Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007807.1 Hibiscus syriacus cultivar Beakdansim tig00110126_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: 2195110
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 5 of 9
Found at i:795087 original size:19 final size:19
Alignment explanation
Indices: 795059--795096 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
795049 TAATAATATT
*
795059 CTAAATCCTAATTAAAATA
1 CTAAAACCTAATTAAAATA
*
795078 CTAAAACCTATTTAAAATA
1 CTAAAACCTAATTAAAATA
795097 AAATACCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
CTAAAACCTAATTAAAATA
Found at i:795147 original size:76 final size:76
Alignment explanation
Indices: 795050--795198 Score: 253
Period size: 76 Copynumber: 2.0 Consensus size: 76
795040 CCTAAAAAAT
*
795050 AATAATATTCTAAATCCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCTAAAACAAAGA
1 AATAATATTCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCTAAAACAAAGA
795115 TAAAATATGAA
66 TAAAATATGAA
* * * *
795126 AATAATATTCTAAAACTTAATTTAAATACTAAAATCTATTTAAACTAAAATACCTAAAACAAAGA
1 AATAATATTCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCTAAAACAAAGA
795191 TAAAATAT
66 TAAAATAT
795199 AATGTTTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
AATAATATTCTAAAACCTAATTAAAATACTAAAACCTATTTAAAATAAAATACCTAAAACAAAGA
TAAAATATGAA
Found at i:797111 original size:14 final size:15
Alignment explanation
Indices: 797082--797118 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
797072 TTTAGAGAAA
*
797082 AAAATAACTGAAAAT
1 AAAATAAATGAAAAT
797097 AAAATAAAT-AAAAT
1 AAAATAAATGAAAAT
797111 AAAATAAA
1 AAAATAAA
797119 GTTCGCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAATGAAAAT
Found at i:797165 original size:20 final size:21
Alignment explanation
Indices: 797127--797176 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
797117 AAGTTCGCTC
*
797127 AAAATAAACTGAAATAAAACA
1 AAAATAAAATGAAATAAAACA
797148 AAAATAAAATGAAA-AAAACA
1 AAAATAAAATGAAATAAAACA
*
797168 AAAACAAAA
1 AAAATAAAA
797177 ATATAACGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAATAAAATGAAATAAAACA
Found at i:797177 original size:21 final size:21
Alignment explanation
Indices: 797127--797178 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
797117 AAGTTCGCTC
* *
797127 AAAATAAACTGAAATAAAACA
1 AAAAAAAAATGAAATAAAACA
*
797148 AAAATAAAATGAAA-AAAACA
1 AAAAAAAAATGAAATAAAACA
797168 AAAACAAAAAT
1 AAAA-AAAAAT
797179 ATAACGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.12
Consensus pattern (21 bp):
AAAAAAAAATGAAATAAAACA
Found at i:803487 original size:14 final size:15
Alignment explanation
Indices: 803468--803496 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
803458 AAATCATAAT
803468 TAAAATA-CTAAAAC
1 TAAAATACCTAAAAC
803482 TAAAATACCTAAAAC
1 TAAAATACCTAAAAC
803497 AAAGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATACCTAAAAC
Found at i:812078 original size:21 final size:21
Alignment explanation
Indices: 812048--812248 Score: 114
Period size: 21 Copynumber: 9.6 Consensus size: 21
812038 GATTTACATA
* *
812048 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCGAAG
*
812069 TTCGCGTTGCGA-A-TCTGGAAA
1 TTCGCGTTGCGATAGTC--GAAG
* **
812090 CT-GATTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
* * *
812110 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
812133 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
812152 TTCGCGTTGCGATTTTTTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
812175 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
** * *
812194 TTCGCGTTGCGATTTTTTCCAAA
1 TTCGCGTTGCGA--TAGTCGAAG
812217 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCGAAG
812236 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
812249 TTATTCCAAA
Statistics
Matches: 131, Mismatches: 32, Indels: 34
0.66 0.16 0.17
Matches are distributed among these distances:
19 24 0.18
20 12 0.09
21 71 0.54
22 2 0.02
23 22 0.17
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCGAAG
Found at i:812151 original size:42 final size:42
Alignment explanation
Indices: 812095--812260 Score: 314
Period size: 42 Copynumber: 4.0 Consensus size: 42
812085 GGAAACTGAT
812095 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
812137 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
812179 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
812221 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
812261 TGCAACGACT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:813225 original size:63 final size:64
Alignment explanation
Indices: 813158--813475 Score: 297
Period size: 63 Copynumber: 5.1 Consensus size: 64
813148 AACTTCAACT
* * *
813158 ATCGCAA-TGAACTTAGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACCGAACTTCGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* * *
813221 ATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTGGACTATCGTAACGAATTTGGAATAA
1 ATCGCAAC-CGAACTTCGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* * * *
813284 ATCGCAACGCGAACTTCGACT---TCACAA--CGAACTTGGAATAAATCGCAACGCAAACTTCGA
1 ATCGCAAC-CGAACTTCGAATAAATCGCAACGCGAACTTGGACT--ATCGCAACG--AACTTGGA
*
813344 CT--
61 ATAA
* * *
813346 ATCGCAA-CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGACT--
1 ATCGCAACCGAACTTCGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
* * * * *
813407 ATTGCAACGCGAATTTGGAATAAATCACAACGCGAACTTGGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAAC-CGAACTTCGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
813470 ATCGCA
1 ATCGCA
813476 TTGCGATAGT
Statistics
Matches: 215, Mismatches: 25, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
60 21 0.10
61 15 0.07
62 20 0.09
63 133 0.62
64 7 0.03
65 19 0.09
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (64 bp):
ATCGCAACCGAACTTCGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAA
Found at i:813288 original size:42 final size:42
Alignment explanation
Indices: 813242--813404 Score: 274
Period size: 42 Copynumber: 3.9 Consensus size: 42
813232 AACTTCGACT
* * *
813242 ATCGCAACGCGAACTTGGACTATCGTAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
*
813284 ATCGCAACGCGAACTTCGACT-TCACAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
*
813325 ATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
813367 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGA
1 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGA
813405 CTATTGCAAC
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
41 37 0.33
42 76 0.67
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (42 bp):
ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
Found at i:813332 original size:83 final size:82
Alignment explanation
Indices: 813230--813425 Score: 277
Period size: 83 Copynumber: 2.4 Consensus size: 82
813220 AATCGCAACG
* * * *
813230 CGAACTTCGACTATCGCAACGCGAACTTGGACTATCGTAACGAATTTGGAATAAATCGCAACGCG
1 CGAACTTGGAATATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCG
813295 AACTTCGACT-TCACAA
66 AACTTCGACTATCACAA
* *
813311 CGAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACG
1 CGAACTTGGAAT--ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACG
*
813376 CGAACTTCGACTATCGCAA
64 CGAACTTCGACTATCACAA
* * *
813395 CGAACTTGGACTATTGCAACGCGAATTTGGA
1 CGAACTTGGAATATCGCAACGCGAACTTGGA
813426 ATAAATCACA
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
81 10 0.10
82 15 0.15
83 59 0.59
84 16 0.16
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.21
Consensus pattern (82 bp):
CGAACTTGGAATATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCG
AACTTCGACTATCACAA
Found at i:813424 original size:21 final size:21
Alignment explanation
Indices: 813109--813459 Score: 246
Period size: 21 Copynumber: 16.8 Consensus size: 21
813099 CGTTGCGATT
*
813109 TTGGACTATCGTAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
813128 TTGGAATAAATCACAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
** *
813151 TTCAACTATCGCAA--TGAAC
1 TTGGACTATCGCAACGCGAAC
* *
813170 TTAGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
813193 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
813212 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
813235 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* *
813256 TTGGACTATCGTAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
813275 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
* *
813298 TTCGACT-TCACAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
813316 TTGGAATAAATCGCAACGCAAAC
1 TTGGACT--ATCGCAACGCGAAC
*
813339 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
813358 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
813381 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
813400 TTGGACTATTGCAACGCGAAT
1 TTGGACTATCGCAACGCGAAC
* *
813421 TTGGAATAAATCACAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
813444 TTGGACTATCGCAACG
1 TTGGACTATCGCAACG
813460 AATTTGGAAA
Statistics
Matches: 256, Mismatches: 47, Indels: 56
0.71 0.13 0.16
Matches are distributed among these distances:
18 10 0.04
19 60 0.23
20 5 0.02
21 108 0.42
23 73 0.29
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:813440 original size:188 final size:185
Alignment explanation
Indices: 813121--813475 Score: 550
Period size: 188 Copynumber: 1.9 Consensus size: 185
813111 GGACTATCGT
* *
813121 AACGAACTTGGAATAAATCACAACGCGAACTTCAACTATCGCAATGAACTTAGAATAAATCGCAA
1 AACGAACTTGGAATAAATCACAACGCAAACTTCAACTATCGCAACGAACTTAGAATAAATCGCAA
* *
813186 CGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACG
66 CGCGAACTTCGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAACTTCGAATATCACAACG
*
813251 CGAACTTGGACTATCGTAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTTCAC
130 CGAACTTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTTCAC
* * *
813309 AACGAACTTGGAATAAATCGCAACGCAAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAA
1 AACGAACTTGGAATAAATCACAACGCAAACTTCAACTATCGCAACGAACTTAGAATAAATCGCAA
* * * *
813374 CGCGAACTTCGACTATCGCAACGAACTTGGACT-ATTGCAACGCGAATTTGGAATAAATCACAAC
66 CGCGAACTTCGACTATCGCAACGAACTTGGAATAATCGCAACGCGAACTTCGAAT--ATCACAAC
813438 GCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCA
129 GCGAACTTGGACTATCGCAACGAATTTGGAAAATCGCA
813476 TTGCGATAGT
Statistics
Matches: 153, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
186 25 0.16
187 1 0.01
188 127 0.83
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (185 bp):
AACGAACTTGGAATAAATCACAACGCAAACTTCAACTATCGCAACGAACTTAGAATAAATCGCAA
CGCGAACTTCGACTATCGCAACGAACTTGGAATAATCGCAACGCGAACTTCGAATATCACAACGC
GAACTTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAACTTCGACTTCAC
Found at i:813500 original size:21 final size:21
Alignment explanation
Indices: 813471--813523 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
813461 ATTTGGAAAA
813471 TCGCATTGCGATAGTCAAAGT
1 TCGCATTGCGATAGTCAAAGT
* * *
813492 TCGCGTTGCGATAGTCGATGT
1 TCGCATTGCGATAGTCAAAGT
813513 TCGCATTGCGA
1 TCGCATTGCGA
813524 ATCTGGAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCATTGCGATAGTCAAAGT
Found at i:814593 original size:42 final size:43
Alignment explanation
Indices: 814527--814630 Score: 144
Period size: 42 Copynumber: 2.4 Consensus size: 43
814517 ATATCTAGAG
814527 TTAATTAAGTATATATT--TTAATAATCCCAAATATTTAATTTC-A
1 TTAATTAA--ATATATTAATTAATAATCCC-AATATTTAATTTCAA
814570 TTAA-TAAATATATTAATTAATAATCCCAATATTTAATTTCAA
1 TTAATTAAATATATTAATTAATAATCCCAATATTTAATTTCAA
814612 TTAATTAAATATAATTAAT
1 TTAATTAAATAT-ATTAAT
814631 GAAATAATAA
Statistics
Matches: 56, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
40 7 0.12
41 13 0.23
42 19 0.34
43 11 0.20
44 6 0.11
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (43 bp):
TTAATTAAATATATTAATTAATAATCCCAATATTTAATTTCAA
Found at i:815870 original size:26 final size:28
Alignment explanation
Indices: 815830--815884 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
815820 GACTAAGCGG
*
815830 TTAAAAATAATATTATCAAT-AATATTA
1 TTAAAAATAAGATTATCAATAAATATTA
815857 TTAAAAA-AAGATTATCAATAAATATTA
1 TTAAAAATAAGATTATCAATAAATATTA
815884 T
1 T
815885 CTTATATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (28 bp):
TTAAAAATAAGATTATCAATAAATATTA
Found at i:816633 original size:43 final size:43
Alignment explanation
Indices: 816572--816657 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
816562 ACGCATTCGG
*
816572 ATACTTACAAACTACTGAATTTTAATTATAAAAAAGGTTTATC
1 ATACTTAAAAACTACTGAATTTTAATTATAAAAAAGGTTTATC
**
816615 ATACTTAAAAACTACTGAATTTTAATTATAAAAATTGTTTATC
1 ATACTTAAAAACTACTGAATTTTAATTATAAAAAAGGTTTATC
816658 GTTTATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (43 bp):
ATACTTAAAAACTACTGAATTTTAATTATAAAAAAGGTTTATC
Found at i:817167 original size:28 final size:28
Alignment explanation
Indices: 817110--817168 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
817100 ATTGAAACCT
*
817110 AAAATAAAATAAAGTTTAGATACCAAAA
1 AAAATAAAATAAAGTTTAGACACCAAAA
*
817138 AAAATAAAAATAATAGTTTAGACACTAAAA
1 AAAAT-AAAATAA-AGTTTAGACACCAAAA
817168 A
1 A
817169 TATAGTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 5 0.19
29 7 0.26
30 15 0.56
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (28 bp):
AAAATAAAATAAAGTTTAGACACCAAAA
Found at i:817631 original size:26 final size:26
Alignment explanation
Indices: 817580--817631 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
817570 ACTCAATGAG
* * *
817580 TATTTGTTTAAAAAATGATTTTTAAA
1 TATTTGTTTAAAAAATAATATCTAAA
817606 TATTT-TTTAAAAAATTAATATCTAAA
1 TATTTGTTTAAAAAA-TAATATCTAAA
817632 CAACGTGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (26 bp):
TATTTGTTTAAAAAATAATATCTAAA
Found at i:819703 original size:34 final size:33
Alignment explanation
Indices: 819638--819708 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
819628 CCTTTACAAC
* *
819638 TCCCTAGTTTTTCACGGGTTAAACTATAACCTT
1 TCCCTAGTTTTACACGGGTTAAACTAGAACCTT
*
819671 TCCCTAGCTTTTACACGGGCTT-AGCTAGAACCTT
1 TCCCTAG-TTTTACACGGG-TTAAACTAGAACCTT
819705 TCCC
1 TCCC
819709 CTTTACAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 24 0.73
35 2 0.06
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.35
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGTTAAACTAGAACCTT
Found at i:820143 original size:21 final size:19
Alignment explanation
Indices: 820117--820171 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
820107 CAGTGTTTGA
820117 GTGCATGGATGCACTACAGGG
1 GTGCATGGATGCACTACA--G
* *
820138 GTGCATCGATGCACTGCAG
1 GTGCATGGATGCACTACAG
*
820157 GTGCATGAATGCACT
1 GTGCATGGATGCACT
820172 TTGACACCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.47
21 16 0.53
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.22
Consensus pattern (19 bp):
GTGCATGGATGCACTACAG
Found at i:820428 original size:18 final size:19
Alignment explanation
Indices: 820379--820434 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 19
820369 AAATGTTTAA
*
820379 TAAAAAAGATACCAATTGT
1 TAAAAAAGATATCAATTGT
820398 TAACAAAATGATATCAATTGT
1 TAA-AAAA-GATATCAATTGT
820419 T-AAAAAGATATCAATT
1 TAAAAAAGATATCAATT
820435 ATTACCAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 5 0.15
21 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (19 bp):
TAAAAAAGATATCAATTGT
Found at i:828005 original size:17 final size:19
Alignment explanation
Indices: 827971--828009 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
827961 AAAAAATAAA
827971 AAAAAAGAAGAGCAGTTCG
1 AAAAAAGAAGAGCAGTTCG
*
827990 AAAAAA-AAG-GCTGTTCG
1 AAAAAAGAAGAGCAGTTCG
828007 AAA
1 AAA
828010 GGAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 3 0.16
19 6 0.32
ACGTcount: A:0.54, C:0.10, G:0.23, T:0.13
Consensus pattern (19 bp):
AAAAAAGAAGAGCAGTTCG
Found at i:830452 original size:19 final size:20
Alignment explanation
Indices: 830428--830481 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
830418 TGGTGTTTGA
*
830428 GTGCATGGATGCACTGCA-G
1 GTGCATGGATGCACTACAGG
*
830447 GTGCATCGATGCACTACAGG
1 GTGCATGGATGCACTACAGG
830467 GTGCATGGATGCACT
1 GTGCATGGATGCACT
830482 TTGACACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTACAGG
Found at i:832106 original size:15 final size:17
Alignment explanation
Indices: 832081--832112 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
832071 AAATATCTTG
832081 TTGGACACCAA-TTCCC
1 TTGGACACCAACTTCCC
832097 TTGG-CACCAACTTCCC
1 TTGGACACCAACTTCCC
832113 AAATAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.22, C:0.41, G:0.12, T:0.25
Consensus pattern (17 bp):
TTGGACACCAACTTCCC
Found at i:832667 original size:16 final size:16
Alignment explanation
Indices: 832646--832690 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
832636 GTCAGATCGT
832646 TTACAGGTTGAGTCAA
1 TTACAGGTTGAGTCAA
**
832662 TTACAGGTCAAGTCAA
1 TTACAGGTTGAGTCAA
* *
832678 TAACAGGCTGAGT
1 TTACAGGTTGAGT
832691 AATACCAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (16 bp):
TTACAGGTTGAGTCAA
Found at i:833108 original size:112 final size:111
Alignment explanation
Indices: 832893--833112 Score: 293
Period size: 112 Copynumber: 2.0 Consensus size: 111
832883 ATCTCCTTCT
* *
832893 GTGATAAAGTCATGCAAAGGTTAAACAAGTTATTCTCATTATGAACTTCTTCTTCCACTTCAGAT
1 GTGATAAAGTCAAGCAAAGGTTAAACAAATTATTCTCATTATGAACTTCTTCTTCCACTTCAGAT
* * *
832958 AAGTTCTTCTCATTATGAAATTCCTCTGGAAAATTTGATCCATCGA
66 AAGTTCTTATCATTATGAAACTCCTCCGGAAAATTTGATCCATCGA
* *
833004 GTGATAAATTCAAGCAAAAGGTTGAACAAATTATTCTCATTATGAACTTCTTCTT-CATTCTTCA
1 GTGATAAAGTCAAGC-AAAGGTTAAACAAATTATTCTCATTATGAACTTCTTCTTCCA--CTTCA
* * *
833068 GATGAGTTCTTATCATTGTG-AACTCTTCCGG-AAATGTTGATCCAT
63 GATAAGTTCTTATCATTATGAAACTCCTCCGGAAAAT-TTGATCCAT
833113 TGAATGATGG
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
111 19 0.20
112 54 0.57
113 22 0.23
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (111 bp):
GTGATAAAGTCAAGCAAAGGTTAAACAAATTATTCTCATTATGAACTTCTTCTTCCACTTCAGAT
AAGTTCTTATCATTATGAAACTCCTCCGGAAAATTTGATCCATCGA
Found at i:833333 original size:22 final size:22
Alignment explanation
Indices: 833308--833358 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
833298 AAATATTTCT
833308 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
*
833330 TCTTTGAAGAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
833352 TCTTTGA
1 TCTTTGA
833359 GGAATATAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:834022 original size:18 final size:19
Alignment explanation
Indices: 833979--834022 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
833969 GATGTTTATA
*
833979 CGAAAGAATAAATTTAATTT
1 CGAAA-AATAAATTGAATTT
833999 CG-AAAATAAATTGAATTT
1 CGAAAAATAAATTGAATTT
834017 -GAAAAA
1 CGAAAAA
834023 GATAATCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 2 0.09
20 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (19 bp):
CGAAAAATAAATTGAATTT
Found at i:834410 original size:19 final size:18
Alignment explanation
Indices: 834385--834431 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
834375 TCTATATATT
*
834385 TTTTTCATCATTTTTTTT
1 TTTTTCATCATTTTTTTC
834403 TCTTTTCATTTCATTTTTTTC
1 T-TTTTCA--TCATTTTTTTC
834424 TTTTTCAT
1 TTTTTCAT
834432 TTTTCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 6 0.24
20 6 0.24
21 11 0.44
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTCATCATTTTTTTC
Found at i:834416 original size:21 final size:20
Alignment explanation
Indices: 834397--834433 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
834387 TTTCATCATT
834397 TTTTTTTC-TTTTCATTTCA
1 TTTTTTTCTTTTTCATTTCA
834416 TTTTTTTCTTTTTCATTT
1 TTTTTTTCTTTTTCATTT
834434 TTCTTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTTTTCATTTCA
Found at i:834440 original size:16 final size:15
Alignment explanation
Indices: 834411--834446 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
834401 TTTCTTTTCA
834411 TTTCATTTTTTTCTT
1 TTTCATTTTTTTCTT
834426 TTTCATTTTTCTTCTT
1 TTTCATTTTT-TTCTT
*
834442 CTTCA
1 TTTCA
834447 AGCATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCATTTTTTTCTT
Found at i:834444 original size:19 final size:17
Alignment explanation
Indices: 834392--834435 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
834382 ATTTTTTTCA
834392 TCATTTTTTTTTC-TTT
1 TCATTTTTTTTTCTTTT
834408 TCATTTCATTTTTTTCTTTT
1 TCA-TT--TTTTTTTCTTTT
834428 TCATTTTT
1 TCATTTTT
834436 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
19 10 0.42
20 6 0.25
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (17 bp):
TCATTTTTTTTTCTTTT
Found at i:845675 original size:2 final size:2
Alignment explanation
Indices: 845668--845701 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
845658 TTTTAAGAAA
845668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
845702 TTATTTATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:845725 original size:23 final size:23
Alignment explanation
Indices: 845694--845737 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
845684 ATATATATAT
* *
845694 ATATATATTTATTTATAAATAAG
1 ATATATATTTACTTAGAAATAAG
*
845717 ATATTTATTTACTTAGAAATA
1 ATATATATTTACTTAGAAATA
845738 TCATAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
ATATATATTTACTTAGAAATAAG
Found at i:845991 original size:22 final size:21
Alignment explanation
Indices: 845934--845996 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
845924 ACATAATAAT
845934 AAAAACAATAATTAAATATATA
1 AAAAACAATAATTAAA-ATATA
*
845956 AAAATATAA-AATTAAAATATA
1 AAAA-ACAATAATTAAAATATA
*
845977 AATAAACAATGATTAAAATA
1 AA-AAACAATAATTAAAATA
845997 AATAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 10 0.29
22 22 0.63
23 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAACAATAATTAAAATATA
Found at i:846040 original size:37 final size:33
Alignment explanation
Indices: 845943--846040 Score: 88
Period size: 37 Copynumber: 2.7 Consensus size: 33
845933 TAAAAACAAT
845943 AATTAAATATATAAAAATATAAAATTAAAATATA
1 AATTAAA-ATATAAAAATATAAAATTAAAATATA
* *
845977 AATAAACAATGATTAAAATAAATAAAATTAAAACTATA
1 AATTAA-AAT-A-TAAAA-ATATAAAATTAAAA-TATA
*
846015 GTATTAAAATATAAAAAGTATTAAAA
1 -AATTAAAATATAAAAA-TA-TAAAA
846041 ATTGTAAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
34 7 0.14
35 3 0.06
36 11 0.22
37 19 0.37
38 7 0.14
39 4 0.08
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (33 bp):
AATTAAAATATAAAAATATAAAATTAAAATATA
Found at i:847260 original size:3 final size:3
Alignment explanation
Indices: 847252--847364 Score: 151
Period size: 3 Copynumber: 37.7 Consensus size: 3
847242 CTGTAATGTA
847252 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* *
847298 AAT AAT -AT AAT TAT AA- AAT AAT AAT AGT AAT AAAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
*
847341 AAT AAC AAT AAT AAAT AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AA
847365 AAAGAAATGG
Statistics
Matches: 98, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
2 6 0.06
3 83 0.85
4 9 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:847602 original size:20 final size:21
Alignment explanation
Indices: 847570--847608 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
847560 TAGAGATTTA
847570 ATCCCCAAACGGCTAGAAATC
1 ATCCCCAAACGGCTAGAAATC
847591 ATCCCC-AACGGCTAGAAA
1 ATCCCCAAACGGCTAGAAA
847609 CGACCACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.13
Consensus pattern (21 bp):
ATCCCCAAACGGCTAGAAATC
Found at i:854285 original size:35 final size:35
Alignment explanation
Indices: 854220--854288 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
854210 AACATCTACC
854220 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAA
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAA
854255 AAACATTTACCAAACTTTG-AAAACATTTTTCAAA
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAA
854289 GTTGGTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
35 19 0.58
36 14 0.42
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAA
Found at i:858807 original size:21 final size:21
Alignment explanation
Indices: 858783--858843 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
858773 CAAACTTTAC
858783 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
**
858804 CAAA----G--AAACATTTAC
1 CAAACTTTGAAAAACATTTTT
858819 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
858840 CAAA
1 CAAA
858844 ATTGGTTGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 12 0.40
17 1 0.03
19 1 0.03
21 16 0.53
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (21 bp):
CAAACTTTGAAAAACATTTTT
Found at i:858819 original size:36 final size:35
Alignment explanation
Indices: 858774--858843 Score: 131
Period size: 36 Copynumber: 2.0 Consensus size: 35
858764 AACATCTACC
858774 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
858809 AAACATTTACCAAACTTTGAAAAACATTTTTCAAA
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAA
858844 ATTGGTTGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 4 0.12
36 30 0.88
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.31
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:859907 original size:19 final size:20
Alignment explanation
Indices: 859864--859920 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
859854 ACATGTAACG
*
859864 AATTTGACAAAACCGACTGGA
1 AATTTGACAAAACCG-GTGGA
*
859885 AA-TTGACAAAACCGGTTGA
1 AATTTGACAAAACCGGTGGA
*
859904 AATTTAACAAAACCGGT
1 AATTTGACAAAACCGGT
859921 AAAAAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 25 0.78
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (20 bp):
AATTTGACAAAACCGGTGGA
Found at i:862080 original size:21 final size:20
Alignment explanation
Indices: 862032--862081 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
862022 AATTTTCTTT
* *
862032 AAATAAAATTATGCGATTAA
1 AAATGAAATAATGCGATTAA
* *
862052 ATATGAAATAATGGGATTATA
1 AAATGAAATAATGCGATTA-A
862073 AAATGAAAT
1 AAATGAAAT
862082 TAAATATAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.14, T:0.30
Consensus pattern (20 bp):
AAATGAAATAATGCGATTAA
Found at i:862654 original size:45 final size:45
Alignment explanation
Indices: 862605--862699 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
862595 TAATTATATG
* * * *
862605 TCTTTATATTGAAAGAATAAATTTGTTTGATGTTCATTATTTGTT
1 TCTTTAGATTGAAAGAATAAATTTGTGTGATGTACATTATTTATT
* * * *
862650 TCTTTAGATTTAAAGATTATATTTGTGTGTTGTACATTATTTATT
1 TCTTTAGATTGAAAGAATAAATTTGTGTGATGTACATTATTTATT
862695 TCTTT
1 TCTTT
862700 TTATGTTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (45 bp):
TCTTTAGATTGAAAGAATAAATTTGTGTGATGTACATTATTTATT
Found at i:869167 original size:51 final size:51
Alignment explanation
Indices: 869088--869223 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
869078 ATCTATCTAG
869088 GGCATCTTGAAGGCTCACATCAGCATGAAAAAGGCAGAAGTAATCCATGTG-
1 GGCATCTTGAAGGCTCACATCAGCATGAAAAAGG-AGAAGTAATCCATGTGA
* * * *
869139 GGTATCTTAAAGGCTCACATCAACATGAAAAAAAGAGAAGTAATCCATGTGA
1 GGCATCTTGAAGGCTCACATCAGCATG-AAAAAGGAGAAGTAATCCATGTGA
* *
869191 GGCATCTTGAAGGCTCGCACCAGCAT-AAAAAGG
1 GGCATCTTGAAGGCTCACATCAGCATGAAAAAGG
869224 TTGGGATATT
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
50 6 0.08
51 40 0.55
52 27 0.37
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (51 bp):
GGCATCTTGAAGGCTCACATCAGCATGAAAAAGGAGAAGTAATCCATGTGA
Found at i:870462 original size:42 final size:42
Alignment explanation
Indices: 870394--870475 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
870384 CTCAAATTTG
* * *
870394 TAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCT
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
870436 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
1 TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATG
870476 ATAAGTCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (42 bp):
TAAAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGCT
Found at i:870711 original size:42 final size:42
Alignment explanation
Indices: 870643--870724 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
870633 CACAAATTTA
* * *
870643 TAAATCCTTCGGGTCATCTGTTAGTCTTTCAAGCATGATGCT
1 TAAAACCTTCGAGTCATCTGTTAGTCTTTCAAGCAAGATGCT
*
870685 TAAAACCTTCGAGTCATCT-TTCAGTCTTTGAAGCAAGATG
1 TAAAACCTTCGAGTCATCTGTT-AGTCTTTCAAGCAAGATG
870725 ATAAGTCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (42 bp):
TAAAACCTTCGAGTCATCTGTTAGTCTTTCAAGCAAGATGCT
Found at i:870768 original size:249 final size:249
Alignment explanation
Indices: 870308--871333 Score: 1730
Period size: 249 Copynumber: 4.1 Consensus size: 249
870298 CCCAACCAAC
* * * *
870308 AAGTTTCTCATTTAATCTTTTTTAGAAAATGAAATTCTTGAAAAGTAAGAAGTTTCTTACCCAGT
1 AAGTTTCTCATTTAA--TGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGT
* *
870373 AAAGTATTTTCCTCAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTA
64 AAAGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTA
*
870438 AAACCTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGC
129 AAACCTTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGC
*
870503 CTTTGGGTAGGATGTTCACATATGATTTTCACATGAAAATGAGATAGCGATTTTCA
194 CTTTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
*
870559 AAGTTTCTCATTTAATATTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
* *
870624 AGTATTTCCCACAAATTTATAAATCCTTCGGGTCATCTGTTAGTCTTTCAAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
*
870689 ACCTTCGAGTCATCTTTCAGTCTTT-GAAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCC
131 ACCTTCGAGTCATCTGTCAGTCTTTCG-AGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCC
870753 TTTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
195 TTTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
870808 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
*
870873 AGTATTTCCCACAAATTTGTAAATCCTTTGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
* * * * **
870938 TCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATGATAAGTCCTTAAGGCCATTTGTAAAGCCT
131 ACCTTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
*
871003 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTAA
196 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
*
871057 AAGTTTCTCACTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
1 AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
* *
871122 AGTATTTCCCATAAATTTGTAAATCCTTCGGGTCATCTGCTAGTCTTTCGAGCATGATGCTTAAA
66 AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
* *
871187 ACCTCCGAGCCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
131 ACCTTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
* * * * * **
871252 TTGGGTAGGATTTTCACATATGATTTTTGCATGAAAATGAGAAAACGGTTACCA
196 TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
871306 AAGTTTCTCATTTAATGTTCTAGAAAAT
1 AAGTTTCTCATTTAATGTTCTAGAAAAT
871334 TAAAACCTCC
Statistics
Matches: 730, Mismatches: 43, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
248 1 0.00
249 713 0.98
250 1 0.00
251 15 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (249 bp):
AAGTTTCTCATTTAATGTTCTAGAAAATCAAATTCTTGAAAAGTAAGAAGTTTCTTACCTAGTAA
AGTATTTCCCACAAATTTGTAAATCCTTCGGGTCATCTGTTAGTCTTTCGAGCATGATGCTTAAA
ACCTTCGAGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCCTTAGGGCCATCCGTAAAGCCT
TTGGGTAGGATGTTCACATATGATTTTCGCATGAAAATGAGATAGCGATTTTCA
Found at i:870951 original size:42 final size:42
Alignment explanation
Indices: 870892--870973 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
870882 CACAAATTTG
* * * *
870892 TAAATCCTTTGGGTCATCTGTTAGTCTTTCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATGCT
870934 TAAATCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATG
1 TAAATCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATG
870974 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCTATCAGTCTTTCGAGCAAGATGCT
Found at i:871468 original size:48 final size:47
Alignment explanation
Indices: 871355--871544 Score: 292
Period size: 47 Copynumber: 4.0 Consensus size: 47
871345 GGTAATTTGT
* * *
871355 AAAA-CCTTCGGGCCATCCATAAGACCTTTAGTGCAGAATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
* *
871401 AAAAGCCTTCGGGTTATCCATAAGACCTTCAGTGCAGGATGTTTTTCT
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATG-TTTTCA
* * *
871449 AAAAGCATTCGGGTCATCCATAAGGCCTTCAGTGCATGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
871496 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
871543 AA
1 AA
871545 TGAGATTTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
46 4 0.03
47 83 0.64
48 42 0.33
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (47 bp):
AAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
Found at i:871524 original size:95 final size:95
Alignment explanation
Indices: 871361--871540 Score: 308
Period size: 95 Copynumber: 1.9 Consensus size: 95
871351 TTGTAAAACC
* *
871361 TTCGGGCCATCCATAAGACCTTTAGTGCAGAATGTTTTCAAAAAGCCTTCGGGTTATCCATAAGA
1 TTCGGGCCATCCATAAGACCTTCAGTGCAGAATGTTTTCAAAAAGCCTTCGGGTCATCCATAAGA
871426 CCTTCAGTGCAGGATGTTTTTCTAAAAGCA
66 CCTTCAGTGCAGGATGTTTTTCTAAAAGCA
* *
871456 TTCGGGTCATCCATAAGGCCTTCAGTGCATG-ATGTTTTCAAAAAGCCTTCGGGTCATCCATAAG
1 TTCGGGCCATCCATAAGACCTTCAGTGCA-GAATGTTTTCAAAAAGCCTTCGGGTCATCCATAAG
871520 ACCTTCAGTGCAGGATGTTTT
65 ACCTTCAGTGCAGGATGTTTT
871541 CAAATGAGAT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
95 79 0.99
96 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (95 bp):
TTCGGGCCATCCATAAGACCTTCAGTGCAGAATGTTTTCAAAAAGCCTTCGGGTCATCCATAAGA
CCTTCAGTGCAGGATGTTTTTCTAAAAGCA
Found at i:872887 original size:20 final size:21
Alignment explanation
Indices: 872843--872887 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 21
872833 CTATATTTTT
*
872843 ATTTTCTTTTATTTTGATCTC
1 ATTTTCTTTTATTTTGATATC
872864 -TTTTC-TTTATTTT-ATTATC
1 ATTTTCTTTTATTTTGA-TATC
872883 ATTTT
1 ATTTT
872888 AGTCATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.71
Consensus pattern (21 bp):
ATTTTCTTTTATTTTGATATC
Found at i:875287 original size:17 final size:17
Alignment explanation
Indices: 875265--875299 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
875255 AGATGTGTTG
*
875265 GGTTAGAAAACTTTTAA
1 GGTTAGAAAACCTTTAA
875282 GGTTAGAAAACCTTTAA
1 GGTTAGAAAACCTTTAA
875299 G
1 G
875300 TATAGTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (17 bp):
GGTTAGAAAACCTTTAA
Found at i:881583 original size:19 final size:19
Alignment explanation
Indices: 881554--881601 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
881544 TGTTATATGG
* *
881554 CCGGTTTGACCAGTCTGAA
1 CCGGGTTGACCAGCCTGAA
* *
881573 CTGGGTTGACCGGCCTGAA
1 CCGGGTTGACCAGCCTGAA
881592 CCGGGTTGAC
1 CCGGGTTGAC
881602 TGGTTCGAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (19 bp):
CCGGGTTGACCAGCCTGAA
Found at i:881691 original size:29 final size:29
Alignment explanation
Indices: 881654--881849 Score: 195
Period size: 29 Copynumber: 6.8 Consensus size: 29
881644 TTATTGATCG
*
881654 GGTGATATTTTAGTAATTATTTTGAAATT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* *
881683 GGTGGTATTTTGGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * *
881712 GGTGTTATTTTTGTAATT-TTTT-AAAAA
1 GGTGATATTTTAGTAATTATTTTGAAAAT
* * * *
881739 GAGTGATAGTTTCGTAAATT-TTTTAAAAAA
1 G-GTGATATTTTAGT-AATTATTTTGAAAAT
**
881769 AATGATATTTTAGTAATTATTTTGAAAAT
1 GGTGATATTTTAGTAATTATTTTGAAAAT
881798 GGT-AGTATTTTAGTAATTATTTTGAAAAT
1 GGTGA-TATTTTAGTAATTATTTTGAAAAT
* *
881827 GGT-ACTATTTTTGTAATAATTTT
1 GGTGA-TATTTTAGTAATTATTTT
881850 TAAAGGGTGT
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
27 5 0.04
28 19 0.13
29 113 0.80
30 5 0.04
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.49
Consensus pattern (29 bp):
GGTGATATTTTAGTAATTATTTTGAAAAT
Found at i:881867 original size:115 final size:114
Alignment explanation
Indices: 881656--881871 Score: 326
Period size: 115 Copynumber: 1.9 Consensus size: 114
881646 ATTGATCGGG
* * * **
881656 TGATATTTTAGTAATTATTTTGAAATTGGTGGTATTTTGGTAATTATTTTGAAAATGGTGTTATT
1 TGATATTTTAGTAATTATTTTGAAAATGGTAGTATTTTAGTAATTATTTTGAAAATGGTACTATT
*
881721 TTTGTAATTTTTTAAAAAGAGTGATAGTTTCGTAAATTTTTTAAAAAAAA
66 TTTGTAATTTTTT-AAAAGAGTGATAATTTCGTAAATTTTTTAAAAAAAA
881771 TGATATTTTAGTAATTATTTTGAAAATGGTAGTATTTTAGTAATTATTTTGAAAATGGTACTATT
1 TGATATTTTAGTAATTATTTTGAAAATGGTAGTATTTTAGTAATTATTTTGAAAATGGTACTATT
* *
881836 TTTGTAATAATTTTT-AAAGGGTGTTAATTTCGTAAA
66 TTTGTAAT--TTTTTAAAAGAGTGATAATTTCGTAAA
881872 ATGGTTGATC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
115 86 0.95
117 5 0.05
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (114 bp):
TGATATTTTAGTAATTATTTTGAAAATGGTAGTATTTTAGTAATTATTTTGAAAATGGTACTATT
TTTGTAATTTTTTAAAAGAGTGATAATTTCGTAAATTTTTTAAAAAAAA
Found at i:884044 original size:29 final size:29
Alignment explanation
Indices: 884007--884197 Score: 172
Period size: 29 Copynumber: 6.5 Consensus size: 29
883997 TGTTGACCAG
*
884007 GTGATATTTTAGTAATTATTTTGAAATTA
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * *
884036 GTGGTATTTTGGTAATTATTTTGAAAATG
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * * *
884065 GTGTTATTTTTCGTAATT-TTTTAAAAAAGA
1 GTGATA-TTTTAGTAATTATTTT-GAAAATA
* * *
884095 GTAATAATTTT-GTAAATATTTTTTGAAAAAA
1 GTGAT-ATTTTAGT-AAT-TATTTTGAAAATA
* *
884126 ATGATATTTTAGTAATTATTTTGAAAATG
1 GTGATATTTTAGTAATTATTTTGAAAATA
* * *
884155 GTGATATTTTAGTAATTGTTTTTAAAATG
1 GTGATATTTTAGTAATTATTTTGAAAATA
884184 GTGATATTTT-GTAA
1 GTGATATTTTAGTAA
884198 AATGGTTGAT
Statistics
Matches: 134, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.03
29 82 0.61
30 32 0.24
31 12 0.09
32 4 0.03
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.49
Consensus pattern (29 bp):
GTGATATTTTAGTAATTATTTTGAAAATA
Found at i:888134 original size:6 final size:6
Alignment explanation
Indices: 888123--888205 Score: 67
Period size: 6 Copynumber: 13.8 Consensus size: 6
888113 ATGTTGTTTC
** * ** *
888123 CAATTT CAATTT CAATTT TTATTT TAATTT CAATTT TTATTT GAATTT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT CAATTT
* * * * *
888171 GAATTT GAATTT TAATTT GAATTT GAATTT CAATT
1 CAATTT CAATTT CAATTT CAATTT CAATTT CAATT
888206 CGAGCTCCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (6 bp):
CAATTT
Found at i:888140 original size:12 final size:12
Alignment explanation
Indices: 888124--888205 Score: 83
Period size: 12 Copynumber: 6.8 Consensus size: 12
888114 TGTTGTTTCC
*
888124 AATTTCAATTTC
1 AATTTCAATTTT
**
888136 AATTTTTATTTT
1 AATTTCAATTTT
888148 AATTTCAATTTT
1 AATTTCAATTTT
* * *
888160 TATTTGAATTTG
1 AATTTCAATTTT
*
888172 AATTTGAATTTT
1 AATTTCAATTTT
* *
888184 AATTTGAATTTG
1 AATTTCAATTTT
888196 AATTTCAATT
1 AATTTCAATT
888206 CGAGCTCCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (12 bp):
AATTTCAATTTT
Found at i:888151 original size:18 final size:18
Alignment explanation
Indices: 888125--888194 Score: 86
Period size: 18 Copynumber: 3.9 Consensus size: 18
888115 GTTGTTTCCA
*
888125 ATTTCAATTTCAATTTTT
1 ATTTTAATTTCAATTTTT
888143 ATTTTAATTTCAATTTTT
1 ATTTTAATTTCAATTTTT
* * **
888161 ATTTGAATTTGAATTTGA
1 ATTTTAATTTCAATTTTT
*
888179 ATTTTAATTTGAATTT
1 ATTTTAATTTCAATTT
888195 GAATTTCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (18 bp):
ATTTTAATTTCAATTTTT
Found at i:888195 original size:18 final size:18
Alignment explanation
Indices: 888124--888205 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 18
888114 TGTTGTTTCC
*
888124 AATTTCAATTTCAATTTT
1 AATTTCAATTTCAATTTG
* * *
888142 TATTTTAATTTCAATTTT
1 AATTTCAATTTCAATTTG
* * *
888160 TATTTGAATTTGAATTTG
1 AATTTCAATTTCAATTTG
* *
888178 AATTTTAATTTGAATTTG
1 AATTTCAATTTCAATTTG
888196 AATTTCAATT
1 AATTTCAATT
888206 CGAGCTCCAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (18 bp):
AATTTCAATTTCAATTTG
Found at i:890106 original size:198 final size:199
Alignment explanation
Indices: 889639--890172 Score: 716
Period size: 200 Copynumber: 2.7 Consensus size: 199
889629 ACAAAGTTTG
* ** * * *
889639 GATACTTAGAATTTTTAAACATATTACTTTAAAGTAGTACGTAAATTTACAATGTAAACAGTAAA
1 GATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAAA
* * * * *
889704 AATCTACTGATTTAATGATTATAGGCATAAACATAACGTATCGATACTTATTATATAAGTATCAA
66 AATCTACCGATTTAATGATAATAGGCATAAACATAAAGTATCGATACTTATTGTATAGGTATCAA
* *
889769 AACTTTTATTGCAGTATGCATCTCAAACAATTTGCACGCACAAAGTATCGATACATGTATAGCAA
131 TACTTTTATTGCAGTATGCATCTCAAACAATTTACACGCACAAAGTATCGATACATGTATA-CAA
889834 GTATC
195 GTATC
* **
889839 GATACTTATAATTTCAAAACCTATTTCTTTAAAGTAATAGGTAAATTTACAATGTAAATGGTAAA
1 GATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAAA
* * *
889904 AATCTACCGGTTTGATGATAATAGGCGTAAACATAAAGTATCGATACTCT-TTGTATAGGTATCA
66 AATCTACCGATTTAATGATAATAGGCATAAACATAAAGTATCGATACT-TATTGTATAGGTATCA
* ** * * * *
889968 ATACTTTTATTTCAGTATGTTTTTCAAATAATTTACATGCA-AAAGGTATCGATACATGTAT-TA
130 ATACTTTTATTGCAGTATGCATCTCAAACAATTTACACGCACAAA-GTATCGATACATGTATACA
890031 AGTATC
194 AGTATC
*
890037 GATACTGT-TAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACATTAA
1 GATACT-TATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAA
* * * * *
890101 AAATCTATCGATTTAATGGTAATAGGCCTAAACATAAAGTATCGATACTTGTTGTACAGGTATCA
65 AAATCTACCGATTTAATGATAATAGGCATAAACATAAAGTATCGATACTTATTGTATAGGTATCA
890166 ATACTTT
130 ATACTTT
890173 CGATCTAAAA
Statistics
Matches: 294, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
197 1 0.00
198 129 0.44
199 4 0.01
200 159 0.54
201 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (199 bp):
GATACTTATAATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAAACAGTAAA
AATCTACCGATTTAATGATAATAGGCATAAACATAAAGTATCGATACTTATTGTATAGGTATCAA
TACTTTTATTGCAGTATGCATCTCAAACAATTTACACGCACAAAGTATCGATACATGTATACAAG
TATC
Found at i:890651 original size:15 final size:15
Alignment explanation
Indices: 890613--890643 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
890603 TATGAGATGC
890613 AAATCTTCTCAACCA
1 AAATCTTCTCAACCA
*
890628 AAACCTTCTCAACCA
1 AAATCTTCTCAACCA
890643 A
1 A
890644 GGTCTTCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATCTTCTCAACCA
Found at i:890982 original size:2 final size:2
Alignment explanation
Indices: 890975--891040 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
890965 TTGGGGAAGG
*
890975 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
891017 AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
891041 CAAATCGATT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:892566 original size:15 final size:15
Alignment explanation
Indices: 892546--892575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
892536 AGACTATTAG
892546 AACATTGTTATGTAT
1 AACATTGTTATGTAT
*
892561 AACATTGTTTTGTAT
1 AACATTGTTATGTAT
892576 GTTTGGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (15 bp):
AACATTGTTATGTAT
Found at i:894481 original size:19 final size:21
Alignment explanation
Indices: 894442--894481 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
894432 TACACGTACA
894442 AAGTATCGATACATGTATAAT
1 AAGTATCGATACATGTATAAT
894463 AAGTATCGATAC-T-TATAAT
1 AAGTATCGATACATGTATAAT
894482 TTTGAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (21 bp):
AAGTATCGATACATGTATAAT
Found at i:894967 original size:376 final size:376
Alignment explanation
Indices: 894280--894980 Score: 861
Period size: 376 Copynumber: 1.9 Consensus size: 376
894270 CGATACTTAG
*
894280 AATTTTGAAACGTATTACTTTAAATGAATACGTAAATTTACAATGTAAACAATAAAATCTACCGG
1 AATTTCGAAACGTATTACTTTAAATGAATACGTAAATTTACAATGTAAACAATAAAATCTACCGG
* * *
894345 TTTATTGAAAATAGGCATAAACATAACGTATCAATACTTATTATATAAATATCGAAATTTTTATT
66 TTTAATGAAAATAGGCATAAACATAACGTATCAATACTTATTATATAAATATCGAAACTTTTAGT
*
894410 CCAGTATGCATCTCAAACAATTTACACGTACAAAGTATCGATACATGTATAATAAGTATCGATAC
131 CCAGTATGCATCTCAAACAATTTACACGCACAAAGTATCGATACATGTATAATAAGTATCGATAC
* * * *
894475 TTATAATTTTGAAACCTATTTCTTCAAAGTAATAGATAAATTTACAATGTAAACGATAAAAATCT
196 GTAGAATTTTGAAACATATTCCTTCAAAGTAATAGATAAATTTACAATGTAAACGATAAAAATCT
* * * * *
894540 ACTGGTTTAATGATAATAGGCGTAAACATAAAATATCGATACTTTTTTATAGGCATCGATACTTT
261 ACTGGTATAATAATAATAGACATAAACATAAAATATCAATACTTTTTTATAGGCATCGATACTTT
894605 TTGCCCAATATGATTCTCAACAATTTGCATGCACAAAGTATCGATACATGA
326 TTGCCCAATATGATTCTCAACAATTTGCATGCACAAAGTATCGATACATGA
* * ** *
894656 AATTTCGAAACCG-ATTACTTTAAA-GTTATAGGTAAATTTACAATGTAAACGGTAAAAGTCTAT
1 AATTTCGAAA-CGTATTACTTTAAATG-AATACGTAAATTTACAATGTAAACAATAAAA-TCTAC
* * * * ** *
894719 TGGTTTAATGATAATAGGCGTAAACATCAA-GTATCAATACCTT-TTGTATAGGTATCGATACTT
63 CGGTTTAATGAAAATAGGCATAAACAT-AACGTATCAATA-CTTATTATATAAATATCGAAACTT
* * *
894782 TTAGTCCAGTATGCTTCTC-AACAATTTGCACGCACAATGTATCGATACGCATGTAT-A-AAGTA
126 TTAGTCCAGTATGCATCTCAAACAATTTACACGCACAAAGTATCGATA--CATGTATAATAAGTA
* * * *
894844 TCGATACGTGGAATTTTGAAACATATTACCTT-AAAGTTATAGGTAAATTTTCAATGTAAACTG-
189 TCGATACGTAGAATTTTGAAACATATT-CCTTCAAAGTAATAGATAAATTTACAATGTAAAC-GA
* * *
894907 TAAAATTCTACAT-GTATATTAATAATAGACAT-AA-ATACAAGTATCAATA-TTGTCTTTATAG
252 TAAAAATCTAC-TGGTATAATAATAATAGACATAAACATA-AAATATCAATACTT-T-TTTATAG
*
894968 GTATCGATACTTT
313 GCATCGATACTTT
894981 CATACATGTA
Statistics
Matches: 275, Mismatches: 37, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
374 5 0.02
375 13 0.05
376 169 0.61
377 76 0.28
378 12 0.04
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (376 bp):
AATTTCGAAACGTATTACTTTAAATGAATACGTAAATTTACAATGTAAACAATAAAATCTACCGG
TTTAATGAAAATAGGCATAAACATAACGTATCAATACTTATTATATAAATATCGAAACTTTTAGT
CCAGTATGCATCTCAAACAATTTACACGCACAAAGTATCGATACATGTATAATAAGTATCGATAC
GTAGAATTTTGAAACATATTCCTTCAAAGTAATAGATAAATTTACAATGTAAACGATAAAAATCT
ACTGGTATAATAATAATAGACATAAACATAAAATATCAATACTTTTTTATAGGCATCGATACTTT
TTGCCCAATATGATTCTCAACAATTTGCATGCACAAAGTATCGATACATGA
Found at i:895555 original size:197 final size:198
Alignment explanation
Indices: 895134--895567 Score: 495
Period size: 197 Copynumber: 2.2 Consensus size: 198
895124 AATAAATGAA
* * *
895134 AAAAAAGGAAAATGTTTCGAAAGTATCGATACCTTACACACATGTATCGATACATGACAATATAA
1 AAAAAA-GAAAACGTCTCGAAAGTATCGATACCTTACACACATGTATCGATACAAGACAATATAA
* * * * **
895199 TAGGTTGAAGTTTGACAAAACAAGTTTCAATTTGACAAAACCGGTAAAGAGATGTCAGAATGGTT
65 CAGGTTGAAATTTGACAAAACAAGTTTCAATATGACAAAACCGATAAAGAGATACCAGAATGGTT
* * *
895264 GATATTTGTATCGATACTTTAATAAGTATATGCACCAAAGTATCGATACTTTAGAAATTTAAAAG
130 GA-ATTGGTATCGATACTATAATAAGTATATGCACCAAAGTATCGATACTTTAGAAATTAAAAAG
*
895329 AATTG
194 AAATG
* * * ** ** * ** *
895334 CAATAATAGCAC--CTATAGAGTATCGATATTTTAGACACATGTATCGATACAAGACAATATAAC
1 AAAAAAGAAAACGTCTCGAAAGTATCGATACCTTACACACATGTATCGATACAAGACAATATAAC
* *
895397 AGGTTGAAATTTGACAAAACCAGTTTCAATATGACAAAACCGATAAA-ACGCTACCAGATAT-GT
66 AGGTTGAAATTTGACAAAACAAGTTTCAATATGACAAAACCGATAAAGA-GATACCAGA-ATGGT
* * * *
895460 TG-A-TGGTATCGATACTGAT-ATAAGTATATGTATCATAGTATCGATACTTTAGTAATTAAAAA
129 TGAATTGGTATCGATACT-ATAATAAGTATATGCACCAAAGTATCGATACTTTAGAAATTAAAAA
895522 GAAATG
193 GAAATG
895528 AAAAAACGAAAACGTCTCGAAAGTATCGATACCTTACACA
1 AAAAAA-GAAAACGTCTCGAAAGTATCGATACCTTACACA
895568 AAAGTATCAA
Statistics
Matches: 187, Mismatches: 41, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
194 59 0.32
195 5 0.03
196 1 0.01
197 114 0.61
198 2 0.01
199 2 0.01
200 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (198 bp):
AAAAAAGAAAACGTCTCGAAAGTATCGATACCTTACACACATGTATCGATACAAGACAATATAAC
AGGTTGAAATTTGACAAAACAAGTTTCAATATGACAAAACCGATAAAGAGATACCAGAATGGTTG
AATTGGTATCGATACTATAATAAGTATATGCACCAAAGTATCGATACTTTAGAAATTAAAAAGAA
ATG
Found at i:897441 original size:22 final size:22
Alignment explanation
Indices: 897416--897467 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
897406 TTACAATGTA
897416 AATGGTAAAAGTATACCGGTAT
1 AATGGTAAAAGTATACCGGTAT
897438 AATGGTAAAAGTATACCGGTAT
1 AATGGTAAAAGTATACCGGTAT
897460 AATGGTAA
1 AATGGTAA
897468 TAGAATAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (22 bp):
AATGGTAAAAGTATACCGGTAT
Found at i:898119 original size:130 final size:130
Alignment explanation
Indices: 897978--898284 Score: 578
Period size: 130 Copynumber: 2.4 Consensus size: 130
897968 CGATACATGG
*
897978 AATTTCAAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACTCGGTAAACTTTTCCAC
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACTCGGTAAACTTTTCCAC
* *
898043 CTGTATGATGAAAATAGGCGTAAATGTACAAGTATCAATACTGTCATATAAGTATCAATTCTTAT
66 CCGTATGATGAAAATAGGCGTAAATGTACAAGTATCAATACTGTCATATAAGTATCAATTATTAT
*
898108 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACTCGGTAAACTTTTCTAC
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACTCGGTAAACTTTTCCAC
898173 CCGTATGATGAAAATAGGCGTAAATGTACAAGTATCAATACTGTCATATAAGTATCAATTATTAT
66 CCGTATGATGAAAATAGGCGTAAATGTACAAGTATCAATACTGTCATATAAGTATCAATTATTAT
898238 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTA
1 AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTA
898285 TTAACAATGT
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 173 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (130 bp):
AATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTAACAATGTACTCGGTAAACTTTTCCAC
CCGTATGATGAAAATAGGCGTAAATGTACAAGTATCAATACTGTCATATAAGTATCAATTATTAT
Found at i:898695 original size:226 final size:226
Alignment explanation
Indices: 898301--898787 Score: 701
Period size: 226 Copynumber: 2.2 Consensus size: 226
898291 ATGTACACGG
* * * *
898301 TAATATGTTGACAATACTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATAATGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCAGATTTATA
*
898366 AGGCCTCATCAGCTTTAAACAGACGCTACCTATTACATTAAATAAGAGCTACTTGTTATGTTATT
66 AGGCCTCATCAACTTTAAACAGACGCTACCTATTACATTAAATAAGAGCTACTTGTTATGTTATT
* * * * *
898431 ATGGTTGATAATGTGTCCAATAATTAACCTATTTTGTTATCATAGTATTTTTAAGGCTCCGTTAG
131 ATGGTTGATAATGTGTCCAATAATTAACCTATTTTGTTATCATAGGATTTCTAAGACTCCATCAG
*
898496 CTTAAACTTTGCTAACATTTTAGGCATTACC
196 CTTAAACTTTGCTAACATTTTAGGCAATACC
* * * *
898527 TAATATGTTGATAATAATAATAACAAATTAAGTAATTAACCTATTTTTTTATAGTCGGATTTATA
1 TAATATGTTGATAATAATGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCAGATTTATA
898592 AGG-CTCCATCAACTTTAAACAGACGCTACCTATTACATT-AATAA-AGCCATACTTGTTATGTT
66 AGGCCT-CATCAACTTTAAACAGACGCTACCTATTACATTAAATAAGAG-C-TACTTGTTATGTT
* * * * * *
898654 ATTATGGTTGATGATGTTTCCAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTCTAT
128 ATTATGGTTGATAATGTGTCCAATAATTAACCTATTTTGTTATCATAGGATTTCTAAGACTCCAT
* **
898719 CAGCTTAAACTTTGGTAATGTTTTAGGCAATACC
193 CAGCTTAAACTTTGCTAACATTTTAGGCAATACC
*
898753 TAATATGTTGATAATATTGATAACAAATCAAGTAA
1 TAATATGTTGATAATAATGATAACAAATCAAGTAA
898788 ATTGTAATAC
Statistics
Matches: 231, Mismatches: 27, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
224 2 0.01
225 8 0.03
226 221 0.96
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (226 bp):
TAATATGTTGATAATAATGATAACAAATCAAGTAATTAACCTATTTTGTTATAGTCAGATTTATA
AGGCCTCATCAACTTTAAACAGACGCTACCTATTACATTAAATAAGAGCTACTTGTTATGTTATT
ATGGTTGATAATGTGTCCAATAATTAACCTATTTTGTTATCATAGGATTTCTAAGACTCCATCAG
CTTAAACTTTGCTAACATTTTAGGCAATACC
Found at i:917760 original size:16 final size:16
Alignment explanation
Indices: 917741--917773 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
917731 TAATTTAAAG
917741 TTTTTAATTT-TTAAT
1 TTTTTAATTTCTTAAT
*
917756 TTTTTATTTTCTTAAT
1 TTTTTAATTTCTTAAT
917772 TT
1 TT
917774 AATTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTAATTTCTTAAT
Found at i:921144 original size:5 final size:6
Alignment explanation
Indices: 921118--921151 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
921108 GCACACATGT
*
921118 AAATAA AAATAA GAATAGA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATA-A AAATAA AAATAA AAA
921152 GAAGATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:922024 original size:48 final size:49
Alignment explanation
Indices: 921930--922079 Score: 178
Period size: 49 Copynumber: 3.1 Consensus size: 49
921920 CCATTACTTC
* * * * * * *
921930 GTGAGGGTCAAATCTAGAAAAGTGATTCAATTTTCTT-TTGCATCTCTTT
1 GTGAAGGTCAAATCTAGAAAAATGGTTCGATTTGCTTCCT-CGTCTCTTT
* *
921979 GTGAAGGTCAAATCT-GAAAAATGGTTTGATTTGCTTCCTTGTCTCTTT
1 GTGAAGGTCAAATCTAGAAAAATGGTTCGATTTGCTTCCTCGTCTCTTT
* *
922027 GTAAAGGTCAAATCTAGAAAAATGGTTCGATTTGCTTCCTCGTCTCTTC
1 GTGAAGGTCAAATCTAGAAAAATGGTTCGATTTGCTTCCTCGTCTCTTT
922076 GTGA
1 GTGA
922080 GGATTAAATT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
48 37 0.44
49 48 0.56
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (49 bp):
GTGAAGGTCAAATCTAGAAAAATGGTTCGATTTGCTTCCTCGTCTCTTT
Found at i:926230 original size:2 final size:2
Alignment explanation
Indices: 926162--926219 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
926152 TTACATAAAC
926162 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
926204 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
926220 CATTCATATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:926464 original size:17 final size:17
Alignment explanation
Indices: 926442--926484 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
926432 TTATGATTCC
926442 TTTATTATACAATTTCT
1 TTTATTATACAATTTCT
**
926459 TTTATTATATTATTTCT
1 TTTATTATACAATTTCT
*
926476 TTTACTATA
1 TTTATTATA
926485 TTGTATCTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATTATACAATTTCT
Found at i:926485 original size:17 final size:17
Alignment explanation
Indices: 926456--926515 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
926446 TTATACAATT
* *
926456 TCTTTTATTATATTATT
1 TCTTTTACTATATTATA
*
926473 TCTTTTACTATATTGTA
1 TCTTTTACTATATTATA
* *
926490 TCTTTTACTGTTTTATA
1 TCTTTTACTATATTATA
926507 TCTTTTACT
1 TCTTTTACT
926516 TTTGTTTTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.20, C:0.12, G:0.03, T:0.65
Consensus pattern (17 bp):
TCTTTTACTATATTATA
Found at i:927770 original size:30 final size:30
Alignment explanation
Indices: 927736--927801 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
927726 ACCATTATAT
927736 TATTTACTGCTCAAGTACTTTGATTATTCA
1 TATTTACTGCTCAAGTACTTTGATTATTCA
927766 TATTTACTGCTCAAGTACTTTGATTATTCA
1 TATTTACTGCTCAAGTACTTTGATTATTCA
927796 TATTTA
1 TATTTA
927802 TTTTTTAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (30 bp):
TATTTACTGCTCAAGTACTTTGATTATTCA
Found at i:928263 original size:89 final size:89
Alignment explanation
Indices: 928168--928348 Score: 335
Period size: 89 Copynumber: 2.0 Consensus size: 89
928158 TTACACTTTA
*
928168 ATCCTCATATTTTACAAAGTATATGAATTAGTTCTATTATTTTTATAATTTTAATATTTAATCCC
1 ATCCTCATATTTTACAAAGTATACGAATTAGTTCTATTATTTTTATAATTTTAATATTTAATCCC
* *
928233 AATAAATAACCTAGTGTCAAATTC
66 AATAAATAACCTAATGTCAAAATC
928257 ATCCTCATATTTTACAAAGTATACGAATTAGTTCTATTATTTTTATAATTTTAATATTTAATCCC
1 ATCCTCATATTTTACAAAGTATACGAATTAGTTCTATTATTTTTATAATTTTAATATTTAATCCC
928322 AATAAATAACCTAATGTCAAAATC
66 AATAAATAACCTAATGTCAAAATC
928346 ATC
1 ATC
928349 ATTCCAACAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (89 bp):
ATCCTCATATTTTACAAAGTATACGAATTAGTTCTATTATTTTTATAATTTTAATATTTAATCCC
AATAAATAACCTAATGTCAAAATC
Found at i:929671 original size:47 final size:47
Alignment explanation
Indices: 929601--929698 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 47
929591 AATATATGCT
929601 TTGAAGAATGCAAAAATACATGATGAATGCATGACGATTTCAAGGTA
1 TTGAAGAATGCAAAAATACATGATGAATGCATGACGATTTCAAGGTA
*
929648 TTGAAGAATGCAAAAATGA-ATGATGAATGCATGAGGATTTCAAGGTA
1 TTGAAGAATGCAAAAAT-ACATGATGAATGCATGACGATTTCAAGGTA
929695 TTGA
1 TTGA
929699 TCTAAGAAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 48 0.98
48 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (47 bp):
TTGAAGAATGCAAAAATACATGATGAATGCATGACGATTTCAAGGTA
Found at i:930161 original size:74 final size:74
Alignment explanation
Indices: 930011--930191 Score: 222
Period size: 74 Copynumber: 2.4 Consensus size: 74
930001 AATAGGGAGA
* * * *
930011 TACCGATACCCCTCATAGGGTGTACCGATACCCTTATGAAAATTTTGGTTCTGAGAAAAATAAAT
1 TACCGATACCCCTCATA-GG-GTACCGATACCCCTATGAAAATCTTGGCTCCGAGAAAAATAAAT
930076 TACCCAATGGG
64 TACCCAATGGG
* * *
930087 TACCGATACCCCTCATAGGGTACTGATACCCCTATGCAAATCTTGGCTCCGAGAAAAACTGAA-T
1 TACCGATACCCCTCATAGGGTACCGATACCCCTATGAAAATCTTGGCTCCGAGAAAAA-TAAATT
* *
930151 GCCCTATGGG
65 ACCCAATGGG
*
930161 TACCGATA-CCCTAATAGAGGTACCGATACCC
1 TACCGATACCCCTCATAG-GGTACCGATACCC
930192 TTAGCCATTT
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
73 8 0.09
74 62 0.67
75 5 0.05
76 17 0.18
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (74 bp):
TACCGATACCCCTCATAGGGTACCGATACCCCTATGAAAATCTTGGCTCCGAGAAAAATAAATTA
CCCAATGGG
Found at i:934354 original size:19 final size:20
Alignment explanation
Indices: 934328--934403 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
934318 GAATGCTTGA
934328 ATGGTATCGATACCCCCCAT
1 ATGGTATCGATACCCCCCAT
934348 A-GGTATCGATA-CCCCCAT
1 ATGGTATCGATACCCCCCAT
* * *
934366 GCAATGGTATTGATACCCCTCAG
1 ---ATGGTATCGATACCCCCCAT
934389 ATGGTATCGATACCC
1 ATGGTATCGATACCC
934404 TAAGGCATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
18 7 0.15
19 10 0.21
20 15 0.32
21 1 0.02
22 9 0.19
23 5 0.11
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (20 bp):
ATGGTATCGATACCCCCCAT
Found at i:940180 original size:21 final size:22
Alignment explanation
Indices: 940151--940274 Score: 80
Period size: 21 Copynumber: 5.7 Consensus size: 22
940141 ATTTTTGTGC
940151 ATAGAGTATCGATACCCCTTAGA
1 ATAG-GTATCGATACCCCTTAGA
* * *
940174 CT-GGTATCAATACCCCCTTTGA
1 ATAGGTATCGATA-CCCCTTAGA
* *
940196 ATAGGTATCGATACCTCTT-CA
1 ATAGGTATCGATACCCCTTAGA
* *
940217 ATAGGTAACAATACCATCCTT-GA
1 ATAGGTATCGATACC--CCTTAGA
* *
940240 TTAAGTATCGATACCCCTT-G-
1 ATAGGTATCGATACCCCTTAGA
*
940260 AT-GGTACCGATACCC
1 ATAGGTATCGATACCC
940275 TCCACGGGGT
Statistics
Matches: 79, Mismatches: 18, Indels: 12
0.72 0.17 0.11
Matches are distributed among these distances:
19 11 0.14
20 1 0.01
21 27 0.34
22 15 0.19
23 25 0.32
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (22 bp):
ATAGGTATCGATACCCCTTAGA
Found at i:940209 original size:23 final size:23
Alignment explanation
Indices: 940151--940210 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
940141 ATTTTTGTGC
940151 ATAGAGTATCGATA-CCCCTTAGA
1 ATAG-GTATCGATACCCCCTTAGA
* * *
940174 CT-GGTATCAATACCCCCTTTGA
1 ATAGGTATCGATACCCCCTTAGA
940196 ATAGGTATCGATACC
1 ATAGGTATCGATACC
940211 TCTTCAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 8 0.27
22 10 0.33
23 12 0.40
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (23 bp):
ATAGGTATCGATACCCCCTTAGA
Found at i:940229 original size:44 final size:44
Alignment explanation
Indices: 940151--940265 Score: 114
Period size: 44 Copynumber: 2.6 Consensus size: 44
940141 ATTTTTGTGC
*
940151 ATAGAGTATCGATACCCCTTAGACTGGTATCAATACC-CCCTTTGA
1 ATAG-GTATCGATACCCCTTAGACTGGTAACAATACCACCC-TTGA
* *
940196 ATAGGTATCGATACCTCTTCA-A-TAGGTAACAATACCATCCTTGA
1 ATAGGTATCGATACCCCTT-AGACT-GGTAACAATACCACCCTTGA
* *
940240 TTAAGTATCGATACCCCTT-GA-TGGTA
1 ATAGGTATCGATACCCCTTAGACTGGTA
940266 CCGATACCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
42 4 0.07
43 3 0.05
44 46 0.77
45 7 0.12
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (44 bp):
ATAGGTATCGATACCCCTTAGACTGGTAACAATACCACCCTTGA
Found at i:941466 original size:20 final size:20
Alignment explanation
Indices: 941441--941479 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
941431 AGATCATCAC
*
941441 GATCGATTTTTTCATCTTAT
1 GATCGATTTCTTCATCTTAT
941461 GATCGATTTCTTCATCTTA
1 GATCGATTTCTTCATCTTA
941480 GATTTGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.10, T:0.51
Consensus pattern (20 bp):
GATCGATTTCTTCATCTTAT
Found at i:944152 original size:23 final size:22
Alignment explanation
Indices: 944103--944179 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 22
944093 TGTGCACCAG
944103 GTATCGATA-CCCCTTCAAAGT
1 GTATCGATACCCCCTTCAAAGT
* *
944124 GTATCGATACCCCCTTTGAATGT
1 GTATCGATACCCCC-TTCAAAGT
*
944147 GTATCGATACCCCCAT-AAAG-
1 GTATCGATACCCCCTTCAAAGT
944167 GTATCGATACCCC
1 GTATCGATACCCC
944180 GACGGGTTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
20 13 0.26
21 12 0.24
22 5 0.10
23 20 0.40
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (22 bp):
GTATCGATACCCCCTTCAAAGT
Found at i:944661 original size:13 final size:13
Alignment explanation
Indices: 944635--944677 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
944625 GAAACTACAT
*
944635 ATTGATTTTCAAAC
1 ATTG-TTTTTAAAC
944649 ATTGTTTTTAAAC
1 ATTGTTTTTAAAC
*
944662 ATAGTTTTTAAA-
1 ATTGTTTTTAAAC
944674 ATTG
1 ATTG
944678 CCCATTAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 3 0.12
13 19 0.73
14 4 0.15
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (13 bp):
ATTGTTTTTAAAC
Found at i:946119 original size:27 final size:27
Alignment explanation
Indices: 946088--946155 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
946078 ATTGTTTTAT
*
946088 TTTGGATGTTTGAATTTGTTATGGATA
1 TTTGGATGTTTGAATTTGTTATAGATA
946115 TTTGGATGTTTGAATTTGTTATAGATA
1 TTTGGATGTTTGAATTTGTTATAGATA
946142 TTTGGATGTTTGAA
1 TTTGGATGTTTGAA
946156 CTTGAATGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (27 bp):
TTTGGATGTTTGAATTTGTTATAGATA
Found at i:946859 original size:53 final size:54
Alignment explanation
Indices: 946793--946914 Score: 174
Period size: 53 Copynumber: 2.3 Consensus size: 54
946783 CTCATAGGGT
* * * * *
946793 GTACCGATACCCCTATGCAAATTTTGGTTCTGAGAAAAACAGATTG-TCAATGG
1 GTACCGATACCCCTATGCAAATCTTGGCTCCGAGAAAAACAGAATGCCCAATGG
* *
946846 GTACTGATACCCCTATGCAAATCTTGGCTCCGAGAAAAACAGAATGCCCTATGG
1 GTACCGATACCCCTATGCAAATCTTGGCTCCGAGAAAAACAGAATGCCCAATGG
946900 GTACCGATACCCCTA
1 GTACCGATACCCCTA
946915 GCCATTTAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 41 0.68
54 19 0.32
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (54 bp):
GTACCGATACCCCTATGCAAATCTTGGCTCCGAGAAAAACAGAATGCCCAATGG
Found at i:949393 original size:2 final size:2
Alignment explanation
Indices: 949382--949422 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
949372 AAATAAAGCT
949382 TA TA -A 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 TA
949423 ATGACTGCGT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:953049 original size:12 final size:12
Alignment explanation
Indices: 953020--953057 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
953010 AATTATTAAC
953020 ATATTTAA-AAT
1 ATATTTAATAAT
*
953031 ATATTTATTAAT
1 ATATTTAATAAT
*
953043 ATTTTTAATAAT
1 ATATTTAATAAT
953055 ATA
1 ATA
953058 ATATAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:953049 original size:23 final size:23
Alignment explanation
Indices: 953001--953059 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
952991 ATCATTTTAA
953001 TAAAATATTAATTATTAACATATT
1 TAAAATA-TAATTATTAACATATT
* * *
953025 TAAAATATATTTATTAATATTTT
1 TAAAATATAATTATTAACATATT
953048 TAATAATATAAT
1 TAA-AATATAAT
953060 ATAATATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.53
24 14 0.47
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAATATAATTATTAACATATT
Found at i:953513 original size:22 final size:20
Alignment explanation
Indices: 953461--953514 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
953451 ATTATTCTAA
*
953461 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
953481 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
953504 TATTTATTATA
1 TATTT-TTATA
953515 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:961381 original size:13 final size:14
Alignment explanation
Indices: 961352--961384 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
961342 TTACTGGCCA
*
961352 TATTTTATATTACT
1 TATTTTATATGACT
961366 TATTTTAT-TGACT
1 TATTTTATATGACT
961379 TATTTT
1 TATTTT
961385 TTCTTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTATATGACT
Found at i:964036 original size:64 final size:63
Alignment explanation
Indices: 963964--964143 Score: 200
Period size: 64 Copynumber: 2.8 Consensus size: 63
963954 TGGAACACTT
* * * *
963964 AGTGCATCGGTGCACGAAGCGTGCATTGATGCATAAAATGCATTCGATGTTTTGA-AAAAGCCCA
1 AGTGCATCGATGCA-GAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAA-CCCA
** * *
964028 AGTGCATCGATGCATGGTGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAACCCG
1 AGTGCATCGATGCA-GAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCA-TAAAACCCA
* * * *
964093 AGTGCATCGATGCATAGAGAGTGCATCGGTGCATCAATTGCATTCGATGTT
1 AGTGCATCGATGCAGA-AGAGTGCATCGATGCATAAAATGCATTCGATGTT
964144 CAATTTATTC
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
64 48 0.49
65 46 0.47
66 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (63 bp):
AGTGCATCGATGCAGAAGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCCA
Found at i:964126 original size:65 final size:64
Alignment explanation
Indices: 963984--964143 Score: 214
Period size: 65 Copynumber: 2.5 Consensus size: 64
963974 TGCACGAAGC
* * * * *
963984 GTGCATTGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCCAAGTGCATCGATGCATGGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCGATGCATAGAGA
*
964048 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAA-CCCGAGTGCATCGATGCATAGAG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA--AAAAGCCCAAGTGCATCGATGCATAGAG
964112 A
64 A
* * *
964113 GTGCATCGGTGCATCAATTGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
964144 CAATTTATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 33 0.39
65 48 0.56
66 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCGATGCATAGAGA
Found at i:964179 original size:20 final size:20
Alignment explanation
Indices: 964154--964191 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
964144 CAATTTATTC
*
964154 ATTGGTGCATTGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
964174 ATTGGTTCATCGATGCAT
1 ATTGGTGCATCGATGCAT
964192 CCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.29, T:0.37
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:964511 original size:12 final size:12
Alignment explanation
Indices: 964489--964521 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
964479 TAAGATTTTC
964489 TTTGAAAATAAAT
1 TTTG-AAATAAAT
964502 TTTGAAATAAAT
1 TTTGAAATAAAT
964514 TTTGAAAT
1 TTTGAAAT
964522 TACTCCCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (12 bp):
TTTGAAATAAAT
Found at i:972213 original size:65 final size:64
Alignment explanation
Indices: 972062--972221 Score: 205
Period size: 65 Copynumber: 2.5 Consensus size: 64
972052 TGCACTAATC
* * * * *
972062 GTGCATCGATGCATAAAATGCATTCAATGTTTTGAAAAAGCCCAAGTGCATCAATGCATGGTGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCAATGCATAGAGA
* *
972126 GTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAA-CCCGAGTGCATCGATGCATAGAG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA--AAAAGCCCAAGTGCATCAATGCATAGAG
972190 A
64 A
* * *
972191 GTGCATCGGTGCATTAATTGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
972222 CAATTTATTC
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 33 0.39
65 47 0.56
66 4 0.05
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAAAGCCCAAGTGCATCAATGCATAGAGA
Found at i:974986 original size:17 final size:17
Alignment explanation
Indices: 974964--975012 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
974954 AGGCTTTTTA
974964 TCTCTTCATCTCATTCT
1 TCTCTTCATCTCATTCT
*
974981 TCTCTTCATTTC-TTCT
1 TCTCTTCATCTCATTCT
974997 T-TCCTTCATTCTCATT
1 TCT-CTTCA-TCTCATT
975013 TCCATTCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 10 0.37
17 14 0.52
18 2 0.07
ACGTcount: A:0.10, C:0.33, G:0.00, T:0.57
Consensus pattern (17 bp):
TCTCTTCATCTCATTCT
Found at i:977290 original size:49 final size:48
Alignment explanation
Indices: 977231--977337 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 48
977221 AACAAAATAA
*
977231 TCATTTCATATACCTTTTC-ATTCA-A-ACATATTTTAGAACTTTCATATT
1 TCATTTCATAT-CCTTTTCTATTCATATAC-T-TTTTAGAAATTTCATATT
* *
977279 TCATTATCATATTCTTTTCTTTTCATATACTTTTTAGAAATTTCATATT
1 TCATT-TCATATCCTTTTCTATTCATATACTTTTTAGAAATTTCATATT
977328 T-ATTTTCATA
1 TCA-TTTCATA
977338 GCCCAATGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
48 17 0.33
49 30 0.59
50 2 0.04
51 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (48 bp):
TCATTTCATATCCTTTTCTATTCATATACTTTTTAGAAATTTCATATT
Found at i:981392 original size:225 final size:226
Alignment explanation
Indices: 980961--981541 Score: 585
Period size: 225 Copynumber: 2.6 Consensus size: 226
980951 ATCATTTCAC
* * * * * * *
980961 TTGGCTTAACTCAGCA-ATGAGGAGCCACCTTCTATTTAAAATATTTTTGAAGTCAACTTCAACT
1 TTGGCTTAACTCAG-AGATGAGGAACCAACTTCCA-GTCAAATCTTTTTGAAGTCAATTTCAACT
* ** * * * * * * * * *
981025 CCACGACAGAATATATTGGGTTCAAAAACCAATTCAGAATCGATTG-TAGCCAGCTGAATTCAGC
64 CCACGACGGAGGATATTGGGTTCGAAAGCCAACTCAGAATCGACTGCAATCTAGCTTAACTCAGC
* * * * *
981089 GGCGAGGAGCTAGTTTCCAGTTGAAGTTTTCAGACCAAGTTTCAACTTCACGAAAAAAGGATACT
129 GGCAAGGAGCTAGTTACCAGTTAAAGTTTTCAGACCAAGATTCAACTTCACGAAAAAAGGATACA
* * * * *
981154 TGACGCGAAAGCACATCAATAATCGAC-ATCATT
194 TAAAGCAAAAGCACATCAAGAACCGACTA-CATT
* * *
981187 TTGGCTTAACTTAGAGATGAGGAACGAACTTCCAGTCAAATCTTTTTGAAGTTAATTTCAACTCC
1 TTGGCTTAACTCAGAGATGAGGAACCAACTTCCAGTCAAATCTTTTTGAAGTCAATTTCAACTCC
* * *
981252 ACAACGGAGGATTTTGGGTTCGAAAGCCAACTCAGAATCGACTGCAATCTAGCTTAACTCAGTGG
66 ACGACGGAGGATATTGGGTTCGAAAGCCAACTCAGAATCGACTGCAATCTAGCTTAACTCAGCGG
* * * * * * *
981317 TAAGGAGCTAGTTACTAGTTAAAGTTTTCAGGCTAGGATTGAACTTCACG-ACAAAGGATACATA
131 CAAGGAGCTAGTTACCAGTTAAAGTTTTCAGACCAAGATTCAACTTCACGAAAAAAGGATACATA
*
981381 AATCAAAAGCACATCAAGAACCGACTACATT
196 AAGCAAAAGCACATCAAGAACCGACTACATT
** * * * * * * *
981412 TTGTTTTAACTCAGCGATGAGGAGCCACCTTCTAGTCAAATCTTATCGAAGTCAATTTCAAGTCC
1 TTGGCTTAACTCAGAGATGAGGAACCAACTTCCAGTCAAATCTTTTTGAAGTCAATTTCAACTCC
* * * * * *
981477 ACGATGAAGGATATTGTGTTCGAAAGCCAACACATAATCGACTACAATCTAGCTTAACTCAGCGG
66 ACGACGGAGGATATTGGGTTCGAAAGCCAACTCAGAATCGACTGCAATCTAGCTTAACTCAGCGG
981542 TGGTTTCAAC
Statistics
Matches: 288, Mismatches: 64, Indels: 7
0.80 0.18 0.02
Matches are distributed among these distances:
225 206 0.72
226 82 0.28
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (226 bp):
TTGGCTTAACTCAGAGATGAGGAACCAACTTCCAGTCAAATCTTTTTGAAGTCAATTTCAACTCC
ACGACGGAGGATATTGGGTTCGAAAGCCAACTCAGAATCGACTGCAATCTAGCTTAACTCAGCGG
CAAGGAGCTAGTTACCAGTTAAAGTTTTCAGACCAAGATTCAACTTCACGAAAAAAGGATACATA
AAGCAAAAGCACATCAAGAACCGACTACATT
Found at i:983047 original size:30 final size:29
Alignment explanation
Indices: 982959--983067 Score: 77
Period size: 30 Copynumber: 3.9 Consensus size: 29
982949 TTTGCATTAT
* *
982959 TATTTA-TATTATT-TACATTTCTATTTA-
1 TATTTATTATTATTAT-TATTTTTATTTAC
* * * *
982986 TA-TTATTATTATTATATAATATTAATCAC
1 TATTTATTATTATTAT-TATTTTTATTTAC
983015 TATTTATTATTATCTATTATTTTTATTTAC
1 TATTTATTATTAT-TATTATTTTTATTTAC
* *
983045 TATTT-TTACT-TTAATATTTTTAT
1 TATTTATTATTATTATTATTTTTAT
983068 ACATTATTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
26 3 0.05
27 20 0.31
28 9 0.14
29 6 0.09
30 24 0.37
31 3 0.05
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (29 bp):
TATTTATTATTATTATTATTTTTATTTAC
Found at i:983153 original size:10 final size:9
Alignment explanation
Indices: 982986--983172 Score: 51
Period size: 10 Copynumber: 19.7 Consensus size: 9
982976 TTTCTATTTA
*
982986 TATTATTAT
1 TATTATTAC
*
982995 TATTATATAA
1 TATTAT-TAC
*
983005 TATTAATCAC
1 TATT-ATTAC
*
983015 TATTTATTAT
1 TA-TTATTAC
*
983025 TATCTATTAT
1 TAT-TATTAC
*
983035 TTTTATTTAC
1 TATTA-TTAC
*
983045 TATTTTTAC
1 TATTATTAC
* *
983054 T-TTAATAT
1 TATTATTAC
*
983062 TTTTA-TAC
1 TATTATTAC
983070 ATTATTTATTAC
1 --TA-TTATTAC
* *
983082 TAATATCAC
1 TATTATTAC
*
983091 TTATTATTTCC
1 -TATTA-TTAC
983102 TACTTATTAACC
1 TA-TTATT-A-C
983114 TATTATTA-
1 TATTATTAC
*
983122 TATTTATTAG
1 TA-TTATTAC
*
983132 TA--ATCAC
1 TATTATTAC
983139 TATTATTATC
1 TATTATTA-C
983149 TATTATTAC
1 TATTATTAC
* *
983158 TACTATTAG
1 TATTATTAC
983167 TATTAT
1 TATTAT
983173 ATCATTATCT
Statistics
Matches: 132, Mismatches: 26, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
7 5 0.04
8 9 0.07
9 44 0.33
10 51 0.39
11 17 0.13
12 6 0.05
ACGTcount: A:0.33, C:0.10, G:0.01, T:0.56
Consensus pattern (9 bp):
TATTATTAC
Found at i:983252 original size:25 final size:25
Alignment explanation
Indices: 983211--983261 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
983201 ATTACTAACA
* *
983211 TTATTATATATTATATTTATCATAT
1 TTATTATATATTATATTAATAATAT
*
983236 TTATTATTTTATT-TATTAATAATAT
1 TTATTA-TATATTATATTAATAATAT
983261 T
1 T
983262 ATCATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (25 bp):
TTATTATATATTATATTAATAATAT
Found at i:984843 original size:3 final size:3
Alignment explanation
Indices: 984835--984860 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
984825 TTTCATTTGG
984835 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
984861 TATTTTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:985591 original size:19 final size:18
Alignment explanation
Indices: 985556--985594 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
985546 ATCAGTAAAT
**
985556 AAAAAAAAATAGGAATAA
1 AAAAAAAAATAAAAATAA
985574 AAAATAAAAATAAAAATAA
1 AAAA-AAAAATAAAAATAA
985593 AA
1 AA
985595 TGATATTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAAAAAAATAAAAATAA
Found at i:986991 original size:20 final size:20
Alignment explanation
Indices: 986863--986992 Score: 66
Period size: 20 Copynumber: 6.5 Consensus size: 20
986853 ATATCAATAT
*
986863 TATTCTTGTAGTATTTTTAC
1 TATTCTTGTAGTATTTGTAC
* * *
986883 TATTCTTATTGTATCTGTAC
1 TATTCTTGTAGTATTTGTAC
* * *
986903 TATTATTGTAGTATATGCAC
1 TATTCTTGTAGTATTTGTAC
* * * *
986923 TGTTATT-TCCA-TATATGTAT
1 TATTCTTGT--AGTATTTGTAC
** * * *
986943 TATTCTTACATTGTTTGTAT
1 TATTCTTGTAGTATTTGTAC
* *
986963 TGTTTTTGTAGTATTTGTAC
1 TATTCTTGTAGTATTTGTAC
986983 TATTCTTGTA
1 TATTCTTGTA
986993 ATACTTATTT
Statistics
Matches: 80, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
19 2 0.03
20 77 0.96
21 1 0.01
ACGTcount: A:0.22, C:0.10, G:0.12, T:0.56
Consensus pattern (20 bp):
TATTCTTGTAGTATTTGTAC
Found at i:988458 original size:2 final size:2
Alignment explanation
Indices: 988416--988443 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
988406 TGTATATCAA
988416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
988444 TAACTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:996926 original size:28 final size:30
Alignment explanation
Indices: 996884--996974 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 30
996874 ATTATTTAAT
996884 AATAATA-ATATAATAATATAATAATAATAA
1 AATAATATA-ATAATAATATAATAATAATAA
* *
996914 AA-ACTA-AGA-AATACA-ATAGT-ATAAATAA
1 AATAATATA-ATAATA-ATATAATAAT-AATAA
996942 AATAATATAATAATAATATTAATAATAATAA
1 AATAATATAATAATAATA-TAATAATAATAA
996973 AA
1 AA
996975 GCAAATGGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
27 2 0.04
28 15 0.31
29 11 0.23
30 8 0.17
31 10 0.21
32 2 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AATAATATAATAATAATATAATAATAATAA
Found at i:996989 original size:3 final size:3
Alignment explanation
Indices: 996880--996972 Score: 72
Period size: 3 Copynumber: 32.0 Consensus size: 3
996870 TAAAATTATT
* *
996880 TAA TAA TAA TAA T-A TAA TAA T-A TAA TAA TAA TAA AAA CTAA GAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * *
996924 -ATA CAA TAG T-A TAAA TAA -AA TAA T-A TAA TAA TAA TAT TAA TAA
1 TA-A TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
996967 TAA TAA
1 TAA TAA
996973 AAGCAAATGG
Statistics
Matches: 73, Mismatches: 8, Indels: 18
0.74 0.08 0.18
Matches are distributed among these distances:
2 10 0.14
3 58 0.79
4 5 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:997430 original size:123 final size:122
Alignment explanation
Indices: 997224--997616 Score: 614
Period size: 123 Copynumber: 3.2 Consensus size: 122
997214 CTTCCCATTC
* * * * *
997224 TTCAGATGAGTTCTTCTCAGTATGAACATT-TCTGGAAATGTTGATGTTGATATATCTCCTTCTG
1 TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTG
997288 TGATAGAGTCATACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCT
66 TGATAGAGTCATACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCT
*
997345 ATTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGATGATCTATCTCCTTCT
1 -TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCT
* * *
997410 GTGATAGAGTCAAACAAAAGGTTGAACAAGCTTTTCTCATTATGAACTTCTTCTT-C-
65 GTGATAGAGTCATACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCT
*
997466 TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCTTTCTG
1 TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTG
* *
997531 TGATAGAGTCATGC-AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTT
66 TGATAGAGTCATACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCC-T
*
997588 CTTCAGATGAGTTCTTCTCATTATGAACT
1 -TTCAGATAAGTTCTTCTCATTATGAACT
997617 CTACCTGGCA
Statistics
Matches: 249, Mismatches: 17, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
119 36 0.14
120 76 0.31
122 28 0.11
123 109 0.44
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (122 bp):
TTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTG
TGATAGAGTCATACAAAAGGTTGAACAAACTCTTCTCATTATGAACTTCTTCTTCCT
Found at i:997676 original size:113 final size:111
Alignment explanation
Indices: 997545--997757 Score: 354
Period size: 113 Copynumber: 1.9 Consensus size: 111
997535 AGAGTCATGC
*
997545 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCC-TCTTCAGATGAGTTCTTCTCATT
**
997610 ATGAACTCTACCTGGCAATGCTGATCCATTGAATGATGAATTCGAGCA
65 ATGAACTCTACCTAAC-ATGCTGATCCATTGAATGATGAATTCGAGCA
*
997658 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTA
1 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTA
* *
997723 TGAACTCTACCTAACATGTTGATCCATTGAGTGAT
66 TGAACTCTACCTAACATGCTGATCCATTGAATGAT
997758 CTATTCGAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
111 18 0.19
112 37 0.39
113 39 0.41
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (111 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTACCTAACATGCTGATCCATTGAATGATGAATTCGAGCA
Found at i:1006032 original size:13 final size:13
Alignment explanation
Indices: 1006014--1006043 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1006004 TTGCTATTTT
*
1006014 AATATCGAATTCA
1 AATATCGAATTAA
1006027 AATATCGAATTAA
1 AATATCGAATTAA
1006040 AATA
1 AATA
1006044 AATTAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (13 bp):
AATATCGAATTAA
Found at i:1007296 original size:8 final size:8
Alignment explanation
Indices: 1007274--1007366 Score: 52
Period size: 8 Copynumber: 11.4 Consensus size: 8
1007264 TAAAATTATT
1007274 TAATAATAA
1 TAAT-ATAA
*
1007283 TAATATAT
1 TAATATAA
1007291 TAATATAA
1 TAATATAA
1007299 TAATAATAA
1 TAAT-ATAA
1007308 -AA-ACTAA
1 TAATA-TAA
*
1007315 GAA-ATAA
1 TAATATAA
1007322 -AATAGT-A
1 TAATA-TAA
*
1007329 TAAATAGAA
1 T-AATATAA
1007338 TAATATAA
1 TAATATAA
*
1007346 TAATAATAT
1 TAAT-ATAA
1007355 TAATAATAA
1 TAAT-ATAA
1007364 TAA
1 TAA
1007367 AAGCAAATGG
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
6 3 0.04
7 8 0.12
8 30 0.43
9 28 0.41
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (8 bp):
TAATATAA
Found at i:1007333 original size:14 final size:14
Alignment explanation
Indices: 1007254--1007366 Score: 51
Period size: 14 Copynumber: 8.2 Consensus size: 14
1007244 GTTGGGTCTG
1007254 TAATAGTAAATAAAA
1 TAATA-TAAATAAAA
* *
1007269 TTAT-TTAATAATAA
1 TAATATAAATAA-AA
* *
1007283 TAATAT-ATTAATA
1 TAATATAAATAAAA
1007296 TAATA-ATAATAAAA
1 TAATATA-AATAAAA
* *
1007310 -ACTAAGAAATAAAA
1 TAAT-ATAAATAAAA
* *
1007324 TAGTATAAATAGAA
1 TAATATAAATAAAA
1007338 TAATAT-AAT--AA
1 TAATATAAATAAAA
*
1007349 TAATATTAATAATAA
1 TAATATAAATAA-AA
1007364 TAA
1 TAA
1007367 AAGCAAATGG
Statistics
Matches: 75, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
11 8 0.11
12 3 0.04
13 17 0.23
14 35 0.47
15 12 0.16
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.34
Consensus pattern (14 bp):
TAATATAAATAAAA
Found at i:1007383 original size:3 final size:3
Alignment explanation
Indices: 1007274--1007366 Score: 63
Period size: 3 Copynumber: 32.0 Consensus size: 3
1007264 TAAAATTATT
* * *
1007274 TAA TAA TAA TAA T-A TAT TAA T-A TAA TAA TAA TAA AAA CTAA GAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA -TAA
* * *
1007319 TAA -AA TAG T-A TAA -ATA GAA TAA T-A TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1007361 TAA TAA
1 TAA TAA
1007367 AAGCAAATGG
Statistics
Matches: 70, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
2 10 0.14
3 55 0.79
4 5 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1009653 original size:19 final size:19
Alignment explanation
Indices: 1009629--1009665 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1009619 CCATATAGAC
*
1009629 ATGTGAAAGTAGTCTTCTA
1 ATGTGAAAGTAGTATTCTA
1009648 ATGTGAAAGTAGTATTCT
1 ATGTGAAAGTAGTATTCT
1009666 CTTGATCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (19 bp):
ATGTGAAAGTAGTATTCTA
Done.