Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 12
Found at i:140676 original size:15 final size:15
Alignment explanation
Indices: 140643--140738 Score: 61
Period size: 15 Copynumber: 6.5 Consensus size: 15
140633 GCATAGGTAT
* * *
140643 TTTGTCACAAATACA
1 TTTGGCACAAGTACC
140658 TTTGGCACAAGTACC
1 TTTGGCACAAGTACC
* * * *
140673 TTTGCCATAGGTATC
1 TTTGGCACAAGTACC
140688 -TTGGCACAAGTACC
1 TTTGGCACAAGTACC
** * *
140702 TTCAGCATAAGTA-T
1 TTTGGCACAAGTACC
*
140716 TTTGGCATAAGTACC
1 TTTGGCACAAGTACC
140731 TTTAGGCA
1 TTT-GGCA
140739 TCAACATTTC
Statistics
Matches: 60, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
14 21 0.35
15 35 0.58
16 4 0.07
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (15 bp):
TTTGGCACAAGTACC
Found at i:140692 original size:29 final size:28
Alignment explanation
Indices: 140659--140733 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
140649 ACAAATACAT
*
140659 TTGGCACAAGTACCTTTGCCATAGGTATC
1 TTGGCACAAGTACCTTTG-CATAAGTATC
* *
140688 TTGGCACAAGTACCTTCAGCATAAGTATT
1 TTGGCACAAGTACCTT-TGCATAAGTATC
*
140717 TTGGCATAAGTACCTTT
1 TTGGCACAAGTACCTTT
140734 AGGCATCAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 39 0.98
30 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (28 bp):
TTGGCACAAGTACCTTTGCATAAGTATC
Found at i:142149 original size:29 final size:30
Alignment explanation
Indices: 142084--142150 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 30
142074 GAGGTTTTAT
142084 TTAAAAATTAATGCCATTTTTATTCGATGCA
1 TTAAAAA-TAATGCCATTTTTATTCGATGCA
* *
142115 TT-AAAATAAT-CACA-TTTTATTGGGTGCA
1 TTAAAAATAATGC-CATTTTTATTCGATGCA
142143 TTAAAAAT
1 TTAAAAAT
142151 TATATGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 15 0.47
29 11 0.34
30 4 0.12
31 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (30 bp):
TTAAAAATAATGCCATTTTTATTCGATGCA
Found at i:142324 original size:17 final size:17
Alignment explanation
Indices: 142304--142342 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
142294 AAATTCTTAT
142304 TTTAAATAAAAGATTAA
1 TTTAAATAAAAGATTAA
* * *
142321 TTTATATTAAAGATTTA
1 TTTAAATAAAAGATTAA
142338 TTTAA
1 TTTAA
142343 TTATAAATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTAAATAAAAGATTAA
Found at i:142371 original size:29 final size:29
Alignment explanation
Indices: 142328--142437 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 29
142318 TAATTTATAT
* *
142328 TAAAGATTTATTTAATTATAAATTAAAGA
1 TAAAAATTTATTTAAGTATAAATTAAAGA
142357 CTAAAAATTTA-TTAAGTATAAATTAAAGA
1 -TAAAAATTTATTTAAGTATAAATTAAAGA
* *
142386 TCAAGAGTTTATTTAGAGT-TAAATTAAAGA
1 T-AAAAATTTATTTA-AGTATAAATTAAAGA
*
142416 TTAAGAATTTATTTTAA-TATAA
1 -TAAAAATTTA-TTTAAGTATAA
142438 TAAAAATAAG
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
28 1 0.01
29 25 0.36
30 35 0.51
31 8 0.12
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (29 bp):
TAAAAATTTATTTAAGTATAAATTAAAGA
Found at i:143647 original size:109 final size:109
Alignment explanation
Indices: 143456--143682 Score: 391
Period size: 109 Copynumber: 2.1 Consensus size: 109
143446 ATCTCTATTG
*
143456 ATTACATGAAATCAAAGGATAATATCATGGATCCACTTATGAAAGGCTTAACTAGAGAGCAAGTC
1 ATTACATAAAATCAAAGGATAATATCATGGATCCACTTATGAAAGGCTTAACTAGAGAGCAAGTC
*
143521 GATAAATCATCGAGGGGAATGGGACTTGAGCTTATAAATTAAAA
66 GATAAATCATCGAGGGGAATGGGACTTGAGCCTATAAATTAAAA
* **
143565 ATTACATAAAATCAAAGGATAATATCATGGATCCACTTATGAAAGGCTTAACTATAGATTAAGTC
1 ATTACATAAAATCAAAGGATAATATCATGGATCCACTTATGAAAGGCTTAACTAGAGAGCAAGTC
143630 GATAAATCATCGAGGGGAATGGGACTTGAGCCTATAAATTAAAA
66 GATAAATCATCGAGGGGAATGGGACTTGAGCCTATAAATTAAAA
* *
143674 GTTATATAA
1 ATTACATAA
143683 TGGTAACCCA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.26
Consensus pattern (109 bp):
ATTACATAAAATCAAAGGATAATATCATGGATCCACTTATGAAAGGCTTAACTAGAGAGCAAGTC
GATAAATCATCGAGGGGAATGGGACTTGAGCCTATAAATTAAAA
Found at i:144845 original size:31 final size:31
Alignment explanation
Indices: 144770--144837 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
144760 GATTTTTAAA
*
144770 TTTAAAATT--GATTCTGATTTGATTTTGTT
1 TTTAAAATTAAGATTATGATTTGATTTTGTT
144799 TTTAAAATTAAGATTATGATTTGATTTT-TT
1 TTTAAAATTAAGATTATGATTTGATTTTGTT
144829 TTTAAAATT
1 TTTAAAATT
144838 CTCGATTACA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 9 0.25
30 11 0.31
31 16 0.44
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.57
Consensus pattern (31 bp):
TTTAAAATTAAGATTATGATTTGATTTTGTT
Found at i:145333 original size:29 final size:29
Alignment explanation
Indices: 145284--145339 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
145274 ATTCATTACA
*
145284 AAATTAAAAGTATGATGATAAAATTGCAT
1 AAATTAAAAGTATGATAATAAAATTGCAT
* *
145313 AAATTAAAAG-ATTAGTAATAAATTTGC
1 AAATTAAAAGTATGA-TAATAAAATTGC
145340 TCTATTCACG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (29 bp):
AAATTAAAAGTATGATAATAAAATTGCAT
Found at i:146852 original size:18 final size:19
Alignment explanation
Indices: 146822--146857 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
146812 TAATAATAGA
146822 TCGTTATTACTGTTATTTT
1 TCGTTATTACTGTTATTTT
146841 TCGTTA-TACTGTTATTT
1 TCGTTATTACTGTTATTT
146858 ACGATCGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (19 bp):
TCGTTATTACTGTTATTTT
Found at i:148099 original size:29 final size:28
Alignment explanation
Indices: 148039--148100 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
148029 TTCTGATTTT
* * *
148039 TTTAAGTAAATTAAGAGCTAACGATTGA
1 TTTAAGTAAAATAAAAGCTAAAGATTGA
148067 TTTAAGTAAAATAAAAGCGTAAGAGATT-A
1 TTTAAGTAAAATAAAAGC-TAA-AGATTGA
148096 TTTAA
1 TTTAA
148101 TATATTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 16 0.55
29 9 0.31
30 4 0.14
ACGTcount: A:0.47, C:0.05, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTAAGTAAAATAAAAGCTAAAGATTGA
Found at i:148471 original size:11 final size:11
Alignment explanation
Indices: 148455--148480 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
148445 AACAATAGTT
148455 TATTTTTAATA
1 TATTTTTAATA
148466 TATTTTTAATA
1 TATTTTTAATA
148477 TATT
1 TATT
148481 GACATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTTAATA
Found at i:149322 original size:21 final size:21
Alignment explanation
Indices: 149288--149331 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
149278 TCTTAGTTTT
*
149288 TATATTAATTTTAAATTTTAAAA
1 TATATTAA-TTTAAA-ATTAAAA
149311 TATATTAA-TTAAAATTAAAA
1 TATATTAATTTAAAATTAAAA
149331 T
1 T
149332 TTTATACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
23 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATTAATTTAAAATTAAAA
Found at i:150583 original size:20 final size:20
Alignment explanation
Indices: 150546--150583 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
150536 GATAAGGAAG
*
150546 AGATAAAAAAATATATAATT
1 AGATAAAAAAATAAATAATT
150566 AGATAAAAATAA-AAATAA
1 AGATAAAAA-AATAAATAA
150584 AAAGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
AGATAAAAAAATAAATAATT
Found at i:158614 original size:13 final size:13
Alignment explanation
Indices: 158596--158621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
158586 ATACATTCTT
158596 CATTGTATCGATA
1 CATTGTATCGATA
158609 CATTGTATCGATA
1 CATTGTATCGATA
158622 TATTCTGGGT
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):
CATTGTATCGATA
Found at i:161095 original size:28 final size:28
Alignment explanation
Indices: 161064--161133 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
161054 ATAATCGGAA
*
161064 ATACTCCAACCCCGTTATTTCAT-CGGGG
1 ATACTCCAACCCCGTTATTTC-TGAGGGG
* **
161092 ATACTCCAATCCTATTATTTCTGAGGGG
1 ATACTCCAACCCCGTTATTTCTGAGGGG
161120 ATACTCCAACCCCG
1 ATACTCCAACCCCG
161134 ACTTTATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
ATACTCCAACCCCGTTATTTCTGAGGGG
Found at i:161192 original size:51 final size:51
Alignment explanation
Indices: 161119--161235 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
161109 TTTCTGAGGG
* *
161119 GATACTCCAACCCCGACTTTATTT-TCAAAATATTGATTTCTCACAATCGGA
1 GATACTCCAACCCCGACTTTATTTCT-AAAACATCGATTTCTCACAATCGGA
* * * * * *
161170 GATACTCTAACCCC-AGTCTTATTTCTAAAGCATCGATTTTTCATAATCGGG
1 GATACTCCAACCCCGACT-TTATTTCTAAAACATCGATTTCTCACAATCGGA
161221 GATACTCCAACCCCG
1 GATACTCCAACCCCG
161236 TTATTTTCGA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
50 2 0.04
51 51 0.94
52 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GATACTCCAACCCCGACTTTATTTCTAAAACATCGATTTCTCACAATCGGA
Found at i:161393 original size:79 final size:79
Alignment explanation
Indices: 161170--161395 Score: 319
Period size: 79 Copynumber: 2.9 Consensus size: 79
161160 CACAATCGGA
* * * * * * *
161170 GATACTCTAACCCCAGTCTTATTTCTAAAGCATCGATTTTTCATAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAACCCT
161235 GTTATTTTCGAGGG
66 GTTATTTTCGAGGG
* * * **
161249 GATACTCCAACCCCGATTTTATTTTCAAAATACCGA-TTTTCTATAATTAGGGATACTCCAACCC
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTC-ATAATCGGGGATACTCCAACCC
161313 TGTTATTTTCGAGGG
65 TGTTATTTTCGAGGG
*
161328 GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAGCCCT
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAACCCT
161393 GTT
66 GTT
161396 GTTATCTCCA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 5 0.04
79 117 0.92
80 5 0.04
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCGGTTTTATTTCCAAAACACCGATTTTTCATAATCGGGGATACTCCAACCCT
GTTATTTTCGAGGG
Found at i:165648 original size:61 final size:61
Alignment explanation
Indices: 165523--166184 Score: 993
Period size: 61 Copynumber: 10.8 Consensus size: 61
165513 TAGCCCTTTT
**
165523 TAGTCCTCAAAGAGCAGGATGCCTTTTTTATTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
* * *
165586 TAGTCCTCAAAGAGCAGGATGCATTTTCCTTTTAAAACCCACACAAGTTGGTGGCACATTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
165647 TAGTACTCAAAGAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAG--AGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
165710 TAGTCCTTAAAGAATAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
165771 TAGTCCTCAAAGAGTAGGATGCCTTTGCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
165832 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACATTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
165893 TAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * *
165954 TAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
* *
166016 TAGTCCTCAAAGAG-AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTAGCACTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
166076 TAGTTCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
166137 TAGTCCTCAAAGAGCAGGACGTTTTTTCCTTTTAAAGCCCACACAAGT
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGT
166185 CCTCAAAGAG
Statistics
Matches: 545, Mismatches: 50, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
60 37 0.07
61 383 0.70
62 47 0.09
63 78 0.14
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:165952 original size:183 final size:183
Alignment explanation
Indices: 165518--166450 Score: 1159
Period size: 183 Copynumber: 5.1 Consensus size: 183
165508 ATTTTTAGCC
* * **
165518 CTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTTTATTTTCAAAGCCCACACAAGTTGGTGGCACC
1 CTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACC
* * * *
165583 TTCTAGTCCTCAAAGAGCAGGATGCATTTTCCTTTTAAAACCCACACAAGTTGGTGGCACATTCT
64 TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT
*
165648 AGTACTCAAAGAAAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
129 AGTCCTCAAAG--AGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
165705 CCTTCTAGTCCTTAAAGAATAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
165770 CTAGTCCTCAAAGAGTAGGATGCCTTTGCCTTTTAAAGTCCACACAAGTTGGTGGCACCTTCTAG
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
165835 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
131 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
165888 CATTCTAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
165953 CTAGTCCTCAAAGAGCAGGACGCTTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATCTTCTA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTA
*
166018 GTCCTCAAAGAG-AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTAGCA
130 GTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
166071 CTTTCTAGTTCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTT
1 CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
**
166136 CTAGTCCTCAAAGAGCAGGACGTTTTTTCCTTTTAAAG-CC-CAC-A--------CA------AG
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
* *
166184 TCCTCAAAGAGCTA-GACGCCTTTTCCTTTTAAAGCCCACACAGGTTGGTGGCA
131 TCCTCAAAGAGC-AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
166237 CTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCAC
1 C-TTTCTAGTCCTCAAAGAGCAGGACGCC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCAC
* * * * * * * **
166302 TTTTCTAATCCTCAAAGAGCAAGACACCTTTTTCTTTTAAAGCCCATACAAGTTGGTAGCATTTT
63 -CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
166367 CCAATCCTCAAAGAGTAGGATG-CTTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA
127 CTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
166424 CTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTTTCTAGTCCTCAAAGAGCAGGACGC
166451 TCTCTCTTTT
Statistics
Matches: 654, Mismatches: 66, Indels: 53
0.85 0.09 0.07
Matches are distributed among these distances:
165 13 0.02
166 37 0.06
167 25 0.04
168 9 0.01
169 22 0.03
170 34 0.05
171 4 0.01
172 2 0.00
173 1 0.00
179 1 0.00
180 2 0.00
181 4 0.01
182 4 0.01
183 260 0.40
184 39 0.06
185 94 0.14
186 36 0.06
187 67 0.10
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (183 bp):
CTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
CTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAG
TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:166208 original size:44 final size:44
Alignment explanation
Indices: 166138--166225 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
166128 GGCACCTTCT
**
166138 AGTCCTCAAAGAGCAGGACGTTTTTTCCTTTTAAAGCCCACACA
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
166182 AGTCCTCAAAGAGCTA-GACGCCTTTTCCTTTTAAAGCCCACACA
1 AGTCCTCAAAGAGC-AGGACGCCTTTTCCTTTTAAAGCCCACACA
166226 GGTTGGTGGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 40 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (44 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACA
Found at i:166295 original size:64 final size:62
Alignment explanation
Indices: 166182--166448 Score: 317
Period size: 61 Copynumber: 4.3 Consensus size: 62
166172 AGCCCACACA
* * *
166182 AGTCCTCAAAGAGCTA-GACGCCTTTTCCTTTTAAAGCCCACACAGGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGC-AGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * *
166244 AGTCCTCAAAGAGCAGGACACCTTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACTTTTCT
1 AGTCCTCAAAGAGCAGGACACC-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCC
* * * * *
166308 AATCCTCAAAGAGCAAGACACCTTTTTCTTTTAAAGCCCATACAAGTTGGTAGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * ** * *
166369 AATCCTCAAAGAGTAGGA-TGCTTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCAC-TTCCC
1 AGTCCTCAAAGAGCAGGACACCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
166430 AGTCCTCAAAGAGCAGGAC
1 AGTCCTCAAAGAGCAGGAC
166449 GCTCTCTCTT
Statistics
Matches: 178, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
60 4 0.02
61 68 0.38
62 39 0.22
63 19 0.11
64 48 0.27
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (62 bp):
AGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:166772 original size:179 final size:178
Alignment explanation
Indices: 166471--166850 Score: 528
Period size: 179 Copynumber: 2.1 Consensus size: 178
166461 CACCCTTTAG
* * *
166471 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGA
1 TCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCCTTCAGTCCTCAAAGA
* * * * *
166536 GTAGGACGCCTTTTCCTTTTAAAGCCCACACGAGCTGGTGGCACCTTTCTAGTCCTCAAAGAGCA
66 GCAAGACGCCTTTTCCTTGTAAAACCCACACAAGCTGGTGGCACCTTTCTAGTCCTCAAAGAGCA
* * **
166601 AGACACATTTTTCTTTTCAAAGCCCACATAAGTTGGTTGGCATTTTCCAA
131 AGACACATTTTCCTTTT-AAAGCCCACACAAGTTGG-TGGCACCTTCCAA
*
166651 TCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGCTGGTGGCA-CCTTCAGTCCTCAAAGA
1 TCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCCTTCAGTCCTCAAAGA
* * * * *
166715 GCAAGATGTCTTTTCCTTGTAAAACCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCT
66 GCAAGACGCCTTTTCCTTGTAAAACCCACACAAGCTGGTGGCACCTTTCTAGTCCTCAAAGAGCA
* * * * *
166780 GGACACCTTTTCCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTAG
131 AGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
166828 TCCTCAAAGAGTAGGATGCCTTT
1 TCCTCAAAGAGTAGGATGCCTTT
166851 TCTTTTCAAA
Statistics
Matches: 176, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
177 31 0.18
178 16 0.09
179 85 0.48
180 44 0.25
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (178 bp):
TCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACAAGCTGGTGGCACCCTTCAGTCCTCAAAGA
GCAAGACGCCTTTTCCTTGTAAAACCCACACAAGCTGGTGGCACCTTTCTAGTCCTCAAAGAGCA
AGACACATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAA
Found at i:166852 original size:61 final size:61
Alignment explanation
Indices: 166489--166916 Score: 446
Period size: 61 Copynumber: 7.1 Consensus size: 61
166479 GAGCAGGATG
*
166489 CCTTTCAAAGCCCACACAAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * * * *
166550 CCTTTTAAAGCCCACACGAGCTGGTGGCACCTTTCTAGTCCTCAAAGAGCAAGACACATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * ** * *
166612 TCTTTTCAAAGCCCACATAAGTTGGTTGGCATTTTCCAATCCTCAAAGAGTAGGACGCC-TTT
1 CCTTTT-AAAGCCCACACAAGTTGG-TGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * * *
166674 -C----AAAGCCCACACAAGCTGGTGGCACCTTC-AGTCCTCAAAGAGCAAGATGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
* * * *
166729 CCTTGTAAAACCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCT-GGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAG-TAGGACGCCTTTT
* *
166791 CCTTTTAAAGCCCATACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
** * * *
166852 -CTTTTCAAAGCCCACACGAA-TTGGTGGCATTTTTTAGTCCTCGAAGAATAGGACGCCTTTT
1 CCTTTT-AAAGCCCACAC-AAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
166913 CCTT
1 CCTT
166917 CTCTCCTTTG
Statistics
Matches: 301, Mismatches: 49, Indels: 33
0.79 0.13 0.09
Matches are distributed among these distances:
54 17 0.06
55 11 0.04
56 17 0.06
60 30 0.10
61 103 0.34
62 83 0.28
63 35 0.12
64 5 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCCTTTT
Found at i:167039 original size:84 final size:84
Alignment explanation
Indices: 166920--167171 Score: 242
Period size: 84 Copynumber: 3.0 Consensus size: 84
166910 TTTCCTTCTC
* * * *
166920 TCCTTTGTCCTCAAAGGGCAGGACACATTTCATTTCTTTCTTTTTCTTTTTGTCCTCAAAGAGCA
1 TCCTTTGTCCTCAAAGAGCAAGACGCATTTCATTTCCTTCTTTTTCTTTTTGTCCTCAAAGAGCA
166985 GGATGCCTTTTTTTCTTTT
66 GGATGCCTTTTTTTCTTTT
* * * * *
167004 TCCTTTGTCCTCAAAGAGCATGACGCACTTT-ATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAG
1 TCCTTTGTCCTCAAAGAGCAAGACGCA-TTTCATTTCCTTCTTTT-TCTTTTTGTCCTCAAAGAG
* **
167068 CAAGACACACTTTATTTTTCTTTT
64 CAGGATGC-C-TT-TTTTTCTTTT
* * ** *
167092 TCTTTTGTCCTCAAAAAGCAAGACGCATTTTGTTTTCCTT-TTTTTC-CTTTGTCCTCGAAA-AG
1 TCCTTTGTCCTCAAAGAGCAAGACGCA-TTTCATTTCCTTCTTTTTCTTTTTGTCCTC-AAAGAG
*
167154 CAGGATGTACTTTTTTTC
64 CAGGATG-CCTTTTTTTC
167172 ACTTTGTCCT
Statistics
Matches: 135, Mismatches: 25, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
84 42 0.31
85 25 0.19
86 14 0.10
87 6 0.04
88 41 0.30
89 7 0.05
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.44
Consensus pattern (84 bp):
TCCTTTGTCCTCAAAGAGCAAGACGCATTTCATTTCCTTCTTTTTCTTTTTGTCCTCAAAGAGCA
GGATGCCTTTTTTTCTTTT
Found at i:167045 original size:44 final size:43
Alignment explanation
Indices: 166920--167155 Score: 209
Period size: 44 Copynumber: 5.5 Consensus size: 43
166910 TTTCCTTCTC
* * *
166920 TCCTTTGTCCTCAAAGGGCAGGACACA-TTTCATTTCTTTCTTTT
1 TCCTTTGTCCTCAAAGAGCAAGACGCACTTT-ATTTC-TTCTTTT
* * *
166964 TCTTTTTGTCCTCAAAGAGCAGGATGC-C-TT-TTT-TTCTTTT
1 TC-CTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCTTCTTTT
*
167004 TCCTTTGTCCTCAAAGAGCATGACGCACTTTATTTCCTTCTTTT
1 TCCTTTGTCCTCAAAGAGCAAGACGCACTTTATTT-CTTCTTTT
* * *
167048 CCCTTCTAGTTCTCAAAGAGCAAGACACACTTTATTT-TTCTTTT
1 TCCTT-T-GTCCTCAAAGAGCAAGACGCACTTTATTTCTTCTTTT
* * * *
167092 TCTTTTGTCCTCAAAAAGCAAGACGCATTTTGTTTTCCTT-TTTT
1 TCCTTTGTCCTCAAAGAGCAAGACGCACTTT-ATTT-CTTCTTTT
167136 TCCTTTGTCCTCGAAA-AGCA
1 TCCTTTGTCCTC-AAAGAGCA
167156 GGATGTACTT
Statistics
Matches: 160, Mismatches: 19, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
39 21 0.13
40 10 0.06
41 2 0.01
42 27 0.17
43 4 0.03
44 44 0.28
45 26 0.16
46 26 0.16
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (43 bp):
TCCTTTGTCCTCAAAGAGCAAGACGCACTTTATTTCTTCTTTT
Found at i:170330 original size:28 final size:28
Alignment explanation
Indices: 170292--170367 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
170282 ATTTTTCATA
* *
170292 ATCGGGAATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
*
170320 ATCGGGGATACTCCAATCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
***
170348 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
170368 TACTTTATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:170443 original size:51 final size:51
Alignment explanation
Indices: 170354--170467 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 51
170344 TTTCCGAGGG
* * * *
170354 GATACTCCAACCCCTACTTTATTTCCAAAATATTGATTTCTCACAATTAGA
1 GATACTCCAACCCCTACCTTATTTCCAAAACATCGATTTCTCACAATCAGA
* * * * * *
170405 GATACTCCAACCCC-AGCCTTATTTCTAAAGCATCGATTTTTTACAATCGGG
1 GATACTCCAACCCCTA-CCTTATTTCCAAAACATCGATTTCTCACAATCAGA
170456 GATACTCCAACC
1 GATACTCCAACC
170468 TCGTTATTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 51 0.98
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.32
Consensus pattern (51 bp):
GATACTCCAACCCCTACCTTATTTCCAAAACATCGATTTCTCACAATCAGA
Found at i:170489 original size:79 final size:78
Alignment explanation
Indices: 170405--170626 Score: 232
Period size: 79 Copynumber: 2.8 Consensus size: 78
170395 CACAATTAGA
** * * * *
170405 GATACTCCAACCCCAGCCTTATTTCTAAAGCATCGATTTTTTACAATCGGGGATACTCCAACCTC
1 GATACTCCAACCCCAGATTTATTTCTAAAACACCGATTTTCTATAATCGGGGATACTCCAACC-C
*
170470 GTTATTTTCGAGGG
65 GTTATTTTCGAGAG
* * * **
170484 GATACTCCGACCTC-GAATTTATTT-TCAAAATACCGATTTTCTATAATTAGGGATACTCCAACC
1 GATACTCCAACCCCAG-ATTTATTTCT-AAAACACCGATTTTCTATAATCGGGGATACTCCAACC
*
170547 CTATTATTTTCGAGAG
64 C-GTTATTTTCGAGAG
* * * * *
170563 GACATTCCAACCCCAGTTTTATTTCCAAAACACCGATTTTCCATAATCGGGGATACTCCAACCC
1 GATACTCCAACCCCAGATTTATTTCTAAAACACCGATTTTCTATAATCGGGGATACTCCAACCC
170627 CGTTGTTATC
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
78 3 0.03
79 111 0.97
80 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (78 bp):
GATACTCCAACCCCAGATTTATTTCTAAAACACCGATTTTCTATAATCGGGGATACTCCAACCCG
TTATTTTCGAGAG
Found at i:171719 original size:20 final size:20
Alignment explanation
Indices: 171690--171745 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
171680 TTGCCAGTTT
171690 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
* *
171710 TATTTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
171729 CATGTATCGATACAATT
1 CATGTATCGATACAATT
171746 TATCGATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:171775 original size:33 final size:32
Alignment explanation
Indices: 171711--171775 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
171701 ACAATTGAGT
* * *
171711 ATTTATCGATACAATGAGCATGTATCGATACA
1 ATTTATCGATACAAAGAGAATATATCGATACA
*
171743 ATTTATCGATACAAAGCATAATATATCGATACA
1 ATTTATCGATACAAAG-AGAATATATCGATACA
171776 TCTAGATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (32 bp):
ATTTATCGATACAAAGAGAATATATCGATACA
Found at i:172981 original size:21 final size:21
Alignment explanation
Indices: 172950--172999 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
172940 AGTTTTTTAA
* *
172950 TTTTTCATTTTATTTTTTTCTT
1 TTTTTC-TTTTATTTATCTCTT
*
172972 TTTTTCTTTTCTTTATCTCTT
1 TTTTTCTTTTATTTATCTCTT
172993 TTTTTCT
1 TTTTTCT
173000 CTCTTCTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTTTATTTATCTCTT
Found at i:173707 original size:165 final size:165
Alignment explanation
Indices: 173474--173778 Score: 488
Period size: 165 Copynumber: 1.8 Consensus size: 165
173464 TAATTTTTCG
173474 AAAATAGGGAGATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
1 AAAATAGGGAGATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
* * * *
173539 TTTAATATTAATTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACTAGGAAAAATTCTCT
66 TTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTC-
*
173604 CTAAAAAATTTATGGAGTAAAAAATTCTGTATTTTA
130 CCAAAAAATTTATGGAGTAAAAAATTCTGTATTTTA
* *
173640 AAAATA-GGAGATTTTCAAAG-AAAAATGAAAAACTCATGAAAATGAATGAATTTTTGAAAACTG
1 AAAATAGGGAGA-TTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATG
* * *
173703 ATTTAATATGAATTAACTAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTC
65 ATTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTC
173768 CCAAAAAATTT
130 CCAAAAAATTT
173779 GCGAAGAAGA
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
164 10 0.08
165 104 0.81
166 14 0.11
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (165 bp):
AAAATAGGGAGATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGA
TTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTCC
CAAAAAATTTATGGAGTAAAAAATTCTGTATTTTA
Found at i:173823 original size:165 final size:165
Alignment explanation
Indices: 173485--173829 Score: 455
Period size: 165 Copynumber: 2.1 Consensus size: 165
173475 AAATAGGGAG
*
173485 ATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGATTTAATATTAA
1 ATTTCAAAG-AAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAA
* * * *
173550 TTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACTAGGAAAAATTCTCTCTAAAAAATTT
65 TTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTCTCCAAAAAATTT
* * * * *
173615 ATGGAGTAAAAAATTCTGTATTTTAAAAATAGGAGA
130 ACGAAGTAAAAAATTCTGTATTTGAAAAATAGAAAA
* * *
173651 TTTTCAAAGAAAAATGAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAAT
1 ATTTCAAAGAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAT
* * * *
173716 TAACTAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCTC-CCAAAAAATTTG
66 TAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTCTCCAAAAAATTTA
173780 CGAAG-AAGAAAA-TCTCGTAATTTGAAAACAT-GAAAA
131 CGAAGTAA-AAAATTCT-GT-ATTTGAAAA-ATAGAAAA
173816 ATTTCAAAAGAAAA
1 ATTTC-AAAGAAAA
173830 TCCATAACTT
Statistics
Matches: 156, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
163 5 0.03
164 19 0.12
165 114 0.73
166 18 0.12
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.30
Consensus pattern (165 bp):
ATTTCAAAGAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGAAAAATGATTTAATATGAAT
TAAATAATAATATTTGATAAATTTAAAAAATTAAAAACCAAGAAAAATCCTCTCCAAAAAATTTA
CGAAGTAAAAAATTCTGTATTTGAAAAATAGAAAA
Found at i:173859 original size:165 final size:165
Alignment explanation
Indices: 173360--173905 Score: 416
Period size: 165 Copynumber: 3.3 Consensus size: 165
173350 TAAATTAAAC
* * * * * * * * *
173360 TTTTCAAAACTGATTTAATAGGAGTTAAATAACAATATTAGCTGAATTTTAGAAACTT-TAAACC
1 TTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA-AAAATTAAAAACC
* * * * * **
173424 GAGAAAAAT-CTCCTCGAAAATATTTACGGAA-TAGAAAACTTAAT-T-TTTCG-AAAATAGGGA
65 AAGAAAAATCCT-CTCCAAAAAATTTAC-GAAGTA-AAAAATT-CTGTATTT-GAAAAATAGAAA
* * * * *
173484 GATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATGAAT
125 AATTTCAAAG-AAAAATCAAAAACTCAAGAAAATAAAAGAAT
* * * *
173526 TTTTGAAAAATGATTTAATATTAATTAAATAATAATATTTGATAAATTTAAAAAATTAAAAACTA
1 TTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
* * * * * * * * *
173591 GGAAAAATTCTCTCTAAAAAATTTATGGAGTAAAAAATTCTGTATTTTAAAAATAGGAGATTTTC
66 AGAAAAATCCTCTCCAAAAAATTTACGAAGTAAAAAATTCTGTATTTGAAAAATAGAAAAATTTC
* * * *
173656 AAAGAAAAATGAAAAACTCATGAAAATGAATGAAT
131 AAAGAAAAATCAAAAACTCAAGAAAATAAAAGAAT
* *
173691 TTTTGAAAACTGATTTAATATGAATTAACTAATAATATTTGATGAATTTTAAAAATTAAAAACCA
1 TTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
*
173756 AGAAAAATCCTC-CCAAAAAATTTGCGAAG-AAGAAAA-TCTCGTAATTTGAAAACAT-GAAAAA
66 AGAAAAATCCTCTCCAAAAAATTTACGAAGTAA-AAAATTCT-GT-ATTTGAAAA-ATAGAAAAA
* * *
173817 TTTCAAA-AGAAAATCCATAACTTAAG-AAATAAAAGAAAT
127 TTTCAAAGA-AAAATCAAAAACTCAAGAAAATAAAAG-AAT
* * * * * * *
173856 TTTTTAAAAGTGATCTAATGA-GACTTAAATGATAATATTTAAAGAATTTT
1 TTTTGAAAAATGATTTAAT-ATGAATTAAATAATAATATTTGATGAATTTT
173906 GATATATGAA
Statistics
Matches: 309, Mismatches: 58, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
163 5 0.02
164 28 0.09
165 186 0.60
166 88 0.28
167 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (165 bp):
TTTTGAAAAATGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCA
AGAAAAATCCTCTCCAAAAAATTTACGAAGTAAAAAATTCTGTATTTGAAAAATAGAAAAATTTC
AAAGAAAAATCAAAAACTCAAGAAAATAAAAGAAT
Found at i:175534 original size:15 final size:15
Alignment explanation
Indices: 175514--175598 Score: 55
Period size: 15 Copynumber: 5.1 Consensus size: 15
175504 TTCATATTTT
175514 AAATATAAAATAATA
1 AAATATAAAATAATA
*
175529 AAATATAAATATTATTA
1 AAATATAAA-A-TAATA
*
175546 ATTATATTATAAATAAATA
1 A-AATA-TA-AAAT-AATA
175565 AAATA-AAAATACATA
1 AAATATAAAATA-ATA
175580 ATAATAATAATAATAATA
1 A-AAT-ATAA-AATAATA
175598 A
1 A
175599 TAAATAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
14 1 0.02
15 17 0.31
16 5 0.09
17 6 0.11
18 13 0.24
19 11 0.20
20 2 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATATAAAATAATA
Found at i:175568 original size:9 final size:10
Alignment explanation
Indices: 175557--175605 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
175547 TTATATTATA
175557 AATAAATAA-
1 AATAAATAAT
175566 AATAAA-AAT
1 AATAAATAAT
175575 ACAT-AATAAT
1 A-ATAAATAAT
175585 AATAATAATAAT
1 AAT-A-AATAAT
175597 AATAAATAA
1 AATAAATAA
175606 ATTTTGAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 11 0.32
10 11 0.32
11 1 0.03
12 9 0.26
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AATAAATAAT
Found at i:175585 original size:3 final size:3
Alignment explanation
Indices: 175561--175601 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
175551 ATTATAAATA
*
175561 AAT AA- AAT AAA AAT ACAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
175602 ATAAATTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:175624 original size:22 final size:23
Alignment explanation
Indices: 175599--175648 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
175589 ATAATAATAA
175599 TAAATAAATT-TTGAATAAAATT
1 TAAATAAATTATTGAATAAAATT
* * * *
175621 TAAATGATTTATTTAATAAATTT
1 TAAATAAATTATTGAATAAAATT
175644 TAAAT
1 TAAAT
175649 GATTATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TAAATAAATTATTGAATAAAATT
Found at i:175660 original size:22 final size:23
Alignment explanation
Indices: 175612--175661 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
175602 ATAAATTTTG
**
175612 AATAAAATTTAAATGATTTATTT
1 AATAAAATTTAAATGATTTATAA
*
175635 AATAAATTTTAAATGA-TTATAA
1 AATAAAATTTAAATGATTTATAA
175657 AATAA
1 AATAA
175662 TATATCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
AATAAAATTTAAATGATTTATAA
Found at i:177725 original size:20 final size:20
Alignment explanation
Indices: 177700--177739 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
177690 ATTAAATTAC
* *
177700 ATATAATTGTAATATTTAAA
1 ATATAATTATAATATATAAA
177720 ATATAATTATAATATATAAA
1 ATATAATTATAATATATAAA
177740 TATGATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
ATATAATTATAATATATAAA
Found at i:179382 original size:5 final size:5
Alignment explanation
Indices: 179367--179441 Score: 54
Period size: 5 Copynumber: 15.6 Consensus size: 5
179357 TGATAATTTG
*
179367 TATATT TATAT TATAT CTAT-C TAT-T TATAT TATAT TATAT TATGAT
1 TATA-T TATAT TATAT -TATAT TATAT TATAT TATAT TATAT TAT-AT
* *
179413 TA-AT T-T-T TATGT TATAT T-TAT TTTAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
179442 GTTAAATATT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
3 2 0.03
4 14 0.24
5 31 0.53
6 11 0.19
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:179780 original size:20 final size:21
Alignment explanation
Indices: 179755--179801 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
179745 TCATATTATA
*
179755 TATTTTTTAATATATTAGTG-
1 TATTTTATAATATATTAGTGT
* *
179775 TATTTTATGATATGTTAGTGT
1 TATTTTATAATATATTAGTGT
179796 TATTTT
1 TATTTT
179802 CCTGTTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (21 bp):
TATTTTATAATATATTAGTGT
Found at i:181320 original size:17 final size:18
Alignment explanation
Indices: 181298--181341 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
181288 ATGTTATTTT
181298 ATTAAATTTAT-TTAAAA
1 ATTAAATTTATGTTAAAA
181315 ATTAAA-TTATGTTAAAA
1 ATTAAATTTATGTTAAAA
* *
181332 TTTAATTTTA
1 ATTAAATTTA
181342 AAAGTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAAATTTATGTTAAAA
Found at i:188158 original size:19 final size:19
Alignment explanation
Indices: 188134--188199 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
188124 AGTAGCTTCA
188134 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
188153 TATGTATCGAT---ACA--
1 TATGTATCGATACAACACT
188167 T-TGTATCGATACAACACT
1 TATGTATCGATACAACACT
188185 TATGTATCGATACAA
1 TATGTATCGATACAA
188200 ATCATTGACA
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.22
14 1 0.02
16 6 0.15
18 1 0.02
19 24 0.59
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:188173 original size:13 final size:13
Alignment explanation
Indices: 188155--188179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
188145 ACAACACTTA
188155 TGTATCGATACAT
1 TGTATCGATACAT
188168 TGTATCGATACA
1 TGTATCGATACA
188180 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:188177 original size:32 final size:32
Alignment explanation
Indices: 188136--188198 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
188126 TAGCTTCATA
188136 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
188168 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
188199 AATCATTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:189124 original size:67 final size:68
Alignment explanation
Indices: 189002--189128 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
188992 ATTGGGTTTT
* * *
189002 AAAGATGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTG
1 AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTG
189067 AGA
66 AGA
** * *
189070 AAAG-TGATAAAGATGCCAATATGTTGATTCACTGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
189129 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTG
AGA
Found at i:189182 original size:55 final size:52
Alignment explanation
Indices: 189118--189675 Score: 257
Period size: 43 Copynumber: 11.8 Consensus size: 52
189108 CGATATTGGG
* *
189118 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
189173 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
189225 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * * *
189268 CTTAAAGA---AGAAGGTGCCAATATGCTGATTCAAGGCTAGTTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * *
189317 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGTCGGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
189360 CTTAAAGA---AGAAGGTGCCAATATGCTGATTC-AAGATCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAG-CCAGCTACATTGAA
* * * *
189409 C-T-----T-G--AAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * *
189452 CTTAAAGA---AGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
189501 C-T-----T-G--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * * * *
189544 CTTAAAGA---AGAAGGTGCCAATATGCTGATTCAAGGCCAACTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* * *
189593 C-T-----T-G--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
* *
189636 CTTAAAGA---AGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGC
189676 GATATTGGAC
Statistics
Matches: 415, Mismatches: 41, Indels: 100
0.75 0.07 0.18
Matches are distributed among these distances:
43 180 0.43
44 7 0.02
46 1 0.00
48 6 0.01
49 172 0.41
51 1 0.00
52 31 0.07
53 6 0.01
54 1 0.00
55 10 0.02
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTACATTGAA
Found at i:189196 original size:227 final size:228
Alignment explanation
Indices: 188800--189213 Score: 559
Period size: 227 Copynumber: 1.8 Consensus size: 228
188790 CCACTATGCA
* * * *
188800 GATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGTGATAAAAGGACCAATAT
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATAT
* * * *
188865 GTTGATTCACAGCCAATGATATTGGGTTTAAAGATGAGAAAAAAAATGTCAATGTGATGATTTAC
66 GTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAAAATGTCAATGTGATGATTCAA
* * * *
188930 GGTCAGCGACAGTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACAACATT
131 AGCCAGCGACAGTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACAACATT
188995 GGGTTTTAAAGATGATGAAGGTGCCAATATGTT
196 GGGTTTTAAAGATGATGAAGGTGCCAATATGTT
* * *
189028 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAG-GTGA-GAAAAGTGATAAAGATG-CCAAT
1 GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAG-GATGAAAAGTGATAAA-AGGACCAAT
* ** *
189090 ATGTTGATTCACTGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTC
64 ATGTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAAAATGTCAATGTGATGATTC
* * *
189155 AAAGCCAGCTACA-TTGAACTTAAAGATG-GAAAAGGTGCCAATATGCTGATTCAAGGCCA
129 AAAGCCAGCGACAGTAG-ACTTAAAGATGAGAAAA-ATGCCAATATGCTGATTCAAGGCCA
189214 GCTATATTGG
Statistics
Matches: 160, Mismatches: 22, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
226 7 0.04
227 118 0.74
228 35 0.22
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (228 bp):
GATTCAAGGCCAGCAACACTGGACTTAAAGATGAAGAGGATGAAAAGTGATAAAAGGACCAATAT
GTTGATTCACAGCCAACGATATTGGGCTTAAAGATGAGAAAAAAAATGTCAATGTGATGATTCAA
AGCCAGCGACAGTAGACTTAAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACAACATT
GGGTTTTAAAGATGATGAAGGTGCCAATATGTT
Found at i:189319 original size:92 final size:92
Alignment explanation
Indices: 189132--189693 Score: 935
Period size: 92 Copynumber: 6.1 Consensus size: 92
189122 AAGATGAGAA
* * * *
189132 AAAGGATGTCAATGTGCTGATTCAAAGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
189197 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
189228 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
* *
189293 TGATTCAAGGCTAGTTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
189320 AAAGGTGCCAATGTGCTGATTCAAGGTCGGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
**
189385 TGATTCAAGATCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
189412 GAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
189477 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
189504 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
189569 TGATTCAAGGCCAACTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
189596 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
189661 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
189688 AGAAGG
1 A-AAGG
189694 GTCACCACCG
Statistics
Matches: 442, Mismatches: 23, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
92 393 0.89
93 4 0.01
95 40 0.09
96 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:189735 original size:33 final size:33
Alignment explanation
Indices: 189688--189848 Score: 186
Period size: 33 Copynumber: 4.9 Consensus size: 33
189678 TATTGGACTT
** *
189688 AGAAGGGTCACCACCGACTTGTATGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
189721 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
189754 AG--GGGATTGCCATCAACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
189786 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
189818 AGAAGGGTTACCACCGATTTGTGTGAGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
189849 TGAAAAGGAG
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
31 6 0.05
32 49 0.44
33 54 0.49
34 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:189771 original size:32 final size:32
Alignment explanation
Indices: 189698--189848 Score: 171
Period size: 32 Copynumber: 4.7 Consensus size: 32
189688 AGAAGGGTCA
* *
189698 CCACCGACTTGTATGGGCTTTAGAGAATGGTTG
1 CCACCAACTTGTGTGGGCTTTAGAGAA-GGTTG
*
189731 CCACCAACTTGTGTGGGCTTTAGAG-GGGATTG
1 CCACCAACTTGTGTGGGCTTTAGAGAAGG-TTG
*
189763 CCATCAACTTGTGTGGGCTTTAGAAGAAGGTTG
1 CCACCAACTTGTGTGGGCTTTAG-AGAAGGTTG
* *
189796 CCACCGACTTGTGTGGGCTTT-GAGAAGGGTTA
1 CCACCAACTTGTGTGGGCTTTAGAGAA-GGTTG
* * *
189828 CCACCGATTTGTGTGAGCTTT
1 CCACCAACTTGTGTGGGCTTT
189849 TGAAAAGGAG
Statistics
Matches: 104, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
31 6 0.06
32 49 0.47
33 47 0.45
34 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (32 bp):
CCACCAACTTGTGTGGGCTTTAGAGAAGGTTG
Found at i:189840 original size:65 final size:64
Alignment explanation
Indices: 189686--189856 Score: 211
Period size: 65 Copynumber: 2.7 Consensus size: 64
189676 GATATTGGAC
* *
189686 TTAGAAGGGTCACCACCGACTTGTATGGGCTTTAG-AGAATGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAAGGGTTACCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCAACTTGTGTGGGCT
* * * * *
189750 TTAGAGGGGATTGCCATCAACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAAGGG-TTACCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
* * *
189815 TTGAGAAGGGTTACCACCGATTTGTGTGAGCTTTTGAA-AAGG
1 TT-AGAAGGGTTACCACCGACTTGTGTGGGCTTTAGAAGAAGG
189857 AGAAAGATGC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
64 12 0.13
65 68 0.76
66 10 0.11
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (64 bp):
TTAGAAGGGTTACCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCAACTTGTGTGGGCT
Found at i:189894 original size:27 final size:27
Alignment explanation
Indices: 189864--189917 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
189854 AGGAGAAAGA
* *
189864 TGCCACTGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGCGGACTTAAAAGGG
189891 TGCCACGGAGTTGCGGACTTAAAAGGG
1 TGCCACGGAGTTGCGGACTTAAAAGGG
189918 AAAGAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGCGGACTTAAAAGGG
Found at i:189979 original size:32 final size:32
Alignment explanation
Indices: 189926--190303 Score: 575
Period size: 32 Copynumber: 11.8 Consensus size: 32
189916 GGAAAGAGAG
* * * * *
189926 TGCCACGGAGTTGTGGGCTTTGCAGAAAAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
* *
189958 TGCCACTAAGTCGTGGACTTTG-AGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGGA
189990 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
*
190022 TGCCACTGAGTCGTGGACTTTGAAGAAAATGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
*
190054 TGCCACTGAGTCGTGGACTTTG-AGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGGA
190086 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
190118 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
*
190150 TGCCACTGAGTCGTGGACTTTG-AGACAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGA-AAAGGA
*
190182 TGCCACTGAGTCGTGGACTTTGAAGAAAATGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
190214 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
**
190246 TGCCACTGAGTCGTAAACTTTGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
*
190278 TGCCAATGAGTCGTGGACTTT-AAGAA
1 TGCCACTGAGTCGTGGACTTTGAAGAA
190304 GGTATTTGAA
Statistics
Matches: 321, Mismatches: 19, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
31 14 0.04
32 298 0.93
33 9 0.03
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (32 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA
Found at i:190025 original size:64 final size:64
Alignment explanation
Indices: 189859--190303 Score: 575
Period size: 64 Copynumber: 7.0 Consensus size: 64
189849 TGAAAAGGAG
* * * * * **
189859 AAAGATGCCACTGAGTTGTGGAC-TT----AAAAGGGTGCCACGGAGTTGCGGACTTAAAAGGGA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAA--GA
189919 A
64 A
* * * * * * *
189920 AGAGAGTGCCACGGAGTTGTGGGCTTTGCAGAAAAGAATGCCACTAAGTCGTGGACTTTG-AGAC
1 AAAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGA-
189984 A
64 A
189985 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
* *
190049 AATGATGCCACTGAGTCGTGGACTTTG-AGACAAAAGATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGA-AAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
*
190113 AAGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG-AGACA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGA-A
*
190177 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAATGATGCCACTGAGTCGTGGACTTTGAAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
* ** *
190241 AAGGATGCCACTGAGTCGTAAACTTTGAAGAAAAGGATGCCAATGAGTCGTGGACTTT-AAGAA
1 AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
190304 GGTATTTGAA
Statistics
Matches: 343, Mismatches: 29, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
61 4 0.01
62 16 0.05
63 13 0.04
64 274 0.80
65 14 0.04
66 1 0.00
67 21 0.06
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (64 bp):
AAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAAGAA
Found at i:190426 original size:8 final size:8
Alignment explanation
Indices: 190403--190432 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
190393 GATGCAAATA
190403 ATGATGTT
1 ATGATGTT
190411 ATTGATGTT
1 A-TGATGTT
190420 ATGATGTT
1 ATGATGTT
190428 ATGAT
1 ATGAT
190433 TATAGCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (8 bp):
ATGATGTT
Found at i:191589 original size:10 final size:10
Alignment explanation
Indices: 191576--191609 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
191566 CTTTTGCACT
191576 TTTTTTTGTG
1 TTTTTTTGTG
*
191586 TTTTTTTTTTG
1 -TTTTTTTGTG
191597 TTTTTTTGTG
1 TTTTTTTGTG
191607 TTT
1 TTT
191610 ACTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTG
Found at i:191589 original size:11 final size:11
Alignment explanation
Indices: 191575--191609 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
191565 GCTTTTGCAC
191575 TTTTTTTTGTG
1 TTTTTTTTGTG
*
191586 TTTTTTTTTTG
1 TTTTTTTTGTG
191597 -TTTTTTTGTG
1 TTTTTTTTGTG
191607 TTT
1 TTT
191610 ACTTTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:191615 original size:21 final size:21
Alignment explanation
Indices: 191576--191615 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
191566 CTTTTGCACT
**
191576 TTTTTTTGTGTTTTTTTTTTG
1 TTTTTTTGTGTTTACTTTTTG
191597 TTTTTTTGTGTTTACTTTT
1 TTTTTTTGTGTTTACTTTT
191616 GACTTTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (21 bp):
TTTTTTTGTGTTTACTTTTTG
Found at i:198621 original size:52 final size:52
Alignment explanation
Indices: 198543--198693 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
198533 CGAAATATGA
* *
198543 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTTGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
198595 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
198647 AAATTTGTCTGCATGTATCGATACATTTGAGTAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACAT
198694 TTTCTTGGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 78 0.84
53 15 0.16
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:198758 original size:32 final size:32
Alignment explanation
Indices: 198715--198777 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
198705 TAGCTTCATA
* *
198715 TGTATCGATACAATAATTATGTATCGATACAT
1 TGTATCAATACAACAATTATGTATCGATACAT
*
198747 TGTATCAATACAACACTTATGTATCGATACA
1 TGTATCAATACAACAATTATGTATCGATACA
198778 AATCGTTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TGTATCAATACAACAATTATGTATCGATACAT
Found at i:202932 original size:3 final size:3
Alignment explanation
Indices: 202926--202974 Score: 75
Period size: 3 Copynumber: 17.0 Consensus size: 3
202916 ATTATAAAAA
*
202926 AAT AAT -AT AAC A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
202972 AAT
1 AAT
202975 GTATAACTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:203779 original size:2 final size:2
Alignment explanation
Indices: 203772--203819 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
203762 CATAGGTCGA
203772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
203814 AT AT AT
1 AT AT AT
203820 GTATGTGTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:203946 original size:23 final size:22
Alignment explanation
Indices: 203914--203981 Score: 59
Period size: 25 Copynumber: 3.0 Consensus size: 22
203904 AATATTGATG
203914 AAATAT-AATAATTAAATTAAA
1 AAATATAAATAATTAAATTAAA
* *
203935 TAAATATAAATATATAAAAATTATA
1 -AAATATAAATA-AT-TAAATTAAA
203960 AAATCATATAA-AATTAAATTAA
1 AAAT-ATA-AATAATTAAATTAA
203982 TTTTTTAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
22 6 0.16
23 10 0.27
24 8 0.22
25 11 0.30
26 2 0.05
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATAAATAATTAAATTAAA
Found at i:204730 original size:2 final size:2
Alignment explanation
Indices: 204723--204752 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
204713 AATACAATAC
*
204723 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
204753 CAAGCTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:205128 original size:5 final size:5
Alignment explanation
Indices: 205120--205150 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
205110 AATATATTAT
205120 AAATA AAATA AAATA AAATA AAATA ATAATA
1 AAATA AAATA AAATA AAATA AAATA A-AATA
205151 TTAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 21 0.84
6 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AAATA
Found at i:205138 original size:15 final size:16
Alignment explanation
Indices: 205088--205150 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
205078 AATTTATTAT
205088 TAAATATAAGTAATAAAA
1 TAAA-ATAA-TAATAAAA
* *
205106 GATAAAT-ATATTATAAA
1 TA-AAATAATAATA-AAA
205123 TAAAATAA-AATAAAA
1 TAAAATAATAATAAAA
205138 TAAAATAATAATA
1 TAAAATAATAATA
205151 TTAATTATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
15 11 0.30
16 15 0.41
17 6 0.16
18 3 0.08
19 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAATAATAATAAAA
Found at i:205449 original size:14 final size:15
Alignment explanation
Indices: 205412--205461 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
205402 ACATATCTTC
205412 ATATCTAAATATAAT
1 ATATCTAAATATAAT
*
205427 ATATCTAAAT-TATT
1 ATATCTAAATATAAT
*
205441 ATATGTAAAATATGAAT
1 ATATCT-AAATAT-AAT
205458 ATAT
1 ATAT
205462 TATATGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 8 0.28
15 14 0.48
16 1 0.03
17 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATCTAAATATAAT
Found at i:210834 original size:185 final size:186
Alignment explanation
Indices: 210521--210871 Score: 605
Period size: 185 Copynumber: 1.9 Consensus size: 186
210511 CTCTTAAATG
* * *
210521 GGATTATCTTTGTTGATTATGTAAAATCAAAAAAATAATATTATGGATCCACTTACTAAAGGCTT
1 GGATTATCATTGTTGATTACGTAAAATCAAAAAAATAATATTATGGATCCACTTACTAAAAGCTT
*
210586 AATGAAAGAGCAAGTCTATAAATCATCGAGGGGAATAGGACTTAAGCTTATAAATTAAAAGTTAC
66 AATGAAAGAGCAAGTCTATAAATCATCGAGGGGAATAGGACTTAAGCCTATAAATTAAAAGTTAC
*
210651 ATAATGAAAACTCTAGTTAACTAAAAATCTCAAGATCTAGGTTCAAAAAGACAATC
131 ATAATGAAAACTCTAGTTAACTAAAAATCCCAAGATCTAGGTTCAAAAAGACAATC
* *
210707 GGATTATCATTGTTGATTACGTAAAAT-TAAAAGATAATATTATGGATCCACTTACTAAAAGCTT
1 GGATTATCATTGTTGATTACGTAAAATCAAAAAAATAATATTATGGATCCACTTACTAAAAGCTT
210771 AATGAAAGAGCAAGTCTATAAATCATCGAGGGGAATAGGACTTAAGCCTATAAATTAAAAGTTAC
66 AATGAAAGAGCAAGTCTATAAATCATCGAGGGGAATAGGACTTAAGCCTATAAATTAAAAGTTAC
* * *
210836 ATAATGATAACTCTAGTTGACTAGAAATCCCAAGAT
131 ATAATGAAAACTCTAGTTAACTAAAAATCCCAAGAT
210872 ATACCTTCAA
Statistics
Matches: 155, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
185 130 0.84
186 25 0.16
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (186 bp):
GGATTATCATTGTTGATTACGTAAAATCAAAAAAATAATATTATGGATCCACTTACTAAAAGCTT
AATGAAAGAGCAAGTCTATAAATCATCGAGGGGAATAGGACTTAAGCCTATAAATTAAAAGTTAC
ATAATGAAAACTCTAGTTAACTAAAAATCCCAAGATCTAGGTTCAAAAAGACAATC
Found at i:212541 original size:20 final size:20
Alignment explanation
Indices: 212516--212567 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
212506 TATTAGCCAA
*
212516 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATATTTTG
212536 TGTATCGATAC-ATATTTTG
1 TGTATCGATACAATATTTTG
212555 TGTATCGATACAA
1 TGTATCGATACAA
212568 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATATTTTG
Found at i:212671 original size:20 final size:20
Alignment explanation
Indices: 212619--212673 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
212609 AATCTTTTTC
*
212619 ATGTATCGATACATTGCAAT
1 ATGTATCGATACTTTGCAAT
212639 ATGTATCGATACTTTG-AATT
1 ATGTATCGATACTTTGCAA-T
212659 ATGTATCGATACTTT
1 ATGTATCGATACTTT
212674 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACTTTGCAAT
Found at i:214641 original size:21 final size:20
Alignment explanation
Indices: 214612--214654 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
214602 AACAAGTGTG
*
214612 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGTGACCT
*
214633 GGGAGTGCCGGTCGTGACCT
1 GGGACTGCCGGTCGTGACCT
214653 GG
1 GG
214655 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGTGACCT
Found at i:215104 original size:13 final size:13
Alignment explanation
Indices: 215086--215123 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
215076 ATAATCCCCC
215086 TGTATCGATACAG
1 TGTATCGATACAG
*
215099 TGTATCGATACAT
1 TGTATCGATACAG
215112 TGTATCGATACA
1 TGTATCGATACA
215124 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:217225 original size:15 final size:15
Alignment explanation
Indices: 217205--217235 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
217195 ATTTCGTTTG
*
217205 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
217220 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
217235 G
1 G
217236 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:219060 original size:21 final size:22
Alignment explanation
Indices: 219034--219082 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
219024 ACGCAAGTTT
* *
219034 TTATTTTTCTTAGCTAAC-TCA
1 TTATTTTTATTAGCCAACTTCA
*
219055 TTATTTTTATTAGCCAACTTCT
1 TTATTTTTATTAGCCAACTTCA
219077 TTATTT
1 TTATTT
219083 CAACTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.22, C:0.16, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATTTTTATTAGCCAACTTCA
Found at i:221320 original size:13 final size:13
Alignment explanation
Indices: 221302--221327 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221292 CAATTTTTTG
221302 TGTATCGATACAT
1 TGTATCGATACAT
221315 TGTATCGATACAT
1 TGTATCGATACAT
221328 ATTTTGTGTA
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:221338 original size:32 final size:33
Alignment explanation
Indices: 221282--221345 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
221272 TATTAGCCAA
*
221282 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
221315 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
221346 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:221339 original size:19 final size:19
Alignment explanation
Indices: 221282--221345 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
221272 TATTAGCCAA
*
221282 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
221302 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
221315 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
221334 TGTATCGATACA
1 TGTATCGATACA
221346 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:221422 original size:20 final size:20
Alignment explanation
Indices: 221376--221449 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
221366 ATCTCAATGA
***
221376 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
221397 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
221417 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
221437 TATGTATCGATAC
1 CATGTATCGATAC
221450 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:224020 original size:11 final size:12
Alignment explanation
Indices: 224004--224033 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
223994 ACTTTTTTCC
224004 TAAAATA-TTTT
1 TAAAATATTTTT
224015 TAAAATATTTTT
1 TAAAATATTTTT
224027 TAAAATA
1 TAAAATA
224034 ATAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAAATATTTTT
Found at i:224520 original size:6 final size:6
Alignment explanation
Indices: 224476--224534 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
224466 CTATTTTAAA
* * *
224476 TAATAT TAAATAT TAATTAT ATAAATAT TTATAC CAATAT TAATAT TAATAT
1 TAATAT T-AATAT TAA-TAT -T-AATAT TAATAT TAATAT TAATAT TAATAT
224528 TAATAT T
1 TAATAT T
224535 TTTATAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 27 0.63
7 10 0.23
8 4 0.09
9 2 0.05
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATAT
Found at i:224555 original size:14 final size:15
Alignment explanation
Indices: 224521--224575 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 15
224511 AATATTAATA
224521 TTAAT-ATTAATATT
1 TTAATAATTAATATT
*
224535 TTTATAATTAA-ATT
1 TTAATAATTAATATT
* *
224549 TTAATAA-AAATAAT
1 TTAATAATTAATATT
*
224563 TTATTAATTAATA
1 TTAATAATTAATA
224576 AATAATTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 2 0.06
14 21 0.66
15 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATAATTAATATT
Found at i:225150 original size:27 final size:27
Alignment explanation
Indices: 225120--225197 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
225110 AAAAGCCACT
* *
225120 CTTTGTATTTGTAAAAAATGGTGGTTC
1 CTTTATATTTGTCAAAAATGGTGGTTC
225147 CTTTATATTTGTCAAAAATGGTGGTTC
1 CTTTATATTTGTCAAAAATGGTGGTTC
*
225174 CTTTTTATTTGTCAAAAATGGTGG
1 CTTTATATTTGTCAAAAATGGTGG
225198 CTTGTTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.45
Consensus pattern (27 bp):
CTTTATATTTGTCAAAAATGGTGGTTC
Found at i:225208 original size:24 final size:25
Alignment explanation
Indices: 225125--225219 Score: 95
Period size: 27 Copynumber: 3.7 Consensus size: 25
225115 CCACTCTTTG
*
225125 TATTTGTAAAAAATGGTGGTTCCTT-T
1 TATTTGTCAAAAATGGTGG-T-CTTGT
*
225151 ATATTTGTCAAAAATGGTGGTTCCTTTT
1 -TATTTGTCAAAAATGGTGG-T-CTTGT
225179 TATTTGTCAAAAATGGTGG-CTTGT
1 TATTTGTCAAAAATGGTGGTCTTGT
* *
225203 TGTTTGTCAAAATTGGT
1 TATTTGTCAAAAATGGT
225220 AGCTAATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
24 19 0.30
27 43 0.68
28 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (25 bp):
TATTTGTCAAAAATGGTGGTCTTGT
Found at i:226163 original size:123 final size:123
Alignment explanation
Indices: 226031--226275 Score: 427
Period size: 123 Copynumber: 2.0 Consensus size: 123
226021 GATAACAACT
* *
226031 TCTCAATCTCTTCAAGAACTATACCCCGAGTTCCTAAGAGATTATCACTCAAGGTTGAATACAAC
1 TCTCAATCTCTTCAAGAACTATACCCCAAGTTCCTAAGAGATTATCACTCAAGGTTGAACACAAC
* *
226096 CTTACGTAAACAAAGAAATTATACAAACAAGAATTGCCTCTAAGTAGGCTGGTGTTTC
66 CTTACGTAAACAAAGAAATTATACAAACAAGAATTGCCTCTAAGTACGCTGCTGTTTC
*
226154 TCTCAATCTCTTCAAGAACTATACCCCAAGTTCCTAAGAGATTATTACTCAAGGTTGAACACAAC
1 TCTCAATCTCTTCAAGAACTATACCCCAAGTTCCTAAGAGATTATCACTCAAGGTTGAACACAAC
* *
226219 CTTATGTAAACAAAGAAATTATACAAACTAGAATTGCCTCTAAGTACGCTGCTGTTT
66 CTTACGTAAACAAAGAAATTATACAAACAAGAATTGCCTCTAAGTACGCTGCTGTTT
226276 GTGAAAGAAT
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 115 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (123 bp):
TCTCAATCTCTTCAAGAACTATACCCCAAGTTCCTAAGAGATTATCACTCAAGGTTGAACACAAC
CTTACGTAAACAAAGAAATTATACAAACAAGAATTGCCTCTAAGTACGCTGCTGTTTC
Found at i:226754 original size:19 final size:20
Alignment explanation
Indices: 226706--226761 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 20
226696 CTGCCAATTT
**
226706 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
* *
226726 TATATATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
*
226745 CATGTATCGATATAATT
1 CATGTATCGATACAATT
226762 TATTAATACA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:229992 original size:52 final size:52
Alignment explanation
Indices: 229844--229972 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
229834 CGAAATATGA
* *
229844 AAATTTACCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
229896 AAATTTGTCTGCATGTATCGATATATTTTATAGTGTATCGATACATCTGTGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
229948 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
229973 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:229999 original size:13 final size:13
Alignment explanation
Indices: 229981--230005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
229971 CAAAGATCAG
229981 TGTATCGATACAA
1 TGTATCGATACAA
229994 TGTATCGATACA
1 TGTATCGATACA
230006 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:230085 original size:13 final size:13
Alignment explanation
Indices: 230067--230091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
230057 ACAAAACTTA
230067 TGTATCGATACAT
1 TGTATCGATACAT
230080 TGTATCGATACA
1 TGTATCGATACA
230092 ACAGTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:230087 original size:32 final size:33
Alignment explanation
Indices: 230046--230111 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
230036 AGTAGCTTAT
*
230046 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAACAACTTATGTATCAATAC
**
230078 ATTGTATCGATACAACAGTTTATGTATCAATAC
1 ATTGTATCGATACAACAACTTATGTATCAATAC
230111 A
1 A
230112 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAACTTATGTATCAATAC
Found at i:230963 original size:169 final size:172
Alignment explanation
Indices: 230670--231056 Score: 453
Period size: 169 Copynumber: 2.2 Consensus size: 172
230660 GTTTTGCAGT
* * * * * *
230670 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTGGACTTAAAGATGATGAGGATGAAGAGCGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
* *
230735 AAAGGACTAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGAT-AAAA
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAAAA
* * *
230799 GA-GCCAATATGC-GGCTAGCGATATTGGACTTAAAGAT-AAAG
131 GATGCCAAT-T-CAGGCCAGCGACATTGAACTTAAAGATGAAAG
* * *
230840 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATA
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
* * **
230904 AAGATG-CCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTCA
66 AA-AGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAAA
* ** *
230968 ATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
130 AGATGCCAATTC-AGGCCAGCGACATTGAACTTAAAGAT-G-AAAG
* * *
231014 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAG
231057 GTGCCAATGT
Statistics
Matches: 184, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
169 63 0.34
170 52 0.28
171 25 0.14
174 44 0.24
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (172 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATA
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGAAAA
GATGCCAATTCAGGCCAGCGACATTGAACTTAAAGATGAAAG
Found at i:231002 original size:55 final size:53
Alignment explanation
Indices: 230906--231240 Score: 271
Period size: 43 Copynumber: 6.8 Consensus size: 53
230896 AAGTGATAAA
* * * * *
230906 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-AAAAG
* * *
230961 GATGTCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
231014 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
* * *
231057 G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
* *
231106 G-TGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC-T-----T---AAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
* * * *
231149 G-TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGCCTTAAAGAT-G--AA-
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
*
231197 GATGGCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAG
231241 GTTGCCACCG
Statistics
Matches: 235, Mismatches: 28, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
43 75 0.32
44 2 0.01
46 1 0.00
48 3 0.01
49 74 0.31
51 1 0.00
52 33 0.14
53 6 0.03
54 1 0.00
55 39 0.17
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (53 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAG
Found at i:231126 original size:49 final size:48
Alignment explanation
Indices: 230956--231240 Score: 295
Period size: 43 Copynumber: 6.0 Consensus size: 48
230946 AAAGATGAGA
* *
230956 AAAAGGATGTCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G
*
231009 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
231053 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
231100 AAGAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
231145 -AAAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGCCTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * * *
231192 ATGAAGATGGCAATATGCTGATTCAAGGCCAG-TGATATTGGACTTAAAG
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAG
231241 GTTGCCACCG
Statistics
Matches: 199, Mismatches: 20, Indels: 30
0.80 0.08 0.12
Matches are distributed among these distances:
43 79 0.40
44 1 0.01
48 2 0.01
49 76 0.38
52 35 0.18
53 6 0.03
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (48 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:231141 original size:92 final size:93
Alignment explanation
Indices: 230957--231247 Score: 424
Period size: 92 Copynumber: 3.1 Consensus size: 93
230947 AAGATGAGAA
* * * *
230957 AAAGGATGTCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
*
231022 ATGCTGATTCAAGGCCAGCTATATTGGACTT
63 ATGCTGATTCAAGGCCAGCGATATTGGACTT
231053 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
231117 CTGATTCAAGGCTAGCGATATTGGACTT
66 CTGATTCAAGGCCAGCGATATTGGACTT
* * * * *
231145 AAAGG-TGCCAATGTGCTGATTCAAGGCTAGCTACATTGGCCTTAAAGATGAAGATGGCAATATG
1 AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
*
231209 CTGATTCAAGGCCAGTGATATTGGACTT
66 CTGATTCAAGGCCAGCGATATTGGACTT
*
231237 AAAGGTTGCCA
1 AAAGGATGCCA
231248 CCGACTTGTG
Statistics
Matches: 181, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
92 131 0.72
93 5 0.03
95 40 0.22
96 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (93 bp):
AAAGGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATG
CTGATTCAAGGCCAGCGATATTGGACTT
Found at i:231170 original size:21 final size:20
Alignment explanation
Indices: 231103--231170 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
231093 CTTAAAGAAG
231103 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
* *
231124 AAGGCTAGCGATATTG--GACTTA
1 AAGG-T-GCCA-ATTGCTGA-TTC
231146 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAAT-TGCTGATTC
231167 AAGG
1 AAGG
231171 CTAGCTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (20 bp):
AAGGTGCCAATTGCTGATTC
Found at i:231281 original size:32 final size:32
Alignment explanation
Indices: 231237--231462 Score: 359
Period size: 32 Copynumber: 7.0 Consensus size: 32
231227 TATTGGACTT
231237 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
* *
231269 GAGGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
231301 AGAAGGTTGCCACCGACTTGTGTGGGCTTTAG-
1 A-AAGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
231333 -AAGGTTGCCACCGATTTGTGTGGGCTTTAGAA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTAG-A
231365 AAAGGTTGCCACCGACTTGTGTGGGCTTT-GAA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTAG-A
231397 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
*
231429 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAGA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTT-AGA
231462 A
1 A
231463 GGGTGAAAGA
Statistics
Matches: 181, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
30 29 0.16
32 91 0.50
33 61 0.34
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.28
Consensus pattern (32 bp):
AAAGGTTGCCACCGACTTGTGTGGGCTTTAGA
Found at i:231370 original size:63 final size:64
Alignment explanation
Indices: 231237--231464 Score: 379
Period size: 63 Copynumber: 3.6 Consensus size: 64
231227 TATTGGACTT
*
231237 AAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTT-GAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
* *
231302 GAAGGTTGCCACCGACTTGTGTGGGCTTT-AGAAGGTTGCCACCGATTTGTGTGGGCTTTAGAA
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
*
231365 AAAGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAG-A
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTG-AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
*
231429 AAGGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGG
1 AAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGG
231465 GTGAAAGATG
Statistics
Matches: 153, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
63 65 0.42
64 30 0.20
65 58 0.38
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (64 bp):
AAAGGTTGCCACCGACTTGTGTGGGCTTTGAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAA
Found at i:231554 original size:36 final size:35
Alignment explanation
Indices: 231468--231568 Score: 129
Period size: 36 Copynumber: 2.9 Consensus size: 35
231458 GAGAAGGGTG
231468 AAAGA-TGCCACGAAGTTGTGGAC-TTAAAA-GAA
1 AAAGAGTGCCACGAAGTTGTGGACTTTAAAAGGAA
231500 ACAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 A-AAGAGTGCCACGAAGTTGTGGACTTTAAAA-GGAA
* *
231536 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAGAGTGCCACGAAGTTGTGGACTTT-AAAAG
231569 AAGGTGCCAT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
32 1 0.02
33 21 0.35
34 6 0.10
35 3 0.05
36 25 0.42
37 4 0.07
ACGTcount: A:0.37, C:0.13, G:0.31, T:0.20
Consensus pattern (35 bp):
AAAGAGTGCCACGAAGTTGTGGACTTTAAAAGGAA
Found at i:232556 original size:17 final size:17
Alignment explanation
Indices: 232536--232574 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
232526 TGAAAAGGGA
232536 TTTTTCCCTTCTTCTTT
1 TTTTTCCCTTCTTCTTT
***
232553 TTTTTTGTTTCTTCTTT
1 TTTTTCCCTTCTTCTTT
232570 TTTTT
1 TTTTT
232575 TCTTTTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTCCCTTCTTCTTT
Found at i:232587 original size:13 final size:12
Alignment explanation
Indices: 232551--232599 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
232541 CCCTTCTTCT
232551 TTTTTTTTGTTTC
1 TTTTTTTT-TTTC
232564 TTCTTTTTTTTTC
1 TT-TTTTTTTTTC
* *
232577 TTTTTTGTTTTA
1 TTTTTTTTTTTC
*
232589 TTTCTTTTTTT
1 TTTTTTTTTTT
232600 GGAAAAGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
12 17 0.55
13 8 0.26
14 6 0.19
ACGTcount: A:0.02, C:0.08, G:0.04, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:232587 original size:17 final size:17
Alignment explanation
Indices: 232547--232598 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
232537 TTTTCCCTTC
* *
232547 TTCTTTTTTTTTGTTTC
1 TTCTTTTTTTTTCTTTT
232564 TTCTTTTTTTTTCTTTT
1 TTCTTTTTTTTTCTTTT
* *
232581 TT-GTTTTATTTCTTTT
1 TTCTTTTTTTTTCTTTT
232597 TT
1 TT
232599 TGGAAAAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.85
Consensus pattern (17 bp):
TTCTTTTTTTTTCTTTT
Found at i:232600 original size:17 final size:16
Alignment explanation
Indices: 232568--232598 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
232558 TGTTTCTTCT
*
232568 TTTTTTTTCTTTTTTG
1 TTTTATTTCTTTTTTG
232584 TTTTATTTCTTTTTT
1 TTTTATTTCTTTTTT
232599 TGGAAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.06, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTATTTCTTTTTTG
Found at i:232880 original size:17 final size:17
Alignment explanation
Indices: 232846--232899 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
232836 CCTTTTTTTA
*
232846 TGTTTTTTTTTGT-GTTT
1 TGTTTTTTTTT-TACTTT
232863 TGTTTTTTTTTTACTTT
1 TGTTTTTTTTTTACTTT
* *
232880 TGTTTGTGTGTTTACTTT
1 TGTTT-TTTTTTTACTTT
232898 TG
1 TG
232900 ACTGTTATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.03
17 19 0.59
18 12 0.38
ACGTcount: A:0.04, C:0.04, G:0.17, T:0.76
Consensus pattern (17 bp):
TGTTTTTTTTTTACTTT
Found at i:239912 original size:52 final size:52
Alignment explanation
Indices: 239766--239892 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
239756 CGAAATATAA
239766 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
* * * *
239818 AAATTTGCCTGCATGTATCAATACATTTTATAGTGTATCGATAGATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
239870 AAATTTGCCTGCATGTATCGATA
1 AAATTTGCCTGCATGTATCGATA
239893 AAAAGATCAG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:239994 original size:19 final size:18
Alignment explanation
Indices: 239970--240067 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
239960 TAGCTTATAT
239970 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
239989 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
240002 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
240021 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
240034 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
240054 TGTATCGATACAAA
1 TGTATCGATACAAA
240068 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:240007 original size:13 final size:13
Alignment explanation
Indices: 239989--240045 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
239979 ACAAAACTTA
239989 TGTATCGATACAT
1 TGTATCGATACAT
240002 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
240020 ATGTATCGATACAT
1 -TGTATCGATACAT
240034 TGTATCGATACA
1 TGTATCGATACA
240046 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:240009 original size:32 final size:32
Alignment explanation
Indices: 239968--240065 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
239958 AGTAGCTTAT
*
239968 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
240000 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
240032 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
240065 A
1 A
240066 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:240507 original size:22 final size:22
Alignment explanation
Indices: 240461--240514 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
240451 GTATTTTTAC
**
240461 TTAAAAACATTTGATTTAAGGT
1 TTAAAAACATTTGATTTAAACT
240483 TTAAAAACATTTG-TTTATAACT
1 TTAAAAACATTTGATTTA-AACT
240505 TT-AAAACATT
1 TTAAAAACATT
240515 CTTTGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (22 bp):
TTAAAAACATTTGATTTAAACT
Found at i:244585 original size:13 final size:13
Alignment explanation
Indices: 244567--244591 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
244557 ATTACTCAAA
244567 TGTATCGATACAT
1 TGTATCGATACAT
244580 TGTATCGATACA
1 TGTATCGATACA
244592 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:244656 original size:52 final size:52
Alignment explanation
Indices: 244600--244730 Score: 192
Period size: 52 Copynumber: 2.5 Consensus size: 52
244590 CACTGATCTT
*
244600 TGTATCGATACATGCAAGCAAATTTGCCC-AGATCTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTT-CCCTAGATCTATCGATACACTATGAAA
* * * *
244652 TGTATCGATATATACAGGTAAATTTCCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTCCCTAGATCTATCGATACACTATGAAA
244704 TGTATCGATACATGCAGGCAAAATTTC
1 TGTATCGATACATGCAGGC-AAATTTC
244731 ATATTTCAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 3 0.04
52 59 0.86
53 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTCCCTAGATCTATCGATACACTATGAAA
Found at i:246893 original size:24 final size:26
Alignment explanation
Indices: 246866--246919 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
246856 TCAAAATTTT
246866 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
246890 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
246917 ATT
1 ATT
246920 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:248220 original size:27 final size:27
Alignment explanation
Indices: 248188--248263 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
248178 CAAAAGCCAC
248188 CCTTTGTGTTTGTCAAAAATGGTAGTT
1 CCTTTGTGTTTGTCAAAAATGGTAGTT
* *
248215 TCTTTGTGTTTGTCAAAAATGGTGGTT
1 CCTTTGTGTTTGTCAAAAATGGTAGTT
* *
248242 CCTTTTTGTTTGTTAAAAATGG
1 CCTTTGTGTTTGTCAAAAATGG
248264 CGGCTTATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.47
Consensus pattern (27 bp):
CCTTTGTGTTTGTCAAAAATGGTAGTT
Found at i:248283 original size:24 final size:25
Alignment explanation
Indices: 248194--248283 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 25
248184 CCACCCTTTG
* *
248194 TGTTTGTCAAAAATGGTAGTTTCTT-T
1 TGTTTGTCAAAAATGG-CG-GTCTTAT
* *
248220 GTGTTTGTCAAAAATGGTGGTTCCTTTT
1 -TGTTTGTCAAAAATGGCGG-T-CTTAT
*
248248 TGTTTGTTAAAAATGGCGG-CTTAT
1 TGTTTGTCAAAAATGGCGGTCTTAT
248272 TGTTTGTCAAAA
1 TGTTTGTCAAAA
248284 TTAGTGGCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 15 0.28
26 2 0.04
27 36 0.67
28 1 0.02
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (25 bp):
TGTTTGTCAAAAATGGCGGTCTTAT
Found at i:248292 original size:24 final size:24
Alignment explanation
Indices: 248247--248292 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
248237 TGGTTCCTTT
* *
248247 TTGTTTGTTAAAAATGGCGGCTTA
1 TTGTTTGTCAAAAATAGCGGCTTA
* *
248271 TTGTTTGTCAAAATTAGTGGCT
1 TTGTTTGTCAAAAATAGCGGCT
248293 AATTTTTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.43
Consensus pattern (24 bp):
TTGTTTGTCAAAAATAGCGGCTTA
Found at i:248682 original size:14 final size:14
Alignment explanation
Indices: 248663--248693 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
248653 CTATTCAATT
248663 TTATAATATAAGAA
1 TTATAATATAAGAA
248677 TTATAATATAAGAA
1 TTATAATATAAGAA
248691 TTA
1 TTA
248694 ATTTATCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (14 bp):
TTATAATATAAGAA
Found at i:248953 original size:29 final size:29
Alignment explanation
Indices: 248921--249013 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
248911 TTTCTAAAAT
*
248921 TATTATTTTATCTCTTTAAATAT-TTTATA
1 TATTATTTTATAT-TTTAAATATATTTATA
* *
248950 TATTTTTTTATATTTTCAATATATTTATGA
1 TATTATTTTATATTTTAAATATATTTAT-A
* * ** *
248980 TTTTAGTACATATATTTAATATATATATATA
1 TATTATTTTATAT-TTTAA-ATATATTTATA
249011 TAT
1 TAT
249014 ATACTAATAT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
28 8 0.16
29 16 0.33
30 9 0.18
31 7 0.14
32 9 0.18
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.59
Consensus pattern (29 bp):
TATTATTTTATATTTTAAATATATTTATA
Found at i:249027 original size:15 final size:16
Alignment explanation
Indices: 249004--249033 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
248994 TTTAATATAT
249004 ATATATATATATACTA
1 ATATATATATATACTA
249020 ATAT-TATATATACT
1 ATATATATATATACT
249034 TTATATGTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATATATATACTA
Found at i:249531 original size:21 final size:23
Alignment explanation
Indices: 249501--249542 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
249491 GGAATAAAAT
*
249501 AAAATGAAGAA-AAAA-AAAAGA
1 AAAATAAAGAATAAAAGAAAAGA
249522 AAAATAAAGAATAAAAGAAAA
1 AAAATAAAGAATAAAAGAAAA
249543 CCGAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (23 bp):
AAAATAAAGAATAAAAGAAAAGA
Found at i:250928 original size:18 final size:18
Alignment explanation
Indices: 250878--250928 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
250868 TGTGCCATAA
* *
250878 TTGTGTTATTCATGTTAT
1 TTGTGTAATTCGTGTTAT
*
250896 TTATGTTAATT-GTGTTAT
1 TTGTG-TAATTCGTGTTAT
*
250914 TTGTGTCATTCGTGT
1 TTGTGTAATTCGTGT
250929 CGTGTCATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 4 0.15
18 18 0.69
19 4 0.15
ACGTcount: A:0.16, C:0.06, G:0.20, T:0.59
Consensus pattern (18 bp):
TTGTGTAATTCGTGTTAT
Done.