Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005467.1 Hibiscus syriacus cultivar Beakdansim tig00012524_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 580209
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 3
Found at i:205829 original size:21 final size:21
Alignment explanation
Indices: 205803--205901 Score: 182
Period size: 21 Copynumber: 4.8 Consensus size: 21
205793 AGGGTGTCAA
205803 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
205824 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
205845 AG-GCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
205865 AGTGCATCCATGCATCCTTGC
1 AGTGCATCCATGCATCCCTGC
205886 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
205902 TGCACTAATG
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
20 20 0.26
21 56 0.74
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:205863 original size:41 final size:42
Alignment explanation
Indices: 205803--205901 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 42
205793 AGGGTGTCAA
205803 AGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGC
*
205845 AG-GCATCCATGCATCCCTGCAGTGCATCCATGCATCCTTGC
1 AGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGC
205886 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
205902 TGCACTAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 40 0.73
42 15 0.27
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
AGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCCCTGC
Found at i:206005 original size:20 final size:21
Alignment explanation
Indices: 205964--206018 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
205954 ATGCAATTAG
205964 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
205985 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
206005 TGCATCCATGCATC
1 TGCATCGATGCATC
206019 AAGGCTGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:206171 original size:21 final size:20
Alignment explanation
Indices: 206127--206181 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
206117 TTGCAGCCTT
*
206127 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATGGCAG
206147 GATGCATCGATGCATGGCAAG
1 GATGCATCGATGCATGGC-AG
206168 GATGCATCGATGCA
1 GATGCATCGATGCA
206182 CTAATTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (20 bp):
GATGCATCGATGCATGGCAG
Found at i:206270 original size:21 final size:21
Alignment explanation
Indices: 206244--206361 Score: 202
Period size: 21 Copynumber: 5.7 Consensus size: 21
206234 CATTAGTGCA
206244 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
206265 GATGCATGGATGCACTGCA-G
1 GATGCATGGATGCACTGCAGG
* *
206285 GATGTATGGATGCACTGCAAG
1 GATGCATGGATGCACTGCAGG
206306 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
*
206327 GATGCATGGATGCACTACAGG
1 GATGCATGGATGCACTGCAGG
206348 GATGCATGGATGCA
1 GATGCATGGATGCA
206362 ATTTGACACC
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
20 19 0.21
21 73 0.79
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.20
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:206288 original size:83 final size:82
Alignment explanation
Indices: 206201--206361 Score: 209
Period size: 83 Copynumber: 1.9 Consensus size: 82
206191 TTCGATGTTT
* ** * *
206201 GGATGCATGGATGCATTGC-CTGATGCATCGATGCATTAGTGCA-GATGCATGGATGCACTGCAG
1 GGATGCATGGATGCACTGCAAGGATGCATCGATGC---ACTGCAGGATGCATGGATGCACTACAG
206264 GGATGCATGGATGCACTGCA
63 GGATGCATGGATGCACTGCA
* *
206284 GGATGTATGGATGCACTGCAAGGATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAGGG
1 GGATGCATGGATGCACTGCAAGGATGCATCGATGCACTGCA-GGATGCATGGATGCACTACAGGG
206349 ATGCATGGATGCA
65 ATGCATGGATGCA
206362 ATTTGACACC
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
81 5 0.07
83 51 0.75
84 12 0.18
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.22
Consensus pattern (82 bp):
GGATGCATGGATGCACTGCAAGGATGCATCGATGCACTGCAGGATGCATGGATGCACTACAGGGA
TGCATGGATGCACTGCA
Found at i:206326 original size:62 final size:63
Alignment explanation
Indices: 206244--206361 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 63
206234 CATTAGTGCA
* *
206244 GATGCATGGATGCACTGCAGGGATGCATGGATGCACTGCA-GGATGTATGGATGCACTGCAAG
1 GATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAGGGATGCATGGATGCACTGCAAG
206306 GATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAGGGATGCATGGATGCA
1 GATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAGGGATGCATGGATGCA
206362 ATTTGACACC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
62 39 0.74
63 14 0.26
ACGTcount: A:0.26, C:0.18, G:0.36, T:0.20
Consensus pattern (63 bp):
GATGCATGGATGCACTGCAGGGATGCATGGATGCACTACAGGGATGCATGGATGCACTGCAAG
Found at i:207378 original size:19 final size:20
Alignment explanation
Indices: 207354--207401 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
207344 AACGATTTTC
*
207354 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
207373 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
207393 TTTTGAAAA
1 TTTTGAAAA
207402 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:208574 original size:21 final size:21
Alignment explanation
Indices: 208548--208587 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
208538 CAACAATTGG
208548 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
208569 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
208588 CATTAAACAT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:208769 original size:30 final size:30
Alignment explanation
Indices: 208700--208757 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
208690 ATTTAAGGCA
208700 AAAATGTTTTTGGACTTGAATTGAATTTGC
1 AAAATGTTTTTGGACTTGAATTGAATTTGC
*
208730 AAAATGTTTTTGGATTTGAATTGAATTT
1 AAAATGTTTTTGGACTTGAATTGAATTT
208758 ATTCAGAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTGC
Found at i:208864 original size:21 final size:21
Alignment explanation
Indices: 208838--208895 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
208828 AGGGTGTCAA
208838 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
208859 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
208880 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
208896 TGCACTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:208999 original size:20 final size:21
Alignment explanation
Indices: 208958--209012 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
208948 ATGCAATTAG
208958 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
208979 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
208999 TGCATCCATGCATC
1 TGCATCGATGCATC
209013 AAGGCTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:210392 original size:21 final size:21
Alignment explanation
Indices: 210350--210388 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
210340 GAAAATTCCA
* *
210350 ATTTTTTTTGAAAATTTGTGT
1 ATTTTTTATGAAAATTAGTGT
210371 ATTTTTTATG-AAATTAGT
1 ATTTTTTATGAAAATTAGT
210389 TGTAAAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (21 bp):
ATTTTTTATGAAAATTAGTGT
Found at i:210797 original size:44 final size:44
Alignment explanation
Indices: 210747--210849 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 44
210737 TGCACTGCAC
* *
210747 AGTGTATCGATGCATATTCAAGATATGTATCGGTAAACCTTCAT
1 AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
* * *
210791 AGTGTATCGATGCATATTCAAGGGATGCATCGGTACACTTTCAT
1 AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
210835 AGTGTA-CGATGCATA
1 AGTGTATCGATGCATA
210850 GTGCACAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 9 0.17
44 45 0.83
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
Found at i:216780 original size:20 final size:20
Alignment explanation
Indices: 216755--216799 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
216745 AAATAGGGTG
216755 TGCATCGATACATCAAAGAC
1 TGCATCGATACATCAAAGAC
*
216775 TGCATCGATACATCAAAGAG
1 TGCATCGATACATCAAAGAC
216795 TGCAT
1 TGCAT
216800 TGGTATATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
TGCATCGATACATCAAAGAC
Found at i:219718 original size:21 final size:21
Alignment explanation
Indices: 219676--219714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
219666 GAAAATTCCA
* *
219676 ATTTTTTTTGAAAATTTGTGT
1 ATTTTTTATGAAAATTAGTGT
219697 ATTTTTTATG-AAATTAGT
1 ATTTTTTATGAAAATTAGT
219715 TGTAAAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (21 bp):
ATTTTTTATGAAAATTAGTGT
Found at i:220123 original size:44 final size:44
Alignment explanation
Indices: 220073--220175 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 44
220063 TGCACTGCAC
* *
220073 AGTGTATCGATGCATATTCAAGATATGTATCGGTAAACCTTCAT
1 AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
* * *
220117 AGTGTATCGATGCATATTCAAGGGATGCATCGGTACACTTTCAT
1 AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
220161 AGTGTA-CGATGCATA
1 AGTGTATCGATGCATA
220176 GTGCACAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 9 0.17
44 45 0.83
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (44 bp):
AGTGTATCGATGCATATTCAAGAGATGCATCGGTAAACCTTCAT
Found at i:233580 original size:16 final size:17
Alignment explanation
Indices: 233561--233592 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
233551 TATAATTTAA
233561 AATTTA-TACTTAATAT
1 AATTTATTACTTAATAT
233577 AATTTATTACTTAATA
1 AATTTATTACTTAATA
233593 ATTCAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTATTACTTAATAT
Found at i:233643 original size:12 final size:12
Alignment explanation
Indices: 233609--233668 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
233599 TATTAACATC
233609 ATTA-TTTAATA
1 ATTATTTTAATA
*
233620 ATTTAGTTTAATA
1 A-TTATTTTAATA
233633 ATTATTTTAATTA
1 ATTATTTTAA-TA
*
233646 TTTATTACTTAATA
1 ATTATT--TTAATA
*
233660 ATTAATTTA
1 ATTATTTTA
233669 TATTTTCATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.03
12 14 0.35
13 15 0.38
14 6 0.15
15 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (12 bp):
ATTATTTTAATA
Found at i:233679 original size:27 final size:27
Alignment explanation
Indices: 233627--233679 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
233617 ATAATTTAGT
* *
233627 TTAATAATTATTTTAATTATTTATTAC
1 TTAATAATTAATTTAATTATTCATTAC
233654 TTAATAATTAATTTATATT-TTCATTA
1 TTAATAATTAATTTA-ATTATTCATTA
233680 TAATTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (27 bp):
TTAATAATTAATTTAATTATTCATTAC
Found at i:239927 original size:150 final size:147
Alignment explanation
Indices: 239647--240073 Score: 470
Period size: 150 Copynumber: 2.9 Consensus size: 147
239637 TATATCACCG
* * * * * *
239647 AAAATTTGTTGAAGATGATTGATGAGGCACTGAAAAAGTTGTTGGCATTTTTTAACATGCTGCAT
1 AAAATTTATTGAAGATGATTGATG-GGAACTG-AAAAGTTGTTGACATTTTCTAGCATGTTGCAT
* * *** *
239712 TATTCAGGACATTTTCTGAAGATTATTAATGGCCCGTTTTGATTTTTTCGGACATGGTGCATTAT
64 TATTAATGACATTTTCTGAAGATTATTAATGG-CCGTTTTGACAATTTCGGACATGATGCATTAT
*
239777 TAGAGATGACATTTCACT-A
128 TAGACATGACATTTCACTGA
* * *
239796 AAAATTTATTGAAGATGATTGATGGTAAACTGAAAAGTTGTTGACATTTTCTGGCATGTTGTATT
1 AAAATTTATTGAAGATGATTGATGG-GAACTGAAAAGTTGTTGACATTTTCTAGCATGTTGCATT
* *
239861 ATTAATGACATTTTTTTTGAAGATTATTAATGGCTCGTTTTGACAATTTCAGG-CATGATGTATT
65 ATTAATGACA--TTTTCTGAAGATTATTAATGGC-CGTTTTGACAATTTC-GGACATGATGCATT
239925 ATTAGACATGACATTTCACTGA
126 ATTAGACATGACATTTCACTGA
* * * *
239947 AAAGTTGA-TGAAGATGATTGATGGGGTACT-AAAAGTTGTTGACATTTTCTTGCATGTTGCATT
1 AAAATTTATTGAAGATGATTGAT-GGGAACTGAAAAGTTGTTGACATTTTCTAGCATGTTGCATT
* * * * * *
240010 AATAATGACATTTTCTGAAGAGTATTAATGACCTGTTTTGACATTTTTGGAC-TGAAGC-TTATT
65 ATTAATGACATTTTCTGAAGATTATTAATGGCC-GTTTTGACAATTTCGGACATGATGCATTATT
240073 A
129 A
240074 AATTGGCATA
Statistics
Matches: 237, Mismatches: 32, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
145 6 0.03
146 7 0.03
147 32 0.14
148 36 0.15
149 68 0.29
150 77 0.32
151 11 0.05
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (147 bp):
AAAATTTATTGAAGATGATTGATGGGAACTGAAAAGTTGTTGACATTTTCTAGCATGTTGCATTA
TTAATGACATTTTCTGAAGATTATTAATGGCCGTTTTGACAATTTCGGACATGATGCATTATTAG
ACATGACATTTCACTGA
Found at i:242159 original size:24 final size:24
Alignment explanation
Indices: 242132--242183 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
242122 GGTGGTCTCG
* *
242132 TGTGACTTTCTAATTAGTTAACTA
1 TGTGACGTTATAATTAGTTAACTA
*
242156 TGTGACGTTATAATTAGTTAACTG
1 TGTGACGTTATAATTAGTTAACTA
242180 TGTG
1 TGTG
242184 TCGTATTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (24 bp):
TGTGACGTTATAATTAGTTAACTA
Found at i:258165 original size:35 final size:35
Alignment explanation
Indices: 258126--258193 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
258116 AAGAAAGAAT
*
258126 AAATTTGTAGATTTGTTGGAAAATCCTAAGTGATA
1 AAATTAGTAGATTTGTTGGAAAATCCTAAGTGATA
* *
258161 AAATTAGTGGGTTTGTTGGAAAATCCTAAGTGA
1 AAATTAGTAGATTTGTTGGAAAATCCTAAGTGA
258194 GGAGCTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (35 bp):
AAATTAGTAGATTTGTTGGAAAATCCTAAGTGATA
Found at i:263079 original size:6 final size:6
Alignment explanation
Indices: 263068--263093 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
263058 CGAGACACCA
263068 AAGGAG AAGGAG AAGGAG AAGGAG AA
1 AAGGAG AAGGAG AAGGAG AAGGAG AA
263094 AAACATTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAGGAG
Found at i:267410 original size:20 final size:20
Alignment explanation
Indices: 267385--267424 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
267375 TTTTGGTGCA
267385 GAGGGAA-TCGATCCCCCCTT
1 GAGGGAACT-GATCCCCCCTT
*
267405 GAGGGAACTGATTCCCCCTT
1 GAGGGAACTGATCCCCCCTT
267425 TGAAGGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (20 bp):
GAGGGAACTGATCCCCCCTT
Found at i:267422 original size:21 final size:23
Alignment explanation
Indices: 267387--267446 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
267377 TTGGTGCAGA
*
267387 GGGAATCGA-TCCCCCCTTG-A-
1 GGGAACCGATTCCCCCCTTGAAG
* *
267407 GGGAACTGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTGAAG
267430 GGGAACCGATTCCCCCC
1 GGGAACCGATTCCCCCC
267447 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 7 0.22
21 9 0.28
22 1 0.03
23 15 0.47
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.20
Consensus pattern (23 bp):
GGGAACCGATTCCCCCCTTGAAG
Found at i:267467 original size:21 final size:21
Alignment explanation
Indices: 267428--267467 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
267418 CCCCCTTTGA
* *
267428 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACACCCCAC
*
267449 AGGGGAATCGATACACCCC
1 AGGGGAACCGATACACCCC
267468 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACACCCCAC
Found at i:269085 original size:12 final size:12
Alignment explanation
Indices: 269068--269092 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
269058 GAGCCTGAGT
269068 AGCCCGAGGAGC
1 AGCCCGAGGAGC
269080 AGCCCGAGGAGC
1 AGCCCGAGGAGC
269092 A
1 A
269093 AGCACAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.40, T:0.00
Consensus pattern (12 bp):
AGCCCGAGGAGC
Found at i:271274 original size:19 final size:19
Alignment explanation
Indices: 271250--271291 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
271240 GAATATCAAG
271250 TTAATATTAA-GCATCAAAA
1 TTAATATTAATG-ATCAAAA
*
271269 TTAATATTAATGATCAATA
1 TTAATATTAATGATCAAAA
271288 TTAA
1 TTAA
271292 AATTTTTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (19 bp):
TTAATATTAATGATCAAAA
Found at i:271353 original size:11 final size:11
Alignment explanation
Indices: 271337--271414 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 11
271327 AACTTTACAC
271337 AATTAATATAA
1 AATTAATATAA
*
271348 AATTAAAATAA
1 AATTAATATAA
* *
271359 TTATCAAACTATTAA
1 -AAT-TAA-TA-TAA
*
271374 GATTAATGATAA
1 AATTAAT-ATAA
271386 CAATTAATATAA
1 -AATTAATATAA
*
271398 AATT-ATATGA
1 AATTAATATAA
271408 AATTAAT
1 AATTAAT
271415 GCTAATAGAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
10 9 0.17
11 16 0.31
12 10 0.19
13 11 0.21
14 3 0.06
15 3 0.06
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (11 bp):
AATTAATATAA
Found at i:273143 original size:21 final size:21
Alignment explanation
Indices: 273114--273153 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
273104 AGGGTTAGGA
273114 TTTAAAATTT-AGGGTTTGAAG
1 TTTAAAATTTGA-GGTTTGAAG
*
273135 TTTAGAATTTGAGGTTTGA
1 TTTAAAATTTGAGGTTTGA
273154 GATTATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
TTTAAAATTTGAGGTTTGAAG
Found at i:274749 original size:367 final size:367
Alignment explanation
Indices: 274076--274807 Score: 1365
Period size: 367 Copynumber: 2.0 Consensus size: 367
274066 AACTTGGGGG
274076 TTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTGGGAC
1 TTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTGGGAC
*
274141 ACCTTAAAAATTGGGTGATTTTAATAAAACATTTTATTTTTATCAAAATACTATATTTTAGGGTC
66 ACCATAAAAATTGGGTGATTTTAATAAAACATTTTATTTTTATCAAAATACTATATTTTAGGGTC
* * *
274206 TATGAAAATTCATAAATAGGGATCGGGAGTCAGTTACGTATGGGGAAGGATTAGCACCCCACAAG
131 TATGAAAATCCATAAATAGGGATCGAGAGTCAATTACGTATGGGGAAGGATTAGCACCCCACAAG
*
274271 CGGCCAAAAATTGGTACATAGTTGATTAACCTATATCTAGAATCGAAAATTTTGATTTCGAACTT
196 CGCCCAAAAATTGGTACATAGTTGATTAACCTATATCTAGAATCGAAAATTTTGATTTCGAACTT
*
274336 TATCTAATTTAAAAATCGTTATGGATGAAAAGTTGAAAAGAGTATTCGTTTATTAATGCCAATAG
261 TATCTAATTTAAAAATCGTTATGGATGAAAAGTTGAAAAGAGTATTCGTTTATTAATACCAATAG
*
274401 CATTCGTCCCTAGCGTAAATGCAGGAGATAAGTTATTGTGGT
326 CATCCGTCCCTAGCGTAAATGCAGGAGATAAGTTATTGTGGT
* *
274443 TTTTTCTTTGAAAATGTTTTGAAATGTGGGGAGTCACCACCAATCATTTAAGGTGTGATTGGGAC
1 TTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTGGGAC
*
274508 ACCATAAAAATTGGGTGATTTTAATAAAACATTTTATTTTTATCAAAATACTATGTTTTAGGGTC
66 ACCATAAAAATTGGGTGATTTTAATAAAACATTTTATTTTTATCAAAATACTATATTTTAGGGTC
*
274573 TATGAAAATCCATAAATAGGGATCGAGAGTTAATTACGTATGGGGAAGGATTAGCACCCCACAAG
131 TATGAAAATCCATAAATAGGGATCGAGAGTCAATTACGTATGGGGAAGGATTAGCACCCCACAAG
274638 CGCCCAAAAATTGGTACATAGTTGATTAACCTATATCTAGAATCGAAAATTTTGATTTCGAACTT
196 CGCCCAAAAATTGGTACATAGTTGATTAACCTATATCTAGAATCGAAAATTTTGATTTCGAACTT
274703 TATCTAATTTAAAAATCGTTATGGATGAAAAGTTGAAAAGAGTATTCGTTTATTAATACCAATAG
261 TATCTAATTTAAAAATCGTTATGGATGAAAAGTTGAAAAGAGTATTCGTTTATTAATACCAATAG
274768 CATCCGTCCCTAGCGTAAATGCAGGAGATAAGTTATTGTG
326 CATCCGTCCCTAGCGTAAATGCAGGAGATAAGTTATTGTG
274808 CCTAATAACT
Statistics
Matches: 354, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
367 354 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.33
Consensus pattern (367 bp):
TTTTTCTTTGAAAAGGTTTTGAAATGTGAGGAGTCACCACCAATCATTTAAGGTGTGATTGGGAC
ACCATAAAAATTGGGTGATTTTAATAAAACATTTTATTTTTATCAAAATACTATATTTTAGGGTC
TATGAAAATCCATAAATAGGGATCGAGAGTCAATTACGTATGGGGAAGGATTAGCACCCCACAAG
CGCCCAAAAATTGGTACATAGTTGATTAACCTATATCTAGAATCGAAAATTTTGATTTCGAACTT
TATCTAATTTAAAAATCGTTATGGATGAAAAGTTGAAAAGAGTATTCGTTTATTAATACCAATAG
CATCCGTCCCTAGCGTAAATGCAGGAGATAAGTTATTGTGGT
Found at i:276120 original size:108 final size:109
Alignment explanation
Indices: 275995--276193 Score: 267
Period size: 108 Copynumber: 1.8 Consensus size: 109
275985 GTCACTGCAT
* * * * ** *
275995 ATGACCAAAGTGTAAAAACAGGCTAAACATATAGGGACTAAACAAT-AAATAGACCAAAAATTAC
1 ATGACCAAAATGCAAAAACACGCTAAACATAGACAGAATAAACAATGAAA-AGACCAAAAATTAC
276059 ATAACATGCAAA-AAAAGGGAAAATAACGATTTTAGTACTCACAG
65 ATAACATGCAAAGAAAAGGGAAAATAACGATTTTAGTACTCACAG
** * *
276103 ATGACCAAAATGCAAAAACACGCTAAAGGTAGACATAATAAACAATGAAAATACCAAAAATTACA
1 ATGACCAAAATGCAAAAACACGCTAAACATAGACAGAATAAACAATGAAAAGACCAAAAATTACA
*
276168 TGACATGCAAAGAAAAGGGAAAATAA
66 TAACATGCAAAGAAAAGGGAAAATAA
276194 TAGTTTTGGT
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
108 60 0.78
109 17 0.22
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.17
Consensus pattern (109 bp):
ATGACCAAAATGCAAAAACACGCTAAACATAGACAGAATAAACAATGAAAAGACCAAAAATTACA
TAACATGCAAAGAAAAGGGAAAATAACGATTTTAGTACTCACAG
Found at i:278570 original size:6 final size:6
Alignment explanation
Indices: 278561--278629 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
278551 CTCATTTTTA
* * * *
278561 TTTTCT TTTTCT TTTTCCT TTTCCT TTTCCT TTTCCT TTTGTTT TTTTC-
1 TTTTCT TTTTCT TTTT-CT TTTTCT TTTTCT TTTTCT TTT-TCT TTTTCT
*
278610 TTTCCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TT
278630 CTTTGGCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 4 0.07
6 41 0.76
7 9 0.17
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:278582 original size:18 final size:18
Alignment explanation
Indices: 278561--278629 Score: 86
Period size: 18 Copynumber: 3.8 Consensus size: 18
278551 CTCATTTTTA
278561 TTTTCTTTTTCTTTTTCC
1 TTTTCTTTTTCTTTTTCC
* *
278579 TTTTCCTTTTCCTTTTCC
1 TTTTCTTTTTCTTTTTCC
*
278597 TTTTGTTTTT-TTCTTTCC
1 TTTTCTTTTTCTT-TTTCC
278615 TTTTTCTTTTTCTTT
1 -TTTTCTTTTTCTTT
278630 CTTTGGCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
17 1 0.02
18 29 0.69
19 10 0.24
20 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.01, T:0.77
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTCC
Found at i:290753 original size:108 final size:108
Alignment explanation
Indices: 290520--290754 Score: 262
Period size: 108 Copynumber: 2.2 Consensus size: 108
290510 GCCACTGCAT
* *
290520 ATGACCAAAGTGTAAAAACAAGCTAAACATACAGGGAATAAATAATAAATAGACCAAAAATTATA
1 ATGACCAAA-TGTAAAAACAAGCTAAACATAAAGGGAATAAATAATAAATAGACCAAAAATTACA
* *
290585 TAACATGTAAACAAAAGGGAAAATAATGGTTTCAGTCCTCACAG
65 TAACATGCAAACAAAAGGGAAAATAATAGTTTCAGTCCTCACAG
** * * * *
290629 ATGACCAAATACAAAAACATA-CTAAATC-TAAAGGGACTAAATAGTGAATATACCAAAAATTAC
1 ATGACCAAATGTAAAAACA-AGCTAAA-CATAAAGGGAATAAATAATAAATAGACCAAAAATTAC
* ** *
290692 ATGACATGCAAA-AAAAGGGAAAATAATAGTTTTGGTCC-CTATAG
64 ATAACATGCAAACAAAAGGGAAAATAATAGTTTCAGTCCTC-ACAG
*
290736 GTGACCGAAATGTAAAAAC
1 ATGACC-AAATGTAAAAAC
290755 GTGCTTAACC
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
106 1 0.01
107 31 0.30
108 62 0.59
109 11 0.10
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.21
Consensus pattern (108 bp):
ATGACCAAATGTAAAAACAAGCTAAACATAAAGGGAATAAATAATAAATAGACCAAAAATTACAT
AACATGCAAACAAAAGGGAAAATAATAGTTTCAGTCCTCACAG
Found at i:294954 original size:20 final size:21
Alignment explanation
Indices: 294900--294954 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
294890 GTACCACATG
*
294900 AACAGTATCGGTACTGTTCAT
1 AACAGTATCGGTACTGTTAAT
** **
294921 -GTAGTATCAATACTG-TAAT
1 AACAGTATCGGTACTGTTAAT
294940 AACAGTATCGGTACT
1 AACAGTATCGGTACT
294955 ACGTACCCAG
Statistics
Matches: 24, Mismatches: 9, Indels: 3
0.67 0.25 0.08
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (21 bp):
AACAGTATCGGTACTGTTAAT
Found at i:296763 original size:32 final size:32
Alignment explanation
Indices: 296721--296784 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
296711 TGGACTTGAA
296721 GGCAACGCCTACCTCCTTCTTCTTCTTGGTTT
1 GGCAACGCCTACCTCCTTCTTCTTCTTGGTTT
*
296753 GGCAATGCCTACCTCCTTCTTCTTCTTGGTTT
1 GGCAACGCCTACCTCCTTCTTCTTCTTGGTTT
296785 TATTTTATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.09, C:0.33, G:0.16, T:0.42
Consensus pattern (32 bp):
GGCAACGCCTACCTCCTTCTTCTTCTTGGTTT
Found at i:301002 original size:22 final size:22
Alignment explanation
Indices: 300938--301113 Score: 120
Period size: 22 Copynumber: 8.0 Consensus size: 22
300928 ATATATAATA
* *
300938 TATAGTTTTGTCAAAA-ATATAA
1 TATAGTTTT-TGAAAACATATAG
*
300960 TATATGATTTTTG-AAATATATAG
1 TATA-G-TTTTTGAAAACATATAG
*
300983 TATAGCTTTTT-AAAACATATGG
1 TATAG-TTTTTGAAAACATATAG
301005 TATAGTTTTTGAAAACATATTA-
1 TATAGTTTTTGAAAACATA-TAG
*
301027 TATAG--TTT-AATATATATATA-
1 TATAGTTTTTGAA-A-ACATATAG
301047 TATAGTTTTTGAAAATC-TATAG
1 TATAGTTTTTGAAAA-CATATAG
* *
301069 TATAGTTTTTAAAAACATATTG
1 TATAGTTTTTGAAAACATATAG
301091 TTATA-TAGTTTTGAAAACATATA
1 -TATAGT--TTTTGAAAACATATA
301114 ATACATATAG
Statistics
Matches: 125, Mismatches: 12, Indels: 32
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.02
20 11 0.09
21 15 0.12
22 62 0.50
23 18 0.14
24 17 0.14
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (22 bp):
TATAGTTTTTGAAAACATATAG
Found at i:301073 original size:86 final size:85
Alignment explanation
Indices: 300954--301112 Score: 218
Period size: 86 Copynumber: 1.8 Consensus size: 85
300944 TTTGTCAAAA
300954 ATATAATATATGATTTTTGAAATATATAGTATAGCTTTTT-AAAACATA-TGGTATAGT-TTTTG
1 ATATAATATATGATTTTTGAAATATATAGTATAG-TTTTTAAAAACATATTGGTATA-TATTTTG
301016 AAAACATATTATATAGTTTAAT
64 AAAACATATTATATAGTTTAAT
* *
301038 ATATATATATAT-AGTTTTTGAAAATCTATAGTATAGTTTTTAAAAACATATTGTTATATAGTTT
1 ATATA-ATATATGA-TTTTTG-AAATATATAGTATAGTTTTTAAAAACATATTGGTATATA-TTT
301102 TGAAAACATAT
62 TGAAAACATAT
301113 AATACATATA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
84 6 0.09
85 17 0.26
86 23 0.35
87 6 0.09
88 14 0.21
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (85 bp):
ATATAATATATGATTTTTGAAATATATAGTATAGTTTTTAAAAACATATTGGTATATATTTTGAA
AACATATTATATAGTTTAAT
Found at i:301134 original size:27 final size:26
Alignment explanation
Indices: 301036--301166 Score: 121
Period size: 24 Copynumber: 5.1 Consensus size: 26
301026 ATATAGTTTA
301036 ATATATATATATATAGTTTTTG-AAA-
1 ATATA-ATATATATAGTTTTTGAAAAC
* * *
301061 ATCT-ATA-GTATAGTTTTTAAAAAC
1 ATATAATATATATAGTTTTTGAAAAC
**
301085 ATATTGT-TATATAG-TTTTGAAAAC
1 ATATAATATATATAGTTTTTGAAAAC
*
301109 ATATAATACATATAGTTTTTGAAAAAC
1 ATATAATATATATAGTTTTTG-AAAAC
*
301136 ATATGTAATATATATATTTTTTGAAAAC
1 ATA--TAATATATATAGTTTTTGAAAAC
301164 ATA
1 ATA
301167 ATATATGATT
Statistics
Matches: 85, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
22 10 0.12
23 6 0.07
24 17 0.20
25 15 0.18
26 5 0.06
27 8 0.09
28 8 0.09
29 16 0.19
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (26 bp):
ATATAATATATATAGTTTTTGAAAAC
Found at i:301178 original size:22 final size:21
Alignment explanation
Indices: 301145--301189 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
301135 CATATGTAAT
301145 ATATATATTTTTTGAAAACATA
1 ATATATA-TTTTTGAAAACATA
*
301167 ATATATGA-TTTTGAAAATATA
1 ATATAT-ATTTTTGAAAACATA
301188 AT
1 AT
301190 TTACTATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 6 0.29
23 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
ATATATATTTTTGAAAACATA
Found at i:301182 original size:50 final size:47
Alignment explanation
Indices: 301036--301183 Score: 131
Period size: 51 Copynumber: 3.0 Consensus size: 47
301026 ATATAGTTTA
* *
301036 ATATATATATATATAGTTTTTGAAAATCTATAGTATA-GTTTTTAAAAAC
1 ATAT-TATATATATA-TTTTTGAAAA-CTATAATATATGTTTTGAAAAAC
* *
301085 ATATTGT-TATATAGTTTTGAAAACATATAATACATATAGTTTTTGAAAAAC
1 ATATTATATATATATTTTTGAAAAC-TATAAT--ATAT-G-TTTTGAAAAAC
301136 ATATGTAATATATATATTTTTTGAAAAC-ATAATATATGATTTTGAAAA
1 ATAT-T-ATATATATA-TTTTTGAAAACTATAATATATG-TTTTGAAAA
301184 TATAATTTAC
Statistics
Matches: 82, Mismatches: 7, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
45 1 0.01
46 14 0.17
47 6 0.07
48 5 0.06
49 4 0.05
50 11 0.13
51 18 0.22
52 1 0.01
53 6 0.07
54 6 0.07
55 10 0.12
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (47 bp):
ATATTATATATATATTTTTGAAAACTATAATATATGTTTTGAAAAAC
Found at i:301213 original size:2 final size:2
Alignment explanation
Indices: 301208--301256 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
301198 TAGTTTTTTA
301208 AT AT AT -T 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
301249 AT AT AT AT
1 AT AT AT AT
301257 TAAGCTTATC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:302481 original size:20 final size:20
Alignment explanation
Indices: 302458--302495 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
302448 GATTTTTCTT
302458 TTTTTATTCTATTTATTTAA
1 TTTTTATTCTATTTATTTAA
302478 TTTTTATTCTATTTATTT
1 TTTTTATTCTATTTATTT
302496 TATTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTCTATTTATTTAA
Found at i:302501 original size:28 final size:28
Alignment explanation
Indices: 302441--302524 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 28
302431 TTAGTCCATT
* * * *
302441 TTTATTTGATTTTTCTTTTTTTATTCTA
1 TTTATTTAATTTTTATTTATTTATTTTA
302469 TTTATTTAATTTTTATTCTATTTATTTTA
1 TTTATTTAATTTTTATT-TATTTATTTTA
** *
302498 -TTATTTAACATTAATTTTATTTATTTT
1 TTTATTTAATTTTTA-TTTATTTATTTT
302525 TAGGCCAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 36 0.77
29 11 0.23
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (28 bp):
TTTATTTAATTTTTATTTATTTATTTTA
Found at i:306069 original size:2 final size:2
Alignment explanation
Indices: 306062--306089 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
306052 ATTTGTAATA
306062 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
306090 TATTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:311344 original size:45 final size:45
Alignment explanation
Indices: 311288--311494 Score: 326
Period size: 46 Copynumber: 4.6 Consensus size: 45
311278 CATTTCTTAT
* *
311288 CAATTTACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
311333 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
*
311378 CAACATACTTACCATTTATTTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTA-TTCCATAAGCTCGTAAGCTTATTTTAC
* * *
311424 TAACATACTTACCATTTATTTCCATAAGCTCGTAAGCTTGTTTTAC
1 CAATATACTTACCATTTA-TTCCATAAGCTCGTAAGCTTATTTTAC
*
311470 CAATATACTTGCCA-TTATTCCATAA
1 CAATATACTTACCATTTATTCCATAA
311495 CCATATACCA
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
44 8 0.05
45 63 0.41
46 82 0.54
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (45 bp):
CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:311412 original size:91 final size:91
Alignment explanation
Indices: 311293--311494 Score: 327
Period size: 91 Copynumber: 2.2 Consensus size: 91
311283 CTTATCAATT
* *
311293 TACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTA-TTCCAT
1 TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATTTATTTCCAT
311357 AAGCTCGTAAGCTTATTTTACCAACA
66 AAGCTCGTAAGCTTATTTTACCAACA
*
311383 TACTTACCATTTATTTCCATAAGCTCGTAAGCTTATTTTACTAACATACTTACCATTTATTTCCA
1 TACTTACCATTTA-TTCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATTTATTTCCA
* *
311448 TAAGCTCGTAAGCTTGTTTTACCAATA
65 TAAGCTCGTAAGCTTATTTTACCAACA
*
311475 TACTTGCCA-TTATTCCATAA
1 TACTTACCATTTATTCCATAA
311495 CCATATACCA
Statistics
Matches: 104, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
90 21 0.20
91 45 0.43
92 38 0.37
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (91 bp):
TACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATACTTACCATTTATTTCCAT
AAGCTCGTAAGCTTATTTTACCAACA
Found at i:319480 original size:22 final size:22
Alignment explanation
Indices: 319454--319582 Score: 138
Period size: 22 Copynumber: 5.7 Consensus size: 22
319444 ATAATATATG
*
319454 GTTTTTGAAAATATATAGTACA
1 GTTTTTGAAAATATATAGTATA
* *
319476 G-TTTTGAAAAGCATATGGTATA
1 GTTTTTGAAAA-TATATAGTATA
*
319498 GTTTTTGAAAACATATTA-TATA
1 GTTTTTGAAAATATA-TAGTATA
319520 G-TTTTGAAAATATATAGAATATATA
1 GTTTTTGAAAATATATAG----TATA
319545 GTTTTTGAAAATATATAGTATA
1 GTTTTTGAAAATATATAGTATA
*
319567 GTTTTTAAAAATATAT
1 GTTTTTGAAAATATAT
319583 GGCATGATTT
Statistics
Matches: 92, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.02
21 21 0.23
22 38 0.41
23 10 0.11
25 5 0.05
26 16 0.17
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.43
Consensus pattern (22 bp):
GTTTTTGAAAATATATAGTATA
Found at i:319547 original size:25 final size:26
Alignment explanation
Indices: 319408--319582 Score: 98
Period size: 22 Copynumber: 7.3 Consensus size: 26
319398 AATATATTAT
* *
319408 AATATATATAATATATAGTTTTGTCAAA
1 AATATATAGAATATATAGTTTT-T-GAA
* * *
319436 AATAAATAATAATATATGGTTTTTGAA
1 AATATAT-AGAATATATAGTTTTTGAA
*
319463 AATATATAG----TACAG-TTTTGAA
1 AATATATAGAATATATAGTTTTTGAA
* *
319484 AAGCATAT-G---GTATAGTTTTTGAA
1 AA-TATATAGAATATATAGTTTTTGAA
*
319507 AACATAT----TATATAG-TTTTGAA
1 AATATATAGAATATATAGTTTTTGAA
319528 AATATATAGAATATATAGTTTTTGAA
1 AATATATAGAATATATAGTTTTTGAA
*
319554 AATATATAG----TATAGTTTTTAAA
1 AATATATAGAATATATAGTTTTTGAA
319576 AATATAT
1 AATATAT
319583 GGCATGATTT
Statistics
Matches: 125, Mismatches: 12, Indels: 26
0.77 0.07 0.16
Matches are distributed among these distances:
21 23 0.18
22 40 0.32
23 9 0.07
25 7 0.06
26 17 0.14
27 8 0.06
28 7 0.06
29 14 0.11
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (26 bp):
AATATATAGAATATATAGTTTTTGAA
Found at i:319583 original size:91 final size:93
Alignment explanation
Indices: 319419--319614 Score: 245
Period size: 91 Copynumber: 2.1 Consensus size: 93
319409 ATATATATAA
* *
319419 TATATAGTTTTGTCAAAAATAAATAATAATATATGGTTTTTGAAAATATATAGTACAGTTTTGAA
1 TATATAGTTTTG--AAAAATAAATAAGAATATATAGTTTTTGAAAATATATAGTACAGTTTTGAA
* *
319484 AAGCATATGGTAT-AGTTTTTGAAAACATAT
64 AAACATATGGCATGA-TTTTTGAAAACATAT
* * *
319514 TATATAGTTTTG-AAAATATAT-AGAATATATAGTTTTTGAAAATATATAGTATAGTTTTTAAAA
1 TATATAGTTTTGAAAAATAAATAAGAATATATAGTTTTTGAAAATATATAGTACAGTTTTGAAAA
* * *
319577 ATATATGGCATGATTTTTTAATACATAT
66 ACATATGGCATGATTTTTGAAAACATAT
*
319605 TATACAGTTT
1 TATATAGTTT
319615 AAAAAAAACA
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
91 68 0.76
92 9 0.10
95 12 0.13
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (93 bp):
TATATAGTTTTGAAAAATAAATAAGAATATATAGTTTTTGAAAATATATAGTACAGTTTTGAAAA
ACATATGGCATGATTTTTGAAAACATAT
Found at i:319593 original size:22 final size:22
Alignment explanation
Indices: 319454--319597 Score: 69
Period size: 22 Copynumber: 6.4 Consensus size: 22
319444 ATAATATATG
* * *
319454 GTTTTTGAAAATATATAGTACA
1 GTTTTTAAAAATATATAGCATA
* ** * *
319476 GTTTTGAAAAGCATATGGTATA
1 GTTTTTAAAAATATATAGCATA
*
319498 GTTTTTGAAAACATAT-TA-TATA
1 GTTTTT-AAAA-ATATATAGCATA
* *
319520 G-TTTTGAAAATATATAGAATATATA
1 GTTTTTAAAAATATATAG----CATA
* *
319545 GTTTTTGAAAATATATAGTATA
1 GTTTTTAAAAATATATAGCATA
*
319567 GTTTTTAAAAATATATGGCATGA
1 GTTTTTAAAAATATATAGCAT-A
*
319590 TTTTTTAA
1 GTTTTTAA
319598 TACATATTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
19 4 0.04
20 5 0.05
21 4 0.04
22 48 0.49
23 13 0.13
24 2 0.02
25 5 0.05
26 16 0.16
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (22 bp):
GTTTTTAAAAATATATAGCATA
Found at i:319643 original size:24 final size:23
Alignment explanation
Indices: 319599--319645 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
319589 ATTTTTTAAT
*
319599 ACATATTATACAGTTTAAAAAAA
1 ACATATTATAAAGTTTAAAAAAA
* *
319622 ACATATATATAAATTTTGAAAAAA
1 ACATAT-TATAAAGTTTAAAAAAA
319646 TATGTAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.32
Consensus pattern (23 bp):
ACATATTATAAAGTTTAAAAAAA
Found at i:322533 original size:24 final size:25
Alignment explanation
Indices: 322505--322558 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
322495 ATTTCTGTCA
* *
322505 TTGTGACATG-TTTTTTCTTTGTTC
1 TTGTGACACGTTTTTTTCTCTGTTC
*
322529 TTGTGGCACGTTTTTTTCTCTGTTC
1 TTGTGACACGTTTTTTTCTCTGTTC
322554 TTGTG
1 TTGTG
322559 GTACGTTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.06, C:0.15, G:0.20, T:0.59
Consensus pattern (25 bp):
TTGTGACACGTTTTTTTCTCTGTTC
Found at i:322571 original size:27 final size:25
Alignment explanation
Indices: 322515--322565 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
322505 TTGTGACATG
*
322515 TTTTTTCTTTGTTCTTGTGGCACGT
1 TTTTTTCTCTGTTCTTGTGGCACGT
*
322540 TTTTTTCTCTGTTCTTGTGGTACGT
1 TTTTTTCTCTGTTCTTGTGGCACGT
322565 T
1 T
322566 CCTTTTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.16, G:0.20, T:0.61
Consensus pattern (25 bp):
TTTTTTCTCTGTTCTTGTGGCACGT
Found at i:324363 original size:14 final size:14
Alignment explanation
Indices: 324344--324371 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
324334 GGGGAAACAC
324344 GAAACTTTAAATAA
1 GAAACTTTAAATAA
324358 GAAACTTTAAATAA
1 GAAACTTTAAATAA
324372 TTTAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAACTTTAAATAA
Found at i:326091 original size:18 final size:18
Alignment explanation
Indices: 326046--326083 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
326036 GTCAATGCCA
* *
326046 ATCAACAACCGGTCAACG
1 ATCAACAGCTGGTCAACG
326064 ATCAACAGCTGGTCAACG
1 ATCAACAGCTGGTCAACG
326082 AT
1 AT
326084 TAATAGCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.29, G:0.18, T:0.16
Consensus pattern (18 bp):
ATCAACAGCTGGTCAACG
Found at i:328546 original size:30 final size:30
Alignment explanation
Indices: 328490--328564 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
328480 CTGATTAATT
328490 AATAAAATGTATGAG--GTTTTTCTAAAGA
1 AATAAAATGTATGAGTTGTTTTTCTAAAGA
* *
328518 AATAAAATGTATGAGTTTTTTTTTTAAAGA
1 AATAAAATGTATGAGTTGTTTTTCTAAAGA
328548 AATAAAATGTATGAGTT
1 AATAAAATGTATGAGTT
328565 AAAGCAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 15 0.35
30 28 0.65
ACGTcount: A:0.43, C:0.01, G:0.16, T:0.40
Consensus pattern (30 bp):
AATAAAATGTATGAGTTGTTTTTCTAAAGA
Found at i:329900 original size:3 final size:3
Alignment explanation
Indices: 329892--329957 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
329882 ATTTATTTGT
* *
329892 TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA -TA TATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
329937 -TA TATA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA
329958 AAAAAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 4 0.07
3 45 0.82
4 6 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:329982 original size:14 final size:15
Alignment explanation
Indices: 329965--330000 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
329955 TTAAAAAAAA
329965 AATAATAAATA-AAT
1 AATAATAAATATAAT
329979 AATAAT-AATATAAT
1 AATAATAAATATAAT
329993 AATAATAA
1 AATAATAA
330001 CTACAAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAATAAATATAAT
Found at i:329995 original size:11 final size:11
Alignment explanation
Indices: 329966--329999 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
329956 TAAAAAAAAA
329966 ATAATAAATAA-
1 ATAAT-AATAAT
329977 ATAATAATAAT
1 ATAATAATAAT
329988 ATAATAATAAT
1 ATAATAATAAT
329999 A
1 A
330000 ACTACAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:339174 original size:81 final size:81
Alignment explanation
Indices: 338957--339250 Score: 489
Period size: 81 Copynumber: 3.6 Consensus size: 81
338947 GAATAAATGC
*
338957 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
**
339022 CATTGAATTTGGAAGAAT
66 CATTGAATTT-G-AGAGG
* * *
339040 AATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGGTAAAACCAAT
1 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
339105 CATTGAATTTGAGAGG
66 CATTGAATTTGAGAGG
*
339121 AATGTGTTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
339186 CATTGAATTTGAGAGG
66 CATTGAATTTGAGAGG
* *
339202 AATGTGTTCATAACATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTG
1 AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
339251 ATTCGGTATG
Statistics
Matches: 202, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
81 128 0.63
82 1 0.00
83 73 0.36
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (81 bp):
AATGTGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
CATTGAATTTGAGAGG
Found at i:341938 original size:22 final size:22
Alignment explanation
Indices: 341908--341986 Score: 106
Period size: 22 Copynumber: 3.6 Consensus size: 22
341898 ACATCTACAT
*
341908 TCTTCAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
341930 TCTTTAAAGATGATAGATTCCC
1 TCTTTAAAGATGATAGATTCTC
* *
341952 TTTTTAAAGATGACAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
341974 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
341987 AAGCTTATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.06
22 48 0.94
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:342586 original size:113 final size:113
Alignment explanation
Indices: 342424--343265 Score: 1326
Period size: 113 Copynumber: 7.5 Consensus size: 113
342414 TACCAGTTCG
* * *
342424 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTCC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * * ****
342489 AACCTTTTG-TTCAAATCTATCACTTGATGGATTATCTTTTCCAGTTCG
66 AACCTTTTGCCT-GAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
* * *
342537 AGTTCATAATGAGAAAAACTCCTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
342602 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
342650 AGTTCATAATAAGAAGAACTCCTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
342715 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
342763 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-A--AGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
342825 AACCTTTTGCCTGAATCCATCGCTTGATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
* *
342873 AGTTCATGATAAGAAGAACTCATCTGAAAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
342938 AACCTTTTGCCTGAATCCATCACTTTATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
342986 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
343051 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
* * *
343099 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT--G-AGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * *
343161 AACCTTTTACCTGAATTCATCAATTGATGGATCAGCCTTT-CCAGA-AA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAG-CTTTGCCAGAGAA
*
343208 AGTTCATAATGAA-AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
1 AGTTCATAAT-AAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
343266 CTCATCAAGA
Statistics
Matches: 685, Mismatches: 35, Indels: 19
0.93 0.05 0.03
Matches are distributed among these distances:
109 48 0.07
110 153 0.22
111 7 0.01
112 5 0.01
113 471 0.69
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAA
Found at i:342913 original size:223 final size:225
Alignment explanation
Indices: 342424--343265 Score: 1306
Period size: 223 Copynumber: 3.8 Consensus size: 225
342414 TACCAGTTCG
* * *
342424 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTCC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * * * **** * *
342489 AACCTTTTG-TTCAAATCTATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAA
66 AACCTTTTGCCT-GAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAG
*
342553 AACTCCTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAAT
130 AACTCATCTGAAGAAGGAAGAAGAAATTCATAA-GAGAAGAATTTGTTCAACCTTTTGCCTGAAT
342618 CCATCACTTGATGGATTAGCTTTGCCAGAGAA
194 CCATCACTTGATGGATTAGCTTTGCCAGAGAA
*
342650 AGTTCATAATAAGAAGAACTCCTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
342715 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGA
*
342780 ACTCATCTGAAGAAGGAAGAAGAAGTTCAT-A-AGAAGAATTTGTTCAACCTTTTGCCTGAATCC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAAGAGAAGAATTTGTTCAACCTTTTGCCTGAATCC
*
342843 ATCGCTTGATGGATTAGCTTTGCCAGAGAA
196 ATCACTTGATGGATTAGCTTTGCCAGAGAA
* *
342873 AGTTCATGATAAGAAGAACTCATCTGAAAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
*
342938 AACCTTTTGCCTGAATCCATCACTTTATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGA
343003 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAA-GAGAAGAATTTGTTCAACCTTTTGCCTGAATC
343068 CATCACTTGATGGATTAGCTTTGCCAGAGAA
195 CATCACTTGATGGATTAGCTTTGCCAGAGAA
* * *
343099 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT--G-AGAATTTGTTC
1 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
* * * *
343161 AACCTTTTACCTGAATTCATCAATTGATGGATCAGCCTTT-CCAGA-AAAGTTCATAATGAA-AA
66 AACCTTTTGCCTGAATCCATCACTTGATGGATTAG-CTTTGCCAGAGAAAGTTCATAAT-AAGAA
*
343223 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
129 GAACTCATCTGAAGAAGGAAGAAGAAATTCATAA-GAGAAGAA
343266 CTCATCAAGA
Statistics
Matches: 575, Mismatches: 35, Indels: 16
0.92 0.06 0.03
Matches are distributed among these distances:
222 56 0.10
223 264 0.46
224 6 0.01
225 1 0.00
226 247 0.43
227 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (225 bp):
AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCATAAGAGAAGAATTTGTTCAACCTTTTGCCTGAATCC
ATCACTTGATGGATTAGCTTTGCCAGAGAA
Found at i:343005 original size:336 final size:334
Alignment explanation
Indices: 342424--343265 Score: 1339
Period size: 336 Copynumber: 2.5 Consensus size: 334
342414 TACCAGTTCG
* * *
342424 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAATTCATAATGAGAAGAATTTGTCC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT-A--AGAAGAATTTGTTC
* * * * *** * *
342489 AACCTTTTG-TTCAAATCTATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAA
63 AACCTTTTGCCT-GAATCCATCACTTGATGGATTAGC-TTTCCAG-AAAAGTTCATAATAAGAAG
*
342553 AACTCCTCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAAT
125 AACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAAT
*
342618 CCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCCTCTGAAGAAGG
190 CCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
342683 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
255 AAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATT
342748 AGCTTTGCCAGAGAA
320 AGCTTTGCCAGAGAA
*
342763 AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
* *
342828 CTTTTGCCTGAATCCATCGCTTGATGGATTAGCTTTGCCAGAGAAAGTTCATGATAAGAAGAACT
66 CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTT-CCAGA-AAAGTTCATAATAAGAAGAACT
*
342893 CATCTGAAAAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCAT
129 CATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCAT
*
342958 CACTTTATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
194 CACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGA
343023 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGCT
259 AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGCT
343088 TTGCCAGAGAA
324 TTGCCAGAGAA
*
343099 AGTTCATAATGAGAATAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG-AGAATTTGTTCAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA-GAAGAATTTGTTCAA
* * * *
343163 CCTTTTACCTGAATTCATCAATTGATGGATCAGCCTTTCCAGAAAAGTTCATAATGAA-AAGAAC
65 CCTTTTGCCTGAATCCATCACTTGATGGATTAG-CTTTCCAGAAAAGTTCATAAT-AAGAAGAAC
*
343227 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAA
128 TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
343266 CTCATCAAGA
Statistics
Matches: 468, Mismatches: 29, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
335 57 0.12
336 360 0.77
337 6 0.01
338 1 0.00
339 44 0.09
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (334 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAGAAGAATTTGTTCAAC
CTTTTGCCTGAATCCATCACTTGATGGATTAGCTTTCCAGAAAAGTTCATAATAAGAAGAACTCA
TCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCA
CTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAG
AAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATCCATCACTTGATGGATTAGCTTT
GCCAGAGAA
Found at i:343543 original size:3 final size:3
Alignment explanation
Indices: 343535--343591 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
343525 ATTTATTTGT
* *
343535 TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TATA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
343581 TTA -TA TTA TTA
1 TTA TTA TTA TTA
343592 AAAAAATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.78
4 6 0.13
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:343607 original size:14 final size:14
Alignment explanation
Indices: 343590--343631 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
343580 ATTATATTAT
343590 TAAAAAAATAATAA
1 TAAAAAAATAATAA
*
343604 TAAATAAATAATAA
1 TAAAAAAATAATAA
* *
343618 TAATATAATAATAA
1 TAAAAAAATAATAA
343632 CTACAAACCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:348216 original size:21 final size:21
Alignment explanation
Indices: 348192--348237 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
348182 ACTGTAGTCC
348192 TCAGCTACTCTCCAGCTAATG
1 TCAGCTACTCTCCAGCTAATG
* *
348213 TCAGCTACTTTCTAGCTAATG
1 TCAGCTACTCTCCAGCTAATG
348234 TCAG
1 TCAG
348238 TTATCCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (21 bp):
TCAGCTACTCTCCAGCTAATG
Found at i:348496 original size:21 final size:21
Alignment explanation
Indices: 348463--348503 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
348453 TAGTCCTCAG
348463 CTACTCTCCAGCTAATGTCAA
1 CTACTCTCCAGCTAATGTCAA
* *
348484 CTACTTTCTAGCTAATGTCA
1 CTACTCTCCAGCTAATGTCA
348504 GTTATCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (21 bp):
CTACTCTCCAGCTAATGTCAA
Found at i:348618 original size:267 final size:267
Alignment explanation
Indices: 348130--348665 Score: 975
Period size: 267 Copynumber: 2.0 Consensus size: 267
348120 TCTAGCTAGG
*
348130 TACCTAGCGTCACTCCAGCTACCTTCAGCTGCCTCAAGTCCTCAGCTCAACTACTGTAGTCCTCA
1 TACCTAGCGTCACTCCAGCTACCTCCAGCTGCCTCAAGTCCTCAGCTCAACTACTGTAGTCCTCA
* *
348195 GCTACTCTCCAGCTAATGTCAGCTACTTTCTAGCTAATGTCAGTTATCCTTAAGCTAGGATCGTT
66 GCTACTCTCCAGCTAATGTCAACTACTTTCTAGCTAATGTCAGTTATCCTTAAGCTAGGATCATT
* * *
348260 ATGCTTGAGCTCTATTTAGCTATTTTTCATCACATTGAGATTCCCATGAGTTGTCATGCTTGATG
131 ATGCTTGAGCTCCATTTAGCTATTTTTCATCACATTGAGATTCCCATGAGTTGTCATGCTGGATA
348325 TTTAGCTTTGCGAAGCTGCCACATGATGTCTTACCAATGTGTGCACCTGTACAAATAAATAAAAC
196 TTTAGCTTTGCGAAGCTGCCACATGATGTCTTACCAATGTGTGCACCTGTACAAATAAATAAAAC
348390 AAACAAA
261 AAACAAA
* *
348397 TACCTATCGTCATTCCAGCTACCTCCAGCTGCCTCAAGTCCTCAGCTCAACTACTGTAGTCCTCA
1 TACCTAGCGTCACTCCAGCTACCTCCAGCTGCCTCAAGTCCTCAGCTCAACTACTGTAGTCCTCA
348462 GCTACTCTCCAGCTAATGTCAACTACTTTCTAGCTAATGTCAGTTATCCTTAAGCTAGGATCATT
66 GCTACTCTCCAGCTAATGTCAACTACTTTCTAGCTAATGTCAGTTATCCTTAAGCTAGGATCATT
348527 ATGCTTGAGCTCCATTTAGCTATTTTTCATCACATTGAGATTCCCATGAGCTT-TCATGCTGGAT
131 ATGCTTGAGCTCCATTTAGCTATTTTTCATCACATTGAGATTCCCATGAG-TTGTCATGCTGGAT
*
348591 ATTTAGCTTTGCGAAGCTGCCACATGATGTCTTACCAATGTGTGCACTTGTACAAATAAATAAAA
195 ATTTAGCTTTGCGAAGCTGCCACATGATGTCTTACCAATGTGTGCACCTGTACAAATAAATAAAA
348656 CAAACAAA
260 CAAACAAA
348664 TA
1 TA
348666 AGAGATGTGT
Statistics
Matches: 259, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
267 257 0.99
268 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (267 bp):
TACCTAGCGTCACTCCAGCTACCTCCAGCTGCCTCAAGTCCTCAGCTCAACTACTGTAGTCCTCA
GCTACTCTCCAGCTAATGTCAACTACTTTCTAGCTAATGTCAGTTATCCTTAAGCTAGGATCATT
ATGCTTGAGCTCCATTTAGCTATTTTTCATCACATTGAGATTCCCATGAGTTGTCATGCTGGATA
TTTAGCTTTGCGAAGCTGCCACATGATGTCTTACCAATGTGTGCACCTGTACAAATAAATAAAAC
AAACAAA
Found at i:357205 original size:215 final size:214
Alignment explanation
Indices: 356835--357559 Score: 1213
Period size: 215 Copynumber: 3.4 Consensus size: 214
356825 ACCATCTTTT
* * *
356835 GACTTATAAATTATGAAATTTTGAAAATTGCATTTTTCGTTTTCAAAAATTCCATCTTCTTAAAA
1 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
* * *
356900 CATCATTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTACGGATGGCCCGAA
66 CATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
* * *
356965 AGACTTATCATCTTTCTCTAAAGGCTTACAGATGACCCGAAGGAATTAAGCATCATGCTCGAAAG
131 GGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAG
*
357030 ACTTACTGATGGCCCAAAG
196 ACTTACTGATGGCCCGAAG
*
357049 GACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
1 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
* * *
357114 CATTATTTTTT-TATTTCTAAATTCATGTGAAAACATCCCACCCGAAGGTCTTATGGATTGCCCG
66 CATCATTTTTTAT-TTTC-AAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCG
* *
357178 AAGGACTTATCATCTTGCTCTAAAGGCTTACATATGACTCGAAGGATTTAAGCATCATGCTCGAA
129 AAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAA
357243 AGACTTACTGATGGCCCGAAG
194 AGACTTACTGATGGCCCGAAG
*
357264 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTTCAAAAGTTCCATCTTCTTAAA
1 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCG-TTTTCAAAAATTCCATCTTCTTAAA
* * *
357329 ACATCATTTTTAATTTTCAAATTCATTTGAAAACATCCTACCCGAAGGTCTTATAGATGGCCCGA
65 ACATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGA
357394 AGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAA
130 AGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAA
357459 GACTTACTGATGGCCCGAAG
195 GACTTACTGATGGCCCGAAG
357479 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
1 GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
357544 CA-CAATTTTTT-TTTTC
66 CATC-ATTTTTTATTTTC
357560 GTTTTTAAAT
Statistics
Matches: 479, Mismatches: 27, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
213 7 0.01
214 108 0.23
215 325 0.68
216 38 0.08
217 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (214 bp):
GACTTATAAATTTTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAA
CATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
GGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAG
ACTTACTGATGGCCCGAAG
Found at i:357263 original size:42 final size:41
Alignment explanation
Indices: 357173--357269 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
357163 CTTATGGATT
* * * *
357173 GCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACATATG
1 GCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACATATG
* * *
357214 ACTCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC-TGATG
1 GCCCGAAGGACTT-AGCATCATGCTCGAAAGACTTACAT-ATG
357256 GCCCGAAGGACTTA
1 GCCCGAAGGACTTA
357270 TAAATTTTGA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
41 12 0.27
42 32 0.73
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (41 bp):
GCCCGAAGGACTTAGCATCATGCTCGAAAGACTTACATATG
Found at i:357476 original size:42 final size:41
Alignment explanation
Indices: 357378--357484 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
357368 ACCCGAAGGT
* * * * *
357378 CTTATAGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGG
1 CTTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
* *
357419 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGA
1 CTTACAGATGGCCCGAAGGACTT-AGCATCATGCTCGAAAGA
*
357461 CTTACTGATGGCCCGAAGGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
357485 TAAATTTTGA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 21 0.38
42 34 0.62
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTAGCATCATGCTCGAAAGA
Found at i:357650 original size:36 final size:36
Alignment explanation
Indices: 357603--357677 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
357593 AGGTTTTATG
357603 GATGGTTTGCTTCACTGCTCTTCGGGGAAGGCTTAA
1 GATGGTTTGCTTCACTGCTCTTCGGGGAAGGCTTAA
*
357639 GATGGTTTGCTTCACTGCTCTTCGGTGAAGGCTTAA
1 GATGGTTTGCTTCACTGCTCTTCGGGGAAGGCTTAA
357675 GAT
1 GAT
357678 TGACTTGCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (36 bp):
GATGGTTTGCTTCACTGCTCTTCGGGGAAGGCTTAA
Found at i:359722 original size:16 final size:16
Alignment explanation
Indices: 359701--359731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
359691 GCGAAATTTT
359701 CCCAATAACATCCATA
1 CCCAATAACATCCATA
359717 CCCAATAACATCCAT
1 CCCAATAACATCCAT
359732 GCCCCATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (16 bp):
CCCAATAACATCCATA
Found at i:366497 original size:2 final size:2
Alignment explanation
Indices: 366484--366513 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
366474 AAATTATAAG
*
366484 AT AT AC 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
366514 TAACATATGA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:368238 original size:16 final size:16
Alignment explanation
Indices: 368217--368256 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
368207 TGTAAAATAC
368217 AATAATTAATAATAAT
1 AATAATTAATAATAAT
368233 AATAATT-ATAATAAT
1 AATAATTAATAATAAT
368248 ATATAATTA
1 A-ATAATTA
368257 CTATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATTAATAATAAT
Found at i:368506 original size:124 final size:124
Alignment explanation
Indices: 368321--368563 Score: 362
Period size: 124 Copynumber: 2.0 Consensus size: 124
368311 CAAAGGTTGG
* * * * *
368321 TGTTTCAAGATAAACTGTCTCGAGAGAGATAAAACATGTTTCAAGGGAAACAATCTCAAAGATTT
1 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACATATTTCAAGGGAAACAATCTCAAAGATTT
* *
368386 TGTGTCTCAAGGGAAACATTTTCAAAGTTTATGTTTCAAGAGAAACTGTCTCAAAAACT
66 TGTGCCTCAAGGGAAACATTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAAAACT
* * *
368445 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAA-TTAATTTCAAGGGAAACGATCTTAAAGATT
1 TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACAT-ATTTCAAGGGAAACAATCTCAAAGATT
* *
368509 TTGTGCCTCAAGGGAAACATTTTCAAAGTTTATGCTTCGAGAGAAGCTGTCTCAA
65 TTGTGCCTCAAGGGAAACATTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAA
368564 GGGAGACAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
123 1 0.01
124 105 0.99
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (124 bp):
TGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACATATTTCAAGGGAAACAATCTCAAAGATTT
TGTGCCTCAAGGGAAACATTTTCAAAGTTTATGCTTCAAGAGAAACTGTCTCAAAAACT
Found at i:368649 original size:21 final size:21
Alignment explanation
Indices: 368625--368689 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
368615 AAAAACTATC
368625 TCAAGGGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
* *
368646 TCAA-GG-G---AAA-CTGTC
1 TCAAGGGAGACAAAATTTGTT
*
368661 TCAAGAGAGACAAAATTTGTT
1 TCAAGGGAGACAAAATTTGTT
368682 TCAAGGGA
1 TCAAGGGA
368690 AACTGTCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 7 0.22
16 4 0.12
17 1 0.03
19 1 0.03
20 5 0.16
21 14 0.44
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (21 bp):
TCAAGGGAGACAAAATTTGTT
Found at i:368654 original size:66 final size:63
Alignment explanation
Indices: 368516--368664 Score: 181
Period size: 65 Copynumber: 2.3 Consensus size: 63
368506 ATTTTGTGCC
* * * * *
368516 TCAAGGGAAACATTTTCAAAGTTTATGCTTCGAGAGAAGCTGTCTCAAGGGAGACAAATTCGTT
1 TCAAGGGAAAC-TTCTCAAAGTTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAAATTCGTT
* * *
368580 TCAAGGGAAACGTTCTCAAAGTTTTTTGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTGT
1 TCAAGGGAAAC-TTCTCAAAG-TTTATGCTTCAAGAAAAACTATCTCAAGGGAGAC-AAATTCGT
368645 T
63 T
368646 TCAAGGGAAACTGTCTCAA
1 TCAAGGGAAACT-TCTCAA
368665 GAGAGACAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
64 19 0.26
65 29 0.40
66 25 0.34
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (63 bp):
TCAAGGGAAACTTCTCAAAGTTTATGCTTCAAGAAAAACTATCTCAAGGGAGACAAATTCGTT
Found at i:368657 original size:36 final size:36
Alignment explanation
Indices: 368604--368814 Score: 260
Period size: 36 Copynumber: 5.7 Consensus size: 36
368594 CTCAAAGTTT
** *
368604 TTTGTTTCAAGAAAAACTATCTCAAGGGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
*
368640 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* *
368676 TTTGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* *
368712 TTTTTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
1 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
* * *
368748 TCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAA
1 ---TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
*
368787 TCTTTTGTTTCAAGGGAAACTACCTCAA
1 ---TTTGTTTCAAGGGAAACTATCTCAA
368815 ACGAGATAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
36 99 0.63
39 59 0.37
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA
Found at i:368707 original size:72 final size:73
Alignment explanation
Indices: 368603--368865 Score: 269
Period size: 72 Copynumber: 3.5 Consensus size: 73
368593 TCTCAAAGTT
** * *
368603 TTTTGTTTCAAGAAAAACTATCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAG
368668 AGACAAAA
66 AGACAAAA
* * *
368676 -TTTGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAATTTTTTTCAAGGGAAACTATCTCAAGAG
1 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAG
*
368740 AGATAAAA
66 AGACAAAA
* * * *
368748 TCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGGGAAACTACCTC
1 --TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA---TTTGTTTCAAGGGAAACTATCTC
*
368813 AA-ACGAGATAAAA
61 AAGA-GAGACAAAA
* *** * *
368826 TCTTCTGTTTCGATTAAAACTATCTCAAGCGAGATAAAAT
1 T-TT-TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
368866 ATTCTTTAAA
Statistics
Matches: 163, Mismatches: 18, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
72 64 0.39
75 32 0.20
76 1 0.01
77 3 0.02
78 63 0.39
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (73 bp):
TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAG
AGACAAAA
Found at i:368772 original size:39 final size:38
Alignment explanation
Indices: 368602--368865 Score: 281
Period size: 39 Copynumber: 7.0 Consensus size: 38
368592 TTCTCAAAGT
** * *
368602 TTTTTGTTTCAAGAAAAACTATCTCAAGGGAGACAAAA
1 TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
* *
368640 --TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
* * *
368676 --TTTGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAA
1 TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
368712 -TTTT-TTTCAAGGGAAACTATCTCAAGAGAGATAAAA
1 TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
* *
368748 TCTTTTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAA
1 T-TTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
*
368787 TCTTTTGTTTCAAGGGAAACTACCTCAA-ACGAGATAAAA
1 T-TTTTGTTTCAAGGGAAACTATCTCAAGA-GAGATAAAA
* * *** *
368826 TCTTCTGTTTCGATTAAAACTATCTCAAGCGAGATAAAA
1 T-TTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
368865 T
1 T
368866 ATTCTTTAAA
Statistics
Matches: 200, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
36 96 0.48
37 3 0.01
38 4 0.02
39 97 0.49
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (38 bp):
TTTTTGTTTCAAGGGAAACTATCTCAAGAGAGATAAAA
Found at i:372919 original size:31 final size:29
Alignment explanation
Indices: 372877--372934 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
372867 CAATAAGAGC
372877 AGACAAAAAGAAATCAATGTTAGTAGAAACA
1 AGACAAAAAG-AATCAA-GTTAGTAGAAACA
* *
372908 AGACAACAAGAATCAAGTTAGTTGAAA
1 AGACAAAAAGAATCAAGTTAGTAGAAA
372935 AGATTAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 6 0.24
31 9 0.36
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (29 bp):
AGACAAAAAGAATCAAGTTAGTAGAAACA
Found at i:375865 original size:81 final size:81
Alignment explanation
Indices: 375754--375915 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
375744 CAGCAGTATG
375754 GGTTTTAAAATAAAAAAATGGTGATTACAGAAGGCATAATTATCTAATTAATAATCTATGTGAAA
1 GGTTTTAAAATAAAAAAATGGTGATTACAGAAGGCATAATTATCTAATTAATAATCTATGTGAAA
375819 GATACTTGAGCGGATA
66 GATACTTGAGCGGATA
375835 GGTTTTAAAATAAAAAAATGGTGATTACAGAAGGCATAATTATCTAATTAATAATCTATGTGAAA
1 GGTTTTAAAATAAAAAAATGGTGATTACAGAAGGCATAATTATCTAATTAATAATCTATGTGAAA
375900 GATACTTGAGCGGATA
66 GATACTTGAGCGGATA
375916 TCTATGTCAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (81 bp):
GGTTTTAAAATAAAAAAATGGTGATTACAGAAGGCATAATTATCTAATTAATAATCTATGTGAAA
GATACTTGAGCGGATA
Found at i:378091 original size:13 final size:13
Alignment explanation
Indices: 378073--378129 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
378063 TTATATTTTA
378073 TTTAATATTATAT
1 TTTAATATTATAT
*
378086 TTTAATATATTTAT
1 TTTAATAT-TATAT
*
378100 TTTAA-ATTAACAT
1 TTTAATATT-ATAT
*
378113 GATTAATATTATAT
1 -TTTAATATTATAT
378127 TTT
1 TTT
378130 TAAAGTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
12 1 0.03
13 14 0.41
14 16 0.47
15 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (13 bp):
TTTAATATTATAT
Found at i:379283 original size:13 final size:12
Alignment explanation
Indices: 379256--379298 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
379246 GTTGACCAAT
379256 TCAACTCATGAG
1 TCAACTCATGAG
*
379268 TCAAATCATCGAG
1 TCAACTCAT-GAG
379281 TCAACTCAGTTGAG
1 TCAACTCA--TGAG
379295 TCAA
1 TCAA
379299 TAAAGACAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 8 0.31
13 10 0.38
14 7 0.27
15 1 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (12 bp):
TCAACTCATGAG
Found at i:379341 original size:21 final size:22
Alignment explanation
Indices: 379316--379358 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
379306 AGAGTCAACC
379316 AGTTGACC-TGACTTTGACCAG
1 AGTTGACCGTGACTTTGACCAG
379337 AGTTGACCGTTGACTTTGACCA
1 AGTTGACCG-TGACTTTGACCA
379359 AAAAGCCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 8 0.40
23 12 0.60
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (22 bp):
AGTTGACCGTGACTTTGACCAG
Found at i:386368 original size:26 final size:26
Alignment explanation
Indices: 386340--386389 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
386330 GTCAAAATAG
386340 GGGGCAGCTAAATT-GATTTCAACAT
1 GGGGCAGCTAAATTGGATTTCAACAT
* *
386365 GGGGCGGCTAAATTGGTTTTCAACA
1 GGGGCAGCTAAATTGGATTTCAACA
386390 AATGTTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
GGGGCAGCTAAATTGGATTTCAACAT
Found at i:387523 original size:32 final size:32
Alignment explanation
Indices: 387487--387552 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
387477 AGTTCGTCAA
*
387487 GAAACAGCAAATTAAAATTCGATGATGTTCGG
1 GAAACAGCAAATTAAAATTCGACGATGTTCGG
*
387519 GAAACAGCAAATTAAAATTTGACGATGTTCGG
1 GAAACAGCAAATTAAAATTCGACGATGTTCGG
387551 GA
1 GA
387553 TTTGGTACTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (32 bp):
GAAACAGCAAATTAAAATTCGACGATGTTCGG
Found at i:390881 original size:26 final size:26
Alignment explanation
Indices: 390853--390902 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
390843 GTCAAAATAG
390853 GGGGCAGCTAAATT-GATTTCAACAT
1 GGGGCAGCTAAATTGGATTTCAACAT
* *
390878 GGGGCGGCTAAATTGGTTTTCAACA
1 GGGGCAGCTAAATTGGATTTCAACA
390903 AATGTTTGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (26 bp):
GGGGCAGCTAAATTGGATTTCAACAT
Found at i:404034 original size:12 final size:12
Alignment explanation
Indices: 404009--404041 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
403999 ATAATAAATA
404009 ATAATGAT-AAG
1 ATAATGATAAAG
404020 ATAATGATAAAG
1 ATAATGATAAAG
*
404032 ATAAAGATAA
1 ATAATGATAA
404042 GAATGAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (12 bp):
ATAATGATAAAG
Found at i:404043 original size:11 final size:11
Alignment explanation
Indices: 404009--404043 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
403999 ATAATAAATA
404009 ATAATGATAAG
1 ATAATGATAAG
404020 ATAATGATAAAG
1 ATAATGAT-AAG
*
404032 ATAAAGATAAG
1 ATAATGATAAG
404043 A
1 A
404044 ATGAGAATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (11 bp):
ATAATGATAAG
Found at i:404065 original size:4 final size:4
Alignment explanation
Indices: 404056--404104 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
404046 GAGAATTGTT
* *
404056 TAAA TAAA TATAA TGATA TAAA -AAT TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TA-AA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
404105 ATTGAGATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 30 0.79
5 5 0.13
6 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (4 bp):
TAAA
Found at i:404869 original size:23 final size:21
Alignment explanation
Indices: 404837--404889 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
404827 ATAGCATTTA
404837 AAATCCTAAAA-ACAAGATAAAT
1 AAATCCTAAAATA-AAGA-AAAT
*
404859 ATAATCTTAAAATAAAGAAAAT
1 A-AATCCTAAAATAAAGAAAAT
404881 AAATCCTAA
1 AAATCCTAA
404890 TTAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 6 0.22
23 13 0.48
24 1 0.04
ACGTcount: A:0.62, C:0.11, G:0.04, T:0.23
Consensus pattern (21 bp):
AAATCCTAAAATAAAGAAAAT
Found at i:404966 original size:81 final size:81
Alignment explanation
Indices: 404880--405045 Score: 264
Period size: 81 Copynumber: 2.0 Consensus size: 81
404870 ATAAAGAAAA
*
404880 TAAATCCTAATTAAAATACTTAAAACTATTTAAACTAAAATACCTAAAAA-AATATAAGAAAAT-
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAATAA-ATAA-AAAATA
*
404943 ATATTTAAAATAATATCT
64 ATATTTAAAATAATATCC
* *
404961 TAAATCTTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAATAAATAAAATATAAT
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAATAAATAAAAAATAAT
405026 ATTTAAAATAATATCC
66 ATTTAAAATAATATCC
405042 TAAA
1 TAAA
405046 ACATGAGTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
80 4 0.05
81 73 0.92
82 2 0.03
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (81 bp):
TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAATAAATAAAAAATAAT
ATTTAAAATAATATCC
Found at i:408771 original size:17 final size:18
Alignment explanation
Indices: 408744--408777 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
408734 TTTTAGTTAT
408744 TTTGTAAAAGTAAATGTA
1 TTTGTAAAAGTAAATGTA
*
408762 TTTG-AAAAGTTAATGT
1 TTTGTAAAAGTAAATGT
408778 GACACCTCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (18 bp):
TTTGTAAAAGTAAATGTA
Found at i:419590 original size:23 final size:23
Alignment explanation
Indices: 419560--419605 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
419550 GGTTTAGAAG
419560 TTCCCCAACTAAATTGAAAAGCA
1 TTCCCCAACTAAATTGAAAAGCA
419583 TTCCCCAACTAAATTGAAAAGCA
1 TTCCCCAACTAAATTGAAAAGCA
419606 GTGGAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.09, T:0.22
Consensus pattern (23 bp):
TTCCCCAACTAAATTGAAAAGCA
Found at i:425774 original size:9 final size:8
Alignment explanation
Indices: 425752--425841 Score: 53
Period size: 9 Copynumber: 11.0 Consensus size: 8
425742 CGAACCCGAA
*
425752 AATATTAT
1 AATATAAT
425760 ATATATAATT
1 A-ATATAA-T
*
425770 AATATAAAA
1 AATAT-AAT
425779 AATATAA-
1 AATATAAT
*
425786 AATATTAT
1 AATATAAT
425794 -ATATAATT
1 AATATAA-T
*
425802 AATATAAA
1 AATATAAT
425810 AATATAA-
1 AATATAAT
*
425817 AATATTAT
1 AATATAAT
425825 -ATATATAT
1 AATATA-AT
425833 ATATATAAT
1 A-ATATAAT
425842 CGGGGCGGGG
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
7 21 0.32
8 13 0.20
9 22 0.34
10 9 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AATATAAT
Found at i:425839 original size:32 final size:33
Alignment explanation
Indices: 425750--425840 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 33
425740 CCCGAACCCG
425750 AAAATATTATATATATA-ATTAATATAAAAAATAT
1 AAAATATTATATATATATA-TAATAT-AAAAATAT
425784 AAAATATTATATATA-AT-TAATATAAAAATAT
1 AAAATATTATATATATATATAATATAAAAATAT
425815 AAAATATTATATATATATAT-ATATAA
1 AAAATATTATATATATATATAATATAA
425841 TCGGGGCGGG
Statistics
Matches: 54, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
31 23 0.43
32 14 0.26
33 2 0.04
34 15 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
AAAATATTATATATATATATAATATAAAAATAT
Found at i:430574 original size:27 final size:27
Alignment explanation
Indices: 430540--430597 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
430530 ATTTGACACA
430540 TTTTTTATACTTATTACAAGTAAATAT
1 TTTTTTATACTTATTACAAGTAAATAT
430567 TTTTTTATACTTATTACAAGTAAATAT
1 TTTTTTATACTTATTACAAGTAAATAT
430594 TTTT
1 TTTT
430598 CTAATCTCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (27 bp):
TTTTTTATACTTATTACAAGTAAATAT
Found at i:430979 original size:26 final size:27
Alignment explanation
Indices: 430924--430990 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
430914 ATTTAATTGA
430924 TTTAAAAAAATAAAATTTATTTGACTT
1 TTTAAAAAAATAAAATTTATTTGACTT
430951 TTTAAAAAAATAAAATTTATTTGACTT
1 TTTAAAAAAATAAAATTTATTTGACTT
*
430978 TTAAAAAAAATAA
1 TTTAAAAAAATAA
430991 CTTTTACGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (27 bp):
TTTAAAAAAATAAAATTTATTTGACTT
Found at i:435699 original size:24 final size:24
Alignment explanation
Indices: 435664--435718 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
435654 CTTTTTTTCT
* * *
435664 TTTTCTTTTTTTTGATTGCTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
*
435688 TTTTCTTCTTTTGGAGTGGTTGAC
1 TTTTCTTCTTTTGGAGTGCTTGAC
435712 TTTTCTT
1 TTTTCTT
435719 TGCTATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.07, C:0.13, G:0.16, T:0.64
Consensus pattern (24 bp):
TTTTCTTCTTTTGGAGTGCTTGAC
Found at i:437571 original size:21 final size:21
Alignment explanation
Indices: 437547--437593 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
437537 GATCGTAGGA
*
437547 ACTTCTGGGAGAAGTATCGAT
1 ACTTCTGGGAAAAGTATCGAT
437568 ACTTCTGGGAAAAGTATCGAT
1 ACTTCTGGGAAAAGTATCGAT
437589 ACTTC
1 ACTTC
437594 CCCTATAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
ACTTCTGGGAAAAGTATCGAT
Found at i:439800 original size:76 final size:77
Alignment explanation
Indices: 439658--439850 Score: 259
Period size: 76 Copynumber: 2.5 Consensus size: 77
439648 AGATTGCTTA
* * * *
439658 GAGGGAACCGATTCCCCCCATAGGAGGAACTGATT-CCCCCTAAATGTTTTTGGCCCCGAGATTT
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAAAGTTTTTGGCCACGAGAATT
439722 CCAGAATGCTCG
66 CCAGAATGCTCG
* *
439734 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAACAG-TTTT-GCTATGAGAAT
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAA-AGTTTTTGGCCACGAGAAT
*
439797 TCCAGTATGCTCG
65 TCCAGAATGCTCG
* * *
439810 GAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
439851 TGTACAACGG
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
75 19 0.18
76 72 0.69
77 13 0.12
78 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.21
Consensus pattern (77 bp):
GAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAAAGTTTTTGGCCACGAGAATT
CCAGAATGCTCG
Found at i:445680 original size:21 final size:21
Alignment explanation
Indices: 445654--445693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
445644 CCCCCTTTGA
*
445654 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
445675 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
445694 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:448406 original size:76 final size:77
Alignment explanation
Indices: 448232--448431 Score: 257
Period size: 76 Copynumber: 2.6 Consensus size: 77
448222 AATTACAGAT
*
448232 TGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCTAAATGTTTTTGGCCCCG
1 TGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAAAGTTTTTGGCCCCG
* *
448296 AGATTTCTATAA
66 AGAATTCCATAA
* *
448308 TGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCCTAAACAG-TTTT-GCTC
1 TGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATT-CCCCCCTAAA-AGTTTTTGGCCC
448371 CGAGAATTCCAGT-A
64 CGAGAATTCCA-TAA
* * * *
448385 TGCTCAGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCTCCCCT
1 TGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCT
448432 TGTACAACGG
Statistics
Matches: 110, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
75 6 0.05
76 52 0.47
77 37 0.34
78 14 0.13
79 1 0.01
ACGTcount: A:0.23, C:0.33, G:0.23, T:0.21
Consensus pattern (77 bp):
TGCTCAGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCCTAAAAGTTTTTGGCCCCG
AGAATTCCATAA
Found at i:450711 original size:27 final size:27
Alignment explanation
Indices: 450676--450727 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
450666 CTTGGAAATA
450676 CTTTAGGTCATTTTACACTTTAGGGGC
1 CTTTAGGTCATTTTACACTTTAGGGGC
*
450703 CTTTTGGTCATTTTACACTTTAGGG
1 CTTTAGGTCATTTTACACTTTAGGG
450728 AATTACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
CTTTAGGTCATTTTACACTTTAGGGGC
Found at i:451447 original size:54 final size:54
Alignment explanation
Indices: 451383--451865 Score: 610
Period size: 54 Copynumber: 8.9 Consensus size: 54
451373 TAGTGCCCAT
* * * * * ** * *
451383 ACGGTCATTCATAAACATATTATGAATTTCTTGGTTTGCATACATAGTGTCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
* * * *
451437 ACAGTTATTCATCAATATATGATGAATTCCGTGAATTACACACTTAGTGCCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
*
451491 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGACGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
* * * * * *
451545 ACTGTTATTCATCAACATATGATGAATTCAGTGGATTGCACATTTAGTGCCAAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
* *
451599 ACGGTTATTAATCAACATATGATGAATTCCGT-AGATTGCACATTTAGTGTCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGA-ATTGCACACTTAGTGTCGAA
* * * * ***
451653 ACGATTATTCATCAACATATGATGAATTTCGTGGATTGCACATTTAGCACCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
* * * *
451707 ATGGTTATTCATCAACATATGATGATTTTCGT-AATTTGCACACATAGTGTCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAA-TTGCACACTTAGTGTCGAA
* * *
451761 ACGGTTATTCATCAACATATGACGAATTCCGTGATTTGCACACATAGTGTCGAA
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
451815 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTC
1 ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTC
451866 TATTTGGTGA
Statistics
Matches: 372, Mismatches: 53, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.00
54 370 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (54 bp):
ACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGTCGAA
Found at i:451778 original size:27 final size:27
Alignment explanation
Indices: 451748--451833 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
451738 TAATTTGCAC
451748 ACATAGTGTCGAAACGGTTATTCATCA
1 ACATAGTGTCGAAACGGTTATTCATCA
* * * *
451775 ACATA-TGACGAATTCCGTGATT--TGCA
1 ACATAGTGTCGAA-ACGGTTATTCAT-CA
451801 CACATAGTGTCGAAACGGTTATTCATCA
1 -ACATAGTGTCGAAACGGTTATTCATCA
451829 ACATA
1 ACATA
451834 TGATGAATTC
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
25 1 0.02
26 8 0.18
27 27 0.60
28 8 0.18
29 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (27 bp):
ACATAGTGTCGAAACGGTTATTCATCA
Found at i:456618 original size:39 final size:39
Alignment explanation
Indices: 456564--456643 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
456554 ATACTTTAGT
*
456564 TCCACACTATTTTGAGTTTAAAAAGTTAGAGATAGAAGG
1 TCCACACTATTTTGAGTTTAAAAAGTTAGAGAGAGAAGG
* *
456603 TCCACACTGTTTTGAGTTTAAAAAGTTAGATAGAGAAGG
1 TCCACACTATTTTGAGTTTAAAAAGTTAGAGAGAGAAGG
456642 TC
1 TC
456644 TCATCTTTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (39 bp):
TCCACACTATTTTGAGTTTAAAAAGTTAGAGAGAGAAGG
Found at i:468762 original size:54 final size:55
Alignment explanation
Indices: 468681--469172 Score: 497
Period size: 54 Copynumber: 9.1 Consensus size: 55
468671 AATGCACCCG
* * * * * *
468681 TAGTGCCCATACGGTCATACATAAACATATTATGAATTCCGTGATTTGCACACAT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
* * *
468736 T-GTGCCGAAACGGTTAATCATCAACATATGATGAATTCCGTGAATTGCATAC-T
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
* ** * * *
468789 TAGTGCCTAAACGGTTATTCATCAACATATGATGAATTTTGTGAATTACAAAC-T
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
** * * * * *
468843 TAGTGTTGAAAC-ATTTTTCATCAACGTATGATGAATTCCGTGGA-TTGTACA-TT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGT-GATTTGCACACAT
* *
468896 TAGTGCCAAAACGATTATTCATCAACATATGATGAATTCCGTGATTTGCACACA-
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
* **
468950 TAGTGCCGAAATGGTTATTCATCAACATATGATGAATTCTATGGA-TT--ACACATT
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGT-GATTTGCACACA-T
** * *
469004 TAGTGCCGAAACAATTATTCATCAACATATAATGAATTCCTTGATTTGCACACA-
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
* * * * * *
469058 TAGTGTCGAAACGGTTATTCATCAACATATAAAGAATTTCGTGATTTACATACA-
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
* * * *
469112 TAGTGTCGAAACGGTTATTCATCAACATATGATGAAATCCATGAATTGCACAC-T
1 TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
469166 TAGTGCC
1 TAGTGCC
469173 TATTTGGTAA
Statistics
Matches: 363, Mismatches: 61, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
52 5 0.01
53 44 0.12
54 306 0.84
55 3 0.01
56 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (55 bp):
TAGTGCCGAAACGGTTATTCATCAACATATGATGAATTCCGTGATTTGCACACAT
Found at i:469085 original size:27 final size:27
Alignment explanation
Indices: 469055--469140 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
469045 TGATTTGCAC
469055 ACATAGTGTCGAAACGGTTATTCATCA
1 ACATAGTGTCGAAACGGTTATTCATCA
*** * * *
469082 ACATA-TAAAGAATTTC-GTGATTTA-CA
1 ACATAGTGTCGAA--ACGGTTATTCATCA
469108 TACATAGTGTCGAAACGGTTATTCATCA
1 -ACATAGTGTCGAAACGGTTATTCATCA
469136 ACATA
1 ACATA
469141 TGATGAAATC
Statistics
Matches: 41, Mismatches: 12, Indels: 12
0.63 0.18 0.18
Matches are distributed among these distances:
26 7 0.17
27 27 0.66
28 7 0.17
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (27 bp):
ACATAGTGTCGAAACGGTTATTCATCA
Found at i:470927 original size:18 final size:18
Alignment explanation
Indices: 470904--470938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
470894 ATGTATTACC
*
470904 GAACTTACGTTAGAAACT
1 GAACTTAAGTTAGAAACT
*
470922 GAACTTAATTTAGAAAC
1 GAACTTAAGTTAGAAAC
470939 CATATTGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (18 bp):
GAACTTAAGTTAGAAACT
Found at i:476953 original size:21 final size:21
Alignment explanation
Indices: 476922--477017 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 21
476912 TTGAGGGTTC
* * *
476922 TATGTGGTCCTTCGGGATATA
1 TATGTGATCCTTCGGAACATA
* *
476943 TATGTAATCCTTTGGAACATA
1 TATGTGATCCTTCGGAACATA
* * * *
476964 TATGCGGTTCTTCGGGACATA
1 TATGTGATCCTTCGGAACATA
* * * *
476985 TATTTGGTCCTTTGGAATATA
1 TATGTGATCCTTCGGAACATA
477006 TATGTGATCCTT
1 TATGTGATCCTT
477018 AAGAAGTGAT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.41
Consensus pattern (21 bp):
TATGTGATCCTTCGGAACATA
Found at i:476996 original size:42 final size:42
Alignment explanation
Indices: 476922--477009 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
476912 TTGAGGGTTC
* *
476922 TATGTGGTCCTTCGGGATATATATGTAATCCTTTGGAACATA
1 TATGCGGTCCTTCGGGACATATATGTAATCCTTTGGAACATA
* * ** *
476964 TATGCGGTTCTTCGGGACATATATTTGGTCCTTTGGAATATA
1 TATGCGGTCCTTCGGGACATATATGTAATCCTTTGGAACATA
477006 TATG
1 TATG
477010 TGATCCTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.40
Consensus pattern (42 bp):
TATGCGGTCCTTCGGGACATATATGTAATCCTTTGGAACATA
Found at i:477028 original size:14 final size:14
Alignment explanation
Indices: 477009--477045 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
476999 GAATATATAT
477009 GTGATCCTTAAGAA
1 GTGATCCTTAAGAA
*
477023 GTGATCCTTAAGGA
1 GTGATCCTTAAGAA
477037 GTGATCCTT
1 GTGATCCTT
477046 CGGAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (14 bp):
GTGATCCTTAAGAA
Found at i:480737 original size:21 final size:24
Alignment explanation
Indices: 480704--480747 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 24
480694 TGATTTGGTC
480704 TTATCTCAATTAAA-T-GAATATT
1 TTATCTCAATTAAAGTGGAATATT
*
480726 TTAT-TCATTTAAAGTGGAATAT
1 TTATCTCAATTAAAGTGGAATAT
480748 AATGTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (24 bp):
TTATCTCAATTAAAGTGGAATATT
Done.