Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_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: 5583615
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 26
Found at i:1352734 original size:35 final size:35
Alignment explanation
Indices: 1352690--1352757 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
1352680 CCTTAGGTTC
*
1352690 ATAATGAATTACCAGCTTGATC-AGTCTGAACCTAT
1 ATAAGGAATTACCAGCTTGATCAAG-CTGAACCTAT
* *
1352725 ATAAGGAATTACTAGTTTGATCAAGCTGAACCT
1 ATAAGGAATTACCAGCTTGATCAAGCTGAACCT
1352758 GTAGAGACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (35 bp):
ATAAGGAATTACCAGCTTGATCAAGCTGAACCTAT
Found at i:1353575 original size:19 final size:19
Alignment explanation
Indices: 1353516--1353575 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
1353506 GGTCAACTCC
* *
1353516 GGTCAAAGTCAACGGGTTG
1 GGTCAAAGTTAAAGGGTTG
*
1353535 GGTCAAAATTAATA-GGTTG
1 GGTCAAAGTTAA-AGGGTTG
*
1353554 GGTCAAAGTTAAAGGGTCG
1 GGTCAAAGTTAAAGGGTTG
1353573 GGT
1 GGT
1353576 TAGATTGACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.97
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (19 bp):
GGTCAAAGTTAAAGGGTTG
Found at i:1355101 original size:31 final size:31
Alignment explanation
Indices: 1355063--1355129 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
1355053 ATAATTATGC
1355063 ATCATTCTTAGCCGGTGACAGCTTCGAATAG
1 ATCATTCTTAGCCGGTGACAGCTTCGAATAG
1355094 ATCATTCTTAGCCGGTGACAGCTTCGAATAG
1 ATCATTCTTAGCCGGTGACAGCTTCGAATAG
1355125 ATCAT
1 ATCAT
1355130 ATATTAATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (31 bp):
ATCATTCTTAGCCGGTGACAGCTTCGAATAG
Found at i:1356912 original size:23 final size:23
Alignment explanation
Indices: 1356869--1356912 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
1356859 ATAACCAATA
* *
1356869 AGATTCCATATGATAACATAACT
1 AGATGCCATATGATAAAATAACT
1356892 AGATGCCATTATG-TAAAATAA
1 AGATGCCA-TATGATAAAATAA
1356913 TCAATCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (23 bp):
AGATGCCATATGATAAAATAACT
Found at i:1357665 original size:51 final size:51
Alignment explanation
Indices: 1357578--1357674 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 51
1357568 AAAACAAATT
* ** ** *
1357578 TCTGCGCAAAATAGGCAATAAGCACCGTTGTGCTATTGAGAAATAAGCGCA
1 TCTGCGCAAAACAACCAATAAGCACCACTATGCTATTGAGAAATAAGCGCA
* *
1357629 TCTGCGCAAAACAACCAATAAGCACCACTATTCTATTGGGAAATAA
1 TCTGCGCAAAACAACCAATAAGCACCACTATGCTATTGAGAAATAA
1357675 ACGTCTCTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 38 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (51 bp):
TCTGCGCAAAACAACCAATAAGCACCACTATGCTATTGAGAAATAAGCGCA
Found at i:1369269 original size:20 final size:20
Alignment explanation
Indices: 1369226--1369271 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1369216 GAGTGTGGCG
* *
1369226 GCGGACGGCGGCAGCAGACG
1 GCGGGCGGCGGCAGCAGACA
* *
1369246 GCGGGCGGCGGCAGCGGCCA
1 GCGGGCGGCGGCAGCAGACA
1369266 GCGGGC
1 GCGGGC
1369272 AACAGACGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.33, G:0.54, T:0.00
Consensus pattern (20 bp):
GCGGGCGGCGGCAGCAGACA
Found at i:1376198 original size:18 final size:18
Alignment explanation
Indices: 1376175--1376213 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1376165 AATTTACACT
1376175 TAATTTAAACATACTAAA
1 TAATTTAAACATACTAAA
* * *
1376193 TAATTTACATATATTAAA
1 TAATTTAAACATACTAAA
1376211 TAA
1 TAA
1376214 AAAAGTTTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATTTAAACATACTAAA
Found at i:1376791 original size:21 final size:21
Alignment explanation
Indices: 1376765--1376823 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
1376755 CCGCGTAGAA
* *
1376765 ATGTCCTGAAGGACCACATAT
1 ATGTCCCGAAGGACCACATAG
1376786 ATGTCCCGAAGGACCACATAG
1 ATGTCCCGAAGGACCACATAG
1376807 ATGTCCCGAAGGACCAC
1 ATGTCCCGAAGGACCAC
1376824 TCCTTAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.22, T:0.17
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAG
Found at i:1381157 original size:21 final size:21
Alignment explanation
Indices: 1381124--1381215 Score: 85
Period size: 21 Copynumber: 4.4 Consensus size: 21
1381114 ACCACTCCTT
* *
1381124 AAGGATCACATATATATTCCA
1 AAGGACCACATATATATCCCA
* * *
1381145 AAGGACCAAATATGTATCCCG
1 AAGGACCACATATATATCCCA
* * *
1381166 AAGAACCACATATATGTTCCA
1 AAGGACCACATATATATCCCA
** *
1381187 AAGGATTACATATATATCCCG
1 AAGGACCACATATATATCCCA
1381208 AAGGACCA
1 AAGGACCA
1381216 TGTAGAACCC
Statistics
Matches: 52, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (21 bp):
AAGGACCACATATATATCCCA
Found at i:1381189 original size:42 final size:42
Alignment explanation
Indices: 1381130--1381215 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
1381120 CCTTAAGGAT
*
1381130 CACATATATATTCCAAAGGACCAAATATGTATCCCGAAGAAC
1 CACATATATATTCCAAAGGACCAAATATATATCCCGAAGAAC
* ** * *
1381172 CACATATATGTTCCAAAGGATTACATATATATCCCGAAGGAC
1 CACATATATATTCCAAAGGACCAAATATATATCCCGAAGAAC
1381214 CA
1 CA
1381216 TGTAGAACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (42 bp):
CACATATATATTCCAAAGGACCAAATATATATCCCGAAGAAC
Found at i:1384277 original size:24 final size:27
Alignment explanation
Indices: 1384250--1384303 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
1384240 AATTATATCG
1384250 ATTTTT-T-ATTTAAGTGTATAA-ATT
1 ATTTTTGTAATTTAAGTGTATAACATT
1384274 ATTTTTGGCTAATTTAAGTGTATAACATT
1 ATTTTT-G-TAATTTAAGTGTATAACATT
1384303 A
1 A
1384304 CAGATGTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 6 0.24
27 1 0.04
28 14 0.56
29 4 0.16
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (27 bp):
ATTTTTGTAATTTAAGTGTATAACATT
Found at i:1384736 original size:33 final size:31
Alignment explanation
Indices: 1384699--1384761 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
1384689 GGAGGGGTTG
*
1384699 GGGGGGAGGAGGGGGAACGAGAGGGAGGGGACT
1 GGGGGGAGGA-GAGG-ACGAGAGGGAGGGGACT
*
1384732 GGGGGGAGGAGATGACGAGAGGGAGGGGAC
1 GGGGGGAGGAGAGGACGAGAGGGAGGGGAC
1384762 AAGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 16 0.57
32 2 0.07
33 10 0.36
ACGTcount: A:0.25, C:0.06, G:0.65, T:0.03
Consensus pattern (31 bp):
GGGGGGAGGAGAGGACGAGAGGGAGGGGACT
Found at i:1388239 original size:18 final size:18
Alignment explanation
Indices: 1388212--1388247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1388202 ACAGCAGCCA
*
1388212 CCGCAACCATTTATGATG
1 CCGCAACCATATATGATG
*
1388230 CCGCAGCCATATATGATG
1 CCGCAACCATATATGATG
1388248 TCACCGCCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (18 bp):
CCGCAACCATATATGATG
Found at i:1388786 original size:26 final size:24
Alignment explanation
Indices: 1388715--1388786 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 24
1388705 TTATATTTGT
1388715 ATTTACTTTATTTTGTTAAATTGTA
1 ATTTACTTTATTTTGTTAAATT-TA
*
1388740 ATTT--TTTATTATT-TCT-CATTTA
1 ATTTACTTTATT-TTGT-TAAATTTA
1388762 ATACTTACTTTATTTTGTTAAATTT
1 AT--TTACTTTATTTTGTTAAATTT
1388787 GTTGGACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 15
0.69 0.04 0.28
Matches are distributed among these distances:
22 4 0.11
23 10 0.27
24 5 0.14
25 7 0.19
26 11 0.30
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTACTTTATTTTGTTAAATTTA
Found at i:1392590 original size:51 final size:50
Alignment explanation
Indices: 1392465--1392591 Score: 127
Period size: 51 Copynumber: 2.5 Consensus size: 50
1392455 GTACGTGGCG
* **
1392465 TATAACGCGG-ATCAGGGGGCGCGCTATACCCACGTGTAAGCCATGTCAACA
1 TATAACGCGGTA-CAGGGAGCGCGCTATACCCACGTGT-AGCCAAATCAACA
1392516 TATAACGCGGTACA-GGAGACGCGCTATACCCCACGTGGT-GCCAAATCAACA
1 TATAACGCGGTACAGGGAG-CGCGCTATA-CCCACGT-GTAGCCAAATCAACA
* *
1392567 TATAGCGC-GTGGCAGGGAGCGCGCT
1 TATAACGCGGT-ACAGGGAGCGCGCT
1392592 TTACTGCTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
50 5 0.08
51 46 0.71
52 12 0.18
53 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.29, T:0.17
Consensus pattern (50 bp):
TATAACGCGGTACAGGGAGCGCGCTATACCCACGTGTAGCCAAATCAACA
Found at i:1394010 original size:181 final size:181
Alignment explanation
Indices: 1393608--1394080 Score: 673
Period size: 182 Copynumber: 2.6 Consensus size: 181
1393598 GATCCAAATT
* * * * * **
1393608 AAAAATGTATCGATCCACAACGATATAACATGTAAAACTATGACAAAA-TCAGTATTGAAATGAT
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACT-GGTATCAAAATGAT
* * *
1393672 AAAACTGGTAAAACGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACTGGTAAAACGATACCG-ATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
1393737 CGTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
129 CGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
1393790 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT-
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
* * * * * * *
1393854 GAACCGGTAAAACGCTACCAGATATATTGAAAGTGTCGAAACTTT-ATATTAGGATCGACACTTT
66 AAACTGGTAAAACGATACC-GATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
1393918 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
*
1393970 AAAAATGTATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGAT
* *
1394035 AAAACTGGTAAAATGATATCGGATATATTAAAAGTGTCGATACTTT
65 AAAACTGGTAAAACGATA-CCGATATATTAAAAGTGTCGATACTTT
1394081 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
180 81 0.31
181 85 0.33
182 91 0.35
183 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTGGTATCAAAATGATA
AAACTGGTAAAACGATACCGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:1394024 original size:20 final size:19
Alignment explanation
Indices: 1394001--1394047 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1393991 CGATATAACA
1394001 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
1394021 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
1394041 GGTAAAA
1 GGTAAAA
1394048 TGATATCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1395615 original size:181 final size:182
Alignment explanation
Indices: 1395296--1396677 Score: 2395
Period size: 181 Copynumber: 7.6 Consensus size: 182
1395286 TTTTACCTTT
* *
1395296 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1395361 AACAATATAACATGTAAAAATATGACAAAACCGGTCTTGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1395426 CAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1395478 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1395542 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1395607 TGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1395659 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAGAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1395723 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1395788 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1395838 -TTAATAAGAGAAGAAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATCTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
1395902 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
1395967 CCGGTTATGTTGAAAGTGTCAATAATTTATTATACGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1396020 TTTAAAAGAGAAG-AGTTATAGCGTCAATAAAGTGTCGATACTTTATAGAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1396084 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1396149 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
1396199 -TTAATAAGAGAAGAAGTTATAGCACCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
1396263 TAACAATATAACATGTAAAAATATGATAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
1396328 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
1396381 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1396446 AACAATATAACACGTAAAAATATGACAAAACCGATCTCGGAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
1396511 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTAGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
1396563 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * **
1396628 AATAATATAACATGTAAAAATATGATAAAACCGGTCTATAAATGACAAAA
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
1396678 GGTGAACGCA
Statistics
Matches: 1139, Mismatches: 51, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
178 8 0.01
179 34 0.03
180 300 0.26
181 475 0.42
182 314 0.28
183 8 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:1396005 original size:361 final size:363
Alignment explanation
Indices: 1395296--1396677 Score: 2418
Period size: 361 Copynumber: 3.8 Consensus size: 363
1395286 TTTTACCTTT
* *
1395296 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1395361 AACAATATAACATGTAAAAATATGACAAAACCGGTCTTGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* * *
1395426 CAGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTAGAATTTAAAAGAGAAG
1395491 -AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
* *
1395555 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAAGTAAAGCGCTACTGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
1395620 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
325 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
1395659 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAGAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1395723 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAAAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1395788 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTAGAA-TTAATAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTAGAATTTAA-AAGAGAAG
* *
1395851 AAGTTATAGCGCCAATAACGTGTCGATACTTTATAAAAATCTATCGATCCATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
1395916 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
1395981 AGTGTCAATAATTTATTATACGTATCGACACTTTTGGAA
325 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
* *
1396020 TTTAAAAGAGAAG-AGTTATAGCGTCAATAAAGTGTCGATACTTTATAGAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1396084 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAACGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
1396149 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTAGAA-TTAATAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTAGAATTTAA-AAGAGAAG
* *
1396212 AAGTTATAGCACCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
*
1396277 GTAAAAATATGATAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
*
1396342 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
325 AGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
*
1396381 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1396446 AACAATATAACACGTAAAAATATGACAAAACCGATCTCGGAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
1396511 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTAGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTAGAATTTAAAAGAGAAG
*
1396576 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAATAATATAACAT
195 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
* **
1396641 GTAAAAATATGATAAAACCGGTCTATAAATGACAAAA
260 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA
1396678 GGTGAACGCA
Statistics
Matches: 979, Mismatches: 34, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
359 4 0.00
360 17 0.02
361 529 0.54
362 297 0.30
363 13 0.01
364 115 0.12
365 4 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (363 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTAGAATTTAAAAGAGAAGA
AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
TAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAAA
GTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
Found at i:1396842 original size:23 final size:23
Alignment explanation
Indices: 1396813--1396860 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1396803 AAATAGGTCA
*
1396813 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
* *
1396836 ATATAAGTGCTACCTAATATGTT
1 ATATAAGCGCTACCTAATATATT
1396859 AT
1 AT
1396861 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:1396911 original size:87 final size:87
Alignment explanation
Indices: 1396813--1396975 Score: 281
Period size: 87 Copynumber: 1.9 Consensus size: 87
1396803 AAATAGGTCA
* * *
1396813 ATATAAGCGCTACCTATTATATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
1396878 CCGGTTAAATACCTATTTTATT
66 CCGGTTAAATACCTATTTTATT
* *
1396900 ATATAAGCGCTATCTATTACATTATATAAGAGTTACCTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
1396965 CCGGTTAAATA
66 CCGGTTAAATA
1396976 ATATAACATA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 71 1.00
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGAGCTACCTAATATGTTATTATACTTGATAATATTT
CCGGTTAAATACCTATTTTATT
Found at i:1399819 original size:134 final size:134
Alignment explanation
Indices: 1399612--1399929 Score: 361
Period size: 134 Copynumber: 2.4 Consensus size: 134
1399602 GGGGAAATTT
* * * * * * * * * ** * * *
1399612 TGATCTACTTCACTGCTTTTCAGGAAGACCAACTCTGAAAGACGAAGAGTCTACTCCCCTATTCC
1 TGATTTACTTCGCTACTCTTCAGGAAGACCAAATCTAAAAGAAGAAGAATATGTTCCACTACTCT
* * *
1399677 TTATGGGAGATCAGACTCGAGAAAATTTTGA-TCCAATTCGCTGTTCTTTAGGGAAGATTGAATC
66 TTAGGGGAGATCAGAATCGAGAAAATTTT-ATTCCAATTCGCTGCTCTTTAGGGAAGATTGAATC
*
1399741 GAACT
130 GAACG
* * *
1399746 TGATTTGCTTCGCTATTCTTCAGGAAGACCAAATCTGAAAA-AATAAGAATATGTTCCACTACTC
1 TGATTTACTTCGCTACTCTTCAGGAAGACCAAATCT-AAAAGAAGAAGAATATGTTCCACTACTC
* * * *
1399810 TTTAGGGGAGATCATAATCGAGAAAATTTTATTCCACTTTGTTGCTCTTTAGGGAAGATTGAATC
65 TTTAGGGGAGATCAGAATCGAGAAAATTTTATTCCAATTCGCTGCTCTTTAGGGAAGATTGAATC
1399875 GAACG
130 GAACG
* *
1399880 TGATTTACTTCGCTGCTCTTCAGGAATACCAAATCTAAAAGAAGAAGAAT
1 TGATTTACTTCGCTACTCTTCAGGAAGACCAAATCTAAAAGAAGAAGAAT
1399930 CTGCTCCCCT
Statistics
Matches: 151, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
133 5 0.03
134 143 0.95
135 3 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (134 bp):
TGATTTACTTCGCTACTCTTCAGGAAGACCAAATCTAAAAGAAGAAGAATATGTTCCACTACTCT
TTAGGGGAGATCAGAATCGAGAAAATTTTATTCCAATTCGCTGCTCTTTAGGGAAGATTGAATCG
AACG
Found at i:1401332 original size:7 final size:7
Alignment explanation
Indices: 1401320--1401528 Score: 418
Period size: 7 Copynumber: 29.9 Consensus size: 7
1401310 CCTTTTATTT
1401320 ATTTTCA
1 ATTTTCA
1401327 ATTTTCA
1 ATTTTCA
1401334 ATTTTCA
1 ATTTTCA
1401341 ATTTTCA
1 ATTTTCA
1401348 ATTTTCA
1 ATTTTCA
1401355 ATTTTCA
1 ATTTTCA
1401362 ATTTTCA
1 ATTTTCA
1401369 ATTTTCA
1 ATTTTCA
1401376 ATTTTCA
1 ATTTTCA
1401383 ATTTTCA
1 ATTTTCA
1401390 ATTTTCA
1 ATTTTCA
1401397 ATTTTCA
1 ATTTTCA
1401404 ATTTTCA
1 ATTTTCA
1401411 ATTTTCA
1 ATTTTCA
1401418 ATTTTCA
1 ATTTTCA
1401425 ATTTTCA
1 ATTTTCA
1401432 ATTTTCA
1 ATTTTCA
1401439 ATTTTCA
1 ATTTTCA
1401446 ATTTTCA
1 ATTTTCA
1401453 ATTTTCA
1 ATTTTCA
1401460 ATTTTCA
1 ATTTTCA
1401467 ATTTTCA
1 ATTTTCA
1401474 ATTTTCA
1 ATTTTCA
1401481 ATTTTCA
1 ATTTTCA
1401488 ATTTTCA
1 ATTTTCA
1401495 ATTTTCA
1 ATTTTCA
1401502 ATTTTCA
1 ATTTTCA
1401509 ATTTTCA
1 ATTTTCA
1401516 ATTTTCA
1 ATTTTCA
1401523 ATTTTC
1 ATTTTC
1401529 TTTTCCTTTT
Statistics
Matches: 202, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 202 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTCA
Found at i:1401539 original size:7 final size:7
Alignment explanation
Indices: 1401524--1401568 Score: 65
Period size: 7 Copynumber: 6.3 Consensus size: 7
1401514 CAATTTTCAA
1401524 TTTTCTT
1 TTTTCTT
1401531 TTCCTT-TT
1 TT--TTCTT
1401539 TTTTCTT
1 TTTTCTT
1401546 TTTTCTT
1 TTTTCTT
1401553 TTTTCTT
1 TTTTCTT
1401560 TTTTCTT
1 TTTTCTT
1401567 TT
1 TT
1401569 CTTTTTCATC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 2 0.06
7 27 0.77
8 4 0.11
9 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:1401541 original size:14 final size:12
Alignment explanation
Indices: 1401535--1401574 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1401525 TTTCTTTTCC
1401535 TTTTTTTTCTTTT
1 TTTTTTTTC-TTT
1401548 TTCTTTTTTCTTT
1 TT-TTTTTTCTTT
*
1401561 TTTCTTTTCTTT
1 TTTTTTTTCTTT
1401573 TT
1 TT
1401575 CATCAGGCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 7 0.28
14 7 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:1406975 original size:59 final size:59
Alignment explanation
Indices: 1406907--1407135 Score: 314
Period size: 59 Copynumber: 3.9 Consensus size: 59
1406897 ATGGCATTAA
* *
1406907 GTGTGCTAAAATGATAAGAAATTCATACTAAGGGTATGAATTTCAGTATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * * * *
1406966 GTGTTCTAAAAGGTTGAGAAATTCATACTAAGTGTATGAATTTCCTTATAGGGCACTTG
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* *
1407025 GTGTGCTAAAATGATGAGAAATTTATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
* * * * **
1407084 GTGTGCTAATATGATAAGAAAATCATATTAAGTGTAAGAATTTTTGTATAGG
1 GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGG
1407136 AAATATATAT
Statistics
Matches: 148, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 148 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGGCACTTC
Found at i:1407435 original size:68 final size:68
Alignment explanation
Indices: 1407348--1407675 Score: 512
Period size: 68 Copynumber: 4.8 Consensus size: 68
1407338 AGTTAAAAGA
* * *
1407348 TTTGAAGCCTAATTGTGCATATGACAGAAAGGTGTTATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1407413 GCC
66 GCC
*
1407416 TTTGAGGCCTAACTGTGCATATGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
1407481 GCC
66 GCC
* * *
1407484 TTTGAGGCCTAACTGTGAATATGATAGAAAGGTGCCATTTATGCCAGTTAGATGAAAGGCTAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1407549 GTC
66 GCC
* * * *
1407552 TTTGAGGCCTAACTATGCATATGATAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGATAAGT
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
*
1407617 GAC
66 GCC
* * *
1407620 TTTGAGGGCTAACTGTGCATATGACAGAAAGATGTCATTTATTCCAGTTAGATGAA
1 TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
1407676 CAGTTAAGTA
Statistics
Matches: 239, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 239 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (68 bp):
TTTGAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
GCC
Found at i:1407764 original size:81 final size:81
Alignment explanation
Indices: 1407628--1408023 Score: 555
Period size: 81 Copynumber: 4.9 Consensus size: 81
1407618 ACTTTGAGGG
* * * * *
1407628 CTAACTGTGC-ATATGACAGAAAGATGTCATTTATTCCAGTTAGATGAACAGTTAAGTACTGTTG
1 CTAACTGTGCAAT-TGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
*
1407692 AGTAAAAGAATAGTAGC
65 AGTAAAAGAATAATAGC
* * * *
1407709 CTAACTGTGCAATAGGCAGAAAGGTGTCATTTATACTAGTTAGATGAACGATTAAGTACCGTTGA
1 CTAACTGTGCAATTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
*
1407774 GTAAAACAATAATAGC
66 GTAAAAGAATAATAGC
* *
1407790 CTAACTGTGCAATTGACATAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
1 CTAACTGTGCAATTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
* *
1407855 GTAAAACAATAATAGT
66 GTAAAAGAATAATAGC
*
1407871 CTAACTGTGCAATTGG-AAAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
1 CTAACTGTGCAATTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
*
1407935 GTAAAAGAATAATGGC
66 GTAAAAGAATAATAGC
* * ** *
1407951 CTAACTATGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTT-AGATACCGTTG
1 CTAACTGTGCAATTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAG-TACCGTTG
1408015 AGTAAAAGA
65 AGTAAAAGA
1408024 TGAAAAGTTA
Statistics
Matches: 285, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
80 77 0.27
81 206 0.72
82 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
CTAACTGTGCAATTGGCAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
GTAAAAGAATAATAGC
Found at i:1407964 original size:161 final size:162
Alignment explanation
Indices: 1407628--1408021 Score: 560
Period size: 161 Copynumber: 2.4 Consensus size: 162
1407618 ACTTTGAGGG
* * * *
1407628 CTAACTGTGC-ATATGACAGAAAGATGTCATTTATTCCAGTTAGATGAACAGTTAAGTACTGTTG
1 CTAACTGTGCAAT-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
* * * *
1407692 AGTAAAAGAATAGTAGCCTAACTGTGCAATAGGCAGAAAGGTGTCATTTATACTAGTTAGATGAA
65 AGTAAAACAATAATAGCCTAACTGTGCAATAGGCAAAAAGGTGTCATTTATACCAGTTAGATGAA
1407757 CGATTAAGTACCGTTGAGTAAAACAATAATAGC
130 CGATTAAGTACCGTTGAGTAAAACAATAATAGC
*
1407790 CTAACTGTGCAATTGACATAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
1 CTAACTGTGCAATTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
* * *
1407855 GTAAAACAATAATAGTCTAACTGTGCAATTGG-AAAAAGGTGTCATTTATGCCAGTTAGATGAAC
66 GTAAAACAATAATAGCCTAACTGTGCAATAGGCAAAAAGGTGTCATTTATACCAGTTAGATGAAC
* * *
1407919 GGTTAAGTACCGTTGAGTAAAAGAATAATGGC
131 GATTAAGTACCGTTGAGTAAAACAATAATAGC
* ** ** *
1407951 CTAACTATGCAATTGGTAGAAAGGTACCAATTATGCCAGTTAGATGAACGGTT-AGATACCGTTG
1 CTAACTGTGCAATTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAG-TACCGTTG
1408015 AGTAAAA
65 AGTAAAA
1408022 GATGAAAAGT
Statistics
Matches: 208, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
160 2 0.01
161 119 0.57
162 85 0.41
163 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (162 bp):
CTAACTGTGCAATTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAACGGTTAAGTACCGTTGA
GTAAAACAATAATAGCCTAACTGTGCAATAGGCAAAAAGGTGTCATTTATACCAGTTAGATGAAC
GATTAAGTACCGTTGAGTAAAACAATAATAGC
Found at i:1418731 original size:21 final size:20
Alignment explanation
Indices: 1418704--1418801 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
1418694 AATCAGTGTC
1418704 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
1418725 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
1418745 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1418765 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1418786 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1418802 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1418754 original size:41 final size:41
Alignment explanation
Indices: 1418645--1418801 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
1418635 AAATGACCAA
* **
1418645 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
1418684 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
1418725 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
1418766 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
1418802 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:1418811 original size:20 final size:20
Alignment explanation
Indices: 1418788--1418958 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
1418778 GCGAATATGA
1418788 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
1418808 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1418828 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
1418848 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
1418868 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
1418888 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
1418908 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
1418928 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
1418948 AAATCGCAACG
1 AAATCGCAACG
1418959 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:1418853 original size:60 final size:58
Alignment explanation
Indices: 1418768--1418977 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
1418758 CGATTTTCCA
* ** * *
1418768 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
1418828 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
1418888 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
1418948 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
1418978 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:1418959 original size:20 final size:20
Alignment explanation
Indices: 1418822--1418977 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
1418812 CGCAATGCGT
*
1418822 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
1418842 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
1418862 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
1418882 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1418902 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
1418922 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
1418942 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
1418962 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
1418978 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:1418959 original size:40 final size:40
Alignment explanation
Indices: 1418788--1418977 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
1418778 GCGAATATGA
* *
1418788 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
1418828 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
1418868 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
1418908 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
1418948 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
1418978 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:1419695 original size:24 final size:24
Alignment explanation
Indices: 1419656--1419702 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1419646 AAATTTGGTC
1419656 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1419680 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1419703 GATGTTCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1421944 original size:111 final size:109
Alignment explanation
Indices: 1421752--1421972 Score: 424
Period size: 111 Copynumber: 2.0 Consensus size: 109
1421742 ACCTGGCCGA
1421752 CCAAAAAGTCACGATCGTATACCGTCTAAGGGTGAAGAGAAGAAGAGATCGACATGTAGTCGGTG
1 CCAAAAAGTCACGATCGTATACCGTCTAAGGGTGAAGAGAAGAAGAGATCGACATGTAGTCGGTG
1421817 CAAGGAAAGTGGTCATACAAGGTTGACATGTGGATCACCAGTGC
66 CAAGGAAAGTGGTCATACAAGGTTGACATGTGGATCACCAGTGC
1421861 CCAAAAAGTCACGATCGTATACCGTCTAAGGGTGAGAGAAGAAGAAGAGATCGACATGTAGTCGG
1 CCAAAAAGTCACGATCGTATACCGTCTAAGGGTGA-AG-AGAAGAAGAGATCGACATGTAGTCGG
1421926 TGCAAGGAAAGTGGTCATACAAGGTTGACATGTGGATCACCAGTGC
64 TGCAAGGAAAGTGGTCATACAAGGTTGACATGTGGATCACCAGTGC
1421972 C
1 C
1421973 ATCAAAATCA
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
109 35 0.32
110 2 0.02
111 73 0.66
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (109 bp):
CCAAAAAGTCACGATCGTATACCGTCTAAGGGTGAAGAGAAGAAGAGATCGACATGTAGTCGGTG
CAAGGAAAGTGGTCATACAAGGTTGACATGTGGATCACCAGTGC
Found at i:1422293 original size:19 final size:19
Alignment explanation
Indices: 1422271--1422634 Score: 481
Period size: 19 Copynumber: 20.4 Consensus size: 19
1422261 CGGAAATTAC
*
1422271 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422290 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1422304 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1422324 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1422338 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422357 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422376 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1422390 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422409 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422428 AATCGCAAT--GACA-G--
1 AATCGCAATGCGAAATGAA
1422442 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422461 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422480 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422499 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422518 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422537 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
1422556 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1422575 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
1422589 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422608 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1422627 AATCGCAA
1 AATCGCAA
1422635 CGAGAGAATC
Statistics
Matches: 307, Mismatches: 12, Indels: 52
0.83 0.03 0.14
Matches are distributed among these distances:
14 49 0.16
15 2 0.01
16 14 0.05
17 13 0.04
18 3 0.01
19 213 0.69
20 13 0.04
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1422386 original size:52 final size:55
Alignment explanation
Indices: 1422299--1422634 Score: 450
Period size: 52 Copynumber: 6.2 Consensus size: 55
1422289 AAATCCCAAC
*
1422299 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
1422352 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
*
1422404 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-TGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
1422456 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
1422513 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGTGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
*
1422570 ATGAAAATCGCAA--CGACA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
1422622 ATGAAAATCGCAA
1 ATGAAAATCGCAA
1422635 CGAGAGAATC
Statistics
Matches: 270, Mismatches: 5, Indels: 17
0.92 0.02 0.06
Matches are distributed among these distances:
52 160 0.59
53 16 0.06
54 5 0.02
55 6 0.02
57 83 0.31
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:1422487 original size:38 final size:38
Alignment explanation
Indices: 1422442--1422656 Score: 333
Period size: 38 Copynumber: 5.9 Consensus size: 38
1422432 GCAATGACAG
1422442 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1422480 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1422518 AATCGCAATGCGAAATGAAAATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1422556 AATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1422589 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1422627 AATCGCAA--CG--A-GAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAAT
1422657 TATAAACGCA
Statistics
Matches: 167, Mismatches: 5, Indels: 15
0.89 0.03 0.08
Matches are distributed among these distances:
33 45 0.27
34 1 0.01
35 5 0.03
36 6 0.04
38 110 0.66
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (38 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1422635 original size:52 final size:55
Alignment explanation
Indices: 1422271--1422656 Score: 419
Period size: 52 Copynumber: 7.3 Consensus size: 55
1422261 CGGAAATTAC
* *
1422271 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
1422324 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
1422376 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
*
1422428 AATCGCAAT--GACA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
1422480 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
1422537 AATCGCAATGTGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
1422589 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
1422641 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
1422657 TATAAACGCA
Statistics
Matches: 313, Mismatches: 7, Indels: 27
0.90 0.02 0.08
Matches are distributed among these distances:
48 9 0.03
49 1 0.00
50 1 0.00
51 2 0.01
52 182 0.58
53 24 0.08
54 6 0.02
55 5 0.02
57 83 0.27
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:1422704 original size:19 final size:20
Alignment explanation
Indices: 1422663--1422712 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1422653 AAATTATAAA
1422663 CGCATTGCGATTTTCATTTT
1 CGCATTGCGATTTTCATTTT
1422683 CGCATTGCGATTTTCA-TTT
1 CGCATTGCGATTTTCATTTT
1422702 CGCATTGCGAT
1 CGCATTGCGAT
1422713 AGTCATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (20 bp):
CGCATTGCGATTTTCATTTT
Found at i:1422836 original size:14 final size:14
Alignment explanation
Indices: 1422817--1422852 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
1422807 CATCAATTAC
1422817 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1422831 ACAAATC-TCTTTT
1 ACAAATCAACTTTT
1422844 ACAAATCAA
1 ACAAATCAA
1422853 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1424828 original size:14 final size:14
Alignment explanation
Indices: 1424809--1424865 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1424799 GCGAAATGAA
*
1424809 AATCGCAACGACAG
1 AATCGCAACGAAAG
1424823 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1424840 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1424856 AATCGCAACG
1 AATCGCAACG
1424866 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1424836 original size:33 final size:33
Alignment explanation
Indices: 1424790--1424882 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1424780 GCGAAACCAA
*
1424790 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1424823 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1424856 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1424883 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1424847 original size:19 final size:19
Alignment explanation
Indices: 1424753--1424887 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1424743 TAGTTTACTT
* *
1424753 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1424773 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1424792 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1424811 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1424825 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1424844 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1424858 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1424877 TCGCAATGCGA
1 TCGCAACGCGA
1424888 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1424905 original size:19 final size:19
Alignment explanation
Indices: 1424883--1425011 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
1424873 AAAATCGCAA
1424883 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1424902 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1424916 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1424935 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
1424949 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1424968 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1424987 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1425007 TGCGA
1 TGCGA
1425012 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1424925 original size:33 final size:33
Alignment explanation
Indices: 1424883--1424974 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
1424873 AAAATCGCAA
1424883 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1424916 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1424949 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1424975 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1425395 original size:92 final size:93
Alignment explanation
Indices: 1425059--1425520 Score: 862
Period size: 93 Copynumber: 5.0 Consensus size: 93
1425049 ATGGATTGCA
*
1425059 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAAAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1425123 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1425151 TTACTTTCAACCAAAAG---AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1425213 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1425241 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1425306 TAGCAGAATTGGCAGCAACCGAAC-AAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1425333 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1425398 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1425426 TTACTTTCAACCAAAAGACAAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGAC-AAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGT
*
1425491 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
1425520 T
1 T
1425521 ACTAAGCAAT
Statistics
Matches: 362, Mismatches: 2, Indels: 10
0.97 0.01 0.03
Matches are distributed among these distances:
90 89 0.25
92 96 0.27
93 103 0.28
94 74 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1427256 original size:19 final size:18
Alignment explanation
Indices: 1427232--1427272 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 18
1427222 GCAACGAGAG
1427232 AATCGCAACGCGAAATGA
1 AATCGCAACGCGAAATGA
1427250 CAATCGCAACGCGAAATGA
1 -AATCGCAACGCGAAATGA
1427269 AATC
1 AATC
1427273 TAAGTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (18 bp):
AATCGCAACGCGAAATGA
Found at i:1427504 original size:22 final size:22
Alignment explanation
Indices: 1427452--1427506 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
1427442 TGGTTGTGAG
** *
1427452 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGAGAC
* **
1427474 GAAAATCTTCGGAGATGGAGAC
1 GGATTTCTTCGGAGATGGAGAC
1427496 GGATTTCTTCG
1 GGATTTCTTCG
1427507 CCGTAGAGAG
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.36, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGAGAC
Found at i:1427680 original size:20 final size:20
Alignment explanation
Indices: 1427655--1427848 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
1427645 CTTTAAATAT
1427655 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1427675 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
1427697 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
1427716 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
1427736 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
1427756 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1427776 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
1427796 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1427816 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1427836 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1427849 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1427842 original size:60 final size:60
Alignment explanation
Indices: 1427655--1427848 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
1427645 CTTTAAATAT
* ** *
1427655 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACAGATA
* *** * *
1427716 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
* * * * *
1427776 CACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
1427836 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1427849 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACAGATA
Found at i:1428669 original size:32 final size:32
Alignment explanation
Indices: 1428622--1428714 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 32
1428612 TGTTATTTTT
*
1428622 ATAATTTTA-TAAATAAAAATATTA-AGACTA
1 ATAATTTTATTAAATAAAAATATTATAAACTA
1428652 ATATATTTTATTAAATAAAAATATTATAAACTA
1 ATA-ATTTTATTAAATAAAAATATTATAAACTA
*
1428685 TTAATTATTTATTAAAATAAAAATATTATA
1 ATAA-T-TTTATT-AAATAAAAATATTATA
1428715 TTATTAATTA
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.05
31 6 0.11
32 16 0.29
33 8 0.15
34 6 0.11
35 16 0.29
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAATTTTATTAAATAAAAATATTATAAACTA
Found at i:1428725 original size:33 final size:31
Alignment explanation
Indices: 1428627--1428725 Score: 103
Period size: 35 Copynumber: 3.0 Consensus size: 31
1428617 TTTTTATAAT
* *
1428627 TTTA-TAAATAAAAATATTA-AGACTAATATA
1 TTTATTAAATAAAAATATTATATATTAAT-TA
1428657 TTTTATTAAATAAAAATATTATAAACTATTAATTA
1 -TTTATTAAATAAAAATATTAT--A-TATTAATTA
1428692 TTTATTAAAATAAAAATATTATATTATTAATTA
1 TTTATT-AAATAAAAATATTATA-TATTAATTA
1428725 T
1 T
1428726 ATTAATTACC
Statistics
Matches: 59, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
31 4 0.07
32 15 0.25
33 11 0.19
34 6 0.10
35 18 0.31
36 5 0.08
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (31 bp):
TTTATTAAATAAAAATATTATATATTAATTA
Found at i:1429073 original size:21 final size:21
Alignment explanation
Indices: 1429032--1429075 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1429022 ATATTTTAAA
* *
1429032 TATTTTATAATTTTATAATAT
1 TATTTTATAAATTAATAATAT
1429053 TATTTTATAAAATTAATATATAT
1 TATTTTAT-AAATTAATA-ATAT
1429076 ATATAATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTTATAAATTAATAATAT
Found at i:1429233 original size:14 final size:15
Alignment explanation
Indices: 1429214--1429245 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1429204 TATTAAAATA
1429214 TTAATAATT-ATATT
1 TTAATAATTGATATT
1429228 TTAATAATTGATATT
1 TTAATAATTGATATT
1429243 TTA
1 TTA
1429246 TTAAAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTAATAATTGATATT
Found at i:1429253 original size:20 final size:21
Alignment explanation
Indices: 1429203--1429253 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
1429193 TAATACTATA
1429203 TTATTAAAAT-ATTAATAATT
1 TTATTAAAATAATTAATAATT
* ** *
1429223 ATATTTTAATAATTGAT-ATT
1 TTATTAAAATAATTAATAATT
1429243 TTATTAAAATA
1 TTATTAAAATA
1429254 GTAATAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TTATTAAAATAATTAATAATT
Found at i:1429268 original size:27 final size:27
Alignment explanation
Indices: 1429238--1429302 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
1429228 TTAATAATTG
1429238 ATATTTTATTAAAATAGTAATAAAATAAT-
1 ATATTTTATT-AAATA-T-ATAAAATAATA
*
1429267 ATATTAATATTAAATATATAAAATAATA
1 ATATT-TTATTAAATATATAAAATAATA
1429295 ATATTTTA
1 ATATTTTA
1429303 AATATTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 12 0.38
28 6 0.19
29 10 0.31
30 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
ATATTTTATTAAATATATAAAATAATA
Found at i:1434686 original size:12 final size:12
Alignment explanation
Indices: 1434669--1434699 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1434659 ACTATACGAT
1434669 ATGAACAATACC
1 ATGAACAATACC
*
1434681 ATGAACATTACC
1 ATGAACAATACC
1434693 ATGAACA
1 ATGAACA
1434700 GTGCCGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:1434784 original size:21 final size:21
Alignment explanation
Indices: 1434758--1434797 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1434748 CAAATTGTGC
1434758 ATCGATGCACTGCTACAGTGA
1 ATCGATGCACTGCTACAGTGA
*
1434779 ATCGATGCATTGCTACAGT
1 ATCGATGCACTGCTACAGT
1434798 ACTGCTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (21 bp):
ATCGATGCACTGCTACAGTGA
Found at i:1435497 original size:31 final size:31
Alignment explanation
Indices: 1435462--1435539 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
1435452 ATAGATTCCA
*
1435462 AAGAACCTAGGTAAACAATCCATATGTCCCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
*
1435493 AAGAACATAAGTAAACAATCCATATGTCCCG
1 AAGAACATAGGTAAACAATCCATATGTCCCG
1435524 AAGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
1435540 CCTCGACCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (31 bp):
AAGAACATAGGTAAACAATCCATATGTCCCG
Found at i:1439894 original size:14 final size:15
Alignment explanation
Indices: 1439868--1439900 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1439858 CAGACCGTGA
*
1439868 TACTTCATTATTATT
1 TACTTCATTATTACT
1439883 TACTTC-TTATTACT
1 TACTTCATTATTACT
1439897 TACT
1 TACT
1439901 GCACCAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (15 bp):
TACTTCATTATTACT
Found at i:1441784 original size:22 final size:22
Alignment explanation
Indices: 1441759--1441804 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1441749 TAGTACATGC
* *
1441759 AGTAACGATGGGGGCTAGGGAT
1 AGTAACAATGGGGGCCAGGGAT
*
1441781 AGTAGCAATGGGGGCCAGGGAT
1 AGTAACAATGGGGGCCAGGGAT
1441803 AG
1 AG
1441805 AAGCCGATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.46, T:0.15
Consensus pattern (22 bp):
AGTAACAATGGGGGCCAGGGAT
Found at i:1443195 original size:19 final size:19
Alignment explanation
Indices: 1443171--1443210 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1443161 TCAACCGGTG
1443171 AATAATACCTAGCTTTGCC
1 AATAATACCTAGCTTTGCC
1443190 AATAATACCTAGCTTTGCC
1 AATAATACCTAGCTTTGCC
1443209 AA
1 AA
1443211 AACAGGAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (19 bp):
AATAATACCTAGCTTTGCC
Found at i:1446176 original size:20 final size:20
Alignment explanation
Indices: 1446151--1446388 Score: 143
Period size: 20 Copynumber: 10.7 Consensus size: 20
1446141 TAAATTATGA
1446151 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
** *
1446171 CATCCTTTCATGTATTTTGGTTTATG
1 CATCCTTTCATG------CCTTAATG
1446197 ACATCCTTTCATGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
* *
1446218 CATCATTTCATGCATTTTAATTATAG
1 CATCCTTTCATGC--CTT-A--AT-G
1446244 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
1446264 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
1446284 CATCCTTTCATGCATTTTAATTTTGG
1 CATCCTTTCATGC--CTTAA---T-G
*
1446310 CATCCTTTCATGCCTTAACG
1 CATCCTTTCATGCCTTAATG
* *
1446330 CATCATTTCATGCATATTAATTATGG
1 CATCCTTTCATGC--CTT-A--AT-G
* *
1446356 CATCATTCCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
1446376 CATCATTTCATGC
1 CATCCTTTCATGC
1446389 ATTTTAATTA
Statistics
Matches: 174, Mismatches: 19, Indels: 50
0.72 0.08 0.21
Matches are distributed among these distances:
20 84 0.48
21 9 0.05
22 8 0.05
23 4 0.02
24 8 0.05
25 4 0.02
26 45 0.26
27 12 0.07
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:1446201 original size:47 final size:46
Alignment explanation
Indices: 1446125--1446276 Score: 218
Period size: 46 Copynumber: 3.3 Consensus size: 46
1446115 CGTATTAACA
*
1446125 CATCCATTT-ATGCATTTAAATTATGACATCCTTTCATGCCTTAATG
1 CATCC-TTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAATG
* **
1446171 CATCCTTTCATGTATTTTGGTTTATGACATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTT-AATTATGACATCCTTTCATGCCTTAATG
*
1446218 CATCATTTCATGCATTTTAATTAT-AGCATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCATTTTAATTATGA-CATCCTTTCATGCCTTAATG
1446264 CATCCTTTCATGC
1 CATCCTTTCATGC
1446277 CTTAATGCAT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
45 4 0.04
46 48 0.51
47 42 0.45
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (46 bp):
CATCCTTTCATGCATTTTAATTATGACATCCTTTCATGCCTTAATG
Found at i:1446272 original size:66 final size:66
Alignment explanation
Indices: 1446198--1446342 Score: 245
Period size: 66 Copynumber: 2.2 Consensus size: 66
1446188 TGGTTTATGA
*
1446198 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATAGCATCCTTTCATGCCTTAAT
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATAGCATCCTTTCATGCCTTAAC
1446263 G
66 G
* * *
1446264 CATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTTTGGCATCCTTTCATGCCTTAAC
1 CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATAGCATCCTTTCATGCCTTAAC
1446329 G
66 G
*
1446330 CATCATTTCATGC
1 CATCCTTTCATGC
1446343 ATATTAATTA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (66 bp):
CATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATAGCATCCTTTCATGCCTTAAC
G
Found at i:1446313 original size:46 final size:46
Alignment explanation
Indices: 1446263--1446401 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
1446253 ATGCCTTAAT
* *
1446263 GCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAATTTTG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
* *
1446309 GCATCCTTTCATGCCTTAACGCATCATTTCATGCATATTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
* *
1446355 GCATCATTCCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
1 GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
1446401 G
1 G
1446402 ATTCGATTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.42
Consensus pattern (46 bp):
GCATCCTTTCATGCCTTAATGCATCATTTCATGCATTTTAATTATG
Found at i:1446651 original size:20 final size:19
Alignment explanation
Indices: 1446613--1446651 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1446603 AAGTGATCAT
*
1446613 TTCCTAAAAAGAAATTTTA
1 TTCCTAAAAAGAAAGTTTA
*
1446632 TTCCATAAAAAGATAGTTTA
1 TTCC-TAAAAAGAAAGTTTA
1446652 CTCTTGAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (19 bp):
TTCCTAAAAAGAAAGTTTA
Found at i:1448712 original size:59 final size:59
Alignment explanation
Indices: 1448613--1448741 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
1448603 CAACAAGCTG
** * * *
1448613 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCATGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
1448672 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1448731 CATATTCGGGA
1 CATATTCGGGA
1448742 TTGCACTATG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1448840 original size:20 final size:20
Alignment explanation
Indices: 1448800--1448841 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1448790 TTATATATTG
* *
1448800 GGCTATTGTCTATTGTTTAT
1 GGCTATTGTCTATGGTATAT
1448820 GGCTATTGTCTATGGTATAT
1 GGCTATTGTCTATGGTATAT
1448840 GG
1 GG
1448842 TTAAGGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.26, T:0.48
Consensus pattern (20 bp):
GGCTATTGTCTATGGTATAT
Found at i:1448914 original size:21 final size:20
Alignment explanation
Indices: 1448889--1448963 Score: 53
Period size: 21 Copynumber: 3.5 Consensus size: 20
1448879 TACGAGCTTA
1448889 TGGTACAAATGGTAAGTATTT
1 TGGTA-AAATGGTAAGTATTT
* * *
1448910 TGGTAAAATAAGCTTACGAG-CTTA
1 TGGTAAAAT--G-GTA--AGTATTT
1448934 TGGTACAAATGGTAAGTATTT
1 TGGTA-AAATGGTAAGTATTT
1448955 TGGTAAAAT
1 TGGTAAAAT
1448964 AAGCTTACGA
Statistics
Matches: 41, Mismatches: 6, Indels: 15
0.66 0.10 0.24
Matches are distributed among these distances:
20 10 0.24
21 12 0.29
22 3 0.07
23 3 0.07
24 7 0.17
25 6 0.15
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.35
Consensus pattern (20 bp):
TGGTAAAATGGTAAGTATTT
Found at i:1448923 original size:45 final size:45
Alignment explanation
Indices: 1448864--1448982 Score: 238
Period size: 45 Copynumber: 2.6 Consensus size: 45
1448854 AGAAAGTGTA
1448864 TTGGTAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATT
1 TTGGTAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATT
1448909 TTGGTAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATT
1 TTGGTAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATT
1448954 TTGGTAAAATAAGCTTACGAGCTTATGGT
1 TTGGTAAAATAAGCTTACGAGCTTATGGT
1448983 TAATAAATGG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.34, C:0.09, G:0.23, T:0.34
Consensus pattern (45 bp):
TTGGTAAAATAAGCTTACGAGCTTATGGTACAAATGGTAAGTATT
Found at i:1455605 original size:20 final size:20
Alignment explanation
Indices: 1455580--1455723 Score: 108
Period size: 20 Copynumber: 6.6 Consensus size: 20
1455570 TTAATTACGA
1455580 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
1455600 CATCCTTTCATTCCTTAATG
1 CATCCTTTCATGCCTTAATG
* *
1455620 CATCCTTTTATGCATTTTAATTTTGG
1 CATCCTTTCATGC--CTTAA---T-G
* *
1455646 CATTCTCTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
1455666 CATCCTTTCATGCATTTTAATTATG
1 CATCCTTTCATGC--CTT-A--ATG
1455691 ACATCCTTTCATGCCTTAATG
1 -CATCCTTTCATGCCTTAATG
* *
1455712 TATCATTTCATG
1 CATCCTTTCATG
1455724 TATTTTAATT
Statistics
Matches: 98, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
20 52 0.53
21 4 0.04
22 6 0.06
23 2 0.02
24 6 0.06
25 4 0.04
26 24 0.24
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:1455637 original size:66 final size:66
Alignment explanation
Indices: 1455553--1455676 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
1455543 TTAGTTTATG
*
1455553 GCATCCTTTCATGCATTTTAATTACGACATCCTTTCATGCCTTAATGCATCCTTTCATTCCTTAA
1 GCATCCTTTCATGCATTTTAATTACGACATCCTCTCATGCCTTAATGCATCCTTTCATTCCTTAA
1455618 T
66 T
* ** * *
1455619 GCATCCTTTTATGCATTTTAATTTTGGCATTCTCTCATGCCTTAATGCATCCTTTCAT
1 GCATCCTTTCATGCATTTTAATTACGACATCCTCTCATGCCTTAATGCATCCTTTCAT
1455677 GCATTTTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (66 bp):
GCATCCTTTCATGCATTTTAATTACGACATCCTCTCATGCCTTAATGCATCCTTTCATTCCTTAA
T
Found at i:1455665 original size:46 final size:46
Alignment explanation
Indices: 1455607--1455741 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 46
1455597 ATGCATCCTT
* * *
1455607 TCATTCCTTAATGCATCCTTTTATGCATTTTAATTTTGGCATTCTC
1 TCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATTCTC
* * *
1455653 TCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGACATCCTT
1 TCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATTCTC
* * *
1455699 TCATGCCTTAATGTATCATTTCATGTATTTTAATTATGG-ATTC
1 TCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATTC
1455742 AATTTAGAGC
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
45 3 0.04
46 75 0.96
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (46 bp):
TCATGCCTTAATGCATCCTTTCATGCATTTTAATTATGGCATTCTC
Found at i:1455702 original size:26 final size:26
Alignment explanation
Indices: 1455500--1455704 Score: 142
Period size: 26 Copynumber: 8.5 Consensus size: 26
1455490 ATGTATTAAC
*
1455500 ACATCCATTT-ATGCATTTAAATTATG
1 ACATCC-TTTCATGCATTTTAATTATG
*
1455526 ACATCCTTTCATGCATTTTAGTTTATG
1 ACATCCTTTCATGCATTTTA-ATTATG
* *
1455553 GCATCCTTTCATGCATTTTAATTACG
1 ACATCCTTTCATGCATTTTAATTATG
*
1455579 ACATCCTTTCATGC--CTT-A--ATG
1 ACATCCTTTCATGCATTTTAATTATG
* *
1455600 -CATCCTTTCATTC--CTT-A--ATG
1 ACATCCTTTCATGCATTTTAATTATG
* *
1455620 -CATCCTTTTATGCATTTTAATTTTG
1 ACATCCTTTCATGCATTTTAATTATG
* * * *
1455645 GCATTCTCTCATGC--CTT-A--ATG
1 ACATCCTTTCATGCATTTTAATTATG
1455666 -CATCCTTTCATGCATTTTAATTATG
1 ACATCCTTTCATGCATTTTAATTATG
1455691 ACATCCTTTCATGC
1 ACATCCTTTCATGC
1455705 CTTAATGTAT
Statistics
Matches: 144, Mismatches: 21, Indels: 28
0.75 0.11 0.15
Matches are distributed among these distances:
20 41 0.28
21 4 0.03
22 4 0.03
23 4 0.03
24 4 0.03
25 8 0.06
26 55 0.38
27 24 0.17
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.44
Consensus pattern (26 bp):
ACATCCTTTCATGCATTTTAATTATG
Found at i:1456316 original size:95 final size:94
Alignment explanation
Indices: 1456161--1456343 Score: 278
Period size: 95 Copynumber: 1.9 Consensus size: 94
1456151 ATACTTCTAA
*
1456161 ACTATGGTACCGATACCCCTTCCGGTATCGATATCAATTTTAGATTCGATGTTTCTTGGTATCGA
1 ACTATGGTACCGATACCCCTTCCGGTATCGATATCAATTTTAGATTCGATGTTTCCTGGTATCGA
1456226 TACCCTTACCATAGTATCGATACTACCAT
66 TACCCTTACCATAGTATCGATACTACCAT
* * *
1456255 ACTATGGTACCGATACCCTCTTTCGGTATGGAT-TCCAATTTTAGATTCGATGTTTCCTGGTATT
1 ACTATGGTACCGATACCC-CTTCCGGTATCGATAT-CAATTTTAGATTCGATGTTTCCTGGTATC
* * *
1456319 GATACCTTTACCATGGTATTGATAC
64 GATACCCTTACCATAGTATCGATAC
1456344 CTTTACCATG
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
94 19 0.24
95 61 0.76
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (94 bp):
ACTATGGTACCGATACCCCTTCCGGTATCGATATCAATTTTAGATTCGATGTTTCCTGGTATCGA
TACCCTTACCATAGTATCGATACTACCAT
Found at i:1456337 original size:20 final size:20
Alignment explanation
Indices: 1456312--1456363 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1456302 CGATGTTTCC
1456312 TGGTATTGATACCTTTACCA
1 TGGTATTGATACCTTTACCA
1456332 TGGTATTGATACCTTTACCA
1 TGGTATTGATACCTTTACCA
1456352 TGGTATTGATAC
1 TGGTATTGATAC
1456364 TACCTCGTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.40
Consensus pattern (20 bp):
TGGTATTGATACCTTTACCA
Found at i:1457333 original size:22 final size:23
Alignment explanation
Indices: 1457308--1457350 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1457298 TAATAATAAT
1457308 AACA-ATAATAATT-AAATATATC
1 AACATATAA-AATTAAAATATATC
1457330 AACATATAAAATTAAAATATA
1 AACATATAAAATTAAAATATA
1457351 AATAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (23 bp):
AACATATAAAATTAAAATATATC
Found at i:1458720 original size:3 final size:3
Alignment explanation
Indices: 1458712--1458821 Score: 119
Period size: 3 Copynumber: 38.7 Consensus size: 3
1458702 GGGCATGTTG
*
1458712 TAA TAA TAA TAA -AA TAA TAA TAA -AA TAA TAAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
*
1458755 TAA TAA T-A TAA TAA TAA TAA -AA TTAA TAA -AA TAG T-A TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
*
1458796 TAA TAA TAA TAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
1458822 TTAAAAATTA
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
2 15 0.16
3 71 0.78
4 5 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1458729 original size:11 final size:11
Alignment explanation
Indices: 1458713--1458821 Score: 106
Period size: 11 Copynumber: 10.4 Consensus size: 11
1458703 GGCATGTTGT
1458713 AATAATAATAA
1 AATAATAATAA
1458724 AATAATAATAA
1 AATAATAATAA
*
1458735 AATAATAA-AT
1 AATAATAATAA
*
1458745 AGTAA-AAT--
1 AATAATAATAA
*
1458753 AATAATAATAT
1 AATAATAATAA
1458764 AATAATAATAA
1 AATAATAATAA
1458775 AAT--TAATAA
1 AATAATAATAA
*
1458784 AATAGT-ATAA
1 AATAATAATAA
1458794 AATAATAATAA
1 AATAATAATAA
*
1458805 TAATATTAATAA
1 -AATAATAATAA
1458817 TAATA
1 -AATA
1458822 TTAAAAATTA
Statistics
Matches: 84, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
8 4 0.05
9 14 0.17
10 14 0.17
11 37 0.44
12 15 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (11 bp):
AATAATAATAA
Found at i:1458750 original size:7 final size:7
Alignment explanation
Indices: 1458713--1458821 Score: 59
Period size: 8 Copynumber: 15.0 Consensus size: 7
1458703 GGCATGTTGT
1458713 AATAAT-
1 AATAATA
*
1458719 AATAAAA
1 AATAATA
1458726 TAATAATAA
1 -AATAAT-A
1458735 AATAATA
1 AATAATA
*
1458742 AATAGTAA
1 AATAAT-A
1458750 AATAAT-
1 AATAATA
1458756 AATAATA
1 AATAATA
1458763 TAATAAT-
1 -AATAATA
1458770 AATAA-A
1 AATAATA
*
1458776 ATTAATAA
1 AATAAT-A
1458784 AATAGTATAA
1 AATA--AT-A
1458794 AATAAT-
1 AATAATA
1458800 AATAATA
1 AATAATA
1458807 ATATTAAT-
1 A-A-TAATA
1458815 AATAATA
1 AATAATA
1458822 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
6 30 0.37
7 8 0.10
8 31 0.38
9 5 0.06
10 8 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:1458804 original size:33 final size:33
Alignment explanation
Indices: 1458724--1458832 Score: 72
Period size: 30 Copynumber: 3.5 Consensus size: 33
1458714 ATAATAATAA
1458724 AATAATAATAAAA-TAAT-A-AATAGT-AAAAT
1 AATAATAATAAAATTAATAATAATAGTAAAAAT
* * * *
1458753 AATAATAATATAA-TAATAATAAAATTAATAA-
1 AATAATAATAAAATTAATAATAATAGTAAAAAT
* * **
1458784 AATAGT-ATAAAA-TAATAATAATAATATTAAT
1 AATAATAATAAAATTAATAATAATAGTAAAAAT
*
1458815 AATAATATTAAAAATTAA
1 AATAATAAT-AAAATTAA
1458833 AAAACAAATG
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
29 16 0.26
30 21 0.34
31 14 0.23
32 4 0.06
33 4 0.06
34 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (33 bp):
AATAATAATAAAATTAATAATAATAGTAAAAAT
Found at i:1458827 original size:51 final size:49
Alignment explanation
Indices: 1458719--1458836 Score: 134
Period size: 51 Copynumber: 2.3 Consensus size: 49
1458709 TTGTAATAAT
1458719 AATAAAATAATAATAAAATAATAAATAGTAAAATAATAATAATATAATAAT
1 AATAAAAT--TAATAAAATAATAAATAGTAAAATAATAATAATATAATAAT
*
1458770 AATAAAATTAATAAAATAGTATAAA-A-TAATAATAATAATATTAATAATAAT
1 AATAAAATTAATAAAATA--ATAAATAGTAA-AATAATAATAAT-ATAATAAT
*
1458821 ATTAAAAATTAA-AAAA
1 AAT-AAAATTAATAAAA
1458837 CAAATGGATA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
49 13 0.22
50 12 0.20
51 27 0.45
52 8 0.13
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (49 bp):
AATAAAATTAATAAAATAATAAATAGTAAAATAATAATAATATAATAAT
Found at i:1459115 original size:20 final size:17
Alignment explanation
Indices: 1459072--1459112 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1459062 GTTGAACAAA
1459072 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
1459089 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
1459106 TTCTTCT
1 TTCTTCT
1459113 TCTTTTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.05, T:0.51
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:1459401 original size:122 final size:121
Alignment explanation
Indices: 1459223--1459599 Score: 480
Period size: 122 Copynumber: 3.2 Consensus size: 121
1459213 AAGGTTGAAC
* *
1459223 AAGTTCTTCTCATTATGAACACTT-TTGGAAATGTTGATGTTGATCTATCTTCTTCTGTGATAGA
1 AAGTTCTTCTCATTATGAAC-TTTCTTGGAAAAGTTGATGTTGATCTATCTTCTTCTGTGATAGA
*
1459287 GTCATGCAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGAT
65 GTCATGCAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
1459344 AAGTTCTTCTCATTATGAACTTTCTATGGAAAAGTTGATGTTGATCTATC-TCTTTCTGTGATAG
1 AAGTTCTTCTCATTATGAACTTTCT-TGGAAAAGTTGATGTTGATCTATCTTC-TTCTGTGATAG
*
1459408 AGTCATGCAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
64 AGTCATGCAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
**
1459466 AAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTTGA---TG--C-A---TC--GAGTGAT-GA
1 AAGTTCTTCTCATTATGAACTTTCT-TGGAAAAGTTGATGTTGATCTATCTTCTTCTGTGATAG-
*
1459519 ATTCGA-GCAAAAGGTTGAACAAA-TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
64 AGTC-ATGC-AAAGGTTGAA-AAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGAT
* *
1459579 GAGTTCTTCTTATTATGAACT
1 AAGTTCTTCTCATTATGAACT
1459600 CTACCTAGCA
Statistics
Matches: 237, Mismatches: 11, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
110 1 0.00
111 10 0.04
112 38 0.16
113 30 0.13
114 2 0.01
116 1 0.00
117 1 0.00
119 2 0.01
120 2 0.01
121 23 0.10
122 127 0.54
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.41
Consensus pattern (121 bp):
AAGTTCTTCTCATTATGAACTTTCTTGGAAAAGTTGATGTTGATCTATCTTCTTCTGTGATAGAG
TCATGCAAAGGTTGAAAAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGAT
Found at i:1459670 original size:70 final size:69
Alignment explanation
Indices: 1459557--1459690 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 69
1459547 CTCATTATGA
* * *
1459557 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCTACCTAGCAATGTTGATCCAT
1 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCGA-AAATGTTGATCCAT
1459622 CAAGT
65 CAAGT
*
1459627 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCCGAAAATGTTGATCCAT
1 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCGAAAATGTTGATCCAT
1459691 TGAGTGATGG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 13 0.22
70 47 0.78
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.42
Consensus pattern (69 bp):
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCGAAAATGTTGATCCATC
AAGT
Found at i:1459937 original size:22 final size:22
Alignment explanation
Indices: 1459876--1459938 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
1459866 AAATTCAATA
* * *
1459876 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGAG
*
1459898 AATCTATCATCTTTGAAGAGAT
1 AATCTATCATCTTTGAAGAGAG
1459920 AATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
1459939 ATGTAGATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:1460303 original size:20 final size:20
Alignment explanation
Indices: 1460278--1460323 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1460268 GTCACAACAT
*
1460278 TGGTTCAGCACCATAATTAC
1 TGGTTCAGCACCAAAATTAC
1460298 TGGTTCAGCACCAAAATTAC
1 TGGTTCAGCACCAAAATTAC
1460318 TGGTTC
1 TGGTTC
1460324 GTAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
TGGTTCAGCACCAAAATTAC
Found at i:1460616 original size:18 final size:18
Alignment explanation
Indices: 1460579--1460616 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1460569 TATGTGAAAG
*
1460579 AATAAATTAAATTTCGAA
1 AATAAATTAAATTTCAAA
*
1460597 AATAAATTGAATTTCAAA
1 AATAAATTAAATTTCAAA
1460615 AA
1 AA
1460617 GATAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (18 bp):
AATAAATTAAATTTCAAA
Found at i:1460998 original size:16 final size:16
Alignment explanation
Indices: 1460964--1461022 Score: 61
Period size: 15 Copynumber: 3.7 Consensus size: 16
1460954 TGACCCTCAA
*
1460964 TTTCTATTTTCTTCTATT
1 TTTC-ATTTTTTTC-ATT
1460982 TTTCATTTTTTTCA-T
1 TTTCATTTTTTTCATT
1460997 TTTCATTTTTTT--TCT
1 TTTCATTTTTTTCAT-T
1461012 TTTCATTTTTT
1 TTTCATTTTTT
1461023 ATTTTTATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 25 0.66
16 1 0.03
17 8 0.21
18 4 0.11
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCATTTTTTTCATT
Found at i:1461001 original size:15 final size:14
Alignment explanation
Indices: 1460981--1461022 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
1460971 TTTCTTCTAT
1460981 TTTTCATTTTTTTC
1 TTTTCATTTTTTTC
1460995 ATTTTCATTTTTTTTC
1 -TTTTCA-TTTTTTTC
1461011 TTTTCATTTTTT
1 TTTTCATTTTTT
1461023 ATTTTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 12 0.46
16 8 0.31
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTCATTTTTTTC
Found at i:1461021 original size:22 final size:21
Alignment explanation
Indices: 1460979--1461034 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
1460969 ATTTTCTTCT
*
1460979 ATTTTTCATTTTTTTCATTTTC
1 ATTTTT-ATTCTTTTCATTTTC
* *
1461001 ATTTTTTTTCTTTTCATTTTTT
1 ATTTTTATTCTTTTCA-TTTTC
1461023 ATTTTTATTCTT
1 ATTTTTATTCTT
1461035 CAAACATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.12, C:0.11, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTTATTCTTTTCATTTTC
Found at i:1467933 original size:15 final size:15
Alignment explanation
Indices: 1467913--1467944 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1467903 TGCAATGAAT
1467913 AATGAATGTATGCAA
1 AATGAATGTATGCAA
1467928 AATGAATGTATGCAA
1 AATGAATGTATGCAA
1467943 AA
1 AA
1467945 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1469718 original size:161 final size:162
Alignment explanation
Indices: 1469453--1469775 Score: 639
Period size: 161 Copynumber: 2.0 Consensus size: 162
1469443 CAACAGTAAC
1469453 AGGAACAAATTGACGACCCTCGTACTACCTTATAACCAGAAGTAGTGCATATCCAATTCCTCCCC
1 AGGAACAAATTGACGACCCTCGTACTACCTTATAACCAGAAGTAGTGCATATCCAATTCCTCCCC
1469518 ACAAACCGAGTAGCATTACCCAGTTATAGTCACCACATTTATAAAAGAATTCCCTTTGAA-TTGC
66 ACAAACCGAGTAGCATTACCCAGTTATAGTCACCACATTTATAAAAGAATTCCCTTTGAACTTGC
1469582 CACGGGGTGTGCCAAACGATGTCATTGCTTTG
131 CACGGGGTGTGCCAAACGATGTCATTGCTTTG
1469614 AGGAACAAATTGACGACCCTCGTACTACCTTATAACCAGAAGTAGTGCATATCCAATTCCTCCCC
1 AGGAACAAATTGACGACCCTCGTACTACCTTATAACCAGAAGTAGTGCATATCCAATTCCTCCCC
1469679 ACAAACCGAGTAGCATTACCCAGTTATAGTCACCACATTTATAAAAGAATTCCCTTTGAACTTGC
66 ACAAACCGAGTAGCATTACCCAGTTATAGTCACCACATTTATAAAAGAATTCCCTTTGAACTTGC
1469744 CACGGGGTGTGCCAAACGATGTCATTGCTTTG
131 CACGGGGTGTGCCAAACGATGTCATTGCTTTG
1469776 CAGATTTCGA
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
161 125 0.78
162 36 0.22
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (162 bp):
AGGAACAAATTGACGACCCTCGTACTACCTTATAACCAGAAGTAGTGCATATCCAATTCCTCCCC
ACAAACCGAGTAGCATTACCCAGTTATAGTCACCACATTTATAAAAGAATTCCCTTTGAACTTGC
CACGGGGTGTGCCAAACGATGTCATTGCTTTG
Found at i:1470364 original size:16 final size:16
Alignment explanation
Indices: 1470336--1470368 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1470326 CTATGCCAAC
1470336 AACAAAAATAAAAGAA
1 AACAAAAATAAAAGAA
1470352 AACATAAAA-AAAAGAA
1 AACA-AAAATAAAAGAA
1470368 A
1 A
1470369 TGAATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (16 bp):
AACAAAAATAAAAGAA
Found at i:1470867 original size:197 final size:199
Alignment explanation
Indices: 1470532--1470928 Score: 780
Period size: 197 Copynumber: 2.0 Consensus size: 199
1470522 AAAAGTTAGA
1470532 ATTCATTTCTCCTTCGTGTACACCTATTTTGGACAAACTTTCGGCATGGTTTTAGATCGGAAGAG
1 ATTCATTTCTCCTTCGTGTACACCTATTTTGGACAAACTTTCGGCATGGTTTTAGATCGGAAGAG
1470597 TTTCTAGGGTTTACTATATGCAGAGTTTCAGTTCTAAGAGTAAAGGTACCCGAATTATCCTTGTT
66 TTTCTAGGGTTTACTATATGCAGAGTTTCAGTTCTAAGAGTAAAGGTACCCGAATTATCCTTGTT
1470662 AGTGCCCCCTTGGGTTG-CAACCCTCAATCCTAATCCA-TACAGACTTAAGCAGATCGAGTTCAA
131 AGTGCCCCCTTGGGTTGCCAACCCTCAATCCTAATCCACTACAGACTTAAGCAGATCGAGTTCAA
1470725 TTTG
196 TTTG
1470729 ATTCATTTCTCCTTCGTGTACACCTATTTTGGACAAACTTTCGGCATGGTTTTAGATCGGAAGAG
1 ATTCATTTCTCCTTCGTGTACACCTATTTTGGACAAACTTTCGGCATGGTTTTAGATCGGAAGAG
1470794 TTTCTAGGGTTTACTATATGCAGAGTTTCAGTTCTAAGAGTAAAGGTACCCGAATTATCCTTGTT
66 TTTCTAGGGTTTACTATATGCAGAGTTTCAGTTCTAAGAGTAAAGGTACCCGAATTATCCTTGTT
1470859 AGTGCCCCCTTGGGTTGCCAACCCTCAATCCTAATCCACTACAGACTTAAGCAGATCGAGTTCAA
131 AGTGCCCCCTTGGGTTGCCAACCCTCAATCCTAATCCACTACAGACTTAAGCAGATCGAGTTCAA
1470924 TTTG
196 TTTG
1470928 A
1 A
1470929 GGGGACACAT
Statistics
Matches: 198, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
197 147 0.74
198 20 0.10
199 31 0.16
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (199 bp):
ATTCATTTCTCCTTCGTGTACACCTATTTTGGACAAACTTTCGGCATGGTTTTAGATCGGAAGAG
TTTCTAGGGTTTACTATATGCAGAGTTTCAGTTCTAAGAGTAAAGGTACCCGAATTATCCTTGTT
AGTGCCCCCTTGGGTTGCCAACCCTCAATCCTAATCCACTACAGACTTAAGCAGATCGAGTTCAA
TTTG
Found at i:1471232 original size:26 final size:28
Alignment explanation
Indices: 1471199--1471256 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
1471189 CATTAATAAA
*
1471199 AAAATAAT-A-TATATATAAATATTATG
1 AAAATAATAAGTATATATAAAAATTATG
*
1471225 AAAATAATAAGTATATATAAAAATTTTG
1 AAAATAATAAGTATATATAAAAATTATG
1471253 AAAA
1 AAAA
1471257 GAAAGAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 8 0.29
27 1 0.04
28 19 0.68
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (28 bp):
AAAATAATAAGTATATATAAAAATTATG
Found at i:1471242 original size:30 final size:27
Alignment explanation
Indices: 1471171--1471256 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 27
1471161 TTTAATACTT
* *
1471171 AAAAATAAAATA-AAAAAACATTAAT-AA
1 AAAAATAATATATATAAAA-ATT-ATGAA
1471198 AAAAATAATATATATATAAATATTATGAA
1 AAAAATAATATATATA-AAA-ATTATGAA
* *
1471227 AATAATAAGTATATATAAAAATTTTGAA
1 AAAAATAA-TATATATAAAAATTATGAA
1471255 AA
1 AA
1471257 GAAAGAATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.22
28 13 0.26
29 18 0.36
30 8 0.16
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
AAAAATAATATATATAAAAATTATGAA
Found at i:1472161 original size:22 final size:23
Alignment explanation
Indices: 1472136--1472178 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1472126 TAATAATAAT
1472136 AACA-ATAATAATT-AAATATACA
1 AACATATAA-AATTAAAATATACA
1472158 AACATATAAAATTAAAATATA
1 AACATATAAAATTAAAATATA
1472179 AATAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (23 bp):
AACATATAAAATTAAAATATACA
Found at i:1473537 original size:3 final size:3
Alignment explanation
Indices: 1473529--1473629 Score: 113
Period size: 3 Copynumber: 35.0 Consensus size: 3
1473519 GGCCTGTTTG
*
1473529 TAA TAA TAA TAA TAT TAA TAA TAA TAA TAA T-A TAA TAA TAA -AA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
1473576 TAA -AG TAG T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1473621 TAA AAA TAA
1 TAA TAA TAA
1473630 AAAACAAATG
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
2 8 0.10
3 73 0.87
4 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1474512 original size:3 final size:3
Alignment explanation
Indices: 1474499--1474564 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
1474489 ATGTAATTAA
*
1474499 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1474547 ATT ATT ATT ATT AAT ATT
1 ATT ATT ATT ATT ATT ATT
1474565 TTTTAAGACT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1476188 original size:23 final size:21
Alignment explanation
Indices: 1476143--1476182 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1476133 AGCTGTTGGG
1476143 GCCTGATGGTATTGATACTAT
1 GCCTGATGGTATTGATACTAT
1476164 GCCT-ATGGTATTGATACTA
1 GCCTGATGGTATTGATACTA
1476183 CTATGCAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (21 bp):
GCCTGATGGTATTGATACTAT
Found at i:1480382 original size:27 final size:27
Alignment explanation
Indices: 1480344--1480397 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1480334 GACTAAACAG
*
1480344 TGTGTTTTGATATTTTAAGAAAAATCT
1 TGTGTTTTGATACTTTAAGAAAAATCT
*
1480371 TGTGTTTTGATACTTTGAGAAAAATCT
1 TGTGTTTTGATACTTTAAGAAAAATCT
1480398 AACTTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (27 bp):
TGTGTTTTGATACTTTAAGAAAAATCT
Found at i:1480518 original size:2 final size:2
Alignment explanation
Indices: 1480513--1480546 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1480503 TTTACAAAAA
1480513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1480547 TATGTTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1483034 original size:24 final size:24
Alignment explanation
Indices: 1482990--1483039 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1482980 ATAAAGAACC
1482990 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAATACACCATTA
*
1483014 AAAATAAAGTTCAAATA-ACCATTA
1 AAAATAAACTT-AAATACACCATTA
1483038 AA
1 AA
1483040 TCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAATACACCATTA
Found at i:1490924 original size:21 final size:21
Alignment explanation
Indices: 1490894--1490937 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1490884 AGACGAGCTA
* *
1490894 TGGCTTTGAAGTAAGGCGCCT
1 TGGCTATGAAGTAAAGCGCCT
*
1490915 TGGCTATGAAGTAAAGCTCCT
1 TGGCTATGAAGTAAAGCGCCT
1490936 TG
1 TG
1490938 ATTCTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (21 bp):
TGGCTATGAAGTAAAGCGCCT
Found at i:1493209 original size:24 final size:24
Alignment explanation
Indices: 1493165--1493214 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1493155 ATAAAGAACC
*
1493165 AAAATAAACTTAAATACACCATTA
1 AAAATAAACTTAAACACACCATTA
*
1493189 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACACACCATTA
1493213 AA
1 AA
1493215 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAATAAACTTAAACACACCATTA
Found at i:1504495 original size:26 final size:25
Alignment explanation
Indices: 1504464--1504535 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 25
1504454 CTTCTTAAAT
*
1504464 TTTTAACTTTTTCTTTTATCTTTCA
1 TTTTAACTTTTTCTTTTCTCTTTCA
1504489 TTATTAA-TTTTTC---TCTCTTTCA
1 TT-TTAACTTTTTCTTTTCTCTTTCA
*
1504511 TTTTAACTTTTACCTTTTCTCTTTC
1 TTTTAACTTTT-TCTTTTCTCTTTC
1504536 TTTCATTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 4 0.10
22 14 0.36
23 1 0.03
25 8 0.21
26 12 0.31
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAACTTTTTCTTTTCTCTTTCA
Found at i:1508369 original size:17 final size:16
Alignment explanation
Indices: 1508338--1508371 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1508328 CACGTGAGGA
1508338 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
1508354 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
1508371 T
1 T
1508372 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:1516460 original size:43 final size:43
Alignment explanation
Indices: 1516410--1516659 Score: 376
Period size: 43 Copynumber: 5.8 Consensus size: 43
1516400 TGCAAAAATG
* * *
1516410 GTAAGGTCTTACCCTTGCACATAACAAAAGAGCCT-GGGAAACT
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
* *
1516453 ATAAGGTCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
*
1516497 GTAAGGCTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGGAAACT
* *
1516541 TTAAGGCTTAACCTTGCACACAACAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
*
1516584 GTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
*
1516627 GTAAGGCTTACCCTTGCACACAGCAAAGGAACC
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACC
1516660 ATCGGTAATG
Statistics
Matches: 191, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 139 0.73
44 52 0.27
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.18
Consensus pattern (43 bp):
GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACT
Found at i:1516568 original size:87 final size:86
Alignment explanation
Indices: 1516410--1516659 Score: 376
Period size: 87 Copynumber: 2.9 Consensus size: 86
1516400 TGCAAAAATG
* * *
1516410 GTAAGGTCTTACCCTTGCACATAACAAAAGAGCCT-GGGAAACTATAAGGTCTTACCCTTGCACA
1 GTAAGG-CTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGG-CTTACCCTTGCACA
1516474 CAACAAAGGAACCTAGGGAAACT
64 CAACAAAGGAACCTAGGGAAACT
* * *
1516497 GTAAGGCTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACTTTAAGGCTTAACCTTGCACAC
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCT-GGGGAAACTATAAGGCTTACCCTTGCACAC
*
1516562 AACAAAGGAACCTGGGGAAACT
65 AACAAAGGAACCTAGGGAAACT
* *
1516584 GTAAGGCTTACCCTTGCACACATCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACA
1 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACCCTTGCACACA
*
1516649 GCAAAGGAACC
66 ACAAAGGAACC
1516660 ATCGGTAATG
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
86 63 0.42
87 73 0.49
88 13 0.09
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.18
Consensus pattern (86 bp):
GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACCCTTGCACACA
ACAAAGGAACCTAGGGAAACT
Found at i:1516611 original size:130 final size:131
Alignment explanation
Indices: 1516411--1516659 Score: 394
Period size: 130 Copynumber: 1.9 Consensus size: 131
1516401 GCAAAAATGG
* * *
1516411 TAAGGTCTTACCCTTGCACATAACAAAAGAGCCTGGGAAACTATAAGGTCTTACCCTTGCACACA
1 TAAGGTCTTAACCTTGCACACAACAAAAGAACCTGGGAAACTATAAGGTCTTACCCTTGCACACA
1516476 ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
66 ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
1516541 T
131 T
* *
1516542 TAAGG-CTTAACCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGG-CTTACCCTTGCACAC
1 TAAGGTCTTAACCTTGCACACAACAAAAGAACCT-GGGAAACTATAAGGTCTTACCCTTGCACAC
* * * *
1516605 ATCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACC
65 AACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTGCACACAACAAAGGAACC
1516660 ATCGGTAATG
Statistics
Matches: 108, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
130 90 0.83
131 18 0.17
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (131 bp):
TAAGGTCTTAACCTTGCACACAACAAAAGAACCTGGGAAACTATAAGGTCTTACCCTTGCACACA
ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
T
Found at i:1519431 original size:18 final size:19
Alignment explanation
Indices: 1519408--1519447 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1519398 CAGTCAACAT
*
1519408 GTCGGGTC-AACGGGTCGG
1 GTCGGGTCAAAAGGGTCGG
1519426 GTCGGGTCAAAAGGGTCGG
1 GTCGGGTCAAAAGGGTCGG
1519445 GTC
1 GTC
1519448 AAAACTAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.20, G:0.47, T:0.17
Consensus pattern (19 bp):
GTCGGGTCAAAAGGGTCGG
Found at i:1519443 original size:14 final size:14
Alignment explanation
Indices: 1519424--1519451 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1519414 TCAACGGGTC
1519424 GGGTCGGGTCAAAA
1 GGGTCGGGTCAAAA
1519438 GGGTCGGGTCAAAA
1 GGGTCGGGTCAAAA
1519452 CTAGGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (14 bp):
GGGTCGGGTCAAAA
Found at i:1521408 original size:43 final size:43
Alignment explanation
Indices: 1521358--1521609 Score: 326
Period size: 43 Copynumber: 5.8 Consensus size: 43
1521348 AGCAAAAATG
* * ** *
1521358 GTAAGGTCTTACCCTTGCACATAGCAAAAGAGTCT-GAGAAACT
1 GTAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* * *
1521401 ATAAGGTCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACT
1 GTAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* * * *
1521445 GTAAGGCTCACCCTTTCATACAACAAAGGAACCTGGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCT-GGGGAAACT
* *
1521489 ATAAGGCTTACCCTTGCACAAAGCAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
1521532 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
* *
1521575 GTAAGACTTACCCTTGCACACAGCGAAGGAACCTG
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTG
1521610 CGGTAATGGT
Statistics
Matches: 185, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 137 0.74
44 48 0.26
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (43 bp):
GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
Found at i:1521501 original size:87 final size:86
Alignment explanation
Indices: 1521395--1521608 Score: 313
Period size: 87 Copynumber: 2.5 Consensus size: 86
1521385 AAGAGTCTGA
1521395 GAAACTATAAGGTCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTT
1 GAAACTATAAGG-CTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTT
* *
1521460 TCATACAACAAAGGAACCTGGGG
65 GCACACAACAAAGGAACCT-GGG
* *
1521483 GAAACTATAAGGCTTACCCTTGCACA-AAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTT
1 GAAACTATAAGGCTTACCCTTGCACACAA-CAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTT
*
1521547 GCACACAGCAAAGGAACCTGGG
65 GCACACAACAAAGGAACCTGGG
* * * *
1521569 GAAACTGTAAGACTTACCCTTGCACACAGCGAAGGAACCT
1 GAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCT
1521609 GCGGTAATGG
Statistics
Matches: 115, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
86 39 0.34
87 64 0.56
88 12 0.10
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (86 bp):
GAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTG
CACACAACAAAGGAACCTGGG
Found at i:1521559 original size:130 final size:131
Alignment explanation
Indices: 1521359--1521609 Score: 353
Period size: 130 Copynumber: 1.9 Consensus size: 131
1521349 GCAAAAATGG
* **
1521359 TAAGGTCTTACCCTTGCACATAGCAAAAGAGTCTGAGAAACTATAAGGTCTTACCCTTGCACACA
1 TAAGGTCTTACCCTTGCACAAAGCAAAAGAACCTGAGAAACTATAAGGTCTTACCCTTGCACACA
* * *
1521424 ACAAAGGAACCTAGGGAAACTGTAAGGCTCACCCTTTCATACAACAAAGGAACCTGGGGGAAACT
66 ACAAAGGAACCTAGGGAAACTGTAAGACTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
1521489 A
131 A
* * *
1521490 TAAGG-CTTACCCTTGCACAAAGCAAAGGAACCTGGGGAAACTGTAAGG-CTTACCCTTGCACAC
1 TAAGGTCTTACCCTTGCACAAAGCAAAAGAACCT-GAGAAACTATAAGGTCTTACCCTTGCACAC
* * * * *
1521553 AGCAAAGGAACCTGGGGAAACTGTAAGACTTACCCTTGCACACAGCGAAGGAACCTG
65 AACAAAGGAACCTAGGGAAACTGTAAGACTCACCCTTGCACACAACAAAGGAACCTG
1521610 CGGTAATGGT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
130 88 0.84
131 17 0.16
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.18
Consensus pattern (131 bp):
TAAGGTCTTACCCTTGCACAAAGCAAAAGAACCTGAGAAACTATAAGGTCTTACCCTTGCACACA
ACAAAGGAACCTAGGGAAACTGTAAGACTCACCCTTGCACACAACAAAGGAACCTGGGGGAAACT
A
Done.