Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1189
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: 129000
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Found at i:2187 original size:276 final size:277
Alignment explanation
Indices: 1690--2235 Score: 1033
Period size: 276 Copynumber: 2.0 Consensus size: 277
1680 ATTTCAAGAC
*
1690 AACCTACTTGCCTTTGCCCAATGGCATGTAGAGATCTTGTGTAATGGGCACCTTTATCAAGTATT
1 AACCTACTTGCCTTTGCCCAATGGCATGTAGAGATCTTGTGTAATGAGCACCTTTATCAAGTATT
1755 ATCAATGAAAATAACTTTTGCATAAATCATTTCATCACCACTATTTCAACTTGTAGTCCATACAC
66 ATCAATGAAAATAACTTTTGCATAAATCATTTCATCACCACTATTTCAACTTGTAGTCCATACAC
*
1820 GTTCTTATCTTCAACTTTACCCATTACATTTTGTTTATGTCATTCTTTCTCACACTCTTTGAGAT
131 GTTCTTATCTTCAACTTTACCCATTACATTTTGTTTATGTCATTATTTCTCACACTCTTTGAGAT
1885 GCACTGATAAAAATGACATCGATGTTCATGATAAGCAACTAGAGATCAATTTTAAATAGTAAACT
196 GCACTGATAAAAATGACATCGATGTTCATGAT-AGCAACTAGAGATCAATTTTAAATAGTAAACT
1950 TACCAAATCAATGAGAAT
260 TACCAAATCAATGAGAAT
1968 AACCTACTTGCCTTTGCCCAATGGCATGTAGAGATCTTGTGTAATGAGCACCTTTATCAAGTATT
1 AACCTACTTGCCTTTGCCCAATGGCATGTAGAGATCTTGTGTAATGAGCACCTTTATCAAGTATT
2033 ATCAATGAAAATAACTTTT-CAT-AATCATTTCATCACCACTATTTCAACTTGTAGTCCATACAC
66 ATCAATGAAAATAACTTTTGCATAAATCATTTCATCACCACTATTTCAACTTGTAGTCCATACAC
*
2096 GTTCTTATCTTTAACTTTACCCATTACATTTTGTTTATGTCATTATTTCTCACACTCTTTGAGAT
131 GTTCTTATCTTCAACTTTACCCATTACATTTTGTTTATGTCATTATTTCTCACACTCTTTGAGAT
*
2161 GCACTGATAAAAATGACATGGATGTTCATGATAGCAACTAGAGATCAATTTTAAATAGTAAACTT
196 GCACTGATAAAAATGACATCGATGTTCATGATAGCAACTAGAGATCAATTTTAAATAGTAAACTT
2226 ACCAAATCAA
261 ACCAAATCAA
2236 ATTTGGGGCA
Statistics
Matches: 264, Mismatches: 4, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
275 43 0.16
276 135 0.51
277 3 0.01
278 83 0.31
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (277 bp):
AACCTACTTGCCTTTGCCCAATGGCATGTAGAGATCTTGTGTAATGAGCACCTTTATCAAGTATT
ATCAATGAAAATAACTTTTGCATAAATCATTTCATCACCACTATTTCAACTTGTAGTCCATACAC
GTTCTTATCTTCAACTTTACCCATTACATTTTGTTTATGTCATTATTTCTCACACTCTTTGAGAT
GCACTGATAAAAATGACATCGATGTTCATGATAGCAACTAGAGATCAATTTTAAATAGTAAACTT
ACCAAATCAATGAGAAT
Found at i:3395 original size:20 final size:20
Alignment explanation
Indices: 3356--3397 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
3346 TACACCTCAA
*
3356 TTGGCAAAAGGTCATAAACC
1 TTGGCAAAAGGTCAGAAACC
*
3376 TTGGCAAAAGGTCAGGAACC
1 TTGGCAAAAGGTCAGAAACC
3396 TT
1 TT
3398 TCACACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (20 bp):
TTGGCAAAAGGTCAGAAACC
Found at i:4012 original size:27 final size:27
Alignment explanation
Indices: 3968--4438 Score: 338
Period size: 28 Copynumber: 17.1 Consensus size: 27
3958 TTTCTTTTCA
* *
3968 AAGTCCACATCTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* **
3995 AAGTCCAGAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
** *
4022 AAAGTCCACAACTCCGTGATACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * *
4050 AAAATCCATAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
4078 AAAGTCCACAACTCTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
4106 AAAGTCCACAACTCCGTGGCATCCCTTTT
1 -AAGTCCACAACTCCGTGGCAT-CCTTTT
* **
4135 -AGTTCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
4161 GAGTACATAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
4188 AAGTCCACAACTCCGTGGCATCCATTTC
1 AAGTCCACAACTCCGTGGCATCC-TTTT
**
4216 AAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
4243 AAGTCCACAACTTCGTGGCATCATTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * ** * **
4271 AAGCCCACAAGTTAGTGACA-CCGTTCCA
1 AAGTCCACAACTCCGTGGCATCC-TT-TT
* *
4299 AAGTCCACAACTTCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *** **
4326 AAGCCCACAAGTTAATGGCA-CCGTTCCA
1 AAGTCCACAACTCCGTGGCATCC-TT-TT
*
4354 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * * *
4381 CAAGCCCACAAGTCAGTGGCACCCTTCTA
1 -AAGTCCACAACTCCGTGGCATCCTT-TT
* * *
4410 AAG-CACACAAATCAGTGGCATCGTTTT
1 AAGTC-CACAACTCCGTGGCATCCTTTT
4437 AA
1 AA
4439 AGCCTACACA
Statistics
Matches: 355, Mismatches: 75, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
26 7 0.02
27 128 0.36
28 210 0.59
29 10 0.03
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:4028 original size:55 final size:54
Alignment explanation
Indices: 3968--4438 Score: 338
Period size: 55 Copynumber: 8.5 Consensus size: 54
3958 TTTCTTTTCA
* * * **
3968 AAGTCCACATCTCCATGGCATCCTTTTAAGTCCAGAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
** * * * *
4022 AAAGTCCACAACTCCGTGATACCCTTTTAAAATCCATAACTCCGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT
* *
4078 AAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCAT-CCTTTT
* ** * * * *
4135 -AGTTCACAACTCTATGGCATCCTTTTGAGTACATAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
* **
4188 AAGTCCACAACTCCGTGGCATCCATTTCAAGTCCACAACTCTATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCATCCTTTT
* * * * ** * **
4243 AAGTCCACAACTTCGTGGCATCATTTTTAAGCCCACAAGTTAGTGACA-CCGTTCCA
1 AAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCCGTGGCATCC-TT-TT
* * * * *** **
4299 AAGTCCACAACTTCGTGGCATCTTTTTAAGCCCACAAGTTAATGGCA-CCGTTCCA
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCC-TT-TT
* * * * * *
4354 AAGTCCACAACTTCGTGGCATCCTTTTCAAGCCCACAAGTCAGTGGCACCCTTCTA
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCATCCTT-TT
* * *
4410 AAG-CACACAAATCAGTGGCATCGTTTTAA
1 AAGTC-CACAACTCCGTGGCATCCTTTTAA
4439 AGCCTACACA
Statistics
Matches: 352, Mismatches: 54, Indels: 20
0.83 0.13 0.05
Matches are distributed among these distances:
53 6 0.02
54 38 0.11
55 169 0.48
56 131 0.37
57 8 0.02
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT
Found at i:4035 original size:28 final size:28
Alignment explanation
Indices: 3961--4583 Score: 335
Period size: 28 Copynumber: 22.1 Consensus size: 28
3951 AGTGGAATTT
* **
3961 CTTTTCAAAGTCCACATCTCCATGGCATC
1 CTTTT-AAAGTCCACAACTCTGTGGCATC
* *
3990 CTTTT-AAGTCCAGAACTCTATGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
* ** *
4017 CTTTTAAAGTCCACAACTCCGTGATACC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
* * * *
4045 CTTTTAAAATCCATAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
*
4073 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
*
4101 CTTTTAAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAAGTCCACAACTCTGTGGCAT-C
* *
4130 CTTTT--AGTTCACAACTCTATGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
* * * * *
4156 CTTTT-GAGTACATAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
*
4183 CTTTT-AAGTCCACAACTCCGTGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
* * *
4210 CATTTCAAGTCCACAACTCTATGGCATC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
4238 CTTTT-AAGTCCACAACT-TCGTGGCATC
1 CTTTTAAAGTCCACAACTCT-GTGGCATC
* * * * *
4265 ATTTTTAAGCCCACAAGT-TAGTGACA-C
1 CTTTTAAAGTCCACAACTCT-GTGGCATC
**
4292 CGTTCCAAAGTCCACAACT-TCGTGGCAT-
1 C-TTTTAAAGTCCACAACTCT-GTGGCATC
* * * *
4320 CTTTTTAAGCCCACAAGT-TAATGGCA-C
1 CTTTTAAAGTCCACAACTCT-GTGGCATC
**
4347 CGTTCCAAAGTCCACAACT-TCGTGGCATC
1 C-TTTTAAAGTCCACAACTCT-GTGGCATC
* * * * *
4376 CTTTTCAAGCCCACAAGTCAGTGGCACC
1 CTTTTAAAGTCCACAACTCTGTGGCATC
* * *
4404 CTTCTAAAG-CACACAAATCAGTGGCATC
1 CTTTTAAAGTC-CACAACTCTGTGGCATC
* * * *
4432 GTTTTAAAGCCTACACAAGTCGGTGGCAATC
1 CTTTTAAAG--TCCACAACTCTGTGGC-ATC
* * * * *
4463 CATTTCAAAGCCCACACAAGTCGGTGGCAACC
1 C-TTTTAAAG-TC-CACAACTCTGTGGC-ATC
* * * * *
4495 CATTTCAAAGCCCATAAGTCAGTGGCATC
1 C-TTTTAAAGTCCACAACTCTGTGGCATC
* * *
4524 CTTTCAAAG-CTCACAAGTCAGTGGCATC
1 CTTTTAAAGTC-CACAACTCTGTGGCATC
* * *
4552 CTTCTCAAAGCCCACAAGT-TAGTGGCATC
1 CTT-TTAAAGTCCACAACTCT-GTGGCATC
4581 CTT
1 CTT
4584 CTCAAAGCCC
Statistics
Matches: 483, Mismatches: 88, Indels: 46
0.78 0.14 0.07
Matches are distributed among these distances:
26 7 0.01
27 129 0.27
28 242 0.50
29 40 0.08
30 25 0.05
31 6 0.01
32 34 0.07
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCTGTGGCATC
Found at i:4390 original size:83 final size:83
Alignment explanation
Indices: 3963--4391 Score: 242
Period size: 83 Copynumber: 5.2 Consensus size: 83
3953 TGGAATTTCT
* * * * **
3963 TTTCAAAGTCCACATCTCCATGGCATCCTTTTAAGTCCAGAACTCT-ATGGCATCC-TTTTAAAG
1 TTTC-AAGTCCACAACTCTATGGCATCCTTTTAAGCCCACAACT-TAATGGCA-CCATTCCAAAG
* ** * *
4026 TCCACAACTCCGTGATACCCT
63 TCCACAACTTCGTGGCATCCA
* * * ** * * * * **
4047 TTTAAAATCCATAACTCCGTGGCACCCTTTTAAAGTCCACAACTCT-GTGGCACCCTTTTAAAGT
1 TTTCAAGTCCACAACTCTATGGCATCCTTTT-AAGCCCACAACT-TAATGGCACCATTCCAAAGT
* *
4111 CCACAACTCCGTGGCATCCC
64 CCACAACTTCGTGGCATCCA
* * * ** * *** * **
4131 TTT-TAGTTCACAACTCTATGGCATCCTTTTGAGTACATAACTCCGTGGCACCCTT-TTAAGTCC
1 TTTCAAGTCCACAACTCTATGGCATCCTTTTAAGCCCACAACTTAATGGCACCATTCCAAAGTCC
*
4194 ACAACTCCGTGGCATCCA
66 ACAACTTCGTGGCATCCA
* ** * *** *
4212 TTTCAAGTCCACAACTCTATGGCATCCTTTTAAGTCCACAACTTCGTGGCATCATTTTTAAGCCC
1 TTTCAAGTCCACAACTCTATGGCATCCTTTTAAGCCCACAACTTAATGGCACCATTCCAAAGTCC
* * * *
4277 ACAAGTTAGTGACA-CCG
66 ACAACTTCGTGGCATCCA
* * * * *
4294 TTCCAAAGTCCACAACT-TCGTGGCATCTTTTTAAGCCCACAAGTTAATGGCACCGTTCCAAAGT
1 TTTC-AAGTCCACAACTCT-ATGGCATCCTTTTAAGCCCACAACTTAATGGCACCATTCCAAAGT
*
4358 CCACAACTTCGTGGCATCCT
64 CCACAACTTCGTGGCATCCA
*
4378 TTTCAAGCCCACAA
1 TTTCAAGTCCACAA
4392 GTCAGTGGCA
Statistics
Matches: 279, Mismatches: 58, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
81 27 0.10
82 70 0.25
83 128 0.46
84 54 0.19
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (83 bp):
TTTCAAGTCCACAACTCTATGGCATCCTTTTAAGCCCACAACTTAATGGCACCATTCCAAAGTCC
ACAACTTCGTGGCATCCA
Found at i:4642 original size:116 final size:116
Alignment explanation
Indices: 4326--4681 Score: 372
Period size: 116 Copynumber: 3.1 Consensus size: 116
4316 GCATCTTTTT
* * * ** *
4326 AAGCCCACAAGTTAATGGCA-CCGTTC-CAAAGTCCACA-ACTTCGTGGCATCCTTTTC-AAGCC
1 AAGCCCACAAGTTAGTGGCATCCATTCTCAAAGCCCACACAAATCGTGGCAT-ATTTTCAAAGCC
* * * *
4387 CACAAGTCAGTGGCAC-CC-TTCTAAAGCACACAAATCAGTGGCATCGTT-TTA
65 CATAAGTCAGTGGC-CTCCTTTC-AAAGCACACAAGTCAGTGGCATCCTTCTCA
** * *
4438 AAGCCTACACAAGTCGGTGGCAATCCATT-TCAAAGCCCACACAAGTCGGTGGCA-ACCCATTTC
1 AAGCC--CACAAGTTAGTGGC-ATCCATTCTCAAAGCCCACACAAATC-GTGGCATA---TTTTC
* *
4501 AAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCTCACAAGTCAGTGGCATCCTTCTCA
59 AAAGCCCATAAGTCAGTGGCCTCCTTTCAAAGCACACAAGTCAGTGGCATCCTTCTCA
*
4559 AAGCCCACAAGTTAGTGGCATCC-TTCTCAAAGCCCACACAAATCAATGGCATATTTTCAAAGCC
1 AAGCCCACAAGTTAGTGGCATCCATTCTCAAAGCCCACACAAATC-GTGGCATATTTTCAAAGCC
* *
4623 CATAAGTCAGTGGCCTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCACA
65 CATAAGTCAGTGGCCTCCTTTCAAAGCACACAAGTCAGTGGCATCCTTCTCA
4675 AAGCCCA
1 AAGCCCA
4682 TACAAGTCGG
Statistics
Matches: 204, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
112 5 0.02
114 11 0.05
115 1 0.00
116 80 0.39
117 5 0.02
118 32 0.16
119 17 0.08
120 43 0.21
121 10 0.05
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (116 bp):
AAGCCCACAAGTTAGTGGCATCCATTCTCAAAGCCCACACAAATCGTGGCATATTTTCAAAGCCC
ATAAGTCAGTGGCCTCCTTTCAAAGCACACAAGTCAGTGGCATCCTTCTCA
Found at i:4645 original size:28 final size:28
Alignment explanation
Indices: 4175--4695 Score: 346
Period size: 28 Copynumber: 18.2 Consensus size: 28
4165 ACATAACTCC
* * * * *
4175 GTGGCACCCTTT-TAAGTCCACAACTCC
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
4202 GTGGCATCCATTTC-AAGTCCACAACTCTA
1 GTGGCATCC-TTTCAAAGCCCACAAGTC-A
* * *
4231 -TGGCATCCTTT-TAAGTCCACAACTTC-
1 GTGGCATCCTTTCAAAGCCCACAA-GTCA
* ** *
4257 GTGGCATCATTTTTAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
4285 GTGACA-CCGTTCCAAAGTCCACAACTTC-
1 GTGGCATCC-TTTCAAAGCCCACAA-GTCA
** *
4313 GTGGCAT-CTTTTTAAGCCCACAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* * * *
4340 ATGGCA-CCGTTCCAAAGTCCACAACTTC-
1 GTGGCATCC-TTTCAAAGCCCACAA-GTCA
4368 GTGGCATCCTTTTC-AAGCCCACAAGTCA
1 GTGGCATCC-TTTCAAAGCCCACAAGTCA
* * *
4396 GTGGCA-CCCTTCTAAAGCACACAAATCA
1 GTGGCATCCTTTC-AAAGCCCACAAGTCA
* * *
4424 GTGGCATCGTTTTAAAGCCTACACAAGTCG
1 GTGGCATCCTTTCAAAGCC--CACAAGTCA
*
4454 GTGGCAATCCATTTCAAAGCCCACACAAGTCG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCA
* *
4486 GTGGCAACCCATTTCAAAGCCCATAAGTCA
1 GTGGC-ATCC-TTTCAAAGCCCACAAGTCA
*
4516 GTGGCATCCTTTCAAAGCTCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
4544 GTGGCATCCTTCTCAAAGCCCACAAGTTA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCA
*
4573 GTGGCATCCTTCTCAAAGCCCACACAAATCA
1 GTGGCATCCTT-TCAAAG-CC-CACAAGTCA
* ** *
4604 ATGGCATATTTTCAAAGCCCATAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
*
4632 GTGGCCTCCTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCA
* *
4660 GTGGCATCCTTCACAAAGCCCATACAAGTCG
1 GTGGCATCCTT-TCAAAGCCC--ACAAGTCA
4691 GTGGC
1 GTGGC
4696 TTCAAAGCCC
Statistics
Matches: 395, Mismatches: 68, Indels: 58
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.01
27 54 0.14
28 180 0.46
29 56 0.14
30 32 0.08
31 32 0.08
32 35 0.09
33 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCA
Found at i:4681 original size:87 final size:87
Alignment explanation
Indices: 4368--4679 Score: 334
Period size: 87 Copynumber: 3.6 Consensus size: 87
4358 CCACAACTTC
*
4368 GTGGCATCCTTTTC-AAGCCCACAAGTCAGTGGCACCCTTCT-AAAG-CACACAAATCAGTGGCA
1 GTGGCATCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTCTCAAAGCCACACAAATCAGTGGCA
* *
4430 TCGTTTT-AAAGCCTACACAAGTCG
66 T-ATTTTCAAAGCC--CACAAGTCA
* * *
4454 GTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-TCAAAGCC-CATAAGTCAG
1 GTGGC-ATCCATTTCAAAG-CC-CACAAGTCAGTGGC-ACCC-TTCTCAAAGCCACACAAATCAG
** *
4517 TGGCATCCTTTCAAAGCTCACAAGTCA
61 TGGCATATTTTCAAAGCCCACAAGTCA
* * *
4544 GTGGCATCC-TTCTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACACAAATCAATGG
1 GTGGCATCCATT-TCAAAGCCCACAAGTCAGTGGCACCCTTCTCAAAG-CCACACAAATCAGTGG
*
4608 CATATTTTCAAAGCCCATAAGTCA
64 CATATTTTCAAAGCCCACAAGTCA
* * *
4632 GTGGCCTCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTCACAAAGCC
1 GTGGCATCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTCTCAAAGCC
4680 CATACAAGTC
Statistics
Matches: 192, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
85 2 0.01
86 16 0.08
87 55 0.29
88 47 0.24
89 12 0.06
90 26 0.14
91 8 0.04
92 25 0.13
93 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.22
Consensus pattern (87 bp):
GTGGCATCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTCTCAAAGCCACACAAATCAGTGGCA
TATTTTCAAAGCCCACAAGTCA
Found at i:4719 original size:25 final size:25
Alignment explanation
Indices: 4673--4720 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
4663 GCATCCTTCA
* *
4673 CAAAGCCCATACAAGTCGGTGGCTT
1 CAAAGCCCACACAAGTCAGTGGCTT
* *
4698 CAAAGCCCACATAAGTTAGTGGC
1 CAAAGCCCACACAAGTCAGTGGC
4721 ACCTTTTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (25 bp):
CAAAGCCCACACAAGTCAGTGGCTT
Found at i:4737 original size:87 final size:83
Alignment explanation
Indices: 4524--4720 Score: 234
Period size: 87 Copynumber: 2.3 Consensus size: 83
4514 CAGTGGCATC
* * * * *
4524 CTTTCAAAGCTCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAA
1 CTTTCAAAGCCCATAAGTCAGTGGCCTCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTCACAA
4589 AGCCCACACAAATCAATGG
65 AGCCCACACAAATCAATGG
4608 CATATTTTCAAAGCCCATAAGTCAGTGGCCTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCA
1 C----TTTCAAAGCCCATAAGTCAGTGGCCTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCA
* * **
4673 CAAAGCCCATACAAGTCGGTGG
62 CAAAGCCCACACAAATCAATGG
*
4695 C-TTCAAAGCCCACATAAGTTAGTGGC
1 CTTTCAAAG-CC-CATAAGTCAGTGGC
4721 ACCTTTTTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
82 7 0.07
83 2 0.02
84 14 0.14
87 47 0.48
88 27 0.28
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (83 bp):
CTTTCAAAGCCCATAAGTCAGTGGCCTCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTCACAAA
GCCCACACAAATCAATGG
Found at i:4898 original size:48 final size:48
Alignment explanation
Indices: 4838--4961 Score: 194
Period size: 48 Copynumber: 2.6 Consensus size: 48
4828 TTATTGGCTT
* * *
4838 AATGTCGATGGCCTTGAATCAGTACATTATCCACTTTTCCCTTAGTTC
1 AATGTCGCTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTC
4886 AATGTCGCTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTC
1 AATGTCGCTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTC
* **
4934 GATGTCGCTGGCCTTGAATTGGCACATT
1 AATGTCGCTGGCCTTGAATCAGCACATT
4962 GACACTCCTT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.35
Consensus pattern (48 bp):
AATGTCGCTGGCCTTGAATCAGCACATTATCCACTTTTCCCTTAGCTC
Found at i:8891 original size:21 final size:21
Alignment explanation
Indices: 8862--8906 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
8852 TACCCATGAC
8862 TTTTTTTTTTA-AATTTAA-AT
1 TTTTTTTTTTATAA-TTAATAT
8882 TTTTTATTTTTATAATTAATAT
1 TTTTT-TTTTTATAATTAATAT
8904 TTT
1 TTT
8907 AAATTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTTTTTATAATTAATAT
Found at i:8976 original size:24 final size:22
Alignment explanation
Indices: 8942--8992 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 22
8932 ATAAATTTCA
*
8942 TAAAAATAAATTAATTTA-ATTT
1 TAAAAATAAA-TAAATTAGATTT
8964 TAAAAATAAAAATAAATTAGATTT
1 TAAAAAT--AAATAAATTAGATTT
8988 TAAAA
1 TAAAA
8993 TTTTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 7 0.28
23 6 0.24
24 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAAATAAATAAATTAGATTT
Found at i:9482 original size:15 final size:15
Alignment explanation
Indices: 9462--9492 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9452 AATTAATTAA
*
9462 ATATTATTTTTTATT
1 ATATTATTATTTATT
9477 ATATTATTATTTATT
1 ATATTATTATTTATT
9492 A
1 A
9493 AATTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATATTATTATTTATT
Found at i:9502 original size:9 final size:9
Alignment explanation
Indices: 9440--9521 Score: 50
Period size: 9 Copynumber: 9.4 Consensus size: 9
9430 TTTACTAATA
*
9440 TAAATTTTT
1 TAAATTTAT
*
9449 TAAAATTAAT
1 T-AAATTTAT
9459 TAAATATTAT
1 TAAAT-TTAT
*
9469 T--TTTTAT
1 TAAATTTAT
*
9476 TATA-TTAT
1 TAAATTTAT
9484 T--ATTTAT
1 TAAATTTAT
*
9491 TAAATTTTT
1 TAAATTTAT
9500 TAAATTTAAT
1 TAAATTT-AT
9510 T-AATTTAT
1 TAAATTTAT
9518 TAAA
1 TAAA
9522 AAAATTACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
6 1 0.02
7 10 0.18
8 9 0.16
9 24 0.42
10 13 0.23
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TAAATTTAT
Found at i:9659 original size:15 final size:14
Alignment explanation
Indices: 9640--9690 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 14
9630 AACATATTCA
9640 TAAAAAAATTATTT
1 TAAAAAAATTATTT
*
9654 T-GAAAAA-TATTT
1 TAAAAAAATTATTT
9666 TATAAAAAACTTATTT
1 TA-AAAAAA-TTATTT
9682 ATAAAAAAA
1 -TAAAAAAA
9691 AATTTATATC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 6 0.20
16 11 0.37
17 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAAAAATTATTT
Found at i:10984 original size:20 final size:22
Alignment explanation
Indices: 10961--11011 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
10951 ATTATTTAAA
10961 ATATTAAAAATT-TAT-TTTTT
1 ATATTAAAAATTATATATTTTT
* *
10981 ATATTAATATTTATATATTTTT
1 ATATTAAAAATTATATATTTTT
11003 ATAATTAAA
1 AT-ATTAAA
11012 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 10 0.40
21 3 0.12
22 7 0.28
23 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATATTAAAAATTATATATTTTT
Found at i:17298 original size:31 final size:31
Alignment explanation
Indices: 17250--17344 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
17240 CTCAAGTTAA
*
17250 TTTAAA-TTAAATAATTTTATATTTTTAAT-T
1 TTTAAATTTAAATAATTTTA-ATTTTGAATAT
*
17280 TTTAAATTTAAATTATTTTAATTTTGAATAT
1 TTTAAATTTAAATAATTTTAATTTTGAATAT
* * * * *
17311 TTTAATTTTAAATCATTTTGATTTTAAATCT
1 TTTAAATTTAAATAATTTTAATTTTGAATAT
17342 TTT
1 TTT
17345 TATGTTAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
30 14 0.25
31 42 0.75
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTAAATTTAAATAATTTTAATTTTGAATAT
Found at i:17340 original size:16 final size:16
Alignment explanation
Indices: 17256--17346 Score: 89
Period size: 16 Copynumber: 5.8 Consensus size: 16
17246 TTAATTTAAA
*
17256 TTAAATAATTTTATATT
1 TTAAATCATTTTA-ATT
* *
17273 TTTAAT--TTTTAAAT
1 TTAAATCATTTTAATT
*
17287 TTAAATTATTTTAATT
1 TTAAATCATTTTAATT
*
17303 TTGAAT-ATTTTAATT
1 TTAAATCATTTTAATT
*
17318 TTAAATCATTTTGATT
1 TTAAATCATTTTAATT
*
17334 TTAAATCTTTTTA
1 TTAAATCATTTTA
17347 TGTTAAGTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.11
15 19 0.31
16 31 0.50
17 5 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
TTAAATCATTTTAATT
Found at i:17412 original size:22 final size:23
Alignment explanation
Indices: 17364--17435 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 23
17354 TGATTTAACA
* *
17364 TAAA-TTAATCTATTTTAAGTTAAT
1 TAAAGTTAAT-TA-TTTAAATTATT
*
17388 TAAATTTAA-TATTTAAATTATT
1 TAAAGTTAATTATTTAAATTATT
*
17410 TAAAGTTAATTATTTAGATTAATT
1 TAAAGTTAATTATTTAAATT-ATT
17434 TA
1 TA
17436 GATTCAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 17 0.41
23 11 0.27
24 9 0.22
25 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (23 bp):
TAAAGTTAATTATTTAAATTATT
Found at i:17433 original size:13 final size:14
Alignment explanation
Indices: 17364--17425 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
17354 TGATTTAACA
17364 TAAA-TTAATCTATT
1 TAAAGTTAAT-TATT
*
17378 TTAAGTTAATTAAATT
1 TAAAGTTAATT--ATT
*
17394 TAATATTTAAATTATT
1 TAA-AGTT-AATTATT
17410 TAAAGTTAATTATT
1 TAAAGTTAATTATT
17424 TA
1 TA
17426 GATTAATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 13 0.33
15 8 0.21
16 11 0.28
17 3 0.08
18 4 0.10
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (14 bp):
TAAAGTTAATTATT
Found at i:17739 original size:2 final size:2
Alignment explanation
Indices: 17732--17756 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17722 GTTATTCTTA
17732 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 A
17757 CACACACATG
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18183 original size:22 final size:23
Alignment explanation
Indices: 18150--18215 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
18140 TGTAGTGTAA
*
18150 TAAA-TATGATATAAAAATA-AT
1 TAAAGTATAATATAAAAATATAT
18171 TAAAGTATAATATAAAATATATAT
1 TAAAGTATAATATAAAA-ATATAT
* * *
18195 GATAGT-TAAAATAAAAATATA
1 TAAAGTATAATATAAAAATATA
18216 ATATAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
21 4 0.11
22 16 0.42
23 12 0.32
24 6 0.16
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
TAAAGTATAATATAAAAATATAT
Found at i:18194 original size:11 final size:12
Alignment explanation
Indices: 18151--18227 Score: 56
Period size: 12 Copynumber: 6.7 Consensus size: 12
18141 GTAGTGTAAT
*
18151 AAATATGATATA
1 AAATATAATATA
18163 AAA-ATAAT-TA
1 AAATATAATATA
*
18173 AAGTATAATATA
1 AAATATAATATA
18185 AAATAT-ATATGA
1 AAATATAATAT-A
* * *
18197 TAGT-TAAAATAA
1 AAATATAATAT-A
18209 AAATATAATATA
1 AAATATAATATA
18221 AAA-ATAA
1 AAATATAA
18228 GTAAAAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 11
0.70 0.14 0.15
Matches are distributed among these distances:
10 4 0.08
11 18 0.36
12 23 0.46
13 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (12 bp):
AAATATAATATA
Found at i:18219 original size:36 final size:37
Alignment explanation
Indices: 18148--18223 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
18138 ATTGTAGTGT
18148 AATAAATATGATATAAAAATAATTAAAGTATAATATAA
1 AATAAATATGATATAAAAATAA-TAAAGTATAATATAA
* *
18186 AATATATATGATAGTTAAAATAA-AAA-TATAATATAA
1 AATAAATATGATA-TAAAAATAATAAAGTATAATATAA
18222 AA
1 AA
18224 ATAAGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 12 0.34
37 3 0.09
38 12 0.34
39 8 0.23
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (37 bp):
AATAAATATGATATAAAAATAATAAAGTATAATATAA
Found at i:19027 original size:2 final size:2
Alignment explanation
Indices: 19020--19053 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
19010 TTATGAAATT
* *
19020 TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19054 ATTTCAGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:21224 original size:17 final size:17
Alignment explanation
Indices: 21197--21237 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
21187 TAACAAAAAA
*
21197 AAAAAAC-AAATTATGT
1 AAAAAACAAAATTATAT
*
21213 ACAAAACAAAATTATAT
1 AAAAAACAAAATTATAT
21230 AAAAAACA
1 AAAAAACA
21238 TTCATGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAAACAAAATTATAT
Found at i:22791 original size:21 final size:21
Alignment explanation
Indices: 22767--22824 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
22757 TATAAAGTTG
22767 ATTTATTTAACTTAAATTATT
1 ATTTATTTAACTTAAATTATT
* *
22788 ATTTAATTAA--TAAA--AAT
1 ATTTATTTAACTTAAATTATT
22805 ATTTATTTAAACTT-AATTAT
1 ATTTATTT-AACTTAAATTAT
22825 ATAAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
17 9 0.32
18 2 0.07
19 6 0.21
20 1 0.04
21 10 0.36
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTATTTAACTTAAATTATT
Found at i:25299 original size:14 final size:13
Alignment explanation
Indices: 25267--25315 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
25257 TTTTTTACTT
*
25267 TATTTTTGTAAATA
1 TATTTTTTTAAA-A
*
25281 AATTTTTTATAAAA
1 TATTTTTT-TAAAA
25295 TA-TTTTTTAAAA
1 TATTTTTTTAAAA
25307 TATTTTTTT
1 TATTTTTTT
25316 TTACGAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 7 0.23
13 11 0.37
14 8 0.27
15 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTTTTTTAAAA
Found at i:25313 original size:12 final size:12
Alignment explanation
Indices: 25280--25314 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
25270 TTTTGTAAAT
25280 AAAT-TTTTTATA
1 AAATATTTTT-TA
25292 AAATATTTTTTA
1 AAATATTTTTTA
25304 AAATATTTTTT
1 AAATATTTTTT
25315 TTTACGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AAATATTTTTTA
Found at i:25524 original size:68 final size:69
Alignment explanation
Indices: 25403--25535 Score: 175
Period size: 68 Copynumber: 1.9 Consensus size: 69
25393 TTTTTATAAA
*
25403 TTAATTAAATTTAAAAAATTTAATAAATAATAATATATTAATTATTATTTTTT-AA-TAAAAAAT
1 TTAATTAAATTTAAAAAATTTAATAAATAATAAAATATTAA-TATTATTTTTTAAATTAAAAAAT
25466 AATAT
65 AATAT
* *
25471 TTAATTAATTTTAAAAAAATTTACATTAATAATTAAAATATT-A-ATTATTTTTTAAATTAAAAA
1 TTAATTAAATTT-AAAAAATTTA-ATAAATAA-TAAAATATTAATATTATTTTTTAAATTAAAAA
25534 AT
63 AT
25536 TAAATTAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
68 21 0.37
69 12 0.21
70 16 0.28
71 8 0.14
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (69 bp):
TTAATTAAATTTAAAAAATTTAATAAATAATAAAATATTAATATTATTTTTTAAATTAAAAAATA
ATAT
Found at i:25540 original size:13 final size:13
Alignment explanation
Indices: 25522--25546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25512 TAATTATTTT
25522 TTAAATTAAAAAA
1 TTAAATTAAAAAA
25535 TTAAATTAAAAA
1 TTAAATTAAAAA
25547 TGGTTTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTAAATTAAAAAA
Found at i:25609 original size:118 final size:115
Alignment explanation
Indices: 25407--25636 Score: 299
Period size: 118 Copynumber: 2.0 Consensus size: 115
25397 TATAAATTAA
*
25407 TTAAATTTAAAAAATTTAATAAATAATAATATATTAATTATTATTTTTTAATAAAAAATAATATT
1 TTAAATTTAAAAAATTAAATAAATAATAATATATTAATTATTATTTTTTAATAAAAAATAATATT
* *
25472 TAATTAATTTTAAAAAAATTTACATTAA-TAATTAAAATATTAATTATTTT
66 TAATTAAATTTAAAAAAA-TTACATTAACAAATTAAAATATTAATTATTTT
** *
25522 TTAAA-TTAAAAAATTAAATTAAA-AATGGTTTATT-ATTATTATTTTTTAATAAAATTAAAAAT
1 TTAAATTTAAAAAATTAAA-TAAATAATAATATATTAATTATTATTTTTTAAT---A--AAAAAT
25584 AATATTTAATTAAAATTT-AAAAAATTACATTAACAAATTAAAATATTAATTAT
60 AATATTTAATT-AAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTAT
25637 ATGTTTTTAT
Statistics
Matches: 101, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
113 16 0.16
114 20 0.20
115 9 0.09
116 1 0.01
117 9 0.09
118 41 0.41
119 5 0.05
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (115 bp):
TTAAATTTAAAAAATTAAATAAATAATAATATATTAATTATTATTTTTTAATAAAAAATAATATT
TAATTAAATTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTTT
Found at i:25756 original size:106 final size:106
Alignment explanation
Indices: 25554--25759 Score: 233
Period size: 106 Copynumber: 1.9 Consensus size: 106
25544 AAATGGTTTA
* * *
25554 TTATTATTATTTTTTAATAAAATTAAAAATAATATTTAATTAAAATTTAAAAAATTACATTAACA
1 TTATCATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAAATTTAAAAAATTACATCAACA
* * * **
25619 AATTAAAATATTAATTATATGTTTTTATAAAAAAAGTATTTT
66 AATTAAAAAATAAATTATAAG-TAATATAAAAAAAGTATTTT
* *
25661 TTATCATTA-TTTTTAATAAAATAAAAAATGATATTTAATT-AAATTTAAAAAAATTTATATCAA
1 TTATCATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAAATTT-AAAAAA-TTACATCAA
25724 CAAATTAAAAAAATAACATT-TAAAG-AAT-TAAAAAAA
64 CAAATT-AAAAAATAA-ATTAT-AAGTAATATAAAAAAA
25760 ATTTATCATT
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
105 6 0.07
106 43 0.51
107 22 0.26
108 8 0.10
109 5 0.06
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (106 bp):
TTATCATTATTTTTTAATAAAATAAAAAATAATATTTAATTAAAATTTAAAAAATTACATCAACA
AATTAAAAAATAAATTATAAGTAATATAAAAAAAGTATTTT
Found at i:26951 original size:20 final size:20
Alignment explanation
Indices: 26926--26979 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
26916 CTACCACTGT
*
26926 TTGTATCGATATATAGTACA
1 TTGTATCGATATATAGTAAA
*
26946 TTGTATCGATACATAGTAAA
1 TTGTATCGATATATAGTAAA
**
26966 AAGTATCGATATAT
1 TTGTATCGATATAT
26980 TATGCTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATATATAGTAAA
Found at i:28141 original size:15 final size:15
Alignment explanation
Indices: 28118--28147 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28108 TTTTATCTTG
*
28118 ATTTGATCTTTTATT
1 ATTTAATCTTTTATT
28133 ATTTAATCTTTTATT
1 ATTTAATCTTTTATT
28148 TATCCATGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTAATCTTTTATT
Found at i:29971 original size:21 final size:20
Alignment explanation
Indices: 29935--29974 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
29925 AATTTTTATT
29935 TAAATTTAATAAAAAATATA
1 TAAATTTAATAAAAAATATA
29955 TAAATATTAA-AATAAAATAT
1 TAAAT-TTAATAA-AAAATAT
29975 TTTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATTTAATAAAAAATATA
Found at i:30201 original size:18 final size:18
Alignment explanation
Indices: 30180--30235 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 18
30170 TTTTTAATTT
30180 ATTTTTAAAATAAATATA
1 ATTTTTAAAATAAATATA
* *
30198 A-TTTTAACAAT--TTTTA
1 ATTTTTAA-AATAAATATA
*
30214 ATTTTTAATATAAATATA
1 ATTTTTAAAATAAATATA
30232 ATTT
1 ATTT
30236 ATAATTATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
16 6 0.21
17 12 0.41
18 11 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTTTAAAATAAATATA
Found at i:31457 original size:15 final size:14
Alignment explanation
Indices: 31435--31467 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
31425 TTAAAAATAC
31435 TAAATAATTTAATT
1 TAAATAATTTAATT
31449 TAAATTAATTTAATT
1 TAAA-TAATTTAATT
31464 TAAA
1 TAAA
31468 ATCAATCGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATAATTTAATT
Found at i:33081 original size:23 final size:21
Alignment explanation
Indices: 33039--33082 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
33029 TTTATAATTA
*
33039 TATAAATATATTATTTTTTAT
1 TATAAATATATTATTATTTAT
33060 TATAAATATATTATGTAATTTAT
1 TATAAATATATTAT-T-ATTTAT
33083 ATTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 1 0.05
23 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TATAAATATATTATTATTTAT
Found at i:33533 original size:2 final size:2
Alignment explanation
Indices: 33526--33558 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33516 CTAAAGAAAC
33526 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
33559 GGAATTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35621 original size:20 final size:19
Alignment explanation
Indices: 35567--35627 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
35557 TAAAAAATCA
* *
35567 TATATTTAATAAAATATA-
1 TATATTTAATAATATTTAT
* *
35585 TATTTTTATTAAATATTTAT
1 TATATTTAAT-AATATTTAT
35605 TATATTTAATAATTATTTAT
1 TATATTTAATAA-TATTTAT
35625 TAT
1 TAT
35628 TCAACCAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
20 18 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTTAATAATATTTAT
Found at i:38150 original size:21 final size:22
Alignment explanation
Indices: 38111--38151 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
38101 TTACACCAAT
* *
38111 TTCCAACAATAATTGAATCTGA
1 TTCCAACAATAAATCAATCTGA
38133 TTCC-ACAATAAATCAATCT
1 TTCCAACAATAAATCAATCT
38152 TTTTCTTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (22 bp):
TTCCAACAATAAATCAATCTGA
Found at i:40365 original size:2 final size:2
Alignment explanation
Indices: 40354--40396 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
40344 CAGAGAACTC
*
40354 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
40395 AT
1 AT
40397 TGCTAAGCCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43872 original size:39 final size:39
Alignment explanation
Indices: 43822--43905 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
43812 TAACAATAAA
* *
43822 AAAATTTAATTTAAAAGTATTAAAGATAAATATTGGTTC
1 AAAACTTAATTTAAAAGTATAAAAGATAAATATTGGTTC
* * **
43861 AAAACTTAATTTAATAGTATAAAAGATGAATATTTTTTC
1 AAAACTTAATTTAAAAGTATAAAAGATAAATATTGGTTC
43900 AAAACT
1 AAAACT
43906 CTTTAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (39 bp):
AAAACTTAATTTAAAAGTATAAAAGATAAATATTGGTTC
Found at i:51965 original size:2 final size:2
Alignment explanation
Indices: 51954--51991 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
51944 AAAATCGAGT
51954 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
51992 GAATTTTTAA
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:53166 original size:21 final size:23
Alignment explanation
Indices: 53142--53185 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53132 ATTGGTTTTT
53142 AAATT-CCA-ACATTATATTAGA
1 AAATTACCACACATTATATTAGA
* *
53163 AAATTATCACACATTCTATTAGA
1 AAATTACCACACATTATATTAGA
53186 TTCTAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (23 bp):
AAATTACCACACATTATATTAGA
Found at i:60644 original size:18 final size:19
Alignment explanation
Indices: 60618--60654 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
60608 AACACCTTTT
*
60618 CTTTCCTCCT-CCCTCCTC
1 CTTTACTCCTCCCCTCCTC
60636 CTTTACTCCTCCCCTCCTC
1 CTTTACTCCTCCCCTCCTC
60655 TTTCTCCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (19 bp):
CTTTACTCCTCCCCTCCTC
Found at i:60657 original size:18 final size:16
Alignment explanation
Indices: 60617--60661 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
60607 AAACACCTTT
60617 TCTTTCCTCCTCCCTCC
1 TCTTT-CTCCTCCCTCC
60634 TCCTTTACTCCTCCCCTCC
1 T-CTTT-CTCCT-CCCTCC
60653 TCTTTCTCC
1 TCTTTCTCC
60662 GAATTTCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 13 0.52
19 7 0.28
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.42
Consensus pattern (16 bp):
TCTTTCTCCTCCCTCC
Found at i:61341 original size:16 final size:17
Alignment explanation
Indices: 61309--61342 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61299 GATTTAAATT
61309 AATATTTAATAATTAAA
1 AATATTTAATAATTAAA
*
61326 AATATTT-ATTATTAAA
1 AATATTTAATAATTAAA
61342 A
1 A
61343 TTTAATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTTAATAATTAAA
Found at i:61815 original size:2 final size:2
Alignment explanation
Indices: 61808--61844 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
61798 TTAAAGTATC
61808 TA TA 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 T
61845 GGCCATACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62036 original size:3 final size:3
Alignment explanation
Indices: 62028--62052 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62018 ATCACGTACA
62028 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
62053 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:65348 original size:23 final size:24
Alignment explanation
Indices: 65296--65349 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
65286 TTTGGCTTAA
*
65296 TTTTTCTTTTTTTGCTCTCTTTAT
1 TTTTTCTTTTTTTGCTCTCTCTAT
* *
65320 TCTTTCTTTTTTT-CTCTCTCTCT
1 TTTTTCTTTTTTTGCTCTCTCTAT
65343 TTTTTCT
1 TTTTTCT
65350 CACTTGCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTCTTTTTTTGCTCTCTCTAT
Found at i:66047 original size:165 final size:163
Alignment explanation
Indices: 65871--66330 Score: 430
Period size: 162 Copynumber: 2.8 Consensus size: 163
65861 TGAATTTTTT
* *
65871 AAAATTGATTTAATATAAATTTAATGGTAATATTAGATGAATTTTAAAAATTTTAACCTAAGAAA
1 AAAACTGATTTAATATAAATTTAATGATAATATT-GATGAATTTTAAAAATTTTAA-CTAAGAAA
*
65936 AATTCTCCCAAAAACATTTATGGAATAGAAAACTCAGTTTTTCGAAAATAGGAGAATTTCAAGAA
64 AATTCTCCCGAAAACATTTATGGAATAGAAAACTCAGTTTTTCGAAAATAGGAGAATTTCAAGAA
** *
66001 AAAATAAAAAAATTATGAAAATAAATGAATTTTTC
129 AAAATAAAAAAATTATGAAAATAAATGAAAATTAC
* * * ** * * * * * * *
66036 CAACCTGATTTAAAAGGAGTCTAATGAAAATGTTGTACGAATTTTAAAAATTTTAAATCGAGAAA
1 AAAACTGATTTAATATAAATTTAATGATAATATTG-ATGAATTTTAAAAATTTTAACT-AAGAAA
* * * *
66101 AATTCTCCCGAAAGCATTTAT-GAACTAGAAAACTCAGTTTTTTG--GAT--GAGAACTTCAAAG
64 AATTCTCCCGAAAACATTTATGGAA-TAGAAAACTCAGTTTTTCGAAAATAGGAGAATTTC-AAG
*
66161 AAAAAATAAAAAACTTATGAAAATAAATGAAAATTAC
127 AAAAAATAAAAAAATTATGAAAATAAATGAAAATTAC
* * * * * * *
66198 AAAATTGATTTACTATAAATTAAATGATGATATGTGATAAATTTTAAAAATTATAAAC-AAAAAA
1 AAAACTGATTTAATATAAATTTAATGATAATAT-TGATGAATTTTAAAAATT-TTAACTAAGAAA
* * * * * * * *
66262 AATTCTCCCTGAAAATATTTACGGAGTA-AGAAACTCTGTATTTCGAAAAGAGAATAATTTCAAG
64 AATTCTCCC-GAAAACATTTATGGAATAGA-AAACTCAGTTTTTCGAAAATAGGAGAATTTCAAG
*
66326 GAAAA
127 AAAAA
66331 TTAATAACTC
Statistics
Matches: 227, Mismatches: 55, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
161 22 0.10
162 93 0.41
163 9 0.04
164 6 0.03
165 91 0.40
166 6 0.03
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (163 bp):
AAAACTGATTTAATATAAATTTAATGATAATATTGATGAATTTTAAAAATTTTAACTAAGAAAAA
TTCTCCCGAAAACATTTATGGAATAGAAAACTCAGTTTTTCGAAAATAGGAGAATTTCAAGAAAA
AATAAAAAAATTATGAAAATAAATGAAAATTAC
Found at i:69647 original size:27 final size:27
Alignment explanation
Indices: 69597--69654 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
69587 AATTTTTTGG
*
69597 TCAAAGTCAATAGTTAATAGTCAATGA
1 TCAAAGTCAATAGTCAATAGTCAATGA
* *
69624 TCAAAGTCAATTAGTCAA-ATTCAATGG
1 TCAAAGTCAA-TAGTCAATAGTCAATGA
69651 TCAA
1 TCAA
69655 CGATCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (27 bp):
TCAAAGTCAATAGTCAATAGTCAATGA
Found at i:71398 original size:19 final size:19
Alignment explanation
Indices: 71358--71403 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
71348 TTTGTTTTAA
**
71358 ATTTAATTT-AATTTAATTT
1 ATTT-ATTTAAATTTAAAAT
71377 ATTTATTTAAATTTAAAAT
1 ATTTATTTAAATTTAAAAT
71396 A-TTATTTA
1 ATTTATTTA
71404 TATCATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATTTAAATTTAAAAT
Found at i:71400 original size:18 final size:18
Alignment explanation
Indices: 71379--71421 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
71369 TTTAATTTAT
71379 TTATTTAAAT-TTAAAATA
1 TTATTTAAATATTAAAA-A
*
71397 TTATTTATATCATTAAAAA
1 TTATTTAAAT-ATTAAAAA
71416 TTATTT
1 TTATTT
71422 TTATTTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTTAAATATTAAAAA
Found at i:71403 original size:22 final size:21
Alignment explanation
Indices: 71378--71457 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
71368 ATTTAATTTA
71378 TTTATTTAAATTTAAAATATT
1 TTTATTTAAATTTAAAATATT
* * *
71399 ATTTATAT-CATTAAAAATTATT
1 -TTTATTTAAATTTAAAA-TATT
* *
71421 TTTATTTATA-TTAATATATT
1 TTTATTTAAATTTAAAATATT
*
71441 TTATAATTAAATTTAAA
1 TT-TATTTAAATTTAAA
71458 TAAAATATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
20 6 0.14
21 23 0.52
22 15 0.34
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATTTAAATTTAAAATATT
Found at i:71909 original size:13 final size:16
Alignment explanation
Indices: 71868--71919 Score: 65
Period size: 16 Copynumber: 3.3 Consensus size: 16
71858 TATATATTAC
71868 ATAAAATATAATATGAT
1 ATAAAA-ATAATATGAT
71885 ATAAAAATAATATGA-
1 ATAAAAATAATATGAT
71900 ATAAAAAATAA-AT-AT
1 AT-AAAAATAATATGAT
71915 ATAAA
1 ATAAA
71920 TATTATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 17 0.52
17 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAAAATAATATGAT
Found at i:71963 original size:31 final size:33
Alignment explanation
Indices: 71907--71989 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 33
71897 TGAATAAAAA
71907 ATAAATATATAAATATTATAAAATTTATATAAT
1 ATAAATATATAAATATTATAAAATTTATATAAT
* * *
71940 ATAAAT-TATTAATATT-TTAAATTTATGT-A-
1 ATAAATATATAAATATTATAAAATTTATATAAT
*
71969 ATAAATATA-AAATATTTTAAA
1 ATAAATATATAAATATTATAAA
71990 CGCTATTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 12 0.28
30 6 0.14
31 10 0.23
32 9 0.21
33 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (33 bp):
ATAAATATATAAATATTATAAAATTTATATAAT
Found at i:71982 original size:29 final size:30
Alignment explanation
Indices: 71906--71989 Score: 100
Period size: 31 Copynumber: 2.8 Consensus size: 30
71896 ATGAATAAAA
*
71906 AATAAATATATAAATATTATAAAATTTATAT
1 AATAAATATATAAATATT-TTAAATTTATAT
* *
71937 AATATAA-ATTATTAATATTTTAAATTTATGT
1 AATA-AATA-TATAAATATTTTAAATTTATAT
71968 AATAAATATA-AAATATTTTAAA
1 AATAAATATATAAATATTTTAAA
71990 CGCTATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
29 11 0.24
30 4 0.09
31 20 0.43
32 11 0.24
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
AATAAATATATAAATATTTTAAATTTATAT
Found at i:72326 original size:21 final size:21
Alignment explanation
Indices: 72302--72343 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
72292 GTCATAATCG
72302 TATATAAAAATATTTTATATT
1 TATATAAAAATATTTTATATT
**
72323 TATATAAATTTATTTTATATT
1 TATATAAAAATATTTTATATT
72344 AAAAGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATAAAAATATTTTATATT
Found at i:75449 original size:10 final size:11
Alignment explanation
Indices: 75436--75480 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
75426 TTTTAAAAAG
75436 CTTTCTTT-TT
1 CTTTCTTTCTT
75446 CTTTCTTTCTT
1 CTTTCTTTCTT
*
75457 CTTCATCTTCCTT
1 CTT--TCTTTCTT
75470 CTTTCTTTCTT
1 CTTTCTTTCTT
75481 ATCTAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 12 0.40
13 10 0.33
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (11 bp):
CTTTCTTTCTT
Found at i:75484 original size:20 final size:20
Alignment explanation
Indices: 75436--75484 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
75426 TTTTAAAAAG
*
75436 CTTTCTT-T-TTCTTTCTTT
1 CTTTCTTATCTTCCTTCTTT
75454 C-TTCTTCATCTTCCTTCTTT
1 CTTTCTT-ATCTTCCTTCTTT
75474 CTTTCTTATCT
1 CTTTCTTATCT
75485 AACTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 1 0.04
19 1 0.04
20 14 0.54
21 5 0.19
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (20 bp):
CTTTCTTATCTTCCTTCTTT
Found at i:75859 original size:431 final size:432
Alignment explanation
Indices: 75004--75860 Score: 1287
Period size: 431 Copynumber: 2.0 Consensus size: 432
74994 CATATTTTTT
* * * *
75004 TTTCTTTTTCTTTCTTTCTTCTTCATCTTCTTTCTTTTTTTTTTACCTAACTCTTTTTTTTCAAC
1 TTTCTTTTTCTTTCTTTCTTCTTCATCTTCCTTCTTTCTTTCTTACCTAAC-CTTTTTTTCCAAC
* * * * * *
75069 CCATAACCACCATGACAGAAAAGCAACCCAGAAACCGGCGATCGACCACCATGCCAGTCGCCGGT
65 CCATAACCACAATGAAAAAAAAGCAACCCAGAAACCGGCGACCGACCACCACGCCAGTCGCCGGC
**
75134 GACCACCGTCGGCCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAGTTCTAGACTATTTTC
130 GACCACCGTCGGCCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAAATCTAGACTATTTTC
*
75199 GACCTCCTCTTTTCAAATCCGAAATTAGATTTTTCTAATTCTTTTTAGATTTTTTTAGATCTACA
195 GACCTCCTCTTTTCAAATCCGAAATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACA
75264 AGAAAAATTCAAATCTTATACCTCAAATCCGGTCACCGTCTACCGTTGGATCGCTCCCAAAATCT
260 AGAAAAATTCAAATCTTATACCTCAAATCCGGTCACCGTCTACCGTTGGATCGCTCCCAAAATCT
* * * *
75329 AGTATGTTCTCACCCTTAGTGTAAACTTCTTTCTCACCGTTCGGATTTTTCAAACAATCACCAGA
325 AGTATATTCTCACCCTCAGTGTAAACATCTTTCTCACCGTTCGGATTTTCCAAACAATCACCAGA
* *
75394 ATCTCTTCAATCGGAAAACCCACTTTATTTTTTTTTAAAAAGC
390 ATCTCCTCAATCGGAAAACCCACTTTAGTTTTTTTTAAAAAGC
* *
75437 TTTCTTTTTCTTTCTTTCTTCTTCATCTTCCTTCTTTCTTTCTTATCTAA-C-TTTTTTCCAGCC
1 TTTCTTTTTCTTTCTTTCTTCTTCATCTTCCTTCTTTCTTTCTTACCTAACCTTTTTTTCCAACC
* * * *
75500 CATAACCACAATGGCAAAAAAAAGTAACCTAGAAACCGGCGACCGGCCACCACGTCAGTCGCCGG
66 CATAACCACAAT-G-AAAAAAAAGCAACCCAGAAACCGGCGACCGACCACCACGCCAGTCGCCGG
* *
75565 CGACCACCGTCGGCCACCGCTCATCGGTGGCCGTTGGCTCCCAAATTTCAAATCTAGACTCTTTT
129 CGACCACCGTCGGCCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAAATCTAGACTATTTT
*
75630 CGACCTCCTCTTTTCAAATCC-AGAGTTAGA-TTTTCTAATTCTTTTTAGATTTTTCTAGATCTA
194 CGACCTCCTCTTTTCAAATCCGA-AATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTA
* * * *
75693 CATGAGAAATTCGAATCTTATACCTCAAATCCGGTCACCGTTTACC-TTCGGATCGCTCCCAAAA
258 CAAGAAAAATTCAAATCTTATACCTCAAATCCGGTCACCGTCTACCGTT-GGATCGCTCCCAAAA
* *
75757 TCTAGTATATTCTCACCCTCGGTGTGAACATCTTTCTCACCGTTCGGATTTTCCAAACAATCACC
322 TCTAGTATATTCTCACCCTCAGTGTAAACATCTTTCTCACCGTTCGGATTTTCCAAACAATCACC
*
75822 AGAA-CATCCTCAATC-GAAAAGCCCACTTTGGTTTTTTTT
387 AGAATC-TCCTCAATCGGAAAA-CCCACTTTAGTTTTTTTT
75861 TGAAAACCTC
Statistics
Matches: 383, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
430 29 0.08
431 179 0.47
432 129 0.34
433 46 0.12
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.35
Consensus pattern (432 bp):
TTTCTTTTTCTTTCTTTCTTCTTCATCTTCCTTCTTTCTTTCTTACCTAACCTTTTTTTCCAACC
CATAACCACAATGAAAAAAAAGCAACCCAGAAACCGGCGACCGACCACCACGCCAGTCGCCGGCG
ACCACCGTCGGCCACCGCTCACCGGTGGCCGTTGGCTCCCAAATTTCAAATCTAGACTATTTTCG
ACCTCCTCTTTTCAAATCCGAAATTAGATTTTTCTAATTCTTTTTAGATTTTTCTAGATCTACAA
GAAAAATTCAAATCTTATACCTCAAATCCGGTCACCGTCTACCGTTGGATCGCTCCCAAAATCTA
GTATATTCTCACCCTCAGTGTAAACATCTTTCTCACCGTTCGGATTTTCCAAACAATCACCAGAA
TCTCCTCAATCGGAAAACCCACTTTAGTTTTTTTTAAAAAGC
Found at i:77325 original size:48 final size:48
Alignment explanation
Indices: 77254--77346 Score: 177
Period size: 48 Copynumber: 1.9 Consensus size: 48
77244 GAATACAAAA
77254 TGGGTTAGGTATTCTATAAATAAAATAATATTATAGTATATGTTTGAG
1 TGGGTTAGGTATTCTATAAATAAAATAATATTATAGTATATGTTTGAG
*
77302 TGGGTTAGGTATTCTTTAAATAAAATAATATTATAGTATATGTTT
1 TGGGTTAGGTATTCTATAAATAAAATAATATTATAGTATATGTTT
77347 TAGGTTACCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (48 bp):
TGGGTTAGGTATTCTATAAATAAAATAATATTATAGTATATGTTTGAG
Found at i:78014 original size:37 final size:36
Alignment explanation
Indices: 77973--78067 Score: 88
Period size: 37 Copynumber: 2.6 Consensus size: 36
77963 TTCATTTTAT
77973 TATTTAAAATAATATTAAAAATAAAAA-AATTATATAA
1 TATTTAAAATAATATT-AAAATAAAAATAATT-TATAA
* * * *
78010 TATTTATAATTAA-ATTTAAATAAAAATAATTTTTAT
1 TATTTA-AAATAATATTAAAATAAAAATAATTTATAA
78046 TATTT-AAATAATAATTTAAAAT
1 TATTTAAAATAAT-A-TTAAAAT
78068 TAAATCAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
34 5 0.11
36 18 0.38
37 19 0.40
38 5 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
TATTTAAAATAATATTAAAATAAAAATAATTTATAA
Found at i:78032 original size:36 final size:36
Alignment explanation
Indices: 77973--78065 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 36
77963 TTCATTTTAT
*
77973 TATTTAAAATAAT-ATTAAAAATAAAAA-AATTATATAA
1 TATTT-AAATAATAATT-TAAATAAAAATAATT-TATAA
* * *
78010 TATTTATAATTA-AATTTAAATAAAAATAATTTTTAT
1 TATTTA-AATAATAATTTAAATAAAAATAATTTATAA
78046 TATTTAAATAATAATTTAAA
1 TATTTAAATAATAATTTAAA
78066 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
35 4 0.09
36 27 0.57
37 16 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (36 bp):
TATTTAAATAATAATTTAAATAAAAATAATTTATAA
Found at i:78973 original size:18 final size:20
Alignment explanation
Indices: 78952--78993 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
78942 TTTAATATTT
78952 TTTAAAAA-T-TTTTATATA
1 TTTAAAAATTATTTTATATA
*
78970 TTTAAAAATTATTTTATGTA
1 TTTAAAAATTATTTTATATA
78990 TTTA
1 TTTA
78994 TCCTCCTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAAAATTATTTTATATA
Found at i:80090 original size:2 final size:2
Alignment explanation
Indices: 80078--80118 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
80068 GAAACATTAT
*
80078 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
80119 TTAGTACCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:81386 original size:13 final size:13
Alignment explanation
Indices: 81368--81397 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
81358 TGTGAAAACT
81368 TATTAAATATAAA
1 TATTAAATATAAA
81381 TATTAAATATAAA
1 TATTAAATATAAA
81394 TATT
1 TATT
81398 TTAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATATAAA
Found at i:81408 original size:13 final size:14
Alignment explanation
Indices: 81368--81408 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
81358 TGTGAAAACT
81368 TATTAAATATAA-A
1 TATTAAATATAATA
81381 TATTAAATATAAATA
1 TATTAAATAT-AATA
*
81396 TTTTAAA-ATAATA
1 TATTAAATATAATA
81409 AAAAATCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 14 0.56
14 4 0.16
15 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TATTAAATATAATA
Found at i:85091 original size:2 final size:2
Alignment explanation
Indices: 85084--85135 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
85074 CTACACATAC
*
85084 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
85126 AC AT AT AT AT
1 AT AT AT AT AT
85136 CTTACTGGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:86454 original size:9 final size:9
Alignment explanation
Indices: 86442--86467 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
86432 TCACTTTCCC
86442 AATATATAT
1 AATATATAT
86451 AATATATAT
1 AATATATAT
86460 AATATATA
1 AATATATA
86468 AATGCCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATATATAT
Found at i:87670 original size:2 final size:2
Alignment explanation
Indices: 87663--87697 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
87653 AAGAAAAGAA
* *
87663 AT AT AT AT AT AT AT AT AT AT AT AC AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
87698 AAACATGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:88086 original size:8 final size:8
Alignment explanation
Indices: 88073--88105 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
88063 TCATATATAT
88073 TTTTTTTG
1 TTTTTTTG
88081 TTTTTTTG
1 TTTTTTTG
*
88089 GTTTTTT-
1 TTTTTTTG
88096 TTTTTTTG
1 TTTTTTTG
88104 TT
1 TT
88106 ACAAGGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (8 bp):
TTTTTTTG
Found at i:88099 original size:15 final size:16
Alignment explanation
Indices: 88074--88103 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
88064 CATATATATT
88074 TTTTTTGTTTTTTTGG
1 TTTTTTGTTTTTTTGG
88090 TTTTTT-TTTTTTTG
1 TTTTTTGTTTTTTTG
88104 TTACAAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTTGTTTTTTTGG
Found at i:88224 original size:2 final size:2
Alignment explanation
Indices: 88217--88246 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88207 TCCCTTCCCT
88217 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88247 GGGAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88534 original size:18 final size:19
Alignment explanation
Indices: 88508--88569 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
88498 ATATAATTAT
88508 ATAAATAAAATATAAAA-A
1 ATAAATAAAATATAAAATA
*
88526 ATAATTAAAATATAAAATA
1 ATAAATAAAATATAAAATA
* *
88545 ATATA-AAAATAATAAGAT-
1 ATAAATAAAAT-ATAAAATA
88563 ATAAATA
1 ATAAATA
88570 TATTAATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 25 0.69
19 11 0.31
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAATAAAATATAAAATA
Found at i:88544 original size:16 final size:16
Alignment explanation
Indices: 88508--88556 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
88498 ATATAATTAT
*
88508 ATAAATAAAATATAAAAA
1 ATAATTAAAATAT--AAA
88526 ATAATTAAAATATAAA
1 ATAATTAAAATATAAA
88542 ATAATATAAAA-ATAA
1 ATAAT-TAAAATATAA
88557 TAAGATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 12 0.41
17 5 0.17
18 12 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAATTAAAATATAAA
Found at i:88564 original size:26 final size:25
Alignment explanation
Indices: 88512--88572 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
88502 AATTATATAA
88512 ATAAAATATAAAAAATAATTAAAAT
1 ATAAAATATAAAAAATAATTAAAAT
*
88537 ATAAAATAATATAAAAATAA-TAAGAT
1 ATAAAAT-ATA-AAAAATAATTAAAAT
88563 ATAAATATAT
1 ATAAA-ATAT
88573 TAATATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.22
26 15 0.47
27 10 0.31
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (25 bp):
ATAAAATATAAAAAATAATTAAAAT
Found at i:88576 original size:19 final size:18
Alignment explanation
Indices: 88554--88644 Score: 61
Period size: 17 Copynumber: 5.2 Consensus size: 18
88544 AATATAAAAA
88554 TAATAAGATATAAATATAT
1 TAATAA-ATATAAATATAT
*
88573 TAATATAT-TAAA-AT-T
1 TAATAAATATAAATATAT
88588 T-ATATAATATAAATATAT
1 TAATA-AATATAAATATAT
*
88606 TAATATAT-TAAA-AT-T
1 TAATAAATATAAATATAT
*
88621 TATATAAAATATATAATATTT
1 TA-AT-AAATATA-AATATAT
88642 TAA
1 TAA
88645 AATTAATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
14 3 0.05
15 7 0.12
16 10 0.18
17 13 0.23
18 8 0.14
19 10 0.18
20 3 0.05
21 3 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (18 bp):
TAATAAATATAAATATAT
Found at i:88578 original size:14 final size:14
Alignment explanation
Indices: 88561--88612 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 14
88551 AAATAATAAG
88561 ATATAAATATATTAA
1 ATATAAATATATT-A
*
88576 TATATTAAAATTTATATA
1 -ATA-T-AAATATAT-TA
88594 ATATAAATATATTA
1 ATATAAATATATTA
88608 ATATA
1 ATATA
88613 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 7 0.23
15 7 0.23
16 4 0.13
17 4 0.13
18 8 0.26
19 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATAAATATATTA
Found at i:88598 original size:33 final size:33
Alignment explanation
Indices: 88561--88660 Score: 138
Period size: 33 Copynumber: 3.2 Consensus size: 33
88551 AAATAATAAG
88561 ATATAAATATATTAATATATTAAAATTTATATA
1 ATATAAATATATTAATATATTAAAATTTATATA
88594 ATATAAATATATTAATATATTAAAA-TT-TAT-
1 ATATAAATATATTAATATATTAAAATTTATATA
* *
88624 ATA-AAATATA-TAATATTTTAAAATTAATTATA
1 ATATAAATATATTAATATATTAAAATTTA-TATA
88656 ATATA
1 ATATA
88661 TAAAAATATA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
28 12 0.20
29 8 0.13
30 3 0.05
31 6 0.10
32 5 0.08
33 26 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATATAAATATATTAATATATTAAAATTTATATA
Found at i:88625 original size:14 final size:14
Alignment explanation
Indices: 88575--88626 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
88565 AAATATATTA
88575 ATATATTAAAATTT
1 ATATATTAAAATTT
88589 ATATAATATAAATATATT
1 ATAT-AT-TAAA-AT-TT
88607 AATATATTAAAATTT
1 -ATATATTAAAATTT
88622 ATATA
1 ATATA
88627 AAATATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 9 0.27
15 4 0.12
16 6 0.18
17 6 0.18
18 4 0.12
19 4 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:91145 original size:19 final size:19
Alignment explanation
Indices: 91121--91158 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91111 ATATATTGTT
91121 TCTACCCTTTTAATAGCTA
1 TCTACCCTTTTAATAGCTA
*
91140 TCTACCCTTTTAATTGCTA
1 TCTACCCTTTTAATAGCTA
91159 AAGTATGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (19 bp):
TCTACCCTTTTAATAGCTA
Found at i:92163 original size:2 final size:2
Alignment explanation
Indices: 92158--92197 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
92148 TATAGCAAGA
* *
92158 AT AT AT AT AT AT AT AT AT AT AG AT AT AG AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92198 TCTTGTGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:95031 original size:2 final size:2
Alignment explanation
Indices: 95024--95064 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
95014 ACGTGCTTAC
95024 TA TA TA TA 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 TA T
95065 GTAGGGAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:96768 original size:38 final size:36
Alignment explanation
Indices: 96705--96777 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
96695 AATAAACAAT
* *
96705 TATTATTTAATAAATTTTATTTTAAAATTAATTTTTAC
1 TATTAATTAATAAATTTTATCTTAAAA-T-ATTTTTAC
96743 TATTAATTAATTAAATTTT-TCTTAAAATATTTTTA
1 TATTAATTAA-TAAATTTTATCTTAAAATATTTTTA
96778 AAACCCTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.22
37 1 0.03
38 16 0.50
39 8 0.25
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (36 bp):
TATTAATTAATAAATTTTATCTTAAAATATTTTTAC
Found at i:99045 original size:25 final size:26
Alignment explanation
Indices: 98968--99046 Score: 67
Period size: 25 Copynumber: 3.1 Consensus size: 26
98958 CAATATCACA
*
98968 TATATATATATATATATTTATAATTT-TT
1 TATATA-AT-TATAT-TTTATATTTTATT
* *
98996 TATATAATT-TATATT-TATTTAATT
1 TATATAATTATATTTTATATTTTATT
*
99020 TA-ATTATTATATTTTATATTTTATT
1 TATATAATTATATTTTATATTTTATT
99045 TA
1 TA
99047 CGTAAATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
23 9 0.21
24 11 0.26
25 13 0.31
26 1 0.02
27 2 0.05
28 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TATATAATTATATTTTATATTTTATT
Found at i:99136 original size:26 final size:26
Alignment explanation
Indices: 99065--99139 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
99055 ATGTTTGTTA
* *
99065 AATT-TTAAATAAATTAAAAATATTT
1 AATTATTAAATATATTAAAAAAATTT
* * *
99090 AATTATT-TATTTAATATAAAAAATTT
1 AATTATTAAATATATTA-AAAAAATTT
99116 AATTATTAAATATATTAAAAAAAT
1 AATTATTAAATATATTAAAAAAAT
99140 AATATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
25 9 0.23
26 24 0.62
27 6 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTATTAAATATATTAAAAAAATTT
Found at i:99454 original size:17 final size:17
Alignment explanation
Indices: 99432--99479 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
99422 TAAATTTTTT
99432 ATTTAATTTTAAATAAA
1 ATTTAATTTTAAATAAA
* *
99449 ATTTAA-TTTAATTTAA
1 ATTTAATTTTAAATAAA
*
99465 ATTAAAATTTTAAAT
1 ATT-TAATTTTAAAT
99480 TATTATTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTTTAAATAAA
Found at i:99460 original size:22 final size:23
Alignment explanation
Indices: 99422--99493 Score: 76
Period size: 22 Copynumber: 3.1 Consensus size: 23
99412 CGAAAAATTT
* *
99422 TAAATTTTTTATTTAATTTTAAA
1 TAAAATTTTAATTTAATTTTAAA
99445 TAAAA-TTTAATTTAA-TTTAAA
1 TAAAATTTTAATTTAATTTTAAA
* *
99466 TTAAAATTTTAAATTATTATTTAAA
1 -TAAAATTTTAATTTAAT-TTTAAA
99491 TAA
1 TAA
99494 TAATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 6 0.15
22 14 0.34
23 12 0.29
24 3 0.07
25 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAAATTTTAATTTAATTTTAAA
Found at i:99488 original size:12 final size:12
Alignment explanation
Indices: 99439--99509 Score: 51
Period size: 13 Copynumber: 6.0 Consensus size: 12
99429 TTTATTTAAT
99439 TTTAAA-TAAAA
1 TTTAAATTAAAA
*
99450 TTT-AATT-TAA
1 TTTAAATTAAAA
99460 TTTAAATTAAAA
1 TTTAAATTAAAA
**
99472 TTTTAAATTATTA
1 -TTTAAATTAAAA
99485 TTTAAA-TAATAA
1 TTTAAATTAA-AA
*
99497 TAATAAATTAAAA
1 T-TTAAATTAAAA
99510 ATATTTCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
10 7 0.15
11 10 0.22
12 10 0.22
13 16 0.35
14 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TTTAAATTAAAA
Found at i:100685 original size:2 final size:2
Alignment explanation
Indices: 100678--100709 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
100668 AGACCTGGGG
*
100678 AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100710 GATAGAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:101057 original size:12 final size:12
Alignment explanation
Indices: 101040--101064 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101030 TTCTTGGCCT
101040 TACCCTCTTATA
1 TACCCTCTTATA
101052 TACCCTCTTATA
1 TACCCTCTTATA
101064 T
1 T
101065 TATCTTCTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (12 bp):
TACCCTCTTATA
Found at i:102463 original size:22 final size:22
Alignment explanation
Indices: 102420--102463 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
102410 TTATAAAATT
*
102420 TATTAATAATATATAATTTATA
1 TATTAATAATATATAATATATA
*
102442 TATTCATAATATACTAA-ATATA
1 TATTAATAATATA-TAATATATA
102464 AATTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAATAATATATAATATATA
Found at i:104299 original size:3 final size:3
Alignment explanation
Indices: 104285--104314 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
104275 AAAATATAAC
*
104285 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
104315 CATCATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:107371 original size:2 final size:2
Alignment explanation
Indices: 107366--107400 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107356 CCTTTCTGTT
107366 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
107401 TTGGAAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:107660 original size:25 final size:25
Alignment explanation
Indices: 107623--107695 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
107613 AACACAAATT
* *
107623 TATAAATATTTAAAATTTTATAAAA
1 TATAAATATTTAATATTTTAAAAAA
*
107648 TATTAAT-TATTAATATATTTAAAAAA
1 TATAAATAT-TTAATAT-TTTAAAAAA
107674 TATAAATATTTAATATTTTAAA
1 TATAAATATTTAATATTTTAAA
107696 TTATAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 1 0.02
25 18 0.44
26 21 0.51
27 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TATAAATATTTAATATTTTAAAAAA
Found at i:107718 original size:20 final size:20
Alignment explanation
Indices: 107693--107747 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 20
107683 TTAATATTTT
107693 AAATTATAATTATA-ACATAA
1 AAATTATAATTATATA-ATAA
107713 AAATTAT-ATTAATATAATAA
1 AAATTATAATT-ATATAATAA
107733 AAATATATAAATTAT
1 AAAT-TAT-AATTAT
107748 CGAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 3 0.10
20 18 0.60
21 4 0.13
22 2 0.07
23 3 0.10
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATTATAATTATATAATAA
Found at i:109983 original size:34 final size:32
Alignment explanation
Indices: 109936--109999 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
109926 CAATTTGAAT
*
109936 ATAATAAAAATGTATCAAAATTTATATAAAATCA
1 ATAATAAAAATGTA--AAAATCTATATAAAATCA
* *
109970 ATAATTAATATGTAAAAATCTATATAAAAT
1 ATAATAAAAATGTAAAAATCTATATAAAAT
110000 AAATTGATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 15 0.56
34 12 0.44
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (32 bp):
ATAATAAAAATGTAAAAATCTATATAAAATCA
Found at i:110126 original size:142 final size:143
Alignment explanation
Indices: 109848--110139 Score: 355
Period size: 142 Copynumber: 2.0 Consensus size: 143
109838 AACTATAAAA
*
109848 ATATAAAATAAATTGAAATACAAAACAAAAACATGAAAAAATTAAAACAAAACTTACTATGAAAA
1 ATATAAAATAAATTGAAATACAAAACAAAAACATGAAAAAATTAAAACAAAACTGACTATGAAAA
* * * *
109913 AATGATAAGAACACAATTTGAATATAATAAAAATGTATCAAAATTTATATAAAATCAATAATTAA
66 AATGATAAAAACACAATATGAATATAATAAAAATATATCAAAATTTATATAAAATAAATAATTAA
109978 TATGTAAAAATCT
131 TATGTAAAAATCT
* * *
109991 ATATAAAATAAATTGATATACAAAACAAAAATAT-AATAAAA-T-AATCAAAACATGACATAATG
1 ATATAAAATAAATTGAAATACAAAACAAAAACATGAA-AAAATTAAAACAAAAC-TGAC-T-ATG
* * *
110053 CAAAAAATGGTAAAAATA-AGATATG-A-AT-ATAAAAATATATTAAAATTTATATAAAATAAAT
62 -AAAAAATGATAAAAACACA-ATATGAATATAATAAAAATATATCAAAATTTATATAAAATAAAT
* *
110114 AATTAATGTGTAAAAATTT
125 AATTAATATGTAAAAATCT
*
110133 ATGTAAA
1 ATATAAA
110140 TTTATACTTT
Statistics
Matches: 129, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
141 8 0.06
142 59 0.46
143 39 0.30
144 5 0.04
145 18 0.14
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (143 bp):
ATATAAAATAAATTGAAATACAAAACAAAAACATGAAAAAATTAAAACAAAACTGACTATGAAAA
AATGATAAAAACACAATATGAATATAATAAAAATATATCAAAATTTATATAAAATAAATAATTAA
TATGTAAAAATCT
Found at i:110181 original size:24 final size:24
Alignment explanation
Indices: 110149--110202 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
110139 ATTTATACTT
110149 TGAATACAAAAAAAAGCATAAATA
1 TGAATACAAAAAAAAGCATAAATA
* *
110173 TGAATACAAGAAAAATCATAAATA
1 TGAATACAAAAAAAAGCATAAATA
110197 TGAATA
1 TGAATA
110203 TGTTATGGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.20
Consensus pattern (24 bp):
TGAATACAAAAAAAAGCATAAATA
Found at i:110601 original size:18 final size:18
Alignment explanation
Indices: 110578--110615 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
110568 ATGTTTTAAT
110578 TACATATTATTCTAATTA
1 TACATATTATTCTAATTA
110596 TACATATTATTCTAATTA
1 TACATATTATTCTAATTA
110614 TA
1 TA
110616 GCCAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (18 bp):
TACATATTATTCTAATTA
Found at i:111065 original size:11 final size:11
Alignment explanation
Indices: 111006--111071 Score: 55
Period size: 11 Copynumber: 5.9 Consensus size: 11
110996 AATTATTAAC
111006 ATATAAAATAT
1 ATATAAAATAT
111017 ATTATAAAACT-T
1 A-TATAAAA-TAT
*
111029 TTATAAAAT-T
1 ATATAAAATAT
* * *
111039 TTACACAAACAT
1 ATATA-AAATAT
111051 ATATAAAATAT
1 ATATAAAATAT
111062 ATATAAAATA
1 ATATAAAATA
111072 AATTATTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.13
11 26 0.58
12 12 0.27
13 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:111144 original size:10 final size:11
Alignment explanation
Indices: 111121--111149 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
111111 ATAATAATTT
111121 AAATAAACAAA
1 AAATAAACAAA
111132 AAATAAA-AAA
1 AAATAAACAAA
111142 AAATAAAC
1 AAATAAAC
111150 GAACACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (11 bp):
AAATAAACAAA
Found at i:112771 original size:2 final size:2
Alignment explanation
Indices: 112764--112788 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
112754 ATAATTATTC
112764 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 A
112789 GCATTACCGC
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114993 original size:2 final size:2
Alignment explanation
Indices: 114986--115011 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114976 TTTGTCAAGA
114986 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
115012 TAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119692 original size:25 final size:27
Alignment explanation
Indices: 119642--119696 Score: 87
Period size: 25 Copynumber: 2.1 Consensus size: 27
119632 TTTATCGTAT
119642 TTATTATAATTATAAATATAATAAATA
1 TTATTATAATTATAAATATAATAAATA
*
119669 TTATTATAA-T-TAATTATAATAAATA
1 TTATTATAATTATAAATATAATAAATA
119694 TTA
1 TTA
119697 AATTGATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 17 0.63
26 1 0.04
27 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATTATAATTATAAATATAATAAATA
Found at i:121128 original size:2 final size:2
Alignment explanation
Indices: 121121--121156 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
121111 TAGAAAATGA
121121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121157 CACAAACAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:122216 original size:20 final size:18
Alignment explanation
Indices: 122188--122234 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
122178 GTCAAGTATA
*
122188 TTTATTTTTTAAAATTAT
1 TTTATTTTTTAAAAATAT
122206 TATTATATTTTTAAAAATAT
1 T-TTAT-TTTTTAAAAATAT
122226 TTTATTTTT
1 TTTATTTTT
122235 ATTTTAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 8 0.31
20 13 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATTTTTTAAAAATAT
Found at i:123431 original size:13 final size:14
Alignment explanation
Indices: 123415--123466 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
123405 GATAATTATT
123415 TTTAAAAA-TAATA
1 TTTAAAAATTAATA
123428 TTTAATAAATTTAATA
1 TTTAA-AAA-TTAATA
**
123444 TTTAAATTTTAATA
1 TTTAAAAATTAATA
*
123458 TTTACAAAT
1 TTTAAAAAT
123467 CTCATGTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.16
14 15 0.48
15 1 0.03
16 10 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TTTAAAAATTAATA
Found at i:123466 original size:16 final size:15
Alignment explanation
Indices: 123423--123466 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
123413 TTTTTAAAAA
*
123423 TAATATTTAATAAATT
1 TAATATTTAA-AATTT
123439 TAATATTT-AAATTT
1 TAATATTTAAAATTT
123453 TAATATTTACAAAT
1 TAATATTTA-AAAT
123467 CTCATGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 12 0.48
15 1 0.04
16 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATATTTAAAATTT
Found at i:123616 original size:28 final size:25
Alignment explanation
Indices: 123575--123630 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
123565 ATTTATAATT
* *
123575 TTTTTTAAATTAAATAATAATATTATTA
1 TTTTTAAAAATAAA-AATAA-ATTA-TA
123603 TTTTTAAAAATAAAAATAAATTATA
1 TTTTTAAAAATAAAAATAAATTATA
123628 TTT
1 TTT
123631 ATTTTTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 4 0.15
27 5 0.19
28 12 0.46
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTTAAAAATAAAAATAAATTATA
Found at i:124039 original size:2 final size:2
Alignment explanation
Indices: 124032--124065 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124022 ATGGTCTCAA
*
124032 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124066 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:125937 original size:39 final size:38
Alignment explanation
Indices: 125870--125963 Score: 93
Period size: 41 Copynumber: 2.4 Consensus size: 38
125860 TTAATGAAGT
*
125870 TTTTTTTTAATTTTAAAAAGAAGATTAAAAATTATCACGTA
1 TTTTTTTTAAATTTAAAAAGAAGATTAAAAA--AT-ACGTA
* * *
125911 TTTTTTTTAAATTTAAAAA-TA-TTTAAAAAATATGTA
1 TTTTTTTTAAATTTAAAAAGAAGATTAAAAAATACGTA
125947 TTATTTTATTAAATTTA
1 TT-TTTT-TTAAATTTA
125964 TATATAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 6 0.13
37 6 0.13
38 9 0.19
39 7 0.15
40 1 0.02
41 18 0.38
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (38 bp):
TTTTTTTTAAATTTAAAAAGAAGATTAAAAAATACGTA
Found at i:128674 original size:21 final size:22
Alignment explanation
Indices: 128649--128701 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
128639 TTTATATAAT
*
128649 ATAAATTATTAACATA-TTAAA
1 ATAAATTATTAAAATATTTAAA
*
128670 ATAAA-TA-TAAAATATTTTAA
1 ATAAATTATTAAAATATTTAAA
128690 ATATAATTATTA
1 ATA-AATTATTA
128702 TATTATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 7 0.27
22 2 0.08
23 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATTATTAAAATATTTAAA
Done.