Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_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: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 13
Found at i:1421711 original size:184 final size:184
Alignment explanation
Indices: 1421507--1421877 Score: 593
Period size: 184 Copynumber: 2.0 Consensus size: 184
1421497 ATTAACTTTT
* * * *
1421507 AAATATTAAATATATTATATATTACATATGGGCTAAGCCCAAACCATATACAA-CTCAATTAATA
1 AAATATTAAATATATTATATATAACATATAGGCTAAGCCCAAACAATATAAAATC-CAATTAATA
* *
1421571 ATTTAAGATCTAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
65 ATTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATT
*
1421636 TTTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTT-AATTAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTTGAATTAA
* * *
1421691 AAATATTAAATATATTATATATAACATATAGGCTCAGCCCAAATAATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATAGGCTAAGCCCAAACAATATAAAATCCAATTAATAA
* *
1421756 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
*
1421821 TTATTTTATAATTCTATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAA
1421875 AAA
1 AAA
1421878 ACATTTAATT
Statistics
Matches: 172, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 7 0.04
184 164 0.95
185 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.42
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATAGGCTAAGCCCAAACAATATAAAATCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAA
Found at i:1421756 original size:19 final size:19
Alignment explanation
Indices: 1421732--1421768 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1421722 GCTCAGCCCA
1421732 AATAATTTAAAATCCAATT
1 AATAATTTAAAATCCAATT
*
1421751 AATAATTTAAGATCCAAT
1 AATAATTTAAAATCCAAT
1421769 AACTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.35
Consensus pattern (19 bp):
AATAATTTAAAATCCAATT
Found at i:1422214 original size:34 final size:34
Alignment explanation
Indices: 1422164--1422239 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 34
1422154 ACTTCAAGAA
* * *
1422164 AATAA-TTTTCGGTGATAAATAGTGGTCATCGAC
1 AATAATTTTTCGATGATAAACAGTGGTCACCGAC
1422197 AATAATTTTTCGATGATAAACAGTGGTCACCGAC
1 AATAATTTTTCGATGATAAACAGTGGTCACCGAC
*
1422231 AACAATTTT
1 AATAATTTT
1422240 CCGGGAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
33 5 0.13
34 33 0.87
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (34 bp):
AATAATTTTTCGATGATAAACAGTGGTCACCGAC
Found at i:1422250 original size:34 final size:34
Alignment explanation
Indices: 1422177--1422252 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
1422167 AATTTTCGGT
* * * * *
1422177 GATAAATAGTGGTCATCGACAATAATTTTTCGAT
1 GATAAACAGTGGTCACCGACAACAATTTTCCGAG
1422211 GATAAACAGTGGTCACCGACAACAATTTTCCG-G
1 GATAAACAGTGGTCACCGACAACAATTTTCCGAG
1422244 GAATAAACA
1 G-ATAAACA
1422253 TTAGTGCGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 1 0.03
34 35 0.97
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (34 bp):
GATAAACAGTGGTCACCGACAACAATTTTCCGAG
Found at i:1422650 original size:28 final size:29
Alignment explanation
Indices: 1422602--1422660 Score: 77
Period size: 28 Copynumber: 2.0 Consensus size: 29
1422592 ATAATTTCCT
1422602 TAATAACAAAAAATTCATATATAAAATTGA
1 TAATAACAAAAAATT-ATATATAAAATTGA
*
1422632 TAATAA-AAAAATATT-TATATAACATTGA
1 TAATAACAAAAA-ATTATATATAAAATTGA
1422660 T
1 T
1422661 GAATTCAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 13 0.48
29 5 0.19
30 9 0.33
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (29 bp):
TAATAACAAAAAATTATATATAAAATTGA
Found at i:1425515 original size:11 final size:11
Alignment explanation
Indices: 1425499--1425524 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1425489 AAATTCAATC
1425499 ATTTTATTTTT
1 ATTTTATTTTT
1425510 ATTTTATTTTT
1 ATTTTATTTTT
1425521 ATTT
1 ATTT
1425525 AATCCTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:1426141 original size:31 final size:29
Alignment explanation
Indices: 1426077--1426146 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
1426067 GTTGTATCGT
1426077 TTATATCACTAAACTTTAAATTTTTCCAA
1 TTATATCACTAAACTTTAAATTTTTCCAA
* * * *
1426106 TTATAGCACTAAACTTTGATTTTCGTTTCAA
1 TTATATCACTAAACTTTAAATTT--TTCCAA
1426137 TTATATCACT
1 TTATATCACT
1426147 GGGTTGTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 20 0.59
31 14 0.41
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (29 bp):
TTATATCACTAAACTTTAAATTTTTCCAA
Found at i:1426329 original size:29 final size:30
Alignment explanation
Indices: 1426269--1426342 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
1426259 CAATTTAACG
*
1426269 GTTCAATGATATAATTGAAACAAAAATCAAA
1 GTTCAATGATATAATT-AAACAAAAATAAAA
* * *
1426300 GTTCAGTGTTATAATT-AACAAAATTAAAA
1 GTTCAATGATATAATTAAACAAAAATAAAA
*
1426329 GTTCAATGCTATAA
1 GTTCAATGATATAA
1426343 ACAATACAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 23 0.62
31 14 0.38
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.31
Consensus pattern (30 bp):
GTTCAATGATATAATTAAACAAAAATAAAA
Found at i:1428150 original size:12 final size:13
Alignment explanation
Indices: 1428133--1428203 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 13
1428123 TCAATTTGAA
1428133 TATTAT-TTATAT
1 TATTATATTATAT
1428145 TATTATTATTATTAT
1 TATTA-TATTA-TAT
*
1428160 AATTATAATTATA-
1 TATTAT-ATTATAT
1428173 -ATTATTATTATAT
1 TATTA-TATTATAT
*
1428186 TATTA-ATAAATAT
1 TATTATAT-TATAT
1428199 TATTA
1 TATTA
1428204 CAAGCCTAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
12 17 0.35
13 11 0.22
14 10 0.20
15 11 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATTATATTATAT
Found at i:1428199 original size:18 final size:18
Alignment explanation
Indices: 1428141--1428201 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
1428131 AATATTATTT
* *
1428141 ATATTATTATTATTATTAT
1 ATATTA-TATTATTAATAA
*
1428160 A-ATTATAATTA-TAATTA
1 ATATTAT-ATTATTAATAA
*
1428177 TTATTATATTATTAATAA
1 ATATTATATTATTAATAA
1428195 ATATTAT
1 ATATTAT
1428202 TACAAGCCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 8 0.24
18 24 0.73
19 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTATATTATTAATAA
Found at i:1428203 original size:3 final size:3
Alignment explanation
Indices: 1428133--1428190 Score: 66
Period size: 3 Copynumber: 19.7 Consensus size: 3
1428123 TCAATTTGAA
* * *
1428133 TAT TAT T-T ATAT TAT TAT TAT TAT TAT AAT TAT AAT TAT AAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1428178 TAT TA- TAT TAT TA
1 TAT TAT TAT TAT TA
1428191 ATAAATATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 3 0.07
3 42 0.91
4 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1437501 original size:8 final size:9
Alignment explanation
Indices: 1437474--1437504 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
1437464 AAATGGCAAT
1437474 CATTCTTTA
1 CATTCTTTA
1437483 CATTCTTTA
1 CATTCTTTA
1437492 CATT-TTTA
1 CATTCTTTA
1437500 CATTC
1 CATTC
1437505 ATTATTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (9 bp):
CATTCTTTA
Found at i:1441428 original size:19 final size:17
Alignment explanation
Indices: 1441386--1441434 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 17
1441376 TATTTTCTCT
1441386 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
1441402 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
1441420 AAAATTCAATTTATT
1 -AAATTCAATTTATT
1441435 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 1 0.04
19 13 0.46
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:1443001 original size:224 final size:224
Alignment explanation
Indices: 1442611--1443025 Score: 677
Period size: 224 Copynumber: 1.9 Consensus size: 224
1442601 GCTTTTCCAG
* * *
1442611 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTT
* *
1442676 GTTCAACCTTTTACTTAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAG
66 GTTCAACCTTTTACTTAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAG
* *
1442741 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTG
131 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGTTTG
1442806 AATTCATCATTTGATGGATCAACATTGCC
196 AATTCATCATTTGATGGATCAACATTGCC
* *
1442835 AGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTT
1 AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTT
* ** * *
1442900 GTTCAACTTTTTGTTTGAATTCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAG
66 GTTCAACCTTTTACTTAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAG
* * *
1442965 AAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATAAGAAGAGCTTGTTCGACCTTTTG
131 AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTG
1443026 CATTACTCTA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
224 174 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.28
Consensus pattern (224 bp):
AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAACTT
GTTCAACCTTTTACTTAAATCCATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAG
AAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGTTTG
AATTCATCATTTGATGGATCAACATTGCC
Found at i:1443039 original size:113 final size:113
Alignment explanation
Indices: 1442591--1443025 Score: 658
Period size: 113 Copynumber: 3.9 Consensus size: 113
1442581 AAATCCATCA
*
1442591 CGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* ** * *
1442656 GTTCATAATGAGAAGAGCTTGTTCAACCTTTTACTTAAATCCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCACT
* *
1442704 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
1442769 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCACT
* * * * *
1442817 TGATGGATCAACATTGCC--AGAAAGTTCATAATGAGAAGAACTCGTCTGAAGAAGAAAGAAGAA
1 CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
1442880 ATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACT
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCACT
*
1442928 CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAA
1 CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
1442993 GTTCATAATAAGAAGAGCTTGTTCGACCTTTTG
66 GTTCATAATGAGAAGAACTTGTTCAACCTTTTG
1443026 CATTACTCTA
Statistics
Matches: 292, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
111 103 0.35
113 189 0.65
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (113 bp):
CGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTGAATTCATCACT
Found at i:1443391 original size:21 final size:21
Alignment explanation
Indices: 1443365--1443426 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1443355 TTCATTTGAA
*
1443365 TATTATTTATATTATTATTAT
1 TATTATTAATATTATTATTAT
1443386 TATTA-TAATTATTATTATT-T
1 TATTATTAA-TATTATTATTAT
*
1443406 TATTATTAATAAATATTATTA
1 TATTATTAAT-ATTATTATTA
1443427 CAAGCCTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 9 0.26
21 26 0.74
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATTATTAATATTATTATTAT
Found at i:1443426 original size:3 final size:3
Alignment explanation
Indices: 1443365--1443413 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
1443355 TTCATTTGAA
*
1443365 TAT TAT T-T ATAT TAT TAT TAT TAT TAT AAT TAT TAT TAT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1443409 TAT TA
1 TAT TA
1443414 ATAAATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 3 0.07
3 37 0.90
4 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1444792 original size:2 final size:2
Alignment explanation
Indices: 1444787--1444835 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1444777 TATTATTACT
*
1444787 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1444829 TA TA TA T
1 TA TA TA T
1444836 TTTATTCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1448197 original size:19 final size:19
Alignment explanation
Indices: 1448154--1448212 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
1448144 AATGTTAAAT
1448154 AATAAAA-AAATCAAAGAA
1 AATAAAATAAATCAAAGAA
* *
1448172 AAAAAAATAAATACAATG-A
1 AATAAAATAAAT-CAAAGAA
1448191 AATAAAATAAGAT-AAA-AA
1 AATAAAATAA-ATCAAAGAA
1448209 AATA
1 AATA
1448213 TTAAATGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 13 0.39
19 14 0.42
20 6 0.18
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AATAAAATAAATCAAAGAA
Found at i:1448197 original size:20 final size:19
Alignment explanation
Indices: 1448150--1448197 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
1448140 TGAAAATGTT
1448150 AAATAATAAAAAAATCAAAG
1 AAATAA-AAAAAAATCAAAG
*
1448170 AAA-AAAAAATAAATACAATG
1 AAATAAAAAA-AAAT-CAAAG
1448190 AAATAAAA
1 AAATAAAA
1448198 TAAGATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.17
19 6 0.25
20 10 0.42
21 4 0.17
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (19 bp):
AAATAAAAAAAAATCAAAG
Found at i:1449983 original size:84 final size:83
Alignment explanation
Indices: 1449756--1450042 Score: 292
Period size: 84 Copynumber: 3.4 Consensus size: 83
1449746 CTGAATGAAA
* * * * * * *
1449756 TCGAACTCGTTAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTTTAAATGATG
1 TCGAACTCG-AAGGTCTTTGG-TGACAAATAACCCTTCTAGACTTAAGCTATGCTGTAAATGATG
* * * *
1449821 TGCCCTCGAAGCTGAGTGTAA
64 TGCCTTAG-AGCTGAGCGTAG
* * * * * *
1449842 TCGAACTCGAGGGTCTTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGACTTAAGCTATGCTGTAAATGATGTG
1449904 CCTTAGAGCTGAGCGTAG
66 CCTTAGAGCTGAGCGTAG
* * * * *
1449922 TCGAAGTCAAAGGTCTTTTGGTGACATATAACCCTTCTAGCCTTGAGCTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGGTGACAAATAACCCTTCTAGACTTAAGCTATGCTGTAAATGATGT
*
1449987 GCCTTGGAGCTGAGCGTAG
65 GCCTTAGAGCTGAGCGTAG
* *
1450006 TCGAACTCGAAGGTCTTTGTTGACAAATAATCCTTCT
1 TCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCT
1450043 TTGAGTTGGA
Statistics
Matches: 171, Mismatches: 26, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
80 22 0.13
81 45 0.26
82 2 0.01
83 20 0.12
84 66 0.39
85 7 0.04
86 9 0.05
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTGGTGACAAATAACCCTTCTAGACTTAAGCTATGCTGTAAATGATGTG
CCTTAGAGCTGAGCGTAG
Found at i:1450390 original size:106 final size:106
Alignment explanation
Indices: 1450205--1451593 Score: 2186
Period size: 106 Copynumber: 13.2 Consensus size: 106
1450195 GCATTATTCC
* ** * * * * ** * *
1450205 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTGTCGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1450270 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1450311 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1450376 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1450417 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
* *
1450482 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
1450523 GAGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
* *
1450588 CCAGCGGTCCCTTCGTCGTGAAGTTGAACCTGCGTTGTCAG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1450629 GAGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATAT--TGATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGGTTATTGACA
1450692 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1450734 GAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1450798 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1450839 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1450903 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1450944 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATAT--TTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGGTTATTGACA
1451007 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1451049 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATAT--TTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGGTTATTGACA
* *
1451112 ACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1451154 GAGT-CTAGATCCTTCGTTGAGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1451218 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1451259 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1451324 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1451365 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1451430 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
1451471 GAGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTTTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
*
1451535 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1451576 AAGTCCAATATCCTTCGT
1 GAGTCCAATATCCTTCGT
1451594 GCTCATGGTT
Statistics
Matches: 1206, Mismatches: 69, Indels: 17
0.93 0.05 0.01
Matches are distributed among these distances:
103 2 0.00
104 43 0.04
105 570 0.47
106 589 0.49
107 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1450872 original size:210 final size:211
Alignment explanation
Indices: 1450205--1451593 Score: 2223
Period size: 210 Copynumber: 6.6 Consensus size: 211
1450195 GCATTATTCC
* ** * * * *
1450205 GAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTATTTGTCGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TATTTATTGACAA
* *
1450270 CCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
1450335 GTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1450400 TGAACTTGCGTTGTCTG
195 TGAACTTGCGTTGTCTG
* * *
1450417 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA-ATATTTATTGACAA
* * * * *
1450482 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGTCCAATATCATTCGCTGGGAA
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
1450547 TTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
130 GTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
* *
1450612 TGAACCTGCGTTGTCAG
195 TGAACTTGCGTTGTCTG
* * *
1450629 GAGTCCAATATCCTTCGCTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATATTGATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAAC
*
1450694 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
* *
1450759 TTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1450823 GAACTTACGTTGTCTG
196 GAACTTGCGTTGTCTG
* *
1450839 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAAC
1450904 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
*
1450969 TTGAAATTGGCTCTGAAATTGAGAAATAT--TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
131 TTGAAATTGGCTCTGAAATTGAGAAGT-TGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1451032 TGAACTTGCGTTGTCTG
195 TGAACTTGCGTTGTCTG
*
1451049 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAAC
* * * * *
1451114 CAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT-CTAGATCCTTCGTTGAGAAG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
1451178 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
1451243 GAACTTACGTTGTCTG
196 GAACTTGCGTTGTCTG
* *
1451259 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT-TGGTTATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATAT--TTATTGACA
*
1451323 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
1451388 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
129 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAG
*
1451453 TTGAACTTGCGTTGTCTT
194 TTGAACTTGCGTTGTCTG
* * * * * *
1451471 GAGTCCAATATCATTCGCTGGGAATTTGAAATTGGCTCTGAAATTGGGAAGT-TGTTTTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATAT-TTATTGACAA
* *
1451535 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGT
1451594 GCTCATGGTT
Statistics
Matches: 1099, Mismatches: 70, Indels: 17
0.93 0.06 0.01
Matches are distributed among these distances:
208 1 0.00
209 44 0.04
210 457 0.42
211 211 0.19
212 386 0.35
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATATTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGCGTTGTCTG
Found at i:1455327 original size:19 final size:18
Alignment explanation
Indices: 1455285--1455330 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1455275 AATGTTAAAT
1455285 AATAAAA-AAATCAAAGA
1 AATAAAATAAATCAAAGA
* *
1455302 AAAAAAATAAATACAATGA
1 AATAAAATAAAT-CAAAGA
1455321 AATAAAATAA
1 AATAAAATAA
1455331 GATAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 14 0.58
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.15
Consensus pattern (18 bp):
AATAAAATAAATCAAAGA
Found at i:1457175 original size:2 final size:2
Alignment explanation
Indices: 1457168--1457198 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1457158 GTCGGTTTAT
1457168 TA 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 TA T
1457199 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1469458 original size:59 final size:60
Alignment explanation
Indices: 1469320--1469467 Score: 142
Period size: 59 Copynumber: 2.5 Consensus size: 60
1469310 CATTTGTCCC
* * * * *
1469320 CAAACTATAACCCT-TATT-TAAATTCGTCTTTAAACTTTTGAATATTCCAAATTCATCCT
1 CAAACTATGACCCTCT-TTCTAAATTAGTCCTTAAACTTTTAAACATTCCAAATTCATCCT
*** * **
1469379 CAAACTATGAATATCATTCTAAATTAGTCCTTAAACTTTTAAACATT-TTAATTCAT-CT
1 CAAACTATGACCCTCTTTCTAAATTAGTCCTTAAACTTTTAAACATTCCAAATTCATCCT
*
1469437 CTAAACTATGACCCTCTTTCTAAATTGGTCC
1 C-AAACTATGACCCTCTTTCTAAATTAGTCC
1469468 CCAAGCTTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
58 3 0.04
59 43 0.61
60 24 0.34
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (60 bp):
CAAACTATGACCCTCTTTCTAAATTAGTCCTTAAACTTTTAAACATTCCAAATTCATCCT
Found at i:1469749 original size:60 final size:61
Alignment explanation
Indices: 1469627--1469739 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 61
1469617 GTATATACAT
* * * *
1469627 ATAGTTT-GGGATAAAATTAGAATGTTCAAAAAGTTTGGGGACCAATTTAGAATGTATGTC
1 ATAGTTTGGGGATAAAATTAAAATGTTCAAAAACTTTAGGGACCAATTTAAAATGTATGTC
* *
1469687 ATAGTTTGGGGATGAAATTAAAATGTT-AAAAACTTTAGGGACTAATTTAAAAT
1 ATAGTTTGGGGATAAAATTAAAATGTTCAAAAACTTTAGGGACCAATTTAAAAT
1469740 AAGAGTCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 29 0.63
61 17 0.37
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (61 bp):
ATAGTTTGGGGATAAAATTAAAATGTTCAAAAACTTTAGGGACCAATTTAAAATGTATGTC
Found at i:1480031 original size:23 final size:23
Alignment explanation
Indices: 1479996--1480056 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
1479986 CAGCTCGTAT
* * *
1479996 AAATACACTGAAGTGACACGTAG
1 AAATGCACCGAAGTGACACATAG
* * *
1480019 AATTGCACCGAAGTGCCGCATAG
1 AAATGCACCGAAGTGACACATAG
1480042 AAATGCACCGAAGTG
1 AAATGCACCGAAGTG
1480057 CCATATAAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (23 bp):
AAATGCACCGAAGTGACACATAG
Found at i:1480846 original size:33 final size:34
Alignment explanation
Indices: 1480807--1480877 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
1480797 CCTTTACAAC
*
1480807 TCCCTAG-TTTTTCACGAGATAAACTAAAACCTT
1 TCCCTAGCTTTTACACGAGATAAACTAAAACCTT
* * * *
1480840 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAGCTTTTACACGAGATAAACTAAAACCTT
1480874 TCCC
1 TCCC
1480878 CTTACAAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGAGATAAACTAAAACCTT
Found at i:1481278 original size:32 final size:33
Alignment explanation
Indices: 1481237--1481301 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1481227 TTGCAGCCAG
1481237 GGGGTATGGATA-CCCATGGGGGTATCGGTACC
1 GGGGTATGGATACCCCATGGGGGTATCGGTACC
* *
1481269 GGGGTATGGATACCCCTTGGGGGTATTGGTACC
1 GGGGTATGGATACCCCATGGGGGTATCGGTACC
1481302 CTTTTCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.17, C:0.18, G:0.40, T:0.25
Consensus pattern (33 bp):
GGGGTATGGATACCCCATGGGGGTATCGGTACC
Found at i:1481304 original size:18 final size:18
Alignment explanation
Indices: 1481236--1481304 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
1481226 GTTGCAGCCA
*
1481236 GGGGGTATGGATACCCAT
1 GGGGGTATGGATACCCTT
1481254 GGGGGTATCGG-TA-CC--
1 GGGGGTAT-GGATACCCTT
1481269 -GGGGTATGGATACCCCTT
1 GGGGGTATGGATA-CCCTT
1481287 GGGGGTATTGG-TACCCTT
1 GGGGGTA-TGGATACCCTT
1481305 TTCATTCTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
13 2 0.05
14 9 0.21
16 2 0.05
17 2 0.05
18 15 0.35
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.19, G:0.39, T:0.26
Consensus pattern (18 bp):
GGGGGTATGGATACCCTT
Found at i:1484134 original size:23 final size:23
Alignment explanation
Indices: 1484104--1484150 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1484094 TGTTCGACTT
1484104 CTCAACCAAGTCTACATCCACTA
1 CTCAACCAAGTCTACATCCACTA
1484127 CTCAACCAAGTCTACATCCACTA
1 CTCAACCAAGTCTACATCCACTA
1484150 C
1 C
1484151 CTTAGCTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.40, G:0.04, T:0.21
Consensus pattern (23 bp):
CTCAACCAAGTCTACATCCACTA
Found at i:1484548 original size:21 final size:21
Alignment explanation
Indices: 1484514--1484553 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1484504 AGTTGTATAT
1484514 AGCCGTTAGAGATG-TTTTGG
1 AGCCGTTAGAGATGATTTTGG
*
1484534 AGCCGTTTGGAGATGATTTT
1 AGCCG-TTAGAGATGATTTT
1484554 TCTGCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.38
Consensus pattern (21 bp):
AGCCGTTAGAGATGATTTTGG
Found at i:1486987 original size:23 final size:23
Alignment explanation
Indices: 1486932--1486987 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1486922 ATATCAGCGT
* * *
1486932 AACAAGAAACAATCGTGGAGCAC
1 AACAAGAAATAATCATGGAACAC
1486955 AACAAGAAATAATCATGGAACAC
1 AACAAGAAATAATCATGGAACAC
1486978 AACAAGAAAT
1 AACAAGAAAT
1486988 CTCTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.11
Consensus pattern (23 bp):
AACAAGAAATAATCATGGAACAC
Found at i:1488569 original size:48 final size:48
Alignment explanation
Indices: 1488513--1488609 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
1488503 TTTTCTTTAC
1488513 TTGTTTTTCTCACTACTTTTTCTCTCAGACAAATGGAAGAAGAAGAAA
1 TTGTTTTTCTCACTACTTTTTCTCTCAGACAAATGGAAGAAGAAGAAA
* * *
1488561 TTGTTTTTCTCACTACTTTTTCTCTCAGACGAATTGAAGAAGGAGAAA
1 TTGTTTTTCTCACTACTTTTTCTCTCAGACAAATGGAAGAAGAAGAAA
1488609 T
1 T
1488610 AGGTTTATAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (48 bp):
TTGTTTTTCTCACTACTTTTTCTCTCAGACAAATGGAAGAAGAAGAAA
Found at i:1488692 original size:69 final size:67
Alignment explanation
Indices: 1488596--1488743 Score: 192
Period size: 69 Copynumber: 2.2 Consensus size: 67
1488586 CAGACGAATT
* *
1488596 GAAGAAGGAGAAATAG-GTTTATAGAATAAGAAGAAATG-GTTTTATGGAAGAAAAAGAAATGTG
1 GAAGAAGAAGAAAT-GTTTTTATAGAATAAGAAGAAATGAG-TTTATGG-A-AAAAAGAAATGTG
1488659 TTTATG
62 TTTATG
* * * *
1488665 GAATAAGAAGAAATGTTTTTATGGAATAAGAAGAAATGAGTTTATGGAAAGAATAAATGTGTTTA
1 GAAGAAGAAGAAATGTTTTTATAGAATAAGAAGAAATGAGTTTATGGAAAAAAGAAATGTGTTTA
1488730 TG
66 TG
1488732 GAAGAAGAAGAA
1 GAAGAAGAAGAA
1488744 TGGTTCCGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
67 28 0.40
68 2 0.03
69 39 0.56
70 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (67 bp):
GAAGAAGAAGAAATGTTTTTATAGAATAAGAAGAAATGAGTTTATGGAAAAAAGAAATGTGTTTA
TG
Found at i:1488722 original size:21 final size:23
Alignment explanation
Indices: 1488604--1488743 Score: 171
Period size: 23 Copynumber: 6.2 Consensus size: 23
1488594 TTGAAGAAGG
*
1488604 AGAAATAG-GTTTATAGAATAAGA
1 AGAAAT-GTGTTTATGGAATAAGA
* *
1488627 AGAAATG-GTTTTATGGAAGAAAA
1 AGAAATGTG-TTTATGGAATAAGA
1488650 AGAAATGTGTTTATGGAATAAGA
1 AGAAATGTGTTTATGGAATAAGA
*
1488673 AGAAATGTTTTTATGGAATAAGA
1 AGAAATGTGTTTATGGAATAAGA
*
1488696 AGAAATGAGTTTATGG-A-AAGA
1 AGAAATGTGTTTATGGAATAAGA
* *
1488717 ATAAATGTGTTTATGGAAGAAGA
1 AGAAATGTGTTTATGGAATAAGA
1488740 AGAA
1 AGAA
1488744 TGGTTCCGAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.18
22 4 0.04
23 79 0.77
24 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (23 bp):
AGAAATGTGTTTATGGAATAAGA
Found at i:1499551 original size:23 final size:23
Alignment explanation
Indices: 1499483--1499551 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
1499473 ACATCTTATA
* *
1499483 TGGCACTTCGTTGTATTTCTACG
1 TGGCACTTCGGTGCATTTCTACG
* * *
1499506 CGGCACTCCGGTGCAATTCTACG
1 TGGCACTTCGGTGCATTTCTACG
*
1499529 TGGCACTTCGGTGCATTTATACG
1 TGGCACTTCGGTGCATTTCTACG
1499552 AGATGTGGTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.16, C:0.26, G:0.25, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTGCATTTCTACG
Found at i:1499602 original size:16 final size:17
Alignment explanation
Indices: 1499581--1499614 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1499571 GTGCACAACC
1499581 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
1499597 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
1499614 T
1 T
1499615 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:1499778 original size:4 final size:4
Alignment explanation
Indices: 1499769--1499793 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1499759 ATGATTTATG
1499769 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
1499794 TTCTTACTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:1499920 original size:22 final size:23
Alignment explanation
Indices: 1499875--1499920 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
1499865 ATTAAAAGAA
* *
1499875 TAGATATAAGAGGATATGATTAT
1 TAGATATAAGAGGATAAGAATAT
*
1499898 TAGATATAA-ATGATAAGAATAT
1 TAGATATAAGAGGATAAGAATAT
1499920 T
1 T
1499921 GTTGGTGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGATATAAGAGGATAAGAATAT
Found at i:1501302 original size:19 final size:19
Alignment explanation
Indices: 1501270--1501306 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1501260 GGAATAAAGG
* *
1501270 ATTTTGGGACTTTTTTGAT
1 ATTTTAGGAATTTTTTGAT
1501289 ATTTTAGGAATTTTTTGA
1 ATTTTAGGAATTTTTTGA
1501307 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.19, T:0.57
Consensus pattern (19 bp):
ATTTTAGGAATTTTTTGAT
Found at i:1501531 original size:28 final size:30
Alignment explanation
Indices: 1501482--1501540 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 30
1501472 AAATGGAAAA
1501482 TAATAATTATTTTATTATTTTT-TA-TAGT
1 TAATAATTATTTTATTATTTTTGTATTAGT
1501510 TAATAATTATTTTATT-TCTTTTGTATTAGT
1 TAATAATTATTTTATTAT-TTTTGTATTAGT
1501540 T
1 T
1501541 CGTAATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 1 0.04
28 20 0.71
29 2 0.07
30 5 0.18
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (30 bp):
TAATAATTATTTTATTATTTTTGTATTAGT
Found at i:1507015 original size:26 final size:27
Alignment explanation
Indices: 1506986--1507043 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
1506976 AATTCCTAAT
1506986 AAAATA-A-TAATAAAGTAATCAAACTA
1 AAAATATATTAATAAA-TAATCAAACTA
*
1507012 AAAATACTTATTAATAAATGATCAAACTA
1 AAAATA--TATTAATAAATAATCAAACTA
1507041 AAA
1 AAA
1507044 TCTTAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 6 0.22
29 14 0.52
30 7 0.26
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAATATATTAATAAATAATCAAACTA
Found at i:1512591 original size:16 final size:16
Alignment explanation
Indices: 1512556--1512605 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
1512546 TATTTCTAAG
*
1512556 GGAATTGAAATCTGTGAA
1 GGAATTGGAATC--TGAA
1512574 GGAATTGGAATCTGAA
1 GGAATTGGAATCTGAA
1512590 GGAATTGGAATCTGAA
1 GGAATTGGAATCTGAA
1512606 TCTGAAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 20 0.65
18 11 0.35
ACGTcount: A:0.38, C:0.06, G:0.30, T:0.26
Consensus pattern (16 bp):
GGAATTGGAATCTGAA
Found at i:1515778 original size:208 final size:208
Alignment explanation
Indices: 1515388--1515808 Score: 648
Period size: 208 Copynumber: 2.0 Consensus size: 208
1515378 TGGTTTCTGT
* *
1515388 GTGTTTATATTTCTTTTTATGCATATGATTTTCATTAATTGATTGATTAAAGTTTGTTACATGTG
1 GTGTTTATATGTCTTGTTATGCATATGATTTTCATTAATTGATTGATTAAAGTTTGTTACATGTG
* * *
1515453 TATATATATCATTTTGATTTGATATTTTCATTGTTATCAAACCAGCTCTCGAGCTCGCCCCATCT
66 TATATATATCATTTTGATTTGATATTATCA---TAACCAAACCAGCTCTCGAGCTCGCCCCATCT
1515518 CTACTACCCATCCAATCCACGAGTTACCCCTTGTCATGGCCGGTCCGTTGCACTGACTGCATGCA
128 CTACTACCCATCCAATCCACGAGTTACCCCTTGTCATGGCCGGTCCGTTGCACTGACTGCATGCA
1515583 TGAATTGAGGAAATTC
193 TGAATTGAGGAAATTC
*
1515599 GTGTTTATATGTCTTGTTATGTATATGA-TTTCATTAATTGATTGATTAAAGTTTGTTACATGTG
1 GTGTTTATATGTCTTGTTATGCATATGATTTTCATTAATTGATTGATTAAAGTTTGTTACATGTG
**** * *
1515663 TATATATATCATTTTGATTTGATATATATCA-AACCACTTTGAGCTCTCGTGCTCGCGCCATCTC
66 TATATATATCATTTTGATTTGATAT-TATCATAACCA-AACCAGCTCTCGAGCTCGCCCCATCTC
* * *
1515727 TACTACCCATCCAATCCACGAGTTACCCCTTGTCATGTCCGGTCTGTTGCACTGATTGCATGCAT
129 TACTACCCATCCAATCCACGAGTTACCCCTTGTCATGGCCGGTCCGTTGCACTGACTGCATGCAT
1515792 GAATTGAGGAAATTC
194 GAATTGAGGAAATTC
1515807 GT
1 GT
1515809 CGCCAACTAC
Statistics
Matches: 193, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
207 3 0.02
208 100 0.52
210 61 0.32
211 29 0.15
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (208 bp):
GTGTTTATATGTCTTGTTATGCATATGATTTTCATTAATTGATTGATTAAAGTTTGTTACATGTG
TATATATATCATTTTGATTTGATATTATCATAACCAAACCAGCTCTCGAGCTCGCCCCATCTCTA
CTACCCATCCAATCCACGAGTTACCCCTTGTCATGGCCGGTCCGTTGCACTGACTGCATGCATGA
ATTGAGGAAATTC
Found at i:1522936 original size:26 final size:26
Alignment explanation
Indices: 1522906--1522958 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
1522896 AATAACTCGA
1522906 ACACCTCTAAATTTTTAGTAATTAGT
1 ACACCTCTAAATTTTTAGTAATTAGT
1522932 ACACCTCTAAATTTTTAGTAATTAGT
1 ACACCTCTAAATTTTTAGTAATTAGT
1522958 A
1 A
1522959 ATTAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
ACACCTCTAAATTTTTAGTAATTAGT
Found at i:1525434 original size:18 final size:18
Alignment explanation
Indices: 1525411--1525453 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1525401 AGTGACTTAT
1525411 ATACCGCGACCATATGTG
1 ATACCGCGACCATATGTG
1525429 ATACCGCGACCATATGTG
1 ATACCGCGACCATATGTG
*
1525447 ATGCCGC
1 ATACCGC
1525454 CACCGCCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.30, G:0.23, T:0.21
Consensus pattern (18 bp):
ATACCGCGACCATATGTG
Found at i:1530266 original size:18 final size:18
Alignment explanation
Indices: 1530243--1530279 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1530233 AGAAGTTGCG
1530243 TCGTCTATAGCATGTGCT
1 TCGTCTATAGCATGTGCT
1530261 TCGTCTATAGCATGTGCT
1 TCGTCTATAGCATGTGCT
1530279 T
1 T
1530280 GCATTGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (18 bp):
TCGTCTATAGCATGTGCT
Found at i:1535092 original size:2 final size:2
Alignment explanation
Indices: 1535085--1535121 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1535075 CCTATCTATC
*
1535085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1535122 GTTTCAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1537588 original size:3 final size:3
Alignment explanation
Indices: 1537580--1537646 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
1537570 TTTCTTTTAT
1537580 ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1537626 ATA AT- ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
1537647 ATTACTCCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 6 0.10
3 55 0.90
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1537602 original size:17 final size:18
Alignment explanation
Indices: 1537580--1537646 Score: 113
Period size: 17 Copynumber: 3.9 Consensus size: 18
1537570 TTTCTTTTAT
1537580 ATAATAATAAT-ATAATA
1 ATAATAATAATAATAATA
1537597 ATAATAATAATAAT-ATA
1 ATAATAATAATAATAATA
1537614 ATAATAATAATAATAAT-
1 ATAATAATAATAATAATA
1537631 ATAATAATAATAATAA
1 ATAATAATAATAATAA
1537647 ATTACTCCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
17 44 0.92
18 4 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAATAATAATAATA
Found at i:1537605 original size:20 final size:20
Alignment explanation
Indices: 1537580--1537646 Score: 134
Period size: 20 Copynumber: 3.4 Consensus size: 20
1537570 TTTCTTTTAT
1537580 ATAATAATAATATAATAATA
1 ATAATAATAATATAATAATA
1537600 ATAATAATAATATAATAATA
1 ATAATAATAATATAATAATA
1537620 ATAATAATAATATAATAATA
1 ATAATAATAATATAATAATA
1537640 ATAATAA
1 ATAATAA
1537647 ATTACTCCAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAATAATATAATAATA
Found at i:1538569 original size:20 final size:20
Alignment explanation
Indices: 1538544--1538662 Score: 127
Period size: 20 Copynumber: 5.9 Consensus size: 20
1538534 TAGTTAAAAA
*
1538544 TCGCGTTGCGATTTTCTATT
1 TCGCGTTGCGATTTTCCATT
1538564 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
1538584 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1538604 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCATT
*
1538626 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-ATT
1538647 T--CGTTGCGATTTTCCA
1 TCGCGTTGCGATTTTCCA
1538663 AATTCGTTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
18 1 0.01
19 14 0.16
20 52 0.60
21 4 0.05
22 15 0.17
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1538652 original size:19 final size:19
Alignment explanation
Indices: 1538628--1538670 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
1538618 TCTACAGTTG
1538628 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
1538647 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
1538666 TCGTT
1 TCGTT
1538671 ATGATAGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:1538705 original size:22 final size:22
Alignment explanation
Indices: 1538673--1538740 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
1538663 AATTCGTTAT
*
1538673 GATAGTCTACAGTTGTTGTTGC
1 GATAGTCTACAGTTGTCGTTGC
* **
1538695 GATAGTTTACAAAT-TCGTTGC
1 GATAGTCTACAGTTGTCGTTGC
1538716 GATAGTCTACAGTTGTCGTTGC
1 GATAGTCTACAGTTGTCGTTGC
1538738 GAT
1 GAT
1538741 TTTCCAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 17 0.45
22 21 0.55
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.38
Consensus pattern (22 bp):
GATAGTCTACAGTTGTCGTTGC
Found at i:1538711 original size:43 final size:41
Alignment explanation
Indices: 1538647--1538762 Score: 178
Period size: 43 Copynumber: 2.8 Consensus size: 41
1538637 TTTTCCAAAT
*
1538647 TCGTTGCGATTTTCCAAATTCGTTATGATAGTCTACAGTTG
1 TCGTTGCGATTTTCCAAATTCGTTGTGATAGTCTACAGTTG
* * *
1538688 TTGTTGCGATAGTTTACAAATTCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGAT--TTTCCAAATTCGTTGTGATAGTCTACAGTTG
1538731 TCGTTGCGATTTTCCAAATTCGTTGTGATAGT
1 TCGTTGCGATTTTCCAAATTCGTTGTGATAGT
1538763 TAAAAAAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 29 0.44
43 37 0.56
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (41 bp):
TCGTTGCGATTTTCCAAATTCGTTGTGATAGTCTACAGTTG
Found at i:1539764 original size:6 final size:6
Alignment explanation
Indices: 1539755--1539781 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1539745 CTCGGGTTGG
1539755 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1539782 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1540512 original size:22 final size:21
Alignment explanation
Indices: 1540472--1540512 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1540462 ATGTATAAAA
*
1540472 TTTTAAAAGAAACGTAATTTT
1 TTTTAAAAGAAACGAAATTTT
*
1540493 TTTTAAAACGGAACGAAATT
1 TTTTAAAA-GAAACGAAATT
1540513 ATAAAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
TTTTAAAAGAAACGAAATTTT
Found at i:1546865 original size:30 final size:32
Alignment explanation
Indices: 1546831--1546889 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
1546821 AAAATTCGAC
* *
1546831 GACCATTTTGTAAATTT-T-GAAAAGTTGGGG
1 GACCAATTCGTAAATTTATGGAAAAGTTGGGG
*
1546861 GACCAATTCGTAATTTTATGGAAAAGTTG
1 GACCAATTCGTAAATTTATGGAAAAGTTG
1546890 TAAATGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 1 0.04
32 9 0.38
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (32 bp):
GACCAATTCGTAAATTTATGGAAAAGTTGGGG
Found at i:1548806 original size:2 final size:2
Alignment explanation
Indices: 1548799--1548827 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1548789 GTTTTAAACG
1548799 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
1548828 GTAAACGGAA
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:1551200 original size:22 final size:22
Alignment explanation
Indices: 1551174--1551216 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
1551164 ATATATAATG
1551174 ATATA-ATATAGGTTTTGAAAAT
1 ATATATATATA-GTTTTGAAAAT
1551196 ATATATTATATAGTTTTGAAA
1 ATATA-TATATAGTTTTGAAA
1551217 GCCTTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (22 bp):
ATATATATATAGTTTTGAAAAT
Found at i:1551243 original size:37 final size:37
Alignment explanation
Indices: 1551186--1551538 Score: 375
Period size: 37 Copynumber: 9.6 Consensus size: 37
1551176 ATAATATAGG
*
1551186 TTTTGAAAATATATAT--TATATAGTTTTGAAAGCCT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
* **
1551221 TTTTGAAAATATGTATAATATATAGTTTTGAAAATGAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAA-CCT
* *
1551259 TTTTGAAAAAATATATATTATATAGTTTTGAAAACCT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
1551296 TTTTGAAAATATATAT--TATATAGTTTTGAAAACCT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
* * **
1551331 TTCTGAAAATATATATAATATATAATTTTGAAAATAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
* *
1551368 TTTTAAAAATATATATAATATATAGTTTTTGAAAA-CA
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACCT
**
1551405 TTTTGAAACATATATATAATATATAGTTTTTGAAAATAT
1 TTTTGAAA-ATATATATAATATATAG-TTTTGAAAACCT
*
1551444 TTTTGAAAACATATAT-ATATATAGTTTTTGAAAA-C-
1 TTTTGAAAATATATATAATATATAG-TTTTGAAAACCT
* * * * * *
1551479 ATTTGAAAATA-A-ATAATATGTGGTCTTAAAAACAT
1 TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
* *
1551514 TTTGGAAAATAAATATATATATATA
1 TTTTGAAAATATATATA-ATATATA
1551539 TATATTTAAT
Statistics
Matches: 269, Mismatches: 35, Indels: 25
0.82 0.11 0.08
Matches are distributed among these distances:
33 9 0.03
34 7 0.03
35 67 0.25
36 1 0.00
37 97 0.36
38 80 0.30
39 8 0.03
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTGAAAACCT
Found at i:1551280 original size:75 final size:75
Alignment explanation
Indices: 1551191--1551538 Score: 383
Period size: 75 Copynumber: 4.7 Consensus size: 75
1551181 ATAGGTTTTG
* * * *
1551191 AAAATATATATTATATAGTTTTGAAAGCCTTTTTGAAAATATGTATAATATATAG-TTTTGAAAA
1 AAAATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTGAAAA
*
1551255 TGATTTTTGAA
66 -CATTTTTGAA
* *
1551266 AAAATATATATTATATAGTTTTGAAAACCTTTTTGAAAATATATAT--TATATAG-TTTTGAAAA
1 AAAATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTGAAAA
* *
1551328 CCTTTCTGAA
66 CATTTTTGAA
* * * *
1551338 AATATATATAATATATAATTTTGAAAATATTTTTAAAAATATATATAATATATAGTTTTTGAAAA
1 AAAATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTGAAAA
1551403 CA-TTTTGAA
66 CATTTTTGAA
* * *
1551412 ACATATATATAATATATAGTTTTTGAAAATATTTTTGAAAACATATAT-ATATATAGTTTTTGAA
1 A-AAATATATAATATATAG-TTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTGAA
1551476 AACA--TTTG--
64 AACATTTTTGAA
* * * * * * *
1551484 AAAATAAATAATATGTGGTCTTAAAAACATTTTGGAAAATAAATATATATATATA
1 AAAATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATA-ATATATA
1551539 TATATTTAAT
Statistics
Matches: 240, Mismatches: 26, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
70 22 0.09
71 13 0.05
72 55 0.23
73 16 0.07
74 18 0.08
75 90 0.38
76 26 0.11
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.43
Consensus pattern (75 bp):
AAAATATATAATATATAGTTTTGAAAACATTTTTGAAAATATATATAATATATAGTTTTTGAAAA
CATTTTTGAA
Found at i:1551339 original size:110 final size:109
Alignment explanation
Indices: 1551186--1551536 Score: 412
Period size: 110 Copynumber: 3.2 Consensus size: 109
1551176 ATAATATAGG
* *
1551186 TTTTGAAAATATATATTATATAGTTTTGAAAGCCTTTTTGAAAATATGTATAATATATAGTTTTG
1 TTTTGAAAATATATATTATATAGTTTTGAAAACCTTTTTGAAAATATATATAATATATAGTTTTG
* *
1551251 AAAATGATTTTTGAAAAA-ATATATATTATATAG-TTTTGAAAACCT
66 AAAAT-ATTTTT-AAAAATATATATAATATATAGTTTTTGAAAA-CA
* *
1551296 TTTTGAAAATATATATTATATAGTTTTGAAAACCTTTCTGAAAATATATATAATATATAATTTTG
1 TTTTGAAAATATATATTATATAGTTTTGAAAACCTTTTTGAAAATATATATAATATATAGTTTTG
1551361 AAAATATTTTTAAAAATATATATAATATATAGTTTTTGAAAACA
66 AAAATATTTTTAAAAATATATATAATATATAGTTTTTGAAAACA
** *
1551405 TTTTGAAACATATATATAATATATAGTTTTTGAAAATATTTTTGAAAACATATAT-ATATATAGT
1 TTTTGAAA-ATATATAT--TATATAG-TTTTGAAAACCTTTTTGAAAATATATATAATATATAG-
* * * * * *
1551469 TTTTGAAAACA--TTTGAAAATA-A-ATAATATGT-GGTCTTAAAAACA
61 TTTTGAAAATATTTTTAAAAATATATATAATATATAGTTTTTGAAAACA
*
1551513 TTTTGGAAAATAAATATATATATA
1 TTTT-GAAAATATATAT-TATATA
1551537 TATATATTTA
Statistics
Matches: 215, Mismatches: 18, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
107 7 0.03
108 26 0.12
109 41 0.19
110 84 0.39
111 9 0.04
112 14 0.07
113 34 0.16
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (109 bp):
TTTTGAAAATATATATTATATAGTTTTGAAAACCTTTTTGAAAATATATATAATATATAGTTTTG
AAAATATTTTTAAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:1551598 original size:29 final size:30
Alignment explanation
Indices: 1551537--1551617 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
1551527 TATATATATA
*
1551537 TATATATTTAATATTATTTTTATTATTATT
1 TATATATTTAATATTATTTTTATTATTACT
*
1551567 TATATCATTT-AT-TTATTTTTATTATTGCT
1 TATAT-ATTTAATATTATTTTTATTATTACT
* *
1551596 TATTTATTTAATTTTAATTTTT
1 TATATATTTAATATT-ATTTTT
1551618 CCTTTTAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 4 0.09
29 21 0.48
30 9 0.20
31 10 0.23
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.68
Consensus pattern (30 bp):
TATATATTTAATATTATTTTTATTATTACT
Found at i:1553398 original size:13 final size:13
Alignment explanation
Indices: 1553380--1553404 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1553370 GGCCCTGCTG
1553380 CCTAGTCTACAAA
1 CCTAGTCTACAAA
1553393 CCTAGTCTACAA
1 CCTAGTCTACAA
1553405 TAACTCTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.32, G:0.08, T:0.24
Consensus pattern (13 bp):
CCTAGTCTACAAA
Found at i:1563187 original size:25 final size:26
Alignment explanation
Indices: 1563158--1563208 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
1563148 ATTTTGATGA
1563158 ATCATTAC-GCCAACTAATGCACTTT
1 ATCATTACTGCCAACTAATGCACTTT
*
1563183 ATCATTGCTGCCAACTAATGCACTTT
1 ATCATTACTGCCAACTAATGCACTTT
1563209 CGGTGCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.33
Consensus pattern (26 bp):
ATCATTACTGCCAACTAATGCACTTT
Found at i:1567181 original size:3 final size:3
Alignment explanation
Indices: 1567173--1567232 Score: 88
Period size: 3 Copynumber: 20.0 Consensus size: 3
1567163 TTTGTTTTAT
1567173 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A
1567220 TT- TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA
1567233 CAGGCCCAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.08
3 43 0.81
4 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1567738 original size:17 final size:17
Alignment explanation
Indices: 1567709--1567747 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1567699 GAAGAATCGG
*
1567709 AGAA-AAACGGAGAGCA
1 AGAACAAACAGAGAGCA
1567725 AGAACAAACAGAGAGCA
1 AGAACAAACAGAGAGCA
1567742 AGAACA
1 AGAACA
1567748 GAGAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.59, C:0.15, G:0.26, T:0.00
Consensus pattern (17 bp):
AGAACAAACAGAGAGCA
Found at i:1568553 original size:3 final size:3
Alignment explanation
Indices: 1568547--1568580 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1568537 TTATTTGCAA
* *
1568547 TAT TAT TAT TAT TTT TAT TAT TAT TCT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1568581 TATATAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1568863 original size:18 final size:18
Alignment explanation
Indices: 1568840--1568877 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1568830 TCCTTTTCTG
*
1568840 ATATTTCTAAATAAATAA
1 ATATTTATAAATAAATAA
*
1568858 ATATTTATAAATATATAA
1 ATATTTATAAATAAATAA
1568876 AT
1 AT
1568878 TAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTATAAATAAATAA
Found at i:1569417 original size:26 final size:27
Alignment explanation
Indices: 1569365--1569422 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
1569355 TAATTCTTTC
*
1569365 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
1569393 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
1569419 TTTT
1 TTTT
1569423 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:1570993 original size:12 final size:12
Alignment explanation
Indices: 1570976--1571024 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
1570966 TACATTCATA
1570976 TATTTACATTTG
1 TATTTACATTTG
1570988 TATTTACATTTG
1 TATTTACATTTG
* *
1571000 CATTTTTACTTTTG
1 --TATTTACATTTG
*
1571014 TATATACATTT
1 TATTTACATTT
1571025 TCATACTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 20 0.67
14 10 0.33
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.59
Consensus pattern (12 bp):
TATTTACATTTG
Found at i:1575297 original size:114 final size:114
Alignment explanation
Indices: 1575097--1575544 Score: 743
Period size: 114 Copynumber: 3.9 Consensus size: 114
1575087 CATGTTCTCG
* * *
1575097 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
1575162 GGTATAAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
*
1575211 TAGTAGAAATAAAAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
1575276 GGTATGAACCCTAAAACCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
* *
1575325 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGATTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
1575390 GGTATGAACCCTAAAATCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
* *
1575439 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * * *
1575504 GGTAGGAACCCCAGAATCAATCATTGGAATTGAAAGATGAA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
1575545 CTGCATGATC
Statistics
Matches: 314, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 314 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
Found at i:1578108 original size:22 final size:22
Alignment explanation
Indices: 1578077--1578131 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1578067 ATCTACACTC
* *
1578077 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAAATTCCCTT
* *
1578099 TTTAAAGATGACAAATTCTCTT
1 TTCAAAGATGACAAATTCCCTT
1578121 TTCAAAGATGA
1 TTCAAAGATGA
1578132 AAGCTTTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAAATTCCCTT
Found at i:1578847 original size:113 final size:112
Alignment explanation
Indices: 1578539--1578978 Score: 713
Period size: 113 Copynumber: 3.9 Consensus size: 112
1578529 GTTCAAATCT
*
1578539 ATCATTCAATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCATTCGATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * *
1578604 AATAAGTTCATAATGAGAAGAATTTGTTCAACTTTTCGTTTGAATTC
66 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTC
*
1578651 ATCATTCGATGGATCAGCATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCATTCGATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
1578716 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCACTTGAATTC
66 AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTC
* *
1578763 ATCATTCGATGGATCAGCATTGCCAGGTTGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTCGATGGATCAACATT-CCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
1578828 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTGTTT-GCTCGAATTC
65 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACT-TTTCGCTTGAATTC
* * *
1578876 ATCACTCGATGGATCAACTTTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTCGATGGATCAAC-ATTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1578940 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTT
64 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTT
1578979 GCATGATTCT
Statistics
Matches: 310, Mismatches: 13, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
112 127 0.41
113 175 0.56
114 8 0.03
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (112 bp):
ATCATTCGATGGATCAACATTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTC
Found at i:1579240 original size:3 final size:3
Alignment explanation
Indices: 1579232--1579293 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
1579222 TTTGTTTTAT
*
1579232 TTA TTA TTA TT- TTA TTA TTA TTA TTA TTA ATA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
1579277 TTAA TT- TTA TTA -TA TTA
1 TT-A TTA TTA TTA TTA TTA
1579294 CAGGCCCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
2 6 0.12
3 40 0.77
4 6 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1580702 original size:20 final size:18
Alignment explanation
Indices: 1580677--1580713 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1580667 TCTTATTATT
1580677 TATATA-AATAAATATATA
1 TATATATAATAAATA-ATA
1580695 TATATATAATAAATAATA
1 TATATATAATAAATAATA
1580713 T
1 T
1580714 TTGTTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATATAATAAATAATA
Found at i:1580980 original size:18 final size:18
Alignment explanation
Indices: 1580957--1580994 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1580947 TTCTTTTCTG
*
1580957 ATATTTCTAAATAAATAA
1 ATATTTATAAATAAATAA
*
1580975 ATATTTATAAATATATAA
1 ATATTTATAAATAAATAA
1580993 AT
1 AT
1580995 TAATATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTTATAAATAAATAA
Found at i:1582102 original size:25 final size:26
Alignment explanation
Indices: 1582074--1582124 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1582064 ATTTTGATGA
* *
1582074 ATCATT-ATGTCAACTAATGCACTTT
1 ATCATTGATGTCAACCAATACACTTT
*
1582099 ATCATTGCTGTCAACCAATACACTTT
1 ATCATTGATGTCAACCAATACACTTT
1582125 CGGTGCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (26 bp):
ATCATTGATGTCAACCAATACACTTT
Found at i:1587138 original size:2 final size:2
Alignment explanation
Indices: 1587131--1587180 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1587121 GTGTTAAAAG
1587131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1587173 AT AT AT AT
1 AT AT AT AT
1587181 TATTCGAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1594037 original size:51 final size:51
Alignment explanation
Indices: 1593959--1594062 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
1593949 ATTGGGCAGC
* *
1593959 AAATGGTACGATATTATGCGTACATGAAACCATAGCTCTGCCCTTGAAACG
1 AAATGGTACGATATTATGCGTAAATGAAACCATAGCTCTCCCCTTGAAACG
1594010 AAATGGTACGATATTATGCGTAAATGAAACCATAGCTCTCCCCTTGAAACG
1 AAATGGTACGATATTATGCGTAAATGAAACCATAGCTCTCCCCTTGAAACG
1594061 AA
1 AA
1594063 GCAGAGGAGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (51 bp):
AAATGGTACGATATTATGCGTAAATGAAACCATAGCTCTCCCCTTGAAACG
Found at i:1594660 original size:38 final size:36
Alignment explanation
Indices: 1594614--1594720 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 36
1594604 AATTATAGTT
1594614 TTATTGATTATTTTAATTTTTAAAATTTATAAAATAA
1 TTATTGATTATTTTAATTTTT-AAATTTATAAAATAA
1594651 TTATCTGATTATTTTAATTTTTTAAATTTATAAAATAA
1 TTAT-TGATTATTTTAA-TTTTTAAATTTATAAAATAA
1594689 TTATTTGATTA-TTTATATATTTTAAATTTATA
1 TTA-TTGATTATTTTA-AT-TTTTAAATTTATA
1594721 TTTTTTTATT
Statistics
Matches: 65, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
37 9 0.14
38 50 0.77
39 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (36 bp):
TTATTGATTATTTTAATTTTTAAATTTATAAAATAA
Found at i:1596787 original size:19 final size:19
Alignment explanation
Indices: 1596763--1596801 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1596753 TTTATAAATA
1596763 ACTTAGTGTTATTTAATTG
1 ACTTAGTGTTATTTAATTG
1596782 ACTTAGTGTTATTTAATTG
1 ACTTAGTGTTATTTAATTG
1596801 A
1 A
1596802 TTTTCGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (19 bp):
ACTTAGTGTTATTTAATTG
Found at i:1596944 original size:40 final size:40
Alignment explanation
Indices: 1596893--1596972 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
1596883 CGTCTGCAGG
1596893 GTACATCATCAATAATTCTTTTGTGTTGTATATAGGGTAT
1 GTACATCATCAATAATTCTTTTGTGTTGTATATAGGGTAT
* **
1596933 GTACATTATCAATGGTTCTTTTGTGTTGTATATAGGGTAT
1 GTACATCATCAATAATTCTTTTGTGTTGTATATAGGGTAT
1596973 TATCAATGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (40 bp):
GTACATCATCAATAATTCTTTTGTGTTGTATATAGGGTAT
Found at i:1596980 original size:34 final size:37
Alignment explanation
Indices: 1596908--1596998 Score: 134
Period size: 34 Copynumber: 2.5 Consensus size: 37
1596898 TCATCAATAA
1596908 TTCTTTTGTGTTGTATATAGGGTATGTACATTATCAATGG
1 TTCTTTTGTGTTGTATATAGGG--TGTA-ATTATCAATGG
1596948 TTCTTTTGTGTTGTATATA-GG-GT-ATTATCAATGG
1 TTCTTTTGTGTTGTATATAGGGTGTAATTATCAATGG
1596982 TTCTTTTGTGTTGTATA
1 TTCTTTTGTGTTGTATA
1596999 ATGGTTCTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
34 28 0.55
36 2 0.04
39 2 0.04
40 19 0.37
ACGTcount: A:0.20, C:0.07, G:0.22, T:0.52
Consensus pattern (37 bp):
TTCTTTTGTGTTGTATATAGGGTGTAATTATCAATGG
Found at i:1597003 original size:21 final size:21
Alignment explanation
Indices: 1596977--1597019 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1596967 GGGTATTATC
1596977 AATGGTTCTTTTGTGTTGTAT
1 AATGGTTCTTTTGTGTTGTAT
1596998 AATGGTTCTTTTGTGTTGTAT
1 AATGGTTCTTTTGTGTTGTAT
1597019 A
1 A
1597020 TAGGGTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.05, G:0.23, T:0.56
Consensus pattern (21 bp):
AATGGTTCTTTTGTGTTGTAT
Found at i:1597027 original size:55 final size:58
Alignment explanation
Indices: 1596943--1597059 Score: 186
Period size: 61 Copynumber: 2.0 Consensus size: 58
1596933 GTACATTATC
1596943 AATGGTTCTTTTGTGTTGTATATA-GG-GT-ATTATCAATGGTTCTTTTGTGTTGTAT
1 AATGGTTCTTTTGTGTTGTATATAGGGTGTAATTATCAATGGTTCTTTTGTGTTGTAT
1596998 AATGGTTCTTTTGTGTTGTATATAGGGTATGTACATTATCAATGGTTCTTTTGTGTTGTAT
1 AATGGTTCTTTTGTGTTGTATATAGGG--TGTA-ATTATCAATGGTTCTTTTGTGTTGTAT
1597059 A
1 A
1597060 GATGAAGTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
55 24 0.43
56 2 0.04
59 2 0.04
61 28 0.50
ACGTcount: A:0.20, C:0.06, G:0.23, T:0.51
Consensus pattern (58 bp):
AATGGTTCTTTTGTGTTGTATATAGGGTGTAATTATCAATGGTTCTTTTGTGTTGTAT
Found at i:1597196 original size:21 final size:21
Alignment explanation
Indices: 1597168--1597216 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1597158 ATTTATTATT
*
1597168 TATT-TAAATTATTATATTAA
1 TATTATAAATCATTATATTAA
*
1597188 TATTATAAATCATTGTATTAA
1 TATTATAAATCATTATATTAA
*
1597209 TACTATAA
1 TATTATAA
1597217 CTGTCAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 4 0.16
21 21 0.84
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATAAATCATTATATTAA
Found at i:1598838 original size:50 final size:50
Alignment explanation
Indices: 1598750--1598844 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
1598740 CATAGTTTAG
* * *
1598750 GGATTAAATTATAATATTCAAAAGTTTAAGGACTAATTTAGAATGTTTGA
1 GGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAAAATGTTTGA
1598800 GGATGAAATTAAAATATTCAAAAGTTT-AGAGA-TAAATTTAAAATG
1 GGATGAAATTAAAATATTCAAAAGTTTAAG-GACT-AATTTAAAATG
1598845 AAGATCATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
49 3 0.08
50 37 0.93
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (50 bp):
GGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAAAATGTTTGA
Found at i:1600123 original size:66 final size:65
Alignment explanation
Indices: 1600042--1600393 Score: 216
Period size: 66 Copynumber: 5.3 Consensus size: 65
1600032 GGTAAAGCTT
* *
1600042 CTGAATATACA-GATTATACAGCACAGAAATCTAAGGATGCGAAGGATGCTACAATGGGGAAAGC
1 CTGAATATA-AGGATTATGCAGCACAGAAAGCTAAGGATGC-AAGGATGCTACAATGGGGAAAGC
1600106 GG
64 GG
** ** * * * * * * *
1600108 CTGAATATAAGGATTACACAGCTGATAAAGCCAAGCAGGCAAGAGATGCCAC-A-GGGCAAA-AG
1 CTGAATATAAGGATTATGCAGCACAGAAAGCTAAGGATGCAAG-GATGCTACAATGGGGAAAGCG
1600170 G
65 G
*** * * * *
1600171 CTTCCTATTATGCAGATTATGCAGCACAGAAAGCTAAGGATACAAAGGATACTACAATGGAGAAA
1 CTGAATA-TAAG--GATTATGCAGCACAGAAAGCTAAGGATGC-AAGGATGCTACAATGGGGAAA
1600236 GCGG
62 GCGG
* * * ** * * * * * *
1600240 CTGCATATAAGGACTATGCTGCGGAGAAAGCTAAGGATGCAA--AAGATACAACCGCGCAAA-AG
1 CTGAATATAAGGATTATGCAGCACAGAAAGCTAAGGATGCAAGGATGCTACAA-TGGGGAAAGCG
1600302 G
65 G
* *
1600303 CTTCCGAATATACA-GATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATAGAGAA
1 C-T--GAATATA-AGGATTATGCAGCACAGAAAGCTAAGGATGC-AAGGATGCTACAATGGGGAA
*
1600367 AGCGA
61 AGCGG
*
1600372 CTGAATATAAGGACTATGCAGC
1 CTGAATATAAGGATTATGCAGC
1600394 GGAGAAAGGC
Statistics
Matches: 207, Mismatches: 60, Indels: 38
0.68 0.20 0.12
Matches are distributed among these distances:
63 15 0.07
64 14 0.07
65 8 0.04
66 135 0.65
67 7 0.03
68 12 0.06
69 16 0.08
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (65 bp):
CTGAATATAAGGATTATGCAGCACAGAAAGCTAAGGATGCAAGGATGCTACAATGGGGAAAGCGG
Found at i:1600408 original size:132 final size:132
Alignment explanation
Indices: 1600038--1600408 Score: 483
Period size: 132 Copynumber: 2.8 Consensus size: 132
1600028 CACCGGTAAA
* * * * *
1600038 GCTTCTGAATATACAGATTATACAGCACAGAAATCTAAGGATGCGAAGGATGCTACAATGGGGAA
1 GCTTCCGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
* ** * * * * * * * *
1600103 AGCGGCTGAATATAAGGATTACACAGCTGATAAAGCCAAGCAGGCAAGAGATGCCACAGGGCAAA
66 AGCGGCTGAATATAAGGACTATGCAGCGGAGAAAGGCAAGGAGGCAAAAGATACAACAGCGCAAA
1600168 AG
131 AG
* * * * *
1600170 GCTTCCTATTATGCAGATTATGCAGCACAGAAAGCTAAGGATACAAAGGATACTACAATGGAGAA
1 GCTTCCGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
* * * *
1600235 AGCGGCTGCATATAAGGACTATGCTGCGGAGAAA-GCTAAGGATGCAAAAGATACAACCGCGCAA
66 AGCGGCTGAATATAAGGACTATGCAGCGGAGAAAGGC-AAGGAGGCAAAAGATACAACAGCGCAA
1600299 AAG
130 AAG
*
1600302 GCTTCCGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATAGAGAA
1 GCTTCCGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
*
1600367 AGCGACTGAATATAAGGACTATGCAGCGGAGAAAGGCAAGGA
66 AGCGGCTGAATATAAGGACTATGCAGCGGAGAAAGGCAAGGA
1600409 AGCCAAGGAC
Statistics
Matches: 203, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
131 1 0.00
132 200 0.99
133 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (132 bp):
GCTTCCGAATATACAGATTATGCAGCACAGAAAGCTAAGGATGCAAAGGATGCTACAATGGAGAA
AGCGGCTGAATATAAGGACTATGCAGCGGAGAAAGGCAAGGAGGCAAAAGATACAACAGCGCAAA
AG
Found at i:1615095 original size:2 final size:2
Alignment explanation
Indices: 1615090--1615174 Score: 156
Period size: 2 Copynumber: 43.5 Consensus size: 2
1615080 CACAAGTAAC
1615090 TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1615131 TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1615172 TA T
1 TA T
1615175 CAACCATGCA
Statistics
Matches: 81, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.02
2 79 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1616719 original size:58 final size:59
Alignment explanation
Indices: 1616655--1616768 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 59
1616645 TTTCCCATGT
* * * * *
1616655 GAAAATTCATACACTTAGTATGAGTTTCTTATC-TTTTTGCACATAAAGTGCCCAATAC
1 GAAAATTCATACACCTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
* *
1616713 GAAAATTCATGCACCTAGTATGAATTTCTTAACATTTTAGCACACATAGTGCCCAA
1 GAAAATTCATACACCTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAA
1616769 ACAGTTATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 29 0.60
59 19 0.40
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
GAAAATTCATACACCTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCAATAC
Found at i:1616980 original size:54 final size:54
Alignment explanation
Indices: 1616752--1616980 Score: 305
Period size: 54 Copynumber: 4.2 Consensus size: 54
1616742 TAACATTTTA
* * * *
1616752 GCACACATAGTGCCCAAACAGTTATTCATCCACATATGATGAATTCTGTGAAAT
1 GCACACTTAGTGCCGAAACAGTTATTCATCCACATAAGATGAATTCCGTGAAAT
* * * * *
1616806 ACATACTTAGTGTCGAAACAGTTATTCATCCACATAGGATGAATTCTGTGAAAT
1 GCACACTTAGTGCCGAAACAGTTATTCATCCACATAAGATGAATTCCGTGAAAT
* * * *
1616860 GCACACTTAGTGTCGAAACGGTTATTCACCCACATAAGATGAATTTCGTGAAAT
1 GCACACTTAGTGCCGAAACAGTTATTCATCCACATAAGATGAATTCCGTGAAAT
* * *
1616914 GCACACTTAGTGCCAAAACGGTTATTCATCCACATACGATGAATTCCGTGAAAT
1 GCACACTTAGTGCCGAAACAGTTATTCATCCACATAAGATGAATTCCGTGAAAT
*
1616968 GTACACTTAGTGC
1 GCACACTTAGTGC
1616981 TTATTTGGTA
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 156 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (54 bp):
GCACACTTAGTGCCGAAACAGTTATTCATCCACATAAGATGAATTCCGTGAAAT
Found at i:1617409 original size:20 final size:20
Alignment explanation
Indices: 1617384--1617435 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
1617374 CGATGTTGCT
1617384 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
1617404 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCTTACCA
1617424 TGGTATCGATAC
1 TGGTATCGATAC
1617436 TACCTCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (20 bp):
TGGTATCGATACCCTTACCA
Found at i:1618460 original size:14 final size:14
Alignment explanation
Indices: 1618417--1618451 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
1618407 TTAACTTTTT
*
1618417 GGTCAAAGTCGAC-
1 GGTCAAAGTCAACG
1618430 GGTCAAAGTCAACG
1 GGTCAAAGTCAACG
1618444 GGTCAAAG
1 GGTCAAAG
1618452 CTAATGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.34, C:0.20, G:0.31, T:0.14
Consensus pattern (14 bp):
GGTCAAAGTCAACG
Found at i:1622175 original size:3 final size:3
Alignment explanation
Indices: 1622167--1622246 Score: 67
Period size: 3 Copynumber: 26.7 Consensus size: 3
1622157 AGTTTGCATA
* * *
1622167 TAT TAT TAT TAT TA- TAG TAT TA- TAC TAT TAC TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
1622211 TAC TAT TAT TAT TAT ATAT TAA TA- TATT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TA
1622247 CAAATAATAC
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
2 6 0.09
3 50 0.78
4 8 0.12
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:1622195 original size:22 final size:21
Alignment explanation
Indices: 1622165--1622246 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 21
1622155 TGAGTTTGCA
*
1622165 TATATTATTATTATTATAGTAT
1 TATACTATTATTATTATA-TAT
* *
1622187 TATACTATTACTATTATTTAT
1 TATACTATTATTATTATATAT
1622208 TATTACTATTATTATTATATAT
1 TA-TACTATTATTATTATATAT
1622230 TAATA-TATTTATTATTA
1 T-ATACTA-TTATTATTA
1622247 CAAATAATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
21 7 0.13
22 44 0.85
23 1 0.02
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.59
Consensus pattern (21 bp):
TATACTATTATTATTATATAT
Found at i:1622237 original size:8 final size:7
Alignment explanation
Indices: 1622164--1622238 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 7
1622154 CTGAGTTTGC
1622164 ATATATT
1 ATATATT
1622171 ATTATTATT
1 A-TA-TATT
1622180 ATAGTATT
1 ATA-TATT
1622188 ATACTATT
1 ATA-TATT
*
1622196 A-CTATT
1 ATATATT
*
1622202 ATTTATT
1 ATATATT
1622209 ATTACTATT
1 A-TA-TATT
1622218 AT-TATT
1 ATATATT
1622224 ATATATT
1 ATATATT
1622231 AATATATT
1 -ATATATT
1622239 TATTATTACA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
6 11 0.20
7 10 0.18
8 25 0.45
9 10 0.18
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:1628953 original size:221 final size:220
Alignment explanation
Indices: 1628572--1629011 Score: 839
Period size: 221 Copynumber: 2.0 Consensus size: 220
1628562 GAAATAGTGA
1628572 AAGTTGTTGATTCTTTTGATATTCTTTAAATTCGTGCTTATGATTTGATCAATTGTGAACCTATA
1 AAGTTGTTGATTCTTTTGATATTCTTTAAATTCGTGCTTATGATTTGATCAATTGTGAACCTATA
1628637 AGGGACAATTTTACTAAATTCTTCATTCTTGATAAGAAAGGAGAAAGAAAATTTTCAAACAAGAT
66 AGGGACAATTTTACTAAATTCTTCATTCTTGATAAGAAAGGAGAAAGAAAATTTTCAAACAAGAT
1628702 TGTCTCAAAAAAAGAAAAGATCTTGAAACAAGTTGATGCCTATTCTACCC-TATTGGAGAAAAAG
131 TGTCTCAAAAAAAGAAAAGATCTTGAAACAAGTTGATGCCTATTCTACCCTTATTGGAGAAAAAG
1628766 AATAAACAAGGCCATAATGATGAAG
196 AATAAACAAGGCCATAATGATGAAG
1628791 AAGTTGTTGATTCTTTTGATATTCTTTAAATTCGTGCTTATGATTTGATTC-ATTGTGAACCTAT
1 AAGTTGTTGATTCTTTTGATATTCTTTAAATTCGTGCTTATGATTTGA-TCAATTGTGAACCTAT
1628855 AAGGGACAATATTTTACTAAATTCTTCATTCTTGATAAGAAAGGAGAAAGAAAATTTTCAAACAA
65 AAGGGAC-A-ATTTTACTAAATTCTTCATTCTTGATAAGAAAGGAGAAAGAAAATTTTCAAACAA
1628920 GATTGTCTCAAAAAAAGAAAAGATCTTGAAACAAGTTGATGCCTATTCTACCCTTATTGGAGAAA
128 GATTGTCTCAAAAAAAGAAAAGATCTTGAAACAAGTTGATGCCTATTCTACCCTTATTGGAGAAA
1628985 AAGAATAAACAAGGCCATAATGATGAA
193 AAGAATAAACAAGGCCATAATGATGAA
1629012 ACATTTCACA
Statistics
Matches: 217, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
219 68 0.31
220 3 0.01
221 108 0.50
222 38 0.18
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (220 bp):
AAGTTGTTGATTCTTTTGATATTCTTTAAATTCGTGCTTATGATTTGATCAATTGTGAACCTATA
AGGGACAATTTTACTAAATTCTTCATTCTTGATAAGAAAGGAGAAAGAAAATTTTCAAACAAGAT
TGTCTCAAAAAAAGAAAAGATCTTGAAACAAGTTGATGCCTATTCTACCCTTATTGGAGAAAAAG
AATAAACAAGGCCATAATGATGAAG
Found at i:1629481 original size:51 final size:51
Alignment explanation
Indices: 1629338--1629534 Score: 222
Period size: 51 Copynumber: 3.8 Consensus size: 51
1629328 AAAGTCTATA
1629338 TTATCCATCTGGGCCATCTTGAAGGCTCACATCAGCATTAAAAAAAGAGTCAGAAG
1 TTATCCATCTGGG-CATCTTGAAGGCTCACATCAGCA-T-AAAAAAGA-T-AGAAG
* * *
1629394 TTATCCATGTGGGTATCTTGAAGGCTCACATCAGCAT-GAAAAGATAGAAG
1 TTATCCATCTGGGCATCTTGAAGGCTCACATCAGCATAAAAAAGATAGAAG
* * *
1629444 TAATCAATCTGGGGCATCTTGAAGGCTCACATCAGCATAAAAAAGATATAAG
1 TTATCCATCT-GGGCATCTTGAAGGCTCACATCAGCATAAAAAAGATAGAAG
* * * *
1629496 TTATCCATGTGGG--T-ATAAAGGCTCACATCAGCATGAAAA
1 TTATCCATCTGGGCATCTTGAAGGCTCACATCAGCATAAAAA
1629535 GACAGAAAGG
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
48 22 0.18
49 1 0.01
50 12 0.10
51 30 0.24
52 24 0.19
54 1 0.01
55 22 0.18
56 12 0.10
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (51 bp):
TTATCCATCTGGGCATCTTGAAGGCTCACATCAGCATAAAAAAGATAGAAG
Found at i:1631153 original size:42 final size:42
Alignment explanation
Indices: 1631089--1631170 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
1631079 CACAAATTTG
* * *
1631089 TAAATCCTTTGGGTCATCTGTTAGTCTTTCGAGCATGATGCT
1 TAAATCCTTTGGGTCATATGTTAGTATTTCGAGCAAGATGCT
1631131 TAAAT-CTTTCGGGTCATATGTTAGTATTTCGAGCAAGATG
1 TAAATCCTTT-GGGTCATATGTTAGTATTTCGAGCAAGATG
1631171 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 4 0.11
42 32 0.89
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (42 bp):
TAAATCCTTTGGGTCATATGTTAGTATTTCGAGCAAGATGCT
Found at i:1631423 original size:20 final size:20
Alignment explanation
Indices: 1631380--1631428 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1631370 GCATGAAAAT
* *
1631380 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATCTA
*
1631400 TAAATCCTCCGGGTCATCTA
1 TAAATCCTCCGGGTAATCTA
*
1631420 TAAAACCTC
1 TAAATCCTC
1631429 AAGGTAGGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATCTA
Found at i:1631527 original size:20 final size:20
Alignment explanation
Indices: 1631499--1631553 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1631489 TCTCAAAAAT
*
1631499 TAAAACCTCCGGGTAATTTA
1 TAAAACCTCAGGGTAATTTA
* * *
1631519 TAAATCCTCTGGGTCATTTA
1 TAAAACCTCAGGGTAATTTA
1631539 TAAAACCTCAGGGTA
1 TAAAACCTCAGGGTA
1631554 TGATGTTTTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (20 bp):
TAAAACCTCAGGGTAATTTA
Found at i:1631592 original size:119 final size:119
Alignment explanation
Indices: 1631374--1631805 Score: 644
Period size: 119 Copynumber: 3.7 Consensus size: 119
1631364 TTTCGAGCAT
* *
1631374 GAAAATTAAATCCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAAGGTAGGAT
1 GAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
*
1631439 GTTTTCGCATGAAAATGAGAAAACAATTTTCAAAGTTTCTCATTTAATGTTCTCA
66 GTTTTCGCATGAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGTTCT-A
* * * *
1631494 -AAAATTAAAACCTCCGGGTAATTTATAAATCCTCTGGGTCATTTATAAAACCTCAGGGTATGAT
1 GAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
* ** *
1631558 GTTTTCGCATGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTATTGTTCTA
66 GTTTTCGCATGAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGTTCTA
*
1631612 GAAAATTAAAACCTCCGGGTAATTTGTAAAACCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
1 GAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
* * *
1631677 GTTTTCGCATGAAAATGAGAAAGCAATTTTTAAAGTTTCTTATTTAATGCTCTA
66 GTTTTCGCATGAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGTTCTA
* *
1631731 GAAAATTAAAACCTCTGGGTAA-TTGTAAATCCT-CGGG---TCTATAAAACCTTA-GGTAGGAT
1 GAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
*
1631790 GTTTTCTCATGAAAAT
66 GTTTTCGCATGAAAAT
1631806 TAAATCCTCC
Statistics
Matches: 284, Mismatches: 27, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
113 23 0.08
114 13 0.05
117 4 0.01
118 11 0.04
119 233 0.82
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (119 bp):
GAAAATTAAAACCTCCGGGTAATTTGTAAATCCTCCGGGTCATCTATAAAACCTCAGGGTAGGAT
GTTTTCGCATGAAAATGAGAAAGCAATTTTCAAAGTTTCTCATTTAATGTTCTA
Found at i:1631643 original size:20 final size:20
Alignment explanation
Indices: 1631618--1631672 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1631608 TCTAGAAAAT
* *
1631618 TAAAACCTCCGGGTAATTTG
1 TAAAACCTCCGGGTAATCTA
*
1631638 TAAAACCTCCGGGTCATCTA
1 TAAAACCTCCGGGTAATCTA
*
1631658 TAAAACCTCAGGGTA
1 TAAAACCTCCGGGTA
1631673 GGATGTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
TAAAACCTCCGGGTAATCTA
Found at i:1631831 original size:20 final size:20
Alignment explanation
Indices: 1631806--1631860 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1631796 TCATGAAAAT
*
1631806 TAAATCCTCCGGGTAATTTG
1 TAAATCCTCCGGGTAATCTG
* *
1631826 TAAATCCTACGGGTCATCTG
1 TAAATCCTCCGGGTAATCTG
* *
1631846 TAAAACCTCAGGGTA
1 TAAATCCTCCGGGTA
1631861 TGATGTTTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAATCCTCCGGGTAATCTG
Found at i:1631878 original size:75 final size:69
Alignment explanation
Indices: 1631731--1631894 Score: 229
Period size: 75 Copynumber: 2.3 Consensus size: 69
1631721 TAATGCTCTA
* * *
1631731 GAAAATTAAAACCTCTGGGTAATTGTAAATCCTCGGGTCTATAAAACCTTAGGTAGGATGTTTTC
1 GAAAATTAAATCCTCCGGGTAATTGTAAATCCTCGGGTCTATAAAACCTCAGGTAGGATGTTTTC
1631796 TCAT
66 TCAT
* *
1631800 GAAAATTAAATCCTCCGGGTAATTTGTAAATCCTACGGGTCATCTGTAAAACCTCAGGGTATGAT
1 GAAAATTAAATCCTCCGGGTAA-TTGTAAATCCT-CGGG---TCTATAAAACCTCA-GGTAGGAT
1631865 GTTTTCTCAT
60 GTTTTCTCAT
1631875 GAAAATTAAATCCTCCGGGT
1 GAAAATTAAATCCTCCGGGT
1631895 TGTCTGTAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
69 20 0.24
70 11 0.13
71 4 0.05
74 12 0.14
75 37 0.44
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (69 bp):
GAAAATTAAATCCTCCGGGTAATTGTAAATCCTCGGGTCTATAAAACCTCAGGTAGGATGTTTTC
TCAT
Found at i:1632027 original size:3 final size:3
Alignment explanation
Indices: 1632019--1632098 Score: 76
Period size: 3 Copynumber: 26.7 Consensus size: 3
1632009 AGTTTGCATA
* *
1632019 TAT TAT TAT TAC TA- TAT TAT TA- TAG TAT TAT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
1632063 TAC TAT TAT TAT TAT ATAT TAA TA- TATT TAT TAT TA
1 TAT TAT TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TA
1632099 CAAATAATAC
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
2 6 0.09
3 52 0.79
4 8 0.12
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1632047 original size:25 final size:22
Alignment explanation
Indices: 1632016--1632098 Score: 98
Period size: 22 Copynumber: 3.6 Consensus size: 22
1632006 CCGAGTTTGC
1632016 ATATATTATTATTACTATATTATT
1 ATATATTATTATTA-TATATTA-T
*
1632040 ATAGTATTATTATTATTTATTAT
1 ATA-TATTATTATTATATATTAT
1632063 -TACTATTATTATTATATATTA-
1 ATA-TATTATTATTATATATTAT
1632084 ATATATTTATTATTA
1 ATATA-TTATTATTA
1632099 CAAATAATAC
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
21 2 0.04
22 30 0.57
23 1 0.02
24 9 0.17
25 11 0.21
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.59
Consensus pattern (22 bp):
ATATATTATTATTATATATTAT
Found at i:1632071 original size:19 final size:17
Alignment explanation
Indices: 1632019--1632098 Score: 83
Period size: 19 Copynumber: 4.5 Consensus size: 17
1632009 AGTTTGCATA
1632019 TATTATTATTACTATAT
1 TATTATTATTACTATAT
1632036 TATTATAGTATTA-T-TAT
1 TATTAT--TATTACTATAT
1632053 TATTTATTATTACTATTAT
1 TA-TTATTATTACTA-TAT
*
1632072 TATTATATATTAATATATT
1 TATTAT-TATTACTATA-T
1632091 TATTATTA
1 TATTATTA
1632099 CAAATAATAC
Statistics
Matches: 54, Mismatches: 1, Indels: 15
0.77 0.01 0.21
Matches are distributed among these distances:
16 5 0.09
17 12 0.22
18 13 0.24
19 24 0.44
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTATTATTACTATAT
Found at i:1632156 original size:17 final size:17
Alignment explanation
Indices: 1632134--1632167 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1632124 TTTACATAAT
1632134 CAACCTGATTCAAGCCC
1 CAACCTGATTCAAGCCC
*
1632151 CAACCTGATTCAGGCCC
1 CAACCTGATTCAAGCCC
1632168 AAGAAGCCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.41, G:0.15, T:0.18
Consensus pattern (17 bp):
CAACCTGATTCAAGCCC
Found at i:1636462 original size:35 final size:35
Alignment explanation
Indices: 1636419--1636488 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
1636409 ATTCTTCATG
* *
1636419 GGGTATCAATACCGAA-GTGGTAGTATCGGTACCAT
1 GGGTATCAATACC-AAGGTAGAAGTATCGGTACCAT
1636454 GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
1 GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
1636489 TCTTACAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (35 bp):
GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
Found at i:1637478 original size:21 final size:21
Alignment explanation
Indices: 1637317--1637479 Score: 164
Period size: 21 Copynumber: 7.6 Consensus size: 21
1637307 GGTTCTACGC
1637317 GGTCCTTCGGGACATATATGT
1 GGTCCTTCGGGACATATATGT
* * *
1637338 GATCCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGT
*
1637359 GGTCCTTCGGGACATATATTT
1 GGTCCTTCGGGACATATATGT
* * *
1637380 GGTCCTTTGGAACATATATAT
1 GGTCCTTCGGGACATATATGT
* *
1637401 GGTCCTTAGGGACACTTTTATGT
1 GGTCCTTCGGGACA--TATATGT
* * *
1637424 GGTTCTGCGGGACATTTCTATGT
1 GGTCCTTCGGGACA--TATATGT
* *
1637447 GGTCATTCGGGACATAAATGT
1 GGTCCTTCGGGACATATATGT
1637468 GGTCCTTCGGGA
1 GGTCCTTCGGGA
1637480 TAACTCTACG
Statistics
Matches: 115, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
21 81 0.70
23 34 0.30
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:1640958 original size:35 final size:35
Alignment explanation
Indices: 1640915--1640984 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
1640905 ATTCTTCATG
* *
1640915 GGGTATCAATACCGAA-GTGGTAGTATCGGTACCAT
1 GGGTATCAATACC-AAGGTAGAAGTATCGGTACCAT
1640950 GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
1 GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
1640985 TCTTACAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 2 0.06
35 30 0.94
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.24
Consensus pattern (35 bp):
GGGTATCAATACCAAGGTAGAAGTATCGGTACCAT
Found at i:1641976 original size:21 final size:21
Alignment explanation
Indices: 1641815--1641979 Score: 195
Period size: 21 Copynumber: 7.7 Consensus size: 21
1641805 GGTTCTACGC
1641815 GGTCCTTCGGGACATATATGT
1 GGTCCTTCGGGACATATATGT
* * *
1641836 GATCCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGT
*
1641857 GGTCCTTCGGGACATATATTT
1 GGTCCTTCGGGACATATATGT
* *
1641878 GGTCCTTTGGAACATATATGT
1 GGTCCTTCGGGACATATATGT
* *
1641899 GGTCCTTAGGGACAATTCTATGT
1 GGTCCTTCGGGAC-A-TATATGT
** *
1641922 GGTCCTTCACGACATTTCTATGT
1 GGTCCTTCGGGACA--TATATGT
1641945 GGTCCTTCGGGACATATATGT
1 GGTCCTTCGGGACATATATGT
1641966 GGTCCTTCGGGACA
1 GGTCCTTCGGGACA
1641980 ATTCTACTAG
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
21 84 0.69
22 2 0.02
23 36 0.30
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (21 bp):
GGTCCTTCGGGACATATATGT
Found at i:1646325 original size:17 final size:16
Alignment explanation
Indices: 1646302--1646353 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1646292 CAGGAAATTT
1646302 AATTAAAAATATAAAAA
1 AATTAAAAAT-TAAAAA
* *
1646319 TATT-AAACTTAATAAA
1 AATTAAAAATTAA-AAA
1646335 AATTAAAAATTAAAAA
1 AATTAAAAATTAAAAA
1646351 AAT
1 AAT
1646354 AATAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 3 0.10
16 16 0.55
17 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAAAAATTAAAAA
Found at i:1646335 original size:18 final size:18
Alignment explanation
Indices: 1646312--1646354 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
1646302 AATTAAAAAT
* *
1646312 ATAAAAATATTAAACTTA
1 ATAAAAATATAAAAATTA
1646330 ATAAAAAT-TAAAAATTA
1 ATAAAAATATAAAAATTA
1646347 A-AAAAATA
1 ATAAAAATA
1646355 ATAATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAAATATAAAAATTA
Done.