Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007717.1 Hibiscus syriacus cultivar Beakdansim tig00109948_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: 900945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:728 original size:20 final size:20
Alignment explanation
Indices: 703--740 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
693 AATAGTTTCT
703 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
723 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
741 GAGAGAATCG
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:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1025 original size:22 final size:22
Alignment explanation
Indices: 1000--1043 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
990 GATTTAGATA
1000 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1022 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1044 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1253 original size:20 final size:20
Alignment explanation
Indices: 1228--1321 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
1218 GATTATGTAT
1228 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1248 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
1268 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
1289 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
1309 TATCGCATTGCGA
1 TATCGCGTTGCGA
1322 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:1322 original size:20 final size:20
Alignment explanation
Indices: 1208--1322 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
1198 CGCTTTGAAA
*
1208 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
1229 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
1249 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
1269 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
1290 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1310 ATCGCATTGCGAT
1 ATCGCATTGCGAT
1323 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1343 original size:41 final size:41
Alignment explanation
Indices: 1250--1384 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 41
1240 AAAGTCAGTA
* * * * *
1250 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
* *
1290 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
* ** * * *
1332 TCGCGTTGCGAT-TTACTTATTCGCAATGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCTCAAT
1373 TCGCGTTGCGAT
1 TCGCGTTGCGAT
1385 TTACTTATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
40 3 0.04
41 71 0.92
42 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCTCAAT
Found at i:1355 original size:20 final size:20
Alignment explanation
Indices: 1311--1403 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
1301 ATAGTCAGTA
*
1311 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
* *
1332 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* * *
1352 TCGCAATGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTAAT
* *
1373 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
1393 TCGCATTGCGA
1 TCGCATTGCGA
1404 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 27 0.47
21 30 0.53
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:1385 original size:41 final size:41
Alignment explanation
Indices: 1311--1406 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
1301 ATAGTCAGTA
* *
1311 TCGCATTGCGATTTTCTCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
*
1352 TCGCAATGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1393 TCGCATTGCGAATT
1 TCGCATTGCGAATT
1407 GGGAAAATCG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:4997 original size:116 final size:117
Alignment explanation
Indices: 4861--5075 Score: 299
Period size: 117 Copynumber: 1.8 Consensus size: 117
4851 ATATATATTT
* * * * *
4861 AAATAAAATATTTATTTATTTAGAAATATCAGAAAA-GGACTTCTAGGTACCTTAAGACAGCTCT
1 AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAGGTACCTTAAGACAGCCCT
4925 TTTCTTCAATATT-AAAAATAAATAAATAATTAAACAATTAATATAAATTATA
66 TTTCTTCAATATTGAAAAATAAATAAAT-ATTAAACAATTAATATAAATTATA
* * *** *
4977 AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAGTTGTTTTAAGACTGCCCT
1 AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAGGTACCTTAAGACAGCCCT
*
5042 TTTCTTCGATATTGAAAAATAAATAAATATTAAA
66 TTTCTTCAATATTGAAAAATAAATAAATATTAAA
5076 ATGATAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
116 34 0.40
117 37 0.44
118 14 0.16
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (117 bp):
AAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAGGTACCTTAAGACAGCCCT
TTTCTTCAATATTGAAAAATAAATAAATATTAAACAATTAATATAAATTATA
Found at i:6541 original size:3 final size:3
Alignment explanation
Indices: 6533--6610 Score: 113
Period size: 3 Copynumber: 26.0 Consensus size: 3
6523 AATTATTTTT
*
6533 TAA TAA TAA TAA TAA T-A TATA TAA TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* *
6578 TAA TAA TAA TAA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6611 ATAAATAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:6976 original size:124 final size:124
Alignment explanation
Indices: 6759--7058 Score: 375
Period size: 124 Copynumber: 2.5 Consensus size: 124
6749 GTTGAATAAA
* * * *
6759 TTCTTCTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGTTGAC
1 TTCTT-TCTTT-TTCAGATGAGTTCTTCTCATTATGAACTTT-CTCTGGAAAGGTTGATGCTAAC
* * * *
6821 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTATGAACTTC
63 ATATTTCCTTCTGTGATAAAATCATTCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
* *
6883 TTCTTTCTTTTTCAAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATATA
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAACATA
* *
6948 TCTT-CTTCTGTGATAAAATTATAT-AAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTC
66 T-TTCCTTCTGTGATAAAATCAT-TCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
*
7007 TTC-TTC---TTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGAT
1 TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGAT
7059 CCATCAAGTG
Statistics
Matches: 157, Mismatches: 14, Indels: 14
0.85 0.08 0.08
Matches are distributed among these distances:
120 44 0.28
121 5 0.03
122 29 0.18
123 8 0.05
124 68 0.43
125 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (124 bp):
TTCTTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAACATA
TTTCCTTCTGTGATAAAATCATTCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTC
Found at i:7298 original size:113 final size:113
Alignment explanation
Indices: 6972--7749 Score: 1114
Period size: 113 Copynumber: 7.0 Consensus size: 113
6962 AAAATTATAT
* * *
6972 AAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * * * *
7033 TATGAACTTTCTCTGGAAAAGTTGATCCA-TCAAGTGATGGATTTGAGC
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAA-TGATGAATTTAAGC
* * *
7081 AAAAGGTTGAACAAATTATTCTCATTATGAA-TT-TT-TT-CTTCTTCAGATGACGAGTTCTTCT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * **
7142 TATTATGAACTCTACCTGGCAATGTTGATCCATCAAATGATGAATTTAAGC
63 CATTATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
*
7193 AAAAAGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
7258 TATGAACTCGAACTGGAAATGTTGATCCATTGAATCATGAATTCAAGC
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
7306 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
7371 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGGATTTAAGC
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
*
7419 AAAAAGTTGAACAAGTTCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * *
7484 TATGAACTAGAACTGGAAATGTTGATCCATTGAATCATGAATTCAAGC
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
7532 AAAAAGTTGAAC-AGTTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
7593 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGGATTTAAGT
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
* * *
7641 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTCAGATGAGTTCTTCTTAA
1 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
7706 TATGAACTCGAACTGGAAATGTTGATCCATTTAATGATGGATTT
66 TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTT
7750 TAATCTTTGC
Statistics
Matches: 610, Mismatches: 45, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
109 126 0.21
110 20 0.03
112 92 0.15
113 357 0.59
114 2 0.00
115 2 0.00
116 11 0.02
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (113 bp):
AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGAATTTAAGC
Found at i:7673 original size:335 final size:334
Alignment explanation
Indices: 6971--7749 Score: 1133
Period size: 335 Copynumber: 2.3 Consensus size: 334
6961 TAAAATTATA
* * *
6971 TAAAAGGTTGAACAAGCTCTTCTCATTGTGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCA
1 TAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**** * * *
7032 TTATGAACTTTCTCTGGAAAAGTTGATCCA-TCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
66 TTATGAACTCGAACTGGAAATGTTGATCCATTCAA-TGATGGATTTAAGCAAAAAGTTGAACAAA
* * ** *
7096 TTATTCTCATTATGAATTTTTTCTTCTTCAGATGACGAGTTCTTCTTATTATGAACTCTACCTGG
130 TTATTCTAATTATGAATTTTTTCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTAGAACTGG
* * *
7161 CAATGTTGATCCATCAAATGATGAATTTAAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAACT
193 AAATGTTGATCCATCAAATCATGAATTCAAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAA--
7226 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGA
256 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGA
7291 ATCATGAATTCAAG
321 ATCATGAATTCAAG
*
7305 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 TAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
7370 TTATGAACTCGAACTGGAAATGTTGATCCATTGAATGATGGATTTAAGCAAAAAGTTGAACAAGT
66 TTATGAACTCGAACTGGAAATGTTGATCCATTCAATGATGGATTTAAGCAAAAAGTTGAACAAAT
*
7435 TCTTCTAATTATGAACTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTAGAACTG
131 TATTCTAATTATGAA-TT-TT-TT-CTTCTTCAGATAGAGTTCTTCTCATTATGAACTAGAACTG
** *
7499 GAAATGTTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAAC-AGTTCTTCTCATTATGAA-
192 GAAATGTTGATCCATCAAATCATGAATTCAAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAAT
7562 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGAA
257 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGAA
* * *
7627 TGATGGATTTAAG
322 TCATGAATTCAAG
* *
7640 TAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTGTTCAGATGAGTTCTTCTTA
1 TAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
7705 ATATGAACTCGAACTGGAAATGTTGATCCATTTAATGATGGATTT
66 TTATGAACTCGAACTGGAAATGTTGATCCATTCAATGATGGATTT
7750 TAATCTTTGC
Statistics
Matches: 403, Mismatches: 33, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
334 28 0.07
335 180 0.45
337 6 0.01
338 106 0.26
339 68 0.17
340 2 0.00
341 2 0.00
342 11 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (334 bp):
TAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCGAACTGGAAATGTTGATCCATTCAATGATGGATTTAAGCAAAAAGTTGAACAAAT
TATTCTAATTATGAATTTTTTCTTCTTCAGATAGAGTTCTTCTCATTATGAACTAGAACTGGAAA
TGTTGATCCATCAAATCATGAATTCAAGCAAAAAGTTAAACAAGTTCTTCTCATTATGAATCTTC
TTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCATTGAATCAT
GAATTCAAG
Found at i:8861 original size:18 final size:17
Alignment explanation
Indices: 8838--8885 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
8828 AAAATAAAAG
8838 AATAAATTGAATTTTCGA
1 AATAAATTGAATTTTC-A
*
8856 AATAAATTGAA-TCTCA
1 AATAAATTGAATTTTCA
*
8872 AATAAAATGAATTT
1 AATAAATTGAATTT
8886 AGAGAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 11 0.42
17 4 0.15
18 11 0.42
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.35
Consensus pattern (17 bp):
AATAAATTGAATTTTCA
Found at i:9256 original size:13 final size:13
Alignment explanation
Indices: 9238--9335 Score: 66
Period size: 12 Copynumber: 7.7 Consensus size: 13
9228 CTTGACCCCC
9238 TTTTTTTCTC-TT
1 TTTTTTTCTCTTT
9250 TTTTTTTCTTCTTT
1 TTTTTTTC-TCTTT
9264 TTCTTTTT-TCTTT
1 TT-TTTTTCTCTTT
*
9277 TTCTTTT-TC--T
1 TTTTTTTCTCTTT
*
9287 TTTTTCT-TCTTT
1 TTTTTTTCTCTTT
*
9299 TTTTCTTCT-TTT
1 TTTTTTTCTCTTT
*
9311 TTCTTTTCTTCTTT
1 TTTTTTTC-TCTTT
9325 TCATTTTTTCT
1 T--TTTTTTCT
9336 TCAAGCATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
10 8 0.12
12 29 0.43
13 11 0.16
14 8 0.12
15 6 0.09
16 6 0.09
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:9268 original size:19 final size:18
Alignment explanation
Indices: 9239--9325 Score: 104
Period size: 19 Copynumber: 4.7 Consensus size: 18
9229 TTGACCCCCT
9239 TTTTTTCTCTTTTTTTTTC
1 TTTTTT-TCTTTTTTTTTC
9258 TTCTTTTTCTTTTTTCTTT-
1 TT-TTTTTCTTTTTT-TTTC
*
9277 TTCTTTTTCTTTTTTCTTC
1 TT-TTTTTCTTTTTTTTTC
*
9296 TTTTTTTCTTCTTTTTTC
1 TTTTTTTCTTTTTTTTTC
*
9314 TTTTCTTCTTTT
1 TTTTTTTCTTTT
9326 CATTTTTTCT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
18 26 0.43
19 27 0.45
20 7 0.12
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTTTC
Found at i:9271 original size:28 final size:29
Alignment explanation
Indices: 9239--9335 Score: 110
Period size: 28 Copynumber: 3.3 Consensus size: 29
9229 TTGACCCCCT
9239 TTTTTTCTCTTTTTTTTTCTTCTTTTTC-
1 TTTTTTCTCTTTTTTTTTCTTCTTTTTCA
* *
9267 TTTTTTCT-TTTTCTTTTTCTTTTTTCTTCT
1 TTTTTTCTCTTTT-TTTTTCTTCTTT-TTCA
9297 TTTTTTCTTCTTTTTTCTTTTCTTC-TTTTCA
1 TTTTTTC-TC-TTTTT-TTTTCTTCTTTTTCA
9328 TTTTTTCT
1 TTTTTTCT
9336 TCAAGCATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
27 4 0.07
28 19 0.32
29 3 0.05
30 8 0.14
31 11 0.19
32 3 0.05
33 11 0.19
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (29 bp):
TTTTTTCTCTTTTTTTTTCTTCTTTTTCA
Found at i:9336 original size:13 final size:13
Alignment explanation
Indices: 9241--9336 Score: 74
Period size: 13 Copynumber: 7.2 Consensus size: 13
9231 GACCCCCTTT
*
9241 TTTTCTCTTTTT-
1 TTTTCTTTTTTTC
9253 TTTTCTTCTTTTTC
1 TTTTCTT-TTTTTC
9267 TTTT-TTCTTTTTC
1 TTTTCTT-TTTTTC
9280 TTTT-TCTTTTTTC
1 TTTTCT-TTTTTTC
9293 TTCTT-TTTTTCTTC
1 TT-TTCTTTTT-TTC
*
9307 TTTTTTCTTTTCTTC
1 --TTTTCTTTTTTTC
*
9322 TTTTCATTTTTTC
1 TTTTCTTTTTTTC
9335 TT
1 TT
9337 CAAGCATAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
12 6 0.08
13 44 0.61
14 11 0.15
15 5 0.07
16 6 0.08
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:20636 original size:20 final size:19
Alignment explanation
Indices: 20597--20638 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
20587 TTTCTTCAAT
20597 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
20616 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
20636 ATT
1 ATT
20639 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:20660 original size:120 final size:121
Alignment explanation
Indices: 20518--20742 Score: 310
Period size: 121 Copynumber: 1.9 Consensus size: 121
20508 TTTTTATATA
* * * *
20518 TTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATG-ACTTCTAGGTACCTTAAGACA
1 TTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAAGTACCTTAAGACA
*
20582 GCTCTTTTCTTCAATATTAAAAAATAAATAAATAATTAAAACAATTAATATATAATT
66 GCCCTTTTCTTCAATATTAAAAAATAAATAAAT-ATTAAAACAATTAATATATAATT
* * *** *
20639 TTTA-AAATAAGATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAATTGTTTTAAGACT
1 TTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAAGTACCTTAAGACA
* *
20703 GCCCTTTTCTTCGATATTGAAAAATAAATAAATATTAAAA
66 GCCCTTTTCTTCAATATTAAAAAATAAATAAATATTAAAA
20743 TATGATAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
120 43 0.48
121 47 0.52
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.38
Consensus pattern (121 bp):
TTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGAACATCCAAGTACCTTAAGACA
GCCCTTTTCTTCAATATTAAAAAATAAATAAATATTAAAACAATTAATATATAATT
Found at i:22076 original size:3 final size:3
Alignment explanation
Indices: 22068--22145 Score: 95
Period size: 3 Copynumber: 26.0 Consensus size: 3
22058 AATTATTTTT
* *
22068 TAA TAA TAA TAA TAA -AA TATA TAA TAA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * *
22113 TAA GAA TAA TAA TTA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22146 ATAAATAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:22104 original size:30 final size:29
Alignment explanation
Indices: 22068--22142 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 29
22058 AATTATTTTT
*
22068 TAATAATAATAATAAAATATATAATAATTA
1 TAATAATAATAATAAAAGA-ATAATAATTA
*
22098 TAATAATAATAATTATAAGAATAATAATTA
1 TAATAATAATAA-TAAAAGAATAATAATTA
*
22128 TAGTAATAATAATAA
1 TAATAATAATAATAA
22143 TAAATAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.05
30 33 0.82
31 5 0.12
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TAATAATAATAATAAAAGAATAATAATTA
Found at i:23133 original size:30 final size:30
Alignment explanation
Indices: 23097--23478 Score: 296
Period size: 30 Copynumber: 12.7 Consensus size: 30
23087 AACATTAAAA
* *
23097 AAATATAATTTATTTTTATTTTAACTTATT
1 AAATATATTTTATTTTTATCTTAACTTATT
* *
23127 AAATATATTTTATTCTTATCTTAAC-TA-A
1 AAATATATTTTATTTTTATCTTAACTTATT
* * * *
23155 AAATATATTTTAATCTTATCTTAACTCATA
1 AAATATATTTTATTTTTATCTTAACTTATT
* * **
23185 AAATATATTTTATTTCTACCTTAACTTAAA
1 AAATATATTTTATTTTTATCTTAACTTATT
*
23215 AAATATATTTTATTATTATCTTAACTT-TT
1 AAATATATTTTATTTTTATCTTAACTTATT
23244 AAAAATATATTTTATTTTTATCTTAACTTATT
1 --AAATATATTTTATTTTTATCTTAACTTATT
** * * * *
23276 TCATATATTATATTCTTAGCTTAAATTATT
1 AAATATATTTTATTTTTATCTTAACTTATT
* * * *
23306 AAATATATTATATTGTTACCTTAAATTATT
1 AAATATATTTTATTTTTATCTTAACTTATT
* * *
23336 AAATATGA-TCTATTCTTATCTTAACTTA-A
1 AAATAT-ATTTTATTTTTATCTTAACTTATT
* * * *
23365 AAATGTATAATTTGTTTTAATATTAA--T-TT
1 AAA--TATATTTTATTTTTATCTTAACTTATT
* * *
23394 AAAGTGTATATTTTATTCTTATTTTAA-TTTTT
1 AAA---TATATTTTATTTTTATCTTAACTTATT
* **
23426 AAAAATATTTTATTTTTATCTTAACTATAAA
1 AAATATATTTTATTTTTATCTTAACT-TATT
23457 AAATATATTTTATTTTTATCTT
1 AAATATATTTTATTTTTATCTT
23479 GATTTTAAAT
Statistics
Matches: 286, Mismatches: 51, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
28 24 0.08
29 28 0.10
30 163 0.57
31 64 0.22
32 7 0.02
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (30 bp):
AAATATATTTTATTTTTATCTTAACTTATT
Found at i:23238 original size:60 final size:59
Alignment explanation
Indices: 23082--23478 Score: 336
Period size: 60 Copynumber: 6.6 Consensus size: 59
23072 TTAAATTCAC
* * * *
23082 ATCTTAACATTAAAAAAATATAATTTATTTTTATTTTAACTTATTAAATATATTTTATTCTT
1 ATCTTAAC-TT-AAAAAATATATTTTATTCTTATCTTAACTTATAAAATATATTTTATT-TT
* *
23144 ATCTTAAC-T-AAAAATATATTTTAATCTTATCTTAACTCATAAAATATATTTTATTTCT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTATAAAATATATTTTATTT-T
* * *
23202 ACCTTAACTTAAAAAATATATTTTATTATTATCTTAACTTTTAAAAATATATTTTATTTTT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTAT-AAAATATATTTTA-TTTT
**** * * * * *
23263 ATCTTAACTTATTTCATATATTATATTCTTAGCTTAAATTATTAAATATATTATATTGTT
1 ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTATAAAATATATTTTATT-TT
* * ** * * *
23323 ACCTTAAATTATTAAATATGA-TCTATTCTTATCTTAACTTA-AAAATGTATAATTTGTTTT
1 ATCTTAACTTAAAAAATAT-ATTTTATTCTTATCTTAACTTATAAAA--TATATTTTATTTT
* * *** * * *
23383 AATATTAATTTAAAGTGTATATTTTATTCTTATTTTAATTTTTAAAA-ATATTTTATTTTT
1 -ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTATAAAATATATTTTA-TTTT
*
23443 ATCTTAACTATAAAAAATATATTTTATTTTTATCTT
1 ATCTTAACT-TAAAAAATATATTTTATTCTTATCTT
23479 GATTTTAAAT
Statistics
Matches: 266, Mismatches: 55, Indels: 30
0.76 0.16 0.09
Matches are distributed among these distances:
57 1 0.00
58 48 0.18
59 19 0.07
60 101 0.38
61 82 0.31
62 15 0.06
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (59 bp):
ATCTTAACTTAAAAAATATATTTTATTCTTATCTTAACTTATAAAATATATTTTATTTT
Found at i:23326 original size:121 final size:117
Alignment explanation
Indices: 23084--23487 Score: 352
Period size: 121 Copynumber: 3.4 Consensus size: 117
23074 AAATTCACAT
* * *
23084 CTTAACATTAAAAAAATATAATTTATTTTTATTTTAACTTATT--AAATATATTTTATTCTTATC
1 CTTAAC-TT-AAAAAATATATTTTATTTTTATCTTAACTT-TTAAAAATATATTTTATTTTTATC
* * * * * *
23147 TTAACTAAAAATATATTTTAATCTTATCTTAACTCATAAAATATATTTTATTTCTAC
63 TTAACTTAATATATATTTTATTCTTA-CTTAAATTATTAAATATATTTTATTT-TAC
*
23204 CTTAACTTAAAAAATATATTTTATTATTATCTTAACTTTTAAAAATATATTTTATTTTTATCTTA
1 CTTAACTTAAAAAATATATTTTATTTTTATCTTAACTTTTAAAAATATATTTTATTTTTATCTTA
* * *
23269 ACTTATTTCATATATTATATTCTTAGCTTAAATTATTAAATATATTATATTGTTAC
66 ACTTA-AT-ATATATTTTATTCTTA-CTTAAATTATTAAATATATTTTATT-TTAC
* ** * * * * * *
23325 CTTAAATTATTAAATATGA-TCTATTCTTATCTTAAC--TTAAAAATGTATAATTTGTTTTAATA
1 CTTAACTTAAAAAATAT-ATTTTATTTTTATCTTAACTTTTAAAAA--TATATTTTATTTTTATC
* * * * * * *
23387 TTAATTTAAAGTGTATATTTTATTCTTATTTTAATTTTTAAAAATATTTTATTTTTAT
63 TTAACTT-AA-TATATATTTTATTCTTACTTAAATTATTAAATATATTTTA-TTTTAC
*
23445 CTTAACTATAAAAAATATATTTTATTTTTATCTTGA-TTTTAAA
1 CTTAACT-TAAAAAATATATTTTATTTTTATCTTAACTTTTAAA
23488 TTACTATAAA
Statistics
Matches: 230, Mismatches: 39, Indels: 28
0.77 0.13 0.09
Matches are distributed among these distances:
117 2 0.01
118 27 0.12
119 35 0.15
120 34 0.15
121 123 0.53
122 9 0.04
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (117 bp):
CTTAACTTAAAAAATATATTTTATTTTTATCTTAACTTTTAAAAATATATTTTATTTTTATCTTA
ACTTAATATATATTTTATTCTTACTTAAATTATTAAATATATTTTATTTTAC
Found at i:23474 original size:91 final size:87
Alignment explanation
Indices: 23082--23474 Score: 278
Period size: 91 Copynumber: 4.4 Consensus size: 87
23072 TTAAATTCAC
* *
23082 ATCTTAACATTAAAAAAATATAATTTATTTTTATTTTAACTTATTAAATATATTTTATTCTTATC
1 ATCTTAAC-TT-AAAAAATATATTTTATTTTTAATTTAA--T-TTAAATATATTTTATTCTTATC
* *
23147 TTAA--CTAAAAATATATTTTAATCTT
61 TTAATTTTAAAAATATATTTTATTCTT
* * * ** * *
23172 ATCTTAACTCATAAAATATATTTTATTTCTACCTTAACTTAAAAAATATATTTTATTATTATCTT
1 ATCTTAACTTAAAAAATATATTTTATTTTTAATTTAA-TT--TAAATATATTTTATTCTTATCTT
*
23237 AACTTTTAAAAATATATTTTATTTTT
63 AA-TTTTAAAAATATATTTTATTCTT
**** * * * * * * *
23263 ATCTTAACTTATTTCATATATTATATTCTTAGCTTAAATTATTAAATATATTATATTGTTACCTT
1 ATCTTAACTTAAAAAATATATTTTATTTTTA-ATTTAA-T-TTAAATATATTTTATTCTTATCTT
*
23328 AAATTATT--AAATATGA-TCTATTCTT
63 -AATT-TTAAAAATAT-ATTTTATTCTT
* * * *
23353 ATCTTAACTTAAAAATGTATAATTT-GTTTTAATATTAATTTAAAGTGTATATTTTATTCTTATT
1 ATCTTAACTTAAAAA-ATATATTTTATTTTTAAT-TTAATTTAAA---TATATTTTATTCTTATC
* *
23417 TTAATTTTTAAAA-ATATTTTATTTTT
61 TTAATTTTAAAAATATATTTTATTCTT
23443 ATCTTAACTATAAAAAATATATTTTATTTTTA
1 ATCTTAACT-TAAAAAATATATTTTATTTTTA
23475 TCTTGATTTT
Statistics
Matches: 235, Mismatches: 48, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
86 1 0.00
87 1 0.00
88 50 0.21
89 6 0.03
90 68 0.29
91 99 0.42
92 9 0.04
93 1 0.00
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (87 bp):
ATCTTAACTTAAAAAATATATTTTATTTTTAATTTAATTTAAATATATTTTATTCTTATCTTAAT
TTTAAAAATATATTTTATTCTT
Found at i:23547 original size:30 final size:30
Alignment explanation
Indices: 23496--23604 Score: 80
Period size: 30 Copynumber: 3.6 Consensus size: 30
23486 AATTACTATA
* * *
23496 AAAATAAAATTTAAATATTTAAGTTAAGGT
1 AAAATAAAATATATATTTTTAAGTTAAGGT
* *
23526 AAAATAAAATATATATTTTTAA-TTTA-GA
1 AAAATAAAATATATATTTTTAAGTTAAGGT
* * *
23554 AAATACTAAAATAT-TTTTTACTTTAGTTAAGAT
1 AAA-A-TAAAATATATATTT--TTAAGTTAAGGT
23587 AAGAATAAAATATATATT
1 AA-AATAAAATATATATT
23605 CAATTTTATT
Statistics
Matches: 60, Mismatches: 11, Indels: 13
0.71 0.13 0.15
Matches are distributed among these distances:
28 4 0.07
29 8 0.13
30 27 0.45
31 3 0.05
32 11 0.18
33 6 0.10
34 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.40
Consensus pattern (30 bp):
AAAATAAAATATATATTTTTAAGTTAAGGT
Found at i:23774 original size:11 final size:11
Alignment explanation
Indices: 23758--23792 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
23748 ACACAAACAA
23758 AATAAATAAAT
1 AATAAATAAAT
23769 AATAAATAAAT
1 AATAAATAAAT
23780 AAT-AATAAAT
1 AATAAATAAAT
23790 AAT
1 AAT
23793 GTATTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:24300 original size:33 final size:33
Alignment explanation
Indices: 24263--24348 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
24253 AGTCCTACTT
*
24263 GGACTCAAATGC-TTCGATTTTAGTATTTCAATA
1 GGACTCAAATACATT-GATTTTAGTATTTCAATA
* *
24296 GGACTCAAATACATTGGTTTTAGTGTTTCAATA
1 GGACTCAAATACATTGATTTTAGTATTTCAATA
* *
24329 AGACTCAAATACGTTGATTT
1 GGACTCAAATACATTGATTT
24349 ATTTTCTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 44 0.96
34 2 0.04
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.38
Consensus pattern (33 bp):
GGACTCAAATACATTGATTTTAGTATTTCAATA
Found at i:24406 original size:3 final size:3
Alignment explanation
Indices: 24398--24453 Score: 77
Period size: 3 Copynumber: 20.3 Consensus size: 3
24388 GGCCTGCAAA
24398 AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24443 -AT AAT AA- AAT A
1 AAT AAT AAT AAT A
24454 TTTTTGTAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 10 0.21
3 38 0.79
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24423 original size:20 final size:20
Alignment explanation
Indices: 24398--24453 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
24388 GGCCTGCAAA
24398 AATAATAATAA-AATAATAAT
1 AATAATAATAATAA-AATAAT
*
24418 AATAATAATAATAATATAAT
1 AATAATAATAATAAAATAAT
24438 -ATAAT-ATAATAAAATA
1 AATAATAATAATAAAATA
24454 TTTTTGTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.30
19 5 0.15
20 16 0.48
21 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAATAATAATAAAATAAT
Found at i:24454 original size:20 final size:23
Alignment explanation
Indices: 24398--24454 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
24388 GGCCTGCAAA
*
24398 AATAATAATAAAATAATAATAAT
1 AATAATAATAATATAATAATAAT
24421 AATAATAATAATATAAT-ATAAT
1 AATAATAATAATATAATAATAAT
24443 -ATAATAA-AATAT
1 AATAATAATAATAT
24455 TTTTGTAGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 5 0.15
21 7 0.21
22 5 0.15
23 16 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATAATAATAATATAATAATAAT
Found at i:25560 original size:16 final size:16
Alignment explanation
Indices: 25539--25570 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25529 TTTAGCTAAG
25539 ATACGGATGATGATTC
1 ATACGGATGATGATTC
25555 ATACGGATGATGATTC
1 ATACGGATGATGATTC
25571 GTACCTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (16 bp):
ATACGGATGATGATTC
Found at i:31387 original size:145 final size:139
Alignment explanation
Indices: 31119--31402 Score: 451
Period size: 145 Copynumber: 2.0 Consensus size: 139
31109 TCCTAGAGTA
* *
31119 GTCATCAATAAATGAGACAAAATATTTTTCTCCGCCTAGGGATGTAACTGGTGCTTGCCATGTGT
1 GTCATCAATAAATGAGACAAAATATTTTGCTCCGCCTAGGGATGTAACTGGTGCTTGCCATCTGT
31184 CGACCAGTTCTAGAACACTCTTACCTCTAGAATTTGACGTGTTGAATTTCAATCGGTGCTACTTA
66 CGACCAGTTCTAGAACACTCTTACCTCTAGAATTTGACGTGTTGAATTTCAATCGGTGCTACTTA
31249 CTTGTTATG
131 CTTGTTATG
**
31258 GTCATCAATAAATGAGACAAAATATTTTGCTCCGCCTAGGGATGTAACTGGTGCTTTTCATCTGT
1 GTCATCAATAAATGAGACAAAATATTTTGCTCCGCCTAGGGATGTAACTGGTGCTTGCCATCTGT
* *
31323 CAGAGTGAACCAGTTCTAGAACACTCTTACCTCTAGAATTTGATGTGTTGAATTTCAATTGGTGC
66 C-----G-ACCAGTTCTAGAACACTCTTACCTCTAGAATTTGACGTGTTGAATTTCAATCGGTGC
*
31388 TGCTTACTTGTTATG
125 TACTTACTTGTTATG
31403 CAATGCTCAC
Statistics
Matches: 132, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
139 62 0.47
144 1 0.01
145 69 0.52
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (139 bp):
GTCATCAATAAATGAGACAAAATATTTTGCTCCGCCTAGGGATGTAACTGGTGCTTGCCATCTGT
CGACCAGTTCTAGAACACTCTTACCTCTAGAATTTGACGTGTTGAATTTCAATCGGTGCTACTTA
CTTGTTATG
Found at i:34373 original size:32 final size:31
Alignment explanation
Indices: 34337--34443 Score: 90
Period size: 32 Copynumber: 3.3 Consensus size: 31
34327 ACCCATACCT
34337 AAAATCAACCGATATGATATTGA-CTCGATCCG
1 AAAATCAACCGATATGATATTGATC-CGA-CCG
* * * * *
34369 AAAATTCAATCGATCTAATATTTATCCGACCC
1 AAAA-TCAACCGATATGATATTGATCCGACCG
* *
34401 AAAATCTAACTGATGTGATATTGATCCGAACCG
1 AAAATC-AACCGATATGATATTGATCCG-ACCG
*
34434 AAAAACAACC
1 AAAATCAACC
34444 AATCCGATAA
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
31 2 0.03
32 29 0.50
33 26 0.45
34 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.25
Consensus pattern (31 bp):
AAAATCAACCGATATGATATTGATCCGACCG
Found at i:40497 original size:22 final size:22
Alignment explanation
Indices: 40461--40518 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
40451 TAGGATCTGG
40461 GTCACTGTTTGATGGATTGGTGA
1 GTCACTG-TTGATGGATTGGTGA
*
40484 GTCACTGTTGATGGATTTGTGA
1 GTCACTGTTGATGGATTGGTGA
*
40506 ATCACTGTTGATG
1 GTCACTGTTGATG
40519 CAGGGAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
22 26 0.79
23 7 0.21
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (22 bp):
GTCACTGTTGATGGATTGGTGA
Found at i:60573 original size:15 final size:15
Alignment explanation
Indices: 60553--60584 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
60543 TGCTCCGAGC
60553 GTATAGTATCAAATA
1 GTATAGTATCAAATA
*
60568 GTATAGTATCAGATA
1 GTATAGTATCAAATA
60583 GT
1 GT
60585 CATATTTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (15 bp):
GTATAGTATCAAATA
Found at i:61063 original size:22 final size:24
Alignment explanation
Indices: 61028--61071 Score: 58
Period size: 22 Copynumber: 1.9 Consensus size: 24
61018 CTTTATTATC
61028 TTTTCATCTTCTTA-TCCTTTTCAT
1 TTTTCATCTTCTTACT-CTTTTCAT
61052 TTTTC-TC-TCTTACTCTTTTC
1 TTTTCATCTTCTTACTCTTTTC
61072 CCGTTTCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTCATCTTCTTACTCTTTTCAT
Found at i:62714 original size:11 final size:11
Alignment explanation
Indices: 62698--62722 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62688 CCGACCCAAT
62698 CCATTTAAAAC
1 CCATTTAAAAC
62709 CCATTTAAAAC
1 CCATTTAAAAC
62720 CCA
1 CCA
62723 AATCAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (11 bp):
CCATTTAAAAC
Found at i:62804 original size:17 final size:17
Alignment explanation
Indices: 62782--62820 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
62772 TGAATCAAAT
62782 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
*
62799 TAATTATATATTATTTA
1 TAATTAGATATTATTTA
62816 -AATTA
1 TAATTA
62821 ATTGACAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:64530 original size:81 final size:81
Alignment explanation
Indices: 64394--64711 Score: 485
Period size: 81 Copynumber: 3.9 Consensus size: 81
64384 GAGTAAAAAC
* * * *
64394 TGCTTTAAGATGAAAGGTTAATTGCCTAACTGTGCATTTGGCAGAAACGTACCACTAATACAAGT
1 TGCTTTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTACCACTAATGCAAGT
64459 TAGATGAAAGGTTAAA
66 TAGATGAAAGGTTAAA
* *
64475 TGCTTTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAAAAAGGTGCCACTAATGCAAGT
1 TGCTTTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTACCACTAATGCAAGT
64540 TAGATGAAAGGTTAAA
66 TAGATGAAAGGTTAAA
** *
64556 TGAC-TTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATAATGCAAG
1 TG-CTTTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTACCACTAATGCAAG
64620 TTAGATGAAAGGTTAAA
65 TTAGATGAAAGGTTAAA
* * * * *
64637 TGCCTTTAGATGGAAGGGTAAATGCCTAACTGTGCATTTTGGCAGAAAGGTACCACTAATGCAAG
1 TGCTTTTAGATGAAAAGTTAATTGCCTAACTGTGCA-TTTGGCAGAAAGGTACCACTAATGCAAG
64702 TTAGATGAAA
65 TTAGATGAAA
64712 AACAGTGCAT
Statistics
Matches: 218, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.00
81 181 0.83
82 36 0.17
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (81 bp):
TGCTTTTAGATGAAAAGTTAATTGCCTAACTGTGCATTTGGCAGAAAGGTACCACTAATGCAAGT
TAGATGAAAGGTTAAA
Found at i:64557 original size:23 final size:22
Alignment explanation
Indices: 64531--64576 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
64521 AGGTGCCACT
*
64531 AATGCAAGTTAGATGAAAGGTTA
1 AATG-AAGTTAGATGAAAAGTTA
**
64554 AATGACTTTAGATGAAAAGTTA
1 AATGAAGTTAGATGAAAAGTTA
64576 A
1 A
64577 TTGCCTAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (22 bp):
AATGAAGTTAGATGAAAAGTTA
Found at i:64638 original size:23 final size:22
Alignment explanation
Indices: 64612--64661 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
64602 AGGTGTCAAT
*
64612 AATGCAAGTTAGATGAAAGGTTA
1 AATGC-AGTTAGATGAAAGGGTA
** *
64635 AATGCCTTTAGATGGAAGGGTA
1 AATGCAGTTAGATGAAAGGGTA
64657 AATGC
1 AATGC
64662 CTAACTGTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (22 bp):
AATGCAGTTAGATGAAAGGGTA
Found at i:64646 original size:22 final size:22
Alignment explanation
Indices: 64620--64663 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
64610 ATAATGCAAG
*
64620 TTAGATGAAAGGTTAAATGCCT
1 TTAGATGAAAGGGTAAATGCCT
*
64642 TTAGATGGAAGGGTAAATGCCT
1 TTAGATGAAAGGGTAAATGCCT
64664 AACTGTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (22 bp):
TTAGATGAAAGGGTAAATGCCT
Found at i:65660 original size:32 final size:32
Alignment explanation
Indices: 65605--65668 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
65595 GTGTATGAAT
*
65605 CACAACAGAGTCAATATTGCATTCAGATAATG
1 CACAACAGAGTCAATATTACATTCAGATAATG
* * *
65637 CACATCAGAGTTAGTATTACATTCAGATAATG
1 CACAACAGAGTCAATATTACATTCAGATAATG
65669 AAAAATAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (32 bp):
CACAACAGAGTCAATATTACATTCAGATAATG
Found at i:66983 original size:13 final size:13
Alignment explanation
Indices: 66939--66983 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
66929 TAATTTTTAT
66939 ATTAATTATAATC
1 ATTAATTATAATC
*
66952 TTTATATTATAGATC
1 ATTA-ATTATA-ATC
66967 -TTAATTATAATC
1 ATTAATTATAATC
66979 ATTAA
1 ATTAA
66984 ATTAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 9 0.32
15 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:67518 original size:23 final size:23
Alignment explanation
Indices: 67488--67535 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
67478 TACATGACAA
*
67488 CAGCAAGCAACATTGCATCAATT
1 CAGCAAGCAACATTGCAGCAATT
* *
67511 CAGCAAGCATCATTGTAGCAATT
1 CAGCAAGCAACATTGCAGCAATT
67534 CA
1 CA
67536 ACATTCTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (23 bp):
CAGCAAGCAACATTGCAGCAATT
Found at i:68328 original size:44 final size:45
Alignment explanation
Indices: 68208--68333 Score: 191
Period size: 47 Copynumber: 2.8 Consensus size: 45
68198 ATATAAATTC
68208 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
68253 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCCATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
68300 CTTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
68334 GTATGCTTAC
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
44 24 0.32
45 10 0.13
46 2 0.03
47 39 0.52
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:68534 original size:59 final size:59
Alignment explanation
Indices: 68442--68570 Score: 168
Period size: 59 Copynumber: 2.2 Consensus size: 59
68432 TGTACTGCTA
* * * **
68442 TCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
* * ** *
68501 TCCCGAATATGACACATGAGGTCATGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
68560 TCCCGAATATG
1 TCCCGAATATG
68571 CAGCCTGCTG
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:72384 original size:17 final size:17
Alignment explanation
Indices: 72348--72428 Score: 74
Period size: 17 Copynumber: 4.5 Consensus size: 17
72338 ACAAGTGAAT
*
72348 TTTTTTTTCATC-TCTCA
1 TTTTTTTTC-TCTTTTCA
*
72365 TTTTTTTTCTCTTTTTA
1 TTTTTTTTCTCTTTTCA
*
72382 TTTTCTTTCTCATTTTCA
1 TTTTTTTTCTC-TTTTCA
72400 TTTTTTTTTCTTCGTTTTCA
1 -TTTTTTTTC-TC-TTTTCA
72420 TTTTCTTTT
1 TTTT-TTTT
72429 TTTTATCTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.04
17 22 0.42
18 5 0.09
19 12 0.23
20 12 0.23
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTCA
Found at i:72405 original size:26 final size:25
Alignment explanation
Indices: 72376--72440 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
72366 TTTTTTTCTC
72376 TTTTTATTTTCTTTCTCATTTTCATT
1 TTTTTATTTTCTTT-TCATTTTCATT
*
72402 TTTTT-TTCTTCGTTTTCATTTTCTTT
1 TTTTTATT-TTC-TTTTCATTTTCATT
*
72428 TTTTTATCTTCTT
1 TTTTTATTTTCTT
72441 CTGTTTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 4 0.12
26 26 0.76
27 4 0.12
ACGTcount: A:0.08, C:0.15, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTCTTTTCATTTTCATT
Found at i:72409 original size:19 final size:18
Alignment explanation
Indices: 72346--72428 Score: 80
Period size: 18 Copynumber: 4.5 Consensus size: 18
72336 CCACAAGTGA
*
72346 ATTTTTTTT-TCATCTCTC
1 ATTTTTTTTCTCAT-TTTC
*
72364 ATTTTTTTTCTC-TTTTT
1 ATTTTTTTTCTCATTTTC
*
72381 ATTTTCTTTCTCATTTTC
1 ATTTTTTTTCTCATTTTC
*
72399 ATTTTTTTTTCTTCGTTTTC
1 A-TTTTTTTTC-TCATTTTC
72419 ATTTTCTTTT
1 ATTTT-TTTT
72429 TTTTATCTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.24
18 15 0.28
19 14 0.26
20 12 0.22
ACGTcount: A:0.08, C:0.17, G:0.01, T:0.73
Consensus pattern (18 bp):
ATTTTTTTTCTCATTTTC
Found at i:72442 original size:17 final size:16
Alignment explanation
Indices: 72422--72460 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
72412 CGTTTTCATT
72422 TTCTTTTTTTTATCTTC
1 TTCTTTTTTTT-TCTTC
72439 TTCTGTTTTTTTTCTTC
1 TTCT-TTTTTTTTCTTC
72456 TTCTT
1 TTCTT
72461 ATAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.77
Consensus pattern (16 bp):
TTCTTTTTTTTTCTTC
Found at i:72453 original size:14 final size:14
Alignment explanation
Indices: 72401--72456 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
72391 TCATTTTCAT
72401 TTTTTTTTCTTC-G
1 TTTTTTTTCTTCTG
72414 TTTTCATTTTCTT-T-
1 TTTT--TTTTCTTCTG
72428 TTTTTATCTTCTTCTG
1 TTTTT-T-TTCTTCTG
72444 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
72457 TCTTATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 16 0.44
15 9 0.25
16 5 0.14
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTTTTTCTTCTG
Found at i:72469 original size:2 final size:2
Alignment explanation
Indices: 72460--72497 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
72450 TTCTTCTTCT
72460 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
72498 TTAGCTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75303 original size:59 final size:58
Alignment explanation
Indices: 75169--75305 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 58
75159 ATAAGCACTG
* * * **
75169 TAGTGCTATCCCGAATATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTT
1 TAGTG-TATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
* ** *
75228 AAGTACAGTCCTGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
1 TAGTGTA-TCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
75287 TAGTGTATTCCCGAATATG
1 TAGTGTA-TCCCGAATATG
75306 CAGCCTGTTG
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
58 1 0.02
59 62 0.98
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (58 bp):
TAGTGTATCCCGAATATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTT
Found at i:82703 original size:28 final size:27
Alignment explanation
Indices: 82672--82762 Score: 101
Period size: 28 Copynumber: 3.3 Consensus size: 27
82662 CTTATGTACC
82672 TAATTGCACCAAAATAAAATTAGATACT
1 TAATTGCACCAAAA-AAAATTAGATACT
* * *
82700 TAATTGCACCATTAAAAAGTTAGATACC
1 TAATTGCACCA-AAAAAAATTAGATACT
* * *
82728 AAATTGCACCCAAAGAAAATTAGGTACT
1 TAATTGCA-CCAAAAAAAATTAGATACT
82756 TAATTGC
1 TAATTGC
82763 TTCATTTAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
28 46 0.90
29 5 0.10
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.27
Consensus pattern (27 bp):
TAATTGCACCAAAAAAAATTAGATACT
Found at i:84146 original size:17 final size:17
Alignment explanation
Indices: 84097--84146 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 17
84087 TGATATTTAA
* *
84097 ATTTTAAACAATTTTAT
1 ATTTTAAAAAATATTAT
84114 ATTTTAAATTAAAATATTAT
1 ATTTT-AA--AAAATATTAT
84134 ATTTTAAAAAATA
1 ATTTTAAAAAATA
84147 AGTCCTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 11 0.39
18 2 0.07
19 2 0.07
20 13 0.46
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTAAAAAATATTAT
Found at i:92322 original size:135 final size:136
Alignment explanation
Indices: 92065--92336 Score: 408
Period size: 135 Copynumber: 2.0 Consensus size: 136
92055 ACTTAAGCGC
* **
92065 CGAAATGGTAATTCACAAACTCATTATGAATTCCATAGATGCACACATAGTGTCGAAAGTACATG
1 CGAAATGGTAATTCACAAACTCATTATGAATTCCATAGATGCACACATAATGTCGAAAGTACACA
* *
92130 TAAGACTGATACGAAAATACAACATATGCATTAAAAAAATCAATCGATAACCCTCATACAC-AAG
66 TAAGACTGATACGAAAATACAACATATACATTAAAAAAATCAATCGATAACCATCATACACAAAG
92194 GTATGT
131 GTATGT
* *
92200 CGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACATAATGTCGAAATTACACA
1 CGAAATGGTAATTCACAAACTCATTATGAATTCCATAGATGCACACATAATGTCGAAAGTACACA
*
92265 T-AGTACTGATACGAAAA-AGCAACATATACATTAAACAAAATCGATCGA-AACCATCATACACA
66 TAAG-ACTGATACGAAAATA-CAACATATACATTAAA-AAAATCAATCGATAACCATCATACACA
*
92327 AATGTATGT
128 AAGGTATGT
92336 C
1 C
92337 TCAATGCGCC
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
134 3 0.02
135 101 0.81
136 20 0.16
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (136 bp):
CGAAATGGTAATTCACAAACTCATTATGAATTCCATAGATGCACACATAATGTCGAAAGTACACA
TAAGACTGATACGAAAATACAACATATACATTAAAAAAATCAATCGATAACCATCATACACAAAG
GTATGT
Found at i:94454 original size:57 final size:57
Alignment explanation
Indices: 94361--94476 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
94351 ATCCTTAATC
* *
94361 ACTCGACCAATTAATAAATTTCATATAGCTATTATTTTTTACTAAGGAGATTTTATA
1 ACTCAACCAATTAATAAATTTCAGATAGCTATTATTTTTTACTAAGGAGATTTTATA
*
94418 ACTCAACCAATTAATAAATTTCAGATAGTTATTATTTTTTACTAAGGAGATTTTATA
1 ACTCAACCAATTAATAAATTTCAGATAGCTATTATTTTTTACTAAGGAGATTTTATA
94475 AC
1 AC
94477 ATTTTCATAC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (57 bp):
ACTCAACCAATTAATAAATTTCAGATAGCTATTATTTTTTACTAAGGAGATTTTATA
Found at i:98494 original size:20 final size:18
Alignment explanation
Indices: 98462--98510 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
98452 CATATGTAAG
*
98462 AATAATAAT-ATATATGA
1 AATAAAAATAATATATGA
*
98479 TAATAAAACATAATATATTA
1 -AATAAAA-ATAATATATGA
98499 AATAAAAATAAT
1 AATAAAAATAAT
98511 TAAAGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATAAAAATAATATATGA
Found at i:98509 original size:18 final size:21
Alignment explanation
Indices: 98465--98510 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
98455 ATGTAAGAAT
98465 AATAATATATATGATAATAAA
1 AATAATATATATGATAATAAA
98486 ACATAATATAT-T-A-AATAAA
1 A-ATAATATATATGATAATAAA
98505 AATAAT
1 AATAAT
98511 TAAAGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 1 0.04
21 2 0.08
22 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATATATATGATAATAAA
Found at i:98521 original size:22 final size:23
Alignment explanation
Indices: 98496--98546 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
98486 ACATAATATA
* *
98496 TTAAATAAA-AATAATTAAAGAT
1 TTAAATAAAGAAAAATTAAAAAT
98518 TTAAA-AAAGAAAAATTAAAAAT
1 TTAAATAAAGAAAAATTAAAAAT
*
98540 TAAAATA
1 TTAAATA
98547 TGAATTGGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 20 0.83
23 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (23 bp):
TTAAATAAAGAAAAATTAAAAAT
Found at i:100274 original size:106 final size:106
Alignment explanation
Indices: 100157--100828 Score: 807
Period size: 106 Copynumber: 6.3 Consensus size: 106
100147 GTGTTGTTCC
* * * * *
100157 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAA
* * * *
100222 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTG
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTG
* * *
100263 GAGTCCAATATCCTTCG-TGGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACA
** * * *
100327 GTCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGTTGTCTT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTG
*
100369 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAA-TGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAA
* * * *
100433 CCAGCGGTCCATTCG-TCGTGAAGTTGAACTTGTGTCGTCTG
66 CCAGCCGCCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTG
* * *
100474 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATT-GAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGA-AAATTGTTTATTGACA
*** * * *
100538 GTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTG
* *
100580 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAA
* * * * * *
100645 CCAACGGTCCCTTCG-TCGTGAATTTTAACTTGTGTTGCCTG
66 CCAGCCGCCCCTTCGCT-GTGAAGTTGAACTTGTGTTGTCTG
** * * *
100686 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTAGCTCTGAAATT-GAGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGA-AAATTGTTTATTGACA
** * * *
100750 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
65 ACCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTG
*
100792 GAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGGCT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT
100829 TTAGTAAAAC
Statistics
Matches: 473, Mismatches: 83, Indels: 20
0.82 0.14 0.03
Matches are distributed among these distances:
104 3 0.01
105 90 0.19
106 376 0.79
107 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTGTTTATTGACAA
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTG
Found at i:100380 original size:212 final size:212
Alignment explanation
Indices: 100157--100826 Score: 1119
Period size: 212 Copynumber: 3.2 Consensus size: 212
100147 GTGTTGTTCC
* * * *
100157 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGAAAATTGTTTATTGACAA
* *
100222 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTGGAGTCCAATATCCTTCGTGGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTGGAGTCCAATATCCTTCGTTGTGAA
* *
100287 GTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTATGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGT
*
100352 TGAGCTTGTGTTGTCTT
196 TGAGCTTGTGCTGTCTT
* *
100369 GAGTCCAATATCCTTCACTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAA-TGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGAAAATTGTTTATTGACAA
* * *
100433 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGTGTCGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTGGAGTCCAATATCCTTCGTTGTGAA
*
100498 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGT
100563 TGAGCTTGTGCTGTCTT
196 TGAGCTTGTGCTGTCTT
*
100580 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTT-TGAAATTGGGAAATTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG-TTCTGAAATTGGAAAATTGTTTATTGACA
* * * *
100644 ACCAACGGTCCCTTCGTCGTGAATTTTAACTTGTGTTGCCTGGAGTCCAATATCCTTCATTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTGGAGTCCAATATCCTTCGTTGTGA
*
100709 AGTTGAAATTAGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAG
130 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAG
100774 TTGAGCTTGTGCTGTCTT
195 TTGAGCTTGTGCTGTCTT
*
100792 GAGTCCAATACCCTTCGCTGTGAAGTTGAAATTGG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGG
100827 CTTTAGTAAA
Statistics
Matches: 428, Mismatches: 28, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
211 196 0.46
212 232 0.54
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (212 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGAAAATTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGCCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGT
TGAGCTTGTGCTGTCTT
Found at i:101603 original size:8 final size:7
Alignment explanation
Indices: 101588--101629 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 7
101578 CCTTATTTTC
101588 TTTTCTT
1 TTTTCTT
101595 TTGTTCTT
1 TT-TTCTT
101603 TTTTCTCT
1 TTTTCT-T
101611 TTTTCTCT
1 TTTTCT-T
101619 TTTTCTT
1 TTTTCTT
101626 TTTT
1 TTTT
101630 TTAATTTAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.33
8 22 0.67
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:101631 original size:17 final size:15
Alignment explanation
Indices: 101588--101630 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
101578 CCTTATTTTC
*
101588 TTTTCTTTTGTTCTT
1 TTTTCTTTTTTTCTT
*
101603 TTTTCTCTTTTTCTCT
1 TTTTCTTTTTTTCT-T
101619 TTTTCTTTTTTT
1 TTTTCTTTTTTT
101631 TAATTTAGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:111743 original size:28 final size:27
Alignment explanation
Indices: 111691--111743 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
111681 AGACGTTAAA
*
111691 AAACGAAAATGAATAAAGTAAAAAAGG
1 AAACGAAAATGAATAAAATAAAAAAGG
*
111718 AAAC-AAAATGAAGATAAAATAGAAAA
1 AAACGAAAATG-A-ATAAAATAAAAAA
111744 TAAAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 5 0.23
28 11 0.50
ACGTcount: A:0.70, C:0.04, G:0.15, T:0.11
Consensus pattern (27 bp):
AAACGAAAATGAATAAAATAAAAAAGG
Found at i:112106 original size:20 final size:18
Alignment explanation
Indices: 112072--112120 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
112062 TACATGTAAG
*
112072 AATAATAAT-ATATATGA
1 AATAAAAATAATATATGA
*
112089 TAATAAAACATAATATATTA
1 -AATAAAA-ATAATATATGA
112109 AATAAAAATAAT
1 AATAAAAATAAT
112121 TAAAGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATAAAAATAATATATGA
Found at i:112119 original size:18 final size:21
Alignment explanation
Indices: 112075--112120 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
112065 ATGTAAGAAT
112075 AATAATATATATGATAATAAA
1 AATAATATATATGATAATAAA
112096 ACATAATATAT-T-A-AATAAA
1 A-ATAATATATATGATAATAAA
112115 AATAAT
1 AATAAT
112121 TAAAGATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 1 0.04
21 2 0.08
22 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAATATATATGATAATAAA
Found at i:121083 original size:22 final size:22
Alignment explanation
Indices: 121038--121083 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
121028 ACTGGTTATT
* *
121038 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCACGA
*
121060 ATATATATGATGTTTATTACGA
1 ATATATATGATGTTTATCACGA
121082 AT
1 AT
121084 GTTACTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
ATATATATGATGTTTATCACGA
Found at i:122817 original size:19 final size:20
Alignment explanation
Indices: 122771--122824 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
122761 AAACTTTTGT
* *
122771 AAAGTTTCGAAACTCTTAAT
1 AAAGTTTCAAAACTCTTAAC
122791 AGAAGTTTCAAAACTCTT-AC
1 A-AAGTTTCAAAACTCTTAAC
*
122811 AAAGTTTCCAAACT
1 AAAGTTTCAAAACT
122825 ATGAACAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.40
20 3 0.10
21 15 0.50
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAGTTTCAAAACTCTTAAC
Found at i:143502 original size:140 final size:139
Alignment explanation
Indices: 143317--143931 Score: 505
Period size: 139 Copynumber: 4.4 Consensus size: 139
143307 CTAAAAATTT
* * * ** * *
143317 AGGCTTTAATAGTAAAATCTAATGAATTTTTACAATTTTATTGAATTGAATAATTAAAATTGAAC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAA-TTTATTGAATTGAATAATTAAAATGGAAC
* * * *
143382 CTCGGGCAAAAAGGCATGGATCAAATTAAAATTTTGCCTAAAATCAAGGACTATGGTGAAATTAA
65 CTCGGGCAAAAAGGCATGGACCAAATTAAAAATTT-CCTAAAATAAAGGACTAAGGTGAAATTAA
*
143447 ACCTAAGGTGA
129 ACCTAAGGTAA
* * * **
143458 AGGCTCTAATATTAAAACCTGACAAATTTTAATAGTTTATTGAATCAAATAATTAAAATGGAACC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
** * * *
143523 TCAGGAAAAAAAAGGCAAGGACCAAATTAAAAAATTCATCC-AAATTAAA-GACTAAGGTAAAAT
66 TC-GG-GCAAAAAGGCATGGACCAAATT-AAAAATT--TCCTAAAATAAAGGACTAAGGTGAAAT
143586 TAAACCTAAGGTAA
126 TAAACCTAAGGTAA
* * * *
143600 AGGCTCTAATATTAAAATCT-A-AATTTTTAAACAATTTATTGATTTGAATAATTAAAATGAAAC
1 AGGCTCTAATATTAAAACCTAACAAATTTT-AACAATTTATTGAATTGAATAATTAAAATGGAAC
* * * * * * *
143663 CTCGAGCAAAAA--CATGAGGACCAAATTGAAAATTCCCTTACATTAAAGGACTAAAGTGAAGTT
65 CTCGGGCAAAAAGGCAT--GGACCAAATTAAAAATTTCC-TAAAATAAAGGACTAAGGTGAAATT
* *
143726 AAACCAAAGGTGA
127 AAACCTAAGGTAA
* * * * * ** *
143739 AGGATCTAATATTAAATCTTAATAACTTTTAACACCTTATTAAATTGAATAATTAAAATGGAACC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
** * * * * *
143804 TTAGGC-AAAAGGCAAT-GATCAAATTAAAAATTCACCTAAATTAAA--AGTACA-CTGAAATTA
66 TCGGGCAAAAAGGC-ATGGACCAAATTAAAAATT-TCCTAAAATAAAGGACTA-AGGTGAAATTA
*
143864 AACCTAATGTAA
128 AACCTAAGGTAA
* * ** * **
143876 ATGCTCTAATATTAAAACCTAACCAATTTTAGTAATTTATTTAATCAAATAATTAA
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAA
143932 TTTGGGACCC
Statistics
Matches: 377, Mismatches: 79, Indels: 40
0.76 0.16 0.08
Matches are distributed among these distances:
136 2 0.01
137 63 0.17
138 14 0.04
139 80 0.21
140 72 0.19
141 67 0.18
142 64 0.17
143 12 0.03
144 2 0.01
145 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (139 bp):
AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
TCGGGCAAAAAGGCATGGACCAAATTAAAAATTTCCTAAAATAAAGGACTAAGGTGAAATTAAAC
CTAAGGTAA
Found at i:143587 original size:142 final size:139
Alignment explanation
Indices: 143317--143931 Score: 521
Period size: 141 Copynumber: 4.4 Consensus size: 139
143307 CTAAAAATTT
* * * ** * *
143317 AGGCTTTAATAGTAAAATCTAATGAATTTTTACAATTTTATTGAATTGAATAATTAAAATTGAAC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAA-TTTATTGAATTGAATAATTAAAATGGAAC
** * * * ** * * *
143382 CTCGGGCAAAAAGGCATGGATCAAATTAAAATTTTGCCTAAAATCAAGGACTATGGTGAAATTAA
65 CTCGGAAAAAAAGGCAAGGACCAAATTAAAAATTCACCT-AAATTAAAGACTAAGGTGAAATTAA
*
143447 ACCTAAGGTGA
129 ACCTAAGGTAA
* * * **
143458 AGGCTCTAATATTAAAACCTGACAAATTTTAATAGTTTATTGAATCAAATAATTAAAATGGAACC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
*
143523 TCAGGAAAAAAAAGGCAAGGACCAAATTAAAAAATTCATCC-AAATTAAAGACTAAGGTAAAATT
66 TC-GG-AAAAAAAGGCAAGGACCAAATT-AAAAATTCA-CCTAAATTAAAGACTAAGGTGAAATT
143587 AAACCTAAGGTAA
127 AAACCTAAGGTAA
* * * *
143600 AGGCTCTAATATTAAAATCT-A-AATTTTTAAACAATTTATTGATTTGAATAATTAAAATGAAAC
1 AGGCTCTAATATTAAAACCTAACAAATTTT-AACAATTTATTGAATTGAATAATTAAAATGGAAC
* * * * * *
143663 CTCGAGCAAAAACATG--AGGACCAAATTGAAAATTC-CCTTACATTAAAGGACTAAAGTGAAGT
65 CTCG-G-AAAAAAAGGCAAGGACCAAATTAAAAATTCACC-TAAATTAAA-GACTAAGGTGAAAT
* *
143725 TAAACCAAAGGTGA
126 TAAACCTAAGGTAA
* * * * * ** *
143739 AGGATCTAATATTAAATCTTAATAACTTTTAACACCTTATTAAATTGAATAATTAAAATGGAACC
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
* * * * * *
143804 TTAGG--CAAAAGGCAATGATCAAATTAAAAATTCACCTAAATTAAA-AGTACA-CTGAAATTAA
66 -TCGGAAAAAAAGGCAAGGACCAAATTAAAAATTCACCTAAATTAAAGACTA-AGGTGAAATTAA
*
143865 ACCTAATGTAA
129 ACCTAAGGTAA
* * ** * **
143876 ATGCTCTAATATTAAAACCTAACCAATTTTAGTAATTTATTTAATCAAATAATTAA
1 AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAA
143932 TTTGGGACCC
Statistics
Matches: 378, Mismatches: 80, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
136 2 0.01
137 65 0.17
138 15 0.04
139 74 0.20
140 70 0.19
141 76 0.20
142 68 0.18
143 6 0.02
144 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (139 bp):
AGGCTCTAATATTAAAACCTAACAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
TCGGAAAAAAAGGCAAGGACCAAATTAAAAATTCACCTAAATTAAAGACTAAGGTGAAATTAAAC
CTAAGGTAA
Found at i:143596 original size:17 final size:18
Alignment explanation
Indices: 143564--143600 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
143554 AAATTCATCC
143564 AAATTAAAGACTAAGGTA
1 AAATTAAAGACTAAGGTA
*
143582 AAATTAAA-CCTAAGGTA
1 AAATTAAAGACTAAGGTA
143599 AA
1 AA
143601 GGCTCTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.57, C:0.08, G:0.14, T:0.22
Consensus pattern (18 bp):
AAATTAAAGACTAAGGTA
Found at i:143847 original size:139 final size:136
Alignment explanation
Indices: 143317--143891 Score: 509
Period size: 140 Copynumber: 4.1 Consensus size: 136
143307 CTAAAAATTT
* * * *
143317 AGGCTTTAATAGTAAAATCTAATGAATTTTTACAATTTTATTGAATTGAATAATTAAAATTGAAC
1 AGGCTCTAATA-TTAAATCTAA--AATTTTAACAA-TTTATTGAATTGAATAATTAAAATGGAAC
* * * * ** * * *
143382 CTCGGGCAAAAAGGCATGGATCAAATTAAAATTTTGCCTAAAATCAAGGACTATGGTGAAATTAA
62 CTCAGGC-AAAAGGCAAGGACCAAATTAAAAATTCACCTAAATTAAAGGACTAAGGTGAAATTAA
143447 ACCTAAGGTGA
126 ACCTAAGGTGA
* * * **
143458 AGGCTCTAATATTAAAACCTGACAAATTTTAATAGTTTATTGAATCAAATAATTAAAATGGAACC
1 AGGCTCTAATATT-AAATCT-A-AAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
* *
143523 TCAGGAAAAAAAAGGCAAGGACCAAATTAAAAAATTCATCC-AAATTAAA-GACTAAGGTAAAAT
63 TCAGG---CAAAAGGCAAGGACCAAATT-AAAAATTCA-CCTAAATTAAAGGACTAAGGTGAAAT
*
143586 TAAACCTAAGGTAA
123 TAAACCTAAGGTGA
* * *
143600 AGGCTCTAATATTAAAATCTAAATTTTTAAACAATTTATTGATTTGAATAATTAAAATGAAACCT
1 AGGCTCTAATATT-AAATCTAAAATTTT-AACAATTTATTGAATTGAATAATTAAAATGGAACCT
* * * * *
143665 C-GAGCAAAA-ACATGAGGACCAAATTGAAAATTC-CCTTACATTAAAGGACTAAAGTGAAGTTA
64 CAG-GCAAAAGGCA--AGGACCAAATTAAAAATTCACC-TAAATTAAAGGACTAAGGTGAAATTA
*
143727 AACCAAAGGTGA
125 AACCTAAGGTGA
* ** *
143739 AGGATCTAATATTAAATCTTAATAACTTTTAACACCTTATTAAATTGAATAATTAAAATGGAACC
1 AGGCTCTAATATTAAATC-TAA-AA-TTTTAACAATTTATTGAATTGAATAATTAAAATGGAACC
* * * * *
143804 TTAGGCAAAAGGCAATGATCAAATTAAAAATTCACCTAAATTAAA--AGTACA-CTGAAATTAAA
63 TCAGGCAAAAGGCAAGGACCAAATTAAAAATTCACCTAAATTAAAGGACTA-AGGTGAAATTAAA
* *
143866 CCTAATGTAA
127 CCTAAGGTGA
*
143876 ATGCTCTAATATTAAA
1 AGGCTCTAATATTAAA
143892 ACCTAACCAA
Statistics
Matches: 353, Mismatches: 59, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
136 2 0.01
137 35 0.10
138 24 0.07
139 73 0.21
140 79 0.22
141 63 0.18
142 62 0.18
143 13 0.04
144 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (136 bp):
AGGCTCTAATATTAAATCTAAAATTTTAACAATTTATTGAATTGAATAATTAAAATGGAACCTCA
GGCAAAAGGCAAGGACCAAATTAAAAATTCACCTAAATTAAAGGACTAAGGTGAAATTAAACCTA
AGGTGA
Found at i:144727 original size:12 final size:12
Alignment explanation
Indices: 144712--144754 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
144702 GTTATTTAAA
144712 CGGGTATTGGGC
1 CGGGTATTGGGC
*
144724 CGGGTATTGGGT
1 CGGGTATTGGGC
* * *
144736 CGAGAATCGGGC
1 CGGGTATTGGGC
144748 CGGGTAT
1 CGGGTAT
144755 ATATATATAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.14, C:0.16, G:0.47, T:0.23
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:146704 original size:111 final size:111
Alignment explanation
Indices: 146341--147049 Score: 1110
Period size: 111 Copynumber: 6.4 Consensus size: 111
146331 CCCACTACCA
*
146341 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACAGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
146404 TTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
66 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
146449 ATACAGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCACATAC-GAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
*
146513 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTC
66 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
146559 ATATGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGTCCATACGGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
* *
146623 TTCATAAA-TTCATTATGAATTTCTTAGCTTTTGGACACAAAGTACCC
66 TTCATAAACTT-ATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
146670 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
*
146735 TTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
66 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
146781 ATACGGAAATTCATAAACTAATTATGAATTTCTTAGCTTTTGCACACAAAGTGTCCATAAGGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
146846 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
66 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
146892 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTACACACAAAGTGCCCATACGAAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
* * *
146956 TTCATAAACTTAGTATGATTTTCTTAGTTTTTGCACACAAAGTGCTC
66 TTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
** * *
147003 ATA-AAAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGC-TTTTGCACAC
147050 TTAGTGTCAT
Statistics
Matches: 554, Mismatches: 36, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
108 4 0.01
109 84 0.15
110 176 0.32
111 229 0.41
112 60 0.11
113 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (111 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAA
TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:147049 original size:56 final size:55
Alignment explanation
Indices: 146341--147036 Score: 1096
Period size: 55 Copynumber: 12.6 Consensus size: 55
146331 CCCACTACCA
146341 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
146395 ATACAGAAATTCATAAACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
146449 ATACAGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
146505 ATAC-GAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
146559 ATATGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
146614 ATACGGAAATTCATAAA-TTCATTATGAATTTCTTAGCTTTTGGACACAAAGTACCC
1 ATACGGAAATTCATAAACTT-ATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
146670 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
146726 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
146781 ATACGGAAATTCATAAACTAATTATGAATTTCTTAGCTTTTGCACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
146837 ATAAGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
146892 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * * *
146947 ATACGAAAATTCATAAACTTAGTATGATTTTCTTAGTTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
** *
147003 ATA-AAAAATTCATAAACTAATTATGAATTTCTTA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTA
147037 ACTTTTTGCA
Statistics
Matches: 601, Mismatches: 32, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
54 80 0.13
55 324 0.54
56 196 0.33
57 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:148120 original size:8 final size:8
Alignment explanation
Indices: 148107--148137 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
148097 TAACTTAGGT
148107 TTTTCCCC
1 TTTTCCCC
148115 TTTTCCCC
1 TTTTCCCC
148123 TTTTTCCCC
1 -TTTTCCCC
148132 TTTTCC
1 TTTTCC
148138 ATACTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (8 bp):
TTTTCCCC
Found at i:148127 original size:9 final size:9
Alignment explanation
Indices: 148106--148135 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
148096 ATAACTTAGG
148106 TTTTTCCCC
1 TTTTTCCCC
148115 -TTTTCCCC
1 TTTTTCCCC
148123 TTTTTCCCC
1 TTTTTCCCC
148132 TTTT
1 TTTT
148136 CCATACTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTCCCC
Found at i:151339 original size:56 final size:56
Alignment explanation
Indices: 151162--152040 Score: 1368
Period size: 56 Copynumber: 15.8 Consensus size: 56
151152 CACACTACCA
* * *
151162 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAGAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
151217 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG--TTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
*
151271 ATAC-AGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGTCC
1 ATACGA-AAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
151327 ATACGAAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTTCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
151382 ATAC-ATAAATTCATAAACTTATTGTGAATTTCTTAG-TTTTGCACACAAAGTGCCC
1 ATACGA-AAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * **
151437 ATACGGAAATTCATAAACTCATTATGAATTTCTTTGCTTTTGCACACAAAGTGCGT
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
151493 ATACGAAGATTCATAAACACATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
151549 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* *
151605 ATACG-AAATTCATAAACTTATTATGAATTTCTTAG-TTTTTCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
151659 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
*
151715 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
151771 ATAC-AGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGA-AAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
*
151827 ATACGAAAATTCATAAACTCATTATGAATTTCTTA-CTTTTGCACGCAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
151882 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTTCACACAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * * *
151937 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTTGCACATAAAGTGCCC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
* * *
151993 ATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACAC
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGC-TTTTGCACAC
152041 TCAGTACCAT
Statistics
Matches: 770, Mismatches: 40, Indels: 26
0.92 0.05 0.03
Matches are distributed among these distances:
54 74 0.10
55 298 0.39
56 387 0.50
57 11 0.01
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (56 bp):
ATACGAAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCC
Found at i:151566 original size:222 final size:221
Alignment explanation
Indices: 151168--152040 Score: 1430
Period size: 222 Copynumber: 3.9 Consensus size: 221
151158 ACCAATACGG
*
151168 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAGAGTGCCCATACGGAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
* *
151233 ACTTATTATGAATTTCTTAG-TTTGCACACAAAGTGCCCATACAGAAATTCATAAACTCATTATG
66 ACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* *
151297 AATTTCTTAGCTTTTGCACACAAAGTGTCCATACGAAAATTCATAAACTTATTATGAATTTCTTA
131 AATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTCTTA
*
151362 G-TTTTGCACACAAAGTTCCCATACA
196 GCTTTTGCACACAAAGTGCCCATACA
*
151387 TAAATTCATAAACTTATTGTGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATA
1 -AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATA
* ** *
151452 AACTCATTATGAATTTCTTTGCTTTTGCACACAAAGTGCGTATAC-GAAGATTCATAAACACATT
65 AACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGAA-ATTCATAAACTCATT
151516 ATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTC
128 ATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTC
*
151581 TTAGCTTTTGCACACAAAGTGCCCATACG
193 TTAGCTTTTGCACACAAAGTGCCCATACA
* *
151610 AAATTCATAAACTTATTATGAATTTCTTAGTTTTTCACACAAAGTGCCCATACGAAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
151675 ACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTAT
66 ACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTAT
151740 GAATTTCTTAGCTTTTGCACACAAAGTGCCCATAC-AGAAATTCATAAACTCATTATGAATTTCT
130 GAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGA-AAATTCATAAACTCATTATGAATTTCT
151804 TAGCTTTTGCACACAAAGTGCCCATACGA
194 TAGCTTTTGCACACAAAGTGCCCATAC-A
* * *
151833 AAATTCATAAACTCATTATGAATTTCTTACTTTTGCACGCAAAGTGCCCATACGGAAATTCATAA
1 AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
* * *
151898 ACTTATTATGAATTTCTTAGTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATG
66 ACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
* * * *
151963 AATTTCTTAGTTTTTGCACATAAAGTGCCCATACGGAAATTCATAAACTAATTATGAATTTCTTA
131 AATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTCTTA
*
152028 ACTTTTTGCACAC
196 GC-TTTTGCACAC
152041 TCAGTACCAT
Statistics
Matches: 612, Mismatches: 32, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
220 81 0.13
221 4 0.01
222 413 0.67
223 114 0.19
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (221 bp):
AAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAA
ACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATG
AATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTCTTA
GCTTTTGCACACAAAGTGCCCATACA
Found at i:151583 original size:278 final size:277
Alignment explanation
Indices: 151162--152040 Score: 1466
Period size: 278 Copynumber: 3.2 Consensus size: 277
151152 CACACTACCA
* * *
151162 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAGAGTGCCCATACGGAAA
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACAGAAA
*
151226 TTCATAAACTTATTATGAATTTCTTAG--TTTGCACACAAAGTGCCCATAC-AGAAATTCATAAA
66 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGA-AAATTCATAAA
*
151288 CTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGTCCATACGAAAATTCATAAACTTATTATG
130 CTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACG-AAATTCATAAACTTATTATG
* * *
151353 AATTTCTTAGTTTTGCACACAAAGTTCCCATACATAAATTCATAAACTTATTGTGAATTTCTTAG
194 AATTTCTTAGTTTTTCACACAAAGTGCCCATACA-AAATTCATAAACTTATTATGAATTTCTTAG
151418 -TTTTGCACACAAAGTGCCC
258 CTTTTGCACACAAAGTGCCC
* **
151437 ATACGGAAATTCATAAACTCATTATGAATTTCTTTGCTTTTGCACACAAAGTGCGTATAC-GAAG
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACAGAA-
*
151501 ATTCATAAACACATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAA
65 ATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAA
151566 CTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAATTCATAAACTTATTATGA
130 CTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAATTCATAAACTTATTATGA
*
151631 ATTTCTTAGTTTTTCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAATTTCTTAGC
195 ATTTCTTAGTTTTTCACACAAAGTGCCCATAC-AAAATTCATAAACTTATTATGAATTTCTTAGC
151696 TTTTGCACACAAAGTGCCC
259 TTTTGCACACAAAGTGCCC
151715 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACAGAAA
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACAGAAA
151780 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAAC
66 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAAC
*
151845 TCATTATGAATTTCTTA-CTTTTGCACGCAAAGTGCCCATACGGAAATTCATAAACTTATTATGA
131 TCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATAC-GAAATTCATAAACTTATTATGA
* *
151909 ATTTCTTAGTTTTTCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTCTTAGT
195 ATTTCTTAGTTTTTCACACAAAGTGCCCATAC-AAAATTCATAAACTTATTATGAATTTCTTAGC
*
151974 TTTTGCACATAAAGTGCCC
259 TTTTGCACACAAAGTGCCC
* *
151993 ATACGGAAATTCATAAACTAATTATGAATTTCTTAACTTTTTGCACAC
1 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGC-TTTTGCACAC
152041 TCAGTACCAT
Statistics
Matches: 571, Mismatches: 23, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
275 37 0.06
276 46 0.08
277 102 0.18
278 372 0.65
279 14 0.02
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (277 bp):
ATACGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACAGAAA
TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAAATTCATAAAC
TCATTATGAATTTCTTAGCTTTTGCACACAAAGTGCCCATACGAAATTCATAAACTTATTATGAA
TTTCTTAGTTTTTCACACAAAGTGCCCATACAAAATTCATAAACTTATTATGAATTTCTTAGCTT
TTGCACACAAAGTGCCC
Found at i:153815 original size:16 final size:17
Alignment explanation
Indices: 153796--153828 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
153786 TTTAAAACAA
153796 TTTTAAGA-AAAAATTG
1 TTTTAAGACAAAAATTG
153812 TTTTAAGACAAAAATTG
1 TTTTAAGACAAAAATTG
153829 GTATGCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.36
Consensus pattern (17 bp):
TTTTAAGACAAAAATTG
Found at i:154883 original size:16 final size:16
Alignment explanation
Indices: 154842--154884 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
154832 CAATTAGTAA
*
154842 TTAGCGGTTAGAAAGG
1 TTAGCGGTTAGAAAAG
**
154858 TTAGTTGTTAGAAAAG
1 TTAGCGGTTAGAAAAG
154874 TTAGCGGTTAG
1 TTAGCGGTTAG
154885 CAGAGTCCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.33
Consensus pattern (16 bp):
TTAGCGGTTAGAAAAG
Found at i:155282 original size:16 final size:16
Alignment explanation
Indices: 155241--155283 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
155231 CAATTAGTAA
*
155241 TTAGCGGTTAGAAAGG
1 TTAGCGGTTAGAAAAG
**
155257 TTAGTTGTTAGAAAAG
1 TTAGCGGTTAGAAAAG
155273 TTAGCGGTTAG
1 TTAGCGGTTAG
155284 CAGAGTCCGA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.33, T:0.33
Consensus pattern (16 bp):
TTAGCGGTTAGAAAAG
Found at i:155491 original size:399 final size:393
Alignment explanation
Indices: 154731--155530 Score: 1492
Period size: 399 Copynumber: 2.0 Consensus size: 393
154721 ATTTTATTAT
154731 GTATCCTGTACCATAAATGAGGCGAGTCATACCCCGGGGTGAATTGTCGCAAGGTCGTACATGGT
1 GTATCCTGTACCATAAATGAGGCGAGTCATACCCCGGGGTGAATTGTCGCAAGGTCGTACATGGT
154796 TCGAATGAAATAAAACAAACAAATAATAAAATGTTACAATTAGTAATTAGCGGTTAGAAAGGTTA
66 TCGAATGAAATAAAACAAACAAATAATAAAATGTTACAATTAGTAATTAGCGGTTAGAAAGGTTA
154861 GTTGTTAGAAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCG
131 GTTGTTAGAAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCG
154926 GGTCACTACAAGGTCGAATCAAAATTAGAAATAATAAATAAATAAACAATGGTTAGAATGCAATA
196 GGTCACTACAAGGTCGAATCAAAATTAGAAATAATAAATAAATAAACAATGGTTAGAATGCAATA
154991 AAATAAAAGCCAGTAGTTAATAGAGTCCGAACCTAATAATACGGATCATACCCCAGATCGGTCAC
261 AAATAAAAGCCAGTAGTTAATAGAGTCCGAACCTAATAATACGGATCATACCCCAGATCGGTCAC
155056 CACAAGGTCTAATCGAATATTAGAAACATAAATAAATAAATAACAATGGTTAAAGTGCAATAAAA
326 CACAAGGTCTAATCGAATATTAGAAAC--AAATAAATAAATAACAATGGTTAAAGTGCAATAAAA
155121 TAAAA
389 TAAAA
155126 GTATCCTGTACCATAAATGAGGCGAGTCATACCCCGGGGTGAATTGTCGCAAGGTCGTACATGGT
1 GTATCCTGTACCATAAATGAGGCGAGTCATACCCCGGGGTGAATTGTCGCAAGGTCGTACATGGT
155191 TCGAATATGAAATAAAACAAACAAATAAATAAAATGTTAACAATTAGTAATTAGCGGTTAGAAAG
66 TCG-A-ATGAAATAAAACAAACAAAT-AATAAAATGTT-ACAATTAGTAATTAGCGGTTAGAAAG
155256 GTTAGTTGTTAGAAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGG
127 GTTAGTTGTTAGAAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGG
155321 ATCGGGTCACTACAAGGTCGAATCAAATATTAGAAATAATAAATAAATAAACAATGGTTAGAATG
192 ATCGGGTCACTACAAGGTCGAATCAAA-ATTAGAAATAATAAATAAATAAACAATGGTTAGAATG
155386 CAATAAAATAAAAGCCAGTAGTTAATAGAGTCCGAACCATAATAATACGGATCATACCCCAGATC
256 CAATAAAATAAAAGCCAGTAGTTAATAGAGTCCGAACC-TAATAATACGGATCATACCCCAGATC
155451 GGGTCACCACAAGGTCTAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTAAAGTG
320 -GGTCACCACAAGGTCTAATCGAATATTAGAAAC---AAATAAATAAATAACAATGGTTAAAGTG
155516 CAATAAAATAAAA
381 CAATAAAATAAAA
155529 GT
1 GT
155531 TAGTAGTTAA
Statistics
Matches: 397, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
395 68 0.17
396 1 0.00
397 20 0.05
398 11 0.03
399 118 0.30
400 75 0.19
401 26 0.07
402 33 0.08
403 45 0.11
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (393 bp):
GTATCCTGTACCATAAATGAGGCGAGTCATACCCCGGGGTGAATTGTCGCAAGGTCGTACATGGT
TCGAATGAAATAAAACAAACAAATAATAAAATGTTACAATTAGTAATTAGCGGTTAGAAAGGTTA
GTTGTTAGAAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCG
GGTCACTACAAGGTCGAATCAAAATTAGAAATAATAAATAAATAAACAATGGTTAGAATGCAATA
AAATAAAAGCCAGTAGTTAATAGAGTCCGAACCTAATAATACGGATCATACCCCAGATCGGTCAC
CACAAGGTCTAATCGAATATTAGAAACAAATAAATAAATAACAATGGTTAAAGTGCAATAAAATA
AAA
Found at i:155548 original size:130 final size:130
Alignment explanation
Indices: 155268--155787 Score: 730
Period size: 130 Copynumber: 4.0 Consensus size: 130
155258 TAGTTGTTAG
** * * *
155268 AAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCGGGTCACTA
1 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGCGGATCATACCCCGGATCGGGTCACCA
* *
155333 CAAGGTCGAATCAAATATTAGAAATAATAAATAAAT--A-AACAATGGTTAGAATGCAATAAAAT
66 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTAGAATGCAATAAAAT
** * * *
155395 AAAAGCCAGTAGTTAATAGAGTCCGAACCATAATAATACGGATCATACCCCAGATCGGGTCACCA
1 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGCGGATCATACCCCGGATCGGGTCACCA
*
155460 CAAGGTCTAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTA-AAGTGCAATAAAA
66 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTAGAA-TGCAATAAAA
155524 T
130 T
* *** *
155525 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGTGGATCATAATTCGAATCGGGTCACCA
1 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGCGGATCATACCCCGGATCGGGTCACCA
*
155590 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGATTA-AAGTGCAAT-AAA
66 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTAGAA-TGCAATAAAA
155653 T
130 T
* * * * * *
155654 AAAAGTTAGTAGTTAGCATAGTCTGAACCATAATAATTCAGATCATACCCCGGATCTGGTCACCA
1 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGCGGATCATACCCCGGATCGGGTCACCA
*
155719 CAAGGTCGAATCGAATAATAGAAACAATAAATAAATAAATAAACAAT-GTTAGAATGCAATAAAA
66 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAAT-AACAATGGTTAGAATGCAATAAAA
155783 T
130 T
155784 AAAA
1 AAAA
155788 TTCAATAGTT
Statistics
Matches: 348, Mismatches: 38, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
127 88 0.25
129 109 0.31
130 151 0.43
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (130 bp):
AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGCGGATCATACCCCGGATCGGGTCACCA
CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGGTTAGAATGCAATAAAAT
Found at i:155757 original size:259 final size:257
Alignment explanation
Indices: 155268--155787 Score: 733
Period size: 259 Copynumber: 2.0 Consensus size: 257
155258 TAGTTGTTAG
* * * * * *
155268 AAAAGTTAGCGGTTAGCAGAGTCCGAACTATAATAATGCGGATCATACCCCGGATCGGGTCACTA
1 AAAAGTTAGCAGTTAACAGAGTCCGAACCATAATAATGCGGATCATAACCCGAATCGGGTCACCA
* *
155333 CAAGGTCGAATCAAATATTAGAAATAATAAATAAATAAACAATGGTTAGAATGCAATAAAATAAA
66 CAAGGTCGAATCAAATATTAGAAACAATAAATAAATAAACAATGATTAGAATGCAATAAAATAAA
* *
155398 AGCCAGTAGTTAATAGAGTCCGAACCATAATAATACGGATCATACCCCAGATCGGGTCACCACAA
131 AGCCAGTAGTTAACAGAGTCCGAACCATAATAATACAGATCATACCCCAGATCGGGTCACCACAA
* *
155463 GGTCTAATCGAATATTAGAAACAATAAATAAATAAAT-AACAATGGTTA-AAGTGCAATAAAAT
196 GGTCGAATCGAATAATAGAAACAATAAATAAATAAATAAACAAT-GTTAGAA-TGCAATAAAAT
* * **
155525 AAAAGTTAGTAGTTAACAGAGTCCGAACCATAATAATGTGGATCATAATTCGAATCGGGTCACCA
1 AAAAGTTAGCAGTTAACAGAGTCCGAACCATAATAATGCGGATCATAACCCGAATCGGGTCACCA
*
155590 CAAGGTCGAATCGAATATTAGAAACAATAAATAAATAAATAACAATGATTA-AAGTGCAAT-AAA
66 CAAGGTCGAATCAAATATTAGAAACAATAAATAAAT--A-AACAATGATTAGAA-TGCAATAAAA
** * * * * * *
155653 TAAAAGTTAGTAGTTAGCATAGTCTGAACCATAATAATTCAGATCATACCCCGGATCTGGTCACC
127 TAAAAGCCAGTAGTTAACAGAGTCCGAACCATAATAATACAGATCATACCCCAGATCGGGTCACC
155718 ACAAGGTCGAATCGAATAATAGAAACAATAAATAAATAAATAAACAATGTTAGAATGCAATAAAA
192 ACAAGGTCGAATCGAATAATAGAAACAATAAATAAATAAATAAACAATGTTAGAATGCAATAAAA
155783 T
257 T
155784 AAAA
1 AAAA
155788 TTCAATAGTT
Statistics
Matches: 232, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
257 89 0.38
259 119 0.51
260 24 0.10
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (257 bp):
AAAAGTTAGCAGTTAACAGAGTCCGAACCATAATAATGCGGATCATAACCCGAATCGGGTCACCA
CAAGGTCGAATCAAATATTAGAAACAATAAATAAATAAACAATGATTAGAATGCAATAAAATAAA
AGCCAGTAGTTAACAGAGTCCGAACCATAATAATACAGATCATACCCCAGATCGGGTCACCACAA
GGTCGAATCGAATAATAGAAACAATAAATAAATAAATAAACAATGTTAGAATGCAATAAAAT
Found at i:155786 original size:29 final size:29
Alignment explanation
Indices: 155751--155816 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
155741 AACAATAAAT
155751 AAATAAATAAACAAT-GTTAGA-ATGCAATA
1 AAATAAA-AAACAATAGTTA-ATATGCAATA
**
155780 AAATAAAATTCAATAGTTAATATGCAATA
1 AAATAAAAAACAATAGTTAATATGCAATA
155809 AAATAAAA
1 AAATAAAA
155817 GTTAGTAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 6 0.18
29 27 0.82
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.26
Consensus pattern (29 bp):
AAATAAAAAACAATAGTTAATATGCAATA
Found at i:164285 original size:64 final size:64
Alignment explanation
Indices: 164175--164331 Score: 278
Period size: 64 Copynumber: 2.4 Consensus size: 64
164165 TTAATTGAAT
164175 TTTACATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
1 TTTA-ATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
* * *
164240 TTTAATTTATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAAGAATTATTTTTTGCTTG
1 TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
164304 TTTAATTGATTTGTAAAAGTTGATTTGT
1 TTTAATTGATTTGTAAAAGTTGATTTGT
164332 AAAAGTTGAT
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
64 84 0.95
65 4 0.05
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (64 bp):
TTTAATTGATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTG
Found at i:164328 original size:14 final size:14
Alignment explanation
Indices: 164309--164345 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
164299 GCTTGTTTAA
164309 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
164323 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
164337 TTGATTTGT
1 TTGATTTGT
164346 TGTTTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:167753 original size:670 final size:660
Alignment explanation
Indices: 166450--167780 Score: 2461
Period size: 670 Copynumber: 2.0 Consensus size: 660
166440 ATATAATATA
166450 AGCTGCTAAGATCACAAGCAAGAGAAACGTTAGCCATTAGTTTCATAATTAATGTGAAATGGCAA
1 AGCTGCTAAGATCACAAGCAAGAGAAACGTTAGCCATTAGTTTCATAATTAATGTGAAATGGCAA
**
166515 AATTGGTTGTATATCTAATCATGAAGTAAATAATGAATAAATTTAATCACACCAAAATAGATAAT
66 AATTGGTCATATATCTAATCATGAAGTAAATAATGAATAAATTTAATCACACCAAAATAGATAAT
166580 TCTAACCTCATAAATCCAAACAAATTCAAGTCAATCAATCCACAAATTCAAAATTCCAAAATATT
131 TCTAACCTCATAAATCCAAACAAATTCAAGTCAATCAATCCACAAATTCAAAATTCCAAAATATT
166645 CAAAATATTAAAACAATAAGTTTGGAGTTCAAAGCAAAACATGAATCACATATCCGGATCAGGAG
196 CAAAATATTAAAACAATAAGTTTGGAGTTCAAAGCAAAACATGAATCACATATCCGGATCAGGAG
*
166710 GAGGAAAACGAGCCGCATAGCGGCCATTTCGTTAGTGATGTCATTAATAAGTGCGTTGGTTGCTT
261 GAGGAAAACGAGCCGCATAGCGGCCATTTCGTTAGTGAGGTCATTAATAAGTGCGTTGGTTGCTT
166775 CATTATTTGCACGCATTTCCCGAAGAATTTCTAATTGTTGAGCTCCCATGTGGATAAATGGGACT
326 CATTATTTGCACGCATTTCCCGAAGAATTTCTAATTGTTGAGCTCCCATGTGGATAAATGGGACT
166840 CTATAGAAGTAAAGCGCGAATCCATAGTAGCGTATCGAAAATCGAATGTCTCCATAAAGGATTGG
391 CTATAGAAGTAAAGCGCGAATCCATAGTAGCGTATCGAAAATCGAATGTCTCCATAAAGGATTGG
166905 AAATATGGAGGCATTGGATGTGTTTGTGCTTGCTTTGGGCTGCTCAGGCTCATCTTCGGCTTCAT
456 AAATATGGAGGCATTGGATGTGTTTGTGCTTGCTTTGGGCTGCTCAGGCTCATCTTCGGCTTCAT
*
166970 CGATGTCTCGTATTAATTGCTCAAGCTCGAGATCTTCGTCAACTTCGGGTGGAGCTTGTGAAGAA
521 CGATGTCTCGCATTAATTGCTCAAGCTCGAGATCTTCGTCAACTTCGGGTGGAGCTTGTGAAGAA
167035 CTAGCTCCCGGAGTATTTGCAGAAGATCGAACCCATTCACCGGTTTCCTTATCCTTAATCCATCC
586 CTAGCTCCCGGAGTATTTGCAGAAGATCGAACCCATTCACCGGTTTCCTTATCCTTAATCCATCC
167100 CGCTCTCGTT
651 CGCTCTCGTT
167110 AGCTGCTAAGATCACAAGCAAGAGAAACGTTAGCCATTAGTTTCATAATTAATGTGAAATGGCAA
1 AGCTGCTAAGATCACAAGCAAGAGAAACGTTAGCCATTAGTTTCATAATTAATGTGAAATGGCAA
167175 AATTGGTCATATATCTAATCATGAAGTAAATAATGAATAAATTTAATCACACC-AAATAGATAAT
66 AATTGGTCATATATCTAATCATGAAGTAAATAATGAATAAATTTAATCACACCAAAATAGATAA-
167239 TTCTAACCATTCATAAATCCAAACAAATTCAAAGTCAATCAATCCACAAATTCAAACATTCCAAA
130 TTCTAACC--TCATAAATCCAAACAAATTC-AAGTCAATCAATCCACAAATTCAAA-ATTCCAAA
*
167304 ATATTCAAAATGTTAAAACAATAAGTTTGGAGTTCAAAGCAAAACATTGAATCACATATCCGGAT
191 ATATTCAAAATATTAAAACAATAAGTTTGGAGTTCAAAGCAAAACA-TGAATCACATATCCGGAT
*
167369 CAGGAGGAGGAAAACGAGCTCGCATAGCGGCCATTTCGTTAGTGAGGTCATTAATACGTGCGTTG
255 CAGGAGGAGGAAAACGAGC-CGCATAGCGGCCATTTCGTTAGTGAGGTCATTAATAAGTGCGTTG
167434 GTTGCTTCATTATTTGCACGCATTT-CCGAAG-ATTTCTAATTGTTGAGCTCCCATTGTGGATAA
319 GTTGCTTCATTATTTGCACGCATTTCCCGAAGAATTTCTAATTGTTGAGCTCCCA-TGTGGATAA
167497 ATGGGACTCTATAGAAGTAAAGCGCGAATCCATAGTAGCGTATCGAAAATCGAATGTCTCCATAA
383 ATGGGACTCTATAGAAGTAAAGCGCGAATCCATAGTAGCGTATCGAAAATCGAATGTCTCCATAA
*
167562 AGGATTGGAAATATGGAGGCATTGGATGCGTTTGTTGTGCTTGCTCTTTGGGCTGCTCAGGCTCA
448 AGGATTGGAAATATGGAGGCATTGGAT--GTGT-TTGTGCTTG--CTTTGGGCTGCTCAGGCTCA
167627 TCTTCGGCTTCATCGATGTCTCGCATTAATTGCTCAAGCTCGAGATCTTCGTCAACTTCGGGTGG
508 TCTTCGGCTTCATCGATGTCTCGCATTAATTGCTCAAGCTCGAGATCTTCGTCAACTTCGGGTGG
167692 AGCTTGTGAAGAACTAGCTCCCGGAGTATTTGCAGAAGATCGAACCCATTCACCGGTTTCCTTAT
573 AGCTTGTGAAGAACTAGCTCCCGGAGTATTTGCAGAAGATCGAACCCATTCACCGGTTTCCTTAT
167757 CCTTAATCCATCCCGCTCTCGTT
638 CCTTAATCCATCCCGCTCTCGTT
167780 A
1 A
167781 AGGAAAGAAG
Statistics
Matches: 651, Mismatches: 7, Indels: 16
0.97 0.01 0.02
Matches are distributed among these distances:
659 10 0.02
660 124 0.19
662 20 0.03
663 25 0.04
664 75 0.12
665 144 0.22
666 68 0.10
667 3 0.00
668 9 0.01
670 173 0.27
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (660 bp):
AGCTGCTAAGATCACAAGCAAGAGAAACGTTAGCCATTAGTTTCATAATTAATGTGAAATGGCAA
AATTGGTCATATATCTAATCATGAAGTAAATAATGAATAAATTTAATCACACCAAAATAGATAAT
TCTAACCTCATAAATCCAAACAAATTCAAGTCAATCAATCCACAAATTCAAAATTCCAAAATATT
CAAAATATTAAAACAATAAGTTTGGAGTTCAAAGCAAAACATGAATCACATATCCGGATCAGGAG
GAGGAAAACGAGCCGCATAGCGGCCATTTCGTTAGTGAGGTCATTAATAAGTGCGTTGGTTGCTT
CATTATTTGCACGCATTTCCCGAAGAATTTCTAATTGTTGAGCTCCCATGTGGATAAATGGGACT
CTATAGAAGTAAAGCGCGAATCCATAGTAGCGTATCGAAAATCGAATGTCTCCATAAAGGATTGG
AAATATGGAGGCATTGGATGTGTTTGTGCTTGCTTTGGGCTGCTCAGGCTCATCTTCGGCTTCAT
CGATGTCTCGCATTAATTGCTCAAGCTCGAGATCTTCGTCAACTTCGGGTGGAGCTTGTGAAGAA
CTAGCTCCCGGAGTATTTGCAGAAGATCGAACCCATTCACCGGTTTCCTTATCCTTAATCCATCC
CGCTCTCGTT
Found at i:169289 original size:23 final size:21
Alignment explanation
Indices: 169263--169321 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
169253 TTCCCCTGTG
169263 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
169286 GGGGGAATCAGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
* *
169306 GGGGGGATCGATTCCC
1 GGGGGAATCGGTTCCC
169322 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 12 0.39
21 4 0.13
22 3 0.10
23 12 0.39
ACGTcount: A:0.20, C:0.25, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:169310 original size:21 final size:23
Alignment explanation
Indices: 169262--169312 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
169252 ATTCCCCTGT
*
169262 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCAGTTCCCCTTCAA
*
169285 AGGGGGAATCAGTT-CCC-TCAA
1 GGGGGGAATCAGTTCCCCTTCAA
169306 GGGGGGA
1 GGGGGGA
169313 TCGATTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 10 0.40
22 3 0.12
23 12 0.48
ACGTcount: A:0.22, C:0.22, G:0.39, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCAGTTCCCCTTCAA
Found at i:172054 original size:204 final size:201
Alignment explanation
Indices: 171594--172000 Score: 724
Period size: 204 Copynumber: 2.0 Consensus size: 201
171584 TATGGAAAAG
* *
171594 GTATTACCTATTGTACCAATACCTTCAATGTGACCTTTTGAATTGTCTCCAAAAGTCCTTCTCCT
1 GTATTACCTATTGTACCAATA-CTTCAATGGGACCTATTGAATTGTCTCCAAAAGTCCTTCTCCT
171659 CCATTTTTGGCGTTAAGCTCAATGAACCGGCTTTTGTCTCCGGTCATGTATCTTGAGCATCACTA
65 CCATTTTTGGCGTTAAGCTCAATGAACCGGCTTTTGTCTCCGGTCATGTATCTTGAGCATCACTA
171724 TCAGGTACCATGAATTTGAATTTGTTTCCCGTGCCTTGTAGCAATGCTCCTTTCCTACAAACATA
130 TCAGGTACCATGAATTTGAATTTGTTTCCCGTGCCTTGTAGCAATGCTCCTTTCCTACAAACATA
171789 GATTAAA
195 GATTAAA
* *
171796 GGTATTACCTATTGTACCAATACCTTCAATGTGACCTTTTGAATTGTCTCCAAAAGTCACTTCTC
1 -GTATTACCTATTGTACCAATA-CTTCAATGGGACCTATTGAATTGTCTCCAAAAGTC-CTTCTC
171861 CTCCATTTTTGGCGTTAAGCTCAATGAACCGGCTTTTGTCTCCGGTCATGTATCTTGAGCATCCA
63 CTCCATTTTTGGCGTTAAGCTCAATGAACCGGCTTTTGTCTCCGGTCATGTATCTTGAGCAT-CA
171926 CTATCAGGTACCATGAATTTGAATTTGTTTCCCGTGCCTTGTAGCAATGCTCCTTTCCCTACAAA
127 CTATCAGGTACCATGAATTTGAATTTGTTTCCCGTGCCTTGTAGCAATGCTCCTTT-CCTACAAA
171991 CATAGATTAA
191 CATAGATTAA
172001 TTTTGATTTT
Statistics
Matches: 201, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
203 57 0.28
204 68 0.34
205 58 0.29
206 18 0.09
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (201 bp):
GTATTACCTATTGTACCAATACTTCAATGGGACCTATTGAATTGTCTCCAAAAGTCCTTCTCCTC
CATTTTTGGCGTTAAGCTCAATGAACCGGCTTTTGTCTCCGGTCATGTATCTTGAGCATCACTAT
CAGGTACCATGAATTTGAATTTGTTTCCCGTGCCTTGTAGCAATGCTCCTTTCCTACAAACATAG
ATTAAA
Found at i:175321 original size:18 final size:18
Alignment explanation
Indices: 175298--175334 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
175288 ATTTATATAT
175298 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
175316 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
175334 A
1 A
175335 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:175759 original size:25 final size:25
Alignment explanation
Indices: 175722--175771 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
175712 TATTATTTTC
*
175722 CAAATAATATACCCATAACAATGTT
1 CAAATAATATACCCACAACAATGTT
*
175747 CAAATAATGTACCCACAACAATGTT
1 CAAATAATATACCCACAACAATGTT
175772 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (25 bp):
CAAATAATATACCCACAACAATGTT
Found at i:179276 original size:14 final size:15
Alignment explanation
Indices: 179240--179277 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
179230 GAAATCATTG
179240 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
179255 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
179270 AAAAATTA
1 AAAAATTA
179278 GAGATGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:179454 original size:19 final size:18
Alignment explanation
Indices: 179411--179457 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
179401 CAAAACATTT
179411 GTGTTGCGAAACTAAAAC
1 GTGTTGCGAAACTAAAAC
* * *
179429 CTGTTGCGAAATTAAATTC
1 GTGTTGCGAAACTAAA-AC
179448 GTGTTGCGAA
1 GTGTTGCGAA
179458 TTCAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (18 bp):
GTGTTGCGAAACTAAAAC
Found at i:179559 original size:20 final size:20
Alignment explanation
Indices: 179531--179617 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
179521 TGACTTATGT
179531 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
179551 GTTGTGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* * *
179571 ATTGCAATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
*
179591 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
179611 GTTGCGA
1 GTTGCGA
179618 ATTTGGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:179631 original size:21 final size:21
Alignment explanation
Indices: 179607--179724 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 21
179597 ATTTACATAT
179607 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
***
179628 TCGCAACGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAAAA
* ** ** * *
179649 TTGCAATGCG-ATTTATATAT
1 TCGCGTTGCGAATTTGGAAAA
* *
179669 TCGCGTTGCGAAATTGGAAAC
1 TCGCGTTGCGAATTTGGAAAA
* * * **
179690 TAG-GTTACGAAATTGG-AGT
1 TCGCGTTGCGAATTTGGAAAA
179709 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
179725 TTGGTCATTT
Statistics
Matches: 71, Mismatches: 24, Indels: 5
0.71 0.24 0.05
Matches are distributed among these distances:
19 3 0.04
20 35 0.49
21 33 0.46
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAAAA
Found at i:188787 original size:10 final size:10
Alignment explanation
Indices: 188772--188806 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
188762 TTTATTGAGA
188772 TTGATTCAAT
1 TTGATTCAAT
188782 TTGATTCAAT
1 TTGATTCAAT
188792 TTGATTCAAT
1 TTGATTCAAT
188802 TTGAT
1 TTGAT
188807 GTTGCGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (10 bp):
TTGATTCAAT
Found at i:194904 original size:2 final size:2
Alignment explanation
Indices: 194899--194927 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
194889 ACACACACAC
194899 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 A
194928 CACACACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:197056 original size:15 final size:16
Alignment explanation
Indices: 197032--197061 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
197022 TTACGAGAAA
197032 TATAC-TTTTTAGGTG
1 TATACATTTTTAGGTG
197047 TATACATTTTTAGGT
1 TATACATTTTTAGGT
197062 ATATTACCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (16 bp):
TATACATTTTTAGGTG
Found at i:197073 original size:17 final size:16
Alignment explanation
Indices: 197031--197073 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
197021 ATTACGAGAA
197031 ATATA-CTTTTTAGGT
1 ATATACCTTTTTAGGT
* *
197046 GTATACATTTTTAGGT
1 ATATACCTTTTTAGGT
197062 ATATTACCTTTT
1 ATA-TACCTTTT
197074 ATTTAACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 4 0.18
16 11 0.50
17 7 0.32
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (16 bp):
ATATACCTTTTTAGGT
Found at i:197166 original size:2 final size:2
Alignment explanation
Indices: 197159--197183 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
197149 GCTTCCCAAA
197159 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
197184 TTAAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:201414 original size:31 final size:31
Alignment explanation
Indices: 201373--201464 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 31
201363 TAGCATACCA
*
201373 AAAACTCATCACAATAAAAACAAAGGAAACAT
1 AAAAC-CATCACAATAAAAACAAAGGAAACAG
** * *
201405 AAAACCATCAC-AGCAAACCAAAGAAAACAG
1 AAAACCATCACAATAAAAACAAAGGAAACAG
* * * *
201435 AAACCCGTCACAATAAAAACGAAGGGAACA
1 AAAACCATCACAATAAAAACAAAGGAAACA
201465 AATCTCATCA
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
30 23 0.50
31 18 0.39
32 5 0.11
ACGTcount: A:0.59, C:0.23, G:0.11, T:0.08
Consensus pattern (31 bp):
AAAACCATCACAATAAAAACAAAGGAAACAG
Found at i:210780 original size:15 final size:16
Alignment explanation
Indices: 210762--210794 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
210752 ATAGAATATG
210762 TATTTAT-TATTATTA
1 TATTTATATATTATTA
210777 TA-TTATATATTATTA
1 TATTTATATATTATTA
210792 TAT
1 TAT
210795 CATATATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATATATTATTA
Found at i:210787 original size:18 final size:19
Alignment explanation
Indices: 210739--210793 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
210729 TTTTTAGTAT
210739 TATTATATA-TATTATAGAA
1 TATTATATATTATTATA-AA
* *
210758 TATGTATTTATTATTAT-TA
1 TAT-TATATATTATTATAAA
210777 TATTATATATTATTATA
1 TATTATATATTATTATA
210794 TCATATATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.40
19 7 0.23
20 5 0.17
21 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TATTATATATTATTATAAA
Found at i:210799 original size:15 final size:15
Alignment explanation
Indices: 210769--210802 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
210759 ATGTATTTAT
*
210769 TATTATTATATTATA
1 TATTATTATATCATA
210784 TATTATTATATCATA
1 TATTATTATATCATA
210799 TATT
1 TATT
210803 CTCATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTATTATATCATA
Found at i:210800 original size:7 final size:7
Alignment explanation
Indices: 210736--210802 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
210726 TCGTTTTTAG
210736 TATTAT-
1 TATTATA
210742 TA-TATA
1 TATTATA
210748 TATTATA
1 TATTATA
* * *
210755 GAATATG
1 TATTATA
210762 TATT-TA
1 TATTATA
210768 TTATTATTA
1 -TATTA-TA
210777 TATTATA
1 TATTATA
210784 TATTATTA
1 TATTA-TA
*
210792 TATCATA
1 TATTATA
210799 TATT
1 TATT
210803 CTCATATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
5 3 0.06
6 5 0.11
7 26 0.55
8 11 0.23
9 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:222306 original size:50 final size:53
Alignment explanation
Indices: 222239--222363 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 53
222229 GATATTTCGC
* * * * ** *
222239 TTAGGGTGAAAATCCAAAAGGACGCCCTAAATCG-AGGAA-TCAAAAAAAT-T
1 TTAGAGTGAAAACCCAAAAGAAAGCCCTAAATCGAAAAAAGACAAAAAAATGT
* *
222289 TTAGAGTGAAAACCCAAAAAAAAGCTCTAAATCGAAAAAAAGACAAAAAAATGT
1 TTAGAGTGAAAACCCAAAAGAAAGCCCTAAATCG-AAAAAAGACAAAAAAATGT
*
222343 TTAGAGTGAAAACCCGAAAGA
1 TTAGAGTGAAAACCCAAAAGA
222364 GCGTTCTAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
50 28 0.47
52 3 0.05
53 9 0.15
54 20 0.33
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (53 bp):
TTAGAGTGAAAACCCAAAAGAAAGCCCTAAATCGAAAAAAGACAAAAAAATGT
Found at i:222372 original size:54 final size:53
Alignment explanation
Indices: 222279--222380 Score: 141
Period size: 54 Copynumber: 1.9 Consensus size: 53
222269 ATCGAGGAAT
*
222279 CAAAAAAATTTTAGAGTGAAAACCCAAAAAAAAGCTCTAAATCGAAAAAAAGA
1 CAAAAAAATTTTAGAGTGAAAACCCAAAAAAAAGCTCTAAATAGAAAAAAAGA
* * ** *
222332 CAAAAAAATGTTTAGAGTGAAAACCCGAAAGAGCGTTCTAAATAGAAAA
1 CAAAAAAAT-TTTAGAGTGAAAACCCAAAAAAAAGCTCTAAATAGAAAA
222381 GGACAGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 9 0.21
54 33 0.79
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.17
Consensus pattern (53 bp):
CAAAAAAATTTTAGAGTGAAAACCCAAAAAAAAGCTCTAAATAGAAAAAAAGA
Found at i:224197 original size:5 final size:5
Alignment explanation
Indices: 224182--224342 Score: 93
Period size: 5 Copynumber: 31.4 Consensus size: 5
224172 TTTTTATATA
* * *
224182 ATTAT ACTAT ATTAT A-TATT ATT-T AATAT AGTATAT ATTAT ATAAT
1 ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT A-T-TAT ATTAT ATTAT
* *
224228 ATGGTTT ATTAT A-TAGC ATATAT ATTAT -TATAT ATTAT -TATAT ATTAT
1 AT--TAT ATTAT ATTA-T AT-TAT ATTAT AT-TAT ATTAT AT-TAT ATTAT
* *
224276 ATTAT ATTAT ATTAT ATTAT AGTGT A-TAT ATT-T ATTATT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA-T ATTAT ATTAT
* *
224325 AGTATT ATTAT ATCAT AT
1 ATTA-T ATTAT ATTAT AT
224343 ATTCTCATAA
Statistics
Matches: 122, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
4 16 0.13
5 82 0.67
6 15 0.12
7 9 0.07
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:224216 original size:19 final size:19
Alignment explanation
Indices: 224184--224343 Score: 95
Period size: 19 Copynumber: 8.5 Consensus size: 19
224174 TTTATATAAT
* *
224184 TATACTATATTATATATTA
1 TATAATATAGTATATATTA
*
224203 TTTAATATAGTATATATTA
1 TATAATATAGTATATATTA
*
224222 TATAATATGGT-T-TATTA
1 TATAATATAGTATATATTA
224239 TATAGCATATA-TAT-TATTA
1 TATA--ATATAGTATATATTA
*
224258 TAT-AT-TATTATATATTA
1 TATAATATAGTATATATTA
*
224275 TATTATATTA-TATTATATTA
1 TATAATA-TAGTA-TATATTA
* *
224295 TAGTGTATATA-TTTATTATTA
1 TA-T-AATATAGTATA-TATTA
*
224316 TTATATTATAGTAT-TATTA
1 -TATAATATAGTATATATTA
*
224335 TATCATATA
1 TATAATATA
224344 TTCTCATAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 29
0.74 0.08 0.19
Matches are distributed among these distances:
15 2 0.02
16 5 0.04
17 17 0.15
18 11 0.10
19 45 0.39
20 17 0.15
21 12 0.10
22 6 0.05
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TATAATATAGTATATATTA
Found at i:224216 original size:29 final size:28
Alignment explanation
Indices: 224184--224345 Score: 95
Period size: 29 Copynumber: 5.6 Consensus size: 28
224174 TTTATATAAT
224184 TATACTATATTATATATTATTTAATATAG
1 TATA-TATATTATATATTATTTAATATAG
**
224213 TATATAT-TATATAATATGGTTTATTATATAG
1 TATATATAT-TAT-ATATTATTTA--ATATAG
* *
224244 CATATATATTAT-TA-TATATTATTATA-
1 TATATATATTATATATTAT-TTAATATAG
*
224270 TAT-TATATTATAT-TATATTATATTATAG
1 TATATATATTATATAT-TATT-TAATATAG
* *
224298 TGTATATATT-TATTATTATTATATTATAG
1 TATATATATTATA-TATTATT-TAATATAG
*
224327 TATTATTATATCATATATT
1 TA-TA-TATATTATATATT
224346 CTCATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 32
0.72 0.07 0.22
Matches are distributed among these distances:
25 8 0.08
26 4 0.04
27 15 0.14
28 11 0.10
29 38 0.36
30 3 0.03
31 24 0.23
32 3 0.03
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (28 bp):
TATATATATTATATATTATTTAATATAG
Found at i:224256 original size:3 final size:3
Alignment explanation
Indices: 224250--224335 Score: 60
Period size: 3 Copynumber: 29.0 Consensus size: 3
224240 ATAGCATATA
224250 TAT TAT TAT ATAT TAT TAT ATAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
224293 TA- TAGT GTAT ATATT TAT TAT TAT TA- TAT TA- TAG TAT TAT TAT
1 TAT TA-T -TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
224336 ATCATATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 24
0.73 0.02 0.25
Matches are distributed among these distances:
2 14 0.20
3 41 0.59
4 11 0.16
5 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:226731 original size:16 final size:17
Alignment explanation
Indices: 226687--226736 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
226677 AAATATAACG
*
226687 AATAAATTAATTTTTTA
1 AATAATTTAATTTTTTA
226704 AGATATATTTAATTTTTT-
1 A-ATA-ATTTAATTTTTTA
226722 AATAATTTAATTTTT
1 AATAATTTAATTTTT
226737 ACATAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 11 0.37
17 4 0.13
18 4 0.13
19 11 0.37
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATAATTTAATTTTTTA
Found at i:226742 original size:16 final size:15
Alignment explanation
Indices: 226687--226753 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
226677 AAATATAACG
*
226687 AATAAATTAATTTTTT
1 AATAATTTAA-TTTTT
226703 AAGATATATTTAATTTTTT
1 -A-ATA-ATTTAA-TTTTT
226722 AATAATTTAATTTTT
1 AATAATTTAATTTTT
**
226737 ACATAAAATAATTTTT
1 A-ATAATTTAATTTTT
226753 A
1 A
226754 TTTTTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 6 0.14
16 19 0.43
17 4 0.09
18 4 0.09
19 11 0.25
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (15 bp):
AATAATTTAATTTTT
Done.