Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 56
Found at i:4442617 original size:97 final size:96
Alignment explanation
Indices: 4442420--4442680 Score: 262
Period size: 97 Copynumber: 2.7 Consensus size: 96
4442410 CCTTGATTTC
* ** *
4442420 TTTTTCAACCGATTAAGTTATAAGGCTTTAACCGTTTATGTTATAATAACCTACAAAAAATC-CG
1 TTTTTCAACCGATTAAGTTATAAGGCTTTAACCGTTTATATTATAATAACCTATTACAAATCTC-
* ** * * **
4442484 GTTGCAATAGTAATGTGATAGGTTTTGCCTGAT
65 GTTGTAATAGTAACATAATAGATTGCGCC-GAT
* *
4442517 TTTTTCACCCGTTTAAGTTATAAGGCTTTAACCGTTTATATTATAATAACCTATTACAAATCTCG
1 TTTTTCAACCGATTAAGTTATAAGGCTTTAACCGTTTATATTATAATAACCTATTACAAATCTCG
* * *
4442582 TTGTAA-AGGTGACATAATAGATTGCGTC-TT
66 TTGTAATA-GTAACATAATAGATTGCGCCGAT
* * *
4442612 TTTTTTAACCGGA-TAAGTTATAAGGCTTTAACCTTTTATAATATAATAAACC-ATTACAAATCT
1 TTTTTCAACC-GATTAAGTTATAAGGCTTTAACCGTTTATATTATAAT-AACCTATTACAAATCT
*
4442675 AGTTGT
64 CGTTGT
4442681 GGGGGTAATG
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
95 57 0.41
96 6 0.04
97 74 0.54
98 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (96 bp):
TTTTTCAACCGATTAAGTTATAAGGCTTTAACCGTTTATATTATAATAACCTATTACAAATCTCG
TTGTAATAGTAACATAATAGATTGCGCCGAT
Found at i:4443583 original size:186 final size:185
Alignment explanation
Indices: 4443026--4443799 Score: 725
Period size: 184 Copynumber: 4.3 Consensus size: 185
4443016 TGTATAGATA
* *
4443026 TTTATTAAACA-AAAATTAACATTACAGATCACAACCTACTTTCTTAGCGACCCATAACATTCTT
1 TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTAGCGACCCATAACATTCTT
* * *
4443090 GGGTGCAACCTGCTTTCTTATAGATATTCGTAACATTTTTTATTTTAACTTATTTTGTTATTATG
66 GGGTGCAACCTGATTTCTTATAGATATTCATAACAATTTTTATTTTAACTTATTTTGTTATTATG
** * * *
4443155 GGAAATTCAAAAGCCCCATCATCTTAAA-TTTGGTAACATTTTAGGTGTAACCGAT
131 GGAAATT-AAAAATCCCATCAACTTAAACTTTGGTAACATTTTAGGTGCAACCAAT
* ** **
4443210 TTTATAAAACATAAAATTAGCATTGTAGATCGCAATATACTTTCTTAGCGACCCATAACATTCTT
1 TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTAGCGACCCATAACATTCTT
* * * * **
4443275 -GATGCAATCTGATTTATTATAGATATTCATAAC-ATTTTTATTTTAACTTATTTTGTCATCGTG
66 GGGTGCAACCTGATTTCTTATAGATATTCATAACAATTTTTATTTTAACTTATTTTGTTATTATG
* * * * *
4443338 GGAAATTAAAAAGTCCCGTGAACTTAAACTCTGGTAACATTTTGGGTGCTAA-TAAT
131 GGAAATTAAAAA-TCCCATCAACTTAAACTTTGGTAACATTTTAGGTGC-AACCAAT
* * * * * *
4443394 TTTATTAAACATAAAATTAGCATTCCATATTGCAACCTACTTTCTCAGCAATCCAT-ACATTCTT
1 TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTAGCGACCCATAACATTCTT
* * *
4443458 GGGTGCAACCTAATATCTTATAGATATTCATAACAAATTTTTATTTTAACTTATTTTGTTATTTT
66 GGGTGCAACCTGATTTCTTATAGATATTCATAAC-AATTTTTATTTTAACTTATTTTGTTATTAT
* * *
4443523 GAGAAATTTTGAAAAT-CCA-CTACCTTAAACTTTGGTAACATTTTAGGTGCAACCAAT
130 GGGAAA--TTAAAAATCCCATC-AACTTAAACTTTGGTAACATTTTAGGTGCAACCAAT
* * ** *
4443580 TTTATTAAACAT----TT--C---ACATAT--CAACCTAATTTCTTAGCG-CATATAATATTCTT
1 TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTAGCGACCCATAACATTCTT
*** * * * *
4443633 GAACGCAACCTGATTTTTTTTAAAGATATTCATAAC-ATTTTTACTTTAACTTATTTTGTTATCG
66 GGGTGCAACCTGA--TTTCTTATAGATATTCATAACAATTTTTATTTTAACTTATTTTGTTAT-T
* * * * * * *
4443697 AT--GATAATTCAAAAGCCCATTAACTTAAACTCTGCTAATATTTTAGGCGCAAACC-AT
128 ATGGGA-AATTAAAAATCCCATCAACTTAAACTTTGGTAACATTTTAGGTGC-AACCAAT
* * *
4443754 TTTATTAAACATAAAATTAACATT-CAGACCACAACCTACTTTCTTA
1 TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTA
4443800 ACGATTCGTA
Statistics
Matches: 479, Mismatches: 81, Indels: 60
0.77 0.13 0.10
Matches are distributed among these distances:
173 6 0.01
174 45 0.09
175 62 0.13
176 1 0.00
177 23 0.05
178 2 0.00
180 2 0.00
182 9 0.02
183 52 0.11
184 145 0.30
185 51 0.11
186 74 0.15
187 1 0.00
188 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (185 bp):
TTTATTAAACATAAAATTAGCATTACAGATCGCAACCTACTTTCTTAGCGACCCATAACATTCTT
GGGTGCAACCTGATTTCTTATAGATATTCATAACAATTTTTATTTTAACTTATTTTGTTATTATG
GGAAATTAAAAATCCCATCAACTTAAACTTTGGTAACATTTTAGGTGCAACCAAT
Found at i:4445180 original size:28 final size:28
Alignment explanation
Indices: 4445140--4445221 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
4445130 TATTTTGATC
*
4445140 ACTCTAACATTACGTAGTAAACGATGTT
1 ACTCTAACATTACATAGTAAACGATGTT
*
4445168 ACTCTAACATTACATAATAAACGATGTT
1 ACTCTAACATTACATAGTAAACGATGTT
*
4445196 ACTCTAACTTTACATAGTAAACGATG
1 ACTCTAACATTACATAGTAAACGATG
4445222 ATATGACAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
ACTCTAACATTACATAGTAAACGATGTT
Found at i:4445814 original size:24 final size:23
Alignment explanation
Indices: 4445774--4445827 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 23
4445764 CTTTAAAAAT
4445774 AAAAAAAAACACTAAAAAG-ATA
1 AAAAAAAAACACTAAAAAGAATA
4445796 AATAAAAAAACACTAAAAAGAATA
1 AA-AAAAAAACACTAAAAAGAATA
4445820 AAAAAAAA
1 AAAAAAAA
4445828 GTTTCAATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.07
23 23 0.77
24 5 0.17
ACGTcount: A:0.80, C:0.07, G:0.04, T:0.09
Consensus pattern (23 bp):
AAAAAAAAACACTAAAAAGAATA
Found at i:4447738 original size:22 final size:22
Alignment explanation
Indices: 4447690--4447741 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
4447680 CTAGTACTGT
*
4447690 GGCACTTTTGTATCAGTACGAA
1 GGCACTTTAGTATCAGTACGAA
* * * *
4447712 TGCACTTTAGTATTAGTTCTAA
1 GGCACTTTAGTATCAGTACGAA
4447734 GGCACTTT
1 GGCACTTT
4447742 CGTTATATGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (22 bp):
GGCACTTTAGTATCAGTACGAA
Found at i:4448661 original size:86 final size:86
Alignment explanation
Indices: 4448561--4448732 Score: 326
Period size: 86 Copynumber: 2.0 Consensus size: 86
4448551 ACTTAGCCAA
4448561 ATACATGATACATCTATTTCAACATTTAAGAAAGTAAACAACAACAAGCGTAAATAAAAAATATG
1 ATACATGATACATCTATTTCAACATTTAAGAAAGTAAACAACAACAAGCGTAAATAAAAAATATG
4448626 ATGTAATTGATTAGATAATAT
66 ATGTAATTGATTAGATAATAT
* *
4448647 ATACATGATACATCTATTTCAACATTTAAGCAAGTAAATAACAACAAGCGTAAATAAAAAATATG
1 ATACATGATACATCTATTTCAACATTTAAGAAAGTAAACAACAACAAGCGTAAATAAAAAATATG
4448712 ATGTAATTGATTAGATAATAT
66 ATGTAATTGATTAGATAATAT
4448733 TTCATAATTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.30
Consensus pattern (86 bp):
ATACATGATACATCTATTTCAACATTTAAGAAAGTAAACAACAACAAGCGTAAATAAAAAATATG
ATGTAATTGATTAGATAATAT
Found at i:4451331 original size:14 final size:15
Alignment explanation
Indices: 4451292--4451333 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
4451282 TGGTTTTCCG
*
4451292 GAAAATGAATTACTG
1 GAAAATGAATTACTA
**
4451307 GAATTTGAATT-CTA
1 GAAAATGAATTACTA
4451321 GAAAATGAATTAC
1 GAAAATGAATTAC
4451334 ATTTCTGGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.31
Consensus pattern (15 bp):
GAAAATGAATTACTA
Found at i:4451339 original size:20 final size:20
Alignment explanation
Indices: 4451316--4451365 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4451306 GGAATTTGAA
*
4451316 TTCTAGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
4451336 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
4451356 TTCTGGAAAA
1 TTCTGGAAAA
4451366 CATCTGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:4451558 original size:49 final size:50
Alignment explanation
Indices: 4451461--4451559 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
4451451 TACAAATATT
*
4451461 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
4451511 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
4451560 TTAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:4451712 original size:22 final size:20
Alignment explanation
Indices: 4451684--4451726 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
4451674 TCTTTACTAA
4451684 AATATTATTTAAATATATAAAT
1 AATATTA-TTAAATAT-TAAAT
*
4451706 AATATTATTCAATATTAAAT
1 AATATTATTAAATATTAAAT
4451726 A
1 A
4451727 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATTATTAAATATTAAAT
Found at i:4451729 original size:19 final size:21
Alignment explanation
Indices: 4451681--4451729 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
4451671 ATATCTTTAC
4451681 TAAA-ATATTATTTAAATATA
1 TAAATATATTATTTAAATATA
*
4451701 TAAATAATATTA-TTCAATAT-
1 TAAAT-ATATTATTTAAATATA
4451721 TAAATATAT
1 TAAATATAT
4451730 AAAAAATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 9 0.35
21 7 0.27
22 6 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATATATTATTTAAATATA
Found at i:4451811 original size:15 final size:16
Alignment explanation
Indices: 4451773--4451826 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 16
4451763 ATAATATCTT
4451773 ATATTATTATAATATA
1 ATATTATTATAATATA
*
4451789 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
4451806 ATATTA--AAAATATA
1 ATATTATTATAATATA
4451820 ATATTAT
1 ATATTAT
4451827 ATTATTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
15 4 0.13
16 2 0.06
17 8 0.26
18 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:4451819 original size:31 final size:32
Alignment explanation
Indices: 4451783--4451851 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
4451773 ATATTATTAT
*
4451783 AATATAATTGATTATTTTA-TAT-AATATT-AAA
1 AATATAA-T-ATTATATTATTATGAATATTGAAA
*
4451814 AATATAATATTATATTATTATGAATATTGATA
1 AATATAATATTATATTATTATGAATATTGAAA
4451846 AATATA
1 AATATA
4451852 TTTTAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 8 0.24
30 4 0.12
31 13 0.39
32 8 0.24
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (32 bp):
AATATAATATTATATTATTATGAATATTGAAA
Found at i:4451861 original size:52 final size:53
Alignment explanation
Indices: 4451741--4451862 Score: 132
Period size: 52 Copynumber: 2.3 Consensus size: 53
4451731 AAAAATGTAT
4451741 TATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTGA
1 TATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATTGA
*
4451794 T-TAT-TTTATATAATATTAAAAATATAATA-TTATATTATTATGA-AT-ATTGA
1 TATATATTT-TA-AATATTAAAAATATAATACTTATATTATTATAATATAATTGA
4451844 TAAATATATTTTAAATATT
1 T--ATATATTTTAAATATT
4451863 TTAATAATTA
Statistics
Matches: 60, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
50 7 0.12
51 6 0.10
52 24 0.40
53 7 0.12
54 16 0.27
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (53 bp):
TATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATTGA
Found at i:4452106 original size:43 final size:42
Alignment explanation
Indices: 4452051--4452163 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
4452041 ATGAATTACA
4452051 TTCCGGAAAACGAATTACGTGAAACAAACACAGGAAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACA-AGGAAAAACATT
* *
4452094 TTCCGGAAAACGAATTACGTGAAACAAACATGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACAAGGAAAAACATT
** *
4452136 TTATGGAAAACGAATTACATGAAACAAA
1 TTCCGGAAAACGAATTACGTGAAACAAA
4452164 TACGGGATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 35 0.54
43 30 0.46
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACAAGGAAAAACATT
Found at i:4464131 original size:11 final size:11
Alignment explanation
Indices: 4464115--4464142 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
4464105 ATTTGACTTT
4464115 GATGATGTAAG
1 GATGATGTAAG
4464126 GATGATGTAAG
1 GATGATGTAAG
4464137 GATGAT
1 GATGAT
4464143 ATAGCATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.36, T:0.29
Consensus pattern (11 bp):
GATGATGTAAG
Found at i:4466183 original size:23 final size:24
Alignment explanation
Indices: 4466143--4466188 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
4466133 TTTTTCATCA
* *
4466143 AAAGGAAAAGAC-ACAAAATAAAT
1 AAAGAAAAAGACAAAAAAATAAAT
*
4466166 AAAGAAAAAGGCAAAAAAATAAA
1 AAAGAAAAAGACAAAAAAATAAA
4466189 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.74, C:0.07, G:0.13, T:0.07
Consensus pattern (24 bp):
AAAGAAAAAGACAAAAAAATAAAT
Found at i:4474539 original size:2 final size:2
Alignment explanation
Indices: 4474534--4474595 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
4474524 TATATATATA
4474534 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4474576 TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG
4474596 GTTTTTGAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:4476985 original size:14 final size:13
Alignment explanation
Indices: 4476966--4476995 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
4476956 AAATCGGACG
4476966 AATCATAATTTTAT
1 AATCATAATTTT-T
4476980 AATCATAATTTTT
1 AATCATAATTTTT
4476993 AAT
1 AAT
4476996 ATTTAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
AATCATAATTTTT
Found at i:4479560 original size:137 final size:136
Alignment explanation
Indices: 4479314--4479580 Score: 385
Period size: 137 Copynumber: 2.0 Consensus size: 136
4479304 TGCCGAAATG
* * * *
4479314 GTAATTCACAAACTTATTATGAACTCTATGAATGCACACATAGTGTCGAAAGTACATATAGTACT
1 GTAATTCACAAACTCATTATGAACTCCATGAATGCACACATAGTGTCGAAAGTACAAATAATACT
*
4479379 CATACAAAAATGCAACATATGCATTAAACAAAATCGATTGATAACCTTCATACACAAATGTATGT
66 CATACAAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTCATACACAAA-GTATGT
4479444 CATGATT
130 CATGATT
** *
4479451 GTAATTCACAAACTCATTATGAA-TACCATGGTTGCACACCTAGTG-CTGAAAGTACAAATAATA
1 GTAATTCACAAACTCATTATGAACT-CCATGAATGCACACATAGTGTC-GAAAGTACAAATAATA
* ** *
4479514 CTGATAGGAAAATGCAACATATGCATTAATCAAAATCGATCGATAACCTTCATACACAAAGTATG
64 CTCATACAAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTCATACACAAAGTATG
4479579 TC
129 TC
4479581 GAAATGCACC
Statistics
Matches: 116, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
136 9 0.08
137 107 0.92
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (136 bp):
GTAATTCACAAACTCATTATGAACTCCATGAATGCACACATAGTGTCGAAAGTACAAATAATACT
CATACAAAAATGCAACATATGCATTAAACAAAATCGATCGATAACCTTCATACACAAAGTATGTC
ATGATT
Found at i:4484722 original size:137 final size:136
Alignment explanation
Indices: 4484471--4484748 Score: 405
Period size: 137 Copynumber: 2.0 Consensus size: 136
4484461 CTAAGTGTTG
* * * *
4484471 AAATGGTAATTCACAAACTCATTATGAATTCCATGAATGCACACATAGTTTAGAAATTACACATA
1 AAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTCTAGAAAGTACAAATA
* *
4484536 GTACTGATACGAAAATGCAACATATACATTAAACAGAATCAATCGATAACCTTCATACACAAATG
66 GTACTGATACGAAAATGCAACATATACATTAAACAAAATCAATCAATAACCTTCATACACAAA-G
4484601 TATGTCA
130 TATGTCA
** *
4484608 AAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACACCTAGTGCTA-AAAGTACAAAT
1 AAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGT-CTAGAAAGTACAAAT
* * * *
4484672 AGTACTGATATGAAAATGTAACATATGCATTAAACAAAATCGATCAATAACCTTCATACACAAAG
65 AGTACTGATACGAAAATGCAACATATACATTAAACAAAATCAATCAATAACCTTCATACACAAAG
*
4484737 TATGTCG
130 TATGTCA
4484744 AAATG
1 AAATG
4484749 CACCTTATGA
Statistics
Matches: 126, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
136 12 0.10
137 112 0.89
138 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (136 bp):
AAATGGTAATTCACAAACTCATTATGAATACCATGAATGCACACATAGTCTAGAAAGTACAAATA
GTACTGATACGAAAATGCAACATATACATTAAACAAAATCAATCAATAACCTTCATACACAAAGT
ATGTCA
Found at i:4495288 original size:17 final size:17
Alignment explanation
Indices: 4495268--4495303 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4495258 TATTTATTTA
*
4495268 TTAAAAAATAATATTAT
1 TTAAAAAATAATATCAT
*
4495285 TTAAAAAATGATATCAT
1 TTAAAAAATAATATCAT
4495302 TT
1 TT
4495304 TGTACTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAAAAATAATATCAT
Found at i:4501233 original size:15 final size:15
Alignment explanation
Indices: 4501213--4501245 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
4501203 TTTTACAATA
4501213 TTATTTATT-TTATTT
1 TTATTT-TTATTATTT
4501228 TTATTTTTATTATTT
1 TTATTTTTATTATTT
4501243 TTA
1 TTA
4501246 ATAACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTATTT
Found at i:4509128 original size:65 final size:64
Alignment explanation
Indices: 4509010--4509221 Score: 225
Period size: 65 Copynumber: 3.3 Consensus size: 64
4509000 TATTCAAAGG
* * *
4509010 CATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCACCGATGCA-CACTCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGCA
*
4509072 TTC
62 TTT
4509075 CATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * * ** * **
4509140 GATGCATCGATTCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
4509204 CATGCATCGATGCACACT
1 CATGCACCGATGCACACT
4509222 TGGTGCACCG
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
63 7 0.06
64 54 0.43
65 65 0.52
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:4515046 original size:20 final size:21
Alignment explanation
Indices: 4515017--4515072 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
4515007 TTTGCGCTTC
*
4515017 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
4515037 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
4515059 ATGCATCGATGCAT
1 ATGCATCGATGCAT
4515073 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:4516644 original size:21 final size:21
Alignment explanation
Indices: 4516602--4516645 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4516592 ACCCCGGGAG
*
4516602 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
4516623 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
4516644 CT
1 CT
4516646 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:4517794 original size:64 final size:65
Alignment explanation
Indices: 4517617--4517779 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
4517607 GAATTAATTG
* * *
4517617 AACATCGAATGCATTCCATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
4517682 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
4517745 A
65 A
4517746 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
4517780 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.42
65 50 0.58
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:4519974 original size:21 final size:22
Alignment explanation
Indices: 4519941--4519983 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4519931 CCCCAACAAG
4519941 GAGTACCGATAC-TCCTTTAAT
1 GAGTACCGATACTTCCTTTAAT
* *
4519962 GAGTATCGGTACTTCCTTTAAT
1 GAGTACCGATACTTCCTTTAAT
4519984 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (22 bp):
GAGTACCGATACTTCCTTTAAT
Found at i:4524041 original size:18 final size:18
Alignment explanation
Indices: 4524018--4524066 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4524008 GAATACACAA
4524018 ATGACCTTGAGATTGAAG
1 ATGACCTTGAGATTGAAG
* **
4524036 ATGACCCTGAGATTGTTG
1 ATGACCTTGAGATTGAAG
*
4524054 ATGATCTTGAGAT
1 ATGACCTTGAGAT
4524067 CATTAACAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (18 bp):
ATGACCTTGAGATTGAAG
Found at i:4529168 original size:17 final size:18
Alignment explanation
Indices: 4529146--4529179 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4529136 TATGCTTTGA
4529146 ATATATG-TTTTATATAT
1 ATATATGATTTTATATAT
*
4529163 ATATATGATTTTGTATA
1 ATATATGATTTTATATA
4529180 GACTGTGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
ATATATGATTTTATATAT
Found at i:4530596 original size:2 final size:2
Alignment explanation
Indices: 4530589--4530617 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4530579 TTTATTAAGC
4530589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4530618 GATGCTACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4532871 original size:3 final size:3
Alignment explanation
Indices: 4532865--4532953 Score: 178
Period size: 3 Copynumber: 29.7 Consensus size: 3
4532855 TATCAACAAC
4532865 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4532913 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4532954 CAAATGTAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 86 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4533274 original size:39 final size:40
Alignment explanation
Indices: 4533208--4533297 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 40
4533198 CTTCTTTTGA
* * *
4533208 TGAATGATGCTGACTCTGGTGACGATC-TACTCTTTCCTC
1 TGAAAGATGCTGACTCTGGTGACGATCTTACTCCTTCATC
* * *
4533247 TTAAAGATGCTGAGTCATGG-GATGATCTTACTCCTTCATC
1 TGAAAGATGCTGACTC-TGGTGACGATCTTACTCCTTCATC
*
4533287 TGAAGGATGCT
1 TGAAAGATGCT
4533298 AAGCCGTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.34
Consensus pattern (40 bp):
TGAAAGATGCTGACTCTGGTGACGATCTTACTCCTTCATC
Found at i:4550119 original size:15 final size:14
Alignment explanation
Indices: 4550094--4550123 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4550084 TACCATATCT
4550094 CTTTTCCATTTTAC
1 CTTTTCCATTTTAC
4550108 CTTTTACCATTTTAC
1 CTTTT-CCATTTTAC
4550123 C
1 C
4550124 CCCAAGAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (14 bp):
CTTTTCCATTTTAC
Found at i:4555180 original size:19 final size:21
Alignment explanation
Indices: 4555134--4555178 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
4555124 AGGAATAAAG
*
4555134 AGAGAGAAATGGAGGAGAAAA
1 AGAGAAAAATGGAGGAGAAAA
4555155 AGAGAAAAATGGAGGAGAAAA
1 AGAGAAAAATGGAGGAGAAAA
4555176 AGA
1 AGA
4555179 AAGAAAAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (21 bp):
AGAGAAAAATGGAGGAGAAAA
Found at i:4555195 original size:23 final size:21
Alignment explanation
Indices: 4555134--4555188 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
4555124 AGGAATAAAG
* *
4555134 AGAGAGAAATGGAGGAGAAAA
1 AGAGAAAAAGGGAGGAGAAAA
*
4555155 AGAGAAAAATGGAGGAGAAAA
1 AGAGAAAAAGGGAGGAGAAAA
*
4555176 AGAAAGAAAAGGG
1 AGAGA-AAAAGGG
4555189 GGGGAGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.04
Consensus pattern (21 bp):
AGAGAAAAAGGGAGGAGAAAA
Found at i:4557805 original size:131 final size:131
Alignment explanation
Indices: 4557571--4557965 Score: 578
Period size: 131 Copynumber: 3.0 Consensus size: 131
4557561 GGATTTTAAA
* * * *
4557571 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAAT-AGTCTCTAATGCCTTAAAGCA
1 AGAGAAAATGATAATATCTAATTATTTCCAATCAAGAATAAATGA-CCTCTCATGCCTTAAAGCA
* *
4557635 GTCATTTATTACTCCAATCGAAATAAAGAGGTATAACTATTTCGTCTTAAAAATCAATATTGATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATAACTATTTCGTCTTAAAAATCAATATTGATT
4557700 CG
130 CG
* **
4557702 AGAGAAAATGATAATATCTAATTGTTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAATAG
1 AGAGAAAATGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAG
*
4557767 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATAACTATTTCGTCTTAAAAATCAATATTGATTC
*
4557832 A
131 G
* *
4557833 AGAGAAAATGATAATATCTAATTATTTCCAATCGAA-AATAAATGACTTGTCATGCCTTAAAGCA
1 AGAGAAAATGATAATATCTAATTATTTCCAATC-AAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * * * * *
4557897 GTCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTTTGTCCTAAAATTCAATATTAATT
65 GTCATTTATTACTCCAATCGAAATGAAGAGATATAACTATTTCGTCTTAAAAATCAATATTGATT
4557962 CG
130 CG
4557964 AG
1 AG
4557966 TGTTACTTAT
Statistics
Matches: 238, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
131 235 0.99
132 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (131 bp):
AGAGAAAATGATAATATCTAATTATTTCCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCAG
TCATTTATTACTCCAATCGAAATGAAGAGATATAACTATTTCGTCTTAAAAATCAATATTGATTC
G
Found at i:4559861 original size:3 final size:3
Alignment explanation
Indices: 4559855--4559900 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
4559845 TATAAACATT
*
4559855 ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATT A-A ATA ATA ATTA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A-TA ATA
4559900 A
1 A
4559901 CATCAACAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
2 3 0.08
3 29 0.78
4 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4560350 original size:133 final size:135
Alignment explanation
Indices: 4560112--4560448 Score: 383
Period size: 133 Copynumber: 2.5 Consensus size: 135
4560102 GATATGCTCT
* * * *
4560112 GTTGTTTCTTCAGGGTATATCAAAT-TAGGAAATATTGATTCATTCCATTGTTCTTCAGGGAAGA
1 GTTGTTTCTTCAGGGAAAATCAGATCT-GGAAATGTTGATTCATTCCATTGTTCTTCAGGGAAGA
* * * * * * * *
4560176 TTGAATCGATGCAGACTTGTTCCACTGCTACTCGAGGAAGATCAAATC-TG-GAAAGAGGGGATT
65 TTGAAACGATACAGACTTGTTCCACTACTACTCAAGGAAGATCAAATCTTGAAAAACAAGGGATC
*** *
4560239 TGTTTC
130 CACTCC
* * * *
4560245 GTTGTTTCTTCAGGGAAAATCAGATCTGGAGATGTTGCTTCACTCCAATGTTCTTCAGGGAAGAT
1 GTTGTTTCTTCAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTGTTCTTCAGGGAAGAT
* * *
4560310 TGAAACGATACAGACTTGTTTCACTATTCCTCAAGGAAGATCAAATCTTGAAAAACAAGGGATCC
66 TGAAACGATACAGACTTGTTCCACTACTACTCAAGGAAGATCAAATCTTGAAAAACAAGGGATCC
4560375 ACTCC
131 ACTCC
** * * * *
4560380 ACTGCTTCTTCAGGGAAAATCAGATCTGGAAAAGTTGATTCATTCCATTATTCTTCAGGGAACAT
1 GTTGTTTCTTCAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTGTTCTTCAGGGAAGAT
4560445 TGAA
66 TGAA
4560449 TCGAGTTCGA
Statistics
Matches: 168, Mismatches: 33, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
133 95 0.57
134 3 0.02
135 70 0.42
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (135 bp):
GTTGTTTCTTCAGGGAAAATCAGATCTGGAAATGTTGATTCATTCCATTGTTCTTCAGGGAAGAT
TGAAACGATACAGACTTGTTCCACTACTACTCAAGGAAGATCAAATCTTGAAAAACAAGGGATCC
ACTCC
Found at i:4560447 original size:135 final size:133
Alignment explanation
Indices: 4560146--4560448 Score: 363
Period size: 135 Copynumber: 2.3 Consensus size: 133
4560136 TTAGGAAATA
* * * *
4560146 TTGATTCATTCCATTGTTCTTCAGGGAAGATTGAATCGATGCAGACTTGTTCCACTGCTACTCGA
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTGAAACGATACAGACTTGTTCCACTACTACTCAA
* * * **** * ** * *
4560211 GGAAGATCAAATCTGGAAAGAGGGGATTTGTTTCGTTGTTTCTTCAGGGAAAATCAGATCTGGAG
66 GGAAGATCAAATCTGAAAACAAGGGATCCACTCCACTGCTTCTTCAGGGAAAATCAGATCTGGAA
*
4560276 ATG
131 AAG
* * * * * *
4560279 TTGCTTCACTCCAATGTTCTTCAGGGAAGATTGAAACGATACAGACTTGTTTCACTATTCCTCAA
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTGAAACGATACAGACTTGTTCCACTACTACTCAA
4560344 GGAAGATCAAATCTTGAAAAACAAGGGATCCACTCCACTGCTTCTTCAGGGAAAATCAGATCTGG
66 GGAAGATCAAATC-TG-AAAACAAGGGATCCACTCCACTGCTTCTTCAGGGAAAATCAGATCTGG
4560409 AAAAG
129 AAAAG
* *
4560414 TTGATTCATTCCATTATTCTTCAGGGAACATTGAA
1 TTGATTCATTCCATTGTTCTTCAGGGAAGATTGAA
4560449 TCGAGTTCGA
Statistics
Matches: 140, Mismatches: 28, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
133 68 0.49
134 2 0.01
135 70 0.50
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (133 bp):
TTGATTCATTCCATTGTTCTTCAGGGAAGATTGAAACGATACAGACTTGTTCCACTACTACTCAA
GGAAGATCAAATCTGAAAACAAGGGATCCACTCCACTGCTTCTTCAGGGAAAATCAGATCTGGAA
AAG
Found at i:4573655 original size:19 final size:19
Alignment explanation
Indices: 4573631--4573697 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
4573621 ATGCAATAAG
4573631 TGCATCGATTCATAGGCAA
1 TGCATCGATTCATAGGCAA
* * *
4573650 TGCATCGATACACTATAG-AG
1 TGCATCGATTCA-TA-GGCAA
4573670 TGCATCGATTCATAGGCAA
1 TGCATCGATTCATAGGCAA
4573689 TGCATCGAT
1 TGCATCGAT
4573698 ACACTATAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 23 0.59
20 14 0.36
21 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (19 bp):
TGCATCGATTCATAGGCAA
Found at i:4573673 original size:39 final size:39
Alignment explanation
Indices: 4573629--4573722 Score: 179
Period size: 39 Copynumber: 2.4 Consensus size: 39
4573619 GAATGCAATA
4573629 AGTGCATCGATTCATAGGCAATGCATCGATACACTATAG
1 AGTGCATCGATTCATAGGCAATGCATCGATACACTATAG
4573668 AGTGCATCGATTCATAGGCAATGCATCGATACACTATAG
1 AGTGCATCGATTCATAGGCAATGCATCGATACACTATAG
*
4573707 AGTGCATCGATGCATA
1 AGTGCATCGATTCATA
4573723 AGGGCCAGAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (39 bp):
AGTGCATCGATTCATAGGCAATGCATCGATACACTATAG
Found at i:4573675 original size:20 final size:20
Alignment explanation
Indices: 4573650--4573717 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
4573640 TCATAGGCAA
4573650 TGCATCGATACACTATAGAG
1 TGCATCGATACACTATAGAG
* * *
4573670 TGCATCGATTCA-TA-GGCAA
1 TGCATCGATACACTATAG-AG
4573689 TGCATCGATACACTATAGAG
1 TGCATCGATACACTATAGAG
4573709 TGCATCGAT
1 TGCATCGAT
4573718 GCATAAGGGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 14 0.36
20 23 0.59
21 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
TGCATCGATACACTATAGAG
Found at i:4574117 original size:59 final size:59
Alignment explanation
Indices: 4574054--4574613 Score: 378
Period size: 59 Copynumber: 9.5 Consensus size: 59
4574044 GGAACTCTAT
4574054 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGA
* * *
4574113 GTGTGATAAAAAGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGA
* * * * * *
4574172 TTGCGCTAAAAAGATAAGGAAAT-AGTATTGAATGTATGAATTTCCATATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCA-TACTGAGTGTATGGATTTCCATATGGAGCACTGA
* * * * *
4574231 GTGTGCTAAAATGATAAGGAAATCATATTGAATATATAGATTTCCAGATAT-G-GCA-TTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCC--ATATGGAGCACTGA
* * ** * * *** * *
4574289 TATGTGCTAAAATGGTAAGGGGATCATACTGAGAGTATGGATTTCCAGAAAAAGAACTAA
1 -GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGA
* * * * * * * *
4574349 GGGTGCTACAAGGATAAGAAAATCATACTAACG-GTATGGATTTTCATATAGG-GCAATTCA
1 GTGTGCTAAAATGATAAGGAAATCATACTGA-GTGTATGGATTTCCATAT-GGAGC-ACTGA
* * * *
4574409 -TGTGCTAAAAATGGTAAGG-AATCATACT-AATAGTATGGATTTTCATATAGG-GCACTTCA
1 GTGTGCT-AAAATGATAAGGAAATCATACTGAGT-GTATGGATTTCCATAT-GGAGCAC-TGA
* * * **
4574468 -TGTGCTAAATATGGTAAATG-AATCATACT-AATGGTATGGATTCTCGCATA-GG-GCACTTC
1 GTGTGCTAAA-ATGAT-AAGGAAATCATACTGAGT-GTATGGATT-TC-CATATGGAGCACTGA
** * * * *
4574527 GTGTGCTAAAATGAGGAGGAAATCATATTAAGTATAT-GATATTCCAGATGGAGCACTGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGAT-TTCCATATGGAGCACTGA
* * * * *
4574586 GAGTGCTAATATTATAAGAAAATTATAC
1 GTGTGCTAAAATGATAAGGAAATCATAC
4574614 GAATTGTACA
Statistics
Matches: 398, Mismatches: 78, Indels: 50
0.76 0.15 0.10
Matches are distributed among these distances:
57 5 0.01
58 17 0.04
59 310 0.78
60 57 0.14
61 5 0.01
62 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATGGATTTCCATATGGAGCACTGA
Found at i:4574678 original size:44 final size:44
Alignment explanation
Indices: 4574629--4574875 Score: 379
Period size: 44 Copynumber: 5.6 Consensus size: 44
4574619 GTACAAATTT
* * * * * *
4574629 CTTATGAAATTATAGTAAGTAGATTGATAAAATAATCTTACGAG
1 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
* *
4574673 CTTATGGAATAAAGGTAAGTATATTGGTAAAATAAGCTTATGAG
1 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
4574717 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
1 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
*
4574761 CTTATGGAATAATGGTAAGTATATTAGTAAAATAAGCTTACGAG
1 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
4574805 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
1 CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
*
4574849 CTTATGGATTAAATGGTATA-TATATTG
1 CTTATGGAAT-AATGGTA-AGTATATTG
4574876 ATAAGAAATC
Statistics
Matches: 188, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
44 173 0.92
45 14 0.07
46 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.21, T:0.34
Consensus pattern (44 bp):
CTTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAG
Found at i:4575277 original size:30 final size:30
Alignment explanation
Indices: 4575243--4575329 Score: 138
Period size: 30 Copynumber: 2.9 Consensus size: 30
4575233 GAAATTACTA
* * *
4575243 TAGCAATTACTATAGCGTATCGATGCACTG
1 TAGCAGTTACTGTAGCTTATCGATGCACTG
*
4575273 TAGCAGTTACTGTAGCTTATTGATGCACTG
1 TAGCAGTTACTGTAGCTTATCGATGCACTG
4575303 TAGCAGTTACTGTAGCTTATCGATGCA
1 TAGCAGTTACTGTAGCTTATCGATGCA
4575330 TAATATTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TAGCAGTTACTGTAGCTTATCGATGCACTG
Found at i:4575991 original size:21 final size:21
Alignment explanation
Indices: 4575965--4576010 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4575955 TGATTTATTA
*
4575965 TTATGGATTTTAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
4575986 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
4576007 TTAT
1 TTAT
4576011 TGATGTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.20, T:0.57
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:4576021 original size:21 final size:21
Alignment explanation
Indices: 4575965--4576023 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4575955 TGATTTATTA
* *
4575965 TTATGGATTTTAAGTTTCTTG
1 TTATGGATGTCAAGTTTCTTG
* *
4575986 TTATGGATTTCAAGTTTGTTG
1 TTATGGATGTCAAGTTTCTTG
* *
4576007 TTATTGATGTGAAGTTT
1 TTATGGATGTCAAGTTT
4576024 ATTGGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.03, G:0.22, T:0.54
Consensus pattern (21 bp):
TTATGGATGTCAAGTTTCTTG
Found at i:4579296 original size:3 final size:3
Alignment explanation
Indices: 4579288--4579328 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4579278 TATTTATTTT
*
4579288 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4579329 TAAATGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4579916 original size:113 final size:111
Alignment explanation
Indices: 4579653--4580202 Score: 780
Period size: 113 Copynumber: 5.0 Consensus size: 111
4579643 TAGGGTCATG
** * * *
4579653 CAAAAGG-TTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTC--ATGAGTTCTTCTC
* * ** *
4579717 ATTATGAACTTTCTCTGGTAATGCCGATCCATCAAATGATGAATTCAAA
64 ATTATGAAC-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* * * * *
4579766 CAAAAAG-TTGAACAAATTCTTCTCATTATTAATTTCTTCTTCCTTCTT--T-AG-----ATGAT
1 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCATGAGTTCTTCTCAT
*
4579822 TATGAACTTCTCTGGAAAAGTTGACCCATCGAATGATGAATTCAAA
66 TATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
*
4579868 CAAAAGGTTTGAACAAATTCTTCTTATTATTAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTC--ATGAGTTCTTCTC
4579933 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
64 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
4579981 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTC--ATGAGTTCTTCTC
4580046 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
64 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
4580094 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTC--ATGAGTTCTTCTC
*
4580159 ATTATGAACTTCTCT-GAAAAGTTGATCCATCGAATGATGGATTC
64 ATTATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTC
4580203 GAATCTTTGC
Statistics
Matches: 405, Mismatches: 21, Indels: 23
0.90 0.05 0.05
Matches are distributed among these distances:
102 39 0.10
103 50 0.12
107 1 0.00
108 4 0.01
109 1 0.00
112 28 0.07
113 282 0.70
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (111 bp):
CAAAAGGTTTGAACAAATTCTTCTTATTATGAATTTCTTCTTCCTTCTTCATGAGTTCTTCTCAT
TATGAACTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
Found at i:4580148 original size:24 final size:23
Alignment explanation
Indices: 4580113--4580157 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
4580103 TGAACAAATT
*
4580113 CTTCTTATTATGAATTTCTTCTTC
1 CTTCTTATTATG-AGTTCTTCTTC
4580137 CTTCTTCA-TATGAGTTCTTCT
1 CTTCTT-ATTATGAGTTCTTCT
4580158 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 10 0.53
25 1 0.05
ACGTcount: A:0.16, C:0.22, G:0.07, T:0.56
Consensus pattern (23 bp):
CTTCTTATTATGAGTTCTTCTTC
Found at i:4581366 original size:18 final size:18
Alignment explanation
Indices: 4581337--4581416 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 18
4581327 ATTTACAAAA
4581337 TAAAAGAATAAATTGAATT
1 TAAAA-AATAAATTGAATT
**
4581356 TCGAAAATAAATTGAATCT
1 TAAAAAATAAATTGAAT-T
*
4581375 AAAAAAATAAATTGAATT
1 TAAAAAATAAATTGAATT
4581393 TAGAGAAAATAAACTTAGAATT
1 TA-A-AAAATAAA-TT-GAATT
4581415 TA
1 TA
4581417 TTAATAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
18 14 0.28
19 19 0.38
20 8 0.16
21 2 0.04
22 7 0.14
ACGTcount: A:0.56, C:0.04, G:0.10, T:0.30
Consensus pattern (18 bp):
TAAAAAATAAATTGAATT
Found at i:4581383 original size:19 final size:18
Alignment explanation
Indices: 4581337--4581392 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
4581327 ATTTACAAAA
*
4581337 TAAAAGAATAAATTGAAT
1 TAAAAAAATAAATTGAAT
***
4581355 TTCGAAAATAAATTGAAT
1 TAAAAAAATAAATTGAAT
4581373 CTAAAAAAATAAATTGAAT
1 -TAAAAAAATAAATTGAAT
4581392 T
1 T
4581393 TAGAGAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (18 bp):
TAAAAAAATAAATTGAAT
Found at i:4581771 original size:22 final size:20
Alignment explanation
Indices: 4581741--4581805 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
4581731 TTCATCTTGA
*
4581741 CTCTATTTTTTTATT-TTCTT
1 CTCT-TTTTTTTATTATTTTT
*
4581761 CTGTTTTTTTTATTATTTTT
1 CTCTTTTTTTTATTATTTTT
4581781 CTCTTTTTTTTCATTTCATTTTT
1 CTCTTTTTTTT-A-TT-ATTTTT
4581804 CT
1 CT
4581806 TTTCTCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 10 0.26
20 17 0.45
21 1 0.03
22 2 0.05
23 8 0.21
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (20 bp):
CTCTTTTTTTTATTATTTTT
Found at i:4589169 original size:15 final size:15
Alignment explanation
Indices: 4589146--4589177 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4589136 TGCAATGAAT
4589146 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
4589161 AATGCATGTATGCAA
1 AATGAATGTATGCAA
4589176 AA
1 AA
4589178 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:4591894 original size:25 final size:24
Alignment explanation
Indices: 4591857--4591907 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
4591847 GAACACACAA
** *
4591857 AAAGAAATGAATTAGTTTACATAAT
1 AAAGAAAAAAATTAATTTA-ATAAT
4591882 AAAGAAAAAAATTAATTTAATAAT
1 AAAGAAAAAAATTAATTTAATAAT
4591906 AA
1 AA
4591908 TGTCTACCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (24 bp):
AAAGAAAAAAATTAATTTAATAAT
Found at i:4594750 original size:3 final size:3
Alignment explanation
Indices: 4594742--4594773 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
4594732 TATTTATTTT
*
4594742 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4594774 TAAATGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4595630 original size:20 final size:20
Alignment explanation
Indices: 4595601--4595639 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4595591 TAATTTGGAT
*
4595601 CCTCTGATTAAAATACAGAC
1 CCTCTAATTAAAATACAGAC
*
4595621 CCTCTAATTAAAGTACAGA
1 CCTCTAATTAAAATACAGA
4595640 TCTGAGTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (20 bp):
CCTCTAATTAAAATACAGAC
Found at i:4595811 original size:16 final size:16
Alignment explanation
Indices: 4595790--4595835 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
4595780 GGGAGATGTC
4595790 TGAGTTCTCATAGGGT
1 TGAGTTCTCATAGGGT
*
4595806 TGAGTTCTCAGAGGGT
1 TGAGTTCTCATAGGGT
*
4595822 TGAGTTCTTATAGG
1 TGAGTTCTCATAGG
4595836 TTTTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.37
Consensus pattern (16 bp):
TGAGTTCTCATAGGGT
Found at i:4599335 original size:24 final size:24
Alignment explanation
Indices: 4599293--4599364 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
4599283 AAACGGAGAT
* *
4599293 ATCAGAAATCAAAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
** *
4599317 ATCAGATGTCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
4599341 ATCAGAAATCAGAATAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
4599365 GTAATGTATC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:4602885 original size:45 final size:45
Alignment explanation
Indices: 4602821--4603027 Score: 342
Period size: 45 Copynumber: 4.6 Consensus size: 45
4602811 ATCAATTTCA
* *
4602821 CATTTATGGCATCCTTTCATGCCTTTTATGCACCATTATGCATTC
1 CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCATTT
*
4602866 CATTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTT
1 CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCATTT
* *
4602911 CATTTATGGTATCCTTTCATGCCTTTAATGCACCGTTATGCATTT
1 CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCATTT
*
4602956 CATTTATGGCATTCTTTCATGCCTTTAATGCACCATTATGCATTTT
1 CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCA-TTT
*
4603002 CATTTATGGCATCCTTTCATTCCTTT
1 CATTTATGGCATCCTTTCATGCCTTT
4603028 TATGTCAAAT
Statistics
Matches: 152, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
45 125 0.82
46 27 0.18
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (45 bp):
CATTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGCATTT
Found at i:4603390 original size:54 final size:53
Alignment explanation
Indices: 4603332--4603699 Score: 434
Period size: 54 Copynumber: 6.8 Consensus size: 53
4603322 CTATACGGCC
* * * *
4603332 GTTCATCAACACATGATGAATTCTGTGAGTTGCACACATAGTGCATGTACGGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGC-TGAACGGTT
* *
4603386 GTTCATCAACATATGATGAATTCTGTGGGTTGCACACATAGTGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCTG-AACGGTT
* * * * *
4603440 GTTCATCAACATATGATGAATTGCGTGGGTTGCATACTTAGTGCTAAAACAGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCT-GAACGGTT
* * *
4603494 ATTCATCAACATATGATGAATTCCGTGGGATGCACACATAGTGCCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCTG-AACGGTT
* ** * *
4603548 GTCCATCAACATATGATGAATTATGTGGGTTGTACACTTAGTG-TCGAAACGGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCT-G-AACGGTT
* * *
4603602 GTTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTG-TAAAAATGGTT
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCT--GAACGGTT
* *
4603656 GTTCATCAACATATGATGAATTCCGCGGGTTGCACACTTAGTGC
1 GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGC
4603700 CTATTTGGTA
Statistics
Matches: 269, Mismatches: 39, Indels: 11
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.00
54 268 1.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (53 bp):
GTTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCTGAACGGTT
Found at i:4603424 original size:27 final size:27
Alignment explanation
Indices: 4603344--4603425 Score: 64
Period size: 27 Copynumber: 3.0 Consensus size: 27
4603334 TCATCAACAC
4603344 ATGATGAATTCTGTGAGTTGCACACAT
1 ATGATGAATTCTGTGAGTTGCACACAT
* * *
4603371 AGTGCATG--TACGGT-TGTT-CATCAACAT
1 A-TG-ATGAATTCTGTGAGTTGCA-C-ACAT
*
4603398 ATGATGAATTCTGTGGGTTGCACACAT
1 ATGATGAATTCTGTGAGTTGCACACAT
4603425 A
1 A
4603426 GTGCCGAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 16
0.65 0.10 0.25
Matches are distributed among these distances:
25 5 0.12
26 6 0.15
27 19 0.46
28 6 0.15
29 5 0.12
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (27 bp):
ATGATGAATTCTGTGAGTTGCACACAT
Found at i:4603456 original size:108 final size:108
Alignment explanation
Indices: 4603308--4603699 Score: 502
Period size: 108 Copynumber: 3.6 Consensus size: 108
4603298 TTTATTAAAA
* * * ** * * *
4603308 TGCACACGTAGTGCCTATACGGCCGTTCATCAACACATGATGAATTCTGTGAGTTGCACACATAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
* *
4603373 TGC-ATGTACGGTTGTTCATCAACATATGATGAATTCTGTGGGT
66 TGCTA-GAACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*
4603416 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTGC-GTGGGTTGCATACTTA
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATT-CTGTGGGTTGCACACTTA
* * * *
4603480 GTGCTAAAACAGTTATTCATCAACATATGATGAATTCCGTGGGA
65 GTGCTAGAACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
* * *
4603524 TGCACACATAGTGCCGAAACGGTTGTCCATCAACATATGATGAATTATGTGGGTTGTACACTTAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
* *
4603589 TG-TCGAAACGGTTGTTCATCAACATATGATGAATTCCGTGAGT
66 TGCTAG-AACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
*** * * *
4603632 TGCACACATAGTGTAAAAATGGTTGTTCATCAACATATGATGAATTCCGCGGGTTGCACACTTAG
1 TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
4603697 TGC
66 TGC
4603700 CTATTTGGTA
Statistics
Matches: 245, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
107 1 0.00
108 242 0.99
109 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (108 bp):
TGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAG
TGCTAGAACGGTTGTTCATCAACATATGATGAATTCCGTGGGT
Found at i:4603600 original size:162 final size:160
Alignment explanation
Indices: 4603333--4603700 Score: 522
Period size: 162 Copynumber: 2.3 Consensus size: 160
4603323 TATACGGCCG
* * * * * *
4603333 TTCATCAACACATGATGAATTCTGTGAGTTGCACACATAGTGCATGTACGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGC-CGAACGGTTGTCCATCAACAT
* *
4603398 ATGATGAATTCTGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTG
65 ATGATGAATTATGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTC
* * *
4603463 CGTGGGTTGCATACTTAGTGCTAAAACA-GTTA
130 CGTGAGTTGCACACATAGTG-TAAAA-AGGTTA
*
4603495 TTCATCAACATATGATGAATTCCGTGGGATGCACACATAGTGCCGAAACGGTTGTCCATCAACAT
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCG-AACGGTTGTCCATCAACAT
* * *
4603560 ATGATGAATTATGTGGGTTGTACACTTAGTGTCGAAACGGTTGTTCATCAACATATGATGAATTC
65 ATGATGAATTATGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTC
*
4603625 CGTGAGTTGCACACATAGTGTAAAAATGGTTG
130 CGTGAGTTGCACACATAGTGTAAAAA-GGTTA
* *
4603657 TTCATCAACATATGATGAATTCCGCGGGTTGCACACTTAGTGCC
1 TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCC
4603701 TATTTGGTAA
Statistics
Matches: 184, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
160 1 0.01
161 6 0.03
162 177 0.96
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (160 bp):
TTCATCAACATATGATGAATTCCGTGGGTTGCACACATAGTGCCGAACGGTTGTCCATCAACATA
TGATGAATTATGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATGATGAATTCC
GTGAGTTGCACACATAGTGTAAAAAGGTTA
Found at i:4606986 original size:2 final size:2
Alignment explanation
Indices: 4606979--4607004 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4606969 CAGAAAAACA
4606979 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
4607005 TTCTGACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4608688 original size:22 final size:22
Alignment explanation
Indices: 4608662--4608734 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
4608652 CAATTTCACA
4608662 TTTATGGCATCCTTTCATGCCT
1 TTTATGGCATCCTTTCATGCCT
** *
4608684 TTTAT-GCA-CCATTATGCATTTCA
1 TTTATGGCATCC-TT-T-CATGCCT
*
4608707 TTTATGGCATCCTTTAATGCCT
1 TTTATGGCATCCTTTCATGCCT
4608729 TTTATG
1 TTTATG
4608735 TTAAATAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
20 2 0.05
21 5 0.13
22 15 0.38
23 10 0.26
24 5 0.13
25 2 0.05
ACGTcount: A:0.19, C:0.22, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTATGGCATCCTTTCATGCCT
Found at i:4608917 original size:46 final size:45
Alignment explanation
Indices: 4608808--4608922 Score: 167
Period size: 45 Copynumber: 2.5 Consensus size: 45
4608798 AAGGATGCCT
* * * *
4608808 TTTATGGCATCATTTCATGCATTTAATGCTCCATTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGAATTTCA
*
4608853 TTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGAATTTTTA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGAA-TTTCA
*
4608899 TTTATGGTATCCTTTCATGCCTTT
1 TTTATGGCATCCTTTCATGCCTTT
4608923 TATGTCAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 36 0.57
46 27 0.43
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (45 bp):
TTTATGGCATCCTTTCATGCCTTTAATGCACCATTATGAATTTCA
Found at i:4609290 original size:54 final size:54
Alignment explanation
Indices: 4609232--4609587 Score: 482
Period size: 54 Copynumber: 6.6 Consensus size: 54
4609222 CGGTCATTCG
* * *
4609232 TCAACACATGATGAATTACGTGAGTTGCACACATAGTGTCTG-TACGGTTGTTCA
1 TCAACATATGATGAATTACGTGAGTTGCACACATAGTG-CCGAAACGGTTGTTCA
* *
4609286 TCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACAGTTGTTCA
1 TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * * * * *
4609340 TCAACATATGATGAATTCCGTGGGTTACGCA-ATTAGTGTCAAAACGGTTGTTCA
1 TCAACATATGATGAATTACGTGAGTTGCACACA-TAGTGCCGAAACGGTTGTTCA
* * *
4609394 TCAACATATGATGAATTATGTGGGTTGCACACATAGTACCGAAACGGTTGTTCA
1 TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * * *
4609448 TCAATATATGATGAATTCCGTGAGTTGCACACTTAGTGCCGAAACGGTTGTTTA
1 TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCA
*
4609502 TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAATGGTTGTTCA
1 TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCA
* * *
4609556 TCAACATATGAAGAATTTCGTGGGTTGCACAC
1 TCAACATATGATGAATTACGTGAGTTGCACAC
4609588 TTAATGCCTA
Statistics
Matches: 266, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
53 3 0.01
54 262 0.98
55 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (54 bp):
TCAACATATGATGAATTACGTGAGTTGCACACATAGTGCCGAAACGGTTGTTCA
Found at i:4614906 original size:183 final size:183
Alignment explanation
Indices: 4614598--4614965 Score: 736
Period size: 183 Copynumber: 2.0 Consensus size: 183
4614588 AGGCACTGAG
4614598 GACGTAAGCACATTGCCGAACCTCGTCAAAATTCTTGTGTTTTTTCGTTTTCTTTACCCGATTAT
1 GACGTAAGCACATTGCCGAACCTCGTCAAAATTCTTGTGTTTTTTCGTTTTCTTTACCCGATTAT
4614663 CCAACATCATCAATATCACATATTTCCACATCAACGTGAGAAGACGAGAATGATACGATTTAGCA
66 CCAACATCATCAATATCACATATTTCCACATCAACGTGAGAAGACGAGAATGATACGATTTAGCA
4614728 ACGGTCCAAACCAAATTCATTCAAGTTGTGGAGCAACGTAAGGCTCTAGAAAA
131 ACGGTCCAAACCAAATTCATTCAAGTTGTGGAGCAACGTAAGGCTCTAGAAAA
4614781 GACGTAAGCACATTGCCGAACCTCGTCAAAATTCTTGTGTTTTTTCGTTTTCTTTACCCGATTAT
1 GACGTAAGCACATTGCCGAACCTCGTCAAAATTCTTGTGTTTTTTCGTTTTCTTTACCCGATTAT
4614846 CCAACATCATCAATATCACATATTTCCACATCAACGTGAGAAGACGAGAATGATACGATTTAGCA
66 CCAACATCATCAATATCACATATTTCCACATCAACGTGAGAAGACGAGAATGATACGATTTAGCA
4614911 ACGGTCCAAACCAAATTCATTCAAGTTGTGGAGCAACGTAAGGCTCTAGAAAA
131 ACGGTCCAAACCAAATTCATTCAAGTTGTGGAGCAACGTAAGGCTCTAGAAAA
4614964 GA
1 GA
4614966 ATAAGAAGAA
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 185 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (183 bp):
GACGTAAGCACATTGCCGAACCTCGTCAAAATTCTTGTGTTTTTTCGTTTTCTTTACCCGATTAT
CCAACATCATCAATATCACATATTTCCACATCAACGTGAGAAGACGAGAATGATACGATTTAGCA
ACGGTCCAAACCAAATTCATTCAAGTTGTGGAGCAACGTAAGGCTCTAGAAAA
Found at i:4621801 original size:20 final size:20
Alignment explanation
Indices: 4621776--4621990 Score: 142
Period size: 20 Copynumber: 9.7 Consensus size: 20
4621766 AATTGAAAAT
4621776 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
4621796 GCATGAACGGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
4621823 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
4621843 GCATGAAAGAATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
4621863 GCATGAACGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
4621883 GCATGAACGGATGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
4621910 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* * * *
4621930 TCATGAACGGACGCCATAATTGAAAAT
1 GCATGAAAGGATG-C---ATT---AAG
4621957 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
4621977 TCATGAAAGGATGC
1 GCATGAAAGGATGC
4621991 CATGTATATT
Statistics
Matches: 155, Mismatches: 19, Indels: 42
0.72 0.09 0.19
Matches are distributed among these distances:
20 91 0.59
21 3 0.02
23 9 0.06
24 9 0.06
26 3 0.02
27 40 0.26
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:4621832 original size:47 final size:47
Alignment explanation
Indices: 4621763--4621993 Score: 341
Period size: 47 Copynumber: 5.1 Consensus size: 47
4621753 AAATAAAATT
4621763 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* *
4621810 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAAAGAATG-
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* *
4621856 C---ATT---AAGGCATGAACGGATGCATTAAGGCATGAACGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* *
4621897 CATAATTGAAAATGCATGAAAGGATGCATTAAGTCATGAACGGACGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
* *
4621944 CATAATTGAAAATGCATGAAAGGATGCATTAAGTCATGAAAGGATGC
1 CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
4621991 CAT
1 CAT
4621994 GTATATTAAA
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
40 32 0.19
41 1 0.01
43 3 0.02
44 3 0.02
46 1 0.01
47 125 0.76
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.22
Consensus pattern (47 bp):
CATAATTGAAAATGCATGAAAGGATGCATTAAGGCATGAACGGATGC
Found at i:4621922 original size:87 final size:87
Alignment explanation
Indices: 4621776--4621936 Score: 304
Period size: 87 Copynumber: 1.9 Consensus size: 87
4621766 AATTGAAAAT
4621776 GCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGCATGAAAGGATGCATTA
1 GCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGCATGAAAGGATGCATTA
4621841 AGGCATGAAAGAATGCATTAAG
66 AGGCATGAAAGAATGCATTAAG
*
4621863 GCATGAACGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGCATGAAAGGATGCATTA
1 GCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGCATGAAAGGATGCATTA
*
4621928 AGTCATGAA
66 AGGCATGAA
4621937 CGGACGCCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.40, C:0.12, G:0.26, T:0.21
Consensus pattern (87 bp):
GCATGAAAGGATGCATTAAGGCATGAACGGATGCCATAATTGAAAATGCATGAAAGGATGCATTA
AGGCATGAAAGAATGCATTAAG
Found at i:4622857 original size:135 final size:141
Alignment explanation
Indices: 4622686--4623034 Score: 322
Period size: 145 Copynumber: 2.5 Consensus size: 141
4622676 TAACACTTCG
* ** * *
4622686 ATGTTATGAACTGAAACCTTTTTAGGTTCTTC-AGTTAAGGTTTACTCAATGAATAGTGAGTGAA
1 ATGTTATGAACTGTAACCTCATTAAGTTC-TCAAGTTAAGGTTTACTCAATGAATAGTGAGTAAA
* * *
4622750 TA-A-TCTT-G-TGT-TATATTACTTCTATTT-CTCCAAAAGTAAATACCTATATC-AAAAGCAT
65 TACATTATTAGTTCTATATATTACTTCTATTTGCCCCAAAAGTAAATACCTATATCGAAAA-CAT
4622808 ATGC-AACACCCCA
129 AT-CTAACACCCCA
* * * *
4622821 ATGTTATGAACTGTAACCTCATTAAGTTCTCAAGTTAAGGATTATTTAATGATTAGTGAGTAAAT
1 ATGTTATGAACTGTAACCTCATTAAGTTCTCAAGTTAAGGTTTACTCAATGAATAGTGAGTAAAT
* * * ** *
4622886 ACACTTTATTAGTTCTAACTATATTCCTTTTATTTGCCCCTAAAGTACCTACCTATATCGGAAAC
66 ACA--TTATTAGTTCT-A-TATATTACTTCTATTTGCCCCAAAAGTAAATACCTATATCGAAAAC
**
4622951 ATATCTAACACTTCA
127 ATATCTAACACCCCA
* * * *
4622966 ATGTTATGAACTGTAACCTCATT-AGATACTCAAGTTAAGGTTTATTCTCAACGATTAGTGAATA
1 ATGTTATGAACTGTAACCTCATTAAG-TTCTCAAGTTAAGGTTTA--CTCAATGAATAGTGAGTA
4623030 AATAC
63 AATAC
4623035 TCTTATGTTA
Statistics
Matches: 172, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
134 2 0.01
135 54 0.31
136 1 0.01
139 3 0.02
140 1 0.01
141 2 0.01
144 17 0.10
145 70 0.41
146 3 0.02
147 19 0.11
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (141 bp):
ATGTTATGAACTGTAACCTCATTAAGTTCTCAAGTTAAGGTTTACTCAATGAATAGTGAGTAAAT
ACATTATTAGTTCTATATATTACTTCTATTTGCCCCAAAAGTAAATACCTATATCGAAAACATAT
CTAACACCCCA
Found at i:4623136 original size:146 final size:143
Alignment explanation
Indices: 4622819--4623282 Score: 544
Period size: 146 Copynumber: 3.2 Consensus size: 143
4622809 TGCAACACCC
*
4622819 CAATGTTATGAACTGTAACCTCATTA-AGTTCTCAAGTTAAGGATTATTT-AATGATTAGTGAGT
1 CAATGTTATGAACTGTAACCTCATTAGA-TTCTCAAGTTAAGGTTTATTTCAATGATTAGTGAGT
* * * *
4622882 AAATACACTT-TATTAGTTCTAACTATATTCCTTTTATTTGCCCCTAAAGTACCTACCTATATCG
65 AAATACTCTTAT-TTA-CTCTAACTATTTTCCTTTTATTT-CCCCCAAAGTACCTACCTATA-CG
* *
4622946 GAAACATATCTAACACTT
126 AAAATATATCTAACACTT
* * *
4622964 CAATGTTATGAACTGTAACCTCATTAGATACTCAAGTTAAGGTTTATTCTCAACGATTAGTGAAT
1 CAATGTTATGAACTGTAACCTCATTAGATTCTCAAGTTAAGGTTTATT-TCAATGATTAGTGAGT
* **
4623029 AAATACTCTTATGTTACTCAAACTATTTTCCTTTTATTTCCCCCAAAGTACCTATATATACCGAA
65 AAATACTCTTAT-TTACTCTAACTATTTTCCTTTTATTTCCCCCAAAGTACCTACCTATA-CGAA
4623094 AATATATCTAACACTT
128 AATATATCTAACACTT
** * * * * *
4623110 TGATGTTGTGAACTGTAACCTTATTAGCTTCTCGAA-TTAAGGTTTA-TTCGATGATTAGAGAGT
1 CAATGTTATGAACTGTAACCTCATTAGATTCTC-AAGTTAAGGTTTATTTCAATGATTAGTGAGT
* * * * *
4623173 GAATACTCTTGCATTT-CTCTAACTATTTTCCTTTTACTTCCCCCTAATTAACTACCTATACGAA
65 AAATACTCTT--ATTTACTCTAACTATTTTCCTTTTATTTCCCCCAAAGTACCTACCTATACGAA
4623237 AATATATCTAACACTT
128 AATATATCTAACACTT
* *
4623253 CAATGTTATGAATTGTAACCTCGTTAGATT
1 CAATGTTATGAACTGTAACCTCATTAGATT
4623283 AGAGTTAAGG
Statistics
Matches: 272, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
143 43 0.16
144 58 0.21
145 47 0.17
146 77 0.28
147 43 0.16
148 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (143 bp):
CAATGTTATGAACTGTAACCTCATTAGATTCTCAAGTTAAGGTTTATTTCAATGATTAGTGAGTA
AATACTCTTATTTACTCTAACTATTTTCCTTTTATTTCCCCCAAAGTACCTACCTATACGAAAAT
ATATCTAACACTT
Found at i:4624169 original size:166 final size:166
Alignment explanation
Indices: 4623895--4624226 Score: 646
Period size: 166 Copynumber: 2.0 Consensus size: 166
4623885 TCACGACACA
4623895 AAGACCCTACTGTTTTCTTCCTCTTCCCAACCAAGAAATCTTTATACGATCTCCAATCATAGAAA
1 AAGACCCTACTGTTTTCTTCCTCTTCCCAACCAAGAAATCTTTATACGATCTCCAATCATAGAAA
*
4623960 TTGTTAAAAGACGTTCTGTCTTTTGAGCTCCTTGGCACTTCCCTTGTATGCCTCTCTGACCCTTA
66 TTGTTAAAAGACGTTCTGTCTTTTGAGCTCCTTGGCACTTCCCTTGTACGCCTCTCTGACCCTTA
4624025 AACTCCTTCACCTGTCTCGTTTTTATGAGACTATCC
131 AACTCCTTCACCTGTCTCGTTTTTATGAGACTATCC
*
4624061 AAGACCCTACTGTTTTCTTCCTCTTCCCAACCAAGAAATCTTTATACGATCTCCCATCATAGAAA
1 AAGACCCTACTGTTTTCTTCCTCTTCCCAACCAAGAAATCTTTATACGATCTCCAATCATAGAAA
4624126 TTGTTAAAAGACGTTCTGTCTTTTGAGCTCCTTGGCACTTCCCTTGTACGCCTCTCTGACCCTTA
66 TTGTTAAAAGACGTTCTGTCTTTTGAGCTCCTTGGCACTTCCCTTGTACGCCTCTCTGACCCTTA
4624191 AACTCCTTCACCTGTCTCGTTTTTATGAGACTATCC
131 AACTCCTTCACCTGTCTCGTTTTTATGAGACTATCC
4624227 CTTTTGTTAT
Statistics
Matches: 164, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.36
Consensus pattern (166 bp):
AAGACCCTACTGTTTTCTTCCTCTTCCCAACCAAGAAATCTTTATACGATCTCCAATCATAGAAA
TTGTTAAAAGACGTTCTGTCTTTTGAGCTCCTTGGCACTTCCCTTGTACGCCTCTCTGACCCTTA
AACTCCTTCACCTGTCTCGTTTTTATGAGACTATCC
Found at i:4629676 original size:34 final size:34
Alignment explanation
Indices: 4629637--4629703 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
4629627 TTCATGTTCA
*
4629637 AAATTCCATAACACTTCAATTACATTCTAAACCC
1 AAATTCCAAAACACTTCAATTACATTCTAAACCC
* * *
4629671 AAATTCCAAAATATTTTAATTACATTCTAAACC
1 AAATTCCAAAACACTTCAATTACATTCTAAACC
4629704 TTAAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (34 bp):
AAATTCCAAAACACTTCAATTACATTCTAAACCC
Found at i:4629781 original size:35 final size:35
Alignment explanation
Indices: 4629706--4629782 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
4629696 TCTAAACCTT
*
4629706 AAATTAAAGTATTTTAGAATTTAAGGTTTAAATTG
1 AAATTGAAGTATTTTAGAATTTAAGGTTTAAATTG
* * **
4629741 TAATTGAATTATTTTAGAATTTGGGGTTTAGAA-TG
1 AAATTGAAGTATTTTAGAATTTAAGGTTTA-AATTG
4629776 AAATTGA
1 AAATTGA
4629783 GGATTGTGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 33 0.94
36 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (35 bp):
AAATTGAAGTATTTTAGAATTTAAGGTTTAAATTG
Found at i:4630741 original size:17 final size:19
Alignment explanation
Indices: 4630719--4630758 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4630709 GATTTCTAAA
*
4630719 AAATGAAAA-AT-AAAAAT
1 AAATGAAAACATGAAAAAG
4630736 AAATGAAAACATGAAAAAG
1 AAATGAAAACATGAAAAAG
4630755 AAAT
1 AAAT
4630759 TTTCAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.15
Consensus pattern (19 bp):
AAATGAAAACATGAAAAAG
Found at i:4631181 original size:15 final size:15
Alignment explanation
Indices: 4631161--4631196 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4631151 TGTCACAACA
*
4631161 ACATCATAAATTATC
1 ACATCATAAACTATC
*
4631176 ACATCATAAACTGTC
1 ACATCATAAACTATC
4631191 ACATCA
1 ACATCA
4631197 ATATTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.28
Consensus pattern (15 bp):
ACATCATAAACTATC
Found at i:4632250 original size:24 final size:24
Alignment explanation
Indices: 4632214--4632260 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
4632204 GTTAAAAAGA
* *
4632214 TTGTGTTAGACATGCTTTCATACG
1 TTGTGTAAAACATGCTTTCATACG
4632238 TTGTGTAAAACATGCTTTCATAC
1 TTGTGTAAAACATGCTTTCATAC
4632261 ATTGAGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (24 bp):
TTGTGTAAAACATGCTTTCATACG
Found at i:4640232 original size:21 final size:21
Alignment explanation
Indices: 4640206--4640282 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
4640196 GCTCAACAGT
*
4640206 GAAGGGATGGATCCTGTTTGA
1 GAAGGGATCGATCCTGTTTGA
*
4640227 GAAGGGATCGATCTTGTTTGA
1 GAAGGGATCGATCCTGTTTGA
4640248 GAAGGGATCGATCCT-TCTTGA
1 GAAGGGATCGATCCTGT-TTGA
*
4640269 G-AGGGATTGATCCT
1 GAAGGGATCGATCCT
4640283 TTTCACGGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 13 0.25
21 38 0.75
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (21 bp):
GAAGGGATCGATCCTGTTTGA
Found at i:4646915 original size:20 final size:21
Alignment explanation
Indices: 4646880--4646918 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4646870 GCTCACCAGC
*
4646880 AAAGGGATCGATCCTTTTTTG
1 AAAGGGATCAATCCTTTTTTG
4646901 AAAGGG-TCAATCCTTTTT
1 AAAGGGATCAATCCTTTTT
4646919 CACGGGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (21 bp):
AAAGGGATCAATCCTTTTTTG
Found at i:4649222 original size:27 final size:29
Alignment explanation
Indices: 4649161--4649226 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
4649151 AAATCGGCAA
* *
4649161 AGAAGAGAAAAGAGAATTAAAATCAAACTT
1 AGAAGAGAAAAGAGAATAAAAATCAAAC-G
*
4649191 A-AAGAGAAGAGA-AATAAAAATCAAA-G
1 AGAAGAGAAAAGAGAATAAAAATCAAACG
4649217 AGAAGA-AAAA
1 AGAAGAGAAAA
4649227 TGCTCAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
26 4 0.13
27 4 0.13
28 12 0.39
29 10 0.32
30 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.18, T:0.11
Consensus pattern (29 bp):
AGAAGAGAAAAGAGAATAAAAATCAAACG
Found at i:4649584 original size:23 final size:23
Alignment explanation
Indices: 4649557--4649603 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
4649547 TAAAATTTAA
4649557 TAACCAAAAATCATTCAAAAACC
1 TAACCAAAAATCATTCAAAAACC
*
4649580 TAACCAAAAATTATTCAAAAACC
1 TAACCAAAAATCATTCAAAAACC
4649603 T
1 T
4649604 TTCAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.21
Consensus pattern (23 bp):
TAACCAAAAATCATTCAAAAACC
Found at i:4657770 original size:3 final size:3
Alignment explanation
Indices: 4657762--4657947 Score: 64
Period size: 3 Copynumber: 59.7 Consensus size: 3
4657752 AATCCATAAT
* *
4657762 TTA TTA TTA GTA TTTA TTCA TTA CATA TTA -TA TTTA TTA TATA TTA
1 TTA TTA TTA TTA -TTA TT-A TTA -TTA TTA TTA -TTA TTA T-TA TTA
* * *
4657808 -TA TGTA TTA TTA TTA TTA -TA TATA GTA TTA GTA TT- GTA TTA -TA
1 TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* * *
4657851 TATA TTA GTA TT- TCA TTGCA -TA TTA -TA TTTA TTA TCTA TCA TTA
1 T-TA TTA TTA TTA TTA TT--A TTA TTA TTA -TTA TTA T-TA TTA TTA
* * * * *
4657895 TTTA TCTA TTA TTA TTG TTG TTA GTTA TTA ATA CTA TTA TCA TTA TTA
1 -TTA T-TA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
4657943 TTA TT
1 TTA TT
4657948 GGTCTAAATG
Statistics
Matches: 137, Mismatches: 23, Indels: 46
0.67 0.11 0.22
Matches are distributed among these distances:
2 13 0.09
3 88 0.64
4 35 0.26
5 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:4657852 original size:25 final size:24
Alignment explanation
Indices: 4657766--4657862 Score: 82
Period size: 26 Copynumber: 4.2 Consensus size: 24
4657756 CATAATTTAT
* *
4657766 TATTAGTATTTATT-CAT-TACA-
1 TATTAGTATTTATTATATATATAG
4657787 TATTA-TATTTATTATATAT-TA-
1 TATTAGTATTTATTATATATATAG
*
4657808 TATGTATTA-TTATTATTATATATAG
1 TAT-TAGTATTTATTA-TATATATAG
4657833 TATTAGTATTGTATTATATATATTAG
1 TATTAGTATT-TATTATATATA-TAG
4657859 TATT
1 TATT
4657863 TCATTGCATA
Statistics
Matches: 63, Mismatches: 3, Indels: 15
0.78 0.04 0.19
Matches are distributed among these distances:
20 8 0.13
21 11 0.17
22 9 0.14
23 7 0.11
24 6 0.10
25 10 0.16
26 12 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (24 bp):
TATTAGTATTTATTATATATATAG
Found at i:4657854 original size:23 final size:21
Alignment explanation
Indices: 4657766--4657863 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 21
4657756 CATAATTTAT
*
4657766 TATTAGTATTTATTCAT-TACA
1 TATTAGTATTTATT-ATATATA
4657787 TATTA-TATTTATTATATATTA
1 TATTAGTATTTATTATATA-TA
*
4657808 TATGTATTATTATTATTATATATA
1 TAT-TAGTA-T-TTATTATATATA
4657832 GTATTAGTATTGTA-T-TATATA
1 -TATTAGTATT-TATTATATATA
4657853 TATTAGTATTT
1 TATTAGTATTT
4657864 CATTGCATAT
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
19 3 0.04
20 20 0.30
21 15 0.22
22 4 0.06
23 5 0.07
24 7 0.10
25 13 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
TATTAGTATTTATTATATATA
Found at i:4657885 original size:68 final size:68
Alignment explanation
Indices: 4657766--4657912 Score: 167
Period size: 68 Copynumber: 2.2 Consensus size: 68
4657756 CATAATTTAT
* *
4657766 TATTAGTATT-TATTCATTACATATTATATTTATTATATATTATATGTATTAT-TATTATTATAT
1 TATTAGTATTGTATTCATTACATATTATATTTATTACATATTATATGTATTATCTATCATTATAT
*
4657829 ATAG
66 AT-C
* * *
4657833 TATTAGTATTGTATT-A-TATATATTAGTATTTCATTGCATATTATATTTATTATCTATCATTAT
1 TATTAGTATTGTATTCATTACATATTA-TATTT-ATTACATATTATATGTATTATCTATCATTAT
*
4657896 TTATC
64 ATATC
*
4657901 TATTATTATTGT
1 TATTAGTATTGT
4657913 TGTTAGTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
66 8 0.12
67 16 0.24
68 33 0.49
69 11 0.16
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (68 bp):
TATTAGTATTGTATTCATTACATATTATATTTATTACATATTATATGTATTATCTATCATTATAT
ATC
Found at i:4666344 original size:5 final size:5
Alignment explanation
Indices: 4666334--4666413 Score: 81
Period size: 5 Copynumber: 14.8 Consensus size: 5
4666324 TGTGTTTATT
*
4666334 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTTGT TTTTA CTTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA --TTTTA
4666383 CTTTT- TTTTA TTATTA TTGTTA TTTTA TTTT
1 -TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTT
4666414 TTAAATTAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
4 4 0.06
5 34 0.52
6 22 0.34
7 5 0.08
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:4666375 original size:32 final size:31
Alignment explanation
Indices: 4666328--4666413 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 31
4666318 TGTACTTGTG
4666328 TTTATTTTTTATTTTATTTTA-TTTTATTTTAT
1 TTTATTTTTT-TTTTATTTTACTTTT-TTTTAT
4666360 TTTATTTTTGTTTTTACTTTTTACTTTTTTTTAT
1 TTTATTTTT-TTTTTA--TTTTACTTTTTTTTAT
* *
4666394 TATTATTGTTATTTTATTTT
1 T-TTATTTTTTTTTTATTTT
4666414 TTAAATTAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
32 18 0.38
33 1 0.02
34 17 0.36
35 11 0.23
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (31 bp):
TTTATTTTTTTTTTATTTTACTTTTTTTTAT
Found at i:4670233 original size:51 final size:49
Alignment explanation
Indices: 4670130--4670253 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 49
4670120 TTTATTTTAA
* * *
4670130 TTTAGTCACTGTTAATTTCTAATTTAACTACTATTATTTTAATTTTTGCAT
1 TTTAGTCACTATT-ATTTCTTATTTAACTACTA-TATTTTAATTTTTACAT
* * *
4670181 TTTGGTCCCTATTTATTTCTTATTTAACTACTA-ACTTTTATTTTCTTACAT
1 TTTAGTCACTA-TTATTTCTTATTTAACTACTATA-TTTTAATTT-TTACAT
*
4670232 TTTAGTCACTATTATTTTTTAT
1 TTTAGTCACTATTATTTCTTAT
4670254 GCAATCAGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 1 0.02
50 18 0.30
51 40 0.66
52 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (49 bp):
TTTAGTCACTATTATTTCTTATTTAACTACTATATTTTAATTTTTACAT
Found at i:4670293 original size:5 final size:5
Alignment explanation
Indices: 4670283--4670349 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
4670273 TGTGTTTATT
* *
4670283 TTTTA TTTTA TTTTG TTTT- TTTTA CTTTTTA CTTTT- TTTTA ATTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA --TTTTA -TTTTA TTTTA TTTTA
4670329 TTATTA TTGTTA TTTTA TTTT
1 TT-TTA TT-TTA TTTTA TTTT
4670350 TTAAATTAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
4 8 0.15
5 25 0.48
6 14 0.27
7 5 0.10
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4673867 original size:21 final size:20
Alignment explanation
Indices: 4673842--4674020 Score: 97
Period size: 19 Copynumber: 8.9 Consensus size: 20
4673832 ACAACATAGA
4673842 AAAGAAAAAGAGAAAAAAATG
1 AAAGAAAAAGAGAAAAAAA-G
4673863 AAAGAAATAAGAGAAAAAAAG
1 AAAGAAA-AAGAGAAAAAAAG
* *
4673884 --AGAAAATAGAGAGAGAAAG
1 AAAGAAAA-AGAGAAAAAAAG
* * *
4673903 -AAGTAAAAGAGAGAGAAACG
1 AAAGAAAAAGAGA-AAAAAAG
* *
4673923 AAAAGAAAGAATAGAAAAAGAG
1 -AAAGAAA-AAGAGAAAAAAAG
* *
4673945 AAAG-AAAA-ATAAAAATA-
1 AAAGAAAAAGAGAAAAAAAG
* *
4673962 AAATAAAAAGA-AAAAAATG
1 AAAGAAAAAGAGAAAAAAAG
**
4673981 AAA-AAGAAAGAGAGATGAAAG
1 AAAGAA-AAAGAGA-AAAAAAG
4674002 AAAGAAGAAAGA-AAAAAAA
1 AAAGAA-AAAGAGAAAAAAA
4674021 TCCAACACTT
Statistics
Matches: 122, Mismatches: 22, Indels: 29
0.71 0.13 0.17
Matches are distributed among these distances:
17 3 0.02
18 19 0.16
19 31 0.25
20 15 0.12
21 20 0.16
22 29 0.24
23 5 0.04
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.06
Consensus pattern (20 bp):
AAAGAAAAAGAGAAAAAAAG
Found at i:4673886 original size:10 final size:10
Alignment explanation
Indices: 4673846--4673889 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
4673836 CATAGAAAAG
4673846 AAAAAGAGAA
1 AAAAAGAGAA
4673856 AAAAATGA-AA
1 AAAAA-GAGAA
4673866 GAAATAAGAGAA
1 -AAA-AAGAGAA
4673878 AAAAAGAGAA
1 AAAAAGAGAA
4673888 AA
1 AA
4673890 TAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 16 0.53
11 10 0.33
12 4 0.13
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (10 bp):
AAAAAGAGAA
Found at i:4673929 original size:29 final size:26
Alignment explanation
Indices: 4673897--4673952 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 26
4673887 AAATAGAGAG
4673897 AGAAAGAAGTA-AAAGAGAGAGAAACGAAA
1 AGAAAGAA-TAGAAA-A-AGAGAAA-GAAA
4673926 AGAAAGAATAGAAAAAGAGAAAGAAA
1 AGAAAGAATAGAAAAAGAGAAAGAAA
4673952 A
1 A
4673953 ATAAAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.19
27 7 0.27
28 3 0.12
29 11 0.42
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.04
Consensus pattern (26 bp):
AGAAAGAATAGAAAAAGAGAAAGAAA
Found at i:4676101 original size:52 final size:54
Alignment explanation
Indices: 4676001--4676270 Score: 209
Period size: 52 Copynumber: 5.0 Consensus size: 54
4675991 TCCTTGATAG
* * *
4676001 GATGTTTTCAAATGAATTTTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTT
1 GATGATTTCAAATGAGTTTTTAAAAGAAG-TAAGCCTAATTTTCAGGGGTTTCTT
* *
4676056 GATGATTTCAAATGAGTTTTTAGAA-AA-TAAGCCTGATTTTCAGGGGTTTCTT
1 GATGATTTCAAATGAGTTTTTAAAAGAAGTAAGCCTAATTTTCAGGGGTTTCTT
* * ***
4676108 GATGA--T-GAGTTCCTTTTTAAAAGAAGCTAAGCCTAATTATT-AGGGGTTTCTT
1 GATGATTTCAAATGAGTTTTTAAAAGAAG-TAAGCCTAATT-TTCAGGGGTTTCTT
* * * * ** *
4676160 GATGTTTTTAAATGAGTTTTT-AGA-AACTAAGTTTGATTTTCAGGGGTTTCTT
1 GATGATTTCAAATGAGTTTTTAAAAGAAGTAAGCCTAATTTTCAGGGGTTTCTT
* * * *
4676212 GATGATTATTTCCAAA-GAATTTTT-AAAGAAACTAAGCCTAATTTTTAAGGGTTTCTT
1 GATG---ATTT-CAAATGAGTTTTTAAAAG-AAGTAAGCCTAATTTTCAGGGGTTTCTT
4676269 GA
1 GA
4676271 CGAGTAAGTC
Statistics
Matches: 169, Mismatches: 32, Indels: 26
0.74 0.14 0.11
Matches are distributed among these distances:
49 10 0.06
50 3 0.02
51 2 0.01
52 76 0.45
53 4 0.02
54 5 0.03
55 41 0.24
56 3 0.02
57 25 0.15
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GATGATTTCAAATGAGTTTTTAAAAGAAGTAAGCCTAATTTTCAGGGGTTTCTT
Found at i:4676197 original size:104 final size:105
Alignment explanation
Indices: 4676016--4676270 Score: 352
Period size: 104 Copynumber: 2.4 Consensus size: 105
4676006 TTTCAAATGA
*
4676016 ATTTTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTCAAATGAGTTTTTAGAA
1 ATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTCAAATGAGTTTTTAGAA
4676081 AATAAGCCTGATTTTCAGGGGTTTCTTGATGATGAGTTCC
66 AATAAGCCTGATTTTCAGGGGTTTCTTGATGATGAGTTCC
* * *
4676121 -TTTTTAAAAGAAGCTAAGCCTAATTATTAGGGGTTTCTTGATGTTTTTAAATGAGTTTTTAGAA
1 ATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTCAAATGAGTTTTTAGAA
* ** * *
4676185 ACTAAGTTTGATTTTCAGGGGTTTCTTGATGATTATTTCC
66 AATAAGCCTGATTTTCAGGGGTTTCTTGATGATGAGTTCC
* *
4676225 AAAGAATTTTT-AAAGAAACTAAGCCTAATTTTTAAGGGTTTCTTGA
1 -----ATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGA
4676271 CGAGTAAGTC
Statistics
Matches: 132, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
104 95 0.72
109 32 0.24
110 5 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (105 bp):
ATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATTTCAAATGAGTTTTTAGAA
AATAAGCCTGATTTTCAGGGGTTTCTTGATGATGAGTTCC
Found at i:4676514 original size:24 final size:24
Alignment explanation
Indices: 4676482--4676536 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
4676472 CTTGAGATAG
* * *
4676482 TTTCACTCGAAATATATGATTTTA
1 TTTCACTCGAAACAGAAGATTTTA
4676506 TTTCACTCGAAACAGAAGATTTTA
1 TTTCACTCGAAACAGAAGATTTTA
*
4676530 TCTCACT
1 TTTCACT
4676537 TGAGATAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (24 bp):
TTTCACTCGAAACAGAAGATTTTA
Found at i:4676569 original size:39 final size:39
Alignment explanation
Indices: 4676506--4676697 Score: 280
Period size: 39 Copynumber: 4.9 Consensus size: 39
4676496 TATGATTTTA
*
4676506 TTTCACTCGAAACAGAAGATTTTATCTCACTTGAGATAG
1 TTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAG
* * *
4676545 TTTCACTCGAAACATAAGACTTTATCTCGCTTTAGATAG
1 TTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAG
*
4676584 TTTCACTTGAAACAGAAGATTTTATCTCGCTTGAGATAG
1 TTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAG
* **
4676623 TTTTACTCGAAACA-AATTTTTTTATCTCGCTTGAGATAG
1 TTTCACTCGAAACAGAA-GATTTTATCTCGCTTGAGATAG
*
4676662 TTTCACTCGAAACAGAAGA-TTTATCTCACTTGAGAT
1 TTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGAT
4676698 TATTTTTCTT
Statistics
Matches: 135, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 18 0.13
39 115 0.85
40 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (39 bp):
TTTCACTCGAAACAGAAGATTTTATCTCGCTTGAGATAG
Found at i:4676851 original size:59 final size:59
Alignment explanation
Indices: 4676722--4676863 Score: 146
Period size: 59 Copynumber: 2.4 Consensus size: 59
4676712 TGAACAATGC
* * * * * *
4676722 CCCACTAGAGGGGTTAACATTTCATATTGTTCGATTCACAACACTTCGAATCAGCAATG
1 CCCACTCGAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTAGAATCAGCAACG
* * **
4676781 CCCAC-CAGAGGGGATAACATTTCCT-TTGCTCGATTCACAACATTTAGGATCAGTGACG
1 CCCACTC-GAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTAGAATCAGCAACG
4676839 CCTCACTCGA-GGGACTAACATTTCC
1 CC-CACTCGAGGGGA-TAACATTTCC
4676864 AGTAGAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
58 32 0.46
59 36 0.52
60 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (59 bp):
CCCACTCGAGGGGATAACATTTCCTATTGCTCGATTCACAACACTTAGAATCAGCAACG
Found at i:4677793 original size:10 final size:10
Alignment explanation
Indices: 4677780--4677847 Score: 63
Period size: 10 Copynumber: 6.9 Consensus size: 10
4677770 TGTGTTTATT
4677780 TTTTATTTTG
1 TTTTATTTTG
*
4677790 TTTTGTTTTG
1 TTTTATTTTG
4677800 TTTTTACTTTT-
1 -TTTTA-TTTTG
4677811 TTTTATTTT-
1 TTTTATTTTG
4677820 TTTTATTATTG
1 TTTTATT-TTG
*
4677831 --TTATTTTA
1 TTTTATTTTG
4677839 TTTTATTTT
1 TTTTATTTT
4677848 AAATTAGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
8 2 0.04
9 16 0.33
10 23 0.47
11 4 0.08
12 4 0.08
ACGTcount: A:0.12, C:0.01, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:4677797 original size:21 final size:19
Alignment explanation
Indices: 4677778--4677847 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
4677768 TTTGTGTTTA
4677778 TTTTTTATTTTGTTTTGTTT
1 TTTTTTATTTTGTTTT-TTT
*
4677798 TGTTTTTACTTTT-TTTTATT
1 T-TTTTTA-TTTTGTTTTTTT
*
4677818 TTTTTTATTATTG-TTATTT
1 TTTTTTATT-TTGTTTTTTT
*
4677837 TATTTTATTTT
1 TTTTTTATTTT
4677848 AAATTAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 4 0.10
19 20 0.48
20 4 0.10
21 10 0.24
22 4 0.10
ACGTcount: A:0.11, C:0.01, G:0.06, T:0.81
Consensus pattern (19 bp):
TTTTTTATTTTGTTTTTTT
Found at i:4677819 original size:5 final size:5
Alignment explanation
Indices: 4677780--4677848 Score: 56
Period size: 5 Copynumber: 14.0 Consensus size: 5
4677770 TGTGTTTATT
* * *
4677780 TTTTA TTTTG TTTTG TTTTGT TTTTA CTTTT- TTTTA TTTT- TTTTA --TTA
1 TTTTA TTTTA TTTTA TTTT-A TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
4677828 TTGTTA TTTTA TTTTA TTTTA
1 TT-TTA TTTTA TTTTA TTTTA
4677849 AATTAGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.06
4 8 0.15
5 30 0.56
6 13 0.24
ACGTcount: A:0.13, C:0.01, G:0.06, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:4677821 original size:28 final size:27
Alignment explanation
Indices: 4677763--4677847 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
4677753 AATTAGGTCC
*
4677763 TTGTATTTGTGTTTATTTTTTATT-TTGTT
1 TTGT-TTTGTTTTTATTTTTT-TTATT-TT
4677792 TTGTTTTGTTTTTACTTTTTTTTATTTT
1 TTGTTTTGTTTTTA-TTTTTTTTATTTT
* *
4677820 TT-TTATTATTGTTATTTTATTTTATTTT
1 TTGTT-TTGTTTTTATTTT-TTTTATTTT
4677848 AAATTAGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.12
28 31 0.63
29 12 0.24
ACGTcount: A:0.12, C:0.01, G:0.08, T:0.79
Consensus pattern (27 bp):
TTGTTTTGTTTTTATTTTTTTTATTTT
Found at i:4685295 original size:183 final size:183
Alignment explanation
Indices: 4684945--4685298 Score: 422
Period size: 183 Copynumber: 1.9 Consensus size: 183
4684935 ATTCTGCAGC
* ** * * *
4684945 GTTTCTTCAAGAGCGTAGAGATACCTGTACTCGTTCTGTAATGTCTTCTTCAAGGGTGTCAATTT
1 GTTTCTCCAAGAGCGTAGAGATACCTCCACTCGTTCTGCAATGTATTCTTCAAGAGTGTCAATTT
* * * * * *
4685010 GCTTCCTATTGGTTCTAGAGCGTTGAGATGCACACGTTCCACTCTATCTAAAGGAATTTTCATTA
66 GCCTCCTATTGGGTCTAGAGCATTGAGATGCACACGCTCCACTCCATCTAAAGAAATTTTCATTA
*
4685075 TCTATCAATCGTCTAAATAAAGAAAGTCGAGATGCCTCTGCCCATTTTACAAT
131 TCTATCAATCATCTAAATAAAGAAAGTCGAGATGCCTCTGCCCATTTTACAAT
** * * * *
4685128 GTTTCTCCAAGAGCGTAGAGATGTCTCCACTTGTTTTGCAATGTATTTTTCAAGAGTGTCGATTT
1 GTTTCTCCAAGAGCGTAGAGATACCTCCACTCGTTCTGCAATGTATTCTTCAAGAGTGTCAATTT
* * * *
4685193 GCCTCTTATTGGGTCTAGAGCATTGAGATGTAC-CAGCTCCACTCCATCTAAATAAATTTTCGTT
66 GCCTCCTATTGGGTCTAGAGCATTGAGATGCACAC-GCTCCACTCCATCTAAAGAAATTTTCATT
* * ** * * *
4685257 GTCTATCCATCATCTAGCTAATGAGAGTCGATATGCCTCTGC
130 ATCTATCAATCATCTAAATAAAGAAAGTCGAGATGCCTCTGC
4685299 TATGGATTTA
Statistics
Matches: 140, Mismatches: 30, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
182 1 0.01
183 139 0.99
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (183 bp):
GTTTCTCCAAGAGCGTAGAGATACCTCCACTCGTTCTGCAATGTATTCTTCAAGAGTGTCAATTT
GCCTCCTATTGGGTCTAGAGCATTGAGATGCACACGCTCCACTCCATCTAAAGAAATTTTCATTA
TCTATCAATCATCTAAATAAAGAAAGTCGAGATGCCTCTGCCCATTTTACAAT
Found at i:4687008 original size:16 final size:16
Alignment explanation
Indices: 4686987--4687017 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4686977 TTTTAAGATC
4686987 CAAAAAATTAAATTAT
1 CAAAAAATTAAATTAT
4687003 CAAAAAATTAAATTA
1 CAAAAAATTAAATTA
4687018 ATTTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
CAAAAAATTAAATTAT
Found at i:4687535 original size:35 final size:35
Alignment explanation
Indices: 4687489--4687564 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
4687479 AAAATACTTT
*
4687489 AATTTAGGGTTTAGAATATAATTGAAGTATTTTGG
1 AATTTTGGGTTTAGAATATAATTGAAGTATTTTGG
* *
4687524 AATTTTGGGTTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTTGGGTTTAGAATATAATTGAAGTATTTTGG
4687559 AATTTT
1 AATTTT
4687565 AAACATGAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.46
Consensus pattern (35 bp):
AATTTTGGGTTTAGAATATAATTGAAGTATTTTGG
Found at i:4692063 original size:26 final size:28
Alignment explanation
Indices: 4692034--4692087 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4692024 CAAATTTTTC
4692034 GTTGGT-CT-CCTCTTTTTCTAATCTCT
1 GTTGGTGCTCCCTCTTTTTCTAATCTCT
* *
4692060 GTTGGTGGTCCCTTTTTTTCTAATCTCT
1 GTTGGTGCTCCCTCTTTTTCTAATCTCT
4692088 TTTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.07, C:0.24, G:0.15, T:0.54
Consensus pattern (28 bp):
GTTGGTGCTCCCTCTTTTTCTAATCTCT
Found at i:4692570 original size:53 final size:53
Alignment explanation
Indices: 4692467--4692720 Score: 375
Period size: 53 Copynumber: 4.8 Consensus size: 53
4692457 TGATAGGTCT
* * ****
4692467 GCTCCCTCTTG-TTCAGGGATTAAGAAACTTGAACAATCTTCTAAAAACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGT-AG-AACTCGAACAATCTTCTGCTTACGGGTTC
* * * *
4692521 GCTCCCTATTGCTTCAGGGAGTAGAACTCGAACACTATTCTGTTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTC
*
4692574 GCTCCCTCTTGCTTCAGGGAGTAGAACTAGAACAATCTTCTGCTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTC
4692627 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTC
*
4692680 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCT
1 GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
4692721 AGTGTGATTC
Statistics
Matches: 183, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
53 162 0.89
54 12 0.07
55 9 0.05
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (53 bp):
GCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCTTACGGGTTC
Found at i:4693242 original size:80 final size:80
Alignment explanation
Indices: 4693109--4693358 Score: 401
Period size: 80 Copynumber: 3.1 Consensus size: 80
4693099 TATTGATGGC
* *
4693109 ACTTACTAACGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
*
4693174 TATCATGCTCGAAAT
66 TATCATGCTCGAAAG
* * *
4693189 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCGAATGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
*
4693254 CATCATGCTCGAAAG
66 TATCATGCTCGAAAG
* * * *
4693269 ACTTATTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTATAAATTACCCTAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
4693334 TATCATGCTCGAAAG
66 TATCATGCTCGAAAG
4693349 ACTTACTGAT
1 ACTTACTGAT
4693359 TGCCCTAAGG
Statistics
Matches: 155, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 155 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (80 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAATTACCCGAAGGATTTAAT
TATCATGCTCGAAAG
Found at i:4693380 original size:42 final size:42
Alignment explanation
Indices: 4693319--4693411 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
4693309 TTATAAATTA
* *
4693319 CCCTAAGGATTTAATTATCATGCTCGAAAGACTTACTGATTG
1 CCCTAAGGATTTAAATATCATGCTCGAAAGACTTACTGATGG
*
4693361 CCCTAAGGATTTAAATATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAGGATTTAAATATCATGCTCGAAAGACTTACTGATGG
*
4693403 CCCGAAGGA
1 CCCTAAGGA
4693412 CTTACTAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (42 bp):
CCCTAAGGATTTAAATATCATGCTCGAAAGACTTACTGATGG
Found at i:4693627 original size:44 final size:41
Alignment explanation
Indices: 4693527--4693627 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 41
4693517 ACCCGAAGGT
* * * *
4693527 CTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGG
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* *
4693568 CTTATAGATGACCCGAAGGATTTTTAATCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGA--CTT-ATCATCATGCTCGAAAGA
4693612 CTTACT-GATGGCCCGA
1 CTTA-TAGATGGCCCGA
4693628 TTGACTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
41 18 0.37
43 2 0.04
44 28 0.57
45 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:4697885 original size:6 final size:6
Alignment explanation
Indices: 4697874--4697906 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
4697864 AAATACATGT
4697874 AATGCA AATGCA AATGCCA AATGCA AATGCA AA
1 AATGCA AATGCA AATG-CA AATGCA AATGCA AA
4697907 AGGTGTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (6 bp):
AATGCA
Found at i:4697896 original size:13 final size:13
Alignment explanation
Indices: 4697874--4697903 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4697864 AAATACATGT
4697874 AATG-CAAATGCA
1 AATGCCAAATGCA
4697886 AATGCCAAATGCA
1 AATGCCAAATGCA
4697899 AATGC
1 AATGC
4697904 AAAAGGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.47, C:0.20, G:0.17, T:0.17
Consensus pattern (13 bp):
AATGCCAAATGCA
Found at i:4702463 original size:26 final size:28
Alignment explanation
Indices: 4702434--4702487 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
4702424 CAAATTTTTC
4702434 GTTGGT-CT-CCTCTTTTTCTAATCTCT
1 GTTGGTGCTCCCTCTTTTTCTAATCTCT
* *
4702460 GTTGGTGGTCCCTTTTTTTCTAATCTCT
1 GTTGGTGCTCCCTCTTTTTCTAATCTCT
4702488 TTTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.07, C:0.24, G:0.15, T:0.54
Consensus pattern (28 bp):
GTTGGTGCTCCCTCTTTTTCTAATCTCT
Found at i:4703154 original size:23 final size:23
Alignment explanation
Indices: 4703119--4703163 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4703109 AAGTACAATG
*
4703119 ATATATTAGGTAGCGCTTATATA
1 ATATAATAGGTAGCGCTTATATA
*
4703142 ATATAATATGTAGCGCTTATAT
1 ATATAATAGGTAGCGCTTATAT
4703164 TGACCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
ATATAATAGGTAGCGCTTATATA
Found at i:4703611 original size:182 final size:182
Alignment explanation
Indices: 4703387--4703837 Score: 721
Period size: 182 Copynumber: 2.5 Consensus size: 182
4703377 TTTATTATCG
*
4703387 GTTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATATAT
1 GTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATATAT
* *
4703452 TTTTATAAAGTATCGACACTTTATTAACGCTATAACATT-TTTTCTTTTAAATTCCAAAAGTATC
66 TTTTATAAAGTATCGACACTTTATTAACACTATAAC-TTCTTCTCTTTTAAATTCCAAAAGTATC
* *
4703516 GATACTTATAATAAAGTATCGACACTTTCAACATATCCGGTAGC-TCTTTACCA
130 GATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGT-TTGACCA
*
4703569 GTTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACT-
1 GTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATA-TA
* * *
4703633 TTTTTATAAAGTATCGACACTTTATTAGCACTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTC
65 TTTTTATAAAGTATCGACACTTTATTAACACTATAACTTCTTCTCTTTTAAATTCCAAAAGTATC
*
4703698 GATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCT
130 GATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCA
** *
4703751 GTTTTGTCATTTATAGACCGGTTTTGTCAT-TTGTTTACCTGTTATATTGTTATGGATCGATATA
1 GTTTTGTCATTTCGAGACCGGTTTTGTCATATT-TTTACATGTTATATTGTTATGGATCGATATA
4703815 TTTTTATAAAGTATCGACACTTT
65 TTTTTATAAAGTATCGACACTTT
4703838 CAATATATCC
Statistics
Matches: 250, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
181 5 0.02
182 243 0.97
183 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
GTTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATATAT
TTTTATAAAGTATCGACACTTTATTAACACTATAACTTCTTCTCTTTTAAATTCCAAAAGTATCG
ATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCA
Found at i:4704089 original size:111 final size:112
Alignment explanation
Indices: 4703708--4704169 Score: 793
Period size: 112 Copynumber: 4.1 Consensus size: 112
4703698 GATACTTATA
* * *
4703708 ATAAAGTATCGACACTATCAACATATCCGGTAGCG-TTTGACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTT-ACATGTTTTGTCATTTATAGACCGG
* *
4703772 TTTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATATATTTTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
4703820 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
4703885 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
*
4703932 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
* *
4703997 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
*
4704043 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTTTAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
* * *
4704108 TTTGTCATTTTTTTACCTGTTATATTATTATAGATCAATATATTTTC
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
4704155 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
4704170 AAACCGACAA
Statistics
Matches: 333, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
111 107 0.32
112 223 0.67
113 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
Found at i:4704097 original size:223 final size:224
Alignment explanation
Indices: 4703708--4704169 Score: 838
Period size: 223 Copynumber: 2.1 Consensus size: 224
4703698 GATACTTATA
4703708 ATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCTGTTTTGTCATTTATAGACCGGT
*
4703773 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTTT
66 TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
4703838 CAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
131 CAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
* * *
4703903 GTTATATTGTTATGGATCAATATATTTTT
196 GTTATATTATTATAGATCAATATATTTTC
* *
4703932 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTT-ACCTGTTTTGTCATTTATAGACCGG
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCG-TTTGACCTGTTTTGTCATTTATAGACCGG
4703996 TTTTGTCATTT-TTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTT
*
4704060 TCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTTTAGACCGGTTTTGTCATTTTTTTACC
130 TCAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACC
4704125 TGTTATATTATTATAGATCAATATATTTTC
195 TGTTATATTATTATAGATCAATATATTTTC
4704155 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
4704170 AAACCGACAA
Statistics
Matches: 230, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
223 158 0.69
224 69 0.30
225 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (224 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGTTTGACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTGTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTT
CAATATATCCGGTAGCGCTTTACATGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
GTTATATTATTATAGATCAATATATTTTC
Done.