Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold207
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: 1047254
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 71453 characters in sequence are not A, C, G, or T
File 2 of 6
Found at i:153828 original size:26 final size:26
Alignment explanation
Indices: 153742--153828 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
153732 CTCCTTTCGT
153742 CCTTT-AGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
153767 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
153796 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
153822 CCTTTCA
1 CCTTTCA
153829 AAGCCCACAC
Statistics
Matches: 44, Mismatches: 12, Indels: 11
0.66 0.18 0.16
Matches are distributed among these distances:
25 8 0.18
26 11 0.25
27 6 0.14
28 6 0.14
29 10 0.23
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.21, T:0.22
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:153845 original size:259 final size:259
Alignment explanation
Indices: 153386--154155 Score: 1101
Period size: 259 Copynumber: 2.9 Consensus size: 259
153376 CTTCTCCTTC
*
153386 CACTTCCCAATCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 CACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
**
153451 TCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
66 TCCTCAAAGAGCAGGACGCTCTCTCCTTTCGTCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
* *
153516 AGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACA
131 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
* * * *
153581 AGTTGGTGGCACCTTTCAGTCTTCAAAGAGTAGGATGCCTTTTAAAGCTCACACAAGTTGGTGG
196 AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGG
*
153645 CACTTCCCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
1 CACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
*
153710 TCCTCAAAGAGAAGGACGCTCTCTCCTTTCGTCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
66 TCCTCAAAGAGCAGGACGCTCTCTCCTTTCGTCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
153775 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
131 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
153840 AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGG
196 AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
153904 CACTTCCCAATCCTCAAAAAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAG
1 CACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
* * * * *
153969 TCTTCAAAAAGCAGGACGCCTCTTAAAGCCCACACTAGTTGGTGGCATTTTCCAGTCCTCAAAGA
66 TCCTCAAAGAGCAGGACG-CTC-T------CTC-CT--TTCGT--C-CTTT--AGTCCTCAAAGA
* * * *
154034 GTAGGACGCTTTTCAAAGCCCGCACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGC
115 GCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGA--C
*
154098 TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
177 --GC-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
154156 CGCATTTTCT
Statistics
Matches: 461, Mismatches: 27, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
259 323 0.70
260 3 0.01
261 1 0.00
267 2 0.00
268 2 0.00
270 4 0.01
272 1 0.00
273 3 0.01
274 3 0.01
275 65 0.14
277 1 0.00
279 1 0.00
280 4 0.01
281 48 0.10
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (259 bp):
CACTTCCCAATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAG
TCCTCAAAGAGCAGGACGCTCTCTCCTTTCGTCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAA
AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACA
AGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATACCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:154289 original size:42 final size:42
Alignment explanation
Indices: 154200--154289 Score: 94
Period size: 42 Copynumber: 2.1 Consensus size: 42
154190 GCACTTTTTA
* * *
154200 GTCCTCAAAGAGCAGGATGCACTTTCTTTTCCTCTTTCTTTC
1 GTCCTCAAAGAGCAGGACGCACTTTCTTTCCCTCTTTCCTTC
* * *
154242 ATCCTCAAAGAGCAGGACGTA-TTTCATTTCCCTTTTTCCCTT-
1 GTCCTCAAAGAGCAGGACGCACTTTC-TTTCCCTCTTT-CCTTC
154284 GTCCTC
1 GTCCTC
154290 GAAAAATGGG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.10
42 32 0.82
43 3 0.08
ACGTcount: A:0.18, C:0.30, G:0.13, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTCTTTCCCTCTTTCCTTC
Found at i:154375 original size:120 final size:116
Alignment explanation
Indices: 154196--154411 Score: 267
Period size: 120 Copynumber: 1.8 Consensus size: 116
154186 GGTGGCACTT
* * *
154196 TTTAGTCCTCAAAGAGCAGGATGCACTTTCTTTTCCTCTTTCTTTCATCCTCAAAGAGCAGGACG
1 TTTAGTCCTCAAAGAGCAGGA-GCACTTTCTTTTCCTCTTCCTTTCATCCTCAAAGAGCAAGACC
154261 TATTTCATTTCCCTTTTTCCCTTGTCCTCGAAAAATGGGATGTACTCTTTTTCAC
65 TATTTCA-TTCCC-TTTTCCCTTGTCCTC-AAAAATGGGATGTACTCTTTTTCAC
** *
154316 TTTA-TCCTC-AAGAAGCAGGA-CACTTTCCTTTTCTTCTCTTCCTTTTGTCCTCAAGGAGCAAG
1 TTTAGTCCTCAAAG-AGCAGGAGCACTTT-CTTTTC--CTCTTCCTTTCATCCTCAAAGAGCAAG
* *
154378 ACCTATTTCATTCTCTTTTCCTTTGTCCTCAAAA
62 ACCTATTTCATTCCCTTTTCCCTTGTCCTCAAAA
154412 GGTGGGACAC
Statistics
Matches: 84, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
117 10 0.12
118 23 0.27
119 16 0.19
120 35 0.42
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (116 bp):
TTTAGTCCTCAAAGAGCAGGAGCACTTTCTTTTCCTCTTCCTTTCATCCTCAAAGAGCAAGACCT
ATTTCATTCCCTTTTCCCTTGTCCTCAAAAATGGGATGTACTCTTTTTCAC
Found at i:155114 original size:19 final size:19
Alignment explanation
Indices: 155090--155139 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
155080 AAACCGTAAA
155090 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
155109 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
*
155128 TGTTTCGATACA
1 TGTATCGATACA
155140 ATGTGTCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:155189 original size:13 final size:13
Alignment explanation
Indices: 155171--155196 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
155161 GCCAAGAAAA
155171 TGTATCGATACAT
1 TGTATCGATACAT
155184 TGTATCGATACAT
1 TGTATCGATACAT
155197 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:157871 original size:28 final size:29
Alignment explanation
Indices: 157830--157886 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
157820 TACCAATTTT
*
157830 TTACAATCGAGGATACTACAACCTCGTTA
1 TTACAATCGAGGATACTACAACCCCGTTA
* *
157859 TTAC-ATCGGGGATACTCCAACCCCGTTA
1 TTACAATCGAGGATACTACAACCCCGTTA
157887 CCTCCGAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
TTACAATCGAGGATACTACAACCCCGTTA
Found at i:158096 original size:107 final size:108
Alignment explanation
Indices: 157944--158359 Score: 420
Period size: 107 Copynumber: 3.9 Consensus size: 108
157934 TTCCACAATC
* *
157944 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
*
158009 CCTCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA
* * * *
158052 GGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAATTTTTCACAATCGTGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
** * * * ** * *
158116 CCCCGGTT-TTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
66 CCCC-GTTATTA-CATCGGGGATACTCCAA--CCCCGTTACCTCCGA
*
158155 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
* *
158220 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCCCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA
* * * *** * * * *
158263 GAGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
* *** *
158327 CCCCGTTATTTCCGAGGGGATACTCCAATCCCG
66 CCCCGTTATTACATCGGGGATACTCCAACCCCG
158360 ATTTTATTTC
Statistics
Matches: 247, Mismatches: 48, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
103 30 0.12
104 44 0.18
105 9 0.04
106 9 0.04
107 99 0.40
108 56 0.23
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (108 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
CCCCGTTATTACATCGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:158163 original size:159 final size:159
Alignment explanation
Indices: 157575--158145 Score: 968
Period size: 159 Copynumber: 3.6 Consensus size: 159
157565 GTTCATAATC
* * **
157575 GGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCC-ACAATCGGGGATACTCCA
**
157639 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTTT
64 ACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTAC
157704 ATCGGGGATACTCCAACCCCGTTACCTCCGA
129 ATCGGGGATACTCCAACCCCGTTACCTCCGA
*
157735 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
* *
157800 TCCGATTTTATTTCCAAAAATACCAATTTTTTACAATCGAGGATACTACAACCTCGTTATTACAT
66 TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACAT
157865 CGGGGATACTCCAACCCCGTTACCTCCGA
131 CGGGGATACTCCAACCCCGTTACCTCCGA
157894 -GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
157958 TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACAT
66 TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACAT
158023 CGGGGATACTCCAACCCCGTTACCTCCGA
131 CGGGGATACTCCAACCCCGTTACCTCCGA
* * *
158052 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGTGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
* * *
158117 CCCGGTTTTATTTTC-AAAACACCAATTTT
66 TCCGATTTTATTTCCAAAAACACCAATTTT
158146 CCTTTAATCG
Statistics
Matches: 391, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
158 169 0.43
159 181 0.46
160 40 0.10
161 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.30
Consensus pattern (159 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
TCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACAT
CGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:158206 original size:211 final size:210
Alignment explanation
Indices: 157894--158331 Score: 698
Period size: 211 Copynumber: 2.1 Consensus size: 210
157884 TTACCTCCGA
*
157894 GGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACT
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACT
157959 CCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
66 CCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
* ** *
158024 GGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACT
131 GGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAACACT
*
158089 AATTTTTCACAATCG
196 AATTTCTCACAATCG
* * **
158104 TGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAA
1 GGGATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTCC-ACAATCGGGGATACTCCAA
* *
158168 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCA
64 CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACA
*
158233 TCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAATA
129 TCGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAACA
* * * *
158298 TTGATTTCTCATAATTG
194 CTAATTTCTCACAATCG
158315 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
158332 TTATTTCCGA
Statistics
Matches: 208, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
209 1 0.00
210 39 0.19
211 168 0.81
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.30
Consensus pattern (210 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGGGGATACTCCAACT
CCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTACAACCTCGTTATTACATC
GGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAACACT
AATTTCTCACAATCG
Found at i:158232 original size:31 final size:28
Alignment explanation
Indices: 158204--158280 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
158194 ATTTTTCACA
*
158204 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
158232 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
***
158260 CGAGAGGATACTCCAACCCCG
1 ATCGAGGATACTCCAACCCCG
158281 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:158341 original size:79 final size:79
Alignment explanation
Indices: 158234--158438 Score: 259
Period size: 79 Copynumber: 2.6 Consensus size: 79
158224 GTTATTTCAT
** *
158234 CGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCC-AAATCA
* * *
158298 TTGATTTCTCATAAT
65 TTAATTTCTCACAAC
* * * *
158313 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATCAT
*
158378 TAATTTTTCACAAC
66 TAATTTCTCACAAC
* ***
158392 CGGGGATACTCCAACCCCGTTGTTTTTAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
158439 TTATTATCTC
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 3 0.03
79 105 0.97
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAATCAT
TAATTTCTCACAAC
Found at i:158459 original size:79 final size:78
Alignment explanation
Indices: 158234--158467 Score: 254
Period size: 79 Copynumber: 2.9 Consensus size: 78
158224 GTTATTTCAT
** * * *
158234 CGGGGATACTCCAACCCCGTTACCTCCGAGAGGATACTCCAACCCCGACTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTT-CAAAATAT
* * *
158299 TGATTTCTCATAAT
65 TAATTTCTCACAAC
* * * **
158313 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCAAAAT-AT
*
158378 TAATTTTTCACAAC
65 TAATTTCTCACAAC
* ** *
158392 CGGGGATACTCCAACCCCGTTGTTTTTAAGGGGATACTCCAACCCCG-TTATTATCTCAAAAATA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATT-TTATTTC-AAAATA
158456 TTAAATTTCTCA
64 TT-AATTTCTCA
158468 TCGGGACATA
Statistics
Matches: 129, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 6 0.05
79 112 0.87
80 11 0.09
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCAAAATATT
AATTTCTCACAAC
Found at i:160439 original size:49 final size:50
Alignment explanation
Indices: 160311--160443 Score: 180
Period size: 50 Copynumber: 2.7 Consensus size: 50
160301 TTCCACAATT
* * *
160311 TGTATCGATACATCCTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCAATGTATCGATACATTCTGGCTTTTACCCAGA
* * * *
160361 TGTATCGATACATTCTTCACTTTATCGATATATTCTGGCTTTTACCTAGA
1 TGTATCGATACATTCTTCAATGTATCGATACATTCTGGCTTTTACCCAGA
160411 TGTAT-GATACATT-TCTCAATGTATCGATACATT
1 TGTATCGATACATTCT-TCAATGTATCGATACATT
160444 TAGGCATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
48 1 0.01
49 23 0.32
50 49 0.67
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCAATGTATCGATACATTCTGGCTTTTACCCAGA
Found at i:163042 original size:79 final size:79
Alignment explanation
Indices: 162798--163433 Score: 537
Period size: 79 Copynumber: 8.1 Consensus size: 79
162788 TTTAACCCCG
* * * * * *
162798 GTTTTATTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAATCCCGTTATTTTCGAGGGG
1 GTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
162863 ATACTCCAA-CCTC
66 ATACTCCAACCCTC
* * * * **
162876 GATCTTATTTCTATAACA-CTAATTTTTCACAATCGGAGATACTTTAA-CCCGTTATTTTCGAAG
1 G-TTTTATTTCTAAAACATC-AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAG
* *
162939 GGATATTCTAACCC-C
64 GGATACTCCAACCCTC
* * * *
162954 GATTTTATTTCTAAAACATCAATTTTCCACCATCGGGGATACTCAAACTCCGTTATTTTCGAGGG
1 G-TTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGG
* *
163019 GACACTCCAACCCTA
65 GATACTCCAACCCTC
* ** * *
163034 GTTTTATTTCCT-AAACA-CTAATTTTTTCACAATCAAGGATACTTCAACCCCGTTATTTTTGAA
1 GTTTTATTT-CTAAAACATC-AA-TTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAA
* *
163097 GAGATACTCCAACCCTA
63 GGGATACTCCAACCCTC
* * * * * * *
163114 GTTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCTAACCTCC-ATATTTTTGAAGA
1 GTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACC-CCGTTATTTTCGAAGG
*
163178 GATACTCTAACCC-C
65 GATACTCCAACCCTC
* * ** * *
163192 GGTTTTATTTCTAAAACA-CTGATCTTCCACAATCTAGGATACTCCAACCCCGTTATTTTTGAGG
1 -GTTTTATTTCTAAAACATC-AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAG
*
163256 GGATACTCGAACCC-C
64 GGATACTCCAACCCTC
* * * **
163271 GATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGG-TATTCCAACCCTATTA-TTTCGGAA
1 G-TTTTATTTCTAAAACATCAATTTTCCACAATC-GGGGATACTCCAACCCCGTTATTTTC-GAA
** *
163334 AAGATACTTCAACCC-C
63 GGGATACTCCAACCCTC
* * * * * *
163350 GGTATTATTTCTAAAACATCAATTTTTCACCATCGGAGATACTCCAACCCCATTA-TTTCTGAGG
1 -GTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTC-GAAG
163414 GGATACTCCAACCCT-
64 GGATACTCCAACCCTC
163429 GTTTT
1 GTTTT
163434 TATCTCCAAA
Statistics
Matches: 454, Mismatches: 82, Indels: 44
0.78 0.14 0.08
Matches are distributed among these distances:
78 80 0.18
79 302 0.67
80 71 0.16
81 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
GTTTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAAGGG
ATACTCCAACCCTC
Found at i:163290 original size:158 final size:157
Alignment explanation
Indices: 162791--163436 Score: 642
Period size: 158 Copynumber: 4.1 Consensus size: 157
162781 AAAAAATTTT
* * * * **
162791 AACCCCGGTTTTATTTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAATCCCGTTATTTT
1 AACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAA-CCCCATATTTT
* * * * * * * **
162856 CGAGGGGATACTCCAACCTCGATCTTATTTCTATAACACTAATTTTTCACAATCGGAGATACTTT
65 CGAAGAGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCAGAGATACTCC
* * *
162921 AA-CCCGTTATTTTCGAAGGGATATTCT
130 AACCCCGTTATTTTTGAAGGGATACTCC
* * * **
162948 AACCCCGATTTTATTTCTAAAACATCAATTTTCCACCATCGGGGATACTCAAACTCCGTTATTTT
1 AACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAAC-CCCATATTTT
* * * **
163013 CGAGGGGACACTCCAACCCTAGTTTTATTTCCT-AAACACTAATTTTTTCACAATCA-AGGATAC
65 CGAAGAGATACTCCAACCCCGGTTTTATTT-CTAAAACACTAA-TTTTTCACAATCAGA-GATAC
* *
163076 TTCAACCCCGTTATTTTTGAAGAGATACTCC
127 TCCAACCCCGTTATTTTTGAAGGGATACTCC
* * * *
163107 AA-CCCTAGTTTTATTTCTAAAACATCGATTTTCTACCATCGGGGATACTCTAACCTCCATATTT
1 AACCCCGA-TTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACC-CCATATTT
* * * * *
163171 TTGAAGAGATACTCTAACCCCGGTTTTATTTCTAAAACACTGATCTTCCACAATCTAG-GATACT
64 TCGAAGAGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATC-AGAGATACT
* *
163235 CCAACCCCGTTATTTTTGAGGGGATACTCG
128 CCAACCCCGTTATTTTTGAAGGGATACTCC
* * *
163265 AACCCCGATTTTATTTCTAAAACATCGATTTTCCATAATCAGGGG-TATTCCAACCCTAT-TATT
1 AACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATC-GGGGATACTCCAACCCCATAT-TT
* * * * *
163328 TCGGAAAAGATACTTCAACCCCGGTATTATTTCTAAAACA-TCAATTTTTCACCATCGGAGATAC
64 TC-GAAGAGATACTCCAACCCCGGTTTTATTTCTAAAACACT-AATTTTTCACAATCAGAGATAC
* * *
163392 TCCAACCCCATTATTTCTGAGGGGATACTCC
127 TCCAACCCCGTTATTTTTGAAGGGATACTCC
* *
163423 AACCCTGTTTTTAT
1 AACCCCGATTTTAT
163437 CTCCAAAATA
Statistics
Matches: 411, Mismatches: 62, Indels: 31
0.82 0.12 0.06
Matches are distributed among these distances:
156 2 0.00
157 97 0.24
158 199 0.48
159 113 0.27
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (157 bp):
AACCCCGATTTTATTTCTAAAACATCGATTTTCCACAATCGGGGATACTCCAACCCCATATTTTC
GAAGAGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCAGAGATACTCCA
ACCCCGTTATTTTTGAAGGGATACTCC
Found at i:170654 original size:20 final size:21
Alignment explanation
Indices: 170629--170679 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
170619 CCCCTATTTC
170629 TATCGATACATATCA-A-AATG
1 TATCGATACATA-CACACAATG
170649 TATCGATACA-ACACACAATG
1 TATCGATACATACACACAATG
*
170669 TATCAATACAT
1 TATCGATACAT
170680 CTTTAAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 23 0.85
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (21 bp):
TATCGATACATACACACAATG
Found at i:172871 original size:38 final size:39
Alignment explanation
Indices: 172829--172903 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
172819 TGTTTAATTA
*
172829 AGAAAAATAAGAA-TTGCATAACTTATTCTCTAGGTTAT
1 AGAAAAATAAGAACTTGCATAACTGATTCTCTAGGTTAT
172867 AGAAAAATAAGAACTTGCATAACTGATTCTCTAGGTT
1 AGAAAAATAAGAACTTGCATAACTGATTCTCTAGGTT
172904 TTGTATGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 13 0.37
39 22 0.63
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (39 bp):
AGAAAAATAAGAACTTGCATAACTGATTCTCTAGGTTAT
Found at i:176589 original size:39 final size:36
Alignment explanation
Indices: 176546--176657 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 36
176536 TTTTAATACG
176546 TATTTGGTGTTATATGAATTTGATTGATCTTTTGATAAA
1 TATTTGGT-TTATATGAATTTGATTGATCTTTTGAT--A
* *
176585 TATTTGGTTTTATATGAATTTAATTGATTTTTTTG-TA
1 TATTTGG-TTTATATGAATTTGATTGA-TCTTTTGATA
* * *
176622 TATTTGGATTTATATGATTTTGAATGATCTTATGAT
1 TATTTGG-TTTATATGAATTTGATTGATCTTTTGAT
176658 CTTCTAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
36 5 0.08
37 25 0.40
39 25 0.40
40 7 0.11
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (36 bp):
TATTTGGTTTATATGAATTTGATTGATCTTTTGATA
Found at i:176634 original size:37 final size:37
Alignment explanation
Indices: 176546--176657 Score: 113
Period size: 39 Copynumber: 2.9 Consensus size: 37
176536 TTTTAATACG
*
176546 TATTTGGTGTTATATGAATTTGATTGATCTTTTGATAAA
1 TATTTGGT-TTATATGAATTTAATTGATCTTTTGAT-AA
*
176585 TATTTGGTTTTATATGAATTTAATTGATTTTTTTG-T-A
1 TATTTGG-TTTATATGAATTTAATTGA-TCTTTTGATAA
* *
176622 TATTTGGATTTATATGATTTTGAA-TGATCTTATGAT
1 TATTTGG-TTTATATGAATTT-AATTGATCTTTTGAT
176658 CTTCTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
36 5 0.08
37 24 0.38
38 2 0.03
39 25 0.40
40 7 0.11
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (37 bp):
TATTTGGTTTATATGAATTTAATTGATCTTTTGATAA
Found at i:176802 original size:33 final size:33
Alignment explanation
Indices: 176764--176831 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
176754 TGGGTTTTTC
*
176764 TAAAATGTATCGATATTTTGAATAATATATCAA
1 TAAAATGTATCGATACTTTGAATAATATATCAA
* *
176797 TAAAATGTATTGATACTTTGAATAATCTATCAA
1 TAAAATGTATCGATACTTTGAATAATATATCAA
176830 TA
1 TA
176832 TATTTCCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (33 bp):
TAAAATGTATCGATACTTTGAATAATATATCAA
Found at i:177764 original size:20 final size:20
Alignment explanation
Indices: 177741--177804 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
177731 ATTTGTATTG
177741 ATACATATCAAAATGTATCA
1 ATACATATCAAAATGTATCA
177761 ATACA-A-CACACAATGTATCA
1 ATACATATCA-A-AATGTATCA
* * *
177781 ATACATCTCTAAATGTATTA
1 ATACATATCAAAATGTATCA
177801 ATAC
1 ATAC
177805 TTTGAGCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 2 0.05
20 31 0.84
21 1 0.03
22 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.05, T:0.30
Consensus pattern (20 bp):
ATACATATCAAAATGTATCA
Found at i:181883 original size:33 final size:32
Alignment explanation
Indices: 181830--181893 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
181820 ACAAACTATG
181830 TATCGATACATTTCTTCATGTATCGATACAATT
1 TATCGATACATTTC-TCATGTATCGATACAATT
*
181863 TATCGATACATTGTAC-CATGTATTGATACAA
1 TATCGATACATT-T-CTCATGTATCGATACAA
181894 ATAGTGATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (32 bp):
TATCGATACATTTCTCATGTATCGATACAATT
Found at i:181939 original size:18 final size:19
Alignment explanation
Indices: 181916--181958 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
181906 TAGCTACTGC
181916 CAATTT-CATGTATCGATA
1 CAATTTGCATGTATCGATA
181934 CAATTTGGCCATGTATCGATA
1 CAATTT-G-CATGTATCGATA
181955 CAAT
1 CAAT
181959 GTATCGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (19 bp):
CAATTTGCATGTATCGATA
Found at i:181962 original size:13 final size:13
Alignment explanation
Indices: 181944--181970 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
181934 CAATTTGGCC
181944 ATGTATCGATACA
1 ATGTATCGATACA
181957 ATGTATCGATACA
1 ATGTATCGATACA
181970 A
1 A
181971 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:183742 original size:20 final size:19
Alignment explanation
Indices: 183701--183740 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 19
183691 TTCTGTTGAT
183701 GATTTTGATGAAAAATGAAA
1 GATTTTGATGAAAAAT-AAA
183721 GATTTTGAAGTGAAAAATAA
1 GATTTTG-A-TGAAAAATAA
183741 GAAATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
22 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (19 bp):
GATTTTGATGAAAAATAAA
Found at i:183885 original size:13 final size:13
Alignment explanation
Indices: 183867--183895 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
183857 AAATAGTACC
183867 CAATGTATCGATA
1 CAATGTATCGATA
183880 CAATGTATCGATA
1 CAATGTATCGATA
183893 CAA
1 CAA
183896 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:189092 original size:20 final size:20
Alignment explanation
Indices: 189064--189138 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
189054 TTTTACCTAG
189064 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTTA
* **
189084 ATATATCGATACA-TTCATA
1 ATGTATCGATACATTTTTTA
* * *
189103 CATGTATCGATATATTCTTCA
1 -ATGTATCGATACATTTTTTA
189124 ATGTATCGATACATT
1 ATGTATCGATACATT
189139 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.09
20 37 0.86
21 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTA
Found at i:193619 original size:13 final size:13
Alignment explanation
Indices: 193601--193631 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
193591 ACATTTCTTC
193601 ATGTATCGATACA
1 ATGTATCGATACA
193614 ATGTATCGATACA
1 ATGTATCGATACA
*
193627 TTGTA
1 ATGTA
193632 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:193619 original size:33 final size:33
Alignment explanation
Indices: 193581--193647 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
193571 GTTACAAGCT
193581 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
193614 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
193647 A
1 A
193648 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:193716 original size:13 final size:13
Alignment explanation
Indices: 193698--193758 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
193688 CAATTTGGCC
193698 ATGTATCGATACA
1 ATGTATCGATACA
193711 ATGTATCGATACA
1 ATGTATCGATACA
* *
193724 AT-T-T-G--GCC
1 ATGTATCGATACA
193732 ATGTATCGATACA
1 ATGTATCGATACA
193745 ATGTATCGATACA
1 ATGTATCGATACA
193758 A
1 A
193759 AGCAGCATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
8 3 0.08
9 1 0.03
10 2 0.05
11 2 0.05
12 1 0.03
13 30 0.77
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:193720 original size:34 final size:34
Alignment explanation
Indices: 193677--193758 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
193667 TGCCAGTTTC
193677 ATGTATCGATACAATTTGGCCATGTATCGATACA
1 ATGTATCGATACAATTTGGCCATGTATCGATACA
193711 ATGTATCGATACAATTTGGCCATGTATCGATACA
1 ATGTATCGATACAATTTGGCCATGTATCGATACA
193745 ATGTATCGATACAA
1 ATGTATCGATACAA
193759 AGCAGCATGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (34 bp):
ATGTATCGATACAATTTGGCCATGTATCGATACA
Found at i:197521 original size:93 final size:93
Alignment explanation
Indices: 197388--197608 Score: 219
Period size: 93 Copynumber: 2.4 Consensus size: 93
197378 AGGCGAAACC
* * *** * * *
197388 TTAGTTAAGAAAATGATCAAGGCAAAACCATCAGTAGAAAAAATGACTAGGGCAAAAGC-TAGTA
1 TTAGTTAAGAAAATGACCTAGATGAAACCATCAGTAGAAAAAATAACTAAGACAAAA-CATAGTA
* ** * * *
197452 GTTAAAGGAAATGATTAGGATGAAACTAT
65 GTAAAAAAAAATGACTAGGATGAAACCAA
* * * * *
197481 TTAGTTAAGAAAATGACCTAGATGAAACGATCGGTTGAAAAGATAACTAAGACAAAACATATTAG
1 TTAGTTAAGAAAATGACCTAGATGAAACCATCAGTAGAAAAAATAACTAAGACAAAACATAGTAG
197546 TAAAAAAAAATGACTAGGATGAAACCAA
66 TAAAAAAAAATGACTAGGATGAAACCAA
* * * *
197574 TTAGTTGAGAAAATGACTTGGATGAAACCCTCAGT
1 TTAGTTAAGAAAATGACCTAGATGAAACCATCAGT
197609 CAAATAGATA
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
92 1 0.01
93 101 0.99
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (93 bp):
TTAGTTAAGAAAATGACCTAGATGAAACCATCAGTAGAAAAAATAACTAAGACAAAACATAGTAG
TAAAAAAAAATGACTAGGATGAAACCAA
Found at i:197577 original size:32 final size:31
Alignment explanation
Indices: 197541--197602 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
197531 GACAAAACAT
197541 ATTAGTAAAAAAAAATGACTAGGATGAAACCA
1 ATTAGT-AAAAAAAATGACTAGGATGAAACCA
** * *
197573 ATTAGTTGAGAAAATGACTTGGATGAAACC
1 ATTAGTAAAAAAAATGACTAGGATGAAACC
197603 CTCAGTCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (31 bp):
ATTAGTAAAAAAAATGACTAGGATGAAACCA
Found at i:197618 original size:93 final size:93
Alignment explanation
Indices: 197460--197823 Score: 245
Period size: 92 Copynumber: 3.9 Consensus size: 93
197450 TAGTTAAAGG
* * * * * * * *
197460 AAATGATTAGGATGAAACTATTTAGTTAAGAAAATGACCTAGATGAAACGATCGGTTGAAAAGAT
1 AAATGATTAGGATGAAACCAATTAGTTGAGAAAATGACTTGGATGAAACCATCAGTTCAAAAGAT
197525 AAC-TAA-GACAAAACATATTAGTAAAAAA
66 -ACTTAATG-CAAAACATATTAGTAAAAAA
* *
197553 AAATGACTAGGATGAAACCAATTAGTTGAGAAAATGACTTGGATGAAACCCTCAG-TCAAATAGA
1 AAATGATTAGGATGAAACCAATTAGTTGAGAAAATGACTTGGATGAAACCATCAGTTCAAA-AGA
* * * *
197617 TACTTAATGCGAAACCTATTAGTCAAAGA
65 TACTTAATGCAAAACATATTAGTAAAAAA
* * *
197646 AAATGATTAGG-TGAAACCAATGAGTTGA-AAAGATGACTGGGAT-AAGACCATC-GATCAAAAA
1 AAATGATTAGGATGAAACCAATTAGTTGAGAAA-ATGACTTGGATGAA-ACCATCAGTTC-AAAA
* ** * * *
197707 GATGAC-GAGGGCAAAAGACATTAGT-CAAAA
63 GAT-ACTTAATGCAAAACATATTAGTAAAAAA
* * * * *
197737 AAATGAGTAAGGCA--AAACCAATTAGTTAAGAGAATG-TTTGGGATGAAACCATC-GATTGAAA
1 AAATGA-TTAGG-ATGAAACCAATTAGTTGAGAAAATGACTT-GGATGAAACCATCAG-TTCAAA
*
197798 AGATGACTATAA--CAAAACTTATTAGT
62 AGAT-ACT-TAATGCAAAACATATTAGT
197824 CAAGAAAATA
Statistics
Matches: 214, Mismatches: 40, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
91 16 0.07
92 107 0.50
93 89 0.42
94 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.23
Consensus pattern (93 bp):
AAATGATTAGGATGAAACCAATTAGTTGAGAAAATGACTTGGATGAAACCATCAGTTCAAAAGAT
ACTTAATGCAAAACATATTAGTAAAAAA
Found at i:197704 original size:92 final size:93
Alignment explanation
Indices: 197460--197709 Score: 226
Period size: 93 Copynumber: 2.7 Consensus size: 93
197450 TAGTTAAAGG
* * * * * * * * **
197460 AAATGATTAGGATGAAACTATTTAGTTAAGAAAATGACCT-AGATGAAACGATCGGTTGAAAAGA
1 AAATGACTAGGATGAAACCAATGAGTTGAGAAAATGA-CTGGGATGAAACCATCAGTCAAAAAGA
*
197524 TAAC-TAA-GACAAAACATATTAGTAAAAAA
65 T-ACTTAATG-CGAAACATATTAGTAAAAAA
* * * *
197553 AAATGACTAGGATGAAACCAATTAGTTGAGAAAATGACTTGGATGAAACCCTCAGTCAAATAGAT
1 AAATGACTAGGATGAAACCAATGAGTTGAGAAAATGACTGGGATGAAACCATCAGTCAAAAAGAT
* * *
197618 ACTTAATGCGAAACCTATTAGTCAAAGA
66 ACTTAATGCGAAACATATTAGTAAAAAA
*
197646 AAATGATTAGG-TGAAACCAATGAGTTGA-AAAGATGACTGGGAT-AAGACCATC-GATCAAAAA
1 AAATGACTAGGATGAAACCAATGAGTTGAGAAA-ATGACTGGGATGAA-ACCATCAG-TCAAAAA
197707 GAT
63 GAT
197710 GACGAGGGCA
Statistics
Matches: 131, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
91 6 0.05
92 44 0.34
93 80 0.61
94 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (93 bp):
AAATGACTAGGATGAAACCAATGAGTTGAGAAAATGACTGGGATGAAACCATCAGTCAAAAAGAT
ACTTAATGCGAAACATATTAGTAAAAAA
Found at i:197958 original size:30 final size:31
Alignment explanation
Indices: 197901--197958 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
197891 AAACTACTAG
*
197901 GATGAAAACAATTAGATAAAATGATGACCAA
1 GATGAAAACAATTAGAAAAAATGATGACCAA
*
197932 GATGAAATC-ATTAGTAAAAAAT-ATGAC
1 GATGAAAACAATTAG-AAAAAATGATGAC
197959 TAGGGTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.22
Consensus pattern (31 bp):
GATGAAAACAATTAGAAAAAATGATGACCAA
Found at i:198006 original size:93 final size:90
Alignment explanation
Indices: 197873--198124 Score: 262
Period size: 93 Copynumber: 2.7 Consensus size: 90
197863 GATTAAGGAA
* * *
197873 AAACTGATTAGTCAAAGTAAACTACTAGGATGAAAACAATTAGAT-AAAATGATGACCAAGATGA
1 AAACTTATTAGTCAAAG-AAAATACTAGGA-GAAACCAATTAGATCAAAA-GATGACCAAGATGA
*
197937 AA-TCATTAGTAAAAAATATGACTAGGGTG
63 AACT-ATTAGTAAAAAATATGACTAGGG-C
* * *
197966 AAACTTATTAGTCAAAGAAAATAACTAAAGAGAAACCAATTA-ATCAAGAAAATGACCACA-AAG
1 AAACTTATTAGTCAAAGAAAAT-ACT-AGGAGAAACCAATTAGATCAA-AAGATGACCA-AGATG
* *
198029 AAACTATTGGTCAAAAATATGACTAGGGC
62 AAACTATTAGTAAAAAATATGACTAGGGC
* *
198058 AAAATGTATTAGTCAAAGAAAATGACTAGGTGAAACCAATTAG-TCAAAAAGATGACCAAGATGA
1 AAACT-TATTAGTCAAAGAAAAT-ACTAGGAGAAACCAATTAGATC-AAAAGATGACCAAGATGA
198122 AAC
63 AAC
198125 CAACAGTTGA
Statistics
Matches: 134, Mismatches: 15, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
91 1 0.01
92 40 0.30
93 86 0.64
94 7 0.05
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (90 bp):
AAACTTATTAGTCAAAGAAAATACTAGGAGAAACCAATTAGATCAAAAGATGACCAAGATGAAAC
TATTAGTAAAAAATATGACTAGGGC
Found at i:198100 original size:31 final size:30
Alignment explanation
Indices: 197941--198151 Score: 99
Period size: 31 Copynumber: 6.9 Consensus size: 30
197931 AGATGAAATC
**
197941 ATTAGT-AAAAAATATGACTAGGGTGAAACTT
1 ATTAGTCAAAAAA-ATGACTA-GGTGAAACCA
* * *
197972 ATTAGTCAAAGAAAATAACTAAAGAGAAACCA
1 ATTAGTCAAA-AAAATGACT-AGGTGAAACCA
* * * *** *
198004 ATTAATCAAGAAAATGACCACAAAGAAA-CT
1 ATTAGTCAAAAAAATGACTA-GGTGAAACCA
* * ***
198034 ATTGGTCAAAAATATGACTAGG-GCAAAATGT
1 ATTAGTCAAAAAAATGACTAGGTG--AAACCA
198065 ATTAGTCAAAGAAAATGACTAGGTGAAACCA
1 ATTAGTCAAA-AAAATGACTAGGTGAAACCA
* * *
198096 ATTAGTCAAAAAGATGACCAAGATGAAACCA
1 ATTAGTCAAAAAAATGA-CTAGGTGAAACCA
* **
198127 A-CAGTTGAAAAAATGACTAGG-GAAA
1 ATTAGTCAAAAAAATGACTAGGTGAAA
198152 ACCTACCATT
Statistics
Matches: 137, Mismatches: 33, Indels: 23
0.71 0.17 0.12
Matches are distributed among these distances:
28 5 0.04
29 3 0.02
30 37 0.27
31 54 0.39
32 33 0.24
33 5 0.04
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.20
Consensus pattern (30 bp):
ATTAGTCAAAAAAATGACTAGGTGAAACCA
Found at i:198138 original size:93 final size:88
Alignment explanation
Indices: 197879--198152 Score: 250
Period size: 93 Copynumber: 3.0 Consensus size: 88
197869 GGAAAAACTG
* * * *
197879 ATTAGTCAAAGTAAACTACTAGGATGAAAACAATTAGAT-AAAATGATGACCAAGATGAAATCAT
1 ATTAGTCAAAG-AAAATACTAGG-TGAAACCAATTAG-TCAAAAAGATGACCAAGATGAAA-CAA
*
197943 TAGTAAAAAATATGACTAGGGTGAAACTT
62 TAGTAAAAAATATGACTA-GG-GAAAATT
* * * *
197972 ATTAGTCAAAGAAAATAACTAAAGAGAAACCAATTAATCAAGAAA-ATGACCACA-AAGAAACTA
1 ATTAGTCAAAGAAAAT-ACT-AGGTGAAACCAATTAGTCAA-AAAGATGACCA-AGATGAAAC-A
* * *
198035 TTGGTCAAAAATATGACTAGGGCAAAATGT
61 ATAGTAAAAAATATGACTAGGG-AAAAT-T
*
198065 ATTAGTCAAAGAAAATGACTAGGTGAAACCAATTAGTCAAAAAGATGACCAAGATGAAACCAACA
1 ATTAGTCAAAGAAAAT-ACTAGGTGAAACCAATTAGTCAAAAAGATGACCAAGATGAAA-CAATA
*
198130 GTTGAAAAA-ATGACTAGGGAAAA
64 G-TAAAAAATATGACTAGGGAAAA
198153 CCTACCATTC
Statistics
Matches: 150, Mismatches: 19, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
91 9 0.06
92 53 0.35
93 83 0.55
94 5 0.03
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (88 bp):
ATTAGTCAAAGAAAATACTAGGTGAAACCAATTAGTCAAAAAGATGACCAAGATGAAACAATAGT
AAAAAATATGACTAGGGAAAATT
Found at i:199671 original size:3 final size:3
Alignment explanation
Indices: 199665--199691 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
199655 CTAAAAACCC
199665 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
199692 CCTATCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:201916 original size:22 final size:22
Alignment explanation
Indices: 201888--201933 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
201878 TAATTACGTA
201888 TTATCATAATTCTCCACTAAAG
1 TTATCATAATTCTCCACTAAAG
*
201910 TTATCATAATTCTCGACTAAAG
1 TTATCATAATTCTCCACTAAAG
201932 TT
1 TT
201934 GTTATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.39
Consensus pattern (22 bp):
TTATCATAATTCTCCACTAAAG
Found at i:203497 original size:19 final size:19
Alignment explanation
Indices: 203470--203510 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
203460 TGAAATTAAC
203470 ATAAAAAAAT-ATAAATAAA
1 ATAAAAAAATAATAAA-AAA
*
203489 ATAATAAAATAATAAAAAA
1 ATAAAAAAATAATAAAAAA
203508 ATA
1 ATA
203511 TAATGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAAAATAATAAAAAA
Found at i:203793 original size:14 final size:15
Alignment explanation
Indices: 203776--203813 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
203766 TTTTCATACA
203776 TTCCTTTTTTGT-TT
1 TTCCTTTTTTGTCTT
*
203790 TTCCTTTTTTTTCTT
1 TTCCTTTTTTGTCTT
*
203805 TTTCTTTTT
1 TTCCTTTTT
203814 CTTTTTCCGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.82
Consensus pattern (15 bp):
TTCCTTTTTTGTCTT
Found at i:203799 original size:16 final size:15
Alignment explanation
Indices: 203780--203813 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
203770 CATACATTCC
*
203780 TTTTTTGTTTTTCCTT
1 TTTTTTCTTTTT-CTT
203796 TTTTTTCTTTTTCTT
1 TTTTTTCTTTTTCTT
203811 TTT
1 TTT
203814 CTTTTTCCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTCTTTTTCTT
Found at i:206219 original size:2 final size:2
Alignment explanation
Indices: 206206--206246 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
206196 ACCACAAAGA
* * *
206206 AT AT AT AA AT AT AT AA AT AT AT AT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
206247 GGTGTGTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:206342 original size:22 final size:23
Alignment explanation
Indices: 206287--206342 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
206277 GACTTATTAC
*
206287 ATGAACCTTATTAAAGCTCATAA
1 ATGAACCTAATTAAAGCTCATAA
* *
206310 ATGAACTTAATT-AAGCTCATAG
1 ATGAACCTAATTAAAGCTCATAA
*
206332 ATGTACCTAAT
1 ATGAACCTAAT
206343 CTATATATGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (23 bp):
ATGAACCTAATTAAAGCTCATAA
Found at i:207242 original size:22 final size:23
Alignment explanation
Indices: 207217--207259 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
207207 TAACTATCCT
207217 TTTAAAAACTATGCA-TTTTTCA
1 TTTAAAAACTATGCACTTTTTCA
*
207239 TTTAAAAACTATTCACTTTTT
1 TTTAAAAACTATGCACTTTTT
207260 TTACTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (23 bp):
TTTAAAAACTATGCACTTTTTCA
Found at i:213414 original size:155 final size:151
Alignment explanation
Indices: 213093--213597 Score: 502
Period size: 155 Copynumber: 3.3 Consensus size: 151
213083 CGAAAATGTT
* * ** *
213093 CCTAGGGGATACCTTCGATGTAAAAGTACCTAATACTCCTAAAGGACTTAAAAAGGTTTGAA-A-
1 CCTAGGAGATACCTTCGACGTAAAAGTACCCGATACTCCTAAAGGACTTAAAAAGG-AT-AATAG
* * * ** *
213156 TGGGATGAACCTATCCT-AAT-TGCTCACTTTTGGCATAAAAGCAGACTCGGCAAGAACCTAGGA
64 TGAGATGGACCTATCCTAAATAT-CT-ACTTTTGGCATAAAAGCGGA-TCGGTGACAACCTAGGA
* * * *
213219 GTTGGTTTTGAAAAATTACGAAATCAC
126 CTCGATTTTGAAAAATTATGAAAT-AC
* *
213246 CCTTAGG-GAATACCTTCGACATAAAAGTACCCGATACTCCTATAGGACTTAAAAAGGATAATAG
1 CC-TAGGAG-ATACCTTCGACGTAAAAGTACCCGATACTCCTAAAGGACTTAAAAAGGATAATA-
*
213310 GTGAGATGGACCTATCCTAAATATCTACTTTTGGCATAAAAGCGGATTCGGTGATAACCTAGGAC
63 GTGAGATGGACCTATCCTAAATATCTACTTTTGGCATAAAAGCGGA-TCGGTGACAACCTAGGAC
213375 TCGATTTTGAAAAATTATGAGAATATC
127 TCGATTTTGAAAAATTATGA-AATA-C
* * *
213402 CCTAGGAGATACCTTCGACGTAAAAGTACTCGATACCCCTAAAGGATTTAAAAAGGATAATAGAT
1 CCTAGGAGATACCTTCGACGTAAAAGTACCCGATACTCCTAAAGGACTTAAAAAGGATAATAG-T
* * * * * *
213467 GAGAT-GAGCCAATCCTAAATATCTACCTTCGGCATAAAAGCGGACCAGGTGACAACCTCGAACT
65 GAGATGGA-CCTATCCTAAATATCTACTTTTGGCATAAAAGCGGATC-GGTGACAACCTAGGACT
*
213531 CGATTTTGAAAAATTATAAAAATACC
128 CGATTTTGAAAAATTAT-GAAATA-C
* * * * *
213557 CCTA-AAGGATACGTTTGACGTAAAAGTACTCGGTACTCCTA
1 CCTAGGA-GATACCTTCGACGTAAAAGTACCCGATACTCCTA
213598 GAAAACTTGG
Statistics
Matches: 301, Mismatches: 36, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
152 2 0.01
153 5 0.02
154 52 0.17
155 228 0.76
156 13 0.04
157 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (151 bp):
CCTAGGAGATACCTTCGACGTAAAAGTACCCGATACTCCTAAAGGACTTAAAAAGGATAATAGTG
AGATGGACCTATCCTAAATATCTACTTTTGGCATAAAAGCGGATCGGTGACAACCTAGGACTCGA
TTTTGAAAAATTATGAAATAC
Found at i:215142 original size:10 final size:10
Alignment explanation
Indices: 215102--215151 Score: 55
Period size: 10 Copynumber: 4.6 Consensus size: 10
215092 ATGCTTGAAA
215102 TTTTCTTTTT
1 TTTTCTTTTT
215112 TCTTTCCTGTTTT
1 T-TTT-CT-TTTT
*
215125 TCTCTCTTTTT
1 T-TTTCTTTTT
215136 TTTTCTTTTT
1 TTTTCTTTTT
215146 TTTTCT
1 TTTTCT
215152 CACTTGCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 15 0.43
11 8 0.23
12 4 0.11
13 8 0.23
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:216127 original size:155 final size:154
Alignment explanation
Indices: 215681--216697 Score: 816
Period size: 155 Copynumber: 6.4 Consensus size: 154
215671 TGAAATAAAT
* * * * *
215681 AATAATATTTTATGAA-TTTAGAAATCAAAAACCAAGAAAAATCCCT-GAAAAAATTTACGGAGT
1 AATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCTCTCAAAAAAATTTACGGAGT
* * *
215744 AGAAAACTCCGTATTTCA-AAAAAAAGAAATTTCAAGAAAAAATTCAAAATTTATGGAAATGAAT
65 AAAAAACTCCGTATTTCAGAAAAAGA-AAATTTCAAGAAAAAATTCAAAATTCATGGAAATGAAT
* *
215808 GAATTTTTGAAAACTAAATTAGTTTGAAATAAAT
129 GAATTTTTGAAAACTAAATTA--ATG---T---G
* * *
215842 AATAATATTTGATAAATTTTAAAAATTAAAAACTAAGAAAAATC-CTTCCAAAAAAA-TTACAGA
1 AATAATATTTGATGAATTTTAAAAATAAAAAAC-AAGAAAAATCTC-T-CAAAAAAATTTACGGA
* * * *
215905 GTAAAAAACTCCATATTT-TGAAAAAGAAGAATTTCAAGAGAAAAATTTAAAATTTATGGAAATG
63 GTAAAAAACTCCGTATTTCAGAAAAAGAA-AATTTCAAGA-AAAAATTCAAAATTCATGGAAATG
215969 AATGAATTTTTGAAAACTAAATTAATGTG
126 AATGAATTTTTGAAAACTAAATTAATGTG
215998 AATAATATTTGATGAATTTTAAAAATAAAAAAACAAG-AAAATCTCTCAAAAAAATTTACGGAGT
1 AATAATATTTGATGAATTTTAAAAAT-AAAAAACAAGAAAAATCTCTCAAAAAAATTTACGGAGT
** * * **
216062 AAAAAACTCTTTATTTCGAGAAAAAGAAAATTTCAAGGAAAAATTCAAAATTCGTGGAAGCGAAT
65 AAAAAACTCCGTATTTC-AGAAAAAGAAAATTTCAAGAAAAAATTCAAAATTCATGGAAATGAAT
* *
216127 GAAGTTTTGAAAACTAAATTAATATG
129 GAATTTTTGAAAACTAAATTAATGTG
* * * ** * * * * * *
216153 AAATAA-A--TAAT-AATATTTGATTAATTTTAAAA-AATAAAAACCCTCCCGAAAACATCTACG
1 -AATAATATTTGATGAAT-TTT-A-AAAATAAAAAACAAGAAAAA-TCTCTCAAAAAAATTTACG
* * *
216213 GAGTAAAAAACTCCGTATTTTAGAAAAAAGAGAATTTCAAGAAAAAAATCAAAATTCATGGAAAT
61 GAGTAAAAAACTCCGTATTTCAG-AAAAAGAAAATTTCAAGAAAAAATTCAAAATTCATGGAAAT
* * **
216278 GAATGAATTTTTGAAAAATGAATTACAAT-AA
125 GAATGAATTTTTGAAAACTAAATT--AATGTG
* *
216309 AATAAATATTTTATGAATTTTAAAAATAAAAAA-AAGAAAAATCCTCCCAAAAAAA-TTACGGAG
1 AAT-AATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAAT-CTCTCAAAAAAATTTACGGAG
* ** * *
216372 TAGAAAACTCCGTATTTTGGAAAAA-AAGGGAATTTCAAGGAAAAATTCAAAATTCATGGAACTG
64 TAAAAAACTCCGTATTTCAGAAAAAGAA---AATTTCAAGAAAAAATTCAAAATTCATGGAAATG
* *
216436 AATAAATTTTTGAAAACTGAATTAATGTG
126 AATGAATTTTTGAAAACTAAATTAATGTG
* * *
216465 AAACAAATAATAATATTTGATGAATTTTAAAAAT-AAAAA-AAGAAAAATCCCTTTAAAACAATT
1 --------AATAATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAATCTC-TCAAAAAAATT
* * ** * * * *
216528 TACGAAGTAGAAAACTTTGTATTTC-GAAAAA-AAAATTTGAAAGAAAAAATTTAAAAGTCATAG
57 TACGGAGTAAAAAACTCCGTATTTCAGAAAAAGAAAATTT-CAAGAAAAAATTCAAAATTCATGG
* *
216591 AAATGAAGGAATTTTTGAAAACTAAATTAATATGAAATAAAT
121 AAATGAATGAATTTTTGAAAACTAAATT-A-ATG---T---G
* * *
216633 AATAATATTTGATGAATTTTAAAAATTAAAAACCTAGAAAAATC-CTTCTGAAAAAATTTACGGA
1 AATAATATTTGATGAATTTTAAAAA-TAAAAAACAAGAAAAATCTC-TC-AAAAAAATTTACGGA
216697 G
63 G
216698 AAGAAAATAC
Statistics
Matches: 703, Mismatches: 98, Indels: 108
0.77 0.11 0.12
Matches are distributed among these distances:
152 3 0.00
153 8 0.01
154 20 0.03
155 178 0.25
156 70 0.10
157 95 0.14
158 1 0.00
159 12 0.02
160 71 0.10
161 24 0.03
162 60 0.09
163 104 0.15
164 56 0.08
165 1 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (154 bp):
AATAATATTTGATGAATTTTAAAAATAAAAAACAAGAAAAATCTCTCAAAAAAATTTACGGAGTA
AAAAACTCCGTATTTCAGAAAAAGAAAATTTCAAGAAAAAATTCAAAATTCATGGAAATGAATGA
ATTTTTGAAAACTAAATTAATGTG
Found at i:216449 original size:312 final size:307
Alignment explanation
Indices: 215599--216717 Score: 1006
Period size: 312 Copynumber: 3.5 Consensus size: 307
215589 TTGGTTTCTC
* * * * *
215599 AAAAATAAGAGATTTCAA-AGAAAAAATCCAAAACTCATGAAAATGAATTAAATTTTTAAAACTA
1 AAAAAGAAGA-ATTTCAAGAGAAAAAAT-CAAAATTCATGGAAATGAA-TGAATTTTTGAAA--A
* * * *
215663 ATTTAATATGAAATAAATAATAATATTTTATGAA-TTTAGAAATCAAAAACCAAGAAAAATCC-C
61 A--TAA-AT-TAATGAA-AATAATATTTTATGAATTTTAAAAAT-AAAAA-AAAGAAAAATCCTC
* * * * *
215726 TGAAAAAATTTACGGAGTAGAAAACTCCGTATTTCAAAAAAAAGAAATTTCAAGAAAAAATTCAA
119 TCAAAAAAATTACGGAGTAGAAAACTCCGTATTTGAAAAAAAGGAAATTTCAAGGAAAAATTCAA
* * * *
215791 AATTTATGGAAATGAATGAATTTTTGAAAACTAAATTAGTTTGAAATAAATAATAATATTTGATA
184 AATTCATGGAACTGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATAATAATATTTGATA
* *
215856 AATTTTAAAAATTAAAAACTAAGAAAAATCCTTCCAAAAAAATTACAGAGTAAAAAACTCCATAT
249 AATTTT----A--AAAAA-T---AAAAACCCTCCCAAAAAAATTACAGAGTAAAAAACTCCATAT
215921 TTTG
304 TTTG
* * * *
215925 AAAAAGAAGAATTTCAAGAGAAAAATTTAAAATTTATGGAAATGAATGAATTTTTGAAAACTAAA
1 AAAAAGAAGAATTTCAAGAGAAAAAATCAAAATTCATGGAAATGAATGAATTTTTGAAAAATAAA
** *
215990 TTAATGTGAATAATATTTGATGAATTTTAAAAATAAAAAAACA-AGAAAAT-CTCTCAAAAAAAT
66 TTAATGAAAATAATATTTTATGAATTTTAAAAATAAAAAAA-AGA-AAAATCCTCTCAAAAAAA-
* ** * * *
216053 TTACGGAGTAAAAAACTCTTTATTTCGAGAAAAAGAAAATTTCAAGGAAAAATTCAAAATTCGTG
128 TTACGGAGTAGAAAACTCCGTATTT-GAAAAAAAGGAAATTTCAAGGAAAAATTCAAAATTCATG
* *
216118 GAAGC-GAATGAAGTTTTGAAAACTAAATTAATATGAAATAAATAATAATATTTGATTAATTTTA
192 GAA-CTGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATAATAATATTTGATAAATTTTA
* * * *
216182 AAAAATAAAAACCCTCCCGAAAACATCTACGGAGTAAAAAACTCCGTATTTTAG
256 AAAAATAAAAACCCTCCCAAAAAAAT-TACAGAGTAAAAAACTCCATATTTT-G
*
216236 AAAAA-AGAGAATTTCAAGA-AAAAAATCAAAATTCATGGAAATGAATGAATTTTTGAAAAATGA
1 AAAAAGA-AGAATTTCAAGAGAAAAAATCAAAATTCATGGAAATGAATGAATTTTTGAAAAATAA
*
216299 ATTACAAT-AAAATAAATATTTTATGAATTTTAAAAATAAAAAAAAGAAAAATCCTCCCAAAAAA
65 ATT--AATGAAAAT-AATATTTTATGAATTTTAAAAATAAAAAAAAGAAAAATCCTCTCAAAAAA
*
216363 ATTACGGAGTAGAAAACTCCGTATTTTGGAAAAAAAGGGAATTTCAAGGAAAAATTCAAAATTCA
127 ATTACGGAGTAGAAAACTCCGTA-TTT-GAAAAAAAGGAAATTTCAAGGAAAAATTCAAAATTCA
* * * * *
216428 TGGAACTGAATAAATTTTTGAAAACTGAATTAATGTGAAACAAATAATAATATTTGATGAATTTT
190 TGGAACTGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATAATAATATTTGATAAATTTT
* *** * * *** *
216493 AAAAATAAAAAAAGAAAAATCCCTTTAAAACAATTTAC-GAAGTAGAAAACTTTGTATTTCG
255 --AAA-AAATAAA-AACCCTCCC---AAAA-AAATTACAG-AGTAAAAAACTCCATATTTTG
* * * * * *
216554 AAAAA-AA-AATTTGAA-AGAAAAAATTTAAAAGTCATAGAAATGAAGGAATTTTTGAAAACTAA
1 AAAAAGAAGAATTTCAAGAGAAAAAA-TCAAAATTCATGGAAATGAATGAATTTTTGAAAAATAA
**
216616 ATTAATATGAAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCTAGAAAAATCCTTC
65 ATT-A-ATG--A-AAATAAT-AT-TTT-ATGAATTTTAAAAA-TAAAAA-AAAGAAAAATCC-TC
* * *
216681 TGAAAAAATTTACGGAGAAGAAAA-TACCGTAATTTGA
119 TCAAAAAAATTACGGAGTAGAAAACT-CCGT-ATTTGA
216718 GAATAAAAAG
Statistics
Matches: 664, Mismatches: 87, Indels: 85
0.79 0.10 0.10
Matches are distributed among these distances:
309 16 0.02
310 66 0.10
311 47 0.07
312 138 0.21
313 5 0.01
314 3 0.00
315 8 0.01
316 23 0.03
317 72 0.11
318 41 0.06
319 113 0.17
320 9 0.01
321 6 0.01
322 4 0.01
323 14 0.02
324 17 0.03
325 35 0.05
326 46 0.07
327 1 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.28
Consensus pattern (307 bp):
AAAAAGAAGAATTTCAAGAGAAAAAATCAAAATTCATGGAAATGAATGAATTTTTGAAAAATAAA
TTAATGAAAATAATATTTTATGAATTTTAAAAATAAAAAAAAGAAAAATCCTCTCAAAAAAATTA
CGGAGTAGAAAACTCCGTATTTGAAAAAAAGGAAATTTCAAGGAAAAATTCAAAATTCATGGAAC
TGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATAATAATATTTGATAAATTTTAAAAAA
TAAAAACCCTCCCAAAAAAATTACAGAGTAAAAAACTCCATATTTTG
Found at i:217615 original size:20 final size:20
Alignment explanation
Indices: 217590--217630 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
217580 CTATTATGGA
217590 TATAATTACCTTCAGAATTT
1 TATAATTACCTTCAGAATTT
217610 TATAATTACCTTCAGAATTT
1 TATAATTACCTTCAGAATTT
217630 T
1 T
217631 GATTGATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (20 bp):
TATAATTACCTTCAGAATTT
Found at i:223199 original size:20 final size:22
Alignment explanation
Indices: 223171--223220 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
223161 ACCTAGAATA
*
223171 TATCAATACAA-TG-AAAAATG
1 TATCGATACAATTGTAAAAATG
*
223191 TATCGATACAATTGTAAACATG
1 TATCGATACAATTGTAAAAATG
223213 TATCGATA
1 TATCGATA
223221 TATTTAGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 10 0.38
21 2 0.08
22 14 0.54
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (22 bp):
TATCGATACAATTGTAAAAATG
Found at i:223382 original size:70 final size:70
Alignment explanation
Indices: 223267--223423 Score: 251
Period size: 70 Copynumber: 2.2 Consensus size: 70
223257 TGCAAGGTAG
* * **
223267 TTTTGTATCGATACATTTACTATTTGTATCGATAGAAATTATAGCAATTCAAAATTTTTGAATGT
1 TTTTGTATCGATACATTTACTATTTGTATCGATACAAATTATAGCAATTCAAAATTTTTAAACAT
*
223332 TGGGA
66 TAGGA
*
223337 TTTTGTATCGATACATTTACTATTTGTATCGATACAAATTGTAGCAATTCAAAATTTTTAAACAT
1 TTTTGTATCGATACATTTACTATTTGTATCGATACAAATTATAGCAATTCAAAATTTTTAAACAT
223402 TAGGA
66 TAGGA
*
223407 TCTTGTATCGATACATT
1 TTTTGTATCGATACATT
223424 CTAGAAATGT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 80 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (70 bp):
TTTTGTATCGATACATTTACTATTTGTATCGATACAAATTATAGCAATTCAAAATTTTTAAACAT
TAGGA
Found at i:225955 original size:20 final size:20
Alignment explanation
Indices: 225930--225979 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
225920 CAGATGTATT
*
225930 GATACATTTTTCAATATATC
1 GATACATTCTTCAATATATC
*
225950 GATACATTCTTCAATGTATC
1 GATACATTCTTCAATATATC
225970 GATACATTCT
1 GATACATTCT
225980 GTCTTTTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (20 bp):
GATACATTCTTCAATATATC
Found at i:227531 original size:20 final size:20
Alignment explanation
Indices: 227506--227662 Score: 116
Period size: 20 Copynumber: 7.8 Consensus size: 20
227496 TTTTCGCAAT
227506 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
227526 TTGTATCGATACATTCTGGGTTTACCCA
1 TTGTATCGATACA-T-T--G-TT---CA
227554 TATGTATCGATACATT-TTGCA
1 T-TGTATCGATACATTGTT-CA
*
227575 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
227595 TTGTATCGAT--A-----CA
1 TTGTATCGATACATTGTTCA
*
227608 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
227628 TTGTATTGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
227648 ATGTATCGATACATT
1 TTGTATCGATACATT
227663 CAGGCATTTT
Statistics
Matches: 113, Mismatches: 6, Indels: 36
0.73 0.04 0.23
Matches are distributed among these distances:
13 12 0.11
15 1 0.01
18 1 0.01
19 1 0.01
20 70 0.62
21 5 0.04
22 1 0.01
23 2 0.02
24 1 0.01
25 2 0.02
27 1 0.01
28 4 0.04
29 12 0.11
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:227615 original size:33 final size:33
Alignment explanation
Indices: 227573--227642 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
227563 ATACATTTTG
227573 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
*
227606 CATTGTATCGATACATTGCTCATTGTATTGATA
1 CATTGTATCGATACATTGCTCATTGTATCGATA
227639 CATT
1 CATT
227643 TTACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTGTATCGATA
Found at i:227630 original size:53 final size:53
Alignment explanation
Indices: 227506--227662 Score: 173
Period size: 53 Copynumber: 3.0 Consensus size: 53
227496 TTTTCGCAAT
*** * *
227506 TTGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTT-TACCCAT--A
1 TTGTATCGATACATTGTTCATTGTATCGATACATTCTACATTGTATCGATACA
227556 -TGTATCGATACATT-TTGCATTGTATCGATACATTGCT-CATTGTATCGATACA
1 TTGTATCGATACATTGTT-CATTGTATCGATACATT-CTACATTGTATCGATACA
* * * *
227608 TTGTATCGATACATTGCTCATTGTATTGATACATTTTACAATGTATCGATACA
1 TTGTATCGATACATTGTTCATTGTATCGATACATTCTACATTGTATCGATACA
227661 TT
1 TT
227663 CAGGCATTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
48 2 0.02
49 33 0.36
50 7 0.08
52 2 0.02
53 46 0.51
54 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (53 bp):
TTGTATCGATACATTGTTCATTGTATCGATACATTCTACATTGTATCGATACA
Found at i:227642 original size:13 final size:13
Alignment explanation
Indices: 227593--227623 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
227583 ATACATTGCT
227593 CATTGTATCGATA
1 CATTGTATCGATA
227606 CATTGTATCGATA
1 CATTGTATCGATA
227619 CATTG
1 CATTG
227624 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:230018 original size:51 final size:51
Alignment explanation
Indices: 229943--230133 Score: 219
Period size: 51 Copynumber: 3.8 Consensus size: 51
229933 AAATTTCTAG
* * * * *
229943 ATTTTTCAT-CTCGGGAATACTCCAA-TCCCGGTTTCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAATATCA
* * * *
229993 ATTTTTCTTAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAATACCC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATCA
* *
230044 ATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATCG
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATCA
* * *
230095 ACTTTTCACAATCGGGGATACTCCAAC-CCCATTTT-TTTC
1 ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTC
230134 TGAGGGGACA
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
49 4 0.03
50 15 0.12
51 101 0.83
52 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.10, T:0.36
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAATATCA
Found at i:230101 original size:102 final size:100
Alignment explanation
Indices: 229953--230134 Score: 249
Period size: 102 Copynumber: 1.8 Consensus size: 100
229943 ATTTTTCATC
* * **
229953 TCGGGAATACTCCAATCCCGGTTTCATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCA
1 TCGGGAATACTCCAATCCCGATTTCATTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCA
*
230018 ACTCCGATTTTATTTCTAAAATACCCATTTTCCATAA
66 AC-CCCATTTT-TTTCTAAAATACCCATTTTCCATAA
* * * *
230055 TCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAATATCGACTTTTCACAATCGGGGATACTCC
1 TCGGGAATACTCCAATC-CCGATTTCATTTCCAAAACATCAACTTTTCACAATCGGGGATACTCC
230119 AACCCCATTTTTTTCT
65 AACCCCATTTTTTTCT
230135 GAGGGGACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
100 5 0.07
101 8 0.11
102 57 0.81
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.35
Consensus pattern (100 bp):
TCGGGAATACTCCAATCCCGATTTCATTTCCAAAACATCAACTTTTCACAATCGGGGATACTCCA
ACCCCATTTTTTTCTAAAATACCCATTTTCCATAA
Found at i:230181 original size:80 final size:78
Alignment explanation
Indices: 230067--230248 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 78
230057 GGGGATACTC
* * * * *
230067 CAACTCCGATTTTATTTCCAAAATATCGACTTTTCACAATCGGGGATACTCCAACCCCATTTTTT
1 CAACCCCG-TTTTATTTCTAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCATTATTT
*
230132 TCTGAGGGGACACTT
65 TC-GAGGAGACACTT
* * *
230147 CAACCTCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT
1 CAACC-CCGTTTTATTTCTAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCATTATTT
*
230212 TCGAGGAGATACTT
65 TCGAGGAGACACTT
*
230226 CAACCCCGTTATTATCTCTAAAA
1 CAACCCCGTT-TTATTTCTAAAA
230249 TATTAAATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 4 0.05
79 26 0.30
80 56 0.64
81 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (78 bp):
CAACCCCGTTTTATTTCTAAAACATCAACTTTTCACAATCGGGGATACTCCAACCCCATTATTTT
CGAGGAGACACTT
Found at i:232302 original size:97 final size:97
Alignment explanation
Indices: 232131--232365 Score: 391
Period size: 97 Copynumber: 2.4 Consensus size: 97
232121 TTATTCCTTA
* * * * *
232131 GGGATACTCCAACCACATTTCTCCGAGGGGATGCTCTAACCCCGCTTTTAAATTTGTCAAGATTC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACTTGTCAAGATTC
*
232196 AAATCTTATTCTCGCTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
232228 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACTTGTCAAGATTC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACTTGTCAAGATTC
232293 AAATCTTATTCTCACTTAAATTGTCATCATCG
66 AAATCTTATTCTCACTTAAATTGTCATCATCG
* *
232325 GGGACACTCCAA-CCTATTCCTCCGAGGGGATACTCCAACCC
1 GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCC
232366 TGTTTTTTTT
Statistics
Matches: 130, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
96 27 0.21
97 103 0.79
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (97 bp):
GGGACACTCCAACCCCATTCCTCCGAGGGGATACTCTAACCCCGCTTTTAAACTTGTCAAGATTC
AAATCTTATTCTCACTTAAATTGTCATCATCG
Found at i:244033 original size:9 final size:9
Alignment explanation
Indices: 244019--244062 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
244009 TCATACCCAA
244019 AAAAAAAAC
1 AAAAAAAAC
*
244028 AAAAAAAAT
1 AAAAAAAAC
244037 AAAAAAAACC
1 AAAAAAAA-C
244047 AAAAAAAAC
1 AAAAAAAAC
244056 AAAAAAA
1 AAAAAAA
244063 TCGAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 24 0.75
10 8 0.25
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:244042 original size:19 final size:19
Alignment explanation
Indices: 244018--244062 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
244008 TTCATACCCA
*
244018 AAAAAAAAACAAAAAAAAT
1 AAAAAAAAACAAAAAAAAC
*
244037 AAAAAAAACCAAAAAAAAC
1 AAAAAAAAACAAAAAAAAC
244056 AAAAAAA
1 AAAAAAA
244063 TCGAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAC
Found at i:245372 original size:28 final size:28
Alignment explanation
Indices: 245341--246012 Score: 720
Period size: 28 Copynumber: 23.4 Consensus size: 28
245331 TGTTCATCTC
245341 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
245369 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
245396 CTTCAAAGCCCACAAGTCAGTGGCA-CCTT
1 -TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
245425 TTCAAAGCCCACAAGTCAATGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
*
245455 TTCAAAGCCCACACAAATCAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
* * *
245484 TTCCAAAGCCCAGAGGTTAGTGGCATCCT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCT
245513 TTCAAAGCCCACAAGTCAGTGGCATGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
* *
245543 TTCAAAGCCCACACAAATCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
* *
245573 TTCAAAGCCCAAAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
*
245601 TTCAAAGCCCACAAGTTAGTGGCATACCCT
1 TTCAAAGCCCACAAGTCAGTGGCAT--CCT
*
245631 TTCAAAGCCCACACAAATCAGTGGCA-CCT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCCT
*
245660 TTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TT-CAAAGCCCACAAGTCAGTGGCATCCT
*
245689 TTCAAAGCCCACAAATCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
245717 TTTAAAGCCCACAAAAATCAGTGGCA-CCTT
1 TTCAAAGCCCAC--AAGTCAGTGGCATCC-T
245747 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
245775 TTCAAAGCCTACAAGTTAGTGGCA-CCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-T
* *
245803 TTCAAAGCCCACAAGTCAGTGGTACCCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
* *
245832 TT-AAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
245859 TTCAAAACCCACTAGTCGGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
245886 CTTCAAAAGACCACAAGTCGGTGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
245916 TTCAAAGCCCACAAGTCAGTGGCAT-CT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* * *
245943 CTTCAAAAGACTACAAGTCAATGGCATCCT
1 -TTC-AAAGCCCACAAGTCAGTGGCATCCT
** *
245973 TTCAAAGATCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
246001 TTCAAAGCCCAC
1 TTCAAAGCCCAC
246013 GTAAGTCGGT
Statistics
Matches: 561, Mismatches: 49, Indels: 68
0.83 0.07 0.10
Matches are distributed among these distances:
27 16 0.03
28 342 0.61
29 74 0.13
30 79 0.14
31 10 0.02
32 40 0.07
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:245506 original size:88 final size:86
Alignment explanation
Indices: 245341--246012 Score: 757
Period size: 88 Copynumber: 7.8 Consensus size: 86
245331 TGTTCATCTC
* *
245341 TTCAAAGCCCACAAGTCAGTGGCAT--CCTTTCAAAGCC-CACAAGTCAGTGGCATCTCTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCACACAAATCAGTGGCACCT-TTCAAA
245403 GCCCACAAGTCAGTGGCACCTT
65 GCCCACAAGTCAGTGGCACCTT
*
245425 TTCAAAGCCCACAAGTCAATGGCATACCCTTTCAAAGCCCACACAAATCAGTGGCACCTTTCCAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAG-CCACACAAATCAGTGGCACCTTT-CAA
* * *
245490 AGCCCAGAGGTTAGTGGCATCC-T
64 AGCCCACAAGTCAGTGGCA-CCTT
*
245513 TTCAAAGCCCACAAGTCAGTGGCATGCCCTTTCAAAGCCCACACAAATCAGTGGCACCCTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAG-CCACACAAATCAGTGGCA-CCTTTCAA
* *
245578 AGCCCAAAAGTTAGTGGCACCTT
64 AGCCCACAAGTCAGTGGCACCTT
*
245601 TTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCCCACACAAATCAGTGGCACCTTTCCAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAG-CCACACAAATCAGTGGCACCTTT-CAA
*
245666 AGCCCACAAGTCAGTGGCACCCT
64 AGCCCACAAGTCAGTGGCACCTT
* * * *
245689 TTCAAAGCCCACAAATCAGTGGC--ACCTTTTTAAAGCCCACAAAAATCAGTGGCACCTTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAG-CCACACAAATCAGTGGCACC-TTTCAA
245752 AGCCCACAAGTCAGTGGCACCTT
64 AGCCCACAAGTCAGTGGCACCTT
* * * * *
245775 TTCAAAGCCTACAAGTTAGTGGC--ACCTTTTCAAAGCC-CACAAGTCAGTGGTACCCCTTT-AA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCACACAAATCAGTGG--CACCTTTCAA
* *
245836 AGCCCACAAGTTAGTGGCACCCT
64 AGCCCACAAGTCAGTGGCACCTT
* * * * * * *
245859 TTCAAAACCCACTAGTCGGTGGCAT-CTC-TTCAAAAGAC-CACAAGTCGGTGGCATCCTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCATACCCTTTC-AAAGCCACACAAATCAGTGGCA-CCTTTCAA
* *
245921 AGCCCACAAGTCAGTGGCATCTC
64 AGCCCACAAGTCAGTGGCACCTT
* * * *
245944 TTCAAAAGACTACAAGTCAATGGCAT--CCTTTCAAAG--ATCACAAGTCAGTGGCACCCTTTCA
1 TTC-AAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCA-CACAAATCAGTGGCA-CCTTTCA
246005 AAGCCCAC
63 AAGCCCAC
246013 GTAAGTCGGT
Statistics
Matches: 514, Mismatches: 53, Indels: 41
0.85 0.09 0.07
Matches are distributed among these distances:
83 1 0.00
84 84 0.16
85 81 0.16
86 118 0.23
87 14 0.03
88 209 0.41
89 7 0.01
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (86 bp):
TTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCACACAAATCAGTGGCACCTTTCAAAG
CCCACAAGTCAGTGGCACCTT
Found at i:246877 original size:20 final size:20
Alignment explanation
Indices: 246854--246978 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
246844 AAGTACCCAG
246854 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* *
246874 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* *
246894 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
246914 ATGTATCGATACATTCTATCTTTTTACCCA
1 ATGTATCGAT--A--C-A--TTTTT---CA
246944 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
246965 ATGTATCGATACAT
1 ATGTATCGATACAT
246979 CCAGTTAAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 22
0.78 0.03 0.19
Matches are distributed among these distances:
20 61 0.68
21 2 0.02
22 1 0.01
24 6 0.07
25 1 0.01
26 1 0.01
27 5 0.06
29 1 0.01
30 2 0.02
31 10 0.11
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:246914 original size:40 final size:40
Alignment explanation
Indices: 246854--246930 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
246844 AAGTACCCAG
* *
246854 ATGTATCGATACATTTTTCAATGTATTGATACATTCTTCA
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTTCA
*
246894 ATGTATTGATACATTCTTCAATGTATCGATACATTCT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCT
246931 ATCTTTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTTCA
Found at i:249296 original size:97 final size:97
Alignment explanation
Indices: 249130--249366 Score: 395
Period size: 97 Copynumber: 2.5 Consensus size: 97
249120 CCTCGGGGAT
249130 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGATTCAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGATTCAAATC
* *
249195 TTATTCTCGCTTCAATTGTTATCATCAAGGAC
66 TTATTCTCGCTTAAATTGTCATCATCAAGGAC
* * *
249227 ACTCCAACCCCATTCTTCCGAAGGGATACTCCAACCTCGCTTTTAAACTTGTCAAGATTCAAATC
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGATTCAAATC
*
249292 TTATTCTCGCTTAAATTGTCATCATCGAGGAC
66 TTATTCTCGCTTAAATTGTCATCATCAAGGAC
* *
249324 ACTCCAA-CCCATTCCTCCGAGGGGATACTCCAACTCCGTTTTT
1 ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTT
249367 TTTTCAATAA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 31 0.24
97 98 0.76
ACGTcount: A:0.26, C:0.31, G:0.13, T:0.30
Consensus pattern (97 bp):
ACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACTTGTCAAGATTCAAATC
TTATTCTCGCTTAAATTGTCATCATCAAGGAC
Found at i:254130 original size:14 final size:14
Alignment explanation
Indices: 254118--254170 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
254108 TATATTAATA
254118 ATTAATTTATAATAT
1 ATTAATTTAT-ATAT
254133 ATGT-ATTTATATAT
1 AT-TAATTTATATAT
*
254147 ATTTATTTATATAT
1 ATTAATTTATATAT
*
254161 ATAAATTTAT
1 ATTAATTTAT
254171 TTAGTATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 1 0.03
14 24 0.71
15 8 0.24
16 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATTAATTTATATAT
Found at i:254163 original size:18 final size:20
Alignment explanation
Indices: 254139--254189 Score: 70
Period size: 18 Copynumber: 2.6 Consensus size: 20
254129 ATATATGTAT
254139 TTATATATATTTATTTA-TA
1 TTATATATATTTATTTAGTA
*
254158 -TATATAAATTTATTTAGTA
1 TTATATATATTTATTTAGTA
254177 TTATATCATATTT
1 TTATAT-ATATTT
254190 TAACATCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 15 0.56
19 2 0.07
20 5 0.19
21 5 0.19
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTATATATATTTATTTAGTA
Found at i:258649 original size:29 final size:29
Alignment explanation
Indices: 258617--258680 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 29
258607 AGATTTGGTC
258617 AAATACCTAAATAAT-CCTAAAATGCATAA
1 AAATA-CTAAATAATCCCTAAAATGCATAA
* ** *
258646 AAATTATTAAATGGTCCCTAATATGCATAA
1 AAA-TACTAAATAATCCCTAAAATGCATAA
258676 AAATA
1 AAATA
258681 GCTCAATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (29 bp):
AAATACTAAATAATCCCTAAAATGCATAA
Found at i:258689 original size:30 final size:30
Alignment explanation
Indices: 258632--258695 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
258622 CCTAAATAAT
* *
258632 CCTAAAATGCATAAAAATTATTAAATGGTC
1 CCTAAAATGCATAAAAATTACTAAATGGAC
* *
258662 CCTAATATGCATAAAAA-TAGCTCAATGGAC
1 CCTAAAATGCATAAAAATTA-CTAAATGGAC
258692 CCTA
1 CCTA
258696 TATTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.27
Consensus pattern (30 bp):
CCTAAAATGCATAAAAATTACTAAATGGAC
Found at i:259376 original size:14 final size:14
Alignment explanation
Indices: 259359--259467 Score: 109
Period size: 14 Copynumber: 7.9 Consensus size: 14
259349 TCCTTCCTTA
*
259359 TTCTTCCTTTTTTC
1 TTCTTCTTTTTTTC
259373 TTCTT-TTTTTTTC
1 TTCTTCTTTTTTTC
*
259386 TTTTTCTTTTTTTC
1 TTCTTCTTTTTTTC
* *
259400 TT-TGCTTTTTCTC
1 TTCTTCTTTTTTTC
*
259413 TTCTTTTTTTTTGCTC
1 TTCTTCTTTTTT--TC
*
259429 TTCTTTTTTTTTTC
1 TTCTTCTTTTTTTC
259443 -TCTTCTTTTTTTGC
1 TTCTTCTTTTTTT-C
259457 -TCTTCTTTTTT
1 TTCTTCTTTTTT
259468 GCTCTTCTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
13 33 0.40
14 35 0.43
16 14 0.17
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (14 bp):
TTCTTCTTTTTTTC
Found at i:259394 original size:16 final size:16
Alignment explanation
Indices: 259373--259467 Score: 61
Period size: 17 Copynumber: 5.6 Consensus size: 16
259363 TCCTTTTTTC
259373 TTCTTTTTTTTTCTTT
1 TTCTTTTTTTTTCTTT
259389 TTCTTTTTTTCTTTGCTTT
1 TTC-TTTTTT-TTT-CTTT
259408 TTCTCTTCTTTTTT-TTT
1 TTCT-TT-TTTTTTCTTT
*
259425 GCTCTTCTTTTTTT-TTT
1 -TTCTT-TTTTTTTCTTT
* *
259442 CTCTTCTTTTTTTGC-TC
1 TTCTT-TTTTTTT-CTTT
259459 TTCTTTTTT
1 TTCTTTTTT
259468 GCTCTTCTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
16 20 0.30
17 24 0.36
18 8 0.12
19 12 0.18
20 3 0.04
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (16 bp):
TTCTTTTTTTTTCTTT
Found at i:259417 original size:43 final size:45
Alignment explanation
Indices: 259370--259475 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 45
259360 TCTTCCTTTT
*
259370 TTCTTCTTTTTTT-TTCTT-TTTCTTTTTTTCT-TTGCTTTTTCT-C
1 TTCTTCTTTTTTTGCTCTTCTTT-TTTTTTTCTCTT-CTTTTTCTGC
*
259413 TTCTT-TTTTTTTGCTCTTCTTTTTTTTTTCTCTTCTTTTTTTGC
1 TTCTTCTTTTTTTGCTCTTCTTTTTTTTTTCTCTTCTTTTTCTGC
259457 -TCTTC-TTTTTTGCTCTTCT
1 TTCTTCTTTTTTTGCTCTTCT
259476 AATTTGCTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
42 7 0.12
43 43 0.77
44 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (45 bp):
TTCTTCTTTTTTTGCTCTTCTTTTTTTTTTCTCTTCTTTTTCTGC
Found at i:259433 original size:32 final size:30
Alignment explanation
Indices: 259397--259464 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
259387 TTTTCTTTTT
259397 TTCTTTGCTTTTTCTCTTCTTTTTTTTTGCTC
1 TTCTTTGCTTTTTCTCTTC--TTTTTTTGCTC
**
259429 TTCTTTTTTTTTTCTCTTCTTTTTTTGCTC
1 TTCTTTGCTTTTTCTCTTCTTTTTTTGCTC
259459 TTCTTT
1 TTCTTT
259465 TTTGCTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 17 0.50
32 17 0.50
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (30 bp):
TTCTTTGCTTTTTCTCTTCTTTTTTTGCTC
Found at i:259467 original size:30 final size:31
Alignment explanation
Indices: 259405--259467 Score: 110
Period size: 30 Copynumber: 2.0 Consensus size: 31
259395 TTTTCTTTGC
259405 TTTTTCTCTTCTTTTTTTTTGCTCTTCTTTTT
1 TTTTTCTCTTC-TTTTTTTTGCTCTTCTTTTT
259437 TTTTTCTCTTC-TTTTTTTGCTCTTCTTTTT
1 TTTTTCTCTTCTTTTTTTTGCTCTTCTTTTT
259467 T
1 T
259468 GCTCTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 20 0.65
32 11 0.35
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTTTCTCTTCTTTTTTTTGCTCTTCTTTTT
Found at i:259468 original size:13 final size:13
Alignment explanation
Indices: 259414--259475 Score: 70
Period size: 13 Copynumber: 4.5 Consensus size: 13
259404 CTTTTTCTCT
*
259414 TCTTTTTTTTTGC
1 TCTTCTTTTTTGC
*
259427 TCTTCTTTTTTTTTTC
1 TCTTC---TTTTTTGC
259443 TCTTCTTTTTTTGC
1 TCTTC-TTTTTTGC
259457 TCTTCTTTTTTGC
1 TCTTCTTTTTTGC
259470 TCTTCT
1 TCTTCT
259476 AATTTGCTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
13 18 0.42
14 13 0.30
16 12 0.28
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (13 bp):
TCTTCTTTTTTGC
Found at i:261034 original size:24 final size:20
Alignment explanation
Indices: 260985--261037 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 20
260975 GATTATGTTT
260985 TATAAAAAAATAAATTTTTA
1 TATAAAAAAATAAATTTTTA
*
261005 TTTAAAATAAATACCAATTTTTTA
1 TATAAAA-AAATA--AA-TTTTTA
261029 TATAAAAAA
1 TATAAAAAA
261038 TTTTCTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.22
21 5 0.19
23 4 0.15
24 12 0.44
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAAAAAAATAAATTTTTA
Found at i:263777 original size:15 final size:15
Alignment explanation
Indices: 263757--263786 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
263747 TTTTTTTTAA
263757 TGAATTTTCTATTTT
1 TGAATTTTCTATTTT
263772 TGAATTTTCTATTTT
1 TGAATTTTCTATTTT
263787 ATTTGCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (15 bp):
TGAATTTTCTATTTT
Found at i:264596 original size:38 final size:39
Alignment explanation
Indices: 264523--264596 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 39
264513 TTCTTACGTA
*
264523 ATTTATGTTAAAAATATTAGTTTACTTATTAATAAATAT
1 ATTTATGTTAAAAATATTAATTTACTTATTAATAAATAT
*
264562 ATTTAT-TTAATAAT-TTAATTATACTTTATT-ATAAA
1 ATTTATGTTAAAAATATTAATT-TAC-TTATTAATAAA
264597 GTAAATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 5 0.16
38 15 0.48
39 11 0.35
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (39 bp):
ATTTATGTTAAAAATATTAATTTACTTATTAATAAATAT
Found at i:266215 original size:20 final size:20
Alignment explanation
Indices: 266150--266215 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
266140 GCCAAGGAAA
* * *
266150 TGTATCGATAAATTACTCAA
1 TGTATCGATACATTTCTCAT
*
266170 TGTATCAATACATGTT-TACAAT
1 TGTATCGATACAT-TTCT-C-AT
266192 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTCAT
266212 TGTA
1 TGTA
266216 ATGTATCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 18 0.49
21 5 0.14
22 14 0.38
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAT
Found at i:269903 original size:13 final size:13
Alignment explanation
Indices: 269885--269910 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
269875 TACAGCAAGT
269885 ATGTATCGATACA
1 ATGTATCGATACA
269898 ATGTATCGATACA
1 ATGTATCGATACA
269911 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:272162 original size:21 final size:21
Alignment explanation
Indices: 272129--272173 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
272119 TTGCAAGTTG
*
272129 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
272151 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
272171 AAA
1 AAA
272174 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:276105 original size:13 final size:13
Alignment explanation
Indices: 276087--276113 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
276077 ATACATTTTT
276087 CTTTGTATCGATA
1 CTTTGTATCGATA
276100 CTTTGTATCGATA
1 CTTTGTATCGATA
276113 C
1 C
276114 AGGGTGATTA
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:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (13 bp):
CTTTGTATCGATA
Found at i:277932 original size:19 final size:19
Alignment explanation
Indices: 277908--277945 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
277898 GTGCAAATAA
277908 ATTTTTGATATGAATTACT
1 ATTTTTGATATGAATTACT
*
277927 ATTTTTTATATGAATTACT
1 ATTTTTGATATGAATTACT
277946 TGATTAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (19 bp):
ATTTTTGATATGAATTACT
Found at i:281742 original size:61 final size:61
Alignment explanation
Indices: 281676--281855 Score: 215
Period size: 61 Copynumber: 2.9 Consensus size: 61
281666 TTTTCAAAGT
281676 CCACAACTCCGTGGCACTATTTTCTTTTTCAAGCCCATAACTCCGTGGCACCTTTTTAAGC
1 CCACAACTCCGTGGCACTATTTTCTTTTTCAAGCCCATAACTCCGTGGCACCTTTTTAAGC
* * * * * *
281737 CCACAACTTCGTGGCACCCT-TTTTCCTTTT-AAGTCCACAACTCCGTGGCACCTTTATAAGT
1 CCACAACTCCGTGGCA--CTATTTTCTTTTTCAAGCCCATAACTCCGTGGCACCTTTTTAAGC
* *
281798 CCACAACTCCATGGCAC-ATTTT-TCTTTTCAAAGCCCATAATTCCGTGGCACCCTTTTT
1 CCACAACTCCGTGGCACTATTTTCT-TTTTC-AAGCCCATAACTCCGTGGCA-CCTTTTT
281856 TTCTTTTAGG
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
59 9 0.09
61 73 0.74
62 15 0.15
63 2 0.02
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTATTTTCTTTTTCAAGCCCATAACTCCGTGGCACCTTTTTAAGC
Found at i:281757 original size:28 final size:28
Alignment explanation
Indices: 281699--281821 Score: 115
Period size: 27 Copynumber: 4.2 Consensus size: 28
281689 GCACTATTTT
*
281699 CTTTTTCAAGCCCATAACTCCGTGGCAC
1 CTTTTTCAAGCCCACAACTCCGTGGCAC
*
281727 CTTTTT-AAGCCCACAACTTCGTGGCACC
1 CTTTTTCAAGCCCACAACTCCGTGGCA-C
*
281755 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 CTTTTT-C----AAGCCCACAACTCCGTGGCAC
* * *
281788 CTTTAT-AAGTCCACAACTCCATGGCAC
1 CTTTTTCAAGCCCACAACTCCGTGGCAC
*
281815 ATTTTTC
1 CTTTTTC
281822 TTTTCAAAGC
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
27 42 0.53
28 13 0.16
33 6 0.08
34 18 0.23
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (28 bp):
CTTTTTCAAGCCCACAACTCCGTGGCAC
Found at i:281775 original size:34 final size:33
Alignment explanation
Indices: 281672--282139 Score: 154
Period size: 34 Copynumber: 14.8 Consensus size: 33
281662 TCTCTTTTCA
* *
281672 AAGTCCACAACTCCGTGGCA-CTATTTTCTTTTT
1 AAGTCCACAACTTCGTGGCACCT-TTTTCCTTTT
* * *
281705 CAAGCCCATAACTCCGTGGCACC----T--TTTT
1 -AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
*
281733 AAGCCCACAACTTCGTGGCACCCTTTTTCCTTTT
1 AAGTCCACAACTTCGTGGCA-CCTTTTTCCTTTT
* *
281767 AAGTCCACAACTCCGTGGCACC----T--TTAT
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
* * *
281794 AAGTCCACAACTCCATGGCACATTTTT-CTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
* * *
281826 CAAAGCCCATAA-TTCCGTGGCACCCTTTTTTTCTTTT
1 --AAGTCCACAACTT-CGTGGCA-CC-TTTTTCCTTTT
* * *
281863 AGGTCCACAAC-TCTATGGTA-C----T-CTTTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCCTTTT
* * * * *
281890 AAATCCATACCTCCGTGGTACCTTTTT-CTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
* *
281922 CAAAGCCCACAACTCCGTGGCA-C-----CCTTTT
1 --AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
* * *
281951 AAGTCCATAAC-TCTGTGGTACCTTTTTCTTTTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCCTTTT
* *
281984 AAAG-CCTACAACTCCATGGCACCTTTTTTCCTTTT
1 -AAGTCC-ACAACTTCGTGGCACC-TTTTTCCTTTT
* * *
282019 AAGTCTACAACTTTGTGGCA------TCTTTTT
1 AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
*
282046 AAGTCCACAAC-TCAGTGGCATCTTTTT--TTTT
1 AAGTCCACAACTTC-GTGGCACCTTTTTCCTTTT
*
282077 CAAAGCCCACAACTTCGTGGCATCCTTTTTCCTTTT
1 --AAGTCCACAACTTCGTGGCA-CCTTTTTCCTTTT
282113 AAGTCCACAAC-TCTGTGGCACTCTTTT
1 AAGTCCACAACTTC-GTGGCAC-CTTTT
282140 AAGTCCACAA
Statistics
Matches: 326, Mismatches: 51, Indels: 114
0.66 0.10 0.23
Matches are distributed among these distances:
26 2 0.01
27 94 0.29
28 10 0.03
29 6 0.02
30 1 0.00
31 5 0.02
32 10 0.03
33 32 0.10
34 126 0.39
35 26 0.08
36 9 0.03
37 5 0.02
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.37
Consensus pattern (33 bp):
AAGTCCACAACTTCGTGGCACCTTTTTCCTTTT
Found at i:281916 original size:96 final size:96
Alignment explanation
Indices: 281733--281950 Score: 280
Period size: 96 Copynumber: 2.3 Consensus size: 96
281723 GCACCTTTTT
*
281733 AAGCCCACAACTT-CGTGGCACCC-TTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTATAA
1 AAGCCCACAA-TTCCGTGGCACCCTTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTATAA
*
281796 GTCCACAACTCCATGGCACATTTTTCTTTTCA
65 ATCCACAACTCCATGGCACATTTTTCTTTTCA
* * * * *
281828 AAGCCCATAATTCCGTGGCACCCTTTTTTTCTTTTAGGTCCACAACTCTATGGTACTCTTT-TAA
1 AAGCCCACAATTCCGTGGCACCCTTTTTTCCTTTTAAGTCCACAACTCCATGGCAC-CTTTATAA
* * * * *
281892 ATCCATACCTCCGTGGTACCTTTTTCTTTTCA
65 ATCCACAACTCCATGGCACATTTTTCTTTTCA
*
281924 AAGCCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAATTCCGTGGCACCCTTTT
281951 AAGTCCATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
94 2 0.02
95 19 0.18
96 81 0.76
97 4 0.04
ACGTcount: A:0.22, C:0.32, G:0.12, T:0.35
Consensus pattern (96 bp):
AAGCCCACAATTCCGTGGCACCCTTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTATAAA
TCCACAACTCCATGGCACATTTTTCTTTTCA
Found at i:281932 original size:61 final size:60
Alignment explanation
Indices: 281867--282010 Score: 198
Period size: 61 Copynumber: 2.4 Consensus size: 60
281857 TCTTTTAGGT
* * *
281867 CCACAACTCTATGGTACTCTTTTAAATCCATACCTCCGTGGTACCTTTTTCTTTTCAAAGC
1 CCACAACTCCATGGCAC-CTTTTAAATCCATAACTCCGTGGTACCTTTTTCTTTTCAAAGC
* * * *
281928 CCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCTGTGGTACCTTTTTCTTTTTAAAGC
1 CCACAACTCCATGGCA-CCTTTTAAATCCATAACTCCGTGGTACCTTTTTCTTTTCAAAGC
*
281989 CTACAACTCCATGGCACCTTTT
1 CCACAACTCCATGGCACCTTTT
282011 TTCCTTTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
60 6 0.08
61 66 0.90
62 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.36
Consensus pattern (60 bp):
CCACAACTCCATGGCACCTTTTAAATCCATAACTCCGTGGTACCTTTTTCTTTTCAAAGC
Found at i:282046 original size:95 final size:94
Alignment explanation
Indices: 281900--282381 Score: 461
Period size: 95 Copynumber: 5.2 Consensus size: 94
281890 AAATCCATAC
* * * *
281900 CTCCGTGGTACC-TTTTT-CTTTTCAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCATAACT
1 CTCCGTGGCACCTTTTTTCCTTTT--AAGTCCACAACTCTGTGGCA-CCTTTTAAGTCCACAACT
* * *
281963 CTGTGGTACCTTTTTCTTTTTAAAGCCTACAA
63 CCGTGGCACCTTTTTCTTTTCAAAGCCTACAA
* * * * *
281995 CTCCATGGCACCTTTTTTCCTTTTAAGTCTACAACTTTGTGGCATCTTTTTAAGTCCACAACTCA
1 CTCCGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTAAGTCCACAACTCC
* *
282060 GTGGCATCTTTTT-TTTTCAAAGCCCACAA
65 GTGGCACCTTTTTCTTTTCAAAGCCTACAA
* *
282089 CTTCGTGGCATCC-TTTTTCCTTTTAAGTCCACAACTCTGTGGCACTCTTTTAAGTCCACAATTC
1 CTCCGTGGCA-CCTTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC-CTTTTAAGTCCACAACTC
* * *
282153 CATGGCACTTTTTTCTTTTCAAAGCCCACAA
64 CGTGGCACCTTTTTCTTTTCAAAGCCTACAA
* * ** * ** *
282184 CTCCGTAGCA-CTTTTTTTCTTTTCAAAACCCAAAACTCCATGGCACCTTTTAAGTCTACAACTC
1 CTCCGTGGCACCTTTTTTCCTTTT--AAGTCCACAACTCTGTGGCACCTTTTAAGTCCACAACTC
* *
282248 CGTGGCACATTTTTCTTTTTAAAG-CTCACAA
64 CGTGGCACCTTTTTCTTTTCAAAGCCT-ACAA
* * *
282279 CTCCGTGGCA--------CCTTTTAAGTCCACAACTCGGTGGCACCCTTTTAAGTCCGCAACTCT
1 CTCCGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTAAGTCCACAACTCC
*
282336 GTGGCACCTTTTTCTTTTCAAAGCCTATAA
65 GTGGCACCTTTTTCTTTTCAAAGCCTACAA
* *
282366 CTTCGTGGCACATTTT
1 CTCCGTGGCACCTTTT
282382 AAGTCCACAA
Statistics
Matches: 318, Mismatches: 52, Indels: 36
0.78 0.13 0.09
Matches are distributed among these distances:
86 15 0.05
87 50 0.16
88 7 0.02
93 2 0.01
94 88 0.28
95 130 0.41
96 21 0.07
97 5 0.02
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (94 bp):
CTCCGTGGCACCTTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTAAGTCCACAACTCCG
TGGCACCTTTTTCTTTTCAAAGCCTACAA
Found at i:282055 original size:27 final size:27
Alignment explanation
Indices: 282015--282072 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
282005 CCTTTTTTCC
* **
282015 TTTTAAGTCTACAACTTTGTGGCATCT
1 TTTTAAGTCCACAACTCAGTGGCATCT
282042 TTTTAAGTCCACAACTCAGTGGCATCT
1 TTTTAAGTCCACAACTCAGTGGCATCT
282069 TTTT
1 TTTT
282073 TTTTCAAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCAGTGGCATCT
Found at i:282158 original size:27 final size:27
Alignment explanation
Indices: 282108--282347 Score: 83
Period size: 27 Copynumber: 8.2 Consensus size: 27
282098 ATCCTTTTTC
**
282108 CTTTTAAGTCCACAACTCTGTGGCACT
1 CTTTTAAGTCCACAACTCCATGGCACT
*
282135 CTTTTAAGTCCACAATTCCATGGCACTTTTTT
1 CTTTTAAGTCCACAACTCCATGGCAC-----T
* * *
282167 CTTTTCAAAGCCCACAACTCCGTAGCACTTTTTTT
1 CTTTT--AAGTCCACAACTCCATGGCAC------T
** *
282202 CTTTTCAAAACCCAAAACTCCATGGCAC-
1 CTTTT--AAGTCCACAACTCCATGGCACT
* *
282230 CTTTTAAGTCTACAACTCCGTGGCACATTTTT
1 CTTTTAAGTCCACAACTCCATGGCAC-----T
*
282262 CTTTTTAAAG-CTCACAACTCCGTGGCAC-
1 C-TTTT-AAGTC-CACAACTCCATGGCACT
** *
282290 CTTTTAAGTCCACAACTCGGTGGCACC
1 CTTTTAAGTCCACAACTCCATGGCACT
* **
282317 CTTTTAAGTCCGCAACTCTGTGGCAC-
1 CTTTTAAGTCCACAACTCCATGGCACT
282343 CTTTT
1 CTTTT
282348 TCTTTTCAAA
Statistics
Matches: 174, Mismatches: 20, Indels: 39
0.75 0.09 0.17
Matches are distributed among these distances:
26 39 0.22
27 52 0.30
28 6 0.03
32 7 0.04
33 5 0.03
34 35 0.20
35 30 0.17
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.34
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCATGGCACT
Found at i:282183 original size:34 final size:34
Alignment explanation
Indices: 282144--282234 Score: 119
Period size: 35 Copynumber: 2.6 Consensus size: 34
282134 TCTTTTAAGT
* *
282144 CCACAATTCCATGGCACTTTTTTCTTTTCAAAGC
1 CCACAACTCCATGGCACTTTTTTCTTTTCAAAAC
* *
282178 CCACAACTCCGTAGCACTTTTTTTCTTTTCAAAAC
1 CCACAACTCCATGGCAC-TTTTTTCTTTTCAAAAC
* *
282213 CCAAAACTCCATGGCACCTTTT
1 CCACAACTCCATGGCACTTTTT
282235 AAGTCTACAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 18 0.38
35 30 0.62
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.35
Consensus pattern (34 bp):
CCACAACTCCATGGCACTTTTTTCTTTTCAAAAC
Found at i:282247 original size:26 final size:26
Alignment explanation
Indices: 282217--282347 Score: 120
Period size: 26 Copynumber: 4.7 Consensus size: 26
282207 CAAAACCCAA
* *
282217 AACTCCATGGCACCTTTTAAGTCTAC
1 AACTCCGTGGCACCTTTTAAGTCCAC
282243 AACTCCGTGGCACATTTTTCTTTTTAAAG-CTCAC
1 AACTCCGTGGCAC------C-TTTT-AAGTC-CAC
282277 AACTCCGTGGCACCTTTTAAGTCCAC
1 AACTCCGTGGCACCTTTTAAGTCCAC
* *
282303 AACTCGGTGGCACCCTTTTAAGTCCGC
1 AACTCCGTGGCA-CCTTTTAAGTCCAC
*
282330 AACTCTGTGGCACCTTTT
1 AACTCCGTGGCACCTTTT
282348 TCTTTTCAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 22
0.77 0.04 0.19
Matches are distributed among these distances:
26 35 0.39
27 29 0.33
28 1 0.01
32 1 0.01
33 5 0.06
34 18 0.20
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (26 bp):
AACTCCGTGGCACCTTTTAAGTCCAC
Found at i:282281 original size:60 final size:61
Alignment explanation
Indices: 282178--282315 Score: 188
Period size: 60 Copynumber: 2.3 Consensus size: 61
282168 TTTTCAAAGC
* *
282178 CCACAACTCCGTAGCACTTTTTTTCTTTTCAAAACCCAAAACTCCATGGCACCTTTTAAGT
1 CCACAACTCCGTGGCACTATTTTTCTTTTCAAAACCCAAAACTCCATGGCACCTTTTAAGT
* * * * * *
282239 CTACAACTCCGTGGCAC-ATTTTTCTTTTTAAAGCTCACAACTCCGTGGCACCTTTTAAGT
1 CCACAACTCCGTGGCACTATTTTTCTTTTCAAAACCCAAAACTCCATGGCACCTTTTAAGT
*
282299 CCACAACTCGGTGGCAC
1 CCACAACTCCGTGGCAC
282316 CCTTTTAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
60 52 0.78
61 15 0.22
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.31
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTATTTTTCTTTTCAAAACCCAAAACTCCATGGCACCTTTTAAGT
Found at i:282348 original size:27 final size:26
Alignment explanation
Indices: 282274--282347 Score: 112
Period size: 27 Copynumber: 2.8 Consensus size: 26
282264 TTTTAAAGCT
282274 CACAACTCCGTGGCACCTTTTAAGTC
1 CACAACTCCGTGGCACCTTTTAAGTC
*
282300 CACAACTCGGTGGCACCCTTTTAAGTC
1 CACAACTCCGTGGCA-CCTTTTAAGTC
* *
282327 CGCAACTCTGTGGCACCTTTT
1 CACAACTCCGTGGCACCTTTT
282348 TCTTTTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 20 0.45
27 24 0.55
ACGTcount: A:0.20, C:0.34, G:0.18, T:0.28
Consensus pattern (26 bp):
CACAACTCCGTGGCACCTTTTAAGTC
Found at i:282384 original size:60 final size:60
Alignment explanation
Indices: 282299--282441 Score: 164
Period size: 60 Copynumber: 2.4 Consensus size: 60
282289 CCTTTTAAGT
* * * ** *
282299 CCACAACTCGGTGGCACCCTTTTAAGTCCGCAACTCTGTGGCACCTTTTTCTTTTCAAA-G
1 CCACAACTCTGTGGCA-CATTTTAAGTCCACAACTCCATGGCACCTTTTTCTTGTCAAAGG
* **
282359 CCTATAACT-TCGTGGCACATTTTAAGTCCACAACTCCATGGCATGTTTTTCTTGTCAAAGG
1 CC-ACAACTCT-GTGGCACATTTTAAGTCCACAACTCCATGGCACCTTTTTCTTGTCAAAGG
282420 CCACAACTCTGTGGCACATTTT
1 CCACAACTCTGTGGCACATTTT
282442 TTCCTTTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
60 54 0.78
61 15 0.22
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (60 bp):
CCACAACTCTGTGGCACATTTTAAGTCCACAACTCCATGGCACCTTTTTCTTGTCAAAGG
Found at i:282401 original size:87 final size:86
Alignment explanation
Indices: 282217--282401 Score: 255
Period size: 87 Copynumber: 2.1 Consensus size: 86
282207 CAAAACCCAA
* *
282217 AACTCCATGGCACCTTTTAAGTCTACAACTCCGTGGCACATTTTTCTTTTTAAAGCTCACAACTC
1 AACTCCATGGCACCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTCAAAGCTCACAACTC
*
282282 CGTGGCACCTTTTAAGTCCAC
66 CGTGGCACATTTTAAGTCCAC
** * * * *
282303 AACTCGGTGGCACCCTTTTAAGTCCGCAACTCTGTGGCACCTTTTTCTTTTCAAAGC-CTATAAC
1 AACTCCATGGCA-CCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTCAAAGCTC-ACAAC
*
282367 TTCGTGGCACATTTTAAGTCCAC
64 TCCGTGGCACATTTTAAGTCCAC
282390 AACTCCATGGCA
1 AACTCCATGGCA
282402 TGTTTTTCTT
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
86 11 0.13
87 74 0.87
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.32
Consensus pattern (86 bp):
AACTCCATGGCACCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTCAAAGCTCACAACTC
CGTGGCACATTTTAAGTCCAC
Found at i:282649 original size:33 final size:32
Alignment explanation
Indices: 282503--282736 Score: 258
Period size: 32 Copynumber: 7.2 Consensus size: 32
282493 GGCGCCTTTT
* ** * *
282503 CCTTTTAAAGCCCACACAAGTCAATAGTAA-C
1 CCTTCTAAAGCCCACACAAGTCTGTGGCAACC
* * *
282534 CCTTCTCAAAGCCCACACAAGTTTATGGCAATC
1 CCTTCT-AAAGCCCACACAAGTCTGTGGCAACC
*
282567 TCTTCTAAAGCCCACACAAG-CTGGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCT-GTGGCAACC
* *
282599 CCTTCAAAAGCCTACACAAGTCTGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCTGTGGCAACC
282631 CCTCTCTAAAGCCCACACAAG-CTGGTGGCAACC
1 CCT-TCTAAAGCCCACACAAGTCT-GTGGCAACC
* *
282664 TCTTCTAAAGCCTACACAAGTCTGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCTGTGGCAACC
* * *
282696 CCTCTCTAAAGCCCACACAAGTCGGTGGCATCT
1 CCT-TCTAAAGCCCACACAAGTCTGTGGCAACC
282729 CCTTCTAA
1 CCTTCTAA
282737 GACCAATATC
Statistics
Matches: 174, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
31 6 0.03
32 104 0.60
33 64 0.37
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.21
Consensus pattern (32 bp):
CCTTCTAAAGCCCACACAAGTCTGTGGCAACC
Found at i:282734 original size:65 final size:64
Alignment explanation
Indices: 282531--282736 Score: 290
Period size: 65 Copynumber: 3.2 Consensus size: 64
282521 AGTCAATAGT
* * * * *
282531 AACCCTTCTCAAAGCCCACACAAGTTTATGGCAATCTCT-TCTAAAGCCCACACAAGCTGGTGGC
1 AACCCTTCT-AAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCTGGTGGC
*
282595 AACCCCTTCAAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCTGGTGGC
1 AA-CCCTTCTAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCTGGTGGC
282660 AACCTCTTCTAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAG-TCGGTGG
1 AACC-CTTCTAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCT-GGTGG
282724 C
64 C
*
282725 ATCTCCTTCTAA
1 AAC-CCTTCTAA
282737 GACCAATATC
Statistics
Matches: 129, Mismatches: 8, Indels: 9
0.88 0.05 0.06
Matches are distributed among these distances:
64 29 0.22
65 99 0.77
66 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.21
Consensus pattern (64 bp):
AACCCTTCTAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCTGGTGGC
Found at i:282736 original size:97 final size:95
Alignment explanation
Indices: 282503--282736 Score: 281
Period size: 97 Copynumber: 2.4 Consensus size: 95
282493 GGCGCCTTTT
* * * * * * *
282503 CCTTTTAAAGCCCACACAAGTCAATAGTAACCCTTCTCAAAGCCCACACAAGTTTATGGCAATCT
1 CCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCT-AAAGCCCACACAAGCTGATGGCAACCT
282568 CTTCTAAAGCCCACACAAGCTGGTGGCAACC
65 CTTCTAAAGCCCACACAAGCTGGTGGCAACC
* * * *
282599 CCTTCAAAAGCCTACACAAGTCTGTGGCAACCCCTCTCTAAAGCCCACACAAGCTGGTGGCAACC
1 CCTTCTAAAGCCCACACAAGTCAGTGGCAA-CCCT-TCTAAAGCCCACACAAGCTGATGGCAACC
*
282664 TCTTCTAAAGCCTACACAAGTCT-GTGGCAACC
64 TCTTCTAAAGCCCACACAAG-CTGGTGGCAACC
* *
282696 CCTCTCTAAAGCCCACACAAGTCGGTGGCATCTCCTTCTAA
1 CCT-TCTAAAGCCCACACAAGTCAGTGGCAAC-CCTTCTAA
282737 GACCAATATC
Statistics
Matches: 117, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
96 23 0.20
97 63 0.54
98 31 0.26
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.21
Consensus pattern (95 bp):
CCTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTCTAAAGCCCACACAAGCTGATGGCAACCTC
TTCTAAAGCCCACACAAGCTGGTGGCAACC
Found at i:283836 original size:42 final size:42
Alignment explanation
Indices: 283777--283958 Score: 328
Period size: 42 Copynumber: 4.3 Consensus size: 42
283767 ACTAAGGAAA
283777 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
1 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
283819 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
1 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
283861 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
1 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
* * * *
283903 TTTATCAATAAATTACTCAATGTATTGATACATGTTTACAAT
1 TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
283945 TGTATCGATACATT
1 TGTATCGATACATT
283959 TTATTGTATC
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 133 1.00
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.40
Consensus pattern (42 bp):
TGTATCGATACATTACTCAATGTATCGATACATGTTTACAAT
Found at i:290542 original size:26 final size:26
Alignment explanation
Indices: 290506--290557 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
290496 AAGTGGCCAA
* *
290506 AAAATTTGTACTCTGAACTTAAATTT
1 AAAATTGGTACTCTGAACCTAAATTT
290532 AAAATTGGTACTCTGAACCTAAATTT
1 AAAATTGGTACTCTGAACCTAAATTT
290558 TAGTGTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (26 bp):
AAAATTGGTACTCTGAACCTAAATTT
Found at i:294320 original size:21 final size:21
Alignment explanation
Indices: 294296--294344 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
294286 TTATGCCTGA
*
294296 GTATCGATACA-TTCACTTAAG
1 GTATCGAGACATTTCAC-TAAG
*
294317 GTATCGAGACATTTCACTAAT
1 GTATCGAGACATTTCACTAAG
294338 GTATCGA
1 GTATCGA
294345 CATGAGGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGAGACATTTCACTAAG
Found at i:296135 original size:13 final size:13
Alignment explanation
Indices: 296117--296142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
296107 ACATTTGGTC
296117 ATGTATCGATACA
1 ATGTATCGATACA
296130 ATGTATCGATACA
1 ATGTATCGATACA
296143 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:296137 original size:33 final size:32
Alignment explanation
Indices: 296095--296162 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
296085 CGTTACAAGC
296095 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
296128 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
296160 CAA
1 CAA
296163 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:296250 original size:13 final size:13
Alignment explanation
Indices: 296232--296256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
296222 ACATTTGGTC
296232 ATGTATCGATACA
1 ATGTATCGATACA
296245 ATGTATCGATAC
1 ATGTATCGATAC
296257 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:296916 original size:47 final size:47
Alignment explanation
Indices: 296835--296949 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
296825 AAATAAAAAA
*
296835 TTTCTCCCCCTTAA-TA-AAA--CAATTTCTTTTAATCACATGTTTC
1 TTTCTCCCCCTTAATTATAAATTTAATTTCTTTTAATCACATGTTTC
296878 TTTCTCCCCCTTAATTATAAATTTAATTTCTTTTAATCACATGTTTC
1 TTTCTCCCCCTTAATTATAAATTTAATTTCTTTTAATCACATGTTTC
296925 TTTCTCCCCCTTAATTATAAATTTA
1 TTTCTCCCCCTTAATTATAAATTTA
296950 TTTACAGAAG
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
43 14 0.21
44 2 0.03
45 3 0.04
47 48 0.72
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.48
Consensus pattern (47 bp):
TTTCTCCCCCTTAATTATAAATTTAATTTCTTTTAATCACATGTTTC
Found at i:298784 original size:13 final size:13
Alignment explanation
Indices: 298766--298796 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
298756 ATAAACCCTT
*
298766 TGTATCAATACAC
1 TGTATCAATACAA
298779 TGTATCAATACAA
1 TGTATCAATACAA
298792 TGTAT
1 TGTAT
298797 GGATATAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (13 bp):
TGTATCAATACAA
Found at i:303793 original size:12 final size:12
Alignment explanation
Indices: 303776--303801 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
303766 CATTTGTAGA
303776 ATGTATCGATAC
1 ATGTATCGATAC
303788 ATGTATCGATAC
1 ATGTATCGATAC
303800 AT
1 AT
303802 TGATCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:306276 original size:50 final size:50
Alignment explanation
Indices: 306144--306276 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 50
306134 TTAAGTTTCT
* * * *
306144 CAATTGTTCACAATCGGGGATACTCTAACTCCAATTTTATTTTCGAAACAC
1 CAATT-TTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
306195 CAATATCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
*
306245 CAATTTTCACAATCAGGGATACTCCAACCCCG
1 CAATTTTCACAATCGGGGATACTCCAACCCCG
306277 TTAATCATCG
Statistics
Matches: 72, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 68 0.94
51 4 0.06
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.28
Consensus pattern (50 bp):
CAATTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:306295 original size:27 final size:27
Alignment explanation
Indices: 306256--306331 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
306246 AATTTTCACA
306256 ATCA-GGGATACTCCAACCCCGTTAATC
1 ATCAGGGGATACTCCAACCCCGTT-ATC
*
306283 ATC-GGGGATACTCCAACCCCGTTATT
1 ATCAGGGGATACTCCAACCCCGTTATC
*
306309 TTCGAGGGGATACTCCAACCCCG
1 ATC-AGGGGATACTCCAACCCCG
306332 ATTTTATTCC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 4 0.09
27 22 0.50
28 18 0.41
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (27 bp):
ATCAGGGGATACTCCAACCCCGTTATC
Found at i:306417 original size:79 final size:79
Alignment explanation
Indices: 306283--306489 Score: 308
Period size: 79 Copynumber: 2.6 Consensus size: 79
306273 CCCGTTAATC
* *
306283 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCT-AAAT
*
306348 -ATTGATTTCTCACA
65 CATCGATTTCTCACA
* * *
306362 ATCGGGGATACTCCAACCACGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAATC
1 ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAATC
* *
306427 ATCGATTTTTCGCA
66 ATCGATTTCTCACA
* *
306441 ATCGGGGATACTCCAACCTCGTTATTTTTGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCG
306490 TTATTATCTC
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
78 4 0.03
79 112 0.97
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCACGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAATC
ATCGATTTCTCACA
Found at i:309034 original size:13 final size:13
Alignment explanation
Indices: 309016--309041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
309006 CGTTACAAGC
309016 ATGTATCGATACA
1 ATGTATCGATACA
309029 ATGTATCGATACA
1 ATGTATCGATACA
309042 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:309160 original size:13 final size:13
Alignment explanation
Indices: 309142--309166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
309132 ACATTTGGTC
309142 ATGTATCGATACA
1 ATGTATCGATACA
309155 ATGTATCGATAC
1 ATGTATCGATAC
309167 TGTGCATTAT
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):
ATGTATCGATACA
Done.