Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_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: 3141433
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 12
Found at i:1442807 original size:17 final size:17
Alignment explanation
Indices: 1442787--1442819 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1442777 TTCTTAGTTA
*
1442787 TTTAAAATTAAAAATAT
1 TTTAAAATAAAAAATAT
1442804 TTTAAAATAAAAAATA
1 TTTAAAATAAAAAATA
1442820 AAACTTGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTAAAATAAAAAATAT
Found at i:1448803 original size:105 final size:105
Alignment explanation
Indices: 1448686--1448893 Score: 274
Period size: 105 Copynumber: 2.0 Consensus size: 105
1448676 ATAGGTAAAG
* ** * * * * *
1448686 ACATCAGGCTCAATGCCTCGCTTTATCATTTTGTCAATAATAT-CTTCAGCTTTAGAGATCATTC
1 ACATCAGGCTCAATGCCTCGCTTTACCATTGCGTCAACAATATGC-TCAGCTTCAGAAACCATAC
1448750 CTTCCTTGCAATGTGCATCAATCAATACATTATACGTGATA
65 CTTCCTTGCAATGTGCATCAATCAATACATTATACGTGATA
* *
1448791 ACATCAGGCTCAATGGCTTGCTTTACCATTGCGTCAACAATATGCTCAGCTTCAGAAACCATACC
1 ACATCAGGCTCAATGCCTCGCTTTACCATTGCGTCAACAATATGCTCAGCTTCAGAAACCATACC
* * * *
1448856 TTGCTTGCAATGTGCATCGATCAATATATTATATGTGA
66 TTCCTTGCAATGTGCATCAATCAATACATTATACGTGA
1448894 AAATATCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 87 0.99
106 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (105 bp):
ACATCAGGCTCAATGCCTCGCTTTACCATTGCGTCAACAATATGCTCAGCTTCAGAAACCATACC
TTCCTTGCAATGTGCATCAATCAATACATTATACGTGATA
Found at i:1451338 original size:104 final size:105
Alignment explanation
Indices: 1451152--1451344 Score: 230
Period size: 104 Copynumber: 1.8 Consensus size: 105
1451142 TACGTGATAA
* * *
1451152 CATCAGGCTCAATGCCTTGCTTTATCATTGTGTCAATAAAATCTTCAGCTTCAGAGATCATCCCT
1 CATCAGGCTCAATGCCTTGCTTCATCATTGTGTCAACAAAATCTTCAGCTTCAGAAATCATCCCT
**
1451217 TCCTTGCAAAGTGCATCGA-CAATGTATTATTTGTGACAT
66 TCCTTGCAAAGAACATCGATCAATGTATTATTTGTGACAT
* *** * *
1451256 CATCAGGCTCAATGCCTTGCTTCCTCATTGTGTCAACGGTATCTAT-TGCTTTAGAAATCAATCC
1 CATCAGGCTCAATGCCTTGCTTCATCATTGTGTCAACAAAATCT-TCAGCTTCAGAAATC-ATCC
**
1451320 C-TCCTTGCACTGAACATCGATCAAT
64 CTTCCTTGCAAAGAACATCGATCAAT
1451345 ATACTATACG
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
104 63 0.86
105 10 0.14
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (105 bp):
CATCAGGCTCAATGCCTTGCTTCATCATTGTGTCAACAAAATCTTCAGCTTCAGAAATCATCCCT
TCCTTGCAAAGAACATCGATCAATGTATTATTTGTGACAT
Found at i:1456346 original size:2 final size:2
Alignment explanation
Indices: 1456339--1456369 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1456329 AATGTTACCA
1456339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1456370 ACATTTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1458191 original size:68 final size:68
Alignment explanation
Indices: 1458068--1458197 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 68
1458058 TCTAATAATT
* * *
1458068 TGAATAAACAATTCAAAATGGTCTAATATAAATTAATCAAAATTTAAAATAATTT-AACTTAATG
1 TGAATAAACAATTCAAAATGCTCTAATACAAATTAATCAAAATTTAAAACAATTTAAACTTAATG
1458132 ACC
66 ACC
* *
1458135 TGAATAAACAATTCAAAATGACT-TGAATACGAATTAATCAAAATTTAAAACGATTTAAACTTA
1 TGAATAAACAATTCAAAATG-CTCT-AATACAAATTAATCAAAATTTAAAACAATTTAAACTTA
1458198 TGGTAACTCG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
67 21 0.38
68 28 0.51
69 6 0.11
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.32
Consensus pattern (68 bp):
TGAATAAACAATTCAAAATGCTCTAATACAAATTAATCAAAATTTAAAACAATTTAAACTTAATG
ACC
Found at i:1458656 original size:24 final size:23
Alignment explanation
Indices: 1458629--1458714 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 23
1458619 AAATTGAACG
1458629 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGA-TAAAA
1458653 ACCGGTTTTTTTTCAAACCGGATAAAAA
1 ACCGG-TTTTTTT---ACCGGAT-AAAA
1458681 ACCGG-TTTTTTATCCGGA-AAAA
1 ACCGGTTTTTTTA-CCGGATAAAA
1458703 ATCCGGTTTTTT
1 A-CCGGTTTTTT
1458715 AAAAAAACTG
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
22 5 0.09
23 5 0.09
24 15 0.28
25 7 0.13
26 6 0.11
27 1 0.02
28 15 0.28
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.37
Consensus pattern (23 bp):
ACCGGTTTTTTTACCGGATAAAA
Found at i:1458708 original size:23 final size:24
Alignment explanation
Indices: 1458629--1458715 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 24
1458619 AAATTGAACG
*
1458629 ACCGGTTTTTT-TACCGGATTAAAA
1 ACCGGTTTTTTAT-CCGGATAAAAA
*
1458653 ACCGGTTTTTTTTCAAACCGGATAAAAA
1 ACCGG--TTTTTT--ATCCGGATAAAAA
1458681 ACCGGTTTTTTATCCGGA-AAAAA
1 ACCGGTTTTTTATCCGGATAAAAA
*
1458704 TCCGGTTTTTTA
1 ACCGGTTTTTTA
1458716 AAAAAACTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
23 16 0.30
24 11 0.20
26 12 0.22
28 15 0.28
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (24 bp):
ACCGGTTTTTTATCCGGATAAAAA
Found at i:1458720 original size:40 final size:41
Alignment explanation
Indices: 1458676--1458755 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 41
1458666 CAAACCGGAT
* * *
1458676 AAAAAACCGGTTTTTTATCCG-GAAAAAATCCGGTTTTTTA
1 AAAAAACCGGATTTTTATCCGAAAAAAAAACCGGTTTTTTA
*
1458716 AAAAAACTGGATTTTTATCCGAAAAAAAAACCGGTTTTTT
1 AAAAAACCGGATTTTTATCCGAAAAAAAAACCGGTTTTTT
1458756 TGCAAACCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 19 0.54
41 16 0.46
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (41 bp):
AAAAAACCGGATTTTTATCCGAAAAAAAAACCGGTTTTTTA
Found at i:1458754 original size:23 final size:22
Alignment explanation
Indices: 1458676--1458743 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
1458666 CAAACCGGAT
*
1458676 AAAAAACCGGTTTTTTATCCGGA
1 AAAAAACCGGATTTTTATCC-GA
*
1458699 AAAAATCCGG-TTTTT-T---A
1 AAAAAACCGGATTTTTATCCGA
*
1458716 AAAAAACTGGATTTTTATCCGA
1 AAAAAACCGGATTTTTATCCGA
1458738 AAAAAA
1 AAAAAA
1458744 AACCGGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 9 0.24
18 5 0.14
19 1 0.03
21 1 0.03
22 12 0.32
23 9 0.24
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
AAAAAACCGGATTTTTATCCGA
Found at i:1465209 original size:60 final size:60
Alignment explanation
Indices: 1465098--1465247 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
1465088 GTATAATTCT
* * * **
1465098 GGATGAAATT-AGATGTTCAAAAG-TTGGGAACCAGTTTAGAATGAATGTCATAGTTTGG
1 GGATGAAATTGAAATGTTCAAAAGTTTGGGAACCAGTTTAGAAAGAATGTCATAGATTAA
*
1465156 GGATGAAATTGAAATGTTCAAAAGTTTGAGG-A-CTGATTTAGAAAG-ATAGTCATAGATTAA
1 GGATGAAATTGAAATGTTCAAAAGTTTG-GGAACCAG-TTTAGAAAGAAT-GTCATAGATTAA
* * *
1465216 GGATGAAATTGGAATATTTAAAAGTTTAGGGA
1 GGATGAAATTGAAATGTTCAAAAGTTT-GGGA
1465248 CCAACTTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 11
0.79 0.09 0.11
Matches are distributed among these distances:
58 10 0.13
59 16 0.21
60 47 0.62
61 3 0.04
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.31
Consensus pattern (60 bp):
GGATGAAATTGAAATGTTCAAAAGTTTGGGAACCAGTTTAGAAAGAATGTCATAGATTAA
Found at i:1466317 original size:80 final size:80
Alignment explanation
Indices: 1466224--1466389 Score: 314
Period size: 80 Copynumber: 2.1 Consensus size: 80
1466214 CAGACTTCAA
1466224 CGAAGAGGAAGAATACGTGCTCGGTCATCCTCTTATTGTCCCTAACCTTCGATCAAGAAGTCGAT
1 CGAAGAGGAAGAATACGTGCTCGGTCATCCTCTTATTGTCCCTAACCTTCGATCAAGAAGTCGAT
1466289 TCTTAACGACCTCAC
66 TCTTAACGACCTCAC
*
1466304 CGAAGAGGAAGAATACGTGCTCGGTCATCCTCTTATTGTCCCTAACCTTCGATCACGAAGTCGAT
1 CGAAGAGGAAGAATACGTGCTCGGTCATCCTCTTATTGTCCCTAACCTTCGATCAAGAAGTCGAT
*
1466369 TCTTAATGACCTCAC
66 TCTTAACGACCTCAC
1466384 CGAAGA
1 CGAAGA
1466390 AAGATAAGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (80 bp):
CGAAGAGGAAGAATACGTGCTCGGTCATCCTCTTATTGTCCCTAACCTTCGATCAAGAAGTCGAT
TCTTAACGACCTCAC
Found at i:1472446 original size:19 final size:20
Alignment explanation
Indices: 1472422--1472460 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1472412 GGAAATGTTA
*
1472422 AAAAAT-TGGTATTTTAGGG
1 AAAAATATGATATTTTAGGG
1472441 AAAAATAATGATATTTTAGG
1 AAAAAT-ATGATATTTTAGG
1472461 TGATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (20 bp):
AAAAATATGATATTTTAGGG
Found at i:1481761 original size:52 final size:52
Alignment explanation
Indices: 1481700--1481803 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
1481690 TAAAATGTAA
*
1481700 AGTTTAGGGACTAAATTAAAAAAGATAACATTTTTAGTAAAAAATAGGAATT
1 AGTTTAGGGACTAAATTAAAAAAGAGAACATTTTTAGTAAAAAATAGGAATT
*
1481752 AGTTTAGGGACTAAATTAAAAAAGAGAGCATTTTTAGTAAAAAATAGGAATT
1 AGTTTAGGGACTAAATTAAAAAAGAGAACATTTTTAGTAAAAAATAGGAATT
1481804 GAAGTTACAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.49, C:0.04, G:0.17, T:0.30
Consensus pattern (52 bp):
AGTTTAGGGACTAAATTAAAAAAGAGAACATTTTTAGTAAAAAATAGGAATT
Found at i:1483683 original size:169 final size:169
Alignment explanation
Indices: 1483405--1483746 Score: 611
Period size: 169 Copynumber: 2.0 Consensus size: 169
1483395 CTGTGCTACA
1483405 AGACCCAGTGCGTGTAAGTAAACCGTTAAACATCGATCCATTATGAGCTTTGAGCGGTACTTTTG
1 AGACCCAGTGCGTGTAAGTAAACCGTTAAACATCGATCCATTATGAGCTTTGAGCGGTACTTTTG
1483470 TGTGGTTTTTGAGATCATGTTATTGTTTTAAAGCAATCAATTATGGCTGAAAACTAAAGG-TTTT
66 TGTGGTTTTTGAGATCATGTTATTGTTTTAAAGCAATCAATTATGGCTG-AAACTAAAGGTTTTT
1483534 TTATATGATCACAGGAAGAAAGGAAACACC-TGGTCATTG
130 TTATATGATCACAGGAAGAAAGGAAACACCTTGGTCATTG
*
1483573 AGACCCAGTGCGTGTAAGT-AACCGTTAATCATCGATCCATTATGAGCTTTGAGCGGTTCTACTT
1 AGACCCAGTGCGTGTAAGTAAACCGTTAAACATCGATCCATTATGAGCTTTGAGCGG---TACTT
1483637 TTGTGTGG-TTTTGAGATCATGTTATTGTTTTAAAGCAATCAATTATGGCTGAAACTAAAGGTTT
63 TTGTGTGGTTTTTGAGATCATGTTATTGTTTTAAAGCAATCAATTATGGCTGAAACTAAAGGTTT
1483701 TTTTATATGATCACAGGAAGAAAGGAAACACCTTGGTCATTG
128 TTTTATATGATCACAGGAAGAAAGGAAACACCTTGGTCATTG
1483743 AGAC
1 AGAC
1483747 TGAAAATAGG
Statistics
Matches: 168, Mismatches: 1, Indels: 8
0.95 0.01 0.05
Matches are distributed among these distances:
167 36 0.21
168 29 0.17
169 77 0.46
170 26 0.15
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (169 bp):
AGACCCAGTGCGTGTAAGTAAACCGTTAAACATCGATCCATTATGAGCTTTGAGCGGTACTTTTG
TGTGGTTTTTGAGATCATGTTATTGTTTTAAAGCAATCAATTATGGCTGAAACTAAAGGTTTTTT
TATATGATCACAGGAAGAAAGGAAACACCTTGGTCATTG
Found at i:1487158 original size:25 final size:24
Alignment explanation
Indices: 1487099--1487174 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
1487089 GATTCGGAGG
1487099 AGGAGCGGAGGAG-GAAAAAGAGG-A
1 AGGAG-GGAGGAGAGAAAAA-AGGAA
*
1487123 A-GAGAGA-GAGAGAAGAAAAGGAA
1 AGGAGGGAGGAGAGAA-AAAAGGAA
*
1487146 AGGAGGGAGGAGAGAAAGAAAGAAA
1 AGGAGGGAGGAGAGAAA-AAAGGAA
1487171 AGGA
1 AGGA
1487175 AGGAAAGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
21 3 0.07
22 8 0.19
23 8 0.19
24 7 0.16
25 17 0.40
ACGTcount: A:0.54, C:0.01, G:0.45, T:0.00
Consensus pattern (24 bp):
AGGAGGGAGGAGAGAAAAAAGGAA
Found at i:1487158 original size:29 final size:29
Alignment explanation
Indices: 1487122--1487226 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 29
1487112 GAAAAAGAGG
1487122 AAGA-GAGAGAGAGAAGAAAAGGAAAGGA
1 AAGAGGAGAGAGAGAAGAAAAGGAAAGGA
** *
1487150 GGGAGGAGAGAAAGAAAGAAAAGG-AAGGA
1 AAGAGGAGAGAGAG-AAGAAAAGGAAAGGA
*
1487179 AAGAGAAGGAGAGAGAAGAAGAGAGGAAAAGGAA
1 AAGAGGA-GAGAGAGAAGAA-A-AGG-AAAGG-A
*
1487213 GAAGAGGAAAGAGA
1 -AAGAGGAGAGAGA
1487227 AAATTGTTGG
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.03
29 22 0.37
30 16 0.27
31 3 0.05
33 4 0.07
34 6 0.10
35 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (29 bp):
AAGAGGAGAGAGAGAAGAAAAGGAAAGGA
Found at i:1487178 original size:34 final size:37
Alignment explanation
Indices: 1487140--1487213 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
1487130 GAGAGAAGAA
*
1487140 AAGGAAAG-GAGGGAG-GAG-AGAA-AGAAAGAAAAGG
1 AAGGAAAGAGAAGGAGAGAGAAGAAGAG-AAGAAAAGG
*
1487174 AAGGAAAGAGAAGGAGAGAGAAGAAGAGAGGAAAAGG
1 AAGGAAAGAGAAGGAGAGAGAAGAAGAGAAGAAAAGG
1487211 AAG
1 AAG
1487214 AAGAGGAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 8 0.24
35 6 0.18
36 3 0.09
37 15 0.44
38 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (37 bp):
AAGGAAAGAGAAGGAGAGAGAAGAAGAGAAGAAAAGG
Found at i:1491476 original size:78 final size:78
Alignment explanation
Indices: 1491378--1491544 Score: 203
Period size: 78 Copynumber: 2.1 Consensus size: 78
1491368 ATATGGCGTT
* * *
1491378 GGACAATCAGGAGAAGGTATTGGGTATGGCATTGGACAAGCAGGGGGACAATTAGGAGAA-GGTA
1 GGACAATCAGGAGAAGGTATTGGGTACGACATTGGACAAGCAGGGGGACAATCAGGA-AATGGTA
*
1491442 TTGGGTATGGCAAC
65 TTGGGTACGGCAAC
* * * * *
1491456 GGACAATTAGGA-AATGGTATTGGGTACGACATTGGGCAATCATGGGGACAGTCAGGAAATGGTA
1 GGACAATCAGGAGAA-GGTATTGGGTACGACATTGGACAAGCAGGGGGACAATCAGGAAATGGTA
**
1491520 TTGGGTACGGCATT
65 TTGGGTACGGCAAC
1491534 GGACAATCAGG
1 GGACAATCAGG
1491545 GGGTCAGTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
77 4 0.05
78 71 0.95
ACGTcount: A:0.31, C:0.11, G:0.37, T:0.21
Consensus pattern (78 bp):
GGACAATCAGGAGAAGGTATTGGGTACGACATTGGACAAGCAGGGGGACAATCAGGAAATGGTAT
TGGGTACGGCAAC
Found at i:1491490 original size:45 final size:45
Alignment explanation
Indices: 1491454--1491675 Score: 151
Period size: 45 Copynumber: 5.0 Consensus size: 45
1491444 GGGTATGGCA
*
1491454 ACGGACAATTAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
1 ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
** * * * *
1491499 GGGGACAGTCAGGAAATGGTATTGGGTACGGCATTGGACAATCAG
1 ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
** * * * * * ***
1491544 GGGGTCAGTCAGGAAATAGTATTGGATATGGTGTTGGGCAATCAT
1 ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
** * * *** *
1491589 GGGGACAATCAGGAAATGGTATTGGATATGGTGTTGGACAATCAT
1 ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
** * ***
1491634 GGGGACAGTCAGG-AAT-GTATTGGGTACGGTGTTGGGCAATCA
1 ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCA
1491676 GTGGGATCAG
Statistics
Matches: 154, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
43 23 0.15
44 3 0.02
45 128 0.83
ACGTcount: A:0.29, C:0.11, G:0.35, T:0.25
Consensus pattern (45 bp):
ACGGACAATCAGGAAATGGTATTGGGTACGACATTGGGCAATCAT
Found at i:1491586 original size:90 final size:90
Alignment explanation
Indices: 1491464--1491840 Score: 301
Period size: 90 Copynumber: 4.4 Consensus size: 90
1491454 ACGGACAATT
*** * *
1491464 AGGAAATGGTATTGGGTACGACATTGGGCAATCATGGGGACAGTCAGGAAATGGTATTGGGTACG
1 AGGAAATGGTATTGGGTACGGTGTTGGGCAATCATGGGGACAGTCAGGAAATGGTATTGGATATG
** * *
1491529 GCATTGGACAATCAGGGGGTCAGTC
66 GTGTTGGACAATCATGGGGACAGTC
* * * *
1491554 AGGAAATAGTATTGGATATGGTGTTGGGCAATCATGGGGACAATCAGGAAATGGTATTGGATATG
1 AGGAAATGGTATTGGGTACGGTGTTGGGCAATCATGGGGACAGTCAGGAAATGGTATTGGATATG
1491619 GTGTTGGACAATCATGGGGACAGTC
66 GTGTTGGACAATCATGGGGACAGTC
* *
1491644 AGG-AAT-GTATTGGGTACGGTGTTGGGCAATCA-GTGGG--A-TCAGGAAATGGTGTTGGACAA
1 AGGAAATGGTATTGGGTACGGTGTTGGGCAATCATG-GGGACAGTCAGGAAATGGTATTGGA-TA
** * * ** *
1491703 TCATG-GGGACAGT--T-AAGA-AAT-
64 TGGTGTTGGACAATCATGGGGACAGTC
* * * * * *
1491724 -GGTATTGGGTA-CGGTGT-TGG-G-C----AATCAGGGGGACAGTCAGGAAATGGTATTGGATA
1 AGGAAAT-GGTATTGG-GTACGGTGTTGGGCAATCATGGGGACAGTCAGGAAATGGTATTGGATA
*
1491780 TGGTGTTGGACAATCATGGGGACAGTT
64 TGGTGTTGGACAATCATGGGGACAGTC
*
1491807 AGGAAATGGTATTGGGTACGGTGTTGGACAATCA
1 AGGAAATGGTATTGGGTACGGTGTTGGGCAATCA
1491841 GGAGGTCAAT
Statistics
Matches: 220, Mismatches: 42, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
75 8 0.04
76 1 0.00
77 5 0.02
78 23 0.10
79 2 0.01
80 4 0.02
81 8 0.04
82 9 0.04
83 7 0.03
84 8 0.04
85 24 0.11
86 5 0.02
87 1 0.00
88 27 0.12
89 3 0.01
90 85 0.39
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.25
Consensus pattern (90 bp):
AGGAAATGGTATTGGGTACGGTGTTGGGCAATCATGGGGACAGTCAGGAAATGGTATTGGATATG
GTGTTGGACAATCATGGGGACAGTC
Found at i:1491723 original size:118 final size:119
Alignment explanation
Indices: 1491571--1491799 Score: 336
Period size: 118 Copynumber: 1.9 Consensus size: 119
1491561 AGTATTGGAT
* * * *
1491571 ATGGTGTTGGGCAATCATGGGGACAATCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGG
1 ATGGTGTTGGACAATCATGGGGACAATCAAGAAATGGTATTGGATACGGTGTTGGACAATCAGGG
* *
1491636 GGACAGTCAGG-AAT-GTATTGGGTACGGTGTTGGGCAATCAGTGGGATCAGGAA
66 GGACAGTCAGGAAATGGTATTGGATACGGTGTTGGACAATCA-TGGGATCAGGAA
* * * *
1491689 ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGGCAATCAGGG
1 ATGGTGTTGGACAATCATGGGGACAATCAAGAAATGGTATTGGATACGGTGTTGGACAATCAGGG
*
1491754 GGACAGTCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGG
66 GGACAGTCAGGAAATGGTATTGGATACGGTGTTGGACAATCATGGG
1491800 GACAGTTAGG
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
118 68 0.69
119 7 0.07
120 23 0.23
ACGTcount: A:0.27, C:0.10, G:0.38, T:0.26
Consensus pattern (119 bp):
ATGGTGTTGGACAATCATGGGGACAATCAAGAAATGGTATTGGATACGGTGTTGGACAATCAGGG
GGACAGTCAGGAAATGGTATTGGATACGGTGTTGGACAATCATGGGATCAGGAA
Found at i:1491742 original size:163 final size:165
Alignment explanation
Indices: 1491532--1491841 Score: 507
Period size: 163 Copynumber: 1.9 Consensus size: 165
1491522 GGGTACGGCA
* * * *
1491532 TTGGACAATCAGGGGGTCAGTCAGGAAATAGTATTGGATATGGTGTTGGGCAATCATGGGGACAA
1 TTGGACAATCAGGGGGACAGTCAAGAAATAGTATTGGATACGGTGTTGGGCAATCAGGGGGACAA
1491597 TCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGGGACAGTCAGG-AAT-GTATTGGGTA
66 TCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGGGACAGTCAGGAAATGGTATTGGGTA
*
1491660 CGGTGTTGGGCAATCAGTGGGATCAGGAAATGGTG
131 CGGTGTTGGACAATCAGTGGGATCAGGAAATGGTG
* * * * *
1491695 TTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGGCAATCAGGGGGACAG
1 TTGGACAATCAGGGGGACAGTCAAGAAATAGTATTGGATACGGTGTTGGGCAATCAGGGGGACAA
*
1491760 TCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGGGACAGTTAGGAAATGGTATTGGGTA
66 TCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGGGACAGTCAGGAAATGGTATTGGGTA
1491825 CGGTGTTGGACAATCAG
131 CGGTGTTGGACAATCAG
1491842 GAGGTCAATC
Statistics
Matches: 134, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
163 105 0.78
164 3 0.02
165 26 0.19
ACGTcount: A:0.28, C:0.10, G:0.37, T:0.26
Consensus pattern (165 bp):
TTGGACAATCAGGGGGACAGTCAAGAAATAGTATTGGATACGGTGTTGGGCAATCAGGGGGACAA
TCAGGAAATGGTATTGGATATGGTGTTGGACAATCATGGGGACAGTCAGGAAATGGTATTGGGTA
CGGTGTTGGACAATCAGTGGGATCAGGAAATGGTG
Found at i:1491756 original size:45 final size:45
Alignment explanation
Indices: 1491691--1491842 Score: 241
Period size: 45 Copynumber: 3.4 Consensus size: 45
1491681 ATCAGGAAAT
* *
1491691 GGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTAC
1 GGTGTTGGACAATCAGGGGGACAGTTAGGAAATGGTATTGGGTAC
* * * *
1491736 GGTGTTGGGCAATCAGGGGGACAGTCAGGAAATGGTATTGGATAT
1 GGTGTTGGACAATCAGGGGGACAGTTAGGAAATGGTATTGGGTAC
*
1491781 GGTGTTGGACAATCATGGGGACAGTTAGGAAATGGTATTGGGTAC
1 GGTGTTGGACAATCAGGGGGACAGTTAGGAAATGGTATTGGGTAC
1491826 GGTGTTGGACAATCAGG
1 GGTGTTGGACAATCAGG
1491843 AGGTCAATCA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 95 1.00
ACGTcount: A:0.27, C:0.09, G:0.38, T:0.26
Consensus pattern (45 bp):
GGTGTTGGACAATCAGGGGGACAGTTAGGAAATGGTATTGGGTAC
Found at i:1491842 original size:90 final size:90
Alignment explanation
Indices: 1491689--1491879 Score: 292
Period size: 90 Copynumber: 2.1 Consensus size: 90
1491679 GGATCAGGAA
* *
1491689 ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGGCAATCAGGG
1 ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGACAATCAGGA
* * ***
1491754 GGACAGTCAGGAAATGGTATTGGAT
66 GGACAATCAAGAAACAATATTGGAT
*
1491779 ATGGTGTTGGACAATCATGGGGACAGTTAGGAAATGGTATTGGGTACGGTGTTGGACAATCAGGA
1 ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGACAATCAGGA
* *
1491844 GGTCAATCAAGAAACAATGTTGGAT
66 GGACAATCAAGAAACAATATTGGAT
1491869 ATGGTGTTGGA
1 ATGGTGTTGGA
1491880 ATTGGGTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.26
Consensus pattern (90 bp):
ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGTACGGTGTTGGACAATCAGGA
GGACAATCAAGAAACAATATTGGAT
Found at i:1491875 original size:45 final size:45
Alignment explanation
Indices: 1491689--1491879 Score: 150
Period size: 45 Copynumber: 4.2 Consensus size: 45
1491679 GGATCAGGAA
* * *** *
1491689 ATGGTGTTGGACAATCATGGGGACAGTTAAGAAATGGTATTGGGT
1 ATGGTGTTGGACAATCATGGGGACAATCAAGAAACAATATTGGAT
* * * * * ***
1491734 ACGGTGTTGGGCAATCAGGGGGACAGTCAGGAAATGGTATTGGAT
1 ATGGTGTTGGACAATCATGGGGACAATCAAGAAACAATATTGGAT
* * * *** *
1491779 ATGGTGTTGGACAATCATGGGGACAGTTAGGAAATGGTATTGGGT
1 ATGGTGTTGGACAATCATGGGGACAATCAAGAAACAATATTGGAT
* * *
1491824 ACGGTGTTGGACAATCA-GGAGGTCAATCAAGAAACAATGTTGGAT
1 ATGGTGTTGGACAATCATGG-GGACAATCAAGAAACAATATTGGAT
1491869 ATGGTGTTGGA
1 ATGGTGTTGGA
1491880 ATTGGGTCAA
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 2 0.02
45 121 0.98
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.26
Consensus pattern (45 bp):
ATGGTGTTGGACAATCATGGGGACAATCAAGAAACAATATTGGAT
Found at i:1493245 original size:18 final size:17
Alignment explanation
Indices: 1493193--1493245 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
1493183 AAAGATACAT
*
1493193 ATAAAACTAAGTTCTTTTA
1 ATAAAA-TAAGTT-TTTCA
*
1493212 ATAAAATAACTTTTTCA
1 ATAAAATAAGTTTTTCA
1493229 ATAAAATTAAGTTTTTC
1 ATAAAA-TAAGTTTTTC
1493246 TAAGACTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 10 0.33
18 14 0.47
19 6 0.20
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (17 bp):
ATAAAATAAGTTTTTCA
Found at i:1495513 original size:45 final size:45
Alignment explanation
Indices: 1495462--1495714 Score: 200
Period size: 45 Copynumber: 5.7 Consensus size: 45
1495452 GGGTATCGGA
*
1495462 TATGGTGTTGGACAATCCGGAGGTCAATCAGGAAATAGTATTGGG
1 TATGGTGTTGGACAATCGGGAGGTCAATCAGGAAATAGTATTGGG
* * * ** * *
1495507 TATGGTGTTGGACAATCGGGGGGGTCAATTAGGAAACAACATTAGA
1 TATGGTGTTGGACAATC-GGGAGGTCAATCAGGAAATAGTATTGGG
** * * * *
1495553 TATGGTAATGG--AATTGGCAATGG--AGAT--GGAGAA-GGTGTTGGG
1 TATGGTGTTGGACAATCGG-GA-GGTCA-ATCAGGA-AATAGTATTGGG
* *
1495595 TATGGTGTCGGACAATCGGGAGGTCAATCAAGAAATAGTATTGGG
1 TATGGTGTTGGACAATCGGGAGGTCAATCAGGAAATAGTATTGGG
* * * *
1495640 TATGGTGTTGGGCAATTAGGG-GGTCAATTAAGAAATAGTATTGGG
1 TATGGTGTTGGACAA-TCGGGAGGTCAATCAGGAAATAGTATTGGG
*
1495685 TATGGTGTTGGACAATCTGG-GGTCAATCAG
1 TATGGTGTTGGACAATCGGGAGGTCAATCAG
1495715 AAAACAACAT
Statistics
Matches: 159, Mismatches: 36, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
42 16 0.10
43 8 0.05
44 24 0.15
45 78 0.49
46 33 0.21
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.27
Consensus pattern (45 bp):
TATGGTGTTGGACAATCGGGAGGTCAATCAGGAAATAGTATTGGG
Found at i:1495557 original size:46 final size:45
Alignment explanation
Indices: 1495460--1495558 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 45
1495450 AAGGGTATCG
* ** *
1495460 GATATGGTGTTGGACAATCCGGAGGTCAATCAGGAAATAGTATTG
1 GATATGGTGTTGGACAATCCGGAGGTCAATCAGGAAACAACATTA
* * * *
1495505 GGTATGGTGTTGGACAATCGGGGGGGTCAATTAGGAAACAACATTA
1 GATATGGTGTTGGACAATC-CGGAGGTCAATCAGGAAACAACATTA
1495551 GATATGGT
1 GATATGGT
1495559 AATGGAATTG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
45 18 0.41
46 26 0.59
ACGTcount: A:0.30, C:0.10, G:0.33, T:0.26
Consensus pattern (45 bp):
GATATGGTGTTGGACAATCCGGAGGTCAATCAGGAAACAACATTA
Found at i:1495599 original size:133 final size:132
Alignment explanation
Indices: 1495432--1495674 Score: 364
Period size: 133 Copynumber: 1.8 Consensus size: 132
1495422 CGATATTGGG
* *
1495432 ATTGGCAATGGAAATGGAAAGGGTATCGGATATGGTGTTGGACAATCCGGAGGTCAATCAGGAAA
1 ATTGGCAATGGAAATGGAAAGGGTATCGGATATGGTGTCGGACAATCCGGAGGTCAATCAAGAAA
* *
1495497 TAGTATTGGGTATGGTGTTGGACAATCGGGGGGGTCAATTAGGAAACAACATTAGATATGGTAAT
66 TAGTATTGGGTATGGTGTTGGACAAT-GAGGGGGTCAATTAAGAAACAACATTAGATATGGTAAT
1495562 GGA
130 GGA
* * *
1495565 ATTGGCAATGGAGATGGAGAAGGTGT-T-GGGTATGGTGTCGGACAATCGGGAGGTCAATCAAGA
1 ATTGGCAATGGAAATGGA-AAGG-GTATCGGATATGGTGTCGGACAATCCGGAGGTCAATCAAGA
* *
1495628 AATAGTATTGGGTATGGTGTTGGGCAATTAGGGGGTCAATTAAGAAA
64 AATAGTATTGGGTATGGTGTTGGACAATGAGGGGGTCAATTAAGAAA
1495675 TAGTATTGGG
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
132 16 0.16
133 76 0.77
134 5 0.05
135 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.35, T:0.25
Consensus pattern (132 bp):
ATTGGCAATGGAAATGGAAAGGGTATCGGATATGGTGTCGGACAATCCGGAGGTCAATCAAGAAA
TAGTATTGGGTATGGTGTTGGACAATGAGGGGGTCAATTAAGAAACAACATTAGATATGGTAATG
GA
Found at i:1495758 original size:176 final size:177
Alignment explanation
Indices: 1495454--1495827 Score: 525
Period size: 176 Copynumber: 2.1 Consensus size: 177
1495444 AATGGAAAGG
* * *
1495454 GTATCGGATATGGTGTTGGACAATCCGGAGGTCAATCAGGAAATAGTATTGGGTATGGTGTTGGA
1 GTATTGGATATGGTGTTGGACAATCAGGAGGTCAATCAAGAAATAGTATTGGGTATGGTGTTGGA
* *
1495519 CAATCGGGGGGGTCAATTAGGAAACAACATTAGATATGGTAATGGAATTGGCAATGGAGATGGAG
66 CAATC-GGGGGGTCAATCAGAAAACAACATTAGATATGGTAATGGAATTGGCAATGGAGATGGAG
* * *
1495584 AAGGTGTTGGGTATGGTGTCGGACAATCGGGAGGTCAATCAAGAAATA
130 AAGGCGTTAGGTACGGTGTCGGACAATCGGGAGGTCAATCAAGAAATA
* * * * *
1495632 GTATTGGGTATGGTGTTGGGCAATTAGGGGGTCAATTAAGAAATAGTATTGGGTATGGTGTTGGA
1 GTATTGGATATGGTGTTGGACAATCAGGAGGTCAATCAAGAAATAGTATTGGGTATGGTGTTGGA
* * *
1495697 CAATC-TGGGGTCAATCAGAAAACAACATTGGATATGGTATTGGAATTGGCAATGGAGATGGAGA
66 CAATCGGGGGGTCAATCAGAAAACAACATTAGATATGGTAATGGAATTGGCAATGGAGATGGAGA
* * * * *
1495761 AGGCGTTAGGTACGGTGTTGGACAATTGGGAGGTCAGTCAGGAAATT
131 AGGCGTTAGGTACGGTGTCGGACAATCGGGAGGTCAATCAAGAAATA
* *
1495808 GTGTTGGATATGGTATTGGA
1 GTATTGGATATGGTGTTGGA
1495828 ATTGGCAATG
Statistics
Matches: 171, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
176 109 0.64
178 62 0.36
ACGTcount: A:0.29, C:0.08, G:0.35, T:0.27
Consensus pattern (177 bp):
GTATTGGATATGGTGTTGGACAATCAGGAGGTCAATCAAGAAATAGTATTGGGTATGGTGTTGGA
CAATCGGGGGGTCAATCAGAAAACAACATTAGATATGGTAATGGAATTGGCAATGGAGATGGAGA
AGGCGTTAGGTACGGTGTCGGACAATCGGGAGGTCAATCAAGAAATA
Found at i:1495818 original size:87 final size:86
Alignment explanation
Indices: 1495502--1496008 Score: 402
Period size: 87 Copynumber: 5.7 Consensus size: 86
1495492 GGAAATAGTA
* * * * * *
1495502 TTGGGTATGGTGTTGGACAATCGGGGGGGTCAATTAGGAAACA-ACATTAGATATGGTAATGGAA
1 TTGGGTACGGTGTTGGACAATC-GGGAGG-CAATCAGGAAA-AGACGTTGGATATGGTATTGGAA
1495566 TTGGCAATGGAGATGGAGAAGGTG
63 TTGGCAATGGAGATGGAGAAGGTG
* * * * *
1495590 TTGGGTATGGTGTCGGACAATCGGGAGGTCAATCAAGAAATAGTA--TTGGGTATGGTGTTGGGC
1 TTGGGTACGGTGTTGGACAATCGGGAGG-CAATCAGGAAA-AG-ACGTTGGATATGGTATT-GG-
*** * ** * *
1495653 AATTAGGGGGT-CA-ATTAAGAAATAGTA
61 AATT-GGCAATGGAGATGGAG-AA-GGTG
* * * *
1495680 TTGGGTATGGTGTTGGACAATCTGGG-GTCAATCA-GAAAACAACATTGGATATGGTATTGGAAT
1 TTGGGTACGGTGTTGGACAATC-GGGAGGCAATCAGGAAAA-GACGTTGGATATGGTATTGGAAT
*
1495743 TGGCAATGGAGATGGAGAAGGCG
64 TGGCAATGGAGATGGAGAAGGTG
* * * * *
1495766 TTAGGTACGGTGTTGGACAATTGGGAGGTCAGTCAGGAAATTG-TGTTGGATATGGTATTGGAAT
1 TTGGGTACGGTGTTGGACAATCGGGAGG-CAATCAGGAAA-AGACGTTGGATATGGTATTGGAAT
1495830 TGGCAATGGAGATGGAGAAGGTGTTGGTG
64 TGGCAATGGAGATGGAGAA------GGTG
* * * *
1495859 TTGGGTACGGTGTTGGACAATCGGGAGGCTAATCAGGAAAAGACGTTGGGTATTGAATTAGAATT
1 TTGGGTACGGTGTTGGACAATCGGGAGGC-AATCAGGAAAAGACGTTGGATATGGTATTGGAATT
1495924 GGCAATGGAGATGGAGAAGGTG
65 GGCAATGGAGATGGAGAAGGTG
** * *
1495946 TTGGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAACA-ACATTGGATATGGCATTGGAA
1 TTGGGTACGGTGTTGGACAATCGGGAGG-CAATCAGGAAA-AGACGTTGGATATGGTATTGGAA
1496009 ATGGAAAGGG
Statistics
Matches: 335, Mismatches: 57, Indels: 55
0.75 0.13 0.12
Matches are distributed among these distances:
85 3 0.01
86 24 0.07
87 134 0.40
88 43 0.13
89 26 0.08
90 27 0.08
91 3 0.01
92 2 0.01
93 73 0.22
ACGTcount: A:0.29, C:0.08, G:0.36, T:0.26
Consensus pattern (86 bp):
TTGGGTACGGTGTTGGACAATCGGGAGGCAATCAGGAAAAGACGTTGGATATGGTATTGGAATTG
GCAATGGAGATGGAGAAGGTG
Found at i:1495997 original size:180 final size:179
Alignment explanation
Indices: 1495502--1496008 Score: 429
Period size: 176 Copynumber: 2.8 Consensus size: 179
1495492 GGAAATAGTA
* * * * *
1495502 TTGGGTATGGTGTTGGACAATCGGGGGGGTCAATTAGGAAACAACATTAGATATGGTAA-TGGAA
1 TTGGGTACGGTGTTGGACAATC--GGGGGTCAATCAGAAAACAACATTGGATATGG-AATTAGAA
* * * ** * * * *
1495566 TTGGCAATGGAGATGGAGAAGGTGTTGGGTATGGTGTCGGACAATCGGGAGGTCAATCAAGAAAT
63 TTGGCAATGGAGATGGAGAAGGCGTTAGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAAC
** * ** *** * ** * * *
1495631 AGTATTGGGTATGGTGTTGGGCAATTAGGGGGT-CA-ATTAAGAA----ATAGTA
128 AACATTGGATATGGCATT-GG-AATT-GGCAATGGAGATGGAGAAGGTGTTGGTG
* * * *
1495680 TTGGGTATGGTGTTGGACAATCTGGGGTCAATCAGAAAACAACATTGGATATGGTATTGGAATTG
1 TTGGGTACGGTGTTGGACAATCGGGGGTCAATCAGAAAACAACATTGGATATGGAATTAGAATTG
** * * * ****
1495745 GCAATGGAGATGGAGAAGGCGTTAGGTACGGTGTTGGACAATTGGGAGGTCAGTCAGGAAATTGT
66 GCAATGGAGATGGAGAAGGCGTTAGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAACAAC
* *
1495810 GTTGGATATGGTATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGTG
131 ATTGGATATGGCATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGTG
* * * *
1495859 TTGGGTACGGTGTTGGACAATCGGGAGG-CTAATCAGGAAAA-GACGTTGGGTATTGAATTAGAA
1 TTGGGTACGGTGTTGGACAATCGGG-GGTC-AATCA-GAAAACAACATTGGATATGGAATTAGAA
* *
1495922 TTGGCAATGGAGATGGAGAAGGTGTTGGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAAC
63 TTGGCAATGGAGATGGAGAAGGCGTTAGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAAC
1495987 AACATTGGATATGGCATTGGAA
128 AACATTGGATATGGCATTGGAA
1496009 ATGGAAAGGG
Statistics
Matches: 273, Mismatches: 46, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
173 3 0.01
174 5 0.02
175 9 0.03
176 105 0.38
178 22 0.08
179 27 0.10
180 97 0.36
181 5 0.02
ACGTcount: A:0.29, C:0.08, G:0.36, T:0.26
Consensus pattern (179 bp):
TTGGGTACGGTGTTGGACAATCGGGGGTCAATCAGAAAACAACATTGGATATGGAATTAGAATTG
GCAATGGAGATGGAGAAGGCGTTAGGTACGGCATTGGACAATCGGGAGGCCAATCAGGAAACAAC
ATTGGATATGGCATTGGAATTGGCAATGGAGATGGAGAAGGTGTTGGTG
Found at i:1509810 original size:24 final size:23
Alignment explanation
Indices: 1509758--1509810 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
1509748 TGTAGTATTC
1509758 AGTTTTTTGCAATTAGATACTCA
1 AGTTTTTTGCAATTAGATACTCA
* *
1509781 ATTTTTTGTGCTATTAGATACAT-A
1 AGTTTTT-TGCAATTAGATAC-TCA
1509805 AGTTTT
1 AGTTTT
1509811 GTTATTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 6 0.24
24 18 0.72
25 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
AGTTTTTTGCAATTAGATACTCA
Found at i:1510144 original size:20 final size:20
Alignment explanation
Indices: 1510121--1510174 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
1510111 GATTCGCAAC
*
1510121 GCGATTTTGAAAAATGTGTT
1 GCGATATTGAAAAATGTGTT
1510141 GCGATAGTT--AAAATGTGTT
1 GCGATA-TTGAAAAATGTGTT
*
1510160 GCGATAGTGAAAAAT
1 GCGATATTGAAAAAT
1510175 CCAAAATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 16 0.55
20 10 0.34
21 2 0.07
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.33
Consensus pattern (20 bp):
GCGATATTGAAAAATGTGTT
Found at i:1510155 original size:19 final size:19
Alignment explanation
Indices: 1510131--1510172 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
1510121 GCGATTTTGA
*
1510131 AAAATGTGTTGCGATAGTT
1 AAAATGTGTTGCGATAGTG
1510150 AAAATGTGTTGCGATAGTG
1 AAAATGTGTTGCGATAGTG
1510169 AAAA
1 AAAA
1510173 ATCCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (19 bp):
AAAATGTGTTGCGATAGTG
Found at i:1510584 original size:21 final size:21
Alignment explanation
Indices: 1510567--1510657 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
1510557 ATTTTGGAAA
1510567 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
1510588 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
*
1510607 ATCGCAACGCGATCTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
1510628 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
1510649 ATCGCAACG
1 ATCGCAACG
1510658 AATTTGGACT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
19 16 0.27
21 43 0.73
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:1510614 original size:40 final size:40
Alignment explanation
Indices: 1510559--1510636 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
1510549 TCGTTGCGAT
1510559 TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAA
*
1510599 TTTGGAAAATCGCAACGCGATCTTGGACTATCGCAACG
1 TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACG
1510637 TGAACTTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (40 bp):
TTTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAA
Found at i:1510665 original size:40 final size:38
Alignment explanation
Indices: 1510560--1510668 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 38
1510550 CGTTGCGATT
* *
1510560 TTGGAAAATCGCAACGCGAACTTGGACTATCGCAACGAAT
1 TTGGAAAATCGCAA--CGAATTTGGACTATCGCAACGAAC
*
1510600 TTGGAAAATCGCAACGCGATCTTGGACTATCGCAACGTGAAC
1 TTGGAAAATCGCAACG-AAT-TTGGACTATCGCAAC--GAAC
**
1510642 TTGGACTATCGCAACGAATTTGGACTA
1 TTGGAAAATCGCAACGAATTTGGACTA
1510669 ACGTAAATTT
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
38 2 0.03
39 1 0.02
40 37 0.63
41 2 0.03
42 17 0.29
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (38 bp):
TTGGAAAATCGCAACGAATTTGGACTATCGCAACGAAC
Found at i:1510700 original size:21 final size:21
Alignment explanation
Indices: 1510683--1510763 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
1510673 AAATTTGGAA
1510683 AATCGCATTGCGATTTTGTAT
1 AATCGCATTGCGATTTTGTAT
* * * * *
1510704 TATCGCGTTGC-A-ATAGTCAG
1 AATCGCATTGCGATTTTGT-AT
*
1510724 AATCGCGTTGCGATTTTGTAT
1 AATCGCATTGCGATTTTGTAT
*
1510745 TATCGCATTGCGATTTTGT
1 AATCGCATTGCGATTTTGT
1510764 TGGTCATTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.07
20 12 0.26
21 28 0.61
22 3 0.07
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (21 bp):
AATCGCATTGCGATTTTGTAT
Found at i:1519512 original size:15 final size:15
Alignment explanation
Indices: 1519492--1519534 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
1519482 ATAAGGTTAT
1519492 TTATTTTAAAATAAA
1 TTATTTTAAAATAAA
1519507 TTATTTTAAAATAAA
1 TTATTTTAAAATAAA
*
1519522 TTATTATAAAATA
1 TTATTTTAAAATA
1519535 TTGATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATTTTAAAATAAA
Found at i:1519566 original size:22 final size:22
Alignment explanation
Indices: 1519538--1519593 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
1519528 TAAAATATTG
*
1519538 ATTTATTTTAAAATATGAATTA
1 ATTTATTTTAAAACATGAATTA
*
1519560 ATTTATTTTAAAACATGAATTG
1 ATTTATTTTAAAACATGAATTA
1519582 ATTTATTTTAAA
1 ATTTATTTTAAA
1519594 TAATTTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAACATGAATTA
Found at i:1519618 original size:54 final size:54
Alignment explanation
Indices: 1519551--1519657 Score: 187
Period size: 54 Copynumber: 2.0 Consensus size: 54
1519541 TATTTTAAAA
1519551 TATGAATTAATTTATTTTAAAACATGAATTGATTTATTTTAAATAATTTATTAG
1 TATGAATTAATTTATTTTAAAACATGAATTGATTTATTTTAAATAATTTATTAG
* * *
1519605 TATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 TATGAATTAATTTATTTTAAAACATGAATTGATTTATTTTAAATAATTTATTA
1519658 TTGTAGTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.39, C:0.01, G:0.08, T:0.51
Consensus pattern (54 bp):
TATGAATTAATTTATTTTAAAACATGAATTGATTTATTTTAAATAATTTATTAG
Found at i:1519630 original size:22 final size:22
Alignment explanation
Indices: 1519605--1519647 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1519595 AATTTATTAG
1519605 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
1519627 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
1519648 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:1519707 original size:31 final size:31
Alignment explanation
Indices: 1519672--1519730 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1519662 AGTTATATGG
* *
1519672 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
1519703 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
1519731 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:1528310 original size:14 final size:15
Alignment explanation
Indices: 1528283--1528311 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1528273 TAGTAGGTTG
1528283 ATTATTGATAATACT
1 ATTATTGATAATACT
1528298 ATTATTG-TAATACT
1 ATTATTGATAATACT
1528312 CAAACTCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
ATTATTGATAATACT
Found at i:1531261 original size:126 final size:125
Alignment explanation
Indices: 1531095--1531340 Score: 404
Period size: 126 Copynumber: 2.0 Consensus size: 125
1531085 TTAGTAATAT
* * *
1531095 TATTATTTTTAGAGAATAGGGCAATTCATAACGGATGTCTTTCACGGAAACTGCTCTTAACCAGG
1 TATTATTTTTAGAGAATAGGACAATTCATAACGGAGGTCTTTCACGAAAACTGCTCTTAACCAGG
*
1531160 CGTTGGGGGCAATCTATTACTCTACCTCCCCCTTATCCCATTACATATGGGAATAGGGTAA
66 CGTTGGGGACAATCTATTACTCTACCT-CCCCTTATCCCATTACATATGGGAATAGGGTAA
* *
1531221 TATTATTTTTA-AGAAATAGGATAATTCATAACGGAGGTCTTTCACGAAAACTGTTCTTAACCAG
1 TATTATTTTTAGAG-AATAGGACAATTCATAACGGAGGTCTTTCACGAAAACTGCTCTTAACCAG
*
1531285 GTGTTGGGGACAATCTATTACTCTACCTCCCCTTATCCCATTACATATGGGAATAG
65 GCGTTGGGGACAATCTATTACTCTACCTCCCCTTATCCCATTACATATGGGAATAG
1531341 AGTCAACTAA
Statistics
Matches: 112, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
125 30 0.27
126 82 0.73
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (125 bp):
TATTATTTTTAGAGAATAGGACAATTCATAACGGAGGTCTTTCACGAAAACTGCTCTTAACCAGG
CGTTGGGGACAATCTATTACTCTACCTCCCCTTATCCCATTACATATGGGAATAGGGTAA
Found at i:1544006 original size:21 final size:22
Alignment explanation
Indices: 1543955--1544013 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
1543945 AGAAAAAAAA
1543955 TTAAAATTTTGGATCTCTATTC
1 TTAAAATTTTGGATCTCTATTC
*
1543977 TTAAAATTTTGTATCTCTATTC
1 TTAAAATTTTGGATCTCTATTC
1543999 TT-AAATTTCTGGATC
1 TTAAAATTT-TGGATC
1544014 CGTCACTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 6 0.18
22 28 0.82
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (22 bp):
TTAAAATTTTGGATCTCTATTC
Found at i:1548095 original size:20 final size:20
Alignment explanation
Indices: 1548072--1548155 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
1548062 TAATTACATG
*
1548072 ACATTACAGTACATTACCTT
1 ACATTAGAGTACATTACCTT
* * ***
1548092 ACATTAGAAGCATTATTA-GAA
1 ACATTAG-AGTA-CATTACCTT
* *
1548113 ACATTAGAATACATTATCTT
1 ACATTAGAGTACATTACCTT
1548133 ACATTAGAGTACATTACCTT
1 ACATTAGAGTACATTACCTT
1548153 ACA
1 ACA
1548156 CAACATTACT
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
19 4 0.09
20 29 0.62
21 10 0.21
22 4 0.09
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (20 bp):
ACATTAGAGTACATTACCTT
Found at i:1548783 original size:18 final size:18
Alignment explanation
Indices: 1548748--1548813 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
1548738 GAGCTAAAAA
* *
1548748 TAAAATTGAAATATAAAT
1 TAAAATTCAAATACAAAT
* *
1548766 TAAAATTCAATTCCAAAT
1 TAAAATTCAAATACAAAT
* *
1548784 TGAAATACAAATACAAAT
1 TAAAATTCAAATACAAAT
*
1548802 TCAAATTCAAAT
1 TAAAATTCAAAT
1548814 TTATATTGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAATTCAAATACAAAT
Found at i:1548784 original size:30 final size:30
Alignment explanation
Indices: 1548750--1548814 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
1548740 GCTAAAAATA
*
1548750 AAATTGAAATATAAATTA-AAATTC-AATTCC
1 AAATTGAAATACAAA-TACAAATTCAAATT-C
1548780 AAATTGAAATACAAATACAAATTCAAATTC
1 AAATTGAAATACAAATACAAATTCAAATTC
1548810 AAATT
1 AAATT
1548815 TATATTGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 2 0.06
30 26 0.81
31 4 0.12
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATTGAAATACAAATACAAATTCAAATTC
Found at i:1548789 original size:6 final size:6
Alignment explanation
Indices: 1548762--1548814 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
1548752 ATTGAAATAT
* * * *
1548762 AAATTA AAATTC -AATTCC AAATTG AAATAC AAATAC AAATTC AAATTC
1 AAATTC AAATTC AAATT-C AAATTC AAATTC AAATTC AAATTC AAATTC
1548810 AAATT
1 AAATT
1548815 TATATTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
5 4 0.10
6 32 0.80
7 4 0.10
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:1549620 original size:24 final size:25
Alignment explanation
Indices: 1549559--1549687 Score: 89
Period size: 26 Copynumber: 5.0 Consensus size: 25
1549549 TTTCTATATT
* * *
1549559 TGTGCTTTTCTAATATTTTAGTATTATA
1 TGTGCTTTTCTAATATTTCA--A-TGTG
* *
1549587 TGTGCTTTTCTACTATTTTAATGTG
1 TGTGCTTTTCTAATATTTCAATGTG
*
1549612 TGTG-TTTTCTAATATTTCAATGTAA
1 TGTGCTTTTCTAATATTTCAATGT-G
* ** * *
1549637 TTTTATTTTCTAATTTTTCAATGTA
1 TGTGCTTTTCTAATATTTCAATGTG
*
1549662 TGTTCATGTTTCTAATATTTCAATGT
1 TGTGC-T-TTTCTAATATTTCAATGT
1549688 AATTATATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
24 17 0.20
25 12 0.14
26 20 0.24
27 17 0.20
28 19 0.22
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (25 bp):
TGTGCTTTTCTAATATTTCAATGTG
Found at i:1549655 original size:26 final size:26
Alignment explanation
Indices: 1549616--1549729 Score: 124
Period size: 26 Copynumber: 4.3 Consensus size: 26
1549606 AATGTGTGTG
1549616 TTTTCTAATATTTCAATGTAAT-TTTA
1 TTTTCTAATATTTCAATGT-ATGTTTA
* *
1549642 TTTTCTAATTTTTCAATGTATGTTCA
1 TTTTCTAATATTTCAATGTATGTTTA
*
1549668 TGTTTCTAATATTTCAATGTAAT-TATA
1 T-TTTCTAATATTTCAATGT-ATGTTTA
* *
1549695 TTTTGTAATATTTTTCAATGTATGTGTA
1 TTTTCTAATA--TTTCAATGTATGTTTA
1549723 TTTTCTA
1 TTTTCTA
1549730 TAAAAAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.03
26 30 0.41
27 22 0.30
28 20 0.27
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTCTAATATTTCAATGTATGTTTA
Found at i:1549681 original size:53 final size:55
Alignment explanation
Indices: 1549617--1549719 Score: 174
Period size: 53 Copynumber: 1.9 Consensus size: 55
1549607 ATGTGTGTGT
*
1549617 TTTCTAATATTTCAATGTAATTTTATTTTCT-A-ATTTTTCAATGTATGTTCATG
1 TTTCTAATATTTCAATGTAATTATATTTTCTAATATTTTTCAATGTATGTTCATG
*
1549670 TTTCTAATATTTCAATGTAATTATATTTTGTAATATTTTTCAATGTATGT
1 TTTCTAATATTTCAATGTAATTATATTTTCTAATATTTTTCAATGTATGT
1549720 GTATTTTCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
53 29 0.63
54 1 0.02
55 16 0.35
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (55 bp):
TTTCTAATATTTCAATGTAATTATATTTTCTAATATTTTTCAATGTATGTTCATG
Found at i:1549724 original size:28 final size:27
Alignment explanation
Indices: 1549592--1549729 Score: 107
Period size: 26 Copynumber: 5.3 Consensus size: 27
1549582 TTATATGTGC
* * *
1549592 TTTTCTACTA-TTTT-AATGTGTG-TG
1 TTTTCTAATATTTTTCAATGTATGTTA
*
1549616 TTTTCTAATA--TTTCAATGTAATTTTA
1 TTTTCTAATATTTTTCAATGT-ATGTTA
1549642 TTTTCT-A-ATTTTTCAATGTATGTTCA
1 TTTTCTAATATTTTTCAATGTATGTT-A
1549668 TGTTTCTAATA--TTTCAATGTAAT-TATA
1 T-TTTCTAATATTTTTCAATGT-ATGT-TA
*
1549695 TTTTGTAATATTTTTCAATGTATGTGTA
1 TTTTCTAATATTTTTCAATGTATGT-TA
1549723 TTTTCTA
1 TTTTCTA
1549730 TAAAAAAAAA
Statistics
Matches: 92, Mismatches: 8, Indels: 24
0.74 0.06 0.19
Matches are distributed among these distances:
23 3 0.03
24 15 0.16
25 6 0.07
26 26 0.28
27 19 0.21
28 22 0.24
29 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.09, T:0.57
Consensus pattern (27 bp):
TTTTCTAATATTTTTCAATGTATGTTA
Found at i:1549905 original size:25 final size:25
Alignment explanation
Indices: 1549815--1549944 Score: 111
Period size: 25 Copynumber: 5.2 Consensus size: 25
1549805 ATTTTACTTT
1549815 AAACCCTAAACCAAC-TTAACCT-AA
1 AAACCCTAAACC-ACTTTAACCTAAA
* * *
1549839 AAACTCAAAACCACATTAACCTAAA
1 AAACCCTAAACCACTTTAACCTAAA
* * * *
1549864 AAACCCTAAATCGCTTTCACTTAAA
1 AAACCCTAAACCACTTTAACCTAAA
* *
1549889 AAATCCTAAACCACTTTAACATAAACA
1 AAACCCTAAACCACTTTAACCT-AA-A
** *
1549916 AAACATTAAACCACTCTAACCTAAA
1 AAACCCTAAACCACTTTAACCTAAA
1549941 AAAC
1 AAAC
1549945 ATTACAAATT
Statistics
Matches: 83, Mismatches: 19, Indels: 7
0.76 0.17 0.06
Matches are distributed among these distances:
23 2 0.02
24 17 0.20
25 42 0.51
26 4 0.05
27 18 0.22
ACGTcount: A:0.51, C:0.28, G:0.01, T:0.20
Consensus pattern (25 bp):
AAACCCTAAACCACTTTAACCTAAA
Found at i:1549925 original size:27 final size:25
Alignment explanation
Indices: 1549895--1549948 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 25
1549885 TAAAAAATCC
*
1549895 TAAACCACTTTAACATAAACAAAACAT
1 TAAACCACTCTAACAT-AA-AAAACAT
*
1549922 TAAACCACTCTAACCTAAAAAACAT
1 TAAACCACTCTAACATAAAAAACAT
1549947 TA
1 TA
1549949 CAAATTACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (25 bp):
TAAACCACTCTAACATAAAAAACAT
Found at i:1553462 original size:3 final size:3
Alignment explanation
Indices: 1553454--1553479 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1553444 AAATCAATTG
1553454 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1553480 AGAGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1566535 original size:2 final size:2
Alignment explanation
Indices: 1566528--1566559 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1566518 TATGGCTTTC
1566528 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
1566560 TCAGATCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1568983 original size:58 final size:58
Alignment explanation
Indices: 1568914--1569036 Score: 223
Period size: 58 Copynumber: 2.2 Consensus size: 58
1568904 AGGTATATAT
*
1568914 GTCATGTAACACCTCGAAATCCAGATAATAAGTTTTCATTGTAAACAAGAAATTTATC
1 GTCATGTAACACCTCGAAATCCAGATAATAAATTTTCATTGTAAACAAGAAATTTATC
1568972 GTCATGTAACACCTCGAAATCCAGATAATAAATTTTCATTGTAAACAAGAAATTTATC
1 GTCATGTAACACCTCGAAATCCAGATAATAAATTTTCATTGTAAACAAGAAATTTATC
1569030 -TC-TGTAA
1 GTCATGTAA
1569037 ATAGATCTTA
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
56 5 0.08
57 2 0.03
58 57 0.89
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (58 bp):
GTCATGTAACACCTCGAAATCCAGATAATAAATTTTCATTGTAAACAAGAAATTTATC
Found at i:1569094 original size:22 final size:22
Alignment explanation
Indices: 1569069--1569138 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
1569059 TATATGTAAA
* *
1569069 TTAATTAAACCCTAAATTGTAT
1 TTAATCAAACCCTATATTGTAT
* *
1569091 TTAAATGCAAA-TC-ATATTGTAC
1 TT-AAT-CAAACCCTATATTGTAT
*
1569113 TTAATGAAACCCTATATTGTAT
1 TTAATCAAACCCTATATTGTAT
1569135 TTAA
1 TTAA
1569139 ATGTGAATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 3 0.08
21 4 0.11
22 23 0.62
23 4 0.11
24 3 0.08
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (22 bp):
TTAATCAAACCCTATATTGTAT
Found at i:1569123 original size:44 final size:44
Alignment explanation
Indices: 1569069--1569157 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
1569059 TATATGTAAA
*
1569069 TTAATTAAACCCTAAATTGTATTTAAATGCAAATCATATTGTAC
1 TTAATGAAACCCTAAATTGTATTTAAATGCAAATCATATTGTAC
* **
1569113 TTAATGAAACCCTATATTGTATTTAAATGTGAATCATATTGTAC
1 TTAATGAAACCCTAAATTGTATTTAAATGCAAATCATATTGTAC
1569157 T
1 T
1569158 ATTTTTCGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (44 bp):
TTAATGAAACCCTAAATTGTATTTAAATGCAAATCATATTGTAC
Found at i:1569151 original size:22 final size:21
Alignment explanation
Indices: 1569084--1569155 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
1569074 TAAACCCTAA
1569084 ATTGTATTTAAATGCAAATCAT
1 ATTGTATTTAAATG-AAATCAT
* *
1569106 ATTGTACTT-AATGAAACCCTAT
1 ATTGTATTTAAATGAAA-TC-AT
*
1569128 ATTGTATTTAAATGTGAATCAT
1 ATTGTATTTAAATG-AAATCAT
1569150 ATTGTA
1 ATTGTA
1569156 CTATTTTTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 3 0.07
21 5 0.12
22 26 0.63
23 5 0.12
24 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.42
Consensus pattern (21 bp):
ATTGTATTTAAATGAAATCAT
Found at i:1569644 original size:293 final size:304
Alignment explanation
Indices: 1569286--1569885 Score: 1064
Period size: 293 Copynumber: 2.0 Consensus size: 304
1569276 TTATATTATT
1569286 ACATAACCTTTTAAACTTACTCTCGTTGAATAAATGAAGACAAAGCTTATACACGTATGTCACCA
1 ACATAACCTTTTAAACTTACTCTCGTTGAATAAATGAAGACAAAGCTTATACACGTATGTCACCA
1569351 TTCTTGTCTGTCTAGTCTAGGTCATGTTTGTATTCATACTATTTTTATCGATGTATTTC-AAAGA
66 TTCTTGTCTGTCTAGTCTAGGTCATGTTTGTATTCATACTATTTTTATCGATGTATTTCAAAAGA
1569415 AAAAATAATTTTATCAATACATTTTTCCGTTAG-AAGTTTGAATCTC-AATAATAG-A-TTTCTT
131 AAAAATAATTTTATCAATACATTTTTCCGTTAGAAAGTTTGAATCTCAAATAATAGAATTTTCTT
1569476 TTTTGATTATTTATTTTGTATTTTTTAGCAGTTTTCTACTTCATCTTTATCATTA-TCTTTTCGA
196 TTTTGATTATTTATTTTGTATTTTTTAGCAG-TTTCTACTTCATCTTTATCATTATTCTTTTCGA
1569540 TTTTC--AAAAACAACAAACAA-C-CTAACCCTTTG-TTTACCAGC
260 TTTTCAAAAAAACAAC-AACAACCTCTAACCCTTTGTTTTACCAGC
1569581 ACATAACCTTTTAAACTTACTCTCGTTG-ATAAATG-AGACAAAGCTTATACACGTATGTCACCA
1 ACATAACCTTTTAAACTTACTCTCGTTGAATAAATGAAGACAAAGCTTATACACGTATGTCACCA
1569644 TTCTTGTCTGTCTAGTCTAGGTCATGTTTGTATTCATACTATTTTTATCGATGTATTTCAAAAGA
66 TTCTTGTCTGTCTAGTCTAGGTCATGTTTGTATTCATACTATTTTTATCGATGTATTTCAAAAGA
*
1569709 TAAAATAATTTTATCAATACATTTTTCCGTTAGATAAGTTTGAATCTCAAATAATAGAATTTTTC
131 AAAAATAATTTTATCAATACATTTTTCCGTTAGA-AAGTTTGAATCTCAAATAATAGAA-TTTTC
1569774 TTTTTTGATTATTTATTTTGTATTTTTTAGCAGTTTCTACTTCATCTTTATCATTATTCTTTTCG
194 TTTTTTGATTATTTATTTTGTATTTTTTAGCAGTTTCTACTTCATCTTTATCATTATTCTTTTCG
1569839 ATTTTCAAAAAAACAACAACAACCTCTAACCCTTTGTTTTACCAGC
259 ATTTTCAAAAAAACAACAACAACCTCTAACCCTTTGTTTTACCAGC
1569885 A
1 A
1569886 AAAATCATAT
Statistics
Matches: 291, Mismatches: 1, Indels: 17
0.94 0.00 0.06
Matches are distributed among these distances:
293 87 0.30
294 44 0.15
295 28 0.10
296 13 0.04
297 8 0.03
298 1 0.00
299 23 0.08
300 51 0.18
301 5 0.02
302 10 0.03
303 11 0.04
304 10 0.03
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (304 bp):
ACATAACCTTTTAAACTTACTCTCGTTGAATAAATGAAGACAAAGCTTATACACGTATGTCACCA
TTCTTGTCTGTCTAGTCTAGGTCATGTTTGTATTCATACTATTTTTATCGATGTATTTCAAAAGA
AAAAATAATTTTATCAATACATTTTTCCGTTAGAAAGTTTGAATCTCAAATAATAGAATTTTCTT
TTTTGATTATTTATTTTGTATTTTTTAGCAGTTTCTACTTCATCTTTATCATTATTCTTTTCGAT
TTTCAAAAAAACAACAACAACCTCTAACCCTTTGTTTTACCAGC
Found at i:1573080 original size:43 final size:43
Alignment explanation
Indices: 1573015--1573100 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
1573005 TAGTAATTTT
1573015 TCGAACCTATATCCCAAATGTGGTA-TGAGTAC-TTTCAGCTTG
1 TCGAACCTATATCCCAAATGTGGTATTGAGTACATTTCA-CTTG
1573057 TCGACACCTATATCCCAAATGTGGTATTGAGTACATTTCACTTG
1 TCGA-ACCTATATCCCAAATGTGGTATTGAGTACATTTCACTTG
1573101 CACTAAAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 4 0.10
43 21 0.51
44 11 0.27
45 5 0.12
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (43 bp):
TCGAACCTATATCCCAAATGTGGTATTGAGTACATTTCACTTG
Found at i:1575593 original size:15 final size:15
Alignment explanation
Indices: 1575570--1575599 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1575560 AATGAAATGA
1575570 AAACCAATCCCAAAC
1 AAACCAATCCCAAAC
*
1575585 AAACTAATCCCAAAC
1 AAACCAATCCCAAAC
1575600 TTACCTTCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (15 bp):
AAACCAATCCCAAAC
Found at i:1580559 original size:3 final size:3
Alignment explanation
Indices: 1580551--1580687 Score: 190
Period size: 3 Copynumber: 46.3 Consensus size: 3
1580541 TTTTTATCCA
* *
1580551 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
1580599 TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAG CA- TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1580645 TAT TAT TAT TAG TATT TAT TAT TAT TAT TA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1580688 TAATAAATAA
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
2 5 0.04
3 112 0.94
4 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1581997 original size:19 final size:19
Alignment explanation
Indices: 1581942--1581996 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
1581932 TAATTTAGTT
*
1581942 ATTTATTTTATATGTCTTC
1 ATTTATTTTATATGTTTTC
1581961 ATTTATTTTATATGTTTTC
1 ATTTATTTTATATGTTTTC
1581980 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
1581997 TAAATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
18 6 0.17
19 29 0.83
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTC
Found at i:1582058 original size:18 final size:18
Alignment explanation
Indices: 1582023--1582061 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1582013 GTAATATTTG
**
1582023 TATTTTTATATTGTTAAA
1 TATTTTTATATTCATAAA
*
1582041 TATTTTTATGTTCATAAA
1 TATTTTTATATTCATAAA
1582059 TAT
1 TAT
1582062 ATAATAAATA
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:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTTTTATATTCATAAA
Found at i:1582805 original size:18 final size:18
Alignment explanation
Indices: 1582758--1582806 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1582748 CTTTTCATTC
1582758 TTTTTA-TTTATTTATTA
1 TTTTTATTTTATTTATTA
**
1582775 TTTTTATAATATTTA-TA
1 TTTTTATTTTATTTATTA
1582792 TGTTTTATTTTATTT
1 T-TTTTATTTTATTT
1582807 GCAAATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTATTTATTA
Found at i:1593446 original size:27 final size:27
Alignment explanation
Indices: 1593415--1593510 Score: 113
Period size: 27 Copynumber: 3.4 Consensus size: 27
1593405 ATTATGCTTG
1593415 AAGAAAAGAAAGAAGAAGAAAAAAAAA
1 AAGAAAAGAAAGAAGAAGAAAAAAAAA
* *
1593442 AAGAAAAAAAAAAAGAAGAAGAGAAAAGAA
1 AAGAAAAGAAAGAAGAAGAA-A-AAAA-AA
1593472 AAGGAAAA-AAAGAAGAAGAAAAAAAAA
1 AA-GAAAAGAAAGAAGAAGAAAAAAAAA
*
1593499 TAGAAAAAGAAA
1 AAG-AAAAGAAA
1593511 AAAAGGGTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
26 1 0.02
27 25 0.42
28 8 0.14
29 5 0.08
30 15 0.25
31 5 0.08
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (27 bp):
AAGAAAAGAAAGAAGAAGAAAAAAAAA
Found at i:1593459 original size:30 final size:30
Alignment explanation
Indices: 1593418--1593513 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 30
1593408 ATGCTTGAAG
*
1593418 AAAAGAAAGAAGAAGAAAAAAAAAAAGAAA
1 AAAAAAAAGAAGAAGAAAAAAAAAAAGAAA
* *
1593448 AAAAAAAAGAAGAAGAGAAAAGAAAAG---
1 AAAAAAAAGAAGAAGAAAAAAAAAAAGAAA
* *
1593475 GAAAAAAAGAAGAAGAAAAAAAAATAGAAA
1 AAAAAAAAGAAGAAGAAAAAAAAAAAGAAA
1593505 AAGAAAAAA
1 AA-AAAAAA
1593514 AGGGTCAAGG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 23 0.43
30 25 0.46
31 6 0.11
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (30 bp):
AAAAAAAAGAAGAAGAAAAAAAAAAAGAAA
Found at i:1594546 original size:52 final size:52
Alignment explanation
Indices: 1594481--1594805 Score: 582
Period size: 52 Copynumber: 6.2 Consensus size: 52
1594471 GGAAAAGCAT
* *
1594481 CAGAACATGGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1594533 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1594584 TCAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 -CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1594637 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
1594689 CATAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
1594741 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGA
1 CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1594793 CAGAATCA-AGCAT
1 CAGAA-CATAGCAT
1594806 TGAATTTGGA
Statistics
Matches: 265, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
51 2 0.01
52 259 0.98
53 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (52 bp):
CAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
Found at i:1594912 original size:52 final size:52
Alignment explanation
Indices: 1594830--1595036 Score: 371
Period size: 52 Copynumber: 4.0 Consensus size: 52
1594820 GAATTTGCCA
1594830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
1594882 ATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAAC
*
1594934 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
1594986 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA
1595037 TCAAGTATTG
Statistics
Matches: 148, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
51 2 0.01
52 144 0.97
53 2 0.01
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:1594958 original size:187 final size:187
Alignment explanation
Indices: 1594643--1594992 Score: 632
Period size: 187 Copynumber: 1.9 Consensus size: 187
1594633 TGGACAGAAC
* *
1594643 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
1594708 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
*
1594773 AGTTATCTGATCTGATTGGACAGAATCA-AGCATTGAATTTGGAAGATGAATTTGCCA
131 AGTTATCTAATCTGATTGGACAGAA-CATAGCATTGAATTTGGAAGATGAATTTGCCA
1594830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
1594895 GAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAGCATCTTCTGGAAGTGTTCTTT
*
1594959 GAGTTATCTAATCTGGTTGGACAGAACATAGCAT
130 GAGTTATCTAATCTGATTGGACAGAACATAGCAT
1594993 CTTCTGGAAG
Statistics
Matches: 157, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
186 4 0.03
187 153 0.97
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (187 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
AGTTATCTAATCTGATTGGACAGAACATAGCATTGAATTTGGAAGATGAATTTGCCA
Found at i:1595010 original size:239 final size:239
Alignment explanation
Indices: 1594591--1595102 Score: 945
Period size: 239 Copynumber: 2.1 Consensus size: 239
1594581 TGATCAGAAC
*
1594591 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
*
1594656 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACATAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
*
1594721 AGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
131 AGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
** *
1594786 GATTGGACAGAATCAAGCATTGAATTTGGAAGATGAATTTGCCA
196 GATTGGACAGAATCAAGCATTGAATTTAAAAGATAAATTTGCCA
1594830 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
1594895 GAAGTGTTCTTTGAGTTATCTGATCTGGTT-GATCAGAACATAGCATCTTCTGGAAGTGTTCTTT
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA-CAGAACATAGCATCTTCTGGAAGTGTTCTTT
1594959 GAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
130 GAGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
1595024 TGATTGGACAGAATCAAGTATTGAATTTAAAAGATAAATTTGCCA
195 TGATTGGACAGAATCAAGCATTGAATTTAAAAGATAAATTTGCCA
1595069 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCT
1595103 TTTACTAGAA
Statistics
Matches: 265, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
238 2 0.01
239 263 0.99
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (239 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAACATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
AGTTATCTAATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT
GATTGGACAGAATCAAGCATTGAATTTAAAAGATAAATTTGCCA
Found at i:1596075 original size:119 final size:119
Alignment explanation
Indices: 1595664--1596334 Score: 1150
Period size: 119 Copynumber: 5.7 Consensus size: 119
1595654 TTAGCAAAGA
*
1595664 CTTGAATTCATCAAATTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1595729 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
1595783 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1595848 CATCTGAAGAAGGAAG-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
1595901 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1595966 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
1596020 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1596085 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* * *
1596139 CTTGAATTCATC-ATTTGATGGATCAAC-TTTGCC--AGGTAGAGTTCATAATGAGAAGAACTCG
1 CTTGAATTCATCAAATTGATGGATCATCATTT-CCAGAGGAAGAGTTCATAATGAGAAGAACTCG
*
1596200 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTG
65 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* * **
1596255 CTTGAATTCATC-ATTTGATGGAACATCATCCCCAGCA-GAA-AGTTCATAATGAGAAGAA--C-
1 CTTGAATTCATCAAATTGATGGATCATCATTTCCAG-AGGAAGAGTTCATAATGAGAAGAACTCG
*
1596314 TCATCTGAAGAAAG-AGAAGAA
65 TCATCTGAAGAAGGAAGAAGAA
1596335 TTTATTCAAT
Statistics
Matches: 535, Mismatches: 11, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
113 7 0.01
114 13 0.02
115 1 0.00
116 108 0.20
117 22 0.04
118 135 0.25
119 249 0.47
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (119 bp):
CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
Found at i:1596079 original size:237 final size:238
Alignment explanation
Indices: 1595664--1596334 Score: 1159
Period size: 237 Copynumber: 2.9 Consensus size: 238
1595654 TTAGCAAAGA
1595664 CTTGAATTCATCAAATTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1595729 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
1595794 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
131 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1595859 GGAAG-AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
196 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
*
1595901 CTTGAATTCATCAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATTCATCAAATTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
1595966 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
66 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
1596031 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
131 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1596096 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
196 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* *
1596139 CTTGAATTCATC-ATTTGATGGATCAAC-TTTGCC--AGGTAGAGTTCATAATGAGAAGAACTCG
1 CTTGAATTCATCAAATTGATGGATCAACATTT-CCAGAGGAAGAGTTCATAATGAGAAGAACTCG
*
1596200 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTCA
65 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCA
* * **
1596265 TC-ATTTGATGGAACATCATCCCCAGCA-GAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAG
130 TCAAATTGATGGATCATCATTTCCAG-AGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAG
*
1596324 AAAG-AGAAGAA
194 AAGGAAGAAGAA
1596335 TTTATTCAAT
Statistics
Matches: 421, Mismatches: 10, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
229 7 0.02
230 13 0.03
231 1 0.00
233 18 0.04
234 22 0.05
235 94 0.22
236 3 0.01
237 214 0.51
238 49 0.12
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (238 bp):
CTTGAATTCATCAAATTGATGGATCAACATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
Found at i:1596478 original size:3 final size:3
Alignment explanation
Indices: 1596470--1596619 Score: 228
Period size: 3 Copynumber: 49.3 Consensus size: 3
1596460 TTTTTATCCA
* *
1596470 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
1596518 TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAG CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1596566 TAT TAT TAT TAT TAT TAT TAG TATT TAT TAT TAT TAT TAT ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT
1596613 TAT TAT T
1 TAT TAT T
1596620 TAATAAATAA
Statistics
Matches: 133, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 128 0.96
4 5 0.04
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1597944 original size:19 final size:19
Alignment explanation
Indices: 1597889--1597943 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
1597879 TAATTTAGTT
*
1597889 ATTTATTTTATATGTCTTC
1 ATTTATTTTATATGTTTTC
1597908 ATTTATTTTATATGTTTTC
1 ATTTATTTTATATGTTTTC
1597927 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
1597944 TAAATATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
18 6 0.17
19 29 0.83
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTC
Found at i:1598005 original size:18 final size:18
Alignment explanation
Indices: 1597970--1598008 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1597960 GTAATATTTG
**
1597970 TATTTTTATATTGTTAAA
1 TATTTTTATATTCATAAA
*
1597988 TATTTTTATGTTCATAAA
1 TATTTTTATATTCATAAA
1598006 TAT
1 TAT
1598009 ATAATAAATA
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:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTTTTATATTCATAAA
Found at i:1627306 original size:19 final size:20
Alignment explanation
Indices: 1627267--1627306 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1627257 ATTCCTCAAA
*
1627267 AAACTTAAGTAACATCACTC
1 AAACTTAAGTAACAACACTC
*
1627287 AAACTTAA-TCACAACACTC
1 AAACTTAAGTAACAACACTC
1627306 A
1 A
1627307 TAATACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.23
Consensus pattern (20 bp):
AAACTTAAGTAACAACACTC
Found at i:1630878 original size:34 final size:36
Alignment explanation
Indices: 1630840--1630913 Score: 125
Period size: 34 Copynumber: 2.1 Consensus size: 36
1630830 TATAGCTAAA
*
1630840 AAAAATCGTCTTTATTCGAA-TTTGCC-AAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1630874 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1630910 AAAA
1 AAAA
1630914 TCCCGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 19 0.51
35 6 0.16
36 12 0.32
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1635373 original size:15 final size:16
Alignment explanation
Indices: 1635355--1635385 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1635345 CCACGGTGCT
1635355 CCCGGAAT-CCTGCGC
1 CCCGGAATCCCTGCGC
1635370 CCCGGAATCCCTGCGC
1 CCCGGAATCCCTGCGC
1635386 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.13, C:0.48, G:0.26, T:0.13
Consensus pattern (16 bp):
CCCGGAATCCCTGCGC
Found at i:1635846 original size:35 final size:36
Alignment explanation
Indices: 1635805--1635878 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 36
1635795 TTATAGCTAA
*
1635805 AAAAATCGTCTTTATTCGAATTTTGCC-AAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1635840 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1635876 AAA
1 AAA
1635879 TCCCGAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 26 0.70
36 11 0.30
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:1638289 original size:52 final size:52
Alignment explanation
Indices: 1638227--1638332 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
1638217 CGTTAAAAAC
* * * *
1638227 TTAATGACAAACTAATATAATTGAATATAAAATCAATGTTTGATATTATAAT
1 TTAACGACAAACTAATATAATTGAATATAAAACCAAAGTTCGATATTATAAT
*
1638279 TTAACGACAAAGTAATATAATTGAATATAAAACCAAAGTTCGATATTATAAT
1 TTAACGACAAACTAATATAATTGAATATAAAACCAAAGTTCGATATTATAAT
1638331 TT
1 TT
1638333 GAGAAATTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (52 bp):
TTAACGACAAACTAATATAATTGAATATAAAACCAAAGTTCGATATTATAAT
Found at i:1639501 original size:20 final size:20
Alignment explanation
Indices: 1639465--1639502 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1639455 ATCCTATTCC
**
1639465 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
1639485 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
1639503 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:1653037 original size:2 final size:2
Alignment explanation
Indices: 1653030--1653084 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
1653020 TTATATTGGC
1653030 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1653071 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1653085 TTCTGAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1661001 original size:23 final size:23
Alignment explanation
Indices: 1660953--1661001 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
1660943 GGTTTCTCAT
* *
1660953 CTCCTTGAATACTCTATCAAATC
1 CTCCTTGAATACACCATCAAATC
*
1660976 CTCCTTGAATACCACCATTAAA-C
1 CTCCTTGAATA-CACCATCAAATC
1660999 CTC
1 CTC
1661002 TAGTCAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.31, C:0.35, G:0.04, T:0.31
Consensus pattern (23 bp):
CTCCTTGAATACACCATCAAATC
Found at i:1673514 original size:63 final size:63
Alignment explanation
Indices: 1673415--1673540 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
1673405 AAGGGAATTA
* *
1673415 AACCGATTTGGGGACCAAATTAAATGTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGAACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
*
1673478 AACCGATTTGGGAACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGAACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1673541 CTTTTAGCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.25
Consensus pattern (63 bp):
AACCGATTTGGGAACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:1673527 original size:31 final size:30
Alignment explanation
Indices: 1673440--1673536 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
1673430 CAAATTAAAT
*
1673440 GTTTTTTAAAACAGAGGGAGCCAAAATGAA
1 GTTTTTCAAAACAGAGGGAGCCAAAATGAA
* ** * * *
1673470 G-TTTACCCAACCGATTTGGGAACCAAATTGAA
1 GTTTTTCAAAACAGA---GGGAGCCAAAATGAA
1673502 TGTTTTTCAAAACAGAGGGAGCCAAAATGAA
1 -GTTTTTCAAAACAGAGGGAGCCAAAATGAA
1673533 GTTT
1 GTTT
1673537 ACCCCTTTTA
Statistics
Matches: 49, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
29 8 0.16
30 5 0.10
31 13 0.27
32 13 0.27
33 1 0.02
34 9 0.18
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (30 bp):
GTTTTTCAAAACAGAGGGAGCCAAAATGAA
Found at i:1674552 original size:41 final size:41
Alignment explanation
Indices: 1674502--1674580 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
1674492 TAAATAAAAT
*
1674502 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATACTATAAAAGTGTGGAG
*
1674543 TAATACTAATATATATATGTAAGTACTATAAAAGTGTG
1 TAATACTAATATATATATGTAAATACTATAAAAGTGTG
1674581 AAGACGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.37
Consensus pattern (41 bp):
TAATACTAATATATATATGTAAATACTATAAAAGTGTGGAG
Found at i:1675197 original size:105 final size:105
Alignment explanation
Indices: 1674958--1675869 Score: 1488
Period size: 105 Copynumber: 8.7 Consensus size: 105
1674948 GTATATAGCT
* **** * *
1674958 CCTTCGTCGTGACGTTGAACTTATACTGTTTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * * *
1675023 GGCTCTGAAGTTGGGAAGTTATTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTC
* *
1675064 CCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
*
1675129 GGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
* *
1675169 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCGAATATTCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1675234 GGCTCTGAAA-TGAGGAAATGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGA-GAAATGTTTATTGACAACCAGCGGTC
*
1675274 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAACTT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * *
1675339 GACTCTGGAATTGAGAAATGTTT-GTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
*
1675378 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1675443 GGCTCTGAAA-TGAGGAAATGTTTATTGACAACCAGCGGTC
66 GGCTCTGAAATTGA-GAAATGTTTATTGACAACCAGCGGTC
*
1675483 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAACTT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* * *
1675548 GACTCTGGAATTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
*
1675588 CCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
1675653 GGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
*
1675693 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
1675758 GGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTC
66 GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
*
1675798 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1675863 GGCTCTG
66 GGCTCTG
1675870 GGTAAAACCT
Statistics
Matches: 761, Mismatches: 40, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
103 3 0.00
104 97 0.13
105 583 0.77
106 78 0.10
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTC
Found at i:1675600 original size:419 final size:421
Alignment explanation
Indices: 1674958--1675869 Score: 1519
Period size: 419 Copynumber: 2.2 Consensus size: 421
1674948 GTATATAGCT
* **** * *
1674958 CCTTCGTCGTGACGTTGAACTTATACTGTTTTGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
1675023 GGCTCTGAAGTTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
66 GGCTCTGAAGATGGGAAGATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
* *
1675088 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTA
131 GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTA
* * *
1675153 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCGAATATTCTTCG
196 TTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1675218 TTGTGAAGTTGAAATTGGCTCTGAA-ATGAGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTC
261 TTGTGAAGTTGAAATTGGCTCTGAATATGA-GAAATGTTTATTGACAACCAGCGGTCCCTTCGTC
*
1675282 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAACTTGACTCTGG
325 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT-G
1675347 AA-TTGAGAAATGTTTG-TGACAACCAGCGGTC
389 AATTTGAGAAATGTTTGTTGACAACCAGCGGTC
*
1675378 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
* *
1675443 GGCTCTGAA-ATGAGGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
66 GGCTCTGAAGATG-GGAAGATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATG
* * *
1675506 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAACTTGACTCTGGAATTGAGAAATGTTT
130 CGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTT
*
1675571 GTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
195 ATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC
* *
1675636 GTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTC
260 GTTGTGAAGTTGAAATTGGCTCTGAATATGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTC
* *
1675701 GTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
325 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA
1675766 ATTTGAGAAATGTTTGTTGACAACCAGCGGTC
390 ATTTGAGAAATGTTTGTTGACAACCAGCGGTC
*
1675798 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGTAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
1675863 GGCTCTG
66 GGCTCTG
1675870 GGTAAAACCT
Statistics
Matches: 460, Mismatches: 28, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
418 3 0.01
419 299 0.65
420 158 0.34
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (421 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATT
GGCTCTGAAGATGGGAAGATATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGC
GTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGAGAAATGTTTA
TTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGGCTCTGAATATGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCG
TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAA
TTTGAGAAATGTTTGTTGACAACCAGCGGTC
Found at i:1676602 original size:10 final size:10
Alignment explanation
Indices: 1676587--1676615 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
1676577 TTGAACCCAC
1676587 CTTATTTTCT
1 CTTATTTTCT
1676597 CTTATTTTCT
1 CTTATTTTCT
1676607 CTT-TTTTCT
1 CTTATTTTCT
1676616 TTTTCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (10 bp):
CTTATTTTCT
Found at i:1676680 original size:52 final size:51
Alignment explanation
Indices: 1676607--1676705 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 51
1676597 CTTATTTTCT
* ** *
1676607 CTTTTTTCTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAAAGC
1 CTTTTTTCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAAAGC
* *
1676658 CTTTTTTTTTTCTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 CTTTTTTCTTT-TTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
1676706 GCGAAGTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
51 10 0.24
52 31 0.76
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.45
Consensus pattern (51 bp):
CTTTTTTCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAAAGC
Found at i:1686106 original size:20 final size:20
Alignment explanation
Indices: 1686068--1686111 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1686058 ATGGTTAATA
*
1686068 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
1686088 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
1686108 AAAT
1 AAAT
1686112 GGCAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:1687562 original size:63 final size:63
Alignment explanation
Indices: 1687463--1687588 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
1687453 AAGGGAATTA
*
1687463 AACCGATTTGGGGACCAAATTAAATGTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
*
1687526 AACCGATTTGGGGACCAAATTGAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1687589 CTTTTAGCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (63 bp):
AACCGATTTGGGGACCAAATTAAATGTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:1687575 original size:31 final size:30
Alignment explanation
Indices: 1687488--1687584 Score: 81
Period size: 31 Copynumber: 3.1 Consensus size: 30
1687478 CAAATTAAAT
*
1687488 GTTTTTTAAAACAGAGGGAGCCAAAATGAA
1 GTTTTTCAAAACAGAGGGAGCCAAAATGAA
* ** * *
1687518 G-TTTACCCAACCGATTTGGG-GACCAAATTGAA
1 GTTTTTCAAAACAGA---GGGAG-CCAAAATGAA
1687550 TGTTTTTCAAAACAGAGGGAGCCAAAATGAA
1 -GTTTTTCAAAACAGAGGGAGCCAAAATGAA
1687581 GTTT
1 GTTT
1687585 ACCCCTTTTA
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
29 8 0.16
30 5 0.10
31 13 0.27
32 13 0.27
33 1 0.02
34 9 0.18
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (30 bp):
GTTTTTCAAAACAGAGGGAGCCAAAATGAA
Found at i:1688599 original size:41 final size:41
Alignment explanation
Indices: 1688549--1688627 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
1688539 TAAATAAAAT
*
1688549 TAATACTAATATATATATGTAAATATTATAAAAGTGTGGAG
1 TAATACTAATATATATATGTAAATACTATAAAAGTGTGGAG
*
1688590 TAATACTAATATATATATGTAAGTACTATAAAAGTGTG
1 TAATACTAATATATATATGTAAATACTATAAAAGTGTG
1688628 AAGACGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.37
Consensus pattern (41 bp):
TAATACTAATATATATATGTAAATACTATAAAAGTGTGGAG
Found at i:1689880 original size:15 final size:15
Alignment explanation
Indices: 1689838--1689883 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1689828 GTTACATGCG
* *
1689838 TGTTTAAATTATATA
1 TGTTTATATTTTATA
*
1689853 TGTGTTCTATTTTATA
1 TGT-TTATATTTTATA
1689869 TGTTTATATTTTATA
1 TGTTTATATTTTATA
1689884 AAAAAATACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (15 bp):
TGTTTATATTTTATA
Found at i:1693266 original size:13 final size:13
Alignment explanation
Indices: 1693248--1693274 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1693238 CATTTATGTA
1693248 TTTATATCGTATT
1 TTTATATCGTATT
1693261 TTTATATCGTATT
1 TTTATATCGTATT
1693274 T
1 T
1693275 AATAATGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (13 bp):
TTTATATCGTATT
Found at i:1697519 original size:23 final size:22
Alignment explanation
Indices: 1697470--1697519 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
1697460 TCTTATGATC
1697470 AATAATATTTTAAATTTAATATG
1 AATAATATTTTAAATTT-ATATG
*
1697493 AATAAGTATTTTAATATTT-TATT
1 AATAA-TATTTTAA-ATTTATATG
1697516 AATA
1 AATA
1697520 TCAAATAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 12 0.50
24 8 0.33
25 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
AATAATATTTTAAATTTATATG
Found at i:1701523 original size:2 final size:2
Alignment explanation
Indices: 1701516--1701597 Score: 116
Period size: 2 Copynumber: 41.0 Consensus size: 2
1701506 AAAGTGAACC
1701516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1701558 AT AT GA- AT AT AT AT AT GA- AT AT AT AT AT GA- AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT -AT AT AT AT AT AT
1701598 GAATATGAGA
Statistics
Matches: 74, Mismatches: 0, Indels: 12
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.04
2 68 0.92
3 3 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1701533 original size:12 final size:12
Alignment explanation
Indices: 1701516--1701603 Score: 128
Period size: 12 Copynumber: 7.3 Consensus size: 12
1701506 AAAGTGAACC
1701516 ATATATATAT-A
1 ATATATATATGA
1701527 TATATATATAT-A
1 -ATATATATATGA
1701539 TATATATATAT-A
1 -ATATATATATGA
1701551 TATATATATATGA
1 -ATATATATATGA
1701564 ATATATATATGA
1 ATATATATATGA
1701576 ATATATATATGA
1 ATATATATATGA
1701588 ATATATATATGA
1 ATATATATATGA
1701600 ATAT
1 ATAT
1701604 GAGAAATGAT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
12 74 0.99
13 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (12 bp):
ATATATATATGA
Found at i:1701615 original size:24 final size:24
Alignment explanation
Indices: 1701540--1701616 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
1701530 ATATATATAT
* *
1701540 ATATATATAT-ATATATATATATGA
1 ATATATATATGA-ATATAGAAATGA
* *
1701564 ATATATATATGAATATATATATGA
1 ATATATATATGAATATAGAAATGA
1701588 ATATATATATGAATATGAGAAATG-
1 ATATATATATGAATAT-AGAAATGA
1701612 ATATA
1 ATATA
1701617 AGATATGTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
24 43 0.88
25 6 0.12
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (24 bp):
ATATATATATGAATATAGAAATGA
Found at i:1702241 original size:31 final size:32
Alignment explanation
Indices: 1702089--1702279 Score: 169
Period size: 32 Copynumber: 6.0 Consensus size: 32
1702079 AAGAGTCGAG
*
1702089 GAATTACCTATGTTCTACGGAACATATGGATA
1 GAATTACCTATGTTCTACGGAACATATGGACA
1702121 GAATTACCTATGTTCTACGGAACATATGGACA
1 GAATTACCTATGTTCTACGGAACATATGGACA
* * *
1702153 GAATTACCTATG-TCTTTCGGGACATATAGACA
1 GAATTACCTATGTTC-TACGGAACATATGGACA
* * **
1702185 AAATTAACTATGTAT-T-TTGAGACATATGGACA
1 GAATTACCTATGT-TCTACGGA-ACATATGGACA
* * **
1702217 GTA-TACCTATGTTCTAAGGAACATATGGATT
1 GAATTACCTATGTTCTACGGAACATATGGACA
* * *
1702248 G-TTTACCTAGGTTCTACGGGATC-TATGGACA
1 GAATTACCTATGTTCTAC-GGAACATATGGACA
1702279 G
1 G
1702280 TTTACGAGGT
Statistics
Matches: 128, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
30 1 0.01
31 41 0.32
32 85 0.66
34 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (32 bp):
GAATTACCTATGTTCTACGGAACATATGGACA
Found at i:1702283 original size:31 final size:31
Alignment explanation
Indices: 1702206--1702284 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
1702196 GTATTTTGAG
* *
1702206 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
** *
1702237 ACATATGGATTGTTTACCTAGGTTCTACGGGA
1 ACATATGGACAGTTTACCTAGGTTCTA-AGGA
*
1702269 TC-TATGGACAGTTTAC
1 ACATATGGACAGTTTAC
1702285 GAGGTTCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 35 0.90
32 4 0.10
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:1703049 original size:21 final size:22
Alignment explanation
Indices: 1703014--1703060 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
1703004 TGTAGCAGTA
*
1703014 CTGTAGCAGGGGAATTAGTACC
1 CTGTAGCAGGGGAATCAGTACC
*
1703036 CTGTAGCA-GGGAATCAGTTCC
1 CTGTAGCAGGGGAATCAGTACC
1703057 CTGT
1 CTGT
1703061 TTGAAATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCAGTACC
Found at i:1706334 original size:30 final size:32
Alignment explanation
Indices: 1706245--1706431 Score: 188
Period size: 32 Copynumber: 6.0 Consensus size: 32
1706235 AAGAGTCGAG
*
1706245 GAATTACCTATGTTCTACGGAACATATAGACA
1 GAATTACCTATGTTCTACGGAACATATGGACA
1706277 GAATTACCTATGTTCTACGGAACATATGGACA
1 GAATTACCTATGTTCTACGGAACATATGGACA
* * *
1706309 GAATTACTTATGTT-T-CGGGACATATGGGCA
1 GAATTACCTATGTTCTACGGAACATATGGACA
* * ***
1706339 TAATTACATAT-TTCTTTTGAGACATATGGACA
1 GAATTACCTATGTTCTACGGA-ACATATGGACA
* *
1706371 GTA-TA-CTATGTTCTAAGGAACATATGGACA
1 GAATTACCTATGTTCTACGGAACATATGGACA
* * * *
1706401 G-TTTACCTAGGTTCTACGGGACCTATGGACA
1 GAATTACCTATGTTCTACGGAACATATGGACA
1706432 ATTGCTGAGA
Statistics
Matches: 128, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
29 2 0.02
30 40 0.31
31 31 0.24
32 55 0.43
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (32 bp):
GAATTACCTATGTTCTACGGAACATATGGACA
Found at i:1706394 original size:62 final size:63
Alignment explanation
Indices: 1706245--1706431 Score: 177
Period size: 62 Copynumber: 3.0 Consensus size: 63
1706235 AAGAGTCGAG
* *
1706245 GAATTACCTATGTTCTACGGAACATATAGACAGAATTACCTATGTTCTACGGAACATATGGACA
1 GAATTA-CTATGTTCTACGGAACATATGGACAGAATTACATATGTTCTACGGAACATATGGACA
* * * ***
1706309 GAATTACTTATGTT-T-CGGGACATATGGGCATAATTACATAT-TTCTTTTGAGACATATGGACA
1 GAATTAC-TATGTTCTACGGAACATATGGACAGAATTACATATGTTCTACGGA-ACATATGGACA
* * * * * * *
1706371 GTA-TACTATGTTCTAAGGAACATATGGACAG-TTTACCTAGGTTCTACGGGACCTATGGACA
1 GAATTACTATGTTCTACGGAACATATGGACAGAATTACATATGTTCTACGGAACATATGGACA
1706432 ATTGCTGAGA
Statistics
Matches: 97, Mismatches: 21, Indels: 13
0.74 0.16 0.10
Matches are distributed among these distances:
60 6 0.06
61 26 0.27
62 51 0.53
63 2 0.02
64 12 0.12
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (63 bp):
GAATTACTATGTTCTACGGAACATATGGACAGAATTACATATGTTCTACGGAACATATGGACA
Found at i:1706428 original size:31 final size:30
Alignment explanation
Indices: 1706360--1706431 Score: 90
Period size: 31 Copynumber: 2.4 Consensus size: 30
1706350 TTCTTTTGAG
*
1706360 ACATATGGACAGTATACTATGTTCTAAGGA
1 ACATATGGACAGTATACTAGGTTCTAAGGA
* * *
1706390 ACATATGGACAGTTTACCTAGGTTCTACGGG
1 ACATATGGACAGTATA-CTAGGTTCTAAGGA
*
1706421 ACCTATGGACA
1 ACATATGGACA
1706432 ATTGCTGAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 15 0.42
31 21 0.58
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (30 bp):
ACATATGGACAGTATACTAGGTTCTAAGGA
Found at i:1708851 original size:2 final size:2
Alignment explanation
Indices: 1708844--1708885 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
1708834 AAATTTATTA
* *
1708844 AT AT AT AT AT AT AA AT A- AT CCT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT
1708886 TAGAAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1709137 original size:22 final size:22
Alignment explanation
Indices: 1709107--1709152 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1709097 CATCCTCAAT
*
1709107 CACCTTGAGCTAGCATATAAAC
1 CACCATGAGCTAGCATATAAAC
*
1709129 CACCATGAGCTAGTATATAAAC
1 CACCATGAGCTAGCATATAAAC
1709151 CA
1 CA
1709153 GTAAACCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (22 bp):
CACCATGAGCTAGCATATAAAC
Found at i:1712228 original size:60 final size:58
Alignment explanation
Indices: 1712162--1712273 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
1712152 ATTTTTATAC
* * * * *
1712162 TTTTGAATATTCTAATTTCGTCCTCAAACTCATATAC-TCGTTCTAAATTAGTCCATAAAA
1 TTTTGAACATTATAA-TTCATCCTCAAACT-AT-GACTTCATTCTAAATTAGTCCATAAAA
*
1712222 TTTTGAACATTATAATTCATTCTCAAACTATGACTTCATTCTAAATTAGTCC
1 TTTTGAACATTATAATTCATCCTCAAACTATGACTTCATTCTAAATTAGTCC
1712274 GCAAACTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.04
58 18 0.40
59 12 0.27
60 13 0.29
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (58 bp):
TTTTGAACATTATAATTCATCCTCAAACTATGACTTCATTCTAAATTAGTCCATAAAA
Found at i:1713579 original size:25 final size:23
Alignment explanation
Indices: 1713546--1713610 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
1713536 ATCTTTACTA
1713546 TTGAAAATAAATTTATTAAAA-T
1 TTGAAAATAAATTTATTAAAATT
*
1713568 TT-AATAACAATATATTATTAAAATT
1 TTGAA-AATAA-AT-TTATTAAAATT
1713593 TTGAAAATAAATTTATTA
1 TTGAAAATAAATTTATTA
1713611 TTGATACTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 2 0.06
22 6 0.17
23 8 0.22
24 11 0.31
25 7 0.19
26 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (23 bp):
TTGAAAATAAATTTATTAAAATT
Found at i:1719988 original size:18 final size:18
Alignment explanation
Indices: 1719965--1719999 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1719955 TTCCATCCGG
*
1719965 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
1719983 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
1720000 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:1721119 original size:8 final size:8
Alignment explanation
Indices: 1721100--1721177 Score: 71
Period size: 8 Copynumber: 10.4 Consensus size: 8
1721090 GTCAACAGTA
1721100 GTCAAC-G
1 GTCAACGG
1721107 GTCAACGG
1 GTCAACGG
1721115 GTCAACGG
1 GTCAACGG
1721123 GTCAACGG
1 GTCAACGG
1721131 GT---CGG
1 GTCAACGG
*
1721136 GTCAACGA
1 GTCAACGG
*
1721144 GTCGAGTCGG
1 GTC-A-ACGG
1721154 GTCAACGG
1 GTCAACGG
1721162 GT---CGG
1 GTCAACGG
1721167 GTCAACGG
1 GTCAACGG
1721175 GTC
1 GTC
1721178 GGGTCGGGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
5 10 0.17
7 6 0.10
8 35 0.60
9 2 0.03
10 5 0.09
ACGTcount: A:0.21, C:0.24, G:0.40, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:1721158 original size:31 final size:31
Alignment explanation
Indices: 1721120--1721200 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
1721110 AACGGGTCAA
1721120 CGGGTCAACGGGTCGGGTCAACGAGTCGAGT
1 CGGGTCAACGGGTCGGGTCAACGAGTCGAGT
* *
1721151 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTCAACGAGTCGAGT
* *
1721182 CGGGTAAACGGGTTGGGTC
1 CGGGTCAACGGGTCGGGTC
1721201 GGGTTGTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.16, C:0.21, G:0.46, T:0.17
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTCAACGAGTCGAGT
Found at i:1721180 original size:18 final size:18
Alignment explanation
Indices: 1721112--1721204 Score: 88
Period size: 18 Copynumber: 5.3 Consensus size: 18
1721102 CAACGGTCAA
1721112 CGGGTCAACGGGTCAACGGGT
1 CGGGTCAACGGGT---CGGGT
* *
1721133 CGGGTCAACGAGTCGAGT
1 CGGGTCAACGGGTCGGGT
1721151 CGGGTCAA-----CGGGT
1 CGGGTCAACGGGTCGGGT
1721164 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
* *
1721182 CGGGTAAACGGGTTGGGT
1 CGGGTCAACGGGTCGGGT
1721200 CGGGT
1 CGGGT
1721205 TGTGACCGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
13 12 0.19
18 38 0.61
21 12 0.19
ACGTcount: A:0.16, C:0.20, G:0.46, T:0.17
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Done.