAACAT
* * * * *
24742 TGAAATTTAGCATTGACTTACACCAGTAAAATGAATACGTAATTCCAGCGCT-AACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
*
24806 AATTCCAGTAA
66 AATTCCAGCAA
* ** *
24817 TGAAACTTAACATTAACTTACACCAACGAAATGAATACGTAATTCCAACACTAAACTTATCTCAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
*
24882 AATTCCAACAA
66 AATTCCAGCAA
* *
24893 TGAAACATAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
24958 AATTCCAGCAA
66 AATTCCAGCAA
* * * *
24969 TGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAATAC--AAGTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
25032 AATTCCAGCAA
66 AATTCCAGCAA
* * * *
25043 CGAAACTTAACATTGACTTACATCAGTGAAATGAATATGTAACTCCAACACTAAACTT
1 TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTT
25101 TGAAGTTTAA
Statistics
Matches: 249, Mismatches: 32, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
74 66 0.27
75 44 0.18
76 139 0.56
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.27
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACAT
AATTCCAGCAA
Found at i:35457 original size:141 final size:142
Alignment explanation
Indices: 35179--35464 Score: 524
Period size: 141 Copynumber: 2.0 Consensus size: 142
35169 ACCATTGGAA
35179 TTTGTTCGTCTCCATAAGATCTATTCAGTGATGATTCTGAAGGTGATCAATGGACAAGAATTGTT
1 TTTGTTCG-CTCCATAAGATCTATTCAGTGATGATTCTGAAGGTGATCAATGGACAAGAATTGTT
35244 ATATTAAAGAGTGAATACCTTGGAAGGGCATTAAATGGACCGATCGACATGCATAGTTTGGGAGT
65 ATATTAAAGAGTGAATACCTTGGAAGGGCATTAAATGGACCGATCGACATGCATAGTTTGGGAGT
35309 TGTTCAACTTAAG
130 TGTTCAACTTAAG
35322 TTTGTTCG-TCCAT-AGATCTATTCAGTGATGATTCTGAAGGTGATCAATGGACAAGAATTGTTA
1 TTTGTTCGCTCCATAAGATCTATTCAGTGATGATTCTGAAGGTGATCAATGGACAAGAATTGTTA
35385 GTATTAAAGAGTGAATACCTTGGAAGGGCATTAAATGGACCGATCGACATGCATTAGTTTGGGAG
66 -TATTAAAGAGTGAATACCTTGGAAGGGCATTAAATGGACCGATCGACATGCA-TAGTTTGGGAG
35450 TTG-TCAACTTAAG
129 TTGTTCAACTTAAG
35463 TT
1 TT
35465 ATTTCGATAA
Statistics
Matches: 141, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
140 50 0.35
141 69 0.49
142 14 0.10
143 8 0.06
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (142 bp):
TTTGTTCGCTCCATAAGATCTATTCAGTGATGATTCTGAAGGTGATCAATGGACAAGAATTGTTA
TATTAAAGAGTGAATACCTTGGAAGGGCATTAAATGGACCGATCGACATGCATAGTTTGGGAGTT
GTTCAACTTAAG
Found at i:36832 original size:39 final size:40
Alignment explanation
Indices: 36778--36857 Score: 153
Period size: 39 Copynumber: 2.0 Consensus size: 40
36768 TGAGTCCATA
36778 AAACTTAAATATGCTTGAGAGAT-AGTTTAGCATCCTTAG
1 AAACTTAAATATGCTTGAGAGATAAGTTTAGCATCCTTAG
36817 AAACTTAAATATGCTTGAGAGATAAGTTTAGCATCCTTAG
1 AAACTTAAATATGCTTGAGAGATAAGTTTAGCATCCTTAG
36857 A
1 A
36858 TCAATCCCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 23 0.57
40 17 0.43
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (40 bp):
AAACTTAAATATGCTTGAGAGATAAGTTTAGCATCCTTAG
Found at i:37376 original size:31 final size:31
Alignment explanation
Indices: 37340--37444 Score: 160
Period size: 31 Copynumber: 3.4 Consensus size: 31
37330 AGATACCGGA
*
37340 CTTGGGTAGGCCCTGTGGCCCTGAGATCATT
1 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
37371 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
1 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
* *
37402 CTTGGATAGG-CCTCGTGGCCCTGAGAACTTT
1 CTTGGGTAGGCCCT-GTGGCCCTGAGATCTTT
37433 CTT-GGTAGGCCC
1 CTTGGGTAGGCCC
37445 ATAGGCCCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
30 8 0.12
31 60 0.88
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.30
Consensus pattern (31 bp):
CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
Found at i:42947 original size:13 final size:13
Alignment explanation
Indices: 42929--42955 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42919 AATAATTTTA
42929 GAAATTTTTCAGG
1 GAAATTTTTCAGG
42942 GAAATTTTTCAGG
1 GAAATTTTTCAGG
42955 G
1 G
42956 CTCCCAGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (13 bp):
GAAATTTTTCAGG
Found at i:43068 original size:24 final size:23
Alignment explanation
Indices: 43041--43102 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
43031 TGACCCGACT
43041 CGGTCTGACCCTAACTGCCTAACC
1 CGGTCTGACCC-AACTGCCTAACC
* * * *
43065 CGGTCTGACCCGATTGCCTGATC
1 CGGTCTGACCCAACTGCCTAACC
43088 CGGTCTGACCCAACT
1 CGGTCTGACCCAACT
43103 ACCCAACCTG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.23
Consensus pattern (23 bp):
CGGTCTGACCCAACTGCCTAACC
Found at i:49642 original size:32 final size:33
Alignment explanation
Indices: 49606--49669 Score: 94
Period size: 35 Copynumber: 1.9 Consensus size: 33
49596 AAGATGGGTG
*
49606 TTAATTA-GTGGTTCCGGTGGTCATTTCTGTTT
1 TTAATTATGTGGTTCCAGTGGTCATTTCTGTTT
49638 TTAATTAGTTGTGGTTCCAGTGGTCATTTCTG
1 TTAATTA--TGTGGTTCCAGTGGTCATTTCTG
49670 GAGGTATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.25
35 21 0.75
ACGTcount: A:0.14, C:0.12, G:0.25, T:0.48
Consensus pattern (33 bp):
TTAATTATGTGGTTCCAGTGGTCATTTCTGTTT
Found at i:59654 original size:28 final size:28
Alignment explanation
Indices: 59612--59679 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
59602 CAAAATTTTT
* *
59612 ATAGAATTTGAAGTTTATGATATAATTC
1 ATAGGATTTGGAGTTTATGATATAATTC
* *
59640 ATAGGATTTGGAGTTTATGATGTAATTT
1 ATAGGATTTGGAGTTTATGATATAATTC
*
59668 ATAGGGTTTGGA
1 ATAGGATTTGGA
59680 TTAAATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (28 bp):
ATAGGATTTGGAGTTTATGATATAATTC
Found at i:60794 original size:13 final size:13
Alignment explanation
Indices: 60776--60817 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
60766 CTGGATCGAA
60776 CCGAGCCACCGAG
1 CCGAGCCACCGAG
60789 CCGAGCCACCGAG
1 CCGAGCCACCGAG
60802 CCGAGCCACCGAG
1 CCGAGCCACCGAG
60815 CCG
1 CCG
60818 TTAACTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.48, G:0.31, T:0.00
Consensus pattern (13 bp):
CCGAGCCACCGAG
Found at i:63738 original size:13 final size:13
Alignment explanation
Indices: 63722--63747 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63712 CCGTTGACGT
63722 TTGACTTTGACCA
1 TTGACTTTGACCA
63735 TTGACTTTGACCA
1 TTGACTTTGACCA
63748 AAAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGACTTTGACCA
Found at i:65384 original size:24 final size:24
Alignment explanation
Indices: 65352--65410 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
65342 AATTCTATTT
* *
65352 TGATTTCTGATCTGGATTATGTTC
1 TGATTTCTGATATGAATTATGTTC
* * *
65376 TGATATCTGATATGAATTCTGTTT
1 TGATTTCTGATATGAATTATGTTC
65400 TGATTTCTGAT
1 TGATTTCTGAT
65411 TTCTACGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.10, G:0.19, T:0.51
Consensus pattern (24 bp):
TGATTTCTGATATGAATTATGTTC
Found at i:69692 original size:24 final size:24
Alignment explanation
Indices: 69663--69725 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
69653 TTTCCTATTA
69663 AATTCTGTTCTGATACCTGACCTG
1 AATTCTGTTCTGATACCTGACCTG
* * ** *
69687 AATTCTATTCTGGTTTCTGATCTG
1 AATTCTGTTCTGATACCTGACCTG
* *
69711 GATTCTGTTATGATA
1 AATTCTGTTCTGATA
69726 TCTTATATGA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.44
Consensus pattern (24 bp):
AATTCTGTTCTGATACCTGACCTG
Found at i:75934 original size:7 final size:7
Alignment explanation
Indices: 75886--75957 Score: 83
Period size: 7 Copynumber: 10.3 Consensus size: 7
75876 TCTGTAACAA
75886 TAATAAT
1 TAATAAT
*
75893 TATTAAT
1 TAATAAT
**
75900 TAATGTT
1 TAATAAT
* *
75907 TATTAAA
1 TAATAAT
75914 TAA-AAT
1 TAATAAT
75920 TCAATAAT
1 T-AATAAT
75928 TAATAAT
1 TAATAAT
75935 TAATAAT
1 TAATAAT
75942 TAATAAT
1 TAATAAT
75949 TAATAAT
1 TAATAAT
75956 TA
1 TA
75958 GTTGATTTCT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
6 3 0.06
7 46 0.87
8 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (7 bp):
TAATAAT
Found at i:76564 original size:69 final size:69
Alignment explanation
Indices: 76410--76575 Score: 197
Period size: 69 Copynumber: 2.4 Consensus size: 69
76400 TACGATAATA
* * * * *
76410 TGCTCCCTTGTGAGTCACTCTAATCCTTCAGAACTCCCGTGCGAGTCAATCGAAATAATTTCGAT
1 TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCGTGCAAGTCAACCGAAATAATTACAAT
76475 TAGG
66 TAGG
* ** * * * *
76479 TGGTCCCATGCAAGTCACTCTAATCCTTCGGAGCTCCTGTGCAAGTCACCCGAAATAATTACAAT
1 TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCGTGCAAGTCAACCGAAATAATTACAAT
76544 TAGG
66 TAGG
* * *
76548 TGCTTCCGTGTGAGTCACTCTATTCCTT
1 TGCTCCCATGTGAGTCACTCTAATCCTT
76576 TGGGACTTTC
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
69 79 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (69 bp):
TGCTCCCATGTGAGTCACTCTAATCCTTCAGAACTCCCGTGCAAGTCAACCGAAATAATTACAAT
TAGG
Found at i:76859 original size:76 final size:76
Alignment explanation
Indices: 76775--77194 Score: 554
Period size: 76 Copynumber: 5.5 Consensus size: 76
76765 TCTAGCAGAA
* * * * * * *
76775 AAACTTAACATCGACTTATACCAATGAAATGAATACATAATTCTAGCACTAAACTTATGACATGA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
* **
76840 TTTCAGGAGTG
66 TTCCAACAGTG
* * * *
76851 AAACTTAACATTGACTTACACCAGTGAAATGAATACATAATTCAAGAACTAAACTTATCACATCA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
* * *
76916 TTTCAGCAATG
66 TTCCAACAGTG
* * **
76927 -AACTTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTAAAACATA
1 AAAC-TTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATA
76991 ATTCCAACAGTG
65 ATTCCAACAGTG
*
77003 AAACTTAACATTGACTTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTATCACATAA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
* *
77068 TTCCATCAATG
66 TTCCAACAGTG
* * * *
77079 AAATTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
77144 TTCCAACAGTG
66 TTCCAACAGTG
* *
77155 AAACTTAACATTGGCTTACATCAGTGAAATGAATACGTAA
1 AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAA
77195 CTCGAGTTAC
Statistics
Matches: 303, Mismatches: 39, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
75 3 0.01
76 297 0.98
77 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (76 bp):
AAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAA
TTCCAACAGTG
Found at i:77223 original size:107 final size:107
Alignment explanation
Indices: 77100--77301 Score: 298
Period size: 107 Copynumber: 1.9 Consensus size: 107
77090 TGACTTAAAC
*
77100 CAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTC-CAACAGTGAAACTTAAC
1 CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTC-ACAGTGAAACTTAAC
* * *
77164 ATTGGCTTACATCAGTGAAATGAATACGTAACTCGAGTTACAT
65 ATTGACTTACACCAGTGAAACGAATACGTAACTCGAGTTACAT
* * * * * *
77207 CAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTCGCAGTGTAATTTAACA
1 CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTCACAGTGAAACTTAACA
77272 TTGACTTACACCAGTGAAACGAATACGTAA
66 TTGACTTACACCAGTGAAACGAATACGTAA
77302 TTCCAGCACT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 83 0.99
108 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (107 bp):
CAGTAAAATGAATACGTAATTACAACACTAAACTTATCACATAATTCTCACAGTGAAACTTAACA
TTGACTTACACCAGTGAAACGAATACGTAACTCGAGTTACAT
Found at i:77225 original size:183 final size:183
Alignment explanation
Indices: 77018--77350 Score: 542
Period size: 183 Copynumber: 1.8 Consensus size: 183
77008 TAACATTGAC
* * *
77018 TTACACCAGTGAAATTAATACGTAATTCCAGCACTAAACTTATCACATAATTC-CATCAATGAAA
1 TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTC-GCAATGAAA
*
77082 TTTAACATTGACTTAAACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACATAATTC
65 TTTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATTC
77147 CAACAGTGAAACTTAACATTGGCTTACATCAGTGAAATGAATACGTAACTCGAG
130 CAACAGTGAAACTTAACATTGGCTTACATCAGTGAAATGAATACGTAACTCGAG
* * * *
77201 TTACATCAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATTCTCGCAGTGTAAT
1 TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTCGCAATGAAAT
* * *
77266 TTAACATTGACTTACACCAGTGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATTCC
66 TTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
*
77331 TACAGTGAAACTTAACATTG
131 AACAGTGAAACTTAACATTG
77351 ACTTGTTGTC
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
183 136 0.99
184 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (183 bp):
TTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCTCGCAATGAAAT
TTAACATTGACTTAAACCAGTAAAACGAATACGTAATTCCAACACTAAACTTATCACATAATTCC
AACAGTGAAACTTAACATTGGCTTACATCAGTGAAATGAATACGTAACTCGAG
Found at i:77289 original size:76 final size:76
Alignment explanation
Indices: 77201--77354 Score: 229
Period size: 76 Copynumber: 2.0 Consensus size: 76
77191 GTAACTCGAG
* * * * *
77201 TTACATCAGTGAAATGAATACGTAATTATAGCACTAAACTTATCACATAATT-CTCGCAGTGTAA
1 TTACACCAGTGAAACGAATACGTAATTACAGCACTAAACTTATCACATAATTCCT-ACAGTGAAA
*
77265 TTTAACATTGAC
65 CTTAACATTGAC
*
77277 TTACACCAGTGAAACGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCTACAGTGAAAC
1 TTACACCAGTGAAACGAATACGTAATTACAGCACTAAACTTATCACATAATTCCTACAGTGAAAC
77342 TTAACATTGAC
66 TTAACATTGAC
77353 TT
1 TT
77355 GTTGTCGTCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
76 68 0.97
77 2 0.03
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (76 bp):
TTACACCAGTGAAACGAATACGTAATTACAGCACTAAACTTATCACATAATTCCTACAGTGAAAC
TTAACATTGAC
Found at i:79826 original size:21 final size:21
Alignment explanation
Indices: 79800--79846 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
79790 CTAATATTGC
79800 AATGTCAAAATTAGGTGCAAT
1 AATGTCAAAATTAGGTGCAAT
79821 AATGTCAAAATTAGGTGCAAT
1 AATGTCAAAATTAGGTGCAAT
79842 AATGT
1 AATGT
79847 TTGAAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (21 bp):
AATGTCAAAATTAGGTGCAAT
Found at i:80367 original size:76 final size:75
Alignment explanation
Indices: 80234--80436 Score: 212
Period size: 76 Copynumber: 2.7 Consensus size: 75
80224 CGTCTTCCGC
* * * * * * * *
80234 AACATGACTTACATCAGCGAAATGAATACATAATTCCAGCATTAAATATATATCATAATTCCAGT
1 AACATGACTTAAACCAGTGAAATGAATACGTAATTCCAGCACTAAATATATATCATAAGTCAAGG
*
80299 AGTGAAACTT
66 AGTGAAACTG
* *
80309 AACATCGACTTAAACCAGTGAAATGAATACGTAATTCCAGCACTACACT-TTTCA-CATAAGTCA
1 AACAT-GACTTAAACCAGTGAAATGAATACGTAATTCCAGCACTA-AATATAT-ATCATAAGTCA
80372 AGGAGTGAAACTG
63 AGGAGTGAAACTG
* * * * *
80385 AACATTGACTTAGACTAGTGAAATGAATACGTAATTCTAGCATTAAACATAT
1 AACA-TGACTTAAACCAGTGAAATGAATACGTAATTCCAGCACTAAATATAT
80437 GATTTCACAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
75 6 0.06
76 95 0.90
77 4 0.04
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (75 bp):
AACATGACTTAAACCAGTGAAATGAATACGTAATTCCAGCACTAAATATATATCATAAGTCAAGG
AGTGAAACTG
Found at i:84442 original size:28 final size:28
Alignment explanation
Indices: 84402--84464 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
84392 AGTTTACAAA
*
84402 ATTTGAAGTTTATGATATAATTCATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
* *
84430 ATTTGGAGTTTATGATGTAATTTATAGG
1 ATTTGGAGTTTATGATATAATTCATAGG
*
84458 GTTTGGA
1 ATTTGGA
84465 TTAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.44
Consensus pattern (28 bp):
ATTTGGAGTTTATGATATAATTCATAGG
Found at i:86627 original size:69 final size:69
Alignment explanation
Indices: 86552--86787 Score: 240
Period size: 69 Copynumber: 3.4 Consensus size: 69
86542 TACGATAATA
* * *
86552 TGCTCCCTTGTGTGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACGGAAATAATTACGAT
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
86617 TAGG
66 TAGG
** ** * * * * * *
86621 TGCTCCCAAGCAAGTCACTCTAATCCTTCGGGGCTCCTGTACAAGTCACCCGAAATAATTATGAC
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
*
86686 TAGA
66 TAGG
* * * ** * * *
86690 TGCTCCCGTGTGAGTCACTCTATTCCTTAGGGGCTTTCGTGTGAGT-AACCAAGAATAATCACGA
1 TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGA-AATAATTACGA
86754 TTAGG
65 TTAGG
* *
86759 TGCTCTCTTATGAGTCACTCTAATCCTTC
1 TGCTCCCTTGTGAGTCACTCTAATCCTTC
86788 AATGCTTATG
Statistics
Matches: 129, Mismatches: 37, Indels: 2
0.77 0.22 0.01
Matches are distributed among these distances:
68 4 0.03
69 125 0.97
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (69 bp):
TGCTCCCTTGTGAGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGAT
TAGG
Found at i:88366 original size:46 final size:45
Alignment explanation
Indices: 88295--88382 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 45
88285 TGCAAGTCAC
* **
88295 CCAAAATAATTATGATTAGGTGCTCCCGTGTGAGTCACTCTATAA
1 CCAAAATAATCATGATTAGGTGCTCCCGTACGAGTCACTCTATAA
*
88340 CCAAGAATAATCATGATTAGGTGCTCCCTTACGAGTCACTCTA
1 CCAA-AATAATCATGATTAGGTGCTCCCGTACGAGTCACTCTA
88383 ATCCTTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 4 0.11
46 34 0.89
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (45 bp):
CCAAAATAATCATGATTAGGTGCTCCCGTACGAGTCACTCTATAA
Found at i:88675 original size:76 final size:76
Alignment explanation
Indices: 88578--88948 Score: 460
Period size: 76 Copynumber: 4.9 Consensus size: 76
88568 AACACATCAC
* * * * * * *
88578 AATTCTAGCAGTGAAACTTAACATTGATTTACGCTAATGAAATGAATACGTAATTCTAGCACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
*
88643 ACTTATGACAT
66 ACTTATCACAT
* * *
88654 GATTTCAGCAGTGAAACTTAACGTTGACTTACACCAGTGAAATGAATACGTAATT-CAAGCACTA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAA-CACTA
88718 AACTTATCACAT
65 AACTTATCACAT
* ** * *
88730 CATTTTAGCAGTGAAATTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
88795 ACTTATCACAT
66 ACTTATCACAT
* * * * *
88806 AATTCCAACAATGAAATTTAATATTGACTT--ACCAGTAAAATGAATACGTAATTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
*
88869 CCTTATCACAT
66 ACTTATCACAT
* * * * * *
88880 AATTCCAACAGCGAAACTTAACATTGACTTGCATCAGTGAAATGAATACGTGACTCCAACACTAA
1 AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
88945 ACTT
66 ACTT
88949 TGAAGCTTAA
Statistics
Matches: 257, Mismatches: 34, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
74 67 0.26
75 1 0.00
76 186 0.72
77 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (76 bp):
AATTCCAGCAGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAA
ACTTATCACAT
Found at i:88908 original size:150 final size:151
Alignment explanation
Indices: 88590--88948 Score: 443
Period size: 150 Copynumber: 2.4 Consensus size: 151
88580 TTCTAGCAGT
* * * * * * * *
88590 GAAACTTAACATTGATTTACGCTAATGAAATGAATACGTAATTCTAGCACTAAACTTATGACATG
1 GAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACATA
* * * * *
88655 ATTTCAGCAGTGAAACTTAACGTTGACTTACACCAGTGAAATGAATACGTAATTCAAGCACTAAA
66 ATTCCAACAATGAAACTTAACATTGACTTA-ACCAGTAAAATGAATACGTAATTCAAGCACTAAA
* ** * *
88720 CTTATCACATCATTTTAGCAGT
130 CTTATCACATAATTCCAACAGC
* *
88742 GAAATTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAACACTAAACTTATCACATA
1 GAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACATA
* * *
88807 ATTCCAACAATGAAATTTAATATTGACTT-ACCAGTAAAATGAATACGTAATTCCAA-CACTAAC
66 ATTCCAACAATGAAACTTAACATTGACTTAACCAGTAAAATGAATACGTAATT-CAAGCACTAAA
88870 CTTATCACATAATTCCAACAGC
130 CTTATCACATAATTCCAACAGC
* * * *
88892 GAAACTTAACATTGACTTGCATCAGTGAAATGAATACGTGACTCCAACACTAAACTT
1 GAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTT
88949 TGAAGCTTAA
Statistics
Matches: 177, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
150 96 0.54
151 3 0.02
152 78 0.44
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (151 bp):
GAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACTAAACTTATCACATA
ATTCCAACAATGAAACTTAACATTGACTTAACCAGTAAAATGAATACGTAATTCAAGCACTAAAC
TTATCACATAATTCCAACAGC
Found at i:89001 original size:58 final size:58
Alignment explanation
Indices: 88896--89006 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
88886 AACAGCGAAA
* * *
88896 CTTAACATTGACTTGCATCAGTGAAATGAATACGTGACTCCAACACTAAACTTTGAAG
1 CTTAACATTGACTTACATCAGTGAAATGAATACGTAACTACAACACTAAACTTTGAAG
* * * *
88954 CTTAACATTGACTTACATCAGTGAAATGGATACGTAATTATAGCACTAAACTT
1 CTTAACATTGACTTACATCAGTGAAATGAATACGTAACTACAACACTAAACTT
89007 ATCACATAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 46 1.00
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.30
Consensus pattern (58 bp):
CTTAACATTGACTTACATCAGTGAAATGAATACGTAACTACAACACTAAACTTTGAAG
Found at i:89081 original size:76 final size:76
Alignment explanation
Indices: 88949--89133 Score: 271
Period size: 76 Copynumber: 2.4 Consensus size: 76
88939 CACTAAACTT
* * * *
88949 TGAAGCTTAACATTGACTTACATCAGTGAAATGGATACGTAATTATAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGCATACGTAATTACAGCACTAAACTTATCACAT
89014 AATTCCCACAG
66 AATTCCCACAG
* * *
89025 TGAAATTTAACATTGACTTACACCAGTGAAATGCATACGTAATTCCAGCACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGCATACGTAATTACAGCACTAAACTTATCACAT
**
89090 AATTCCTGCAG
66 AATTCCCACAG
* *
89101 TGAAACTTAACATTAACTTACAACAGCGAAATG
1 TGAAACTTAACATTGACTTACAACAGTGAAATG
89134 AAAAAAAGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
76 97 1.00
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACAACAGTGAAATGCATACGTAATTACAGCACTAAACTTATCACAT
AATTCCCACAG
Found at i:90533 original size:83 final size:83
Alignment explanation
Indices: 90233--90571 Score: 267
Period size: 83 Copynumber: 4.1 Consensus size: 83
90223 TAAAAGCACT
* ** * * *
90233 TAAAGTACTA-TTTTGTTGCGGTGTTTGTTG-AAAAATGGCACCATAGATGAACCCTATTACAAC
1 TAAAGTACTACTCTT-TTGCGGCATTTGTTGAAAAAATGGCACTATAGATGAACCCTATTATAGC
* * * *
90296 ATCTGTATAAAAACGCTGC
65 GTTTGTATAAAAACACCGC
* * * * * * * * *
90315 TAAAGTACTCCACTGTTGTGACGTTTGGTGGAAAAAAT-GCAACTATAGATGAACTCT-TTATTG
1 TAAAGTACTACTCTTTTGCGGCATTT-GTTGAAAAAATGGC-ACTATAGATGAACCCTATTATAG
* *
90378 ATGTTTGTATAAAAA-AGCCAC
64 -CGTTTGTATAAAAACA-CCGC
* * ** * *
90399 TAACA-TAATACTCTATTGCGGCATTTGTTGAAAAAATACCATTATATATGAACCCTATTATAGC
1 TAA-AGTACTACTCTTTTGCGGCATTTGTTGAAAAAATGGCACTATAGATGAACCCTATTATAGC
*
90463 GTTTATATAAAAACACCGC
65 GTTTGTATAAAAACACCGC
* * * **
90482 TAAAGTACTACTCTTTTGCGGCATTTGTTGAAAAAATGGCACTATAGATGAACCTTATTGTGGTT
1 TAAAGTACTACTCTTTTGCGGCATTTGTTGAAAAAATGGCACTATAGATGAACCCTATTATAGCG
*
90547 TTTTTAATAAAAACACCGC
66 TTTGT-ATAAAAACACCGC
90566 TAAAGT
1 TAAAGT
90572 TACCATTTTG
Statistics
Matches: 198, Mismatches: 47, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
82 18 0.09
83 103 0.52
84 76 0.38
85 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (83 bp):
TAAAGTACTACTCTTTTGCGGCATTTGTTGAAAAAATGGCACTATAGATGAACCCTATTATAGCG
TTTGTATAAAAACACCGC
Found at i:91505 original size:44 final size:44
Alignment explanation
Indices: 91438--91526 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
91428 ATAAGTTCTA
91438 TTTTAGTTGAATCTTCATATTTCTAGACA-ACAGGGGAGTTGATG
1 TTTTAGTTGAATCTTCATATTTCTAGACAGACA-GGGAGTTGATG
* * * * *
91482 TTTTAGTTGCATCTTCGTGTTTCTGGACAGTCAGGGAGTTGATG
1 TTTTAGTTGAATCTTCATATTTCTAGACAGACAGGGAGTTGATG
91526 T
1 T
91527 AAGGAGATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 37 0.95
45 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.40
Consensus pattern (44 bp):
TTTTAGTTGAATCTTCATATTTCTAGACAGACAGGGAGTTGATG
Found at i:92806 original size:29 final size:29
Alignment explanation
Indices: 92771--92852 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
92761 AAACTAAATT
* *
92771 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
92800 GATGTCATTGCTTACATCATTTAGGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
92829 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
92853 GTTAGGTGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:97574 original size:29 final size:29
Alignment explanation
Indices: 97540--97620 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
97530 AACTAAATTA
* *
97540 ATGTCATTACTTACATAATTTAATTAAAG
1 ATGTCATTGCTTACATAATTTAAGTAAAG
* *
97569 ATGTCATTGCTTACATCATTTAAGTAATG
1 ATGTCATTGCTTACATAATTTAAGTAAAG
97598 ATGTCATTGCTTACATCAATTTA
1 ATGTCATTGCTTACAT-AATTTA
97621 GTTAGGTGAG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
ATGTCATTGCTTACATAATTTAAGTAAAG
Found at i:101129 original size:5 final size:5
Alignment explanation
Indices: 101119--101152 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
101109 ATTTTAAAAT
101119 CAATG CAATG CAATG CAATG CAATG CAATG CAAT
1 CAATG CAATG CAATG CAATG CAATG CAATG CAAT
101153 CAAATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (5 bp):
CAATG
Found at i:104045 original size:27 final size:27
Alignment explanation
Indices: 103983--104071 Score: 94
Period size: 27 Copynumber: 3.4 Consensus size: 27
103973 ATCAGAGCTC
* *
103983 GGGGTATTTTGATCA-GTT-GAAGTTCA
1 GGGGTATTTTGATAATTTTGGAA-TTCA
*
104009 TGGGTATTTTGATAATTTTGGAATTCA
1 GGGGTATTTTGATAATTTTGGAATTCA
* *
104036 GGGGTGTTTTGGTAATTTTGGAATTCA
1 GGGGTATTTTGATAATTTTGGAATTCA
*
104063 -AGGTATTTT
1 GGGGTATTTT
104072 TTATTTGGGG
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.38
27 30 0.57
28 3 0.06
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.45
Consensus pattern (27 bp):
GGGGTATTTTGATAATTTTGGAATTCA
Found at i:104792 original size:2 final size:2
Alignment explanation
Indices: 104785--104815 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
104775 TAAAGTATTC
104785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
104816 GTTTAGGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:105355 original size:90 final size:90
Alignment explanation
Indices: 105200--105382 Score: 312
Period size: 90 Copynumber: 2.0 Consensus size: 90
105190 AGCTCTAATC
* *
105200 TTAACAGTATCAAGCATTATTGATATGATTAGGTCGTGCTTCAACCTTTAGGAGCGATACAACCT
1 TTAACAGTATCAAGCATTATCGATATGATTAGGTCGTGCTTCAACCATTAGGAGCGATACAACCT
105265 TTAATTTTATCAATATCTATAGAAT
66 TTAATTTTATCAATATCTATAGAAT
** *
105290 TTAACAGTATCAAGCATTATCGATATGATTAGGTCGTGCTTCAACCATTAGGAGTTATACGACCT
1 TTAACAGTATCAAGCATTATCGATATGATTAGGTCGTGCTTCAACCATTAGGAGCGATACAACCT
*
105355 TTAATTTTATCAATATCTATAGATT
66 TTAATTTTATCAATATCTATAGAAT
105380 TTA
1 TTA
105383 TCCAAATATC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (90 bp):
TTAACAGTATCAAGCATTATCGATATGATTAGGTCGTGCTTCAACCATTAGGAGCGATACAACCT
TTAATTTTATCAATATCTATAGAAT
Found at i:105546 original size:27 final size:27
Alignment explanation
Indices: 105494--105583 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
105484 TCAGATCTCG
* ** *
105494 GGGTATTTTGATAAGGTT-GAAGTTCAT
1 GGGTATTTTGGTAATTTTGGAA-TTCAA
105521 GGGTATTTTGGTAATTTTGGAATTCAA
1 GGGTATTTTGGTAATTTTGGAATTCAA
105548 GGGTATTTTGGTAATTTTGGAATTCAA
1 GGGTATTTTGGTAATTTTGGAATTCAA
105575 GGGTATTTT
1 GGGTATTTT
105584 TGATTTGGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 55 0.95
28 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.28, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGGAATTCAA
Found at i:106908 original size:85 final size:84
Alignment explanation
Indices: 106699--107049 Score: 253
Period size: 85 Copynumber: 4.1 Consensus size: 84
106689 CTTATAATGT
* * * * * * * ** *
106699 GGATGCCAAGTCGTTATCAATGGTTGATCTTCTCCTTTCTTTGAA-GAATGCAAAATCAAAGAAC
1 GGATGCCAAGTAGTAATCAATGGTTGATCTGCTCTTTTCTCTGAATG-ACGCCAAATC-GGGAAT
* *
106763 AATCTTG-TTATTTTCTCTAAA
64 AATCTTGCTCA-TTTATCTAAA
* * * * * *
106784 GGACGCGAAGTCA-TAATCAATGGGTGATCTTCT-TCTTTCTATGAATGATGCCAAATCGGAGAA
1 GGATGCCAAGT-AGTAATCAATGGTTGATCTGCTCT-TTTCTCTGAATGACGCCAAATCGG-GAA
*
106847 TGATCTTGCTCATTTATCTAAA
63 TAATCTTGCTCATTTATCTAAA
* *
106869 GGATGCCAAGTAGTAATCAATGGTTGATATGCTCTTTTCTCT-AATGGACGCCATATCGGGTAAT
1 GGATGCCAAGTAGTAATCAATGGTTGATCTGCTCTTTTCTCTGAAT-GACGCCAAATCGGG-AAT
* * *
106933 AATCTTTCTCCTTTCTCTAAA
64 AATCTTGCTCATTTATCTAAA
** * * * * * * * *
106954 GGAAACCAAGTCGTAATCAATGGTTGATTTGCTTTTTTATCTGAAGGACACCAAATCTTGGAATG
1 GGATGCCAAGTAGTAATCAATGGTTGATCTGCTCTTTTCTCTGAATGACGCCAAATC-GGGAATA
* *
107019 ATCTTGCTCTTTTATCTGAA
65 ATCTTGCTCATTTATCTAAA
*
107039 GGATGCTAAGT
1 GGATGCCAAGT
107050 CATGATCAAT
Statistics
Matches: 211, Mismatches: 44, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
84 5 0.02
85 198 0.94
86 8 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (84 bp):
GGATGCCAAGTAGTAATCAATGGTTGATCTGCTCTTTTCTCTGAATGACGCCAAATCGGGAATAA
TCTTGCTCATTTATCTAAA
Found at i:110294 original size:19 final size:19
Alignment explanation
Indices: 110272--110319 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
110262 TTTTGTCATA
110272 GCATTTTTATTTTACTTTT
1 GCATTTTTATTTTACTTTT
110291 GCATTTTTATTTTACTTTT
1 GCATTTTTATTTTACTTTT
*
110310 TCATTTTTAT
1 GCATTTTTAT
110320 ATATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (19 bp):
GCATTTTTATTTTACTTTT
Found at i:118697 original size:20 final size:20
Alignment explanation
Indices: 118668--118706 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118658 TGAGCTCATA
*
118668 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
118688 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
118707 GTTGTGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:128704 original size:23 final size:23
Alignment explanation
Indices: 128656--128704 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
128646 AAAGACCAGG
* * *
128656 AAAATAATAAGTAAAACTATATA
1 AAAATAAGAAGTAAAACTAAAAA
128679 AAAATGAAGAAGTAAAA-TAAAAA
1 AAAAT-AAGAAGTAAAACTAAAAA
128702 AAA
1 AAA
128705 CTATGACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.18
Consensus pattern (23 bp):
AAAATAAGAAGTAAAACTAAAAA
Found at i:139081 original size:45 final size:42
Alignment explanation
Indices: 139030--139131 Score: 114
Period size: 43 Copynumber: 2.3 Consensus size: 42
139020 ACCGCTAAAG
* * * *
139030 TTAGCGGCATTTTCTAACAAAAAATACCGCAATAGGTTTTGTTAT
1 TTAGCGGCGTTTTC--A-AAAAAATACCGCAATAGATGTTGATAT
* *
139075 TTAGCGGCGTTTGTCAAAAAAATGCCGCAATAGATGTTGATGT
1 TTAGCGGCGTTT-TCAAAAAAATACCGCAATAGATGTTGATAT
139118 TTAGCGGCGTTTTC
1 TTAGCGGCGTTTTC
139132 CCTACAAACG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.04
43 34 0.68
44 1 0.02
45 11 0.22
46 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (42 bp):
TTAGCGGCGTTTTCAAAAAAATACCGCAATAGATGTTGATAT
Found at i:139103 original size:43 final size:43
Alignment explanation
Indices: 139048--139129 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
139038 ATTTTCTAAC
* * *
139048 AAAAAATACCGCAATAGGTTTTGTTATTTAGCGGCGTTTGTCA
1 AAAAAATACCGCAATAGATGTTGATATTTAGCGGCGTTTGTCA
* *
139091 AAAAAATGCCGCAATAGATGTTGATGTTTAGCGGCGTTT
1 AAAAAATACCGCAATAGATGTTGATATTTAGCGGCGTTT
139130 TCCCTACAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (43 bp):
AAAAAATACCGCAATAGATGTTGATATTTAGCGGCGTTTGTCA
Found at i:139156 original size:43 final size:43
Alignment explanation
Indices: 139098--139262 Score: 190
Period size: 43 Copynumber: 3.8 Consensus size: 43
139088 TCAAAAAAAT
* *
139098 GCCGCAATAGATGTTGATG-TTTAGCGGCGTTTTCCCTACAAAC
1 GCCGCAGTAGGTGTTGA-GATTTAGCGGCGTTTTCCCTACAAAC
*
139141 GTCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAAC
1 GCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAAC
** * * *
139184 GCCATAGTAGGTATTGAGATTTAGCGGCGTTTTACTTACAAAC
1 GCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAAC
* * * *
139227 ACCGCA-TAAGGTTTTGATATTTTGCGGCGTTTTCCC
1 GCCGCAGT-AGGTGTTGAGATTTAGCGGCGTTTTCCC
139263 CAAAAATGTC
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.02
43 101 0.98
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (43 bp):
GCCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAAAC
Found at i:139290 original size:86 final size:86
Alignment explanation
Indices: 139117--139301 Score: 210
Period size: 86 Copynumber: 2.2 Consensus size: 86
139107 GATGTTGATG
* ** * *
139117 TTTAGCGGCGTTTTCCCTACAAACGTCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCTACAA
1 TTTAGCGGCGTTTTACCTACAAACACCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCCAAAA
*
139182 ACGCCATAGTAGGTATTGAGA
66 ACGCCATAGAAGGTATTGAGA
* * * *
139203 TTTAGCGGCGTTTTACTTACAAACACCGCA-TAAGGTTTTGATATTTTGCGGCGTTTTCCCCAAA
1 TTTAGCGGCGTTTTACCTACAAACACCGCAGT-AGGTGTTGAGATTTAGCGGCGTTTTCCCCAAA
* * * * *
139267 AATGTCGTAGAAGGTTTTTAGA
65 AACGCCATAGAAGGTATTGAGA
*
139289 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
139302 GTATCGAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 1 0.01
86 81 0.99
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (86 bp):
TTTAGCGGCGTTTTACCTACAAACACCGCAGTAGGTGTTGAGATTTAGCGGCGTTTTCCCCAAAA
ACGCCATAGAAGGTATTGAGA
Found at i:139885 original size:21 final size:21
Alignment explanation
Indices: 139839--139887 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
139829 TGCTTCTTTT
*
139839 TCTGCTTCCACTGCTGCTCTG
1 TCTGCTTCCACTGCTGCTCTC
* *
139860 GCTGCTTCCGCTGCTGCTCTC
1 TCTGCTTCCACTGCTGCTCTC
139881 TCTGCTT
1 TCTGCTT
139888 TCCTTGATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
TCTGCTTCCACTGCTGCTCTC
Found at i:146345 original size:18 final size:17
Alignment explanation
Indices: 146313--146356 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
146303 ATGAGTAGTT
146313 AAAT-AAACAAATAAAC
1 AAATAAAACAAATAAAC
146329 AAATAAAACAGAATAAAC
1 AAATAAAACA-AATAAAC
* *
146347 GAAGAAAACA
1 AAATAAAACA
146357 TAAAGAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 15 0.62
ACGTcount: A:0.73, C:0.11, G:0.07, T:0.09
Consensus pattern (17 bp):
AAATAAAACAAATAAAC
Found at i:146346 original size:9 final size:8
Alignment explanation
Indices: 146313--146346 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
146303 ATGAGTAGTT
146313 AAATAAAC
1 AAATAAAC
146321 AAATAAAC
1 AAATAAAC
146329 AAATAAAAC
1 AAAT-AAAC
146338 AGAATAAAC
1 A-AATAAAC
146347 GAAGAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 9 0.38
10 3 0.12
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (8 bp):
AAATAAAC
Found at i:147793 original size:32 final size:34
Alignment explanation
Indices: 147730--147793 Score: 89
Period size: 32 Copynumber: 1.9 Consensus size: 34
147720 CATCTCATCT
*
147730 TCAACCAAATCAGAGAGAAAAGCTTATAAACAAC
1 TCAACCAAAACAGAGAGAAAAGCTTATAAACAAC
147764 TCAACCAAAACA-AGA-AAGAAG-TTATAAACA
1 TCAACCAAAACAGAGAGAA-AAGCTTATAAACA
147794 CTATTAAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 11 0.39
33 6 0.21
34 11 0.39
ACGTcount: A:0.56, C:0.19, G:0.11, T:0.14
Consensus pattern (34 bp):
TCAACCAAAACAGAGAGAAAAGCTTATAAACAAC
Found at i:149091 original size:42 final size:42
Alignment explanation
Indices: 149044--149134 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
149034 TTATTTGTTA
* * * *
149044 CGGCGTTTGA-GATATAAACGCCGCTAATTTATCATTCTATTG
1 CGGCGTTT-ATGATATAAACGCCGCTAAATTACCACTATATTG
* *
149086 CGGCGTTTATGGTATAAACGCCGTTAAATTACCACTATATTG
1 CGGCGTTTATGATATAAACGCCGCTAAATTACCACTATATTG
149128 CGGCGTT
1 CGGCGTT
149135 GGCCTAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (42 bp):
CGGCGTTTATGATATAAACGCCGCTAAATTACCACTATATTG
Found at i:149758 original size:18 final size:19
Alignment explanation
Indices: 149735--149779 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
149725 TTCAAATGAG
* *
149735 AATGTAAAGG-TAAAACAA
1 AATGTAAAGGCAAAAAAAA
149753 AATGTAAAGGCAAAAAAAA
1 AATGTAAAGGCAAAAAAAA
149772 AATGTAAA
1 AATGTAAA
149780 CACTGGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (19 bp):
AATGTAAAGGCAAAAAAAA
Found at i:151874 original size:16 final size:17
Alignment explanation
Indices: 151843--151877 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
151833 ATCAAAACTT
*
151843 TGGAACAAGAGATTGAG
1 TGGAAAAAGAGATTGAG
151860 TGGAAAAAG-GATTGAG
1 TGGAAAAAGAGATTGAG
151876 TG
1 TG
151878 TATGAGATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.03, G:0.37, T:0.20
Consensus pattern (17 bp):
TGGAAAAAGAGATTGAG
Found at i:157570 original size:21 final size:21
Alignment explanation
Indices: 157544--157591 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
157534 GCTTTGGAAT
157544 TTTTCCATGGAGGCAATTAGC
1 TTTTCCATGGAGGCAATTAGC
157565 TTTTCCATGGAGGCAATTAGC
1 TTTTCCATGGAGGCAATTAGC
157586 TTTTCC
1 TTTTCC
157592 TCAGACGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTTCCATGGAGGCAATTAGC
Found at i:159161 original size:26 final size:26
Alignment explanation
Indices: 159130--159199 Score: 122
Period size: 26 Copynumber: 2.7 Consensus size: 26
159120 ATTATTATTT
159130 AAAGAAATAAAAAAGATAAAGATTAA
1 AAAGAAATAAAAAAGATAAAGATTAA
159156 AAAGAAATAAAAAAGATAAAGATTAA
1 AAAGAAATAAAAAAGATAAAGATTAA
* *
159182 AAATAAATAAAAGAGATA
1 AAAGAAATAAAAAAGATA
159200 GGGATAATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.73, C:0.00, G:0.11, T:0.16
Consensus pattern (26 bp):
AAAGAAATAAAAAAGATAAAGATTAA
Found at i:161280 original size:7 final size:7
Alignment explanation
Indices: 161268--161327 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
161258 TTTGTAACAA
161268 TAATAAT
1 TAATAAT
161275 TAATAAT
1 TAATAAT
161282 TAATAAT
1 TAATAAT
**
161289 TAATGTT
1 TAATAAT
** *
161296 TCTTAAA
1 TAATAAT
161303 TAA-AAT
1 TAATAAT
161309 TCAATAAT
1 T-AATAAT
161317 TAATAAT
1 TAATAAT
161324 TAAT
1 TAAT
161328 TGATTTCTTC
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 3 0.07
7 34 0.83
8 4 0.10
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (7 bp):
TAATAAT
Found at i:161315 original size:35 final size:37
Alignment explanation
Indices: 161266--161336 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
161256 GATTTGTAAC
161266 AATAATAATTAATAATTAATAATTAA-TG-TTTCTTA
1 AATAATAATTAATAATTAATAATTAATTGATTTCTTA
161301 AATAA-AATTCAATAATTAATAATTAATTGATTTCTT
1 AATAATAATT-AATAATTAATAATTAATTGATTTCTT
161337 CACTAAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 4 0.12
35 21 0.64
36 2 0.06
37 6 0.18
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
AATAATAATTAATAATTAATAATTAATTGATTTCTTA
Found at i:161888 original size:38 final size:38
Alignment explanation
Indices: 161837--161952 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
161827 ATCCTTCGGA
161837 GCTTCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
1 GCTTCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
* * *
161875 GCTTCCGTGCAAGTTAA-TG---TAA-T-C-CTTCAGG-
1 GCTTCCGTGCAAGTCAACCGAAATAATTACGATT-AGGT
*
161906 GC-TCCTGTGCAAGTCACCCGAAATAATTACGATTAGGT
1 GCTTCC-GTGCAAGTCAACCGAAATAATTACGATTAGGT
*
161944 GCTCCCGTG
1 GCTTCCGTG
161953 TGAGTCACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 22
0.66 0.09 0.25
Matches are distributed among these distances:
30 3 0.05
31 13 0.22
32 5 0.08
33 1 0.02
34 3 0.05
35 3 0.05
36 1 0.02
37 5 0.08
38 23 0.39
39 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (38 bp):
GCTTCCGTGCAAGTCAACCGAAATAATTACGATTAGGT
Found at i:161970 original size:69 final size:68
Alignment explanation
Indices: 161808--161977 Score: 207
Period size: 69 Copynumber: 2.5 Consensus size: 68
161798 GATAATATGT
* *
161808 TCCCTTGTGAGTCACTTTAATCCTTC-GGAGCTTCCGTGCAAGTCAACCGAAATAATTACGATTA
1 TCCCGTGTGAGTCACTCTAATCCTTCAGG-GC-TCCGTGCAAGTCAACCGAAATAATTACGATTA
161872 GGTGC
64 GGTGC
* ** * * * *
161877 TTCCGTGCAAGTTAATGTAATCCTTCAGGGCTCCTGTGCAAGTCACCCGAAATAATTACGATTAG
1 TCCCGTGTGAGTCACTCTAATCCTTCAGGGCTCC-GTGCAAGTCAACCGAAATAATTACGATTAG
161942 GTGC
65 GTGC
* *
161946 TCCCGTGTGAGTCACTCTATTCCTTAAGGGCT
1 TCCCGTGTGAGTCACTCTAATCCTTCAGGGCT
161978 TTCGTACGAG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
68 3 0.04
69 78 0.94
70 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.31
Consensus pattern (68 bp):
TCCCGTGTGAGTCACTCTAATCCTTCAGGGCTCCGTGCAAGTCAACCGAAATAATTACGATTAGG
TGC
Found at i:162051 original size:25 final size:25
Alignment explanation
Indices: 162017--162151 Score: 125
Period size: 25 Copynumber: 5.4 Consensus size: 25
162007 AATGAATATG
162017 TAATTCCAGCACTAAACTTATCACA
1 TAATTCCAGCACTAAACTTATCACA
162042 TAATTCCAGCACTAAACTTATCACA
1 TAATTCCAGCACTAAACTTATCACA
* *
162067 TAATTCCAACAGTGAAACTTA--ACA
1 TAATTCCAGCACT-AAACTTATCACA
* * * * * *
162091 TTGACTTACACCAGTGAAA-TGAAT-ACG
1 -T-AATTCCAGCACT-AAACT-TATCACA
162118 TAATTCCAGCACTAAACTTATCACA
1 TAATTCCAGCACTAAACTTATCACA
162143 TAATTCCAG
1 TAATTCCAG
162152 TAATGAAATT
Statistics
Matches: 90, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
24 8 0.09
25 58 0.64
26 22 0.24
27 2 0.02
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.27
Consensus pattern (25 bp):
TAATTCCAGCACTAAACTTATCACA
Found at i:162168 original size:76 final size:76
Alignment explanation
Indices: 162042--162288 Score: 386
Period size: 76 Copynumber: 3.2 Consensus size: 76
162032 ACTTATCACA
* * *
162042 TAATTCCAGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTG
1 TAATTCCAACACTAAACTTATCACATAATTCCAGCAATGAAACTTAACATTGACTTACACCAGTG
162107 AAATGAATACG
66 AAATGAATACG
* * * *
162118 TAATTCCAGCACTAAACTTATCACATAATTCCAGTAATGAAATTTAACATTGACTTACACCAGTA
1 TAATTCCAACACTAAACTTATCACATAATTCCAGCAATGAAACTTAACATTGACTTACACCAGTG
*
162183 AAATGAGTACG
66 AAATGAATACG
* * *
162194 TAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAAACTTAACATTGACTTACATCAGTG
1 TAATTCCAACACTAAACTTATCACATAATTCCAGCAATGAAACTTAACATTGACTTACACCAGTG
162259 AAATGAATACG
66 AAATGAATACG
*
162270 TAACTCCAACACTAAACTT
1 TAATTCCAACACTAAACTT
162289 TGAAGCTTAA
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 156 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (76 bp):
TAATTCCAACACTAAACTTATCACATAATTCCAGCAATGAAACTTAACATTGACTTACACCAGTG
AAATGAATACG
Found at i:162418 original size:134 final size:134
Alignment explanation
Indices: 162170--162422 Score: 339
Period size: 134 Copynumber: 1.9 Consensus size: 134
162160 TTTAACATTG
* *
162170 ACTTACACCAGTAAAATGAGTACGTAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAA
1 ACTTACACCAGTAAAATGAATACGTAATTACAACACTAAACTTATCACACAATTCCAGCAACGAA
* *
162235 ACTTAACATTGACTTACATCAGTGAAATGAATACGTAACTCCAACACTAAACTTTGAAGCTTAAT
66 ACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAAAACTAAACTTTGAAGCTTAAT
162300 AAAT
131 AAAT
* * * * * * **
162304 ACTTACATCAGTGAAATGAATATGTAATTATAGCACTAAACTTATCACATAATTCCCA-CAGTGA
1 ACTTACACCAGTAAAATGAATACGTAATTACAACACTAAACTTATCACACAATT-CCAGCAACGA
* * *
162368 AATTTATCATTGACTTACACCAGTGAAATGAATACGTAA-TTCAAGAACTAAACTT
65 AACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAA-AACTAAACTT
162423 ATCACATCAT
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
133 4 0.04
134 95 0.93
135 3 0.03
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (134 bp):
ACTTACACCAGTAAAATGAATACGTAATTACAACACTAAACTTATCACACAATTCCAGCAACGAA
ACTTAACATTGACTTACACCAGTGAAATGAATACGTAACTCCAAAACTAAACTTTGAAGCTTAAT
AAAT
Found at i:162456 original size:210 final size:210
Alignment explanation
Indices: 162094--162727 Score: 637
Period size: 210 Copynumber: 2.9 Consensus size: 210
162084 CTTAACATTG
* *
162094 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGTAATGAA
1 ACTTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCCAGCAATGAA
* *
162159 ATTTAACATTGACTTACACCAGTAAAATGAGTACGTAATTCCAACACTAAACTTATCACACAATT
66 ATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAAAACTAAACTTATCACACAATT
* *
162224 CCAGCAACGAAACTTAACATTGACTTACATCAGTGAAATGAATACGTAACTCCAACACTAAACTT
131 CCAGCAACGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAACTCCAACACTAAACTT
162289 TGAAGCTTAATAAAT
196 TGAAGCTTAATAAAT
* * * *
162304 ACTTACATCAGTGAAATGAATATGTAATTATAGCACTAAACTTATCACATAATTCCCA-CAGTGA
1 ACTTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATT-CCAGCAATGA
* *
162368 AATTTATCATTGACTTACACCAGTGAAATGAATACGTAATT-CAAGAACTAAACTTATCACATC-
65 AATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAA-AACTAAACTTATCACA-CA
* ** * * *
162431 ATTTCAGCAGTGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACGCTAAA
128 ATTCCAGCAACGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAACTCCAACACTAAA
* *
162496 CTTATCACATAATTCCAGTATTGAAACTTAACATT
193 C-T-T----TGA----AG-CTT--AA--TAA-A-T
* * * * * * *
162531 AACTTATACAAGAGAAATGAATATGTAATTCCAGCACTAAACTTATCACATAATTCCTGCAGTGA
1 -ACTTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCCAGCAATGA
* * * * ** * * **
162596 AACTTAACATTGACTTACACCA-TCGAAATGAATACATAATTCTATCATTAAATTTATCACTTAA
65 AATTTAACATTGACTTACACCAGT-AAAATGAATACGTAATTCCAAAACTAAACTTATCACACAA
* ** * * * * *
162660 TTCCAGTAGTGAAACTTAACATTGACTTAAACTAGTGAAATGAATACGTAATTCCAGCACTAAAC
129 TTCCAGCAACGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAACTCCAACACTAAAC
162725 TTT
194 TTT
162728 TCACATAAGT
Statistics
Matches: 354, Mismatches: 45, Indels: 38
0.81 0.10 0.09
Matches are distributed among these distances:
209 3 0.01
210 165 0.47
211 5 0.01
212 1 0.00
216 2 0.01
220 2 0.01
221 2 0.01
222 1 0.00
223 2 0.01
225 3 0.01
226 2 0.01
227 5 0.01
228 160 0.45
229 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (210 bp):
ACTTACACCAGTGAAATGAATACGTAATTACAGCACTAAACTTATCACATAATTCCAGCAATGAA
ATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAAAACTAAACTTATCACACAATT
CCAGCAACGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAACTCCAACACTAAACTT
TGAAGCTTAATAAAT
Found at i:162571 original size:286 final size:286
Alignment explanation
Indices: 162049--162772 Score: 849
Period size: 286 Copynumber: 2.5 Consensus size: 286
162039 ACATAATTCC
162049 AGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAA
1 AGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAA
* * *
162114 TACGTAATTCCAGCACTAAACTTATCACATAATTCCAGTAATGAAATTTAACATTGACTTACACC
66 TACGTAATTCAAGAACTAAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACC
*
162179 AGTAAAATGAGTACGTAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAAACTTAACAT
131 AGTAAAATGAATACGTAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAAACTTAACAT
* *
162244 TGACTTACATCAGTGAAATGAATACGTAACTCCAACACTAAACTTTGAAGCTTAATAAATACTTA
196 TAACTTACATCAGAGAAATGAATACGTAACTCCAACACTAAACTTTGAAGCTTAATAAATACTTA
162309 CATCAGTGAAATGAATATGTAATTAT
261 CATCAGTGAAATGAATATGTAATTAT
* * *
162335 AGCACTAAACTTATCACATAATTCCCACAGTGAAATTTATCATTGACTTACACCAGTGAAATGAA
1 AGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAA
* * *
162400 TACGTAATTCAAGAACTAAACTTATCACATCATTTCAGCAGTGAAATTTAACATTGACTTACACC
66 TACGTAATTCAAGAACTAAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACC
* * * **
162465 AGTAAAATGAATACGTAATTCCAACGCTAAACTTATCACATAATTCCAGTATTGAAACTTAACAT
131 AGTAAAATGAATACGTAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAAACTTAACAT
* * * * *
162530 TAACTTATA-CAAGAGAAATGAATATGTAATTCCAGCACTAAACTTATCACATAATTCCTGCAGT
196 TAACTTACATC-AGAGAAATGAATACGTAACTCCAACACTAAACTT-T----GAA-----GC--T
* * ** *
162594 GAAACTTAACATTGACTTACACCA-TCGAAATGAATACATAATTCT
248 -TAA--TAA-A-T-ACTTACATCAGT-GAAATGAATATGTAATTAT
* * * * ** * *
162639 ATCATTAAATTTATCACTTAATTCCAGTAGTGAAACTTAACATTGACTTAAACTAGTGAAATGAA
1 AGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAA
* * * * * * * * * *
162704 TACGTAATTCCAGCACTAAACTTTTCACATAAGTCAAGGAGTGAAACTGAACATTGACTTACACT
66 TACGTAATTCAAGAACTAAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACC
162769 AGTA
131 AGTA
162773 TATTGTTTGT
Statistics
Matches: 369, Mismatches: 49, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
285 1 0.00
286 217 0.59
287 1 0.00
291 2 0.01
296 2 0.01
298 1 0.00
299 2 0.01
301 3 0.01
302 1 0.00
303 2 0.01
304 137 0.37
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (286 bp):
AGCACTAAACTTATCACATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAATGAA
TACGTAATTCAAGAACTAAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACC
AGTAAAATGAATACGTAATTCCAACACTAAACTTATCACACAATTCCAGCAACGAAACTTAACAT
TAACTTACATCAGAGAAATGAATACGTAACTCCAACACTAAACTTTGAAGCTTAATAAATACTTA
CATCAGTGAAATGAATATGTAATTAT
Found at i:162771 original size:76 final size:76
Alignment explanation
Indices: 162304--162767 Score: 572
Period size: 76 Copynumber: 6.1 Consensus size: 76
162294 CTTAATAAAT
* * **
162304 ACTTACATCAGTGAAATGAATATGTAATTATAGCACTAAACTTATCACATAATTCCCA-CAGTGA
1 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATT-CCAGCAGTGA
* *
162368 AATTTATCATTG
65 AACTTAACATTG
* * * *
162380 ACTTACACCAGTGAAATGAATACGTAATTCAAGAACTAAACTTATCACATCATTTCAGCAGTGAA
1 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAA
*
162445 ATTTAACATTG
66 ACTTAACATTG
* * * * *
162456 ACTTACACCAGTAAAATGAATACGTAATTCCAACGCTAAACTTATCACATAATTCCAGTATTGAA
1 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAA
*
162521 ACTTAACATTA
66 ACTTAACATTG
* * * * *
162532 ACTTATACAAGAGAAATGAATATGTAATTCCAGCACTAAACTTATCACATAATTCCTGCAGTGAA
1 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAA
162597 ACTTAACATTG
66 ACTTAACATTG
* * * * * * *
162608 ACTTACACCA-TCGAAATGAATACATAATTCTATCATTAAATTTATCACTTAATTCCAGTAGTGA
1 ACTTACACCAGT-GAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGA
162672 AACTTAACATTG
65 AACTTAACATTG
* * * * * *
162684 ACTTAAACTAGTGAAATGAATACGTAATTCCAGCACTAAACTTTTCACATAAGTCAAGGAGTGAA
1 ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAA
*
162749 ACTGAACATTG
66 ACTTAACATTG
162760 ACTTACAC
1 ACTTACAC
162768 TAGTATATTG
Statistics
Matches: 329, Mismatches: 56, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
75 2 0.01
76 326 0.99
77 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.30
Consensus pattern (76 bp):
ACTTACACCAGTGAAATGAATACGTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAA
ACTTAACATTG
Found at i:163798 original size:69 final size:69
Alignment explanation
Indices: 163718--163937 Score: 217
Period size: 69 Copynumber: 3.2 Consensus size: 69
163708 CTTGTGAGTC
*
163718 ACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAGTAATTATGATTAGGTGCTCCCGTGCA
1 ACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTATGATTAGGTGCTCCCGTGCA
163783 AGTT
66 AGTT
* * * * ***
163787 ACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTATGATTAGGTTCTCCCGTATG
1 ACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTATGATTAGGTGCTCCCGTGCA
*
163852 AGTC
66 AGTT
* * * ** ** * * * * *
163856 ACTCTATTCCTTAGGGGCTTTCGTGTGAG-AAACCAAGAATAATCACGATTAGGTGCTCCCTTGC
1 ACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGA-AATAATTATGATTAGGTGCTCCCGTGC
* *
163920 GAGTC
65 AAGTT
163925 ACTCTAATCCTTC
1 ACTCTAATCCTTC
163938 AAGGCTCATG
Statistics
Matches: 123, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
68 4 0.03
69 119 0.97
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (69 bp):
ACTCTAATCCTTCGGAGCTCCCGTGCAAGTCAACCGAAATAATTATGATTAGGTGCTCCCGTGCA
AGTT
Found at i:170727 original size:12 final size:11
Alignment explanation
Indices: 170686--170728 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
170676 ATGAAGTTGA
*
170686 AAAAATATATT
1 AAAAATATAAT
*
170697 AAAAATATAAA
1 AAAAATATAAT
170708 AAATAATATAAT
1 AAA-AATATAAT
170720 AATAAATAT
1 AA-AAATAT
170729 TAGTAGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 12 0.44
12 14 0.52
13 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATATAAT
Found at i:170798 original size:19 final size:18
Alignment explanation
Indices: 170779--170826 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 18
170769 GTTATGGTTA
170779 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
*
170797 AAAT-AAAAA-AATAATT
1 AAATAAAAAATAAGAATT
170813 AAATAAACAAATAA
1 AAATAAA-AAATAA
170827 AAGAGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 7 0.27
18 7 0.27
19 2 0.08
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:171479 original size:76 final size:75
Alignment explanation
Indices: 171346--171509 Score: 240
Period size: 76 Copynumber: 2.2 Consensus size: 75
171336 ACAAAATAAT
* *
171346 ATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAA-ATA
171411 AAAT-ATAAAA
65 AAATGATAAAA
*
171421 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
171486 TAATGTTTAAA
65 AAATGATAAAA
*
171497 ATATTATCCTAAA
1 ATAATATCCTAAA
171510 TTTGAGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (75 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATAA
AATGATAAAA
Found at i:173355 original size:14 final size:15
Alignment explanation
Indices: 173319--173360 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
173309 ATCTGTTAAA
*
173319 AAAATAAAATTAATC
1 AAAATAAAATAAATC
173334 AAAATAAAATAAAT-
1 AAAATAAAATAAATC
*
173348 AGAATAAAATAAA
1 AAAATAAAATAAA
173361 GTTTGCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAATC
Found at i:180251 original size:40 final size:40
Alignment explanation
Indices: 180196--180276 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
180186 GCAGGTTTAG
180196 AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
1 AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
180236 AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
1 AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
180276 A
1 A
180277 GCACTACGGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (40 bp):
AATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
Found at i:180475 original size:47 final size:45
Alignment explanation
Indices: 180381--180506 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
180371 GTAACCATGC
* * *
180381 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
180425 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
*
180472 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
180507 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:183359 original size:27 final size:26
Alignment explanation
Indices: 183329--183426 Score: 65
Period size: 27 Copynumber: 3.5 Consensus size: 26
183319 AACAAAAAAC
183329 AAAAGAAAAAAATAGAAAAAGAAAATG
1 AAAAGAAAAAAA-AGAAAAAGAAAATG
* *
183356 AAAACGAAGAAGAAA-AAAATGAAAATG
1 AAAA-GAA-AAAAAAGAAAAAGAAAATG
*
183383 AGAACGAAAAGAAAAAGAGAAAA-AAAATG
1 A-AAAG-AAA-AAAAAGA-AAAAGAAAATG
*
183412 AGAGATGAAAAAAAA
1 A-A-AAGAAAAAAAA
183427 ATATTTCACT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
27 18 0.32
28 17 0.30
29 17 0.30
30 5 0.09
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (26 bp):
AAAAGAAAAAAAAGAAAAAGAAAATG
Found at i:183408 original size:34 final size:34
Alignment explanation
Indices: 183329--183407 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 34
183319 AACAAAAAAC
*
183329 AAAAGAAAAAAATAGAAAAAGAAAATGAAAACGA
1 AAAAGAAAAAAATAGAAAAAGAAAACGAAAACGA
* * *
183363 AGAAGAAAAAAAT-GAAAATGAGAACGAAAA-GA
1 AAAAGAAAAAAATAGAAAAAGAAAACGAAAACGA
183395 AAAAGAGAAAAAA
1 AAAAGA-AAAAAA
183408 AATGAGAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.18
33 20 0.51
34 12 0.31
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.05
Consensus pattern (34 bp):
AAAAGAAAAAAATAGAAAAAGAAAACGAAAACGA
Found at i:187173 original size:40 final size:40
Alignment explanation
Indices: 187118--187239 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
187108 TGCAGGTTTA
187118 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
187158 TAATACGCTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
187198 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
187238 TA
1 TA
187240 GCACTACGGT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:187438 original size:47 final size:45
Alignment explanation
Indices: 187344--187469 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 45
187334 GTAACCATGC
* * *
187344 AAATAAGCTTATGAGCTTACGGAAT-AATGGCAAGTATATAGGAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
* * *
187388 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATAGGAA
*
187435 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
187470 AGATTTTATA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 22 0.31
45 11 0.15
46 1 0.01
47 38 0.53
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATAGGAA
Found at i:188510 original size:11 final size:11
Alignment explanation
Indices: 188479--188519 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
188469 TGAAGTTGAA
*
188479 AAAAT-ATATT
1 AAAATAATAAT
188489 AAAATAA-AAT
1 AAAATAATAAT
188499 AAAATAATAAT
1 AAAATAATAAT
*
188510 ATAATAATAA
1 AAAATAATAA
188520 ATATTAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 14 0.52
11 13 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:189158 original size:19 final size:19
Alignment explanation
Indices: 189102--189164 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
189092 CTATTTAAAC
**
189102 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
189122 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
189142 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
189161 TAAA
1 TAAA
189165 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:189209 original size:75 final size:76
Alignment explanation
Indices: 189122--189286 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 76
189112 AAAAAATAAT
* * *
189122 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATAATAAAAACCTATTTAAACTAAAATAAAAAGATAAA-AT
189186 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
189197 ATAATATCCTAAAACTTAATTAAAATAATAAAAACCTATTTAAACTAAAATAAAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATAATAAAAACCTATTTAAACTAAAATAAAAAGATAAAATA
* * *
189262 TAATGTTTAAA
66 AAATGATAAAA
*
189273 ATATTATCCTAAAT
1 ATAATATCCTAAAT
189287 TTGAGTTTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 31 0.40
76 47 0.60
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATAATAAAAACCTATTTAAACTAAAATAAAAAGATAAAATA
AAATGATAAAA
Found at i:192117 original size:24 final size:24
Alignment explanation
Indices: 192090--192153 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
192080 TATATCAAAA
* *
192090 ATCAAAACATAATTCAGGTCAGAT
1 ATCAAAACAGAATCCAGGTCAGAT
* *
192114 ATCATAACAGAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAGGTCAGAT
* *
192138 ATTAGAACAGAATCCA
1 ATCAAAACAGAATCCA
192154 TGTTAGGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGGTCAGAT
Found at i:193656 original size:22 final size:22
Alignment explanation
Indices: 193628--193672 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
193618 ATCTATAAAC
193628 TAGAAATGATTCCTTTATCACT
1 TAGAAATGATTCCTTTATCACT
*
193650 TAGAAATTATTCCTTTATCACT
1 TAGAAATGATTCCTTTATCACT
193672 T
1 T
193673 CACAGAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.44
Consensus pattern (22 bp):
TAGAAATGATTCCTTTATCACT
Found at i:194654 original size:17 final size:17
Alignment explanation
Indices: 194632--194668 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
194622 TAAAATGGTC
*
194632 GACTGTTGACCTGCGTT
1 GACTGTTGACCGGCGTT
194649 GACTGTTGACCGGCGTT
1 GACTGTTGACCGGCGTT
194666 GAC
1 GAC
194669 CACTATTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (17 bp):
GACTGTTGACCGGCGTT
Found at i:203350 original size:69 final size:69
Alignment explanation
Indices: 203277--203476 Score: 222
Period size: 69 Copynumber: 2.9 Consensus size: 69
203267 CTCACTTGTG
* *
203277 AGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACTGAAATAATTACGATTAGGTGCTCCCA
1 AGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGTGCTCCCA
203342 AGCA
66 AGCA
* * * * * * *
203346 AGTCACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATTATGACTAGATGCTCCCG
1 AGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGTGCTCCCA
* **
203411 TGTG
66 AGCA
* * ** * *
203415 AGTCACTCTATTCCTTAGGGGCTTTCGTGCGAGT-AACCAAGAATAATCACGATTAGGTGCTC
1 AGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGA-AATAATTACGATTAGGTGCTC
203477 TCTTATGAGT
Statistics
Matches: 106, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
68 4 0.04
69 102 0.96
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (69 bp):
AGTCACTCTAATCCTTCGGGGCTCCCGTGCGAGTCAACCGAAATAATTACGATTAGGTGCTCCCA
AGCA
Found at i:203513 original size:138 final size:137
Alignment explanation
Indices: 203264--203513 Score: 306
Period size: 138 Copynumber: 1.8 Consensus size: 137
203254 ATACGATAAT
* * ** *
203264 ATGCTCACTTGTGAGTCACTCTAATCCTTCGGAGCTCCCGTGCGAGTCAACTGAAATAATTACGA
1 ATGCTCACGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAAAATAATCACGA
*** *
203329 TTAGGTGCTCCCAAGCAAGTCACTCTAATCCTTCGGGGCTCCTGTGCAAGTCACCCGAAATAATT
66 TTAGGTGCTCCCAAG-AAGTCACTCTAATCCTTCAAAGCTCATGTGCAAGTCACCCGAAATAATT
203394 ATGACTAG
130 ATGACTAG
* * * **
203402 ATGCTCCCGTGTGAGTCACTCTATTCCTTAGGGGCTTTCGTGCGAGT-AACCAAGAATAATCACG
1 ATGCTCACGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAA-AATAATCACG
* *
203466 ATTAGGTGCTCTCTTATG-AGTCACTCTAATCCTTCAAAGCTCATGTGC
65 ATTAGGTGCTC-C-CAAGAAGTCACTCTAATCCTTCAAAGCTCATGTGC
203514 GACTTGTAAC
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
137 4 0.04
138 86 0.92
139 1 0.01
140 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (137 bp):
ATGCTCACGTGTGAGTCACTCTAATCCTTAGGAGCTCCCGTGCGAGTCAACCAAAATAATCACGA
TTAGGTGCTCCCAAGAAGTCACTCTAATCCTTCAAAGCTCATGTGCAAGTCACCCGAAATAATTA
TGACTAG
Found at i:205693 original size:17 final size:17
Alignment explanation
Indices: 205671--205703 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
205661 TAGCAACATC
205671 AATGA-TTGGATTAAGTA
1 AATGATTTGGA-TAAGTA
205688 AATGATTTGGATAAGT
1 AATGATTTGGATAAGT
205704 CCGAAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.36
Consensus pattern (17 bp):
AATGATTTGGATAAGTA
Found at i:206297 original size:43 final size:43
Alignment explanation
Indices: 206236--206706 Score: 559
Period size: 43 Copynumber: 10.9 Consensus size: 43
206226 TCGTTACCAG
* * * * * *
206236 AGGCTCCTCTGTTATGTGCAAGGGTAAGTCCTTACCATTACCC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * * * * *
206279 AGGCTCTTTTGCTATGTGCAAGGGTAAGTCATAACCGTTTCCT
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * *
206322 AGGCTCCTCTACTATGTGCAATGG-TAAGTCCTTACCGTTTTCCC
1 AGGCTCCTTTGCTATGTGCAA-GGATAAGACCTTACCG-TTTCCC
* * *
206366 AGGCTCCTTTGCTATGTGAAAGGATAAGACCTTACCATTTCTC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
** *
206409 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACTATTTCTC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * *
206452 AAGCTCCTTTCCTATGTACAAGGATAAGACCTTACCGTTTCCC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * *
206495 AGGCTCCTTTGCTAAGTGCAAGGATAAGACATTACCGTTTCTC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* *
206538 AGGCTCATTTGCTATGTGCAAGGATAAGACCTTACCGTTTCTC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * *
206581 AGGCTCCTTTGTTATGTGCAAGGATAAGACCTTACCATTTCCA
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* *
206624 AGGCTCCTTTGCTATGTGTAAGGATAAGACCTTATCGTTTCCC
1 AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
* * * *
206667 AAGCTCTTTTTCTATGTGCAAAGG-TAAGTCCTTACCGTTT
1 AGGCTCCTTTGCTATGTGC-AAGGATAAGACCTTACCGTTT
206707 TTGCATGCTC
Statistics
Matches: 371, Mismatches: 53, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
43 331 0.89
44 40 0.11
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.33
Consensus pattern (43 bp):
AGGCTCCTTTGCTATGTGCAAGGATAAGACCTTACCGTTTCCC
Found at i:207703 original size:16 final size:16
Alignment explanation
Indices: 207679--207723 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
207669 ACAGAGCCTC
207679 TGAATCATTCAGCATT
1 TGAATCATTCAGCATT
*
207695 TGAACCATTCAGCATT
1 TGAATCATTCAGCATT
207711 TGAATCATTCAGC
1 TGAATCATTCAGC
207724 GTTTAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (16 bp):
TGAATCATTCAGCATT
Found at i:208017 original size:76 final size:75
Alignment explanation
Indices: 207784--208298 Score: 600
Period size: 76 Copynumber: 6.8 Consensus size: 75
207774 ATTCTATGAG
** * * * * * *
207784 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGTAGTTCTAGCACTAAACCTATGACAT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
* * * *
207849 GATTTCAGTAG
66 AATTCCA-CAA
*
207860 TGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATT-CAAGCACTAAACTTATTAC
1 TGAAACTTAACATTGACTTACACCAGT-AAAATGAATACGTAATTCCAA-CACTAAACTTATCAC
* * * *
207924 ATCATTTCAGTAG
64 ATAATTCCA-CAA
* * * * * *
207937 TGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAATTCTAGCACTAAACTTATCAAAT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
208002 AATTCCACTAA
66 AATTCCAC-AA
* *** *
208013 TGAAACTTAACATTAACTTACACCAACGAAATAAATACGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
*
208078 AATTCCAACAG
66 AATTCC-ACAA
* *
208089 TGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
208154 AATTCCAGCAA
66 AATTCCA-CAA
*
208165 TGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
208230 AATTCCAACAA
66 AATTCC-ACAA
** * ** * *
208241 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATAAATGACTCCAACACTAAACTT
1 TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTT
208299 TGAAGCTTAA
Statistics
Matches: 385, Mismatches: 47, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
75 1 0.00
76 315 0.82
77 69 0.18
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (75 bp):
TGAAACTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACACTAAACTTATCACAT
AATTCCACAA
Found at i:208081 original size:25 final size:25
Alignment explanation
Indices: 208047--208253 Score: 97
Period size: 25 Copynumber: 8.2 Consensus size: 25
208037 AACGAAATAA
*
208047 ATACGTAATTCCAACACT-AAACTT
1 ATACATAATTCCAACACTGAAACTT
*
208071 ATCACATAATTCCAACAGTGAAACTT
1 AT-ACATAATTCCAACACTGAAACTT
* * * * *
208097 A-ACATTGACTTACACCAGTGAAA-TGA
1 ATACA-T-AATTCCAACACTGAAACT-T
**
208123 ATATGTAATTCCAACACT-AAACTT
1 ATACATAATTCCAACACTGAAACTT
* * *
208147 ATCACATAATTCCAGCAATGAAATTT
1 AT-ACATAATTCCAACACTGAAACTT
* * * * * *
208173 A-ACATTGACTTACACCAGT-AAAATGA
1 ATACA-T-AATTCCAACACTGAAACT-T
*
208199 ATACGTAATTCCAACACT-AAACTT
1 ATACATAATTCCAACACTGAAACTT
*
208223 ATCACATAATTCCAACAATGAAACTT
1 AT-ACATAATTCCAACACTGAAACTT
208249 A-ACAT
1 ATACAT
208254 TGACTTACAG
Statistics
Matches: 135, Mismatches: 33, Indels: 30
0.68 0.17 0.15
Matches are distributed among these distances:
24 19 0.14
25 68 0.50
26 45 0.33
27 3 0.02
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (25 bp):
ATACATAATTCCAACACTGAAACTT
Found at i:208112 original size:152 final size:152
Alignment explanation
Indices: 207782--208277 Score: 672
Period size: 152 Copynumber: 3.3 Consensus size: 152
207772 CAATTCTATG
** * * *
207782 AGTGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGTAGTTCTAGCACTAAACCTATGAC
1 AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTATCAC
* * * *
207847 ATGATTTCAGTAGTGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATT-CAAGCA
66 ATAATTCCACTAATGAAACTTAACATTGACTTACACCAGTG-AAATGAATACGTAATTCCAA-CA
* * * **
207911 CTAAACTTATTACATCATTTCAGT
129 CTAAACTTATCACATAATTCCAAC
* * * * *
207935 AGTGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAATTCTAGCACTAAACTTATCAA
1 AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTATCAC
* ** *
208000 ATAATTCCACTAATGAAACTTAACATTAACTTACACCAACGAAATAAATACGTAATTCCAACACT
66 ATAATTCCACTAATGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACT
208065 AAACTTATCACATAATTCCAAC
131 AAACTTATCACATAATTCCAAC
* * *
208087 AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATATGTAATTCCAACACTAAACTTATCAC
1 AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTATCAC
* *
208152 ATAATTCCAGC-AATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTAATTCCAACAC
66 ATAATTCCA-CTAATGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACAC
208216 TAAACTTATCACATAATTCCAAC
130 TAAACTTATCACATAATTCCAAC
* **
208239 AATGAAACTTAACATTGACTTACAGTAGTGAAATGAATA
1 AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATA
208278 AATGACTCCA
Statistics
Matches: 301, Mismatches: 40, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
152 208 0.69
153 93 0.31
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (152 bp):
AGTGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCTAGCACTAAACTTATCAC
ATAATTCCACTAATGAAACTTAACATTGACTTACACCAGTGAAATGAATACGTAATTCCAACACT
AAACTTATCACATAATTCCAAC
Found at i:208290 original size:228 final size:228
Alignment explanation
Indices: 207784--208298 Score: 712
Period size: 228 Copynumber: 2.2 Consensus size: 228
207774 ATTCTATGAG
* * * *
207784 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGTAGTTCTAGCACTAAACCTATGACAT
1 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGTA-TTCCAACACTAAACTTATCACAT
* * **
207849 GATTTCAGTAGTGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATTCAAGCACTA
65 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATTCAAGCACTA
* * * * *
207914 AACTTATTACATCATTTCAGTAGTGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAA
130 AACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAA
* *
207979 TTCTAGCACTAAACTTATCAAATAATTCCACTAA
195 TTCCAACACTAAACTTATCAAATAATTCCACTAA
* ** ** *
208013 TGAAACTTAACATTAACTTACACCAACGAAATAAATACGTAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGT-ATTCCAACACTAAACTTATCACAT
*
208078 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTG-AAATGAATATGTAATTCCAA-CACT
65 AATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATT-CAAGCACT
* *
208141 AAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACCAGTAAAATGAATACGTA
129 AAACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACCAATAAAATGAATACGGA
*
208206 ATTCCAACACTAAACTTATCACATAATTCCAAC-AA
194 ATTCCAACACTAAACTTATCAAATAATTCC-ACTAA
** *
208241 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATAAATGACTCCAACACTAAACTT
1 TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGT-ATTCCAACACTAAACTT
208299 TGAAGCTTAA
Statistics
Matches: 248, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
228 154 0.62
229 93 0.38
230 1 0.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.28
Consensus pattern (228 bp):
TGAAACTTAACATTGACTTACAGTAGTGAAATGAATACGTATTCCAACACTAAACTTATCACATA
ATTCCAACAGTGAAACTTAACATTGACTTACACCAGTGAAAATGAATACGTAATTCAAGCACTAA
ACTTATCACATAATTCCAGCAATGAAATTTAACATTGACTTACACCAATAAAATGAATACGGAAT
TCCAACACTAAACTTATCAAATAATTCCACTAA
Found at i:208436 original size:76 final size:76
Alignment explanation
Indices: 208299--208535 Score: 222
Period size: 76 Copynumber: 3.1 Consensus size: 76
208289 CACTAAACTT
* * * * * ** **
208299 TGAAGCTTAATATTGACTTGCATCAGTGTAATGAATACATAATTATAGGACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
*
208364 AATTCCCGTAG
66 AATTCCAGTAG
* *
208375 TGAAATTTAACATTGACTTACACCAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
** **
208440 AATTCTTGCCG
66 AATTCCAGTAG
* *** * * * * *
208451 TGAAACTTAACATTAACTTACAACAACAAAATGAATTCAGAATTCCATCATTTTTAACTTATCAC
1 TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAACA--CTAAACTTATCAC
*
208516 CTAATTCCAGTAG
64 ATAATTCCAGTAG
208529 TGAAACT
1 TGAAACT
208536 GATGTACGCG
Statistics
Matches: 129, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
76 103 0.80
78 26 0.20
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (76 bp):
TGAAACTTAACATTGACTTACAACAGTGAAATGAATACATAATTCCAACACTAAACTTATCACAT
AATTCCAGTAG
Found at i:209620 original size:42 final size:43
Alignment explanation
Indices: 209573--209689 Score: 109
Period size: 42 Copynumber: 2.8 Consensus size: 43
209563 TCTGTTGCGG
209573 TGTTTGTTGAAAAAATGCCACTATAGATGAACC-TTATTACAA
1 TGTTTGTTGAAAAAATGCCACTATAGATGAACCATTATTACAA
** * * * *
209615 TGTTTGTAT-AAAAAATGCTGCTCA-AG-T-ACTCCATTGTTGCGA
1 TGTTTGT-TGAAAAAATGCCACT-ATAGATGA-ACCATTATTACAA
*
209657 CGTTTGTTGAAAAAATGCCACTATAGATGAACC
1 TGTTTGTTGAAAAAATGCCACTATAGATGAACC
209690 CTTTAGCGGC
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.02
41 5 0.09
42 45 0.79
43 5 0.09
44 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.32
Consensus pattern (43 bp):
TGTTTGTTGAAAAAATGCCACTATAGATGAACCATTATTACAA
Found at i:209873 original size:84 final size:84
Alignment explanation
Indices: 209548--209890 Score: 265
Period size: 84 Copynumber: 4.1 Consensus size: 84
209538 AATAAAAGCA
***
209548 CCGCTAAAGTACTA-TTCTGTTGCGGTGTTTGTTGAAAAAATGCCACTATAGATGAACCTTATTA
1 CCGCTAAAGTACTACTTCT-TTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCTTATTA
* *
209612 CAATGTTTGTATA-AAAAATG
65 CAGTATTT-TATATAAAAATG
* * * * * *
209632 CTGCTCAAGTACTCCATT-GTTGCGACGTTTGTTGAAAAAATGCCACTATAGATGAACCCT-TTA
1 CCGCTAAAGTACTAC-TTCTTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCTTATTA
*** *
209695 GC-GGCGTTTATATAAAAGTG
65 -CAGTATTTTATATAAAAATG
* * * * * * * * *
209715 CCACTAACA-TAATAC-TCTGTTTCGACATTTGTTGAAAAAAATACCACTCTATAAGAACCCTGT
1 CCGCTAA-AGTACTACTTCT-TTGCGACATTTGTTG-AAAAAATGCCACTATAGATGAACCTTAT
* *
209778 TATAGCA-TTTATATAAAAATG
63 TACAGTATTTTATATAAAAATG
* * * *
209799 CCGCTAAAGTACTACTT-TTTGCGGCATTTGTTGAAAAAACGGCACTATAGATGAACCTTATTGC
1 CCGCTAAAGTACTACTTCTTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCTTATTAC
* *
209863 GGTATTTT-TATAAAAACG
66 AGTATTTTATATAAAAATG
209881 CCGCTAAAGT
1 CCGCTAAAGT
209891 TACCATTCTG
Statistics
Matches: 201, Mismatches: 45, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
81 1 0.00
82 46 0.23
83 49 0.24
84 98 0.49
85 5 0.02
86 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (84 bp):
CCGCTAAAGTACTACTTCTTTGCGACATTTGTTGAAAAAATGCCACTATAGATGAACCTTATTAC
AGTATTTTATATAAAAATG
Found at i:210837 original size:44 final size:44
Alignment explanation
Indices: 210770--210858 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
210760 ATAACGTCTA
210770 TTTTAGTGGCATCTTCATATTTCTAGACAG-CAGGGGAGTTGATG
1 TTTTAGTGGCATCTTCATATTTCTAGACAGTCA-GGGAGTTGATG
* * * *
210814 TTTTAGTTGCATCTTCGTGTTTCTAGACAGTCATGGAGTTGATG
1 TTTTAGTGGCATCTTCATATTTCTAGACAGTCAGGGAGTTGATG
210858 T
1 T
210859 AAAGAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.95
45 2 0.05
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.40
Consensus pattern (44 bp):
TTTTAGTGGCATCTTCATATTTCTAGACAGTCAGGGAGTTGATG
Found at i:221762 original size:2 final size:2
Alignment explanation
Indices: 221755--221794 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
221745 GATCATAAAG
221755 TA TA TA TA TA TA 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 TA TA TA TA TA TA
221795 GTTCAGGAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:222433 original size:27 final size:27
Alignment explanation
Indices: 222397--222469 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
222387 TTTGATCAGG
222397 TTGAAGTTCATGG-GTATTTTGATAATTT
1 TTGAA-TTCA-GGAGTATTTTGATAATTT
* *
222425 TTGAATTCAGGAGTGTTTTGGTAATTT
1 TTGAATTCAGGAGTATTTTGATAATTT
* *
222452 TGGAATTCA-AAGTATTTT
1 TTGAATTCAGGAGTATTTT
222470 TGATTTGGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
26 9 0.23
27 25 0.64
28 5 0.13
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (27 bp):
TTGAATTCAGGAGTATTTTGATAATTT
Found at i:223862 original size:85 final size:84
Alignment explanation
Indices: 223664--223864 Score: 201
Period size: 86 Copynumber: 2.4 Consensus size: 84
223654 GTCTTCTTAT
* * * * ** * *
223664 TTTCTCTAAAGGACGCCAAGTCGTAATCAATGGTTGATCTGCTTCTTTCTCCTGAATGATGCCAA
1 TTTCTCTAAAGGACACCAAGTCGTAATCAAAGGTTGATATGCTCCTTTCTCCAAAAGGACGCCAA
223729 ATCAGAGAATGATCTTGCACA
66 ATCAGAGAATGA--TTGCACA
* **
223750 TTTCTCTAAAAGA-AGCCAAGTAATAATCAAAGGTTGATATGCTCCTTTCT-CAAAAGGACGCCA
1 TTTCTCTAAAGGACA-CCAAGTCGTAATCAAAGGTTGATATGCTCCTTTCTCCAAAAGGACGCCA
* * *
223813 AATCGGGTAGCAATG-TTGCTCC
65 AATC-AG-AG-AATGATTGCACA
223835 TTTCTCTAAAGGACACCAAGTCGTAATCAA
1 TTTCTCTAAAGGACACCAAGTCGTAATCAA
223865 TGATTGATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
85 43 0.46
86 44 0.47
87 2 0.02
88 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (84 bp):
TTTCTCTAAAGGACACCAAGTCGTAATCAAAGGTTGATATGCTCCTTTCTCCAAAAGGACGCCAA
ATCAGAGAATGATTGCACA
Found at i:223920 original size:85 final size:84
Alignment explanation
Indices: 223664--223932 Score: 245
Period size: 85 Copynumber: 3.2 Consensus size: 84
223654 GTCTTCTTAT
* * * *
223664 TTTCTCTAAAGGACGCCAAGTCGTAATCAATGGTTGATCTGCTTCTTTCTCCTGAATGATGCCAA
1 TTTCTCTAAAGGACACCAAGTCGTAATCAATGGTTGATATGCTTCTTTCT-CTGAAGGACGCCAA
* *
223729 ATCAGAGAATGATCTTGCACA
65 ATCAG-GAATGATCTTGCTCC
* ** * * **
223750 TTTCTCTAAAAGA-AGCCAAGTAATAATCAAAGGTTGATATGCTCCTTTCTCAAAAGGACGCCAA
1 TTTCTCTAAAGGACA-CCAAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACGCCAA
* * *
223814 ATCGGGTA-GCAATGTTGCTCC
65 ATCAGGAATG--ATCTTGCTCC
* * * * *
223835 TTTCTCTAAAGGACACCAAGTCGTAATCAATGATTGATTTGCTTCATTATCTGAAGGACACCAAA
1 TTTCTCTAAAGGACACCAAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACGCCAAA
* *
223900 TCTCGGAATGATCTTTCTCC
66 TC-AGGAATGATCTTGCTCC
* *
223920 TTTATCTGAAGGA
1 TTTCTCTAAAGGA
223933 TGCTAAGTCA
Statistics
Matches: 143, Mismatches: 34, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
83 1 0.01
84 2 0.01
85 93 0.65
86 46 0.32
87 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (84 bp):
TTTCTCTAAAGGACACCAAGTCGTAATCAATGGTTGATATGCTTCTTTCTCTGAAGGACGCCAAA
TCAGGAATGATCTTGCTCC
Found at i:226337 original size:20 final size:20
Alignment explanation
Indices: 226312--226351 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
226302 TCAGGAGATT
226312 GCTTAGTGTTCGAGAGAATA
1 GCTTAGTGTTCGAGAGAATA
226332 GCTTAGTGTTCGAGAGAATA
1 GCTTAGTGTTCGAGAGAATA
226352 ACTAAGTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (20 bp):
GCTTAGTGTTCGAGAGAATA
Found at i:230878 original size:5 final size:5
Alignment explanation
Indices: 230870--230969 Score: 85
Period size: 5 Copynumber: 20.0 Consensus size: 5
230860 TGTTCAGGGA
* *
230870 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -ACAT AGAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
* * **** * * *
230919 GAAAT AAAGT TTGCT AAAAAT AAAAT GAAAT AAAAT GAAAT AAAAT GAAAT
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
230970 GGGTTACCTC
Statistics
Matches: 73, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
4 3 0.04
5 69 0.95
6 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:235028 original size:21 final size:21
Alignment explanation
Indices: 234980--235029 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
234970 AGGCAATTAG
* **
234980 CTTTTCCTGGGATGTAACCAA
1 CTTTTCTTGGGACATAACCAA
235001 CTTTTCTTGGGACATAACCAA
1 CTTTTCTTGGGACATAACCAA
235022 CTTTTCTT
1 CTTTTCTT
235030 ATGAATTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (21 bp):
CTTTTCTTGGGACATAACCAA
Found at i:236188 original size:76 final size:76
Alignment explanation
Indices: 236049--236539 Score: 406
Period size: 76 Copynumber: 6.5 Consensus size: 76
236039 TGTCCAACTC
* ** *
236049 CACCAGTGAAATGAATACGTAATTCAAGAACTAAACTTATCACATAATTCCCGCAGTT-CAATTT
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACA-TTGAAATTT
236113 ATCATTGACTTA
65 ATCATTGACTTA
* * * *
236125 CATCAGTGTAATGAATACGTAATTCAAGCACTAAACTTATCACATCATTTCAACATTGAAATTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACATTGAAATTTA
236190 TCATTGACTTA
66 TCATTGACTTA
* * * * * * *
236201 CACCAGTAAAATGAATACGTAATTCCAGCGCTAAACTTATCACATGATTCCAATAATGAAACTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACATTGAAATTTA
*
236266 TCATTAACTTA
66 TCATTGACTTA
** * * *
236277 CACCAGTGATTTGAATACGTAATTCCAA-CACT--A---ATCACATAATTCCTACAGTGAAACTT
1 CACCAGTGAAATGAATACGTAATT-CAAGCACTAAACTTATCACATAATTCCAACATTGAAATTT
* **
236336 AACATTTTCTTA
65 ATCATTGACTTA
** * * * * * * * ** * *
236348 CACCAACGAAATAAATACATAATTCCATCACTAAATTTATCACCTAATTCGAGTAGTGAAACTTA
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACATTGAAATTTA
*
236413 ACATTGACTTA
66 TCATTGACTTA
* * * * * ** * *
236424 AATCAATGAAATGAATACGTAATTCTAA-CACTAAACTTTTCACATAAGT-CATGGAGTGAAACT
1 CACCAGTGAAATGAATACGTAATTC-AAGCACTAAACTTATCACATAATTCCA-ACATTGAAATT
* *
236487 GAACATTGACTTA
64 TATCATTGACTTA
* ** *
236500 CACTAGTGAAATGAATACGTAATTCCGGCAATAAACTTAT
1 CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTAT
236540 GATTTCACAT
Statistics
Matches: 338, Mismatches: 66, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
70 2 0.01
71 53 0.16
73 1 0.00
74 1 0.00
75 3 0.01
76 275 0.81
77 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (76 bp):
CACCAGTGAAATGAATACGTAATTCAAGCACTAAACTTATCACATAATTCCAACATTGAAATTTA
TCATTGACTTA
Found at i:236910 original size:19 final size:21
Alignment explanation
Indices: 236879--236920 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
236869 TTCCCCTCAC
236879 ATTTGTGATTCTT-A-CCTTA
1 ATTTGTGATTCTTCACCCTTA
236898 ATTTGT-ATGTCTTCACCCTTA
1 ATTTGTGAT-TCTTCACCCTTA
236919 AT
1 AT
236921 CACCTTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 2 0.10
19 10 0.50
20 1 0.05
21 7 0.35
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.50
Consensus pattern (21 bp):
ATTTGTGATTCTTCACCCTTA
Found at i:238845 original size:93 final size:93
Alignment explanation
Indices: 238739--238926 Score: 376
Period size: 93 Copynumber: 2.0 Consensus size: 93
238729 TTAAGCAGTG
238739 ATCAGGAATCCCACGTACACTTGTTATACAGGATGATCATTATCACAAACTGAAGAGCAAGCAAG
1 ATCAGGAATCCCACGTACACTTGTTATACAGGATGATCATTATCACAAACTGAAGAGCAAGCAAG
238804 CATTTCTAGCTAGCTAGCTATCTATTAC
66 CATTTCTAGCTAGCTAGCTATCTATTAC
238832 ATCAGGAATCCCACGTACACTTGTTATACAGGATGATCATTATCACAAACTGAAGAGCAAGCAAG
1 ATCAGGAATCCCACGTACACTTGTTATACAGGATGATCATTATCACAAACTGAAGAGCAAGCAAG
238897 CATTTCTAGCTAGCTAGCTATCTATTAC
66 CATTTCTAGCTAGCTAGCTATCTATTAC
238925 AT
1 AT
238927 GCAGTAGCTG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 95 1.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (93 bp):
ATCAGGAATCCCACGTACACTTGTTATACAGGATGATCATTATCACAAACTGAAGAGCAAGCAAG
CATTTCTAGCTAGCTAGCTATCTATTAC
Found at i:241216 original size:31 final size:31
Alignment explanation
Indices: 241174--241254 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 31
241164 ACGATTAGGT
* **
241174 GCTCCCGTGCAAGTCACTCGAATCCTTCGGG
1 GCTCCCATGCAAGTCACTCGAATCCTTCAAG
241205 GCTCCCATGCAAGTCACTC---TCCTTCAAG
1 GCTCCCATGCAAGTCACTCGAATCCTTCAAG
*
241233 GCTCCCATGCAAGTCACCCGAA
1 GCTCCCATGCAAGTCACTCGAA
241255 ATAAATATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 25 0.58
31 18 0.42
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (31 bp):
GCTCCCATGCAAGTCACTCGAATCCTTCAAG
Found at i:241656 original size:76 final size:76
Alignment explanation
Indices: 241525--242053 Score: 614
Period size: 76 Copynumber: 6.9 Consensus size: 76
241515 ACATTAACAT
* * * * *
241525 GTAATTCCAGCACTAAA-TTAAACACATCACAATTCTAGCAGTGAAACGTAGCATTGATTTACAC
1 GTAATTCCAGCACTAAACTT-ATCACAT---AATTCCAGCAGTGAAACTTAACATTGACTTACAC
241589 CAGTGAAATGAATAC
62 CAGTGAAATGAATAC
* * * * * * * *
241604 GCAATTCTAGTACTAAACTTATGACATGATTTCAGTAGTGAAACTTAACATTGACTTACACTAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
241669 GAAATGAATAT
66 GAAATGAATAC
* * * ** * *
241680 GGAATTCAAGCACTAAACTTATCACATCATTTTAGCAGTGAAATTTAGCATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
*
241745 AAAATGAATAC
66 GAAATGAATAC
* * * * * **
241756 GTAATTCCAGCGCTAAACTTATCACATAATTCCAGTAATAAAACTTAACATTAACTTACACCAAC
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
241821 GAAATGAATAC
66 GAAATGAATAC
* * *
241832 GTAATTCCAACACTAAACTTATCTCATAATTCCAACAGTGAAACTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
241897 GAAATGAATAC
66 GAAATGAATAC
* * *
241908 GTAATTCCAGCACTAAACTTATCACATAATTCTAGCAATGAAATTTAACATTGACTTACACCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
* *
241973 AAAATAAATAC
66 GAAATGAATAC
* * ** * *
241984 GTAATTCCAACAC--AACTTATTACATAATTCCAGCAACGAAACTTAACATTGACTTATATCAGT
1 GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
242047 GAAATGA
66 GAAATGA
242054 GTAAATCCAA
Statistics
Matches: 381, Mismatches: 68, Indels: 7
0.84 0.15 0.02
Matches are distributed among these distances:
74 49 0.13
76 311 0.82
79 19 0.05
80 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (76 bp):
GTAATTCCAGCACTAAACTTATCACATAATTCCAGCAGTGAAACTTAACATTGACTTACACCAGT
GAAATGAATAC
Found at i:253012 original size:31 final size:31
Alignment explanation
Indices: 252976--253080 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 31
252966 AGATACCGAA
*
252976 CTTGGGTAGGCCCTGTGGCCCTGAGATCATT
1 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
** *
253007 CTTGGGTAGGCCCTACGGTCCTGAGATCTTT
1 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
* * *
253038 CTTGGATAGGCCCCGTGGCCCTGAGAACTTT
1 CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
253069 CTT-GGTAGGCCC
1 CTTGGGTAGGCCC
253081 ATAGGCCCCA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 8 0.13
31 55 0.87
ACGTcount: A:0.13, C:0.28, G:0.30, T:0.29
Consensus pattern (31 bp):
CTTGGGTAGGCCCTGTGGCCCTGAGATCTTT
Done.