Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold257
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: 204476
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
File 1 of 2
Found at i:3199 original size:61 final size:61
Alignment explanation
Indices: 3096--3425 Score: 467
Period size: 61 Copynumber: 5.4 Consensus size: 61
3086 CTCTTTTAGC
*
3096 CCTTCAAGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAGCCCACAC-AGGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACGA-GTTGGTGGCA
* *
3157 CCTTCCAGTCCTCAAAGAGTAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
*
3218 CCTT-TAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
3278 -CTTTTCAGTCCTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTCT-AGTCCTCAAAGAGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* **
3340 CCTT-TAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
3399 -CTTGCTAGTCCTCAAAGAGCAGGACAC
1 CCTT-CTAGTCCTCAAAGAGCAGGACAC
3426 TCTCTCATTT
Statistics
Matches: 246, Mismatches: 15, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
58 3 0.01
59 27 0.11
60 81 0.33
61 93 0.38
62 39 0.16
63 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:3375 original size:121 final size:119
Alignment explanation
Indices: 3102--3424 Score: 495
Period size: 121 Copynumber: 2.7 Consensus size: 119
3092 TAGCCCTTCA
*
3102 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTCCAGTC
1 AGTCCTCAAAGAGCAGGACACCTCTTCTTTT-AAAGCCCACACA-GTTGGTGGCA-CTTCCAGTC
* *
3167 CTCAAAGAGTAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
63 CTCAAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
*
3223 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTTCAGTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACAC-AGTTGGTGGCAC-TTCCAGTC
* *
3288 CTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
63 CTCAAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
* *
3345 AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACATAAGTTGGTGGCACTTGCTAGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACA-CAGTTGGTGGCACTT-CCAGTCC
3410 TCAAAGAGCAGGACA
64 TCAAAGAGCAGGACA
3425 CTCTCTCATT
Statistics
Matches: 187, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
120 3 0.02
121 114 0.61
122 70 0.37
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (119 bp):
AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAGTTGGTGGCACTTCCAGTCCTC
AAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
Found at i:3511 original size:99 final size:98
Alignment explanation
Indices: 3340--3523 Score: 325
Period size: 99 Copynumber: 1.9 Consensus size: 98
3330 GTTAGTGGCA
*
3340 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACATAAGTTGGTGGCACTTGCT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CT
3405 AGTCCTCAAAGAGCAGGACACTCTCTCATTTCAC
65 AGTCCTCAAAGAGCAGGACACTCTCTCATTTCAC
3439 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
3503 TAGTCCTCAAAGAGCAGGACA
64 TAGTCCTCAAAGAGCAGGACA
3524 ACTTTTTCCT
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
99 52 0.63
100 27 0.33
101 3 0.04
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (98 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTA
GTCCTCAAAGAGCAGGACACTCTCTCATTTCAC
Found at i:4153 original size:350 final size:351
Alignment explanation
Indices: 3591--4463 Score: 1441
Period size: 350 Copynumber: 2.5 Consensus size: 351
3581 GGACGCCTTC
* * * * *
3591 TAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTT
1 TAAAGCCCACACGAGTTAGTGGCACCTTT--AGTCCTCAAAGAGCAGGACAC--ATCTTCCTTTT
* * * * **
3655 AAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTCCCATTT-CAAA
62 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG-CTTT-CTTTTTGCAAA
*
3719 GCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGATGCTTTTTTTTCAAAGCCCAC
125 GCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC----TCTTCAAAGCCCAC
*
3783 ACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGTTTTTTTTCCAAAGCCCACACAAGCT
186 ACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCT
3848 GGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTT
251 GGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTT
3913 TCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTT
316 TCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTT
3949 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
1 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
4014 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
66 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
*
4079 ACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGC-CTTCAAAGCCCACACAAGTTGGT
131 ACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTCTTCAAAGCCCACACAAGTTGGT
*
4143 GGCACCTTCAGTCCTTAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
196 GGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
* *
4208 TTTAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTC
261 TTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTC
4273 AAAGAGCAGGACACTTTTTTTCTTTT
326 AAAGAGCAGGACACTTTTTTTCTTTT
4299 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
1 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
*
4364 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCAC
66 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
*
4429 ACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCA
131 ACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCA
4464 AGACGTTCTT
Statistics
Matches: 491, Mismatches: 20, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
349 4 0.01
350 331 0.67
353 4 0.01
354 29 0.06
355 76 0.15
357 21 0.04
358 23 0.05
359 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (351 bp):
TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
ACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTCTTCAAAGCCCACACAAGTTGGT
GGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
TTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTC
AAAGAGCAGGACACTTTTTTTCTTTT
Found at i:4184 original size:295 final size:291
Alignment explanation
Indices: 3439--4468 Score: 1225
Period size: 295 Copynumber: 3.5 Consensus size: 291
3429 CTCATTTCAC
* ** *
3439 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGA-TGCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
3504 AGTCCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTCAGT
65 AGTCCTCAAAGAGCAGGA-TGC-CTTTCC----AAAGCCCACACAAGCTGGTGGCACCTTTCAGT
* **
3569 CCTCAAAGAGCAGGACGCCTTCTAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAG
124 CCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTCAAAGAG
3634 CAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAG
189 CAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAG
* * *
3699 GACGCCTTTCCCATTTCAAAGCCCACACAAGTTGGTGGCA
254 GACACATTT-CC-TTTTAAAGCCCACACAAGTTGGTGGCA
*
3739 CCTTCAGTCCTCAAAGAGCAGGATGCT-TT-TTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
**
3802 AGTCCTCAAAGAGCAGGATGTTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
65 AGTCCTCAAAGAGCAGGATG---CCTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
3867 CAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTCAAAGAGCAG
127 CAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTCAAAGAGCAG
3932 GACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGAC
192 GACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGAC
3997 ACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
257 ACAT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
4033 CCTTCAGTCCTCAAAGAGCAGGATGCT-TTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTT
1 CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTT--AAAGCCCACACAAGTTGGTGGCACC-T
* *
4097 TCAGTCCTCAAAGAGCAGGATGCC-TT-CAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTT
63 TCAGTCCTCAAAGAGCAGGATGCCTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTC
* * * *
4159 AAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCA-CCTTTT--AGTCCTCAAA
128 AAAGAGCAGGACGC----CTTCCAAAGCCCACACAAG-T--TAGCAGCATTTTCCAGTCCTCAAA
* ** * * *
4221 GAGCAGGACGC-------C-TTCCAAAGCCCACACAAGTTAGCGGCA-TTTTCCAGTCCTCAAAG
186 GAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT--AGTCCTCAAAG
* * * *
4277 AGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
249 AGCAGGACAC---ATTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
4323 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGC-TCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** * *
4388 AGTCCTCAAAGAGCAGGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
65 AGTCCTCAAAGAGCAGGATGC---C--TTTCCAAAGCCCACACAAGCTGGTGGCACCTTTC-AGT
*
4452 CCTCAAAGAGCAAGACG
124 CCTCAAAGAGCAGGACG
4469 TTCTTTCTTT
Statistics
Matches: 656, Mismatches: 43, Indels: 65
0.86 0.06 0.09
Matches are distributed among these distances:
286 3 0.00
287 23 0.04
288 22 0.03
289 24 0.04
290 75 0.11
291 24 0.04
292 33 0.05
293 2 0.00
294 55 0.08
295 212 0.32
296 53 0.08
297 49 0.07
298 51 0.08
299 8 0.01
300 22 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (291 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
GTCCTCAAAGAGCAGGATGCCTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCAAA
GAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCAGCATTTTCCAGTCCTCAAAGAGCAGGACA
CTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACAT
TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:4566 original size:103 final size:100
Alignment explanation
Indices: 4385--4660 Score: 363
Period size: 103 Copynumber: 2.8 Consensus size: 100
4375 TGGTGGCACC
*
4385 TTCAGTCCTCAAAGAGCAGGATGCTTTCTT-TTTGT-AAAGCCCACACAAGTTGGTGGCACTTCC
1 TTCAGTCCTCAAAGAGCAGGACGCTTT-TTCTTT-TCAAAGCCCACACAAGTTGGTGGCACTTCC
* *
4448 TAGTCCTCAAAGAGCAAGACGTTCTTTCTTTTTCTTCCT
64 TAGTCCTCAAAGAGCAAGACGTTCTTTC-CTTTC-GCCT
4487 TTCCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TT-CAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
*
4552 AGTCCTCAAAGAGCAGGACGTTCTTTCCTTTCGCCT
65 AGTCCTCAAAGAGCAAGACGTTCTTTCCTTTCGCCT
** * *
4588 TTTTGTCCTCAAAGAGCAGGACAC-----C-TTTCAAAGCCCACACAAGTTGGTGGCACTT-TTC
1 TTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-
4646 AGTCCTCAAAGAGCA
65 AGTCCTCAAAGAGCA
4661 GGATGCTTTC
Statistics
Matches: 162, Mismatches: 8, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
93 1 0.01
94 45 0.28
95 1 0.01
100 19 0.12
101 5 0.03
102 9 0.06
103 82 0.51
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (100 bp):
TTCAGTCCTCAAAGAGCAGGACGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTA
GTCCTCAAAGAGCAAGACGTTCTTTCCTTTCGCCT
Found at i:4767 original size:61 final size:59
Alignment explanation
Indices: 4592--4782 Score: 234
Period size: 57 Copynumber: 3.3 Consensus size: 59
4582 TCGCCTTTTT
*
4592 GTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * * *
4647 GTCCTCAAAGAGCAGGATGCTTTCTTTT--TATCCCACACTAGTTGGTGGCA-TCTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTCA
* *
4704 GTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
4765 GTCCTCAAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
4783 ACACTTCTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
55 18 0.16
56 1 0.01
57 41 0.36
58 2 0.02
59 11 0.10
61 40 0.35
62 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:4812 original size:42 final size:41
Alignment explanation
Indices: 4765--4897 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
4755 GCACTTTTCA
*
4765 GTCCTCAAAGAGCAGGACACACTTCTTTCTCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTC-CTTT
*
4807 GTCCTCAAAAAGCAGGACAC-TTTCCTTGTCT-TCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACATTT-CTT-TCTCT-TTTTCCTTT
* * **
4849 GTCCTCAAGGAACAGGAC-CTATTTCACTCTCTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCTTTCTCTTTTTCCTTT
4889 GTCCTCAAA
1 GTCCTCAAA
4898 AAAAAAAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
40 12 0.16
41 10 0.13
42 44 0.57
43 11 0.14
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTCCTTT
Found at i:5744 original size:27 final size:27
Alignment explanation
Indices: 5714--5974 Score: 319
Period size: 27 Copynumber: 9.1 Consensus size: 27
5704 ACACGGGATG
5714 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
5741 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
5767 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
5794 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
5829 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
5856 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
5883 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
5918 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
5945 ATGGGCATGGAAT-AAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
5971 ATGG
1 ATGG
5975 AATGATTTTC
Statistics
Matches: 208, Mismatches: 9, Indels: 35
0.83 0.04 0.14
Matches are distributed among these distances:
26 42 0.20
27 104 0.50
29 4 0.02
30 6 0.03
31 4 0.02
32 6 0.03
33 4 0.02
35 38 0.18
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.16
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:5841 original size:62 final size:62
Alignment explanation
Indices: 5767--5887 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
5757 AAATGAAGGC
*
5767 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
*
5829 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGG
5888 CATGGAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.46, C:0.07, G:0.31, T:0.17
Consensus pattern (62 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
Found at i:5861 original size:89 final size:89
Alignment explanation
Indices: 5741--5974 Score: 445
Period size: 89 Copynumber: 2.7 Consensus size: 89
5731 AAATGAAGGC
5741 ATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
5805 ATAAAAAATTGAAGACATGGGATA
66 ATAAAAAATTGAAGACATGGGATA
5829 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
5894 ATAAAAAATTGAAGACATGGGATA
66 ATAAAAAATTGAAGACATGGGATA
*
5918 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT-AAGAAATGAAGGCATGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGG
5975 AATGATTTTC
Statistics
Matches: 144, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
88 29 0.20
89 115 0.80
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.17
Consensus pattern (89 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
ATAAAAAATTGAAGACATGGGATA
Found at i:5922 original size:62 final size:61
Alignment explanation
Indices: 5856--5974 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 61
5846 AAATGAAGGC
5856 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAA-TGAAGACATGGGATA
* *
5918 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAGAAATGAAGGCATGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGG
5975 AATGATTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 10 0.18
62 45 0.82
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (61 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGGGATA
Found at i:7316 original size:53 final size:50
Alignment explanation
Indices: 7208--7331 Score: 144
Period size: 53 Copynumber: 2.4 Consensus size: 50
7198 AATTGCTCGT
*
7208 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
7259 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATC--GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
7312 AATCGGGGATACTCCAACCC
1 AATCGGGGATACTCCAACCC
7332 TGTTATTTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
51 22 0.34
52 4 0.06
53 38 0.59
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:7487 original size:79 final size:79
Alignment explanation
Indices: 7262--7569 Score: 483
Period size: 79 Copynumber: 3.9 Consensus size: 79
7252 TTCCTTTAAT
* *
7262 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
* *
7327 AACCCTGTTATTTT
66 AACCCCGTTATTTC
* * *
7341 CGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
7405 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
7419 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
7484 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * **
7498 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCCGGGATACTTT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
7563 AACCCCG
66 AACCCCG
7570 ATTTTATTTT
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 75 0.35
79 140 0.65
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:14222 original size:22 final size:22
Alignment explanation
Indices: 14177--14236 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
14167 AGTTTAATTA
14177 AATTATTTTTTAATTATATAATAT
1 AATTATTTTTT-A-TATATAATAT
*
14201 ATATTATTTTTTATAT-TTATAT
1 A-ATTATTTTTTATATATAATAT
*
14223 AATGTAATTTTTAT
1 AAT-TATTTTTTAT
14237 CGTATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 2 0.06
22 15 0.47
23 3 0.09
24 2 0.06
25 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
AATTATTTTTTATATATAATAT
Found at i:16937 original size:143 final size:143
Alignment explanation
Indices: 16674--16968 Score: 554
Period size: 143 Copynumber: 2.1 Consensus size: 143
16664 TATAATAATA
* *
16674 TATTGCACAGGATTTTTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
1 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
*
16739 ATGATTAATTGTTATAAATATTACAATGATAGTATTACAAACTATTTGATTCATATATAATATGT
66 ATGATTAATTGTTATAAATATTACAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
16804 TTCAGATAAATTT
131 TTCAGATAAATTT
16817 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
1 TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
*
16882 ATGATTAATTGTTATAAATATTATAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
66 ATGATTAATTGTTATAAATATTACAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
16947 TTCAGATAAATTT
131 TTCAGATAAATTT
16960 TATTTCACA
1 TATTTCACA
16969 ATCTAATTTA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 148 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (143 bp):
TATTTCACAGGATTATTTTATAATAAATCAAATGTTAAATTAATAATACTATTTTTTATTTTTTT
ATGATTAATTGTTATAAATATTACAATGATAGTACTACAAACTATTTGATTCATATATAATATGT
TTCAGATAAATTT
Found at i:17275 original size:17 final size:17
Alignment explanation
Indices: 17255--17310 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
17245 CAGTTTTGAG
17255 TTTTTTCAAGTTTAGAT
1 TTTTTTCAAGTTTAGAT
* *
17272 TTTTTTCAAATTTA-AA
1 TTTTTTCAAGTTTAGAT
*
17288 TTTTCTCAAGTTCTAG-T
1 TTTTTTCAAGTT-TAGAT
17305 TTTTTT
1 TTTTTT
17311 TTAATTCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (17 bp):
TTTTTTCAAGTTTAGAT
Found at i:21639 original size:2 final size:2
Alignment explanation
Indices: 21627--21664 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
21617 ATGGCAACGC
*
21627 GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21665 ATGGTAGTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:24538 original size:16 final size:16
Alignment explanation
Indices: 24517--24548 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24507 CTTTCAATAA
24517 TTTATTATATTAAAAT
1 TTTATTATATTAAAAT
*
24533 TTTATTTTATTAAAAT
1 TTTATTATATTAAAAT
24549 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTATTATATTAAAAT
Found at i:25319 original size:21 final size:22
Alignment explanation
Indices: 25282--25324 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25272 AAATTAAAAT
*
25282 TAAATTATTATAATAAATTAAG
1 TAAAATATTATAATAAATTAAG
25304 TAAAATATTA-AATAAATTAAG
1 TAAAATATTATAATAAATTAAG
25325 ACATGAAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
TAAAATATTATAATAAATTAAG
Found at i:26395 original size:22 final size:22
Alignment explanation
Indices: 26370--26412 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26360 CCCAATTTAA
26370 TTAAAA-GGTCAAAAACTCAAAC
1 TTAAAATGGTC-AAAACTCAAAC
*
26392 TTAAAATGGTCCAAACTCAAA
1 TTAAAATGGTCAAAACTCAAA
26413 ATAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (22 bp):
TTAAAATGGTCAAAACTCAAAC
Found at i:26499 original size:32 final size:32
Alignment explanation
Indices: 26458--26519 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
26448 ACTCAAACTG
* *
26458 GAAAGAACCTAAACTCAAAAGAATCTGAACCT
1 GAAAAAACCTAAACTCAAAAGAACCTGAACCT
* * *
26490 GAAAAAACCTGAACTTAAAGGAACCTGAAC
1 GAAAAAACCTAAACTCAAAAGAACCTGAAC
26520 TTGAGACTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.15
Consensus pattern (32 bp):
GAAAAAACCTAAACTCAAAAGAACCTGAACCT
Found at i:33685 original size:42 final size:42
Alignment explanation
Indices: 33637--33740 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
33627 GAGAAAGAAG
* *
33637 AGATAGGAGGGATGATAGGAGAAGAGATAGTAGAGATAGTAA
1 AGATAGGAGGGATGATAGGAGAAGAGATAGGAGAGATAATAA
* *
33679 AGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGATAATAG
1 AGATAGGAGGGATGATAGGAGAAGAGATAGGAGAGATAATAA
* *
33721 AGAGAGGA-GGATGACAGGAG
1 AGATAGGAGGGATGATAGGAG
33741 GAGGAGAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
41 11 0.20
42 45 0.80
ACGTcount: A:0.43, C:0.01, G:0.42, T:0.13
Consensus pattern (42 bp):
AGATAGGAGGGATGATAGGAGAAGAGATAGGAGAGATAATAA
Found at i:33720 original size:12 final size:12
Alignment explanation
Indices: 33680--33725 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
33670 AGATAGTAAA
*
33680 GATAGGAGGGAT
1 GATAGGAGAGAT
33692 GATAGGAGGAGA-
1 GATAGGA-GAGAT
33704 GATAGGAGAGAT
1 GATAGGAGAGAT
*
33716 AATA-GAGAGA
1 GATAGGAGAGA
33726 GGAGGATGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 17 0.57
13 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (12 bp):
GATAGGAGAGAT
Found at i:45912 original size:11 final size:10
Alignment explanation
Indices: 45896--45954 Score: 75
Period size: 10 Copynumber: 5.8 Consensus size: 10
45886 TCCCACCTTT
45896 AAAAAAAAAC
1 AAAAAAAAAC
*
45906 CAAAAAAAAC
1 AAAAAAAAAC
45916 AAAAAAAAA-
1 AAAAAAAAAC
*
45925 AAAACAAAAC
1 AAAAAAAAAC
45935 AAAAACAAAAC
1 AAAAA-AAAAC
45946 AAAGAAAAA
1 AAA-AAAAA
45955 GGAGATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 8 0.19
10 21 0.50
11 11 0.26
12 2 0.05
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:45919 original size:5 final size:5
Alignment explanation
Indices: 45896--45948 Score: 56
Period size: 5 Copynumber: 10.6 Consensus size: 5
45886 TCCCACCTTT
* *
45896 AAAAA AAAACC AAAA- AAAAC AAAA- AAAAA AAAAC AAAAC AAAAAC AAAAC
1 AAAAC AAAA-C AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC -AAAAC AAAAC
45946 AAA
1 AAA
45949 GAAAAAGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 8 0.19
5 25 0.60
6 9 0.21
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:45938 original size:25 final size:25
Alignment explanation
Indices: 45896--45954 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
45886 TCCCACCTTT
*
45896 AAAAAAAAACCAAAAAAAACAAAA-
1 AAAAAAAAACAAAAAAAAACAAAAC
45920 AAAAAAAAACAAAACAAAAACAAAAC
1 AAAAAAAAACAAAA-AAAAACAAAAC
*
45946 AAAGAAAAA
1 AAAAAAAAA
45955 GGAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 13 0.42
25 10 0.32
26 8 0.26
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAAAAACAAAAAAAAACAAAAC
Found at i:47210 original size:62 final size:62
Alignment explanation
Indices: 47031--48075 Score: 1183
Period size: 62 Copynumber: 17.1 Consensus size: 62
47021 GAGTAGGACA
* * * * *
47031 CCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTCCAGTCCTCATAGAGTAGGACG-----T
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47087 -CTTTCAAAGCCCACACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
47146 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTATT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
47208 CCTTTTAAAGCCCATAGAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCCGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * **
47270 CTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCGGGACAACTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** * *
47331 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTATTCCTCAAAGAGTGGGATGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * ** *
47392 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTTCTCAAAAATAAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
47454 GCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAGGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47515 CCTTTTGAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
47577 CCTTTCAAAGCCTACACAAGTTGGTGGCAC-CTTCTAGTCCTTAAAGAGTAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * ** * *
47638 CCTTTTAAAGCCAACAGAAGTTGGTGGCACGCTT-TAATCCTCAAAGAGCAGGACGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47699 CCTTTTAAAGCCCACACGAGCTGGTGGCACCTTTT-TAGTCCTCAAAGAGTAGGACGCCGTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47761 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCACAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
** * ** * * *
47823 TTTTTTCAAAGCCCACACAAGCTAATGGCACCTTT-TAGTCCTAAAAGAGCAGGACACCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * * *
47885 TCTTTCGAAGCCTACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47947 TCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTT-TAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
48009 -CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTTCTCAAAGAGCATGATGCCTTTT
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
48070 CCTTTT
1 CCTTTT
48076 CTCCTTTACC
Statistics
Matches: 849, Mismatches: 121, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
54 18 0.02
55 29 0.03
59 1 0.00
60 26 0.03
61 346 0.41
62 377 0.44
63 52 0.06
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:47391 original size:123 final size:123
Alignment explanation
Indices: 47031--48075 Score: 1139
Period size: 123 Copynumber: 8.6 Consensus size: 123
47021 GAGTAGGACA
* * * * * * *
47031 CCTTTCAAAGCCCACACAAGTCGGTGGCA-TTTTCCAGTCCTCATAGAGTAGG--A-C--GT-CT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * *
47089 TTCAAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGACGCATTTT
66 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
47146 CCTTTTAAAGCCCACACAAATTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTATTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * ** * *
47211 TTTAAAGCCCATAGAAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGCCGGACGCTTTTT
66 TTTAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
47270 CTTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCGGGACAACTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* ** * *
47334 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTATTCCTCAAAGAGTGGGATGTCTTTT
66 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * ** * * *
47392 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTTTAGTTCTCAAAAATAAGGACGCTTTTTGCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * *
47457 TTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAGGAGCAAGACGCCTTTT
66 TTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCCTTTT
* * * ** *
47515 CCTTTTGAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTCAAAGAGCAGGATGCTTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * *
47580 TTCAAAGCCTACACAAGTTGGTGGCACCTTCTAGTCCTTAAAGAGTAAGACGCCTTTT
66 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * **
47638 CCTTTTAAAGCCAACAGAAGTTGGTGGCACGCTT-TAATCCTCAAAGAGCAGGACGTCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * * * *
47702 TTTAAAGCCCACACGAGCTGGTGGCACCTTTTTAGTCCTCAAAGAGTAGGACGCCGTTT
66 TTTAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * **
47761 CCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTTCTAGTCCACAAAGAGCAGGACACCTTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTC-TTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
* ** * * *
47825 TTTTCAAAGCCCACACAAGCTAATGGCACCTTTTAGTCCTAAAAGAGCAGGACACCTTTT
65 TTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* ** * *
47885 TCTTTCGAAGCCTACACAAGTTGGTGGCAC-CTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTC-TTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
* * *
47949 TTTGCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCCTTTT
65 TTT-TAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * **
48009 -CTTTTCAAAGCCCACACGAGTTGGTGGCACT-TTTTAGTTCTCAAAGAGCATGATGCCTTTTCC
1 CCTTTT-AAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCC
48072 TTTT
65 TTTT
48076 CTCCTTTACC
Statistics
Matches: 786, Mismatches: 125, Indels: 31
0.83 0.13 0.03
Matches are distributed among these distances:
115 26 0.03
116 20 0.03
119 1 0.00
121 1 0.00
122 131 0.17
123 344 0.44
124 241 0.31
125 22 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (123 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCT
TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:48267 original size:42 final size:41
Alignment explanation
Indices: 48152--48340 Score: 155
Period size: 41 Copynumber: 4.5 Consensus size: 41
48142 AGGATGCTTT
* * * *
48152 TTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCC
1 TTTTTTCCTTTGTCCTCAAAAAGCAAGACACACTTTATTT-C
* *
48194 TTCTTTTCCCTTTTAGTTCTCAAACAGCAAGACACACTTTATTCTC
1 TT-TTTT-CC-TTT-GTCCTCAAAAAGCAAGACACACTTTATT-TC
*
48240 TTTTTTCCTTTGTCCTCAAAAATCAAGACACA-TTTAATTTC
1 TTTTTTCCTTTGTCCTCAAAAAGCAAGACACACTTT-ATTTC
* * ** * ** *
48281 CTTTTTCCTTTGTCTTCAAAGGGCATGATGCATTTTATTTC
1 TTTTTTCCTTTGTCCTCAAAAAGCAAGACACACTTTATTTC
* *
48322 CTTTTTCATTTGTCCTCAA
1 TTTTTTCCTTTGTCCTCAA
48341 GGAGTAGGAC
Statistics
Matches: 122, Mismatches: 18, Indels: 15
0.79 0.12 0.10
Matches are distributed among these distances:
41 51 0.42
42 26 0.21
43 7 0.06
44 4 0.03
45 7 0.06
46 26 0.21
47 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (41 bp):
TTTTTTCCTTTGTCCTCAAAAAGCAAGACACACTTTATTTC
Found at i:48356 original size:41 final size:41
Alignment explanation
Indices: 48241--48356 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
48231 TTTATTCTCT
* *** * *
48241 TTTTTCCTTTGTCCTCAAAAATCAAGACACATTTAATTTCC
1 TTTTTCATTTGTCCTCAAAGGGCAGGACCCATTTAATTTCC
* * * ** *
48282 TTTTTCCTTTGTCTTCAAAGGGCATGATGCATTTTATTTCC
1 TTTTTCATTTGTCCTCAAAGGGCAGGACCCATTTAATTTCC
*
48323 TTTTTCATTTGTCCTC-AAGGAGTAGGACCCATTT
1 TTTTTCATTTGTCCTCAAAGG-GCAGGACCCATTT
48357 CATTCTTATT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
40 4 0.07
41 56 0.93
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (41 bp):
TTTTTCATTTGTCCTCAAAGGGCAGGACCCATTTAATTTCC
Found at i:49000 original size:20 final size:20
Alignment explanation
Indices: 48975--49026 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
48965 TCACAATTTG
*
48975 TATCGATACATTATTCATTA
1 TATCGATACATTATCCATTA
*
48995 TATCGATACATTATCCATTG
1 TATCGATACATTATCCATTA
49015 TATCGATACATT
1 TATCGATACATT
49027 CTGGGTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (20 bp):
TATCGATACATTATCCATTA
Found at i:51426 original size:50 final size:48
Alignment explanation
Indices: 51366--51525 Score: 207
Period size: 50 Copynumber: 3.2 Consensus size: 48
51356 TAAATTTCTA
*
51366 GATTTTTCATCTCTGGGATACTCCAATACCGGCTTTATTTCTAAAATATT
1 GATTTTTCATCTC-GGGATACTCCAA-ACCGGTTTTATTTCTAAAATATT
*
51416 GATTTTTCATCTCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATT
1 GATTTTTCATCTC-GGGATACTCCAA-ACCGGTTTTATTTCTAAAATATT
51466 GATTTTTCATCTCGAGGATACTCC-AACCTTGGTTTTATTT-TCAAAATATT
1 GATTTTTCATCTCG-GGATACTCCAAACC--GGTTTTATTTCT-AAAATATT
*
51516 AATTTTTCAT
1 GATTTTTCAT
51526 AATTGGGGAT
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
48 2 0.02
49 3 0.03
50 95 0.95
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (48 bp):
GATTTTTCATCTCGGGATACTCCAAACCGGTTTTATTTCTAAAATATT
Found at i:51581 original size:79 final size:79
Alignment explanation
Indices: 51481--51824 Score: 329
Period size: 79 Copynumber: 4.4 Consensus size: 79
51471 TTCATCTCGA
* * * *
51481 GGATACTCCAACCTTGGTTTTATTT-TCAAAATATTAATTTTTCATAATTGGGGATACTCTAATC
1 GGATACTCCAACCCTGATTTTATTTCT-AAAATATTAATTTTTCATAATCGGGGATACTCCAATC
*
51545 TCGTTATTTTTGAAG
65 CCGTTATTTTTGAAG
* * * * * * *
51560 GGATACTCAAACCCCGATTTTATTTCTAAGATATTGATTTCTCATAATCGGAGATACTCCAACCC
1 GGATACTCCAACCCTGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAATCC
* *
51625 CGTTATTTTGGTAG
66 CGTTATTTTTGAAG
*** ** * *
51639 GGATACTCCAACCCTGGCCTTATTTCTAAAGCATCAATTTTTCACAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCTGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAATCC
* *
51704 CGTTA-TCTTCAAGG
66 CGTTATTTTTGAA-G
** * * *
51718 GGATACTCCAACCCTGATTTTATTT-TCAAAACGTCAA-TTTTCTATAATCAGGGATGCTCCAA-
1 GGATACTCCAACCCTGATTTTATTTCT-AAAATATTAATTTTTC-ATAATCGGGGATACTCCAAT
* * *
51780 CCCTATTATTTCTGAGG
64 CCC-GTTATTTTTGAAG
51797 GGATACTCCAACCCTGATTTTATTTCTA
1 GGATACTCCAACCCTGATTTTATTTCTA
51825 GAACATCGAC
Statistics
Matches: 213, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
78 12 0.06
79 196 0.92
80 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (79 bp):
GGATACTCCAACCCTGATTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTCCAATCC
CGTTATTTTTGAAG
Found at i:51778 original size:158 final size:157
Alignment explanation
Indices: 51481--51856 Score: 377
Period size: 158 Copynumber: 2.4 Consensus size: 157
51471 TTCATCTCGA
* * * * * * * *
51481 GGATACTCCAACCTTGGTTTTATTTTCAAAATATTAATTTTTCATAATTGGGGATACTCTAATCT
1 GGATACTCCAACCCTGGTTTTA-TTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAATCC
* * * * **
51546 CGTTATTTTTGAAGGGATACTCAAACCCCGATTTTATTTCTAAGATATTGATTTCTCATAATCGG
65 CGTTATTCTTCAAGGGATACTCAAACCCCGATTTTATTTCTAAAACATCAATTTCTCATAATCGG
*
51611 AGATACTCCAACCCCGTTATTT-TG-GTAG
130 AGATACTCCAACCCCATTATTTCTGAG--G
**
51639 GGATACTCCAACCCTGGCCTTATTTCTAAAGCATCAATTTTTCACAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCTGGTTTTATTTCTAAA-CATCAATTTTTCACAATCGGGGATACTCCAATCC
* * *
51704 CGTTA-TCTTCAAGGGGATACTCCAACCCTGATTTTATTT-TCAAAACGTCAATTT-TCTATAAT
65 CGTTATTCTTCAA-GGGATACTCAAACCCCGATTTTATTTCT-AAAACATCAATTTCTC-ATAAT
* *
51766 CAGG-GATGCTCCAACCCTATTATTTCTGAGG
127 C-GGAGATACTCCAACCCCATTATTTCTGAGG
* * * * *
51797 GGATACTCCAACCCTGATTTTATTTCTAGAACATCGACTTTCCACAATCAAGGGATACTC
1 GGATACTCCAACCCTGGTTTTATTTCTA-AACATCAATTTTTCACAATC-GGGGATACTC
51857 TAGCCTCATT
Statistics
Matches: 180, Mismatches: 29, Indels: 17
0.80 0.13 0.08
Matches are distributed among these distances:
157 15 0.08
158 149 0.83
159 15 0.08
160 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (157 bp):
GGATACTCCAACCCTGGTTTTATTTCTAAACATCAATTTTTCACAATCGGGGATACTCCAATCCC
GTTATTCTTCAAGGGATACTCAAACCCCGATTTTATTTCTAAAACATCAATTTCTCATAATCGGA
GATACTCCAACCCCATTATTTCTGAGG
Found at i:53105 original size:15 final size:14
Alignment explanation
Indices: 53085--53123 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
53075 CGATTCATGC
53085 ATAAAAAAAATAATA
1 ATAAAAAAAATAA-A
*
53100 ATAAAATAAATAAA
1 ATAAAAAAAATAAA
*
53114 TTAAAAAAAA
1 ATAAAAAAAA
53124 ACGTGAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAAAAATAAA
Found at i:53256 original size:103 final size:103
Alignment explanation
Indices: 53137--53341 Score: 385
Period size: 103 Copynumber: 2.0 Consensus size: 103
53127 TGAAAACTTA
*
53137 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
1 CAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
53202 GAAATAAAAAATGCAGCAT-GGAAAGGAAATAGAAAATG
66 GAAATAAAAAATGCAGCATGGGAAAGGAAATA-AAAATG
53240 CAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
1 CAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
53305 GAAATAAAAAATGCAGCATGGGAAAGGAAATAAAAAT
66 GAAATAAAAAATGCAGCATGGGAAAGGAAATAAAAAT
53342 TGCAATTGGA
Statistics
Matches: 100, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 88 0.88
104 12 0.12
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (103 bp):
CAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
GAAATAAAAAATGCAGCATGGGAAAGGAAATAAAAATG
Found at i:53345 original size:26 final size:26
Alignment explanation
Indices: 53137--53341 Score: 369
Period size: 26 Copynumber: 8.0 Consensus size: 26
53127 TGAAAACTTA
53137 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
53163 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
53189 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
53215 CAGCAT-GGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
53240 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
53266 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
*
53292 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAGAAAATG
53318 CAGCATGGGAAAGGAAATA-AAAAT
1 CAGCATGGGAAAGGAAATAGAAAAT
53342 TGCAATTGGA
Statistics
Matches: 173, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
25 29 0.17
26 144 0.83
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (26 bp):
CAGCATGGGAAAGGAAATAGAAAATG
Found at i:53537 original size:14 final size:13
Alignment explanation
Indices: 53492--53524 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
53482 ACGTCGGGGG
53492 AAAAAGATAAGCA
1 AAAAAGATAAGCA
53505 AAAAAGATAAGCA
1 AAAAAGATAAGCA
53518 AAAAAGA
1 AAAAAGA
53525 ATGAGCAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.73, C:0.06, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAAAGATAAGCA
Found at i:53770 original size:19 final size:18
Alignment explanation
Indices: 53722--53827 Score: 73
Period size: 18 Copynumber: 6.1 Consensus size: 18
53712 TAGCACACAA
* *
53722 CAGCAGCAGCAACTCCAG
1 CAGCAACAGCAGCTCCAG
* *
53740 CAACAACTGCAGCTCCAG
1 CAGCAACAGCAGCTCCAG
53758 CACGC-A-A-CAG---CAG
1 CA-GCAACAGCAGCTCCAG
*
53771 CAGCAACTGCAGCTCCAG
1 CAGCAACAGCAGCTCCAG
53789 CACGCAACAGCAGCTCCAG
1 CA-GCAACAGCAGCTCCAG
* *
53808 CGAG-AGCAGCAACTCCAG
1 C-AGCAACAGCAGCTCCAG
53826 CA
1 CA
53828 AGTAGCAATT
Statistics
Matches: 69, Mismatches: 10, Indels: 19
0.70 0.10 0.19
Matches are distributed among these distances:
12 2 0.03
13 6 0.09
15 3 0.04
16 3 0.04
17 1 0.01
18 35 0.51
19 18 0.26
20 1 0.01
ACGTcount: A:0.33, C:0.39, G:0.22, T:0.07
Consensus pattern (18 bp):
CAGCAACAGCAGCTCCAG
Found at i:53772 original size:31 final size:31
Alignment explanation
Indices: 53737--53802 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
53727 GCAGCAACTC
53737 CAGCAACAACTGCAGCTCCAGCACGCAACAG
1 CAGCAACAACTGCAGCTCCAGCACGCAACAG
*
53768 CAGCAGCAACTGCAGCTCCAGCACGCAACAG
1 CAGCAACAACTGCAGCTCCAGCACGCAACAG
53799 CAGC
1 CAGC
53803 TCCAGCGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (31 bp):
CAGCAACAACTGCAGCTCCAGCACGCAACAG
Found at i:54811 original size:51 final size:50
Alignment explanation
Indices: 54755--54875 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 50
54745 TAATTGCTCA
* * *
54755 TAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCCTT
1 TAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTT--TT
54806 TAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
1 TAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
*
54856 CAATCGAGGATACTCCAACC
1 TAATCGAGGATACTCCAACC
54876 TCGTTATCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 21 0.32
51 31 0.48
52 13 0.20
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (50 bp):
TAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:54967 original size:51 final size:51
Alignment explanation
Indices: 54889--55111 Score: 245
Period size: 51 Copynumber: 4.4 Consensus size: 51
54879 TTATCTCCGA
* ** * *** **
54889 GGGGATACTCCAATCCCGACTTTATTTCCAAAATATTGATTT-CTCTTAAGG
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCT-TTAATC
* *
54940 GGGGATACTCCAACCCCGGTTTCATTTCTAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACC-AATTTCCTTTAATC
* *
54992 GGGGATACTCAAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCTTTAATC
* * *
55043 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTT--TTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCTT--TAATC
55094 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
55112 TTATTTTCGA
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
49 2 0.01
51 103 0.70
52 41 0.28
53 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTCCTTTAATC
Found at i:55007 original size:52 final size:52
Alignment explanation
Indices: 54940--55111 Score: 251
Period size: 51 Copynumber: 3.3 Consensus size: 52
54930 TCTCTTAAGG
*
54940 GGGGATACTCCAACCCCGGTTTCATTTCTAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTCCTTTAATC
*
54992 GGGGATACTCAAACCCCGGTTTTATTT-TCAAAACACC-AATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAAATTTCCTTTAATC
* * * * *
55043 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC-ATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTCCTTTAATC
55094 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
55112 TTATTTTCGA
Statistics
Matches: 109, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
51 70 0.64
52 39 0.36
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAAATTTCCTTTAATC
Found at i:55174 original size:79 final size:79
Alignment explanation
Indices: 55043--55423 Score: 611
Period size: 79 Copynumber: 4.8 Consensus size: 79
55033 TCCTTTAATC
*
55043 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
55108 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
55122 GGGGATACTCCAATCCCGATTTTATCTCTAAAACATCAATTTTTCGTAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
*
55187 CCTGTTATTTTCGA
66 CCCGTTATTTTCGA
* * *
55201 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATAC-CCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
55265 CTCGTTATTTCCGA
66 CCCGTTATTTTCGA
*
55279 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
55344 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
55358 GGGGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATTGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
55423 C
66 C
55424 TCGATTTTAT
Statistics
Matches: 276, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 71 0.26
79 205 0.74
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:55330 original size:157 final size:158
Alignment explanation
Indices: 55043--55426 Score: 617
Period size: 157 Copynumber: 2.4 Consensus size: 158
55033 TCCTTTAATC
*
55043 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* * * * *
55108 CCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATCTCTAAAACATCAATTTTTCGTAATC
66 CTCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACACCAATTTTTCATAATC
*
55173 GGGGATACTCCAACCCTGTTATTTTCGA
131 GGGGATACTCCAACCCCGTTATTTTCGA
* * *
55201 GGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATAC-CCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
55265 CTCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATC
66 CTCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACACCAATTTTTCATAATC
55330 GGGGATACTCCAACCCCGTTATTTTCGA
131 GGGGATACTCCAACCCCGTTATTTTCGA
* * * *
55358 GGGGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATTGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
55423 CTCG
66 CTCG
55427 ATTTTATTTT
Statistics
Matches: 206, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 143 0.69
158 63 0.31
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CTCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATCTCTAAAACACCAATTTTTCATAATC
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:55421 original size:51 final size:52
Alignment explanation
Indices: 55358--55472 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 52
55348 TTATTTTCGA
* *
55358 GGGGATACTCTAACCTCGGTTTTA-TTTCTAAAACATCAATTTTT-CATAATT
1 GGGGATACTCTAACCTCGATTTTATTTTCTAAAACA-CAATTTTTCCATAATC
* * *
55409 GGGGATACTCTAACCTCGATTTTATTTTTTAGAACACCATTTTTCCATAATC
1 GGGGATACTCTAACCTCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
*
55461 AGGGATACTCTA
1 GGGGATACTCTA
55473 GCCCCGTTGT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 30 0.54
52 26 0.46
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (52 bp):
GGGGATACTCTAACCTCGATTTTATTTTCTAAAACACAATTTTTCCATAATC
Found at i:67923 original size:12 final size:12
Alignment explanation
Indices: 67878--67932 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
67868 ACCTTCTTTT
*
67878 CAAAATAAAAAA
1 CAAAACAAAAAA
*
67890 GCAAAAGAAAAAA
1 -CAAAACAAAAAA
*
67903 -AAGGA-AAAAAA
1 CAA-AACAAAAAA
67914 CAAAACAAAAAA
1 CAAAACAAAAAA
67926 CAAAACA
1 CAAAACA
67933 GAGAAAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.25
12 16 0.44
13 11 0.31
ACGTcount: A:0.80, C:0.11, G:0.07, T:0.02
Consensus pattern (12 bp):
CAAAACAAAAAA
Found at i:69074 original size:59 final size:59
Alignment explanation
Indices: 68924--69755 Score: 902
Period size: 59 Copynumber: 14.2 Consensus size: 59
68914 TCCGCTTTTT
* **
68924 AGTCCTCAAAGAGC-AGGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCGA-GACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTC
* *
68986 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTC
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
69045 AGTCCACAAAAAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
69104 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
69163 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
69222 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTA
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69281 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTT
1 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
69340 AGTCCTCAAAGAGC-AGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTC
1 AGTCCTCAAAGAGCGA-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC--TTC
* * * *
69401 -GTCCCCAAAGAGC-AGGA-TCC----CTTTTAAAGCCCACACAAGTTGGTGGCACATCC
1 AGTCCTCAAAGAGCGA-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
69454 TAGTCCTCAAAGAGC-AGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 -AGTCCTCAAAGAGCGA-GACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
69515 TAGTCCTCAAAGAGC-AGGACG-C----CTTTTAAAGCCCACACAAATTGGTGGCA-CTTCCC
1 -AGTCCTCAAAGAGCGA-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--C
* *
69571 AGTCCTCAAAGAGC-AGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
1 AGTCCTCAAAGAGCGA-GACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69630 TTATTCCTCAAAGAGC-AGGACACC---TC--TTAAAGCCTACACAAGTTCGTGGCACCTTTC
1 --AGTCCTCAAAGAGCGA-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* *
69687 AGTCCTCAAAGAGC-AGGACGCC-TTTC----AAAGCCCACACGAA-TTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCGA-GACGCCTTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCAC-CTTC
*
69742 AGTCCTCAATGAGC
1 AGTCCTCAAAGAGC
69756 AGGATACACT
Statistics
Matches: 691, Mismatches: 51, Indels: 63
0.86 0.06 0.08
Matches are distributed among these distances:
53 2 0.00
55 170 0.25
56 8 0.01
57 6 0.01
59 336 0.49
60 40 0.06
61 106 0.15
62 23 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:69135 original size:118 final size:118
Alignment explanation
Indices: 68924--69759 Score: 1022
Period size: 118 Copynumber: 7.2 Consensus size: 118
68914 TCCGCTTTTT
* **
68924 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCATTTTTCAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* *
68989 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTC
63 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
69045 AGTCCACAAAAAGC-GAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* *
69109 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
69163 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* *
69228 CAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTA
66 CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69281 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTTAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
69346 CAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTC
66 CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC--TTC
* * * *
69401 -GTCCCCAAAGAGCAGGA-TCC----CTTTTAAAGCCCACACAAGTTGGTGGCACATCCTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCC
*
69460 TCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
65 TCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
69515 TAGTCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAATTGGTGGCA-CTTCCCAGT
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGT
* *
69574 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
63 CCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69630 TTATTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCTACACAAGTTCGTGGCACCTTTCAGT
1 --AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* *
69690 CCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAA-TTGGTGGCACTTTTT
63 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCAC-CTTC
*
69742 AGTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
69760 TACACTTTAT
Statistics
Matches: 648, Mismatches: 47, Indels: 51
0.87 0.06 0.07
Matches are distributed among these distances:
110 36 0.06
111 2 0.00
112 2 0.00
113 2 0.00
114 31 0.05
115 26 0.04
116 192 0.30
117 3 0.00
118 286 0.44
119 39 0.06
120 8 0.01
121 21 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:69223 original size:177 final size:178
Alignment explanation
Indices: 68923--69759 Score: 1046
Period size: 177 Copynumber: 4.8 Consensus size: 178
68913 TTCCGCTTTT
* **
68923 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCACACAAGTTGGTGGCATTTTTCAG
1 TAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTT-AG
* * *
68988 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCGCCTTCAGTCCACA
63 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
*
69053 AAAAGC-GAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
128 AAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
69104 -AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
*
69168 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
66 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
*
69233 AGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-
131 AGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69280 AAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCGAGTTGGTGGCACCTTTAGTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
* * * *
69345 TCAAAGAGCAGGATGCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTC-GTCCCCAA
66 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC--TTCAGTCCTCAA
* * *
69409 AGAGCAGGA-TCC----CTTTTAAAGCCCACACAAGTTGGTGGCACATCC
129 AGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
69454 TAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAG
1 TAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAG
*
69518 TCCTCAAAGAGCAGGACG-C----CTTTTAAAGCCCACACAAATTGGTGGCA-CTTCCCAGTCCT
63 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTCCT
* *
69577 CAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
126 CAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
69630 TTATTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCTACACAAGTTCGTGGCACCTTTCAGT
1 -TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGT
* *
69690 CCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAA-TTGGTGGCACTTTTTAGTCCTC
64 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCAC-CTTCAGTCCTC
*
69749 AATGAGCAGGA
127 AAAGAGCAGGA
69760 TACACTTTAT
Statistics
Matches: 590, Mismatches: 39, Indels: 64
0.85 0.06 0.09
Matches are distributed among these distances:
168 2 0.00
170 3 0.01
171 122 0.21
172 8 0.01
173 33 0.06
174 26 0.04
175 28 0.05
176 22 0.04
177 272 0.46
178 42 0.07
179 8 0.01
180 24 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (178 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCC
TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:70388 original size:6 final size:6
Alignment explanation
Indices: 70379--70405 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
70369 TAAAAATTAA
70379 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
70406 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:70557 original size:26 final size:26
Alignment explanation
Indices: 70527--70761 Score: 409
Period size: 26 Copynumber: 9.1 Consensus size: 26
70517 TGAAAACTTA
*
70527 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
*
70553 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
70579 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
70605 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
*
70631 CAGCAT-GGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
70656 CAGCATGGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
*
70682 CAGCATGGGAAAGGAAATAGAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
*
70708 CAGCATAGGAAAGGAAATAAAAAATG
1 CAGCATGGGAAAGGAAATAAAAAATG
*
70734 CAGCATGGGAAAGGAAATAAAAATTG
1 CAGCATGGGAAAGGAAATAAAAAATG
70760 CA
1 CA
70762 ATTGGAGACA
Statistics
Matches: 200, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
25 24 0.12
26 176 0.88
ACGTcount: A:0.52, C:0.08, G:0.28, T:0.12
Consensus pattern (26 bp):
CAGCATGGGAAAGGAAATAAAAAATG
Found at i:70649 original size:103 final size:104
Alignment explanation
Indices: 70527--70757 Score: 421
Period size: 103 Copynumber: 2.2 Consensus size: 104
70517 TGAAAACTTA
*
70527 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAG
1 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAG
*
70592 GAAATAAAAAATGCAGCATGGGAAAGGAAATAAAAAATG
66 GAAATAAAAAATGCAGCATAGGAAAGGAAATAAAAAATG
70631 CAGCAT-GGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAG
1 CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAG
*
70695 GAAATAGAAAATGCAGCATAGGAAAGGAAATAAAAAATG
66 GAAATAAAAAATGCAGCATAGGAAAGGAAATAAAAAATG
70734 CAGCATGGGAAAGGAAATA-AAAAT
1 CAGCATGGGAAAGGAAATAGAAAAT
70758 TGCAATTGGA
Statistics
Matches: 123, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
103 105 0.85
104 18 0.15
ACGTcount: A:0.53, C:0.08, G:0.28, T:0.12
Consensus pattern (104 bp):
CAGCATGGGAAAGGAAATAGAAAATGCAGCATGGGAAAGGAAATAAAAAATGCAGCATGGGAAAG
GAAATAAAAAATGCAGCATAGGAAAGGAAATAAAAAATG
Found at i:72337 original size:51 final size:50
Alignment explanation
Indices: 72259--72533 Score: 318
Period size: 51 Copynumber: 5.4 Consensus size: 50
72249 TTATCTCCGA
* * * *** *
72259 GGGGATACTCCAACCTCGGTTTTATTTCTGAAATATTGATTTCTCTTAATG
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTC-CTTAATC
* * *
72310 GGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTTCCTTAATC
* * *
72361 GGGGATACTCTAAACCCGGTTTTATTTTTCAAAACACCAAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACC-AATTTCC-TTAATC
72414 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTCC-TTAATC
* * * *
72465 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTTCCTTAATC
72516 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
72534 TTATTTCCGA
Statistics
Matches: 198, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
51 135 0.68
52 31 0.16
53 32 0.16
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTCCTTAATC
Found at i:72447 original size:104 final size:102
Alignment explanation
Indices: 72297--72533 Score: 307
Period size: 104 Copynumber: 2.3 Consensus size: 102
72287 TGAAATATTG
* *
72297 ATTTCTCTTAATGGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACTAACTTTCC-ATAATC
1 ATTTC-CTTAATCGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACCAA-TTTCCTATAATC
* * *
72361 GGGGATACTCTAAACCCGGTTTTATTTTTCAAAACACCAA
64 GGGGATACTCCAAACCCGATTTTATTTCT-AAAACACCAA
* *
72401 ATTTCCTTTAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTTTAATC
1 ATTTCC-TTAATCGGGGATACTCCAACCCCGGTTTCATTTCT-AAAACACCAATTTCCTATAATC
* *
72465 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAA
64 GGGGATACTCCAAACCCGATTTTATTTCTAAAACACCAA
* * *
72504 TTTTTCATAATCGGGGATACTCCAACCCCG
1 ATTTCCTTAATCGGGGATACTCCAACCCCG
72534 TTATTTCCGA
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
102 23 0.19
103 20 0.17
104 75 0.64
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (102 bp):
ATTTCCTTAATCGGGGATACTCCAACCCCGGTTTCATTTCTAAAACACCAATTTCCTATAATCGG
GGATACTCCAAACCCGATTTTATTTCTAAAACACCAA
Found at i:72596 original size:79 final size:79
Alignment explanation
Indices: 72465--72849 Score: 635
Period size: 79 Copynumber: 4.9 Consensus size: 79
72455 TCCTTTAATC
72465 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
72530 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
* * *
72544 GGGGATACTCCAATCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
* *
72609 CCCGTTATTTTCAA
66 CCCGTTATTTCCGA
* * * *
72623 AGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
72688 CCCGTTATTTCCGA
66 CCCGTTATTTCCGA
* *
72702 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
**
72767 CCCGTTATTTTTGA
66 CCCGTTATTTCCGA
* *
72781 GGGGATACTCCAACCCTGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
72846 CCCG
66 CCCG
72850 ATTTTATTTT
Statistics
Matches: 280, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 280 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
CCCGTTATTTCCGA
Found at i:72875 original size:51 final size:52
Alignment explanation
Indices: 72781--72916 Score: 143
Period size: 51 Copynumber: 2.6 Consensus size: 52
72771 TTATTTTTGA
* *
72781 GGGGATACTCCAACCCTGATTTTATTTCTAAAACATCAATTTTT-CATAATC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCCATAATC
* * **
72832 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACA-CCGTTTTTCCATAATC
1 GGGGATACTCTAACCCCGATTTTA-TTTCTAAAACATCAATTTTTCCATAATC
* * * *
72884 AGGGATACTTTAGCCCCG-TTGTTATCTCTAAAA
1 GGGGATACTCTAACCCCGATT-TTATTTCTAAAA
72917 TACTAATTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
51 36 0.51
52 34 0.49
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (52 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCCATAATC
Found at i:76670 original size:20 final size:20
Alignment explanation
Indices: 76645--76710 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
76635 GTTACAAGCT
76645 ATGTATCGATACATTGTATC
1 ATGTATCGATACATTGTATC
76665 ATGTATCGATAC-----A--
1 ATGTATCGATACATTGTATC
76678 ATGTATCGATACATTGTATC
1 ATGTATCGATACATTGTATC
76698 ATGTATCGATACA
1 ATGTATCGATACA
76711 AATATTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
15 1 0.03
18 1 0.03
20 25 0.64
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTATC
Found at i:76681 original size:13 final size:13
Alignment explanation
Indices: 76665--76697 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
76655 ACATTGTATC
76665 ATGTATCGATACA
1 ATGTATCGATACA
76678 ATGTATCGATACA
1 ATGTATCGATACA
*
76691 TTGTATC
1 ATGTATC
76698 ATGTATCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:76683 original size:33 final size:33
Alignment explanation
Indices: 76645--76711 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
76635 GTTACAAGCT
76645 ATGTATCGATACATTGTATCATGTATCGATACA
1 ATGTATCGATACATTGTATCATGTATCGATACA
76678 ATGTATCGATACATTGTATCATGTATCGATACA
1 ATGTATCGATACATTGTATCATGTATCGATACA
76711 A
1 A
76712 ATATTAATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTATCATGTATCGATACA
Found at i:77347 original size:17 final size:17
Alignment explanation
Indices: 77325--77399 Score: 71
Period size: 17 Copynumber: 4.1 Consensus size: 17
77315 GTTTTCATTT
77325 TTCTCCC-CTTAAAAGAA
1 TTCTCCCTCTTAAAA-AA
77342 TTCTCCCTCTTAAACAATTA
1 TTCTCCCTCTTAAA-AA--A
*
77362 TCTTCTCCCCCTTAAAAAA
1 --TTCTCCCTCTTAAAAAA
*
77381 TTCTCCCTCTTAAACAA
1 TTCTCCCTCTTAAAAAA
77398 TT
1 TT
77400 ATCTTCTCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
17 24 0.49
18 7 0.14
19 2 0.04
20 1 0.02
21 2 0.04
22 13 0.27
ACGTcount: A:0.31, C:0.32, G:0.01, T:0.36
Consensus pattern (17 bp):
TTCTCCCTCTTAAAAAA
Found at i:77370 original size:22 final size:22
Alignment explanation
Indices: 77342--77409 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
77332 CTTAAAAGAA
77342 TTCTCCCTCTTAAACAATTATC
1 TTCTCCCTCTTAAACAATTATC
*
77364 TTCTCCCCCTTAAA-AA--A--
1 TTCTCCCTCTTAAACAATTATC
77381 TTCTCCCTCTTAAACAATTATC
1 TTCTCCCTCTTAAACAATTATC
77403 TTCTCCC
1 TTCTCCC
77410 CCTTTTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 13 0.33
18 2 0.05
19 1 0.03
20 1 0.03
21 2 0.05
22 20 0.51
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.38
Consensus pattern (22 bp):
TTCTCCCTCTTAAACAATTATC
Found at i:77383 original size:39 final size:40
Alignment explanation
Indices: 77325--77413 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 40
77315 GTTTTCATTT
77325 TTCT-CCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
1 TTCTCCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
77364 TTCTCCCCCTTAAAA-AATTCTCCCTCTTAAACAATTATC
1 TTCTCCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
77403 TTCTCCCCCTT
1 TTCTCCCCCTT
77414 TTGTAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
39 39 0.80
40 10 0.20
ACGTcount: A:0.27, C:0.35, G:0.01, T:0.37
Consensus pattern (40 bp):
TTCTCCCCCTTAAAAGAATTCTCCCTCTTAAACAATTATC
Found at i:79178 original size:13 final size:13
Alignment explanation
Indices: 79160--79187 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
79150 AAATAGTACC
79160 CAATGTATCGATA
1 CAATGTATCGATA
79173 CAATGTATCGATA
1 CAATGTATCGATA
79186 CA
1 CA
79188 TGGAATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:83753 original size:3 final size:3
Alignment explanation
Indices: 83740--83775 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
83730 CTTCATCCGA
*
83740 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
83776 TTCCTCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:85422 original size:19 final size:19
Alignment explanation
Indices: 85377--85433 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
85367 CTTCCAGTTT
**
85377 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
85398 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
85417 CATGTATCGATACAATG
1 CATGTATCGATACAATG
85434 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 19 0.56
21 15 0.44
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:85436 original size:13 final size:13
Alignment explanation
Indices: 85418--85444 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85408 TACAATGAAC
85418 ATGTATCGATACA
1 ATGTATCGATACA
85431 ATGTATCGATACA
1 ATGTATCGATACA
85444 A
1 A
85445 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:85459 original size:33 final size:32
Alignment explanation
Indices: 85399--85463 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
85389 CAATTTGTCC
*
85399 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
85431 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
85464 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:89181 original size:20 final size:20
Alignment explanation
Indices: 89156--89368 Score: 104
Period size: 20 Copynumber: 9.7 Consensus size: 20
89146 TTTTAACTAG
89156 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
89176 ATGTATCGATACATTTGGAAAAAAAAGA
1 ATGTATCGATACA-TT-G-----AAA-A
* *
89204 ATGCATCGATACATT-ACAGA
1 ATGTATCGATACATTGA-AAA
* * * *
89224 ATGTATCGATACAGTCATAC
1 ATGTATCGATACATTGAAAA
89244 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
* *
89264 ATATATCGATGCATCTGGGTAAAAAGATAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
*
89295 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * * *
89315 ATATATCGATGCATTCATAC
1 ATGTATCGATACATTGAAAA
*
89335 ATGTATCAATACATTGAAAA
1 ATGTATCGATACATTGAAAA
89355 ATGTATCGATACAT
1 ATGTATCGATACAT
89369 CTGGGTAAAA
Statistics
Matches: 143, Mismatches: 29, Indels: 42
0.67 0.14 0.20
Matches are distributed among these distances:
20 98 0.69
21 5 0.03
22 2 0.01
23 2 0.01
27 5 0.03
28 15 0.10
29 1 0.01
30 2 0.01
31 13 0.09
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:89271 original size:40 final size:40
Alignment explanation
Indices: 89208--89367 Score: 115
Period size: 40 Copynumber: 3.7 Consensus size: 40
89198 AAAAGAATGC
* *
89208 ATCGATACATT-ACAGAATGTATCGATACAGTCATACATGT
1 ATCGATACATTGA-AAAATATATCGATACAGTCATACATGT
* * *
89248 ATCGATACATTGAAAAATATATCGATGCATCTGGGTAAAAAGATAGAATGT
1 ATCGATACATTGAAAAATATATCGAT--A-C--AGT-----CATA-CATGT
* * *
89299 ATCGATACATTGAAGAATATATCGATGCATTCATACATGT
1 ATCGATACATTGAAAAATATATCGATACAGTCATACATGT
* *
89339 ATCAATACATTGAAAAATGTATCGATACA
1 ATCGATACATTGAAAAATATATCGATACA
89368 TCTGGGTAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
40 51 0.55
41 4 0.04
42 1 0.01
43 1 0.01
45 2 0.02
46 1 0.01
48 1 0.01
50 3 0.03
51 29 0.31
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (40 bp):
ATCGATACATTGAAAAATATATCGATACAGTCATACATGT
Found at i:89333 original size:91 final size:90
Alignment explanation
Indices: 89156--89379 Score: 328
Period size: 91 Copynumber: 2.5 Consensus size: 90
89146 TTTTAACTAG
*
89156 ATGTATCGATACATTGAAAAATGTATCGATACAT-TTGG-AAAAAAAAGAATGCATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAAGAATGCATCGATACATT
*
89219 ACAGAATGTATCGATACAGTCATAC
66 ACAGAATATATCGATACAGTCATAC
* * * *
89244 ATGTATCGATACATTGAAAAATATATCGATGCATCTGGGTAAAAAGATAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA-AAAGAATGCATCGATACAT
* *
89309 TGA-AGAATATATCGATGCATTCATAC
65 T-ACAGAATATATCGATACAGTCATAC
*
89335 ATGTATCAATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
89380 TGTGGCTTTT
Statistics
Matches: 121, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
88 32 0.26
89 3 0.02
90 5 0.04
91 80 0.66
92 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (90 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAAAAGAATGCATCGATACATT
ACAGAATATATCGATACAGTCATAC
Found at i:94949 original size:78 final size:78
Alignment explanation
Indices: 94817--95128 Score: 326
Period size: 79 Copynumber: 3.9 Consensus size: 78
94807 TCATTGATGT
* * * * * * *
94817 TTTTATTTCTAAAATA-TCGATTTTCCACCATCAAGGGTTAGTCCAACCCCGTTATTTTTGAGGC
1 TTTTATTTC-AAAATACT-AATTTTTCACAATC-AGGGATACTCCAACCCCGTTATTTCTGAGGG
94881 GATACTCCAACCCCGA
63 GATACTCCAACCCCGA
* ** *
94897 TTCTATTTCAAAATA-TCAATTTTTCACAATTGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
1 TTTTATTTCAAAATACT-AATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGA
94961 TACTCCAACCCCTGA
65 TACTCCAACCCC-GA
* * * * *
94976 TTTTATTTCTAAACTACTGATTTTTCACCATCAAGGATACTCCAA-CCTGTTATTTCTGAGGGGA
1 TTTTATTTC-AAAATACTAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGA
**
95040 TACTCCAACCTTGA
65 TACTCCAACCCCGA
* * *
95054 TTTTATTTCCAAAACACTAATTTTTTACAATCAGGGATACTCCAACCCCGTTA-GTCTTGAGGGG
1 TTTTATTT-CAAAATACTAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTC-TGAGGGG
*
95118 ATACTCTAACC
64 ATACTCCAACC
95129 TCGTTATTTT
Statistics
Matches: 197, Mismatches: 29, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
78 80 0.41
79 81 0.41
80 35 0.18
81 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCAAAATACTAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCTGAGGGGAT
ACTCCAACCCCGA
Found at i:95036 original size:79 final size:80
Alignment explanation
Indices: 94817--95128 Score: 332
Period size: 78 Copynumber: 3.9 Consensus size: 80
94807 TCATTGATGT
* * * * * * *
94817 TTTTATTTCTAAAATATCGATTTTCCACCATCAAGGGTTAGTCCAACCCCGTTATTTTTGAGGCG
1 TTTTATTTCTAAAATATCAATTTTTCACAATCAA-GGATACTCCAACCCCGTTATTTCTGAGGGG
94882 ATACTCCAACCCC-GA
65 ATACTCCAACCCCTGA
* *** *
94897 TTCTATTTC-AAAATATCAATTTTTCACAATTGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTCTGAGGGGA
94961 TACTCCAACCCCTGA
66 TACTCCAACCCCTGA
* * * *
94976 TTTTATTTCTAAACTA-CTGATTTTTCACCATCAAGGATACTCCAA-CCTGTTATTTCTGAGGGG
1 TTTTATTTCTAAAATATC-AATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTCTGAGGGG
*
95039 ATACTCCAA-CCTTGA
65 ATACTCCAACCCCTGA
* * * * *
95054 TTTTATTTCCAAAACA-CTAATTTTTTACAATCAGGGATACTCCAACCCCGTTA-GTCTTGAGGG
1 TTTTATTTCTAAAATATC-AATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTC-TGAGGG
*
95117 GATACTCTAACC
64 GATACTCCAACC
95129 TCGTTATTTT
Statistics
Matches: 196, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
78 83 0.42
79 77 0.39
80 36 0.18
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (80 bp):
TTTTATTTCTAAAATATCAATTTTTCACAATCAAGGATACTCCAACCCCGTTATTTCTGAGGGGA
TACTCCAACCCCTGA
Found at i:95092 original size:158 final size:159
Alignment explanation
Indices: 94817--95708 Score: 409
Period size: 158 Copynumber: 5.5 Consensus size: 159
94807 TCATTGATGT
* * *
94817 TTTTATTTCTAAAATATCGATTTTCCACCATCAAGGGTTAGTCCAACCCCGTTATTTTTGAGGCG
1 TTTTATTTCTAAAATATCGATTTTCCACCATCAAGGGATACTCCAACCCCGTTATTTCTGAGGCG
* ** *
94882 ATACTCCAACCCCGATTCTATTTCAAAATATCAATTTTTCACAATTGGGGATACTCCAACCCTGT
66 ATACTCCAACCCCGATTCTATTTCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCGT
*
94947 TA-TTTCTGAGGGGATACTCCAACCCCTGA
131 TAGTCT-TGAGGGGATACTCCAACCCCTGA
* * * *
94976 TTTTATTTCTAAACTA-CTGATTTTTCACCATCAA-GGATACTCCAA-CCTGTTATTTCTGAGGG
1 TTTTATTTCTAAAATATC-GATTTTCCACCATCAAGGGATACTCCAACCCCGTTATTTCTGAGGC
** * *
95038 GATACTCCAACCTTGATTTTATTTCCAAAACA-CTAATTTTTTACAATCAGGGATACTCCAACCC
65 GATACTCCAACCCCGATTCTATTT-CAAAACATC-AATTTTTCACAATCAGGGATACTCCAACCC
* * *
95102 CGTTAGTCTTGAGGGGATACTCTAACCTCGTTA
128 CGTTAGTCTTGAGGGGATACTCCAACC-CCTGA
* * ** * *
95135 TTTTCGAGGGGATACTCTGACCCCAAT-TTTATTTTCAAAATATCAATTTTTCACAATCGGGATA
1 TTTT-------AT-TTCT-A---AAATATCGATTTTC----CA-CCA----T--CAA--GGGATA
* * * **
95199 CTCCAACCCCGTTATTTTTGAAGCGATACTCCAACCCCGATTTTATTTTTAAA-ATACTAATTTT
41 CTCCAACCCCGTTATTTCTGAGGCGATACTCCAACCCCGATTCTATTTCAAAACAT-C-AATTTT
* * *** * * *
95263 TCACAATC-GAGGATACTCTAATCCTAATA-TTTTCAAGGGGATACTCTAACCCC-GA
104 TCACAATCAG-GGATACTCCAACCCCGTTAGTCTT-GAGGGGATACTCCAACCCCTGA
* ** * ** *
95318 TTTTATTTCAAAAATATTAATTTTCCACAATC--GGAGATACTTTAACCCCGTTATTTTTGAAGG
1 TTTTATTTCTAAAATATCGATTTTCCACCATCAAGG-GATACTCCAACCCCGTTATTTCTG-AGG
** * * * * * * *
95381 -GATACTTTAACCCTGGTTTTATTTCTAAAATATCGATTTTTCATAAT---GGATACTCTAACCC
64 CGATACTCCAACCCCGATTCTATTTC-AAAACATCAATTTTTCACAATCAGGGATACTCCAA--C
* * *
95442 CCCTGTTA-TTTTCGATGGAATACTCCAACCCCTGA
126 CCC-GTTAGTCTT-GAGGGGATACTCCAACCCCTGA
* * * * *
95477 TTTTATTT-TCAAAACACCGATTTTCTACAATCGAA--GATACTCCAACCTCGTTATTT-TCGAG
1 TTTTATTTCT-AAAATATCGATTTTCCACCATC-AAGGGATACTCCAACCCCGTTATTTCT-GAG
* * * * * **
95538 GTGATACTCTAACCCTGATT-TATTTCTAAAC-TACTAA-TTTTCGACCATTGGGGATACTCCAA
63 GCGATACTCCAACCCCGATTCTATTTCAAAACAT-C-AATTTTTC-ACAATCAGGGATACTCCAA
* * ** *
95600 CCCTGTTA-TTTTCGAGGGGATACTTTAACTCC-GA
125 CCCCGTTAGTCTT-GAGGGGATACTCCAACCCCTGA
* * * * ** *
95634 TTTTATTTCTAAAACATCGATTTTTCACAATCGA-GGATACTTTAACCCCGTTATTT-TCGAGGG
1 TTTTATTTCTAAAATATCGATTTTCCACCATCAAGGGATACTCCAACCCCGTTATTTCT-GAGGC
*
95697 GATACTCTAACC
65 GATACTCCAACC
95709 TTGTTTTTAT
Statistics
Matches: 573, Mismatches: 100, Indels: 122
0.72 0.13 0.15
Matches are distributed among these distances:
155 11 0.02
156 2 0.00
157 114 0.20
158 177 0.31
159 110 0.19
160 2 0.00
161 11 0.02
163 1 0.00
166 2 0.00
167 6 0.01
168 2 0.00
170 5 0.01
171 5 0.01
172 8 0.01
174 2 0.00
175 4 0.01
176 2 0.00
179 1 0.00
181 3 0.01
183 6 0.01
184 19 0.03
185 80 0.14
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (159 bp):
TTTTATTTCTAAAATATCGATTTTCCACCATCAAGGGATACTCCAACCCCGTTATTTCTGAGGCG
ATACTCCAACCCCGATTCTATTTCAAAACATCAATTTTTCACAATCAGGGATACTCCAACCCCGT
TAGTCTTGAGGGGATACTCCAACCCCTGA
Found at i:95128 original size:28 final size:28
Alignment explanation
Indices: 95087--95158 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
95077 TTTACAATCA
*
95087 GGGATACTCCAACCCCGTTAGTCTT-GAG
1 GGGATACTCTAACCCCGTTA-TCTTCGAG
* *
95115 GGGATACTCTAACCTCGTTATTTTCGAG
1 GGGATACTCTAACCCCGTTATCTTCGAG
*
95143 GGGATACTCTGACCCC
1 GGGATACTCTAACCCC
95159 AATTTTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 3 0.08
28 35 0.92
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (28 bp):
GGGATACTCTAACCCCGTTATCTTCGAG
Found at i:95215 original size:185 final size:186
Alignment explanation
Indices: 94928--95280 Score: 441
Period size: 185 Copynumber: 1.9 Consensus size: 186
94918 TTTCACAATT
* *
94928 GGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCTGATTTTATTTCTAAACTAC
1 GGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCTAATTTTATTTCTAAAATAC
* * * * * **
94993 TGATTTTTCACCATCAAGGATACTCCAACCTGTTATTTCTGAGGGGATACTCCAACCTTGATTTT
66 TAATTTTTCACAATCAAGGATACTCCAACCCGTTATTTCTGAAGCGATACTCCAACCCCGATTTT
*
95058 ATTTCCAAAACACTAATTTTTTACAATC-AGGGATACTCCAACCCCGTTAGTCTTGA
131 ATTTCCAAAACACTAATTTTTCACAATCGA-GGATACTCCAACCCCGTTAGTCTTGA
* **
95114 GGGGATACTCTAA-CCTCGTTATTT-TCGAGGGGATACTCTGACCCC-AATTTTATTT-TCAAAA
1 GGGGATACTCCAACCCT-GTTATTTCT-GAGGGGATACTCCAACCCCTAATTTTATTTCT-AAAA
* *
95175 TA-TCAATTTTTCACAATC-GGGATACTCCAACCCCGTTATTTTTGAAGCGATACTCCAACCCCG
63 TACT-AATTTTTCACAATCAAGGATACTCCAA-CCCGTTATTTCTGAAGCGATACTCCAACCCCG
** *
95238 ATTTTATTTTTAAAATACTAATTTTTCACAATCGAGGATACTC
126 ATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTC
95281 TAATCCTAAT
Statistics
Matches: 143, Mismatches: 18, Indels: 13
0.82 0.10 0.07
Matches are distributed among these distances:
184 13 0.09
185 93 0.65
186 37 0.26
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.35
Consensus pattern (186 bp):
GGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCTAATTTTATTTCTAAAATAC
TAATTTTTCACAATCAAGGATACTCCAACCCGTTATTTCTGAAGCGATACTCCAACCCCGATTTT
ATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCGTTAGTCTTGA
Found at i:95227 original size:106 final size:106
Alignment explanation
Indices: 95011--95234 Score: 283
Period size: 106 Copynumber: 2.1 Consensus size: 106
95001 CACCATCAAG
***
95011 GATACTCCAACCTGTTATTTCTGAGGGGATACTCCAACCTTGATTTTATTTCCAAAACACTAATT
1 GATACTCCAACCTGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACTAATT
* * *
95076 TTTTACAATCAGGGATACTCCAACCCCGTTAGTCTTGAGGG
66 TTTCACAATCAGGGATACTCCAACCCCGTTAGTCTTGAAGC
* ** * *
95117 GATACTCTAACCTCGTTATTT-TCGAGGGGATACTCTGACCCCAATTTTATTTTCAAAATA-TCA
1 GATACTCCAACCT-GTTATTTCT-GAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACT-A
* *
95180 ATTTTTCACAATC-GGGATACTCCAACCCCGTTATTTTTGAAGC
63 ATTTTTCACAATCAGGGATACTCCAACCCCGTTAGTCTTGAAGC
95223 GATACTCCAACC
1 GATACTCCAACC
95235 CCGATTTTAT
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
106 51 0.50
107 50 0.50
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (106 bp):
GATACTCCAACCTGTTATTTCTGAGGGGATACTCCAACCCCAATTTTATTTCCAAAACACTAATT
TTTCACAATCAGGGATACTCCAACCCCGTTAGTCTTGAAGC
Found at i:95341 original size:264 final size:264
Alignment explanation
Indices: 94861--95393 Score: 687
Period size: 264 Copynumber: 2.0 Consensus size: 264
94851 GGGTTAGTCC
* *
94861 AACCCCGTTATTTTTGAGGCGATACTCCAACCCCGATTCTATTTCAAAATATCAATTTTTCACAA
1 AACCCCGTTATTTTCGAGGCGATACTCCAACCCCAATTCTATTTCAAAATATCAATTTTTCACAA
* * * * *
94926 TTGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCCTGATTTTATTTCTAAACT
66 TTCGGGATACTCCAACCCCGTTATTTCTGAAGCGATACTCCAACCCCTGATTTTATTTCTAAAAT
* * ** * **
94991 ACTGATTTTTCACCATCAAGGATACTCCAACCTGTTATTTCTGAGGGGATACTCCAACCTTGATT
131 ACTAATTTTTCACAATCAAGGATACTCCAACCTAATATTTCTAAGGGGATACTCCAACCCCGATT
* ** *
95056 TTATTTCCAAAACACTAATTTTTTACAATCAGG-GATACTCCAACCCCGTTAGTCTTGAGGGGAT
196 TTATTTCAAAAACACTAATTTTCCACAATC-GGAGATACTCCAACCCCGTTAGTCTTGAAGGGAT
95120 ACTCT
260 ACTCT
* * ** *
95125 AACCTCGTTATTTTCGAGGGGATACTCTGACCCCAATTTTATTTTCAAAATATCAATTTTTCACA
1 AACCCCGTTATTTTCGAGGCGATACTCCAACCCCAATTCTA-TTTCAAAATATCAATTTTTCACA
* *
95190 A-TCGGGATACTCCAACCCCGTTATTTTTGAAGCGATACTCCAACCCC-GATTTTATTTTTAAAA
65 ATTCGGGATACTCCAACCCCGTTATTTCTGAAGCGATACTCCAACCCCTGATTTTATTTCTAAAA
* * *
95253 TACTAATTTTTCACAATCGAGGATACTCTAATCCTAATATTT-TCAAGGGGATACTCTAACCCCG
130 TACTAATTTTTCACAATCAAGGATACTCCAA-CCTAATATTTCT-AAGGGGATACTCCAACCCCG
* * ** * *
95317 ATTTTATTTCAAAAATATTAATTTTCCACAATCGGAGATACTTTAACCCCGTTATTTTTGAAGGG
193 ATTTTATTTCAAAAACACTAATTTTCCACAATCGGAGATACTCCAACCCCGTTAGTCTTGAAGGG
*
95382 ATACTTT
258 ATACTCT
95389 AACCC
1 AACCC
95394 TGGTTTTATT
Statistics
Matches: 229, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
263 44 0.19
264 161 0.70
265 24 0.10
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (264 bp):
AACCCCGTTATTTTCGAGGCGATACTCCAACCCCAATTCTATTTCAAAATATCAATTTTTCACAA
TTCGGGATACTCCAACCCCGTTATTTCTGAAGCGATACTCCAACCCCTGATTTTATTTCTAAAAT
ACTAATTTTTCACAATCAAGGATACTCCAACCTAATATTTCTAAGGGGATACTCCAACCCCGATT
TTATTTCAAAAACACTAATTTTCCACAATCGGAGATACTCCAACCCCGTTAGTCTTGAAGGGATA
CTCT
Found at i:95718 original size:79 final size:78
Alignment explanation
Indices: 95115--95708 Score: 576
Period size: 79 Copynumber: 7.5 Consensus size: 78
95105 TAGTCTTGAG
* * *
95115 GGGATACTCTAACCTCGTTATTTTCGAGGGGATACTCTGACCCCAATTTTATTT-TCAAAATATC
1 GGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCT-AAAATATC
95179 AATTTTTCACAATC
65 AATTTTTCACAATC
* * * * * *
95193 GGGATACTCCAACCCCGTTATTTTTGAAGCGATACTCCAACCCCGATTTTATTTTTAAAATA-CT
1 GGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATC-
95257 AATTTTTCACAATC
65 AATTTTTCACAATC
* *** * * *
95271 GAGGATACTCTAATCCTAATATTTTCAAGGGGATACTCTAACCCCGATTTTATTTCAAAAATATT
1 G-GGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATC
*
95336 AATTTTCCACAATC
65 AATTTTTCACAATC
* * * * * *
95350 GGAGATACTTTAACCCCGTTATTTTTGAAGGGATACTTTAACCCTGGTTTTATTTCTAAAATATC
1 GG-GATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATC
* *
95415 GATTTTTCATAAT-
65 AATTTTTCACAATC
* * *
95428 -GGATACTCTAACCCCCCTGTTATTTTCGATGGAATACTCCAACCCCTGATTTTATTT-TCAAAA
1 GGGATACTCTAA--CCCC-GTTATTTTCGAGGGGATACTCTAACCCC-GATTTTATTTCT-AAAA
* * *
95491 CACCGA-TTTTCTACAATC
61 TATCAATTTTTC-ACAATC
* * * * * *
95509 GAAGATACTCCAACCTCGTTATTTTCGAGGTGATACTCTAACCCTGA-TTTATTTCTAAACTA-C
1 G-GGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATC
* *
95572 TAA-TTTTCGACCATTG
65 -AATTTTTC-A-CAATC
* * * * * *
95588 GGGATACTCCAACCCTGTTATTTTCGAGGGGATACTTTAACTCCGATTTTATTTCTAAAACATCG
1 GGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATCA
95653 ATTTTTCACAATC
66 ATTTTTCACAATC
*
95666 GAGGATACTTTAACCCCGTTATTTTCGAGGGGATACTCTAACC
1 G-GGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACC
95709 TTGTTTTTAT
Statistics
Matches: 415, Mismatches: 80, Indels: 41
0.77 0.15 0.08
Matches are distributed among these distances:
76 9 0.02
77 3 0.01
78 132 0.32
79 209 0.50
80 50 0.12
81 3 0.01
83 9 0.02
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (78 bp):
GGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAATATCA
ATTTTTCACAATC
Found at i:103794 original size:21 final size:20
Alignment explanation
Indices: 103762--103809 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
103752 GCCAAATTTT
*
103762 GAAAAAATTAAAAA-AAAAGA
1 GAAAAAAGTAAAAACAAAA-A
103782 GAAAAAAGGTAAAAACAAAAA
1 GAAAAAA-GTAAAAACAAAAA
*
103803 TAAAAAA
1 GAAAAAA
103810 ATCAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 7 0.29
21 13 0.54
22 4 0.17
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (20 bp):
GAAAAAAGTAAAAACAAAAA
Found at i:105895 original size:44 final size:44
Alignment explanation
Indices: 105749--106140 Score: 360
Period size: 44 Copynumber: 8.7 Consensus size: 44
105739 TTGTTTAACC
* * * *
105749 GTATTGGCATTAGGACCTGATCAAACTATTTTTTCTTTCATTTGACT
1 GTATTGGCATTA-GTCCTGGTCAAACT-CTTTTT-TTTCGTTTGACT
* * *
105796 GTATTGGCATTAGTCCTAGGTTAAACTCTTTTCTCTCGTTTGACT
1 GTATTGGCATTAGTCCT-GGTCAAACTCTTTTTTTTCGTTTGACT
* * * * * *
105841 ATATTAGCATTAGTCTTAGTCAAAATCTTTTTTTTCGTTTGATT
1 GTATTGGCATTAGTCCTGGTCAAACTCTTTTTTTTCGTTTGACT
* * *
105885 GTATTGGCATTAGTCGTGGTCAAACTCTTTTTACCATT-ATTTGA-T
1 GTATTGGCATTAGTCCTGGTCAAACTCTTTTT---TTTCGTTTGACT
* ** * * * *
105930 CGTATTAGTGTTAGAACCTAGTCAAACTCTCTTGTCTTTCGTTTAACT
1 -GTATTGGCATTAG-TCCTGGTCAAACTCT-TT-TTTTTCGTTTGACT
* *
105978 GTATTGGCATTAGTCCTGGTCAAACGT-TTTTCTCTCGTTTGACT
1 GTATTGGCATTAGTCCTGGTCAAAC-TCTTTTTTTTCGTTTGACT
* * *
106022 GTATTAGCATTAGTCCTGGTCAAAATCTTTTCTTTCGTTTGACT
1 GTATTGGCATTAGTCCTGGTCAAACTCTTTTTTTTCGTTTGACT
* *
106066 GTATTGGCATTAGTCCTTGTCAAACTCTTTTTTCTCGTTTGACT
1 GTATTGGCATTAGTCCTGGTCAAACTCTTTTTTTTCGTTTGACT
*
106110 GTATTGGCATTAG-CCTTGGCCAAACTCTTTT
1 GTATTGGCATTAGTCC-TGGTCAAACTCTTTT
106141 CTCTTATTTG
Statistics
Matches: 282, Mismatches: 50, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
43 3 0.01
44 164 0.58
45 27 0.10
46 36 0.13
47 48 0.17
48 3 0.01
49 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (44 bp):
GTATTGGCATTAGTCCTGGTCAAACTCTTTTTTTTCGTTTGACT
Found at i:106077 original size:88 final size:88
Alignment explanation
Indices: 105779--106122 Score: 424
Period size: 88 Copynumber: 3.8 Consensus size: 88
105769 TCAAACTATT
* * *
105779 TTTTCTTTCATTTGACTGTATTGGCATTAGTCCTAGGTTAAACTCTTTTCTCTCGTTTGACTATA
1 TTTTCTTTCGTTTGACTGTATTGGCATTAGTCCT-GGTCAAACTCTTTTCTCTCGTTTGACTGTA
*
105844 TTAGCATTAGTCTTAGTCAAAATC
65 TTAGCATTAGTCCTAGTCAAAATC
* * * **
105868 TTTTTTTTCGTTTGATTGTATTGGCATTAGTCGTGGTCAAACTCTTTT-TACCATTATTTGA-TC
1 TTTTCTTTCGTTTGACTGTATTGGCATTAGTCCTGGTCAAACTCTTTTCT--C-TCGTTTGACT-
** * *
105931 GTATTAGTGTTAGAACCTAGTCAAACTC
62 GTATTAGCATTAG-TCCTAGTCAAAATC
*
105959 TCTTGTCTTTCGTTTAACTGTATTGGCATTAGTCCTGGTCAAACGT-TTTTCTCTCGTTTGACTG
1 T-TT-TCTTTCGTTTGACTGTATTGGCATTAGTCCTGGTCAAAC-TCTTTTCTCTCGTTTGACTG
*
106023 TATTAGCATTAGTCCTGGTCAAAATC
63 TATTAGCATTAGTCCTAGTCAAAATC
* *
106049 TTTTCTTTCGTTTGACTGTATTGGCATTAGTCCTTGTCAAACTCTTTTTTCTCGTTTGACTGTAT
1 TTTTCTTTCGTTTGACTGTATTGGCATTAGTCCTGGTCAAACTCTTTTCTCTCGTTTGACTGTAT
*
106114 TGGCATTAG
66 TAGCATTAG
106123 CCTTGGCCAA
Statistics
Matches: 216, Mismatches: 28, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
87 2 0.01
88 78 0.36
89 34 0.16
90 28 0.13
91 29 0.13
92 4 0.02
93 39 0.18
94 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (88 bp):
TTTTCTTTCGTTTGACTGTATTGGCATTAGTCCTGGTCAAACTCTTTTCTCTCGTTTGACTGTAT
TAGCATTAGTCCTAGTCAAAATC
Found at i:106151 original size:44 final size:45
Alignment explanation
Indices: 105725--106233 Score: 337
Period size: 44 Copynumber: 11.2 Consensus size: 45
105715 TCTTACCAAA
* * * * * * *
105725 CAAAATCTTTTATGTTGTTTAACCGTATTGGCATTAGGACC-TGAT
1 CAAACTCTTTTCTCTTGTTTGACTGTATTGGCATTA-GTCCTTGGT
* * * *
105770 CAAACTATTTTTTCTTTCATTTGACTGTATTGGCATTAGTCCTAGGT
1 CAAACTCTTTTCTC-TT-GTTTGACTGTATTGGCATTAGTCCTTGGT
* * * * *
105817 TAAACTCTTTTCTCTCGTTTGACTATATTAGCATTAGT-CTTAGT
1 CAAACTCTTTTCTCTTGTTTGACTGTATTGGCATTAGTCCTTGGT
* * * *
105861 CAAAATCTTTT-TTTTCGTTTGATTGTATTGGCATTAGT-CGTGGT
1 CAAACTCTTTTCTCTT-GTTTGACTGTATTGGCATTAGTCCTTGGT
* * ** * *
105905 CAAACTCTTTT-TACCATTATTTGA-TCGTATTAGTGTTAGAACC-TAGT
1 CAAACTCTTTTCT--C-TTGTTTGACT-GTATTGGCATTAG-TCCTTGGT
*
105952 CAAACTCTCTTGTCT-TTCGTTTAACTGTATTGGCATTAGTCC-TGGT
1 CAAACTCT-TT-TCTCTT-GTTTGACTGTATTGGCATTAGTCCTTGGT
* *
105998 CAAACGT-TTTTCTCTCGTTTGACTGTATTAGCATTAGTCC-TGGT
1 CAAAC-TCTTTTCTCTTGTTTGACTGTATTGGCATTAGTCCTTGGT
*
106042 CAAAATCTTTTCT-TTCGTTTGACTGTATTGGCATTAGTCCTT-GT
1 CAAACTCTTTTCTCTT-GTTTGACTGTATTGGCATTAGTCCTTGGT
* * *
106086 CAAACTCTTTTTTCTCGTTTGACTGTATTGGCATTAG-CCTTGGC
1 CAAACTCTTTTCTCTTGTTTGACTGTATTGGCATTAGTCCTTGGT
* * * **
106130 CAAACTCTTTTCTCTTATTTGACCGTATTGG-AGATAGGACTTGGT
1 CAAACTCTTTTCTCTTGTTTGACTGTATTGGCA-TTAGTCCTTGGT
* * * * **
106175 CGAACTCTTTTCACCATTTGTTTGACTATATTAGCATTAGGACTTGGT
1 CAAACTCTTTTC-TC--TTGTTTGACTGTATTGGCATTAGTCCTTGGT
* *
106223 TAAACTGTTTT
1 CAAACTCTTTT
106234 TGCCATTGCT
Statistics
Matches: 366, Mismatches: 70, Indels: 53
0.75 0.14 0.11
Matches are distributed among these distances:
43 9 0.02
44 174 0.48
45 51 0.14
46 35 0.10
47 58 0.16
48 36 0.10
49 2 0.01
50 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (45 bp):
CAAACTCTTTTCTCTTGTTTGACTGTATTGGCATTAGTCCTTGGT
Found at i:106240 original size:48 final size:47
Alignment explanation
Indices: 106164--106261 Score: 115
Period size: 48 Copynumber: 2.1 Consensus size: 47
106154 GTATTGGAGA
* * *
106164 TAGGACTTGGTCGAACTCTTTTCACCATTTGTTTGACTATATTAGCAT
1 TAGGACTTGGTCAAACTCTTTTCACCA-TTGCTTGACTACATTAGCAT
* * ** *
106212 TAGGACTTGGTTAAACTGTTTTTGCCATTGCTTGACTGCATTAGCAT
1 TAGGACTTGGTCAAACTCTTTTCACCATTGCTTGACTACATTAGCAT
106259 TAG
1 TAG
106262 TGCTATTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 20 0.48
48 22 0.52
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (47 bp):
TAGGACTTGGTCAAACTCTTTTCACCATTGCTTGACTACATTAGCAT
Found at i:108121 original size:169 final size:170
Alignment explanation
Indices: 107928--108368 Score: 506
Period size: 169 Copynumber: 2.6 Consensus size: 170
107918 TTTTTCGAGA
** * * * *
107928 GGATTTTTCTTAATTTTTAATTTTTAAAATTTATCTAACATCATTATTTATTTCATATTAATTTG
1 GGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTTA
* * *
107993 GTTTTCAAAAATTAATTTATTTTTATGAGTTTTTGATTTTTTTTCCTTGAAATTTCACTTTTTCC
66 GTTTTCAAAAATTAATTTATTTTCATGAGTTTTTGATTTTTTTTCCTTAAAACTTCACTTTTTCC
108058 AAAATACGA-TATTTTCTACT-CTGTAAA-TTTTTTTC-AAG
131 AAAATA-GAGTATTTTCTACTGC-GTAAATTTTTTTTCAAAG
* * ** * *
108096 GAGATTTTTCTTGGTTTTGAATTTTTAAAATTGATCAAACATCATTATTTATTTTTTATTTATTC
1 G-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTT
* * * ** *
108161 AGTTTTCAAAATTTAATTTATTTTCATGAG-TTTT--TTATTTTTCTTTAAAACTTCTTTTTTTT
65 AGTTTTCAAAAATTAATTTATTTTCATGAGTTTTTGATTTTTTTTCCTTAAAACTTCACTTTTTC
*
108223 CAAAATATAGTATTTTCTACTGCGTAAATTTTTTTTCAAAG
130 CAAAATAGAGTATTTTCTACTGCGTAAATTTTTTTTCAAAG
* * * * *
108264 GGCTTTTTCTTGGTTTTCAATTTTTAGAATTCATCAAACATCCTCATTTGA-TTCAGATTAATTT
1 GGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTT-ATTTCATATTAATTT
* * *
108328 AGTTTT-AAAAATTAATTCA-TTTCATGAATTTTGGATTTTTT
65 AGTTTTCAAAAATTAATTTATTTTCATGAGTTTTTGATTTTTT
108369 GTTGAAATTT
Statistics
Matches: 228, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
165 9 0.04
166 58 0.25
167 65 0.29
168 15 0.07
169 81 0.36
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.54
Consensus pattern (170 bp):
GGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTTA
GTTTTCAAAAATTAATTTATTTTCATGAGTTTTTGATTTTTTTTCCTTAAAACTTCACTTTTTCC
AAAATAGAGTATTTTCTACTGCGTAAATTTTTTTTCAAAG
Found at i:111384 original size:13 final size:13
Alignment explanation
Indices: 111366--111390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111356 ACAATGAACA
111366 TGTATCGATACAT
1 TGTATCGATACAT
111379 TGTATCGATACA
1 TGTATCGATACA
111391 AAGCAGCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111406 original size:33 final size:32
Alignment explanation
Indices: 111347--111411 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
111337 AATTTGTCGA
*
111347 TGTATCAATACAATGAACATGTATCGATACAT
1 TGTATCAATACAAAGAACATGTATCGATACAT
* *
111379 TGTATCGATACAAAGCAGCATGTATCGATACAT
1 TGTATCAATACAAAG-AACATGTATCGATACAT
111412 CTGGGTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCAATACAAAGAACATGTATCGATACAT
Found at i:116588 original size:13 final size:13
Alignment explanation
Indices: 116570--116609 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
116560 ACAATGTTCT
116570 TTGTATCGATACA
1 TTGTATCGATACA
116583 TTGTATCGATACA
1 TTGTATCGATACA
*
116596 ATGTATCGATACA
1 TTGTATCGATACA
116609 T
1 T
116610 GGTCTCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:119087 original size:13 final size:13
Alignment explanation
Indices: 119069--119093 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119059 CATTATGCTT
119069 TGTATCGATACAA
1 TGTATCGATACAA
119082 TGTATCGATACA
1 TGTATCGATACA
119094 TGTTCGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:119109 original size:32 final size:33
Alignment explanation
Indices: 119048--119112 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
119038 ACACTTTCAT
*
119048 ATGTATCGATACATTATGCTTTGTATCGATACA
1 ATGTATCGATACATTATGCGTTGTATCGATACA
119081 ATGTATCGATACATGT-T-CGTTGTATCGATACA
1 ATGTATCGATACAT-TATGCGTTGTATCGATACA
119113 TGAACAATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (33 bp):
ATGTATCGATACATTATGCGTTGTATCGATACA
Found at i:119264 original size:76 final size:76
Alignment explanation
Indices: 119128--119271 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
119118 AATAGTATCA
* * * ** ** *
119128 ATACATGAAACTGGCAGTAGCTACCCTACCACTATTTGTATCAATACATTATGCTTTGTATCGAT
1 ATACAAGAAACTGACAGTAGCTACCCTACCACTATTTGTATCAATACATGACACAATGTATCAAT
119193 ACAATGTATTG
66 ACAATGTATTG
*
119204 ATACAAGAAACTGACAGTAGCTACCCTACCACTATTTGTATCAATACATGGCACAATGTATCAAT
1 ATACAAGAAACTGACAGTAGCTACCCTACCACTATTTGTATCAATACATGACACAATGTATCAAT
119269 ACA
66 ACA
119272 TGAAGAATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 59 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (76 bp):
ATACAAGAAACTGACAGTAGCTACCCTACCACTATTTGTATCAATACATGACACAATGTATCAAT
ACAATGTATTG
Found at i:119283 original size:20 final size:21
Alignment explanation
Indices: 119239--119292 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
119229 CTACCACTAT
*
119239 TTGTATCAATACATGGCACAA
1 TTGTATCAATACATGGAACAA
*
119260 -TGTATCAATACAT-GAAGAA
1 TTGTATCAATACATGGAACAA
*
119279 TTGTATCGATACAT
1 TTGTATCAATACAT
119293 TGCCTTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCAATACATGGAACAA
Found at i:122844 original size:13 final size:13
Alignment explanation
Indices: 122826--122852 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
122816 TACATTATGC
122826 TTGTATCGATACA
1 TTGTATCGATACA
122839 TTGTATCGATACA
1 TTGTATCGATACA
122852 T
1 T
122853 GTTAATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:122881 original size:20 final size:19
Alignment explanation
Indices: 122838--122883 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
122828 GTATCGATAC
* **
122838 ATTGTATCGATACATGTTA
1 ATTGTATCAATACATGACA
122857 ATTGTATCAATACATGGACA
1 ATTGTATCAATACAT-GACA
122877 ATTGTAT
1 ATTGTAT
122884 TGATATATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (19 bp):
ATTGTATCAATACATGACA
Found at i:123268 original size:20 final size:19
Alignment explanation
Indices: 123243--123316 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
123233 TTTGCCCAGA
*
123243 TGTATCAATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
*
123263 TGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
123283 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
123303 TGTATCGATACATT
1 TGTATCGATACATT
123317 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:125716 original size:28 final size:28
Alignment explanation
Indices: 125684--125748 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
125674 AATTGAGGAA
* * *
125684 ACTCCAACCCCGTTATTTC-ATCGGGGAT
1 ACTCCAACCCCATTATTTCTA-AGGAGAT
125712 ACTCCAACCCCATTATTTCTAAGGAGAT
1 ACTCCAACCCCATTATTTCTAAGGAGAT
125740 ACTCCAACC
1 ACTCCAACC
125749 TCGGCTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.28, C:0.34, G:0.12, T:0.26
Consensus pattern (28 bp):
ACTCCAACCCCATTATTTCTAAGGAGAT
Found at i:125797 original size:109 final size:104
Alignment explanation
Indices: 125665--126017 Score: 384
Period size: 106 Copynumber: 3.3 Consensus size: 104
125655 CAAAACGTTA
* * **
125665 ATTTTTCACAATTGAGGAAACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTT
1 ATTTTTCATAATTGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTT
*
125730 CTAAGGAGATACTCCAACCTCGGCTTTATATCTAAAA-ATGTT
66 CTAAGG-GATACTCCAACC-CGG-TTTATATCTAAAATAT-TG
125772 ATTTTTTTCATAATTGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTAT
1 A--TTTTTCATAATTGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTAT
* * *
125837 TTCCGAGGGGATACTCCAACCCTGATTTATATCTAAAATATTG
64 TT-CTAAGGGATACTCCAACCC-GGTTTATATCTAAAATATTG
* * * * *
125880 ATTTTTCATAATCGGGGGTACTCCAATCCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTT
1 ATTTTTCATAATTGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTT
* * * * * * *
125945 TTTAGGGCATACTCCAACCCCGGTTTATTTCCAAAACACTA
66 CTAAGGG-ATACTCCAA-CCCGGTTTATATCTAAAATATTG
* * * *
125986 ATTTCTCACAAATCGGGGATACTCCAACCCCG
1 ATTTTTCA-TAATTGGGGGTACTCCAACCCCG
126018 ACTTTATTAC
Statistics
Matches: 211, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
105 3 0.01
106 89 0.42
107 24 0.11
108 16 0.08
109 75 0.36
110 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (104 bp):
ATTTTTCATAATTGGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTT
CTAAGGGATACTCCAACCCGGTTTATATCTAAAATATTG
Found at i:125823 original size:28 final size:28
Alignment explanation
Indices: 125787--125858 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
125777 TTTCATAATT
* * **
125787 GGGGGTACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCATTATTTCAGA
*
125815 GGGGATACTCCAACCCCATTATTTCCGA
1 GGGGATACTCCAACCCCATTATTTCAGA
125843 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
125859 TGATTTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:125956 original size:28 final size:28
Alignment explanation
Indices: 125898--125966 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
125888 TAATCGGGGG
* *
125898 TACTCCAATCCCGTTATGTCATCGGGGA
1 TACTCCAATCCCGTTATGTCATAGGGCA
* **
125926 TACTCCAATCCCGTTATTTTTTAGGGCA
1 TACTCCAATCCCGTTATGTCATAGGGCA
*
125954 TACTCCAACCCCG
1 TACTCCAATCCCG
125967 GTTTATTTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.22, C:0.32, G:0.16, T:0.30
Consensus pattern (28 bp):
TACTCCAATCCCGTTATGTCATAGGGCA
Found at i:125957 original size:106 final size:106
Alignment explanation
Indices: 125684--125972 Score: 386
Period size: 106 Copynumber: 2.7 Consensus size: 106
125674 AATTGAGGAA
125684 ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTCTAAGGAGATACTCCAACC
1 ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTCTAAGG-GATACTCCAACC
* * *
125749 TCGGCTTTATATCTAAAAATGTTATTTTTTTCATAATTGGGGGT
65 -CGGATTTATATCTAAAAATGTGA-TTTTTTCATAATCGGGGGT
* *
125793 ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACC
1 ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTT-CTAAGGGATACTCCAACC
*
125858 CTGATTTATATCTAAAATAT-TGA-TTTTTCATAATCGGGGGT
65 CGGATTTATATCTAAAA-ATGTGATTTTTTCATAATCGGGGGT
* * * * * *
125899 ACTCCAATCCCGTTATGTCATCGGGGATACTCCAATCCCGTTATTTTTTAGGGCATACTCCAACC
1 ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTCTAAGGG-ATACTCCAA-C
125964 CCGG-TTTAT
64 CCGGATTTAT
125973 TTCCAAAACA
Statistics
Matches: 161, Mismatches: 15, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
105 3 0.02
106 73 0.45
107 4 0.02
108 17 0.11
109 60 0.37
110 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (106 bp):
ACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTATTTCTAAGGGATACTCCAACCC
GGATTTATATCTAAAAATGTGATTTTTTCATAATCGGGGGT
Found at i:138421 original size:12 final size:12
Alignment explanation
Indices: 138404--138461 Score: 73
Period size: 12 Copynumber: 4.8 Consensus size: 12
138394 TCAAAAAACG
138404 AAAAAACAACAA
1 AAAAAACAACAA
138416 AAAAAACAA-AA
1 AAAAAACAACAA
*
138427 AAAAAACAAAAA
1 AAAAAACAACAA
*
138439 AAACAAAAAACAA
1 AAA-AAACAACAA
138452 AACAAAACAA
1 AA-AAAACAA
138462 AAAGGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
11 11 0.28
12 14 0.35
13 14 0.35
14 1 0.03
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAACAACAA
Found at i:138421 original size:20 final size:19
Alignment explanation
Indices: 138396--138464 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
138386 ATTCTTTTTC
138396 AAAAAACGAAAAAACAACAA
1 AAAAAAC-AAAAAACAACAA
*
138416 AAAAAACAAAAAAAAAACAA
1 AAAAAAC-AAAAAACAACAA
138436 AAAAAACAAAAAAC-A-AA
1 AAAAAACAAAAAACAACAA
*
138453 ACAAAACAAAAA
1 AAAAAACAAAAA
138465 GGAAAAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
17 13 0.29
18 1 0.02
19 6 0.13
20 25 0.56
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (19 bp):
AAAAAACAAAAAACAACAA
Found at i:138470 original size:17 final size:17
Alignment explanation
Indices: 138406--138464 Score: 88
Period size: 16 Copynumber: 3.6 Consensus size: 17
138396 AAAAAACGAA
138406 AAAACAACAAAA-AAAAC
1 AAAACAA-AAAACAAAAC
138423 AAAA-AAAAAACAAAA-
1 AAAACAAAAAACAAAAC
138438 AAAACAAAAAACAAAAC
1 AAAACAAAAAACAAAAC
138455 AAAACAAAAA
1 AAAACAAAAA
138465 GGAAAAAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.21
16 17 0.44
17 14 0.36
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAACAAAAAACAAAAC
Found at i:138472 original size:1 final size:1
Alignment explanation
Indices: 138404--138464 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
138394 TCAAAAAACG
* * * * * * * *
138404 AAAAAACAACAAAAAAAACAAAAAAAAAACAAAAAAAACAAAAAACAAAACAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
138465 GGAAAAAAGA
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:138472 original size:32 final size:32
Alignment explanation
Indices: 138396--138464 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
138386 ATTCTTTTTC
*
138396 AAAAAAC-GAAAAAACAACAAAAAAAACAAAA
1 AAAAAACAAAAAAAACAACAAAAAAAACAAAA
138427 AAAAAACAAAAAAAACAA-AAAACAAAACAAAA
1 AAAAAACAAAAAAAACAACAAAA-AAAACAAAA
*
138459 CAAAAA
1 AAAAAA
138465 GGAAAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 11 0.32
32 23 0.68
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (32 bp):
AAAAAACAAAAAAAACAACAAAAAAAACAAAA
Found at i:139568 original size:55 final size:54
Alignment explanation
Indices: 139483--139818 Score: 456
Period size: 55 Copynumber: 6.0 Consensus size: 54
139473 GATGCCTTTT
*
139483 CCTTTCAAAGCCCACACAAGTTGGCGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACG
* * *
139538 GCTTTCAAAGCCCACATAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACG
* *
139593 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACG
* * * *
139648 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACG
* *
139703 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGA------CG
*
139764 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACG
139818 C
1 C
139819 TCTCTCCTTT
Statistics
Matches: 252, Mismatches: 20, Indels: 19
0.87 0.07 0.07
Matches are distributed among these distances:
54 9 0.04
55 189 0.75
56 4 0.02
60 19 0.08
61 31 0.12
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACG
Found at i:139962 original size:36 final size:36
Alignment explanation
Indices: 139922--140024 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 36
139912 CCTTTTCTTT
139922 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
* *
139958 TCAAAG---A-AC-A--TGAT-GC-TTTCTCC--T-T
1 TCAAAGCCCACACAAGTTGGTGGCATTT-TCCAGTCC
139983 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
140019 TCAAAG
1 TCAAAG
140025 AGCAGGATGC
Statistics
Matches: 50, Mismatches: 4, Indels: 26
0.62 0.05 0.32
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
27 3 0.06
28 6 0.12
29 5 0.10
30 1 0.02
31 1 0.02
32 5 0.10
33 6 0.12
34 3 0.06
35 1 0.02
36 12 0.24
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
Found at i:140102 original size:61 final size:61
Alignment explanation
Indices: 139857--140107 Score: 333
Period size: 61 Copynumber: 4.1 Consensus size: 61
139847 GAGCAGGACG
* * * * *
139857 CCTTTTAAAGCTCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGAACGCCTTT-T
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
* * *
139918 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACATGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
139979 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * ** * * ** *
140040 CCTTTCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAGAGTAGGACACTCTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
140101 CCTTTCA
1 CCTTTCA
140108 CCCTTTAGTC
Statistics
Matches: 169, Mismatches: 20, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
60 4 0.02
61 165 0.98
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (61 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
Found at i:140158 original size:277 final size:276
Alignment explanation
Indices: 139575--140323 Score: 1175
Period size: 277 Copynumber: 2.8 Consensus size: 276
139565 CACCTTTCAA
139575 TCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 TCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
** *
139639 AGCAGGACG-C----CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCA
65 AGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACA
139698 GGATG------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
130 GGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
* * * *
139757 GCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCTCT
195 GCTTTCTCCTTTCAAAGCCCACAAAAGTTGCTGGCACTCCCAGTCCTCAAAGAGCAGGACACTCT
*
139822 CTCCTTTCTCCCTTTAG
260 CTCCTTTCACCCTTTAG
* *
139839 TCCTCAAAGAGCAGGACGCCTTTTAAAGCTCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
* *
139904 GCAGAACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAT
66 GCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAG
139969 GATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
131 GATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
*
140034 CTTTCTCCTTTCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAGAGTAGGACACTCT
196 CTTTCTCCTTTCAAAGCCCACAAAAGTTGCTGGCAC-TCCCAGTCCTCAAAGAGCAGGACACTCT
140099 CTCCTTTCACCCTTTAG
260 CTCCTTTCACCCTTTAG
140116 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
1 TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
* *
140181 GCAGGATGCCTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAA-AAGCA
66 GCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAA-CA
* * * * * *
140245 GGATGCTTTCTCCTTTCAAAGCCCACACAGGTTGGTTGCACTTCCCAGTCCTCAAAGAGTAGGAC
130 GGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAT
*
140310 GCTCTCTCCTTTCA
195 GCTTTCTCCTTTCA
140324 CCCTTTAGTC
Statistics
Matches: 444, Mismatches: 26, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
264 64 0.14
265 6 0.01
269 5 0.01
270 45 0.10
276 91 0.20
277 233 0.52
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (276 bp):
TCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
GCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAG
GATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG
CTTTCTCCTTTCAAAGCCCACAAAAGTTGCTGGCACTCCCAGTCCTCAAAGAGCAGGACACTCTC
TCCTTTCACCCTTTAG
Found at i:140172 original size:216 final size:215
Alignment explanation
Indices: 139680--140519 Score: 941
Period size: 216 Copynumber: 3.9 Consensus size: 215
139670 GGTGGCATTT
* *
139680 TTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
139745 AAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAG
66 AAAGAGCAGGATGCTTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
* * ** * * * * * * *
139809 AGCAGGACGCTCTCTCCTTTCTCCCTTTAGTCCTCA-AAG-AGCAGG-AC--GCC--T-TTTAAA
130 AGCAGGATGCTTTCTCC-TT-T--C-AAAGCCCACACAAGTTGCTGGCACATCCCAGTCCTCAAA
* * ** ** ** *
139866 G-CT--CACACAAGT-TGGTGGCA--T
190 GAGTAGGACAC-TCTCTCCTTTCACCC
* *
139887 TTTCCAGTCCTTAAAGAGCAGAACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 TTT--AGTCCTCAAAGAGCAGGACG-C----CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTC
* *
139952 CAGTCCTCAAAGAACATGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
58 CAGTCCTCAAAGAGCAGGATGCTTTCT-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
*
140017 CCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTC
122 CCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGCTGGCACATCCCAGTCCTC
140082 AAAGAGTAGGACACTCTCTCCTTTCACCC
187 AAAGAGTAGGACACTCTCTCCTTTCACCC
140111 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
140176 AAAGAGCAGGATGCCTTT-TCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAA
66 AAAGAGCAGGATG-CTTTCTC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
* * * * *
140240 AAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAGGTTGGTTGCACTTCCCAGTCCTCAAAGAGT
129 GAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGCTGGCACATCCCAGTCCTCAAAGAGT
*
140305 AGGACGCTCTCTCCTTTCACCC
194 AGGACACTCTCTCCTTTCACCC
*
140327 TTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
* * * *
140392 AAAGAGCAGGACGC---CT-TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGA
66 AAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
* * * * * *
140452 GCAGGATGCCTTCTCATTTTAAAGCCCACACAAGTTGTTGGCA-ACTTCCAGTCCTCAAAGAGCA
131 GCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGCTGGCACA-TCCCAGTCCTCAAAGAGTA
140516 GGAC
195 GGAC
140520 GCCTTTTCTT
Statistics
Matches: 551, Mismatches: 55, Indels: 51
0.84 0.08 0.08
Matches are distributed among these distances:
207 3 0.01
209 17 0.03
210 95 0.17
211 9 0.02
212 4 0.01
213 5 0.01
214 7 0.01
215 86 0.16
216 278 0.50
217 9 0.02
218 1 0.00
219 5 0.01
220 1 0.00
221 2 0.00
222 26 0.05
224 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (215 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
AAAGAGCAGGATGCTTTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGA
GCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGCTGGCACATCCCAGTCCTCAAAGAGTAG
GACACTCTCTCCTTTCACCC
Found at i:140235 original size:61 final size:61
Alignment explanation
Indices: 140135--140323 Score: 256
Period size: 61 Copynumber: 3.1 Consensus size: 61
140125 AGCAGGACGC
140135 CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTT-T
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT
* *
140195 CTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
* * * * * * * *
140256 CCTTTCAAAGCCCACACAGGTTGGTTGCACTTCCCAGTCCTCAAAGAGTAGGACGCTCTCT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
*
140317 CCTTTCA
1 CTTTTCA
140324 CCCTTTAGTC
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
60 9 0.08
61 106 0.92
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (61 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
Found at i:140261 original size:155 final size:155
Alignment explanation
Indices: 139979--140262 Score: 444
Period size: 155 Copynumber: 1.8 Consensus size: 155
139969 GATGCTTTCT
139979 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTT
* *
140044 TCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAGAGTAGGACACTCTCTCCTTTCAC
66 TCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAAAGCAGGACACTCTCTCCTTTCAC
140109 CCTTTAGTCCTCAAAGAGCAGGACG
131 CCTTTAGTCCTCAAAGAGCAGGACG
* *
140134 CCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCCTTT-TCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCT
* * ** * ** *
140198 TTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAGGATGCTTTCTCCTTTCA
65 TTCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAAAGCAGGACACTCTCTCCTTTCA
140263 AAGCCCACAC
Statistics
Matches: 116, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
155 112 0.97
156 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (155 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTT
TCAAAGCCCACAAAAGTTGCTGGCACATCCCAGTCCTCAAAAAGCAGGACACTCTCTCCTTTCAC
CCTTTAGTCCTCAAAGAGCAGGACG
Found at i:140360 original size:155 final size:152
Alignment explanation
Indices: 140169--140457 Score: 413
Period size: 155 Copynumber: 1.9 Consensus size: 152
140159 GGCATTTTCC
*
140169 AGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTC
1 AGTCCTCAAAGAGCAGGATGCC---TCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTC
* * * *
140234 CTCAAAAAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAGGTTGGTTGCACTTCCCAGTCCTCA
63 CTCAAAAAGCAGGACGC---CT--TTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCA
*
140299 AAGAGTAGGACGCTCTCTCCTTTCACCCTTT
122 AAGAGCAGGACGCTCTCTCCTTTCACCCTTT
140330 AGTCCTCAAAGAGCAGGATG-C-CTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 AGTCCTCAAAGAGCAGGATGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
*
140392 AAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
66 AAAAAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
140457 A
131 A
140458 TGCCTTCTCA
Statistics
Matches: 121, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
149 43 0.36
150 3 0.02
152 2 0.02
155 47 0.39
156 5 0.04
160 1 0.01
161 20 0.17
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (152 bp):
AGTCCTCAAAGAGCAGGATGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
AAAAAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGG
ACGCTCTCTCCTTTCACCCTTT
Found at i:140414 original size:55 final size:55
Alignment explanation
Indices: 140330--140526 Score: 268
Period size: 55 Copynumber: 3.5 Consensus size: 55
140320 TTCACCCTTT
* *
140330 AGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAATTTCC
* *
140385 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAATTTCC
* * * *
140440 AATCCTCAAAGAGCAGGATGCCTTCTCATTTTAAAGCCCACACAAGTTGTTGGCAACTTCC
1 AGTCCTCAAAGAGCAGGA---C-GC-C-TTTTAAAGCCCACACAAGTTGGTGGCAATTTCC
140501 AGTCCTCAAAGAGCAGGACGCCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTT
140527 CTTTTGGATT
Statistics
Matches: 125, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
55 73 0.58
56 1 0.01
57 1 0.01
58 2 0.02
59 1 0.01
60 1 0.01
61 46 0.37
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAATTTCC
Found at i:140741 original size:13 final size:13
Alignment explanation
Indices: 140725--140754 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
140715 ATACATTGTT
140725 CATTATATCGATA
1 CATTATATCGATA
140738 CATTATATCGATA
1 CATTATATCGATA
140751 CATT
1 CATT
140755 CTAGGTTTGC
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:0.37, C:0.17, G:0.07, T:0.40
Consensus pattern (13 bp):
CATTATATCGATA
Found at i:140795 original size:20 final size:20
Alignment explanation
Indices: 140770--140819 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
140760 TTTGCCCAGA
*
140770 TGTATCGATAAATT-TTGCAT
1 TGTATCGATAAATTGCT-CAT
*
140790 TGTATCGATACATTGCTCAT
1 TGTATCGATAAATTGCTCAT
140810 TGTATCGATA
1 TGTATCGATA
140820 CATTCAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (20 bp):
TGTATCGATAAATTGCTCAT
Found at i:143226 original size:28 final size:27
Alignment explanation
Indices: 143177--143247 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
143167 TTTTACAATT
* * *
143177 AGGGATACTCTAACGCCGTTATTTCATCG
1 AGGGATACTCCAACCCCATTATTTC-T-G
143206 A-GGATACTCCAACCCCATTATTTCTG
1 AGGGATACTCCAACCCCATTATTTCTG
143232 AGGGGATACTCCAACC
1 A-GGGATACTCCAACC
143248 TCGGCTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 33 0.89
29 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (27 bp):
AGGGATACTCCAACCCCATTATTTCTG
Found at i:143401 original size:79 final size:80
Alignment explanation
Indices: 143202--143412 Score: 239
Period size: 83 Copynumber: 2.6 Consensus size: 80
143192 CCGTTATTTC
* * * * *
143202 ATCGAGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCTCGGCTTTATATTTAAAAA
1 ATCGAGGGTACTCCAACCCCGTTATTTCT-CGGGGATACTCCAACCCCGGCTTTATATCTAAAAA
* *
143267 TGTTGTTTTTTTTTCATA
65 TATTG--TATTTTTCATA
* *
143285 ATCGAGGGTACTCCAACCCTGTTATTTC-CGAAAGGATACTCCAACCCCGGCTTTATATCT-AAA
1 ATCGAGGGTACTCCAACCCCGTTATTTCTCG--GGGATACTCCAACCCCGGCTTTATATCTAAAA
143348 ATATTG-ATTTTTCATA
64 ATATTGTATTTTTCATA
* * *
143364 ATCGGGGGTACTCCAACCCCGTTATGTCATCGGGGATACTCCAATCCCG
1 ATCGAGGGTACTCCAACCCCGTTATTTC-TCGGGGATACTCCAACCCCG
143413 TTATTTCTGA
Statistics
Matches: 110, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
79 49 0.45
81 3 0.03
82 8 0.07
83 50 0.45
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.33
Consensus pattern (80 bp):
ATCGAGGGTACTCCAACCCCGTTATTTCTCGGGGATACTCCAACCCCGGCTTTATATCTAAAAAT
ATTGTATTTTTCATA
Found at i:143426 original size:28 final size:28
Alignment explanation
Indices: 143367--143437 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
143357 TTTCATAATC
* *
143367 GGGGGTACTCCAACCCCGTTATGTCATC
1 GGGGATACTCCAACCCCGTTATGTCATA
* *
143395 GGGGATACTCCAATCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTATGTCAT-A
*
143423 GGGGATACTTCAACC
1 GGGGATACTCCAACC
143438 TCGATTTTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 1 0.03
28 35 0.97
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATGTCATA
Done.