Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008199.1 Hibiscus syriacus cultivar Beakdansim tig00110819_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: 2638622
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:1231795 original size:20 final size:21
Alignment explanation
Indices: 1231760--1231798 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1231750 CTTTTTTATT
1231760 TTTTATGATATAAAATAACTA
1 TTTTATGATATAAAATAACTA
*
1231781 TTTTAT-ATTTAAAATAAC
1 TTTTATGATATAAAATAAC
1231799 AAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
TTTTATGATATAAAATAACTA
Found at i:1243268 original size:28 final size:29
Alignment explanation
Indices: 1243214--1243269 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1243204 TGATTAATTT
1243214 GTAAAAAAAATATTAAAAACTATATTAAA
1 GTAAAAAAAATATTAAAAACTATATTAAA
*
1243243 GTAACAAAAAAT-TTAAAAATTA-ATTAA
1 GTAA-AAAAAATATTAAAAACTATATTAA
1243270 CACTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 5 0.20
29 13 0.52
30 7 0.28
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (29 bp):
GTAAAAAAAATATTAAAAACTATATTAAA
Found at i:1243963 original size:66 final size:66
Alignment explanation
Indices: 1243857--1243992 Score: 272
Period size: 66 Copynumber: 2.1 Consensus size: 66
1243847 TTCAGGTATT
1243857 ATTAGATGAGAATGACCTACCTGAAGTTGTTTTTATTTGCTCATACACATAGTTTTGCAGTAGGC
1 ATTAGATGAGAATGACCTACCTGAAGTTGTTTTTATTTGCTCATACACATAGTTTTGCAGTAGGC
1243922 A
66 A
1243923 ATTAGATGAGAATGACCTACCTGAAGTTGTTTTTATTTGCTCATACACATAGTTTTGCAGTAGGC
1 ATTAGATGAGAATGACCTACCTGAAGTTGTTTTTATTTGCTCATACACATAGTTTTGCAGTAGGC
1243988 A
66 A
1243989 ATTA
1 ATTA
1243993 AATACGGAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (66 bp):
ATTAGATGAGAATGACCTACCTGAAGTTGTTTTTATTTGCTCATACACATAGTTTTGCAGTAGGC
A
Found at i:1244663 original size:20 final size:20
Alignment explanation
Indices: 1244640--1244679 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1244630 GATTTGAACA
1244640 ATTATATTTATAAAATGTGT
1 ATTATATTTATAAAATGTGT
*
1244660 ATTATATTTATAAGATGTGT
1 ATTATATTTATAAAATGTGT
1244680 GCTTTGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTATATTTATAAAATGTGT
Found at i:1246224 original size:112 final size:112
Alignment explanation
Indices: 1245896--1246582 Score: 1101
Period size: 112 Copynumber: 6.1 Consensus size: 112
1245886 TTGTCGGTTT
* *
1245896 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
* *
1245961 GGTCTATAAATGACAAATCAGATAAAGCGCTA-CAGAATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAG-ATATATTGAAA
* ** *
1246008 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAACATGT-AAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
1246072 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * * *
1246119 GTGTCGGTACTTTATAAAAATGTGTCGATCCATAATAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
1246184 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
1246231 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
* * * *
1246296 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
1246343 GTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
*
1246408 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * *
1246455 GTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAAAATGACAAAAC
* * *
1246520 CGTTCTATAAATGACAAAACAGGTAAAGCGCTACC-GAATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAG-ATATATTGAAA
1246568 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1246583 TATAAGTATC
Statistics
Matches: 539, Mismatches: 32, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
111 97 0.18
112 369 0.68
113 73 0.14
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:1246795 original size:181 final size:182
Alignment explanation
Indices: 1246452--1246901 Score: 706
Period size: 181 Copynumber: 2.5 Consensus size: 182
1246442 GGATATATTG
* *
1246452 AAAGTGTCGATACTTTATAAAAATGTATCGATTCATAACAATATAACAGGTAAAAAAAATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATATGACAA
* * * *
1246517 AATCGTTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATGTTGATAGTGTCGATACTTTA
65 AATCGGTCTCTAAATGACAAAACAGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTA
* *
1246582 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCACTAAT
130 TTATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACTAAT
*
1246635 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
1246700 A-CTGGTCTCCAAATGACAAAACCGGTAAAGAGCTACCG-ATATGTTGAAAGTGTCGATACTTTA
66 ATC-GGTCTCTAAATGACAAAACAGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTA
* * *
1246763 TTATAAATATCGATACTTTTGGAATTTAAAAGAAAAGACGTTATAGCGCTAAT
130 TTATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACTAAT
* * * *
1246816 AAAATGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAATATGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1246881 ATCGGTCTCTAAATGACAAAA
66 ATCGGTCTCTAAATGACAAAA
1246902 TCGATAGTAA
Statistics
Matches: 245, Mismatches: 20, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
181 151 0.62
182 45 0.18
183 49 0.20
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCTAAATGACAAAACAGGTAAAGAGCTACCGAATATGTTGAAAGTGTCGATACTTTAT
TATAAATATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCACTAAT
Found at i:1257317 original size:22 final size:20
Alignment explanation
Indices: 1257292--1257332 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1257282 AAAATAAATT
*
1257292 TAAATGACTAGAGTTTTAAAAA
1 TAAATGA-TAGA-TTATAAAAA
1257314 TAAATGATAGATTATAAAA
1 TAAATGATAGATTATAAAA
1257333 TAAGTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (20 bp):
TAAATGATAGATTATAAAAA
Found at i:1269167 original size:12 final size:12
Alignment explanation
Indices: 1269150--1269174 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1269140 AAGTATATAA
1269150 CATATAAATTAT
1 CATATAAATTAT
1269162 CATATAAATTAT
1 CATATAAATTAT
1269174 C
1 C
1269175 TTAAAGTACC
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:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (12 bp):
CATATAAATTAT
Found at i:1269348 original size:34 final size:34
Alignment explanation
Indices: 1269305--1269378 Score: 139
Period size: 34 Copynumber: 2.1 Consensus size: 34
1269295 AAGACAGAGA
1269305 AGAAAGCAGCAACATCCTCAGTCCTTTCTAAAAT
1 AGAAAGCAGCAACATCCTCAGTCCTTTCTAAAAT
1269339 AGAAAGCAGCAACATCCTCAGTCCTTTCTAAAAT
1 AGAAAGCAGCAACATCCTCAGTCCTTTCTAAAAT
1269373 ACGAAA
1 A-GAAA
1269379 TGACAGGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.22
Consensus pattern (34 bp):
AGAAAGCAGCAACATCCTCAGTCCTTTCTAAAAT
Found at i:1270275 original size:12 final size:12
Alignment explanation
Indices: 1270258--1270291 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
1270248 AAGTCATGGG
1270258 AGAGAGAGAGTA
1 AGAGAGAGAGTA
1270270 AGAGAGAGAGTA
1 AGAGAGAGAGTA
1270282 AGAGAGAGAG
1 AGAGAGAGAG
1270292 AAGTCGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (12 bp):
AGAGAGAGAGTA
Found at i:1285208 original size:35 final size:35
Alignment explanation
Indices: 1285158--1285228 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
1285148 GGGGGGGGCG
1285158 CTAAAACTGTAAAAATAAGAAACTCAACCTGACAT
1 CTAAAACTGTAAAAATAAGAAACTCAACCTGACAT
*
1285193 CTAAAACTGTCAAAATAAGAAACTCAACCTGACAT
1 CTAAAACTGTAAAAATAAGAAACTCAACCTGACAT
1285228 C
1 C
1285229 AGGGTCCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.20
Consensus pattern (35 bp):
CTAAAACTGTAAAAATAAGAAACTCAACCTGACAT
Found at i:1296508 original size:29 final size:29
Alignment explanation
Indices: 1296476--1296603 Score: 112
Period size: 29 Copynumber: 4.4 Consensus size: 29
1296466 AATTCGAAAC
* *
1296476 TGGTGATATTTTAGTAAATAATTCAATTT
1 TGGTGCTATTTTGGTAAATAATTCAATTT
* *
1296505 TGGTGCTATTTTGGTAAATAAATCGATTT
1 TGGTGCTATTTTGGTAAATAATTCAATTT
* * * *
1296534 TGTTGCTATTTTGGGAATTAATTCAGTTT
1 TGGTGCTATTTTGGTAAATAATTCAATTT
** * * **
1296563 TGGCACTATTTTGGGAATTAAATTCTGTTT
1 TGGTGCTATTTTGGTAAAT-AATTCAATTT
*
1296593 GGGTGCTATTT
1 TGGTGCTATTT
1296604 CTGTAAAATT
Statistics
Matches: 81, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
29 64 0.79
30 17 0.21
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (29 bp):
TGGTGCTATTTTGGTAAATAATTCAATTT
Found at i:1299173 original size:24 final size:24
Alignment explanation
Indices: 1299077--1299185 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
1299067 GAATATTTTA
* *
1299077 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* *
1299101 TTTGACATCTGATCTGAAATT-TGT
1 TCTGATATCTGATCTG-AATTCTGT
* * *
1299125 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
* *
1299149 TCTGATATCTTATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
1299173 TTTGATTTCTGAT
1 TCTGATATCTGAT
1299186 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 4 0.06
24 56 0.86
25 5 0.08
ACGTcount: A:0.20, C:0.15, G:0.16, T:0.50
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:1301221 original size:29 final size:29
Alignment explanation
Indices: 1301189--1301254 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
1301179 AAACTGGTAA
1301189 TATTTTGGTAAATAATTCGATTTTGATGC
1 TATTTTGGTAAATAATTCGATTTTGATGC
*
1301218 TATTTTGGTAAATAATTCGATTTTGGTGC
1 TATTTTGGTAAATAATTCGATTTTGATGC
1301247 TATTTTGG
1 TATTTTGG
1301255 GAATTAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.50
Consensus pattern (29 bp):
TATTTTGGTAAATAATTCGATTTTGATGC
Found at i:1301276 original size:30 final size:29
Alignment explanation
Indices: 1301189--1301281 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
1301179 AAACTGGTAA
* * *
1301189 TATTTTGGTAAATAATTCGATTTTGATGC
1 TATTTTGGGAAATAATTCGATTTGGGTGC
* *
1301218 TATTTTGGTAAATAATTCGATTTTGGTGC
1 TATTTTGGGAAATAATTCGATTTGGGTGC
*
1301247 TATTTTGGGAATTAAATTCTG-TTTGGGTGC
1 TATTTTGGGAAAT-AATTC-GATTTGGGTGC
1301277 TATTT
1 TATTT
1301282 GTGTAAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
29 39 0.67
30 18 0.31
31 1 0.02
ACGTcount: A:0.24, C:0.06, G:0.20, T:0.49
Consensus pattern (29 bp):
TATTTTGGGAAATAATTCGATTTGGGTGC
Found at i:1303854 original size:24 final size:24
Alignment explanation
Indices: 1303753--1303861 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
1303743 GAATATTTTA
* *
1303753 TCTGATTTCTGATTTGAATTCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * * *
1303777 TTTGACATTTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTCTGT
* * *
1303801 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTCTGT
*
1303825 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTCTGT
* *
1303849 TTTGATTTCTGAT
1 TCTGATATCTGAT
1303862 ATCTCCGTTT
Statistics
Matches: 64, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.49
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTCTGT
Found at i:1305285 original size:14 final size:15
Alignment explanation
Indices: 1305261--1305333 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
1305251 AAATAGTTAT
* *
1305261 TATTTTTTATATTAA
1 TATTATTTATATAAA
1305276 TA-TATTTATATAAA
1 TATTATTTATATAAA
*
1305290 TATTATTTTTTTATTAAAA
1 TATTA--TTTATA-T-AAA
* *
1305309 TAATATTTATATAAT
1 TATTATTTATATAAA
1305324 TATTATTTAT
1 TATTATTTAT
1305334 TTAGAATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 12 0.26
15 15 0.33
16 1 0.02
17 10 0.22
18 1 0.02
19 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTTATATAAA
Found at i:1305301 original size:34 final size:33
Alignment explanation
Indices: 1305225--1305331 Score: 94
Period size: 34 Copynumber: 3.1 Consensus size: 33
1305215 GTGGTAAGAA
* *
1305225 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
1305259 ATTATTTTTTATATTAATATATTTATATAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
1305294 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
1305328 ATTT
1 ATTT
1305332 ATTTAGAATT
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 34 0.55
35 9 0.15
36 7 0.11
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:1305305 original size:31 final size:33
Alignment explanation
Indices: 1305258--1305336 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 33
1305248 TTTAAATAGT
1305258 TATTATTTTTTATATT-AAT-ATATTTATATAAA
1 TATTATTTTTT-TATTAAATAATATTTATATAAA
*
1305290 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
1305324 TATTATTTATTTA
1 TATTATTTTTTTA
1305337 GAATTATTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.26
33 3 0.07
34 24 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:1305500 original size:17 final size:17
Alignment explanation
Indices: 1305478--1305531 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1305468 AATGTTAATA
1305478 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
1305495 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
1305512 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
1305529 TTT
1 TTT
1305532 TTATAATATA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:1307089 original size:21 final size:21
Alignment explanation
Indices: 1307059--1307106 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1307049 GCAGGGGTAC
* *
1307059 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
1307080 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
1307101 ATGCCA
1 ATGCCA
1307107 TCTCTGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:1307138 original size:21 final size:21
Alignment explanation
Indices: 1307112--1307203 Score: 116
Period size: 21 Copynumber: 4.4 Consensus size: 21
1307102 TGCCATCTCT
* *
1307112 GCAGGGTTACATTCCGAGCCC
1 GCAGGGTTACATGCCTAGCCC
*
1307133 GCAGGGTTACATTCCTAGCCC
1 GCAGGGTTACATGCCTAGCCC
1307154 GCCA-GGTTACATGCCTAGCCC
1 G-CAGGGTTACATGCCTAGCCC
*
1307175 GCCA-GGTTACATGCCTAACCC
1 G-CAGGGTTACATGCCTAGCCC
1307196 GCAGGGTT
1 GCAGGGTT
1307204 TTATACCATA
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
20 2 0.03
21 62 0.94
22 2 0.03
ACGTcount: A:0.20, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
GCAGGGTTACATGCCTAGCCC
Found at i:1307785 original size:33 final size:34
Alignment explanation
Indices: 1307726--1307822 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 34
1307716 AAATGTTTTT
1307726 AAAATATAAATTATATTATTCGAAATTTAAAATA
1 AAAATATAAATTATATTATTCGAAATTTAAAATA
* * * *
1307760 AAAATAAAAATAATATTATTC-AAATTTAAATTT
1 AAAATATAAATTATATTATTCGAAATTTAAAATA
* *
1307793 AAAATATACATTATAGTATTCGAAATTTAA
1 AAAATATAAATTATATTATTCGAAATTTAA
1307823 CATTAAATTT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
33 27 0.50
34 27 0.50
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (34 bp):
AAAATATAAATTATATTATTCGAAATTTAAAATA
Found at i:1307829 original size:34 final size:33
Alignment explanation
Indices: 1307724--1307829 Score: 133
Period size: 34 Copynumber: 3.2 Consensus size: 33
1307714 ATAAATGTTT
1307724 TTAAAATATAAATTATATTATTCGAAATTTAAAA
1 TTAAAATATAAATTATATTATTCGAAATTT-AAA
* * *
1307758 TAAAAATAAAAATAATATTATTC-AAATTTAAA
1 TTAAAATATAAATTATATTATTCGAAATTTAAA
* *
1307790 TTTAAAATATACATTATAGTATTCGAAATTTAACA
1 -TTAAAATATAAATTATATTATTCGAAATTTAA-A
1307825 TTAAA
1 TTAAA
1307830 TTTCAACTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
32 3 0.05
33 24 0.39
34 33 0.54
35 1 0.02
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (33 bp):
TTAAAATATAAATTATATTATTCGAAATTTAAA
Found at i:1308448 original size:128 final size:128
Alignment explanation
Indices: 1308214--1308569 Score: 667
Period size: 128 Copynumber: 2.8 Consensus size: 128
1308204 AGTTATTCAA
1308214 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
* *
1308279 GACGAAATAATGGAAGGTGCGCCCCCGGGAACGCGCTTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
* *
1308342 ACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTTT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
*
1308407 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGTGCCTTCATGTGAATAGTGAAATAATAGGT
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
1308470 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1 ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
1308535 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCG
66 GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCG
1308570 TGTAACATCC
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 220 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (128 bp):
ACTGATATATCTAGTGTCCCCGAGGGACATGAATGACATAATAGGGCAATGATAACATATTCTCT
GACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGT
Found at i:1309943 original size:31 final size:31
Alignment explanation
Indices: 1309905--1309992 Score: 151
Period size: 31 Copynumber: 2.8 Consensus size: 31
1309895 CGAGGGTTAT
1309905 CTATGTTCTTCGGGACATATGGACTGTTTAC
1 CTATGTTCTTCGGGACATATGGACTGTTTAC
1309936 CTATGTTCTTCGGGACATATGGACTGTTTAC
1 CTATGTTCTTCGGGACATATGGACTGTTTAC
*
1309967 CTATGTTCTTCGGAATC-TATGGACTG
1 CTATGTTCTTCGGGA-CATATGGACTG
1309993 GTCCTTCGGG
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 54 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (31 bp):
CTATGTTCTTCGGGACATATGGACTGTTTAC
Found at i:1314215 original size:31 final size:31
Alignment explanation
Indices: 1314177--1314299 Score: 203
Period size: 31 Copynumber: 4.0 Consensus size: 31
1314167 GGGTCGAGGG
1314177 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
1314208 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
1314239 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
1314270 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
1314300 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:1315371 original size:127 final size:128
Alignment explanation
Indices: 1315145--1315424 Score: 526
Period size: 127 Copynumber: 2.2 Consensus size: 128
1315135 GGGGTGTTAC
1315145 AACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATG
1 AACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATG
1315210 AATGACATAATAGGGCAATGATAACATATTCTCTGACGAAA-AATGGAAGGCGCGCCCCCAGG
66 AATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCAGG
* *
1315272 AACGCGCCTTCATGTGAATAGTGAAATAATAGGTATTGATATATCTAGTGTCTCCGAGGGACATG
1 AACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATG
*
1315337 AATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGG
66 AATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCAGG
1315400 AACGCGCCTTCATGTGAATAGTGAA
1 AACGCGCCTTCATGTGAATAGTGAA
1315425 CCGATTATAG
Statistics
Matches: 149, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
127 104 0.70
128 45 0.30
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (128 bp):
AACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATG
AATGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCAGG
Found at i:1315505 original size:8 final size:8
Alignment explanation
Indices: 1315492--1315532 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1315482 TCACAATCTT
1315492 TCAAATTC
1 TCAAATTC
1315500 TCAAATTC
1 TCAAATTC
* *
1315508 CCAAACTC
1 TCAAATTC
1315516 T-AAATTC
1 TCAAATTC
1315523 TCAAATTC
1 TCAAATTC
1315531 TC
1 TC
1315533 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:1318552 original size:13 final size:13
Alignment explanation
Indices: 1318534--1318570 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
1318524 TACATAAATA
1318534 TATTTAATATATT
1 TATTTAATATATT
1318547 TATTTAATATATT
1 TATTTAATATATT
1318560 TATTTAATATA
1 TATTTAATATA
1318571 ATAATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATTTAATATATT
Found at i:1329883 original size:306 final size:305
Alignment explanation
Indices: 1329304--1329911 Score: 966
Period size: 306 Copynumber: 2.0 Consensus size: 305
1329294 ATATTTTTAA
* * * *
1329304 ATATATTTTATGAAGTATATGTTTAATTGATTTTGTTCATTGATTAGATTGATGTTTGCTCGGTT
1 ATATATTTTATGAAGTATAAGTTTAATTAATTTTGTACATTGAATAGATTGATGTTTGCTCGGTT
* * *
1329369 TTATTGAGGCATTTAGTACATAGATATATATTTGTCCAGTTCATTGCATCAAAAGGTGAGTAGCA
66 TTATTGAGGCATTAAGTACATAAATATATATTTGTCCAATTCATTGCATCAAAAGGTGAGTAGCA
* *
1329434 TTGTGATGAGTATCATTGATTGTGAGAGCAACATTTCAATGTAGAGAGATCTAGCTGACTGATTG
131 TTGTGATGAGCATCATTGATTGTGAGAGCAACATTTCAATGTAGAGAGATATAGCTGACTGATTG
* *
1329499 TTGTAGCATACTTAGTAAATTTGCATATGTGAGCATAGAAATATAGCACTGGTGTGAGTTTTTAG
196 TCGTAGCATACTTAGTAAATTTGCATATGTGAGCATAGAAATATAACACTGGTGTGAGTTTTTAG
* *
1329564 ATGAAAGCCATCGAGATAGGTTAACCTGCTAAGTTAATGTTAAAT
261 ATGAAAGCCATCGAGAGAGGTAAACCTGCTAAGTTAATGTTAAAT
* * *
1329609 ATATATTTTTTTGAAGTGTAAGTTTAATTAATTTTGTACATTGAATCGATTGATGTTTGCTCGGT
1 ATATA-TTTTATGAAGTATAAGTTTAATTAATTTTGTACATTGAATAGATTGATGTTTGCTCGGT
* * *
1329674 TTTATTGAGGCATTAAGTATATAAATATATATTTGTCCAATTCATTGCATCAAGAGGTGAGTATC
65 TTTATTGAGGCATTAAGTACATAAATATATATTTGTCCAATTCATTGCATCAAAAGGTGAGTAGC
* *
1329739 ATTGTGATGAGCATCATTGATTGTGAGAGCAACGTTTCAGTGTAGAGAGATATAGCTGACTGATT
130 ATTGTGATGAGCATCATTGATTGTGAGAGCAACATTTCAATGTAGAGAGATATAGCTGACTGATT
* * *
1329804 GTCGTAGCATACTTAGTAAATTTGCATATGTGGGCATATAAATATAACACTGGTGTGAGTTTTTG
195 GTCGTAGCATACTTAGTAAATTTGCATATGTGAGCATAGAAATATAACACTGGTGTGAGTTTTTA
*
1329869 GGTGACAA-CCATCGAGAGAGGTAAACCTGCTAAGTTAATGTTA
260 GATGA-AAGCCATCGAGAGAGGTAAACCTGCTAAGTTAATGTTA
1329912 GACACATCAA
Statistics
Matches: 276, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
305 5 0.02
306 269 0.97
307 2 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (305 bp):
ATATATTTTATGAAGTATAAGTTTAATTAATTTTGTACATTGAATAGATTGATGTTTGCTCGGTT
TTATTGAGGCATTAAGTACATAAATATATATTTGTCCAATTCATTGCATCAAAAGGTGAGTAGCA
TTGTGATGAGCATCATTGATTGTGAGAGCAACATTTCAATGTAGAGAGATATAGCTGACTGATTG
TCGTAGCATACTTAGTAAATTTGCATATGTGAGCATAGAAATATAACACTGGTGTGAGTTTTTAG
ATGAAAGCCATCGAGAGAGGTAAACCTGCTAAGTTAATGTTAAAT
Found at i:1331587 original size:100 final size:100
Alignment explanation
Indices: 1331410--1331615 Score: 367
Period size: 100 Copynumber: 2.1 Consensus size: 100
1331400 ATCGCGGCAT
* * *
1331410 CATGTACTAGGTGTGGTAAATTTAAGAGTTGTGCACAAATCGAAGATGTGGACCAAGGTTTCAGT
1 CATGTAATAGGTGTGGTAAATTTAAGAGGTATGCACAAATCGAAGATGTGGACCAAGGTTTCAGT
1331475 TTCAGAAATTTTAATGCAAGATGTGGATTGTGGAC
66 TTCAGAAATTTTAATGCAAGATGTGGATTGTGGAC
*
1331510 CATGTAATAGTTGTGGTAAATTTAAGAGGTATGCACAAATCGAAGATGTGGACCAAGGTTTCAGT
1 CATGTAATAGGTGTGGTAAATTTAAGAGGTATGCACAAATCGAAGATGTGGACCAAGGTTTCAGT
*
1331575 TTCAGAATTTTTAATGCAAGATGTGGATTGTGGAC
66 TTCAGAAATTTTAATGCAAGATGTGGATTGTGGAC
1331610 CATGTA
1 CATGTA
1331616 CTGTAATTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (100 bp):
CATGTAATAGGTGTGGTAAATTTAAGAGGTATGCACAAATCGAAGATGTGGACCAAGGTTTCAGT
TTCAGAAATTTTAATGCAAGATGTGGATTGTGGAC
Found at i:1331610 original size:47 final size:47
Alignment explanation
Indices: 1331456--1331611 Score: 113
Period size: 47 Copynumber: 3.2 Consensus size: 47
1331446 AAATCGAAGA
*
1331456 TGTGGACCAAGGTTTCAGTTTCAGAAATTTTAATGCAAGATGTGGAT
1 TGTGGACCAAGGTTTCAGTTTCAGAATTTTTAATGCAAGATGTGGAT
* * * ** * **
1331503 TGTGGACC-ATGTAAT-AGTTGT-GGTAAATTTAAGAGGTATGCACAAATCGAAGA-
1 TGTGGACCAAGGT-TTCAGTT-TCAG--AATTT-TTA---ATGCA-AGAT-GTGGAT
1331556 TGTGGACCAAGGTTTCAGTTTCAGAATTTTTAATGCAAGATGTGGAT
1 TGTGGACCAAGGTTTCAGTTTCAGAATTTTTAATGCAAGATGTGGAT
1331603 TGTGGACCA
1 TGTGGACCA
1331612 TGTACTGTAA
Statistics
Matches: 78, Mismatches: 17, Indels: 28
0.63 0.14 0.23
Matches are distributed among these distances:
46 11 0.14
47 22 0.28
48 9 0.12
49 1 0.01
51 1 0.01
52 10 0.13
53 13 0.17
54 11 0.14
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (47 bp):
TGTGGACCAAGGTTTCAGTTTCAGAATTTTTAATGCAAGATGTGGAT
Found at i:1333810 original size:2 final size:2
Alignment explanation
Indices: 1333800--1333860 Score: 76
Period size: 2 Copynumber: 32.5 Consensus size: 2
1333790 TATTTTTTCA
* *
1333800 AT AT A- AT AT AT AT AT AT AT AT AT AT -T AA AT TT A- AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1333838 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
1333861 ACAATTTTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
1 4 0.08
2 47 0.92
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1342875 original size:31 final size:31
Alignment explanation
Indices: 1342839--1342897 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1342829 AACTTAAAAG
* *
1342839 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
1342870 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
1342898 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:1342948 original size:22 final size:22
Alignment explanation
Indices: 1342922--1342964 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1342912 TAATAAATTA
1342922 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1342944 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1342965 CTAATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1343053 original size:22 final size:23
Alignment explanation
Indices: 1342978--1343052 Score: 73
Period size: 22 Copynumber: 3.2 Consensus size: 23
1342968 ATTAATTATT
1342978 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
* **
1343000 CTACAATAATAAATCAATCTATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
1343026 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
1343049 TAAA
1 TAAA
1343053 TTATTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
22 15 0.37
23 8 0.20
25 3 0.07
26 15 0.37
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:1343060 original size:80 final size:80
Alignment explanation
Indices: 1342927--1343486 Score: 609
Period size: 80 Copynumber: 6.9 Consensus size: 80
1342917 AATTATTTAA
* *
1342927 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATTAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1342992 CCATACAACTACAAT
66 CCATACAACTACAAT
1343007 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1343072 CCATACAATTACAAT
66 CCATACAACTACAAT
* * *
1343087 AATAAATCAATCCAT-TTTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* * *
1343151 CTATACAAATAAATTATTT
66 CCATACAACTACA--A--T
** * ** * ** **
1343170 AAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-C-AATCCATGT-TTTAAAATAAA
1 --AATAAATCAATCTATA-TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAA
* * **
1343232 TCAATTCAT---ATTTTAA-
61 TCAATCCATACAACTACAAT
*
1343248 AATAAATCAATCTATATTTTAAAATAAATCAATGCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1343313 CCATACAACTACAAT
66 CCATACAACTACAAT
* *
1343328 AATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATCTATATTTTAAAAT--A--AATCAATCCATACTAATAAATTATTTAAAATAAAT
*
1343393 CAATCCATACTAA-TAAATATTT
62 CAATCCATAC-AACTACA-A--T
* *
1343415 AAAATAAATCAAT-TCATATTTTAAAATAAATCAATACATAGTAATAAATTATTTAAAATAAATC
1 --AATAAATCAATCT-ATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATC
1343479 AATCCATA
63 AATCCATA
1343487 TTTTAAAATA
Statistics
Matches: 405, Mismatches: 47, Indels: 51
0.81 0.09 0.10
Matches are distributed among these distances:
74 5 0.01
75 10 0.02
76 40 0.10
79 61 0.15
80 115 0.28
81 2 0.00
82 1 0.00
83 4 0.01
84 46 0.11
85 58 0.14
86 23 0.06
87 12 0.03
88 5 0.01
89 23 0.06
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:1343142 original size:14 final size:14
Alignment explanation
Indices: 1343125--1343210 Score: 73
Period size: 14 Copynumber: 5.6 Consensus size: 14
1343115 CAATCTATAC
1343125 AAATAAATTATTTA
1 AAATAAATTATTTA
*
1343139 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
1343156 CAAATAAATTATTTA
1 -AAATAAATTATTTA
*
1343171 AAATAAATCAATCTATA
1 AAATAAAT-TAT-T-TA
*
1343188 CTAATAAATTATTTA
1 -AAATAAATTATTTA
1343203 AAATAAAT
1 AAATAAAT
1343211 CAATCCATGT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
14 23 0.40
15 8 0.14
16 4 0.07
17 8 0.14
18 15 0.26
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1343144 original size:32 final size:32
Alignment explanation
Indices: 1343103--1343215 Score: 217
Period size: 32 Copynumber: 3.5 Consensus size: 32
1343093 TCAATCCATT
1343103 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
1343135 TTTAAAATAAATCAATCTATACAAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
*
1343167 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACAAATAAATTA
1343199 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
1343216 CATGTTTTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 80 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACAAATAAATTA
Found at i:1343227 original size:22 final size:22
Alignment explanation
Indices: 1343199--1343285 Score: 138
Period size: 22 Copynumber: 4.0 Consensus size: 22
1343189 TAATAAATTA
*
1343199 TTTAAAATAAATCAATCCATGT
1 TTTAAAATAAATCAATCCATAT
*
1343221 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATCCATAT
*
1343243 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCCATAT
*
1343265 TTTAAAATAAATCAATGCATA
1 TTTAAAATAAATCAATCCATA
1343286 CTAATAAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.38
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1343304 original size:32 final size:31
Alignment explanation
Indices: 1343265--1343662 Score: 240
Period size: 32 Copynumber: 14.4 Consensus size: 31
1343255 CAATCTATAT
*
1343265 TTTAAAATAAATCAATGCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
*
1343297 TTTAAAATAAATCAATCCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
**
1343327 --T--AATAAATCAATCCATA-TTTTAAA-A
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
1343352 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1343381 TTTAAAATAAATCAATCCATACTAATAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATA
1343412 TTTAAAATAAATCAAT---T-C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
1343434 TTTAAAATAAATCAATACATAGTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1343466 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1343488 TTTAAAATAAATCAATCCATACTAA-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATA
* *
1343518 TTT-AAATAAATCAATTCATAC-AACTACA-A
1 TTTAAAATAAATCAATCCATACTAA-TAAATA
1343547 --T--AATAAATCAATCC--A-T-AT-----
1 TTTAAAATAAATCAATCCATACTAATAAATA
1343565 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1343597 TTTAAAATAAATCAAT-C---C--AT--AT-
1 TTTAAAATAAATCAATCCATACTAATAAATA
*
1343619 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA
1343651 TTTAAAATAAAT
1 TTTAAAATAAAT
1343663 TATTTTAAAA
Statistics
Matches: 293, Mismatches: 18, Indels: 110
0.70 0.04 0.26
Matches are distributed among these distances:
20 1 0.00
22 62 0.21
23 7 0.02
24 4 0.01
25 9 0.03
26 51 0.17
27 6 0.02
28 10 0.03
29 20 0.07
30 7 0.02
31 25 0.09
32 91 0.31
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (31 bp):
TTTAAAATAAATCAATCCATACTAATAAATA
Found at i:1343439 original size:22 final size:22
Alignment explanation
Indices: 1343404--1343454 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
1343394 AATCCATACT
*
1343404 AATAAATA-TTTAAAATAAATC
1 AATACATATTTTAAAATAAATC
*
1343425 AATTCATATTTTAAAATAAATC
1 AATACATATTTTAAAATAAATC
1343447 AATACATA
1 AATACATA
1343455 GTAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
AATACATATTTTAAAATAAATC
Found at i:1343463 original size:22 final size:22
Alignment explanation
Indices: 1343414--1343462 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1343404 AATAAATATT
* **
1343414 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATACATATAA
1343436 TAAAATAAATCAATACATAGTAA
1 TAAAATAAATCAATACATA-TAA
1343459 TAAA
1 TAAA
1343463 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATACATATAA
Found at i:1343492 original size:22 final size:22
Alignment explanation
Indices: 1343466--1343508 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1343456 TAATAAATTA
1343466 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1343488 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1343509 CTAAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1343504 original size:321 final size:315
Alignment explanation
Indices: 1342922--1343585 Score: 923
Period size: 321 Copynumber: 2.1 Consensus size: 315
1342912 TAATAAATTA
*
1342922 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATTAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
* *
1342987 TCAATCCATACAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAA
66 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
1343052 ATTATTTAAAATAAATCAATCCATACAATTACAATAATAAATCAATCCATTTTTAAAATAAATCA
131 ATTATTTAAAATAAATCAATCCATACAATTACAATAATAAATCAATCCATTTTTAAAATAAATCA
1343117 ATCTATACAAATAAATTATTTAAAATAAATCAATCTATACAAATAAATTATTTAAAATAAATCAA
196 ATCTATACAAATAAATTATTTAAAATAAATCAATC---AC-AAT-AATTATTTAAAATAAATCAA
* ** ** *
1343182 TCTATACTAATAAATTATTTAAAATAAATCAATCCAT-GTTTTAA-AATAAATCAATTCATAT
256 TCCATACT-A-AAATTATTT-AAATAAATCAATCCATAACTACAATAATAAATCAATCCATAT
* *
1343243 TTTAAAATAAATCAATCTATATTTTAAAATAAATCAATGCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1343308 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAA
66 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT--A--AATCAATCCATACAA
* *
1343373 ATAAATTATTTAAAATAAATCAATCCATACTAA-TAAATATTTAAAATAAATCAATTCATATTTT
127 ATAAATTATTTAAAATAAATCAATCCATAC-AATTACA-A--T--AATAAATCAATCCAT-TTTT
**
1343437 AAAATAAATCAATAC-ATAGTAATAAATTATTTAAAATAAATCAATC-C-AT-A-T-TTTAAAAT
185 AAAATAAATCAAT-CTATACAAATAAATTATTTAAAATAAATCAATCACAATAATTATTTAAAAT
*
1343496 AAATCAATCCATACTAAAATTATTTAAATAAATCAATTCATACAACTACAATAATAAATCAATCC
249 AAATCAATCCATACTAAAATTATTTAAATAAATCAATCCAT--AACTACAATAATAAATCAATCC
1343561 ATAT
312 ATAT
1343565 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1343586 CTAATAAATT
Statistics
Matches: 310, Mismatches: 17, Indels: 31
0.87 0.05 0.09
Matches are distributed among these distances:
318 15 0.05
319 9 0.03
320 1 0.00
321 131 0.42
322 37 0.12
323 2 0.01
325 49 0.16
326 3 0.01
327 1 0.00
328 1 0.00
330 14 0.05
331 46 0.15
332 1 0.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (315 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAA
ATTATTTAAAATAAATCAATCCATACAATTACAATAATAAATCAATCCATTTTTAAAATAAATCA
ATCTATACAAATAAATTATTTAAAATAAATCAATCACAATAATTATTTAAAATAAATCAATCCAT
ACTAAAATTATTTAAATAAATCAATCCATAACTACAATAATAAATCAATCCATAT
Found at i:1343563 original size:77 final size:80
Alignment explanation
Indices: 1343471--1343617 Score: 264
Period size: 77 Copynumber: 1.9 Consensus size: 80
1343461 AATTATTTAA
1343471 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACT-A-AAATTATTT-AAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
1343533 TCATACAACTACAAT
66 CCATACAACTACAAT
1343548 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1343613 CCATA
66 CCATA
1343618 TTTTAAAATA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
77 40 0.61
78 1 0.02
79 9 0.14
80 16 0.24
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:1343594 original size:22 final size:22
Alignment explanation
Indices: 1343521--1343593 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 22
1343511 AAAATTATTT
* *
1343521 AAATAAATCAATTCATACAACTACA
1 AAATAAATCAATCCATATAA-T--A
**
1343546 ATAATAAATCAATCCATATTTTA
1 A-AATAAATCAATCCATATAATA
1343569 AAATAAATCAATCCATACTAATA
1 AAATAAATCAATCCATA-TAATA
1343592 AA
1 AA
1343594 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
22 16 0.40
23 7 0.17
25 2 0.05
26 15 0.38
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATAAATCAATCCATATAATA
Found at i:1343617 original size:54 final size:54
Alignment explanation
Indices: 1343548--1343662 Score: 221
Period size: 54 Copynumber: 2.1 Consensus size: 54
1343538 CAACTACAAT
1343548 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1343602 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1343656 AATAAAT
1 AATAAAT
1343663 TATTTTAAAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1343623 original size:22 final size:22
Alignment explanation
Indices: 1343597--1343690 Score: 80
Period size: 22 Copynumber: 4.1 Consensus size: 22
1343587 TAATAAATTA
1343597 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
1343619 TTTAAAATAAATCAATTCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
1343642 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
1343666 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1343688 TTT
1 TTT
1343691 TAATAATTAT
Statistics
Matches: 52, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
22 26 0.50
23 12 0.23
24 12 0.23
25 2 0.04
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1343671 original size:15 final size:15
Alignment explanation
Indices: 1343642--1343771 Score: 140
Period size: 15 Copynumber: 8.5 Consensus size: 15
1343632 AATTCATACT
1343642 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
1343656 AATAAATTATTTTAA
1 AATAAATTATTTTAA
**
1343671 AATAAATCAATCCATATTTTT
1 AATAAAT---T--AT-TTTAA
1343692 AAT-AATTA-TTTAA
1 AATAAATTATTTTAA
* *
1343705 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
1343720 AATAAATTATTTTAT
1 AATAAATTATTTTAA
1343735 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1343750 AATAAATTATTTTAA
1 AATAAATTATTTTAA
1343765 AATAAAT
1 AATAAAT
1343772 AACCTTATTA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
13 5 0.05
14 14 0.14
15 67 0.68
17 1 0.01
18 1 0.01
20 5 0.05
21 6 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:1343716 original size:49 final size:49
Alignment explanation
Indices: 1343616--1343771 Score: 186
Period size: 49 Copynumber: 3.3 Consensus size: 49
1343606 AATCAATCCA
*
1343616 TATTTTAAAATAAATCAATTCATA---CTAATAAATTATTTAAAATAAAT
1 TATTTTAAAATAAATCAA-TCATATTTATAATAAATTATTTAAAATAAAT
* *
1343663 TATTTTAAAATAAATCAATCCATATTTTTAAT-AATTATTTAAAGTAAAT
1 TATTTTAAAATAAATCAAT-CATATTTATAATAAATTATTTAAAATAAAT
*
1343712 TATTTTATAATAAAT---T-AT-TTTATAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATCAATCATATTTATAATAAATTA-TTTAAAATAAAT
1343757 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
1343772 AACCTTATTA
Statistics
Matches: 97, Mismatches: 6, Indels: 14
0.83 0.05 0.12
Matches are distributed among these distances:
43 7 0.07
44 7 0.07
45 25 0.26
46 2 0.02
47 22 0.23
49 30 0.31
50 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.46
Consensus pattern (49 bp):
TATTTTAAAATAAATCAATCATATTTATAATAAATTATTTAAAATAAAT
Found at i:1343743 original size:30 final size:30
Alignment explanation
Indices: 1343685--1343823 Score: 120
Period size: 30 Copynumber: 4.9 Consensus size: 30
1343675 AATCAATCCA
1343685 TATTTT-TAAT-AATTA-TTTA-AAGTAAAT
1 TATTTTATAATAAATTATTTTATAA-TAAAT
1343712 TATTTTATAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTATAATAAAT
* *
1343742 TATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTATAATAAAT
* **
1343772 AACCTTAT--TAAATTA--TT-T-A-AAAT
1 TATTTTATAATAAATTATTTTATAATAAAT
1343795 TATTTTAATAAATAAATATATTTTATAAT
1 TATTTT-AT-AATAAAT-TATTTTATAAT
1343824 TGTTCTCGAA
Statistics
Matches: 88, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
23 7 0.08
24 3 0.03
26 2 0.02
27 11 0.12
28 13 0.15
29 5 0.06
30 43 0.49
31 3 0.03
32 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTATAATAAAT
Found at i:1343810 original size:18 final size:17
Alignment explanation
Indices: 1343702--1343819 Score: 88
Period size: 15 Copynumber: 6.9 Consensus size: 17
1343692 AATAATTATT
1343702 TAAAGTAAATTATTTT-A
1 TAAA-TAAATTATTTTAA
1343719 T-AATAAATTATTTT-A
1 TAAATAAATTATTTTAA
1343734 T-AATAAATTATTTT-A
1 TAAATAAATTATTTTAA
1343749 -AAATAAATTATTTTAAAA
1 TAAATAAATTATTTT--AA
* *
1343767 TAAATAACCTTA-TTAAA
1 TAAATAA-ATTATTTTAA
**
1343784 TTATTTAAAATTATTTTAA
1 -TAAAT-AAATTATTTTAA
1343803 TAAATAAATATATTTTA
1 TAAATAAAT-TATTTTA
1343820 TAATTGTTCT
Statistics
Matches: 83, Mismatches: 8, Indels: 19
0.75 0.07 0.17
Matches are distributed among these distances:
15 40 0.48
16 2 0.02
17 7 0.08
18 17 0.20
19 14 0.17
20 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (17 bp):
TAAATAAATTATTTTAA
Found at i:1362282 original size:171 final size:171
Alignment explanation
Indices: 1361983--1362292 Score: 387
Period size: 170 Copynumber: 1.8 Consensus size: 171
1361973 TGACTGCGAG
* *
1361983 TTTTAAGGTCCAAAGATTAATAATAAAATAAGAAATGATAATTAAAAACAACGTAAATTTTATAT
1 TTTTAAGGTCCAAAGATTAATAATAAAATAAGAAATGATAATTAAAAACAACGTAAACTTCATAT
* ** * *
1362048 AATTAAGTAATTTGTTGACAACATTGCACGTTTATATTTTTTAATTATTAAATTTTAAGAATTTG
66 AATTAAGTAATTAGTCAACAACATTACACGTTTAAATTTTTTAATTATTAAATTTTAAGAATTTG
1362113 GAAATAAATCTTGGGAGGGGTTATCTTTTAGTGATAGTGAT
131 GAAATAAATCTTGGGAGGGGTTATCTTTTAGTGATAGTGAT
* * * *
1362154 TTTTAAGGTTC-AA-ATTCAATAATAAAATACG-AATTAGTAATTACAAACAACGTAAACTTCAT
1 TTTTAAGGTCCAAAGATT-AATAATAAAATAAGAAATGA-TAATTAAAAACAACGTAAACTTCAT
* * ** *
1362216 ATAATT-AGTAATTAG-CAACGATATTACGTGTTTAAATTTTTTAAAATTTATTAAATTTTTAGA
64 ATAATTAAGTAATTAGTCAACAACATTACACGTTTAAATTTTTT--AA-TTATTAAATTTTAAGA
*
1362279 ATTTGGTAATAAAT
126 ATTTGGAAATAAAT
1362293 AGAAGGAATT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
168 19 0.16
169 15 0.13
170 45 0.38
171 38 0.32
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (171 bp):
TTTTAAGGTCCAAAGATTAATAATAAAATAAGAAATGATAATTAAAAACAACGTAAACTTCATAT
AATTAAGTAATTAGTCAACAACATTACACGTTTAAATTTTTTAATTATTAAATTTTAAGAATTTG
GAAATAAATCTTGGGAGGGGTTATCTTTTAGTGATAGTGAT
Found at i:1362866 original size:322 final size:317
Alignment explanation
Indices: 1362261--1362911 Score: 824
Period size: 322 Copynumber: 2.0 Consensus size: 317
1362251 ATTTTTTAAA
* * * * *
1362261 ATTTATTAAATTTTTAGAATTTGGTAATAAATAGAAGGAATTACCATGTTTTATTGGTAGTGAAT
1 ATTTTTTAAAATTTAAGAATTTGGTAATAAATAGAACGAATTACCATCTTTTATTGGTAGTGAAT
* * * * * **
1362326 TTAAAAATCTAATTTTAGGAACAAGATATAAAATAGTAATTACAAACAACGCAAACTTTGTATGA
66 TTAAAAATATAATTTTAGAAAAAAGATATAAAATAATAATTACAAACAAC-CAAACCTTAAATGA
* * *
1362391 TTAGTAATTTGTTGATAACATTACACATCTAGATTTTTTTTAAATTTATTAAAATTTAAGATTTA
130 TTAGTAACTTGTTGATAACATTAAACATCTAGATTTTTTTAAAATTTATTAAAATTTAAGATTTA
* * * *
1362456 ACAATAAATTTAAAGAGTGATTGTATTTTATTGATAGTGAGTTTTAGGATCTAAATTTTAAGAAT
195 ACAATAAATCTAAAGAGTAATTATATTTTATTGATAGTGAGTTCTAGGATCTAAATTTTAAGAAT
* ** ** * *
1362521 GAAATAGGAAATTTAAATTTATATAATTAATAATTTGTTGATAACATTACACGTATAT
260 AAAATAAAAAACATAAATTTATATAATTAATAATTTGTTGACAACATTACACGTATAG
** * **
1362579 ATTTTTTAAAATTTAAGAATTTGGTAATAAATCTAACGAATTACCATCTTTTATTGGTTGTGGGT
1 ATTTTTTAAAATTTAAGAATTTGGTAATAAATAGAACGAATTACCATCTTTTATTGGTAGTGAAT
* * * *
1362644 TTTAAAATATATTTTTAAGAAAAATATATATAAAAATAATAATAATTACAAATAA-CAAACCTTA
66 TTAAAAATATAATTTT-AGAAAAA-AGATAT---AA-AATAATAATTACAAACAACCAAACCTTA
*
1362708 AATGATTAGTAACTTGTT-AGTAACATTAAACATCTAGATTTTTTTAAAATTTATTAAATTTTAA
125 AATGATTAGTAACTTGTTGA-TAACATTAAACATCTAGATTTTTTTAAAATTTATTAAAATTTAA
* *
1362772 GATTTAACAATAAATCTAAAGAG-AATTATCTTTTATTGATAGTG-GATTCTAGGATCTGAATTT
189 GATTTAACAATAAATCTAAAGAGTAATTATATTTTATTGATAGTGAG-TTCTAGGATCTAAATTT
*
1362835 TAAGAATAAAATAAAAAACATAAATTTTATATAATTAATAATTTGTTGACGACATTACACGTATA
253 TAAGAATAAAATAAAAAACATAAA-TTTATATAATTAATAATTTGTTGACAACATTACACGTATA
1362900 G
317 G
*
1362901 ATTTTTAAAAA
1 ATTTTTTAAAA
1362912 ATTATTAAAT
Statistics
Matches: 284, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
318 68 0.24
319 5 0.02
320 6 0.02
321 53 0.19
322 134 0.47
323 2 0.01
324 16 0.06
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (317 bp):
ATTTTTTAAAATTTAAGAATTTGGTAATAAATAGAACGAATTACCATCTTTTATTGGTAGTGAAT
TTAAAAATATAATTTTAGAAAAAAGATATAAAATAATAATTACAAACAACCAAACCTTAAATGAT
TAGTAACTTGTTGATAACATTAAACATCTAGATTTTTTTAAAATTTATTAAAATTTAAGATTTAA
CAATAAATCTAAAGAGTAATTATATTTTATTGATAGTGAGTTCTAGGATCTAAATTTTAAGAATA
AAATAAAAAACATAAATTTATATAATTAATAATTTGTTGACAACATTACACGTATAG
Found at i:1363951 original size:15 final size:16
Alignment explanation
Indices: 1363931--1363971 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1363921 GTTTACTTCA
*
1363931 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
1363946 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
1363962 GAATGATTCA
1 GAATGATTCA
1363972 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:1366996 original size:28 final size:29
Alignment explanation
Indices: 1366958--1367015 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
1366948 TTAAAATATT
*
1366958 AAATACTTTAAGTATCTATTTTGATTAAA
1 AAATACTTTAAGTATCTATTTTGATCAAA
*
1366987 AAATA-TTTAAGTATTTATTTTGATCAAA
1 AAATACTTTAAGTATCTATTTTGATCAAA
1367015 A
1 A
1367016 GATAACTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 22 0.81
29 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (29 bp):
AAATACTTTAAGTATCTATTTTGATCAAA
Found at i:1367470 original size:14 final size:14
Alignment explanation
Indices: 1367451--1367477 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1367441 CCAGCAACAT
1367451 TGTATATATATATA
1 TGTATATATATATA
1367465 TGTATATATATAT
1 TGTATATATATAT
1367478 TCAATGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TGTATATATATATA
Found at i:1369246 original size:30 final size:30
Alignment explanation
Indices: 1369201--1369267 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
1369191 TTATACCCCG
* *
1369201 CCTCATCCACAGGCGGCTCCTGCTCGGCAA
1 CCTCCTCCACAGGCGGCTCCGGCTCGGCAA
*
1369231 CCTCCTCCTCAGGCGGCTCCGGCTCGGCAA
1 CCTCCTCCACAGGCGGCTCCGGCTCGGCAA
1369261 CCTCCTC
1 CCTCCTC
1369268 AGGCGGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.12, C:0.48, G:0.22, T:0.18
Consensus pattern (30 bp):
CCTCCTCCACAGGCGGCTCCGGCTCGGCAA
Found at i:1369272 original size:27 final size:28
Alignment explanation
Indices: 1369210--1369275 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 28
1369200 GCCTCATCCA
*
1369210 CAGGCGGCTCCTGCTCGGCAACCTCCTCCT
1 CAGGCGGCTCCGGCTCGGCAA-C-CCTCCT
1369240 CAGGCGGCTCCGGCTCGGCAA-CCTCCT
1 CAGGCGGCTCCGGCTCGGCAACCCTCCT
1369267 CAGGCGGCT
1 CAGGCGGCT
1369276 TCTGCACATC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 15 0.43
30 20 0.57
ACGTcount: A:0.11, C:0.44, G:0.29, T:0.17
Consensus pattern (28 bp):
CAGGCGGCTCCGGCTCGGCAACCCTCCT
Found at i:1369288 original size:27 final size:27
Alignment explanation
Indices: 1369234--1369297 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
1369224 TCGGCAACCT
* *
1369234 CCTCCTCAGGCGGCTCCGGCTCGGCAA
1 CCTCCTCAGGCGGCTCCGGCACAGCAA
* * *
1369261 CCTCCTCAGGCGGCTTCTGCACATCAA
1 CCTCCTCAGGCGGCTCCGGCACAGCAA
1369288 CCTCCTCAGG
1 CCTCCTCAGG
1369298 TGATTCCCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.14, C:0.44, G:0.23, T:0.19
Consensus pattern (27 bp):
CCTCCTCAGGCGGCTCCGGCACAGCAA
Found at i:1373885 original size:44 final size:44
Alignment explanation
Indices: 1373822--1373910 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
1373812 GGATGTAGAT
1373822 AGATTTATTTCAGGCTCTCGTCTTAGTTAATTGTTTTCTACTTC
1 AGATTTATTTCAGGCTCTCGTCTTAGTTAATTGTTTTCTACTTC
1373866 AGATTTATTTCAGGCTCTCGTCTTAGTTAATTGTTTTCTACTTC
1 AGATTTATTTCAGGCTCTCGTCTTAGTTAATTGTTTTCTACTTC
1373910 A
1 A
1373911 TTTATTAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (44 bp):
AGATTTATTTCAGGCTCTCGTCTTAGTTAATTGTTTTCTACTTC
Found at i:1389674 original size:44 final size:45
Alignment explanation
Indices: 1389602--1389692 Score: 175
Period size: 44 Copynumber: 2.0 Consensus size: 45
1389592 TTGACAATCT
1389602 TAGATCTTTGGGGGGGGGGGTTATAAATTGGGTTGCTAGGTCAGC
1 TAGATCTTTGGGGGGGGGGGTTATAAATTGGGTTGCTAGGTCAGC
1389647 TAGATCTTT-GGGGGGGGGGTTATAAATTGGGTTGCTAGGTCAGC
1 TAGATCTTTGGGGGGGGGGGTTATAAATTGGGTTGCTAGGTCAGC
1389691 TA
1 TA
1389693 ATATGGACGC
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 37 0.80
45 9 0.20
ACGTcount: A:0.19, C:0.09, G:0.41, T:0.32
Consensus pattern (45 bp):
TAGATCTTTGGGGGGGGGGGTTATAAATTGGGTTGCTAGGTCAGC
Found at i:1391735 original size:44 final size:44
Alignment explanation
Indices: 1391675--1391768 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
1391665 TTTTTTAATC
* * * *
1391675 TACTGTGAAGGTTTTTATGGCAGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1391719 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1391763 TACTGT
1 TACTGT
1391769 TATTGGTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (44 bp):
TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
Found at i:1394415 original size:18 final size:18
Alignment explanation
Indices: 1394392--1394466 Score: 68
Period size: 18 Copynumber: 4.3 Consensus size: 18
1394382 AAGCCTCGGC
1394392 TCTTCTTCATCGTCCTCT
1 TCTTCTTCATCGTCCTCT
*
1394410 TCTTCTTCATCGTCGTCT
1 TCTTCTTCATCGTCCTCT
* *
1394428 ACGTC-T-A-CGT-CTCT
1 TCTTCTTCATCGTCCTCT
* *
1394442 GTCTTCTTCATCTTCTTCT
1 -TCTTCTTCATCGTCCTCT
1394461 TCTTCT
1 TCTTCT
1394467 CTCTCGTCGT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
14 3 0.07
15 6 0.14
16 2 0.05
17 2 0.05
18 28 0.64
19 3 0.07
ACGTcount: A:0.07, C:0.35, G:0.08, T:0.51
Consensus pattern (18 bp):
TCTTCTTCATCGTCCTCT
Found at i:1394674 original size:5 final size:5
Alignment explanation
Indices: 1394664--1394688 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1394654 ACATCCCTCT
1394664 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
1394689 CCCCTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:1396835 original size:3 final size:3
Alignment explanation
Indices: 1396827--1396855 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1396817 ATCCATTTAT
1396827 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1396856 TTGTCATCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1402227 original size:25 final size:23
Alignment explanation
Indices: 1402178--1402237 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
1402168 TTAATGTATA
*
1402178 TTTTATTATATTTAATATTATAT
1 TTTTATTATATTTAATATTAAAT
1402201 TTTTAATT-TATTTAAGTATTTAAAT
1 TTTT-ATTATATTTAA-TA-TTAAAT
*
1402226 TTTT-TAATATTT
1 TTTTATTATATTT
1402238 TATTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
23 12 0.39
24 10 0.32
25 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTATTATATTTAATATTAAAT
Found at i:1402228 original size:24 final size:23
Alignment explanation
Indices: 1402177--1402237 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 23
1402167 TTTAATGTAT
1402177 ATTTTATTATATTTAATATTATA
1 ATTTTATTATATTTAATATTATA
*
1402200 TTTTTAATT-TATTTAAGTATT-TAA
1 ATTTT-ATTATATTTAA-TATTAT-A
1402224 ATTTT-TTAATATTT
1 ATTTTATT-ATATTT
1402238 TATTTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
22 2 0.06
23 12 0.39
24 17 0.55
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTATTATATTTAATATTATA
Found at i:1402231 original size:17 final size:17
Alignment explanation
Indices: 1402205--1402237 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
1402195 TTATATTTTT
1402205 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
1402223 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
1402238 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:1402239 original size:17 final size:18
Alignment explanation
Indices: 1402197--1402239 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
1402187 ATTTAATATT
*
1402197 ATATTTTTAATTTATTTA
1 ATATTTTAAATTTATTTA
1402215 AGTA-TTTAAATTT-TTTA
1 A-TATTTTAAATTTATTTA
1402232 ATATTTTA
1 ATATTTTA
1402240 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 9 0.41
19 2 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATATTTTAAATTTATTTA
Found at i:1407039 original size:2 final size:2
Alignment explanation
Indices: 1407022--1407067 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
1407012 TAATTGATGC
* *
1407022 AT AT AC AT AC 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
1407064 AT AT
1 AT AT
1407068 GCGGCTGAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1415152 original size:15 final size:15
Alignment explanation
Indices: 1415133--1415172 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1415123 CAGCTGGGGC
1415133 CTTCTCGGCTGGCTTT
1 CTTCTCGGCTGG-TTT
*
1415149 -TTCTCGGCCGGTTT
1 CTTCTCGGCTGGTTT
1415163 CTTCTCGGCT
1 CTTCTCGGCT
1415173 TTGGGTGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.00, C:0.33, G:0.25, T:0.42
Consensus pattern (15 bp):
CTTCTCGGCTGGTTT
Found at i:1420098 original size:4 final size:4
Alignment explanation
Indices: 1420089--1420114 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1420079 TTAAGTGAAT
1420089 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
1420115 ATATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1420898 original size:2 final size:2
Alignment explanation
Indices: 1420891--1420916 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1420881 CATGAGAAAC
1420891 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
1420917 CAATGAGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1422159 original size:59 final size:60
Alignment explanation
Indices: 1422079--1422230 Score: 159
Period size: 60 Copynumber: 2.6 Consensus size: 60
1422069 TGCAACATAT
* *
1422079 ATCCT-AAACTATGACAT-TCATTTTAAATTGGTCATT-AACCTTTAAATATTCTAACTT-C
1 ATCCTCAAACTATGAC-TCTCATTCTAAATTGGTCATTAAACCTTTAAATATTCCAA-TTAC
* ** * * *
1422137 ATCCTCAAACTGTGACTCTCATTCTAAATTATTCCTTAAACTTTTGAATATTCCAATTAC
1 ATCCTCAAACTATGACTCTCATTCTAAATTGGTCATTAAACCTTTAAATATTCCAATTAC
* * *
1422197 ATCCTCAAAGTACGACTCACATTCTAAATTGGTC
1 ATCCTCAAACTATGACTCTCATTCTAAATTGGTC
1422231 CCTAAACTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
58 6 0.08
59 26 0.34
60 44 0.58
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (60 bp):
ATCCTCAAACTATGACTCTCATTCTAAATTGGTCATTAAACCTTTAAATATTCCAATTAC
Found at i:1422204 original size:60 final size:60
Alignment explanation
Indices: 1422123--1422243 Score: 154
Period size: 60 Copynumber: 2.0 Consensus size: 60
1422113 TTAACCTTTA
* ** * * *
1422123 AATATTCTAACTTCATCCTCAAACTGTGACTCTCATTCTAAATTATTCCTTAAACTTTTG
1 AATATTCCAACTTCATCCTCAAACTACGACTCACATTCTAAATTAGTCCCTAAACTTTTG
* *
1422183 AATATTCCAA-TTACATCCTCAAAGTACGACTCACATTCTAAATTGGTCCCTAAACTTTTG
1 AATATTCCAACTT-CATCCTCAAACTACGACTCACATTCTAAATTAGTCCCTAAACTTTTG
1422243 A
1 A
1422244 GTCTTTTAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 2 0.04
60 50 0.96
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (60 bp):
AATATTCCAACTTCATCCTCAAACTACGACTCACATTCTAAATTAGTCCCTAAACTTTTG
Found at i:1422490 original size:60 final size:60
Alignment explanation
Indices: 1422382--1422553 Score: 167
Period size: 60 Copynumber: 2.9 Consensus size: 60
1422372 GTATGGTAGT
* **
1422382 ATAGTTTGGGATG-AATTGAAATGTTCAAAAATTTTGGAGACCAATTTAGAA-CAAAGGTC
1 ATAGTTTGGGATGAAATTGAAATGTTAAAAAATTTAAGAGACCAATTTAGAATCAAA-GTC
** * * *
1422441 ATAGTTTGGGGATGAAATTGAAATGTTAAAAAATTTAAG-GACTGATTTAGAATGATATTC
1 ATAGTTT-GGGATGAAATTGAAATGTTAAAAAATTTAAGAGACCAATTTAGAATCAAAGTC
* *
1422501 ATAGTTTAGGGATGAAATT-ATAATATCT-AAAAGTTT-AGAGACCAATTTAGAAT
1 ATAGTTT-GGGATGAAATTGA-AATGT-TAAAAAATTTAAGAGACCAATTTAGAAT
1422554 GAGAGTAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
59 10 0.11
60 60 0.64
61 24 0.26
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTAAAAAATTTAAGAGACCAATTTAGAATCAAAGTC
Found at i:1423585 original size:2 final size:2
Alignment explanation
Indices: 1423578--1423602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1423568 GGCAGACCAT
1423578 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1423603 TTTATTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1434338 original size:21 final size:20
Alignment explanation
Indices: 1434301--1434339 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1434291 TCATATGAAC
* *
1434301 AATTATAATATATTCATTAT
1 AATTATAATACAATCATTAT
1434321 AATTAATAATACAATCATT
1 AATT-ATAATACAATCATT
1434340 TGTCGGTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTATAATACAATCATTAT
Found at i:1437074 original size:18 final size:18
Alignment explanation
Indices: 1437047--1437081 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1437037 GTCAGTTTAA
* *
1437047 TTTAATAAAAATTAAATT
1 TTTAAAAAAAATAAAATT
1437065 TTTAAAAAAAATAAAAT
1 TTTAAAAAAAATAAAAT
1437082 GATATTTTTT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
TTTAAAAAAAATAAAATT
Found at i:1463171 original size:21 final size:22
Alignment explanation
Indices: 1463147--1463229 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 22
1463137 TTGGTGCAGA
*
1463147 GGGAATCGATTCCCCCCTTGA-
1 GGGAACCGATTCCCCCCTTGAG
*
1463168 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTG-AG
**
1463191 GGGAACCGATTCCCCCC-ACAG
1 GGGAACCGATTCCCCCCTTGAG
* *
1463212 GGGAATCGATACCCCCCT
1 GGGAACCGATTCCCCCCT
1463230 GGGGTTCTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 35 0.67
22 1 0.02
23 16 0.31
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCTTGAG
Found at i:1463198 original size:23 final size:21
Alignment explanation
Indices: 1463145--1463207 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
1463135 TTTTGGTGCA
*
1463145 GAGGGAATCGATTCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
1463166 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
1463187 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
1463208 ACAGGGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 20 0.54
22 1 0.03
23 16 0.43
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:1466779 original size:24 final size:23
Alignment explanation
Indices: 1466752--1466804 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
1466742 TTAAAAATTA
1466752 TTTTTATTAACATATTATATTATT
1 TTTTTATT-ACATATTATATTATT
* * *
1466776 TTTTGAATTACATGTTATGTTATT
1 TTTT-TATTACATATTATATTATT
1466800 TTTTT
1 TTTTT
1466805 TTGTTAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTATTACATATTATATTATT
Found at i:1470258 original size:47 final size:47
Alignment explanation
Indices: 1470175--1470278 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 47
1470165 GGCGCAAAAA
* * *
1470175 CAAACGCTGCAAAAACCTCCGCAAAAGCTTGCAGCATTTGTGAATGT
1 CAAACGCCGCAAAAACCGCCGCAAAAGCTTGCAGCATTTGTGAACGT
* *
1470222 CAAATGCCGCAAAAACCGCCGCAAAA-CTTTGTAGCATTTGTGAACGT
1 CAAACGCCGCAAAAACCGCCGCAAAAGC-TTGCAGCATTTGTGAACGT
1470269 CAAACGCCGC
1 CAAACGCCGC
1470279 TAAAGGTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
46 1 0.02
47 49 0.98
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (47 bp):
CAAACGCCGCAAAAACCGCCGCAAAAGCTTGCAGCATTTGTGAACGT
Found at i:1474165 original size:21 final size:21
Alignment explanation
Indices: 1474141--1474212 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
1474131 GCCTTGAGGA
1474141 GTGACTGGCGGCGCGAT-AGTG
1 GTGACTGGCGGCGCGATGA-TG
* * *
1474162 GTGACTGGAGGTGCGACGATG
1 GTGACTGGCGGCGCGATGATG
* *
1474183 ATGACTGGTGGCGCGATGATG
1 GTGACTGGCGGCGCGATGATG
*
1474204 GTGATTGGC
1 GTGACTGGC
1474213 ACGCTGAGAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.17, C:0.15, G:0.46, T:0.22
Consensus pattern (21 bp):
GTGACTGGCGGCGCGATGATG
Found at i:1474407 original size:41 final size:41
Alignment explanation
Indices: 1474353--1474443 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
1474343 CAAAAAAAAA
* * * *
1474353 CCACTAATGTACGCGTCTATTGCGGCGTTTGTATAAAAAATG
1 CCACT-ATTTACGCATCTATTGCGGCGTGTGTATAAAAAACG
* * *
1474395 CCACTATTTACGCATCTATTGTGGTGTGTGTATGAAAAACG
1 CCACTATTTACGCATCTATTGCGGCGTGTGTATAAAAAACG
1474436 CCACTATT
1 CCACTATT
1474444 GTACAAGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (41 bp):
CCACTATTTACGCATCTATTGCGGCGTGTGTATAAAAAACG
Found at i:1475408 original size:22 final size:22
Alignment explanation
Indices: 1475380--1475421 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
1475370 CTCAGCCGTT
1475380 TGTAACTCCT-AAAATTAAATCA
1 TGTAACTCCTGAAAA-TAAATCA
1475402 TGTAACTCCTGAAAATAAAT
1 TGTAACTCCTGAAAATAAAT
1475422 AGTCTCACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (22 bp):
TGTAACTCCTGAAAATAAATCA
Found at i:1519761 original size:22 final size:22
Alignment explanation
Indices: 1519736--1519794 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
1519726 CATATGAAAT
1519736 TGTCCCGAATGACCTGTGAGTA
1 TGTCCCGAATGACCTGTGAGTA
* *
1519758 TGTCCTGAAGGACCTGTGAGTA
1 TGTCCCGAATGACCTGTGAGTA
1519780 TGTCCCGAATGACCT
1 TGTCCCGAATGACCT
1519795 ATGAATTATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (22 bp):
TGTCCCGAATGACCTGTGAGTA
Found at i:1520425 original size:64 final size:65
Alignment explanation
Indices: 1520357--1520477 Score: 158
Period size: 64 Copynumber: 1.9 Consensus size: 65
1520347 CCCTACTTAA
* * * *
1520357 GGTATCGGTACCCTC-ATGGCATTCTGTGATT-TTTCGTTTAA-AGGGGTATCGGTACCCAGCTG
1 GGTATCGATACCCTCAAT-ACATTATGTGATTCTTTCGTTTAAGA-GGGTATCAGTACCCAGCTG
1520419 GG
64 GG
*
1520421 GGTATCGATACCCTCAATACATTATGTGATTCTTTCGTTTGAGAGGGTATCAGTACC
1 GGTATCGATACCCTCAATACATTATGTGATTCTTTCGTTTAAGAGGGTATCAGTACC
1520478 TGTTGAATGG
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
64 25 0.51
65 23 0.47
66 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.34
Consensus pattern (65 bp):
GGTATCGATACCCTCAATACATTATGTGATTCTTTCGTTTAAGAGGGTATCAGTACCCAGCTGGG
Found at i:1522658 original size:130 final size:128
Alignment explanation
Indices: 1522517--1522762 Score: 402
Period size: 130 Copynumber: 1.9 Consensus size: 128
1522507 TATTTATATA
*
1522517 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1522582 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATG--ACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
*
1522647 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
1522712 TTAACACATGATCATGATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACGTGTCATTGGTGACACATGTCACCACCTAATTA
1522763 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 30 0.28
130 78 0.72
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (128 bp):
ATCAATTTGGTCATAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:1523121 original size:28 final size:27
Alignment explanation
Indices: 1523090--1523152 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
1523080 AGTTGATACA
*
1523090 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
1523118 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
1523146 ATATTTT
1 ATATTTT
1523153 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:1523254 original size:17 final size:19
Alignment explanation
Indices: 1523232--1523266 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1523222 ATTTCTTATT
1523232 AAAAATA-AAAT-ATTCAA
1 AAAAATATAAATGATTCAA
1523249 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1523267 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAATATAAATGATTCAA
Found at i:1523413 original size:21 final size:21
Alignment explanation
Indices: 1523389--1523431 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1523379 TATTACCTTA
1523389 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1523410 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
1523431 A
1 A
1523432 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:1523449 original size:35 final size:35
Alignment explanation
Indices: 1523400--1523485 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
1523390 ATTGAAGTAT
** * *
1523400 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
1523435 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
1523470 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
1523486 TGACTATTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:1529411 original size:29 final size:29
Alignment explanation
Indices: 1529370--1529425 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
1529360 ATGTAATCAT
1529370 TCTCTTCTTGAGGTCATGTGATATGTTGC
1 TCTCTTCTTGAGGTCATGTGATATGTTGC
1529399 TCTCTTCTTGAGGTCATGTGATATGTT
1 TCTCTTCTTGAGGTCATGTGATATGTT
1529426 ACTCCCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.46
Consensus pattern (29 bp):
TCTCTTCTTGAGGTCATGTGATATGTTGC
Found at i:1543855 original size:42 final size:41
Alignment explanation
Indices: 1543789--1543868 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 41
1543779 AGTAAAATTC
1543789 TAATTATTTAAATAAAAATCATTTATATAAAAATTCATCAA
1 TAATTATTTAAATAAAAATCATTTATATAAAAATTCATCAA
*
1543830 TAATATATTTAAATAAAAATTATTTATATAAAAATTCAT
1 TAAT-TATTTAAATAAAAATCATTTATATAAAAATTCAT
1543869 ATCATAGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (41 bp):
TAATTATTTAAATAAAAATCATTTATATAAAAATTCATCAA
Found at i:1543865 original size:15 final size:15
Alignment explanation
Indices: 1543790--1543865 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 15
1543780 GTAAAATTCT
1543790 AATTATTTAAATAAA
1 AATTATTTAAATAAA
* *
1543805 AATCATTTATATAAA
1 AATTATTTAAATAAA
*
1543820 AATTCA--TCAAT-AA
1 AATT-ATTTAAATAAA
*
1543833 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
1543847 AATTATTTATATAAA
1 AATTATTTAAATAAA
1543862 AATT
1 AATT
1543866 CATATCATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 7 0.15
14 6 0.13
15 31 0.66
16 1 0.02
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:1546711 original size:28 final size:28
Alignment explanation
Indices: 1546693--1546755 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
1546683 AATAAACTTG
*
1546693 ATAAAAGAATAATAAAAAATATTAATATA
1 ATAAAA-AATAATAAAAAATATAAATATA
*
1546722 ATAAAAAATAAT-AAAAATATATATATA
1 ATAAAAAATAATAAAAAATATAAATATA
1546749 TATAAAA
1 -ATAAAA
1546756 CAATGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 13 0.42
28 12 0.39
29 6 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.29
Consensus pattern (28 bp):
ATAAAAAATAATAAAAAATATAAATATA
Found at i:1546732 original size:10 final size:10
Alignment explanation
Indices: 1546693--1546738 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
1546683 AATAAACTTG
1546693 ATAAAAGAATA
1 ATAAAA-AATA
1546704 ATAAAAAAT-
1 ATAAAAAATA
* *
1546713 AT-TAATATA
1 ATAAAAAATA
1546722 ATAAAAAATA
1 ATAAAAAATA
1546732 ATAAAAA
1 ATAAAAA
1546739 TATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
8 4 0.14
9 4 0.14
10 15 0.52
11 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (10 bp):
ATAAAAAATA
Found at i:1546740 original size:21 final size:20
Alignment explanation
Indices: 1546701--1546742 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 20
1546691 TGATAAAAGA
*
1546701 ATAATAAAAAATAT--TAAT
1 ATAATAAAAAATATAAAAAT
1546719 ATAATAAAAAATAATAAAAAT
1 ATAATAAAAAAT-ATAAAAAT
1546740 ATA
1 ATA
1546743 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 2 0.10
21 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAATAAAAAATATAAAAAT
Found at i:1546752 original size:31 final size:29
Alignment explanation
Indices: 1546693--1546753 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 29
1546683 AATAAACTTG
1546693 ATAAAAGAATAATAAAAAATATTAATATA
1 ATAAAAGAATAATAAAAAATATTAATATA
1546722 ATAAAA-AATAATAAAAATATATATATATATA
1 ATAAAAGAATAATAAAAA-ATAT-TA-ATATA
1546753 A
1 A
1546754 AACAATGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 11 0.38
29 10 0.34
30 2 0.07
31 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (29 bp):
ATAAAAGAATAATAAAAAATATTAATATA
Found at i:1546766 original size:29 final size:26
Alignment explanation
Indices: 1546705--1546766 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 26
1546695 AAAAGAATAA
1546705 TAAAAAATATTAATATAATAAAAAAT
1 TAAAAAATATTAATATAATAAAAAAT
*
1546731 AATAAAAATA-TATATATATATAAAACAAT
1 TA-AAAAATATTA-ATATA-ATAAAA-AAT
1546760 GTAAAAA
1 -TAAAAA
1546767 GAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
26 3 0.10
27 12 0.41
28 6 0.21
29 7 0.24
30 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
TAAAAAATATTAATATAATAAAAAAT
Found at i:1547276 original size:3 final size:3
Alignment explanation
Indices: 1547268--1547319 Score: 54
Period size: 3 Copynumber: 16.7 Consensus size: 3
1547258 AAAAATATAT
1547268 TAA TAA TAA TAA TAA TAA TAA TAAA TAAA TAAA TATA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA T-AA TA-A TAA TAA TAA TAA
1547316 -AA TA
1 TAA TA
1547320 TTTTTGTAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
3 27 0.60
4 14 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1547294 original size:30 final size:30
Alignment explanation
Indices: 1547251--1547319 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
1547241 GGCCTACAAA
* * * *
1547251 AATACTAAAAAATATATTAATA-ATAATAAT
1 AATAATAATAAATAAATAAATATATAAT-AT
1547281 AATAATAATAAATAAATAAATATATAATAT
1 AATAATAATAAATAAATAAATATATAATAT
1547311 AATAA-AATA
1 AATAATAATA
1547320 TTTTTGTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.12
30 25 0.74
31 5 0.15
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (30 bp):
AATAATAATAAATAAATAAATATATAATAT
Found at i:1547801 original size:84 final size:83
Alignment explanation
Indices: 1547661--1548430 Score: 644
Period size: 84 Copynumber: 9.2 Consensus size: 83
1547651 CTGAATAGAA
* * * * *
1547661 TCGAACTCAAAGGTCTTTG--G-CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGT
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT-GT
* * * *
1547723 GCCTTTGAGTTGAGTGGAG
65 GCCTTGGAGCTGAGCGTAG
* * * *
1547742 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCCGTAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
*** * *
1547807 ACCTCAAAGCTGAGTGTAA
66 -CCTTGGAGCTGAGCGTAG
* * * ** * * **
1547826 TCGAACTCGAGGGTGGGTCT-TTGGTAGATAGCCCTTCTCGACTTAAACTATGCTGCAAATGATG
1 TCGAACTCGAAGGT--CTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATG
1547890 TGCCTTGGAGCTGAGCGTAG
64 TGCCTTGGAGCTGAGCGTAG
** * * * *
1547910 TCGAACTCGAAGGTCTTTGGTTGGTAAATAACCATTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
1547975 GCCTTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * * * *
1547994 TCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
*** * * *
1548059 GCCCTCAAAACTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
* * *
1548079 TCGAACTCGAGGGTC---GTTGGCAGATAGCCCTTCTCA-ACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATGT
1548140 GCCTTGGAGCTGAGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * *
1548159 TCGAACTTGAAGGTTTTTGGTTGGA-AGATAATCCTTCTCGACTTAAGTTATGCTGCAAATGATA
1 TCGAACTCGAAGGTCTTT-GTT-GACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATG
*
1548223 TGCCTTGGAGCTGAGCGTAC
64 TGCCTTGGAGCTGAGCGTAG
* * * * * * * *
1548243 TCAAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGT
* * * *
1548308 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
* * * * * *
1548328 TCAAACTC-AAGGGT-TTTCGGTTGACATATAATCGTTATTGACTTAAGTTATGCTGCAAATGAT
1 TCGAACTCGAA-GGTCTTT--GTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT
* *
1548391 GTGTCTTGGAGCTAAGCGTAG
63 GTGCCTTGGAGCTGAGCGTAG
*
1548412 TCGAACTCGAAGGCCTTTG
1 TCGAACTCGAAGGTCTTTG
1548431 ATGGGCACGA
Statistics
Matches: 548, Mismatches: 116, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
80 24 0.04
81 54 0.10
82 3 0.01
83 9 0.02
84 320 0.58
85 136 0.25
86 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:1548165 original size:249 final size:249
Alignment explanation
Indices: 1547677--1548430 Score: 1028
Period size: 249 Copynumber: 3.0 Consensus size: 249
1547667 TCAAAGGTCT
* * * * * * * * * * *
1547677 TTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGTTGAGTGGAG
1 TTGGAAGATAATCCTTCTCGACTTAAGTTATGCTGCAAATGAT-ATGCCTTGGAGCTGAGCGTAG
* * * **
1547742 TCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCCGTAAATGATGT
65 TCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
* * *
1547806 GACCTCAAAGCTGAGTGTAATCGAACTCGAGGGTGGGTCTTTGGTAGATAGCCCTTCTCGACTTA
130 GCCCTCAAAGCTGAGTGTAATCGAACTCGA----GGGTCGTTGGCAGATAGCCCTTCTCGACTTA
**
1547871 AACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
191 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
1547930 TTGGTAA-ATAA-CCATTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTA
1 TTGG-AAGATAATCC-TTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTA
1547993 GTCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
64 GTCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
* *
1548058 TGCCCTCAAAACTGAGTGTAATCGAACTCGAGGGTCGTTGGCAGATAGCCCTTCTCAACTTAAGT
129 TGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCGTTGGCAGATAGCCCTTCTCGACTTAAGT
* *
1548123 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGTTTTTGG
194 TATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
1548179 TTGGAAGATAATCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTACT
1 TTGGAAGATAATCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
*
1548244 CAAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTG
66 CGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTG
* * * * * ** * * *
1548309 CCCTCGAAGCTGAGTGTAATCAAACTCAAGGGTTTTCGGTTGACATATAATCGTTATTGACTTAA
131 CCCTCAAAGCTGAGTGTAATCGAACTCGAGGG---TC-GTTGGCAGATAGCCCTTCTCGACTTAA
* * *
1548374 GTTATGCTGCAAATGATGTGTCTTGGAGCTAAGCGTAGTCGAACTCGAAGGCCTTTG
192 GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
1548431 ATGGGCACGA
Statistics
Matches: 449, Mismatches: 43, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
248 2 0.00
249 233 0.52
250 2 0.00
252 35 0.08
253 176 0.39
254 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (249 bp):
TTGGAAGATAATCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTG
CCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCGTTGGCAGATAGCCCTTCTCGACTTAAGTTA
TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:1548535 original size:34 final size:34
Alignment explanation
Indices: 1548443--1548535 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 34
1548433 GGGCACGATT
*
1548443 CCCTTCGTCGTGAAGTTGAAACC---GTGGATGA
1 CCCTTCGTCGTGAAGTTGAAACCAAATTGGATGA
* *
1548474 CCCTTCGTTGTGAAGTT-AAGCCTCAAATTGGAT-A
1 CCCTTCGTCGTGAAGTTGAA-AC-CAAATTGGATGA
*
1548508 TCCTTCGTCGTGAAGTTGAAATCCAAAT
1 CCCTTCGTCGTGAAGTTGAAA-CCAAAT
1548536 ATTTGTGTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
30 2 0.04
31 17 0.35
32 1 0.02
34 21 0.43
35 8 0.16
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.30
Consensus pattern (34 bp):
CCCTTCGTCGTGAAGTTGAAACCAAATTGGATGA
Found at i:1548752 original size:110 final size:108
Alignment explanation
Indices: 1548554--1548859 Score: 392
Period size: 110 Copynumber: 2.9 Consensus size: 108
1548544 TGTTTTAAGG
* * * *
1548554 CCAATATCCTTCGCCGTG-AGATTGAAATTGACTC---TGAAACTGGAAAGTAGTTTGTTACCAG
1 CCAATATCCTTCGCTGTGAAG-TTGAAATTGACTCTAATGAAACTGAAAAGTTGTTTGTTA-TAG
* * * * *
1548615 CCAGCCGGCCCTTCGTTGTGAAGTTGAGTTTATGTTGTCTCAAGT
64 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTATGTTGTCTCAAGT
1548660 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAAATGAAACTGAAAAGTTGTTTGTTGATAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-AATGAAACTGAAAAGTTGTTTGTT-ATAG
* *
1548725 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGT
64 TCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTATGTTGTCTCAAGT
* *
1548770 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTATGAATAAAACTGAAAAGTTGTTTG-T-T-GT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT-AATGAAACTGAAAAGTTGTTTGTTATAGT
*
1548832 CAGTCGCCCCTTCGCTGTGAAATTGAGC
65 CAGTCGCCCCTTCGCTGTGAAGTTGAGC
1548860 AACCACCATC
Statistics
Matches: 179, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
106 59 0.33
107 3 0.02
109 1 0.01
110 115 0.64
111 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (108 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTAATGAAACTGAAAAGTTGTTTGTTATAGTC
AGTCGCCCCTTCGCTGTGAAGTTGAGCTTATGTTGTCTCAAGT
Found at i:1552961 original size:33 final size:33
Alignment explanation
Indices: 1552922--1552991 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
1552912 AATGCTTCGG
1552922 TTTTAGTGTTTCAATAAAACTCAAATACGTTGA
1 TTTTAGTGTTTCAATAAAACTCAAATACGTTGA
* *
1552955 TTTTAGTGTTTTAATAAGACTCAAATACGTTGA
1 TTTTAGTGTTTCAATAAAACTCAAATACGTTGA
1552988 TTTT
1 TTTT
1552992 TTCTTCTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (33 bp):
TTTTAGTGTTTCAATAAAACTCAAATACGTTGA
Found at i:1555205 original size:23 final size:24
Alignment explanation
Indices: 1555162--1555206 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
1555152 TGTACTTAAG
*
1555162 GTTTAAATTTGAGCTCGAGTTCAA
1 GTTTAAATTTGAGCTCAAGTTCAA
*
1555186 GTTTAAA-TTGAGTTCAAGTTC
1 GTTTAAATTTGAGCTCAAGTTC
1555207 GAATCTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (24 bp):
GTTTAAATTTGAGCTCAAGTTCAA
Found at i:1570161 original size:23 final size:23
Alignment explanation
Indices: 1570133--1570176 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
1570123 AATATTTTAT
1570133 TAATAAAAAATGCTTAATATTGC
1 TAATAAAAAATGCTTAATATTGC
*
1570156 TAATAAAAAATGTTTAATATT
1 TAATAAAAAATGCTTAATATT
1570177 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (23 bp):
TAATAAAAAATGCTTAATATTGC
Found at i:1571080 original size:20 final size:21
Alignment explanation
Indices: 1571055--1571103 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
1571045 GACCATCAAA
1571055 TTCGCAACGCGA-TCTCCAAT
1 TTCGCAACGCGAGTCTCCAAT
* *
1571075 TTCGCAAC-CTAGTTTCCAAT
1 TTCGCAACGCGAGTCTCCAAT
1571095 TTCGCAACG
1 TTCGCAACG
1571104 TGAATATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (21 bp):
TTCGCAACGCGAGTCTCCAAT
Found at i:1571178 original size:20 final size:20
Alignment explanation
Indices: 1571153--1571204 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1571143 TACAATATTC
1571153 CAAATTCGCAACGC-GATAGT
1 CAAATTCGCAACGCGGA-AGT
1571173 CAAATTCGCAACGCGGAAGT
1 CAAATTCGCAACGCGGAAGT
*
1571193 TAAATTCGCAAC
1 CAAATTCGCAAC
1571205 TGAATTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCGGAAGT
Found at i:1571222 original size:19 final size:19
Alignment explanation
Indices: 1571172--1571242 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
1571162 AACGCGATAG
* *
1571172 TCAAATTCGCAACGCGGAAGT
1 TCAAATTCGCAA--CTGAATT
1571193 T-AAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
* *
1571211 TCAAATTTGCAACTGATTT
1 TCAAATTCGCAACTGAATT
1571230 TCAAATTCGCAAC
1 TCAAATTCGCAAC
1571243 ATGTTTTAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
18 6 0.14
19 27 0.61
20 10 0.23
21 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:1574833 original size:20 final size:20
Alignment explanation
Indices: 1574808--1574925 Score: 137
Period size: 20 Copynumber: 5.9 Consensus size: 20
1574798 AATAAGCGTT
1574808 GCAAATTTGACTATCGCATA
1 GCAAATTTGACTATCGCATA
*
1574828 GCAAATTTGACTATCGCGTA
1 GCAAATTTGACTATCGCATA
* *
1574848 GCGAATTTGACTATCGCGTA
1 GCAAATTTGACTATCGCATA
* * * *
1574868 GCGAATTTGACTTTTGCATT
1 GCAAATTTGACTATCGCATA
* * *
1574888 GCAAATTTGACTTTCGCGTT
1 GCAAATTTGACTATCGCATA
*
1574908 GCGAATTTGACTATCGCA
1 GCAAATTTGACTATCGCA
1574926 ACGCTTATTT
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 86 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (20 bp):
GCAAATTTGACTATCGCATA
Found at i:1574875 original size:40 final size:40
Alignment explanation
Indices: 1574808--1574925 Score: 155
Period size: 40 Copynumber: 3.0 Consensus size: 40
1574798 AATAAGCGTT
* * *
1574808 GCAAATTTGACTATCGCATAGCAAATTTGACTATCGCGTA
1 GCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCATA
* * * *
1574848 GCGAATTTGACTATCGCGTAGCGAATTTGACTTTTGCATT
1 GCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCATA
* *
1574888 GCAAATTTGACTTTCGCGTTGCGAATTTGACTATCGCA
1 GCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCA
1574926 ACGCTTATTT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.34
Consensus pattern (40 bp):
GCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCATA
Found at i:1574905 original size:60 final size:60
Alignment explanation
Indices: 1574811--1574924 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
1574801 AAGCGTTGCA
1574811 AATTTGACTATCGCATAGCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCGTAGCG
1 AATTTGACTATCGCATAGCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCGTAGCG
* * * * *
1574871 AATTTGACTTTTGCATTGCAAATTTGACTTTCGCGTTGCGAATTTGACTATCGC
1 AATTTGACTATCGCATAGCAAATTTGACTATCGCGTAGCGAATTTGACTATCGC
1574925 AACGCTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (60 bp):
AATTTGACTATCGCATAGCAAATTTGACTATCGCGTAGCGAATTTGACTATCGCGTAGCG
Found at i:1574958 original size:20 final size:20
Alignment explanation
Indices: 1574933--1574974 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1574923 GCAACGCTTA
1574933 TTTCGCGTTGCGAATTTACC
1 TTTCGCGTTGCGAATTTACC
1574953 TTTCGCGTTGCGAATTTACC
1 TTTCGCGTTGCGAATTTACC
1574973 TT
1 TT
1574975 CAACAGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTACC
Done.