Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 43
Found at i:4933360 original size:22 final size:22
Alignment explanation
Indices: 4933223--4933389 Score: 80
Period size: 22 Copynumber: 7.6 Consensus size: 22
4933213 TAATTTTAGC
* *
4933223 ATTTTTTTATTTTAGTTA-TTC
1 ATTTTTTTATTTTATTTATTTA
**
4933244 ATTTTTTCCTTTTA---ATTTCA
1 ATTTTTTTATTTTATTTATTT-A
* *
4933264 ATATTTTTATTTGT-TTTATTTT
1 ATTTTTTTATTT-TATTTATTTA
*
4933286 ATTTTTTTACTTCTTATTATTTTTA
1 ATTTTTTTA-TT-TTATT-TATTTA
* **
4933311 A-TTTATTACTTTTA-AAATTTA
1 ATTTTTTTA-TTTTATTTATTTA
*
4933332 AGATTTTTTATTTTATTTAATTT-
1 A-TTTTTTTATTTTATTT-ATTTA
**
4933355 ATTTTTTCCTTTTATTTATTTA
1 ATTTTTTTATTTTATTTATTTA
*
4933377 ATATTTTTATTTT
1 ATTTTTTTATTTT
4933390 TATCTTTTTT
Statistics
Matches: 108, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 9 0.08
21 22 0.20
22 36 0.33
23 17 0.16
24 16 0.15
25 5 0.05
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (22 bp):
ATTTTTTTATTTTATTTATTTA
Found at i:4934540 original size:29 final size:29
Alignment explanation
Indices: 4934501--4934570 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
4934491 TTAAATTATT
* * *
4934501 AAATCTATTTTGTTCTTGTCTTAACCTAA
1 AAATATATTTTATTCTTATCTTAACCTAA
* * *
4934530 AAATATATTTTATTTTTATTTTAACTTAA
1 AAATATATTTTATTCTTATCTTAACCTAA
4934559 AAATATATTTTA
1 AAATATATTTTA
4934571 GTTTGATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (29 bp):
AAATATATTTTATTCTTATCTTAACCTAA
Found at i:4934593 original size:31 final size:29
Alignment explanation
Indices: 4934521--4934596 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
4934511 TGTTCTTGTC
* * * *
4934521 TTAACCTAAAAATATATTTTATTTTTATT
1 TTAACTTAAAAATATATTTTAGTTTGATA
4934550 TTAACTTAAAAATATATTTTAGTTTGATA
1 TTAACTTAAAAATATATTTTAGTTTGATA
4934579 TTAACTTTTAAAAATATA
1 TTAAC--TTAAAAATATA
4934597 AAATACTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 30 0.73
31 11 0.27
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTAGTTTGATA
Found at i:4934594 original size:60 final size:60
Alignment explanation
Indices: 4934457--4934616 Score: 157
Period size: 60 Copynumber: 2.6 Consensus size: 60
4934447 TTAAATTCAC
* * * *
4934457 ATATTAACATTAAAAATATTTTTTTATTTTTATTTTAAATTATTAAATCTATTTTGTTCTTG
1 ATATTAAC-TTAAAAATA-TATTTTATTTTTATTTTAACTTATAAAATATATTTTGTTCTTG
* *
4934519 -TCTTAACCTAAAAATATATTTTATTTTTATTTTAACTTA-AAAATATATTTTAG-T-TTG
1 ATATTAACTTAAAAATATATTTTATTTTTATTTTAACTTATAAAATATATTTT-GTTCTTG
*** *
4934576 ATATTAACTTTTAAAAATATAAAATACTTTTATTTTAACTT
1 ATATTAAC--TTAAAAATATATTTTATTTTTATTTTAACTT
4934617 GTTACGTATA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
57 3 0.04
58 17 0.21
59 22 0.27
60 34 0.41
61 6 0.07
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (60 bp):
ATATTAACTTAAAAATATATTTTATTTTTATTTTAACTTATAAAATATATTTTGTTCTTG
Found at i:4934614 original size:31 final size:31
Alignment explanation
Indices: 4934543--4934616 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
4934533 TATATTTTAT
*** *
4934543 TTTTATTTTAAC--TTAAAAATATATTTTAG
1 TTTTATTTTAACTTTTAAAAATATAAAATAC
* *
4934572 TTTGATATTAACTTTTAAAAATATAAAATAC
1 TTTTATTTTAACTTTTAAAAATATAAAATAC
4934603 TTTTATTTTAACTT
1 TTTTATTTTAACTT
4934617 GTTACGTATA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 10 0.29
31 25 0.71
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTTATTTTAACTTTTAAAAATATAAAATAC
Found at i:4934657 original size:30 final size:30
Alignment explanation
Indices: 4934623--4934684 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
4934613 ACTTGTTACG
* * *
4934623 TATATTCTATTATTAACTTAAATTATTAAA
1 TATATTCTAGTATTAACTTAAAGTATCAAA
* *
4934653 TATATTCTAGTCTTACCTTAAAGTATCAAA
1 TATATTCTAGTATTAACTTAAAGTATCAAA
4934683 TA
1 TA
4934685 AAATTTACTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.45
Consensus pattern (30 bp):
TATATTCTAGTATTAACTTAAAGTATCAAA
Found at i:4934759 original size:29 final size:29
Alignment explanation
Indices: 4934688--4934772 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
4934678 TCAAATAAAA
* *
4934688 TTTACTTTTATTTAAACATAAAAT-T-TAT
1 TTTA-TTTTATTTTAACTTAAAATATATAT
4934716 TTTATTCTTATTTTTAACTTAAAATATATAT
1 TTTATT-TTA-TTTTAACTTAAAATATATAT
*
4934747 TTTATTTTATTTTAA-TTCAAATATAT
1 TTTATTTTATTTTAACTTAAAATATAT
4934773 TTTAAAGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
27 2 0.04
28 17 0.34
29 18 0.36
30 4 0.08
31 9 0.18
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTATTTTATTTTAACTTAAAATATATAT
Found at i:4934805 original size:31 final size:30
Alignment explanation
Indices: 4934765--4934867 Score: 95
Period size: 31 Copynumber: 3.4 Consensus size: 30
4934755 ATTTTAATTC
4934765 AAATATATTTTAAAGTTAAAATAAAAATAA
1 AAATATATTTTAAAGTTAAAATAAAAATAA
* * *
4934795 AATATATATTTGT-AGGTTAAAACAAGAAT-A
1 AA-ATATATTT-TAAAGTTAAAATAAAAATAA
* * * *
4934825 AAATAGATTTAATAATTTAACATAAAAATAA
1 AAATATATTTTA-AAGTTAAAATAAAAATAA
4934856 AAATAT-TTTTAA
1 AAATATATTTTAA
4934868 TATTAATATG
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
29 8 0.14
30 20 0.36
31 27 0.48
32 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (30 bp):
AAATATATTTTAAAGTTAAAATAAAAATAA
Found at i:4935915 original size:20 final size:20
Alignment explanation
Indices: 4935871--4935918 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4935861 TAAAATAAAA
4935871 ATTATTATTATTAGTTATAT
1 ATTATTATTATTAGTTATAT
* *
4935891 TTTATTATTATTATTTA-AGT
1 ATTATTATTATTAGTTATA-T
4935911 ATTATTAT
1 ATTATTAT
4935919 ATTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTATTATTATTAGTTATAT
Found at i:4937403 original size:19 final size:19
Alignment explanation
Indices: 4937379--4937415 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4937369 AGCAACCCTT
4937379 TTGATTTTCCCTAAACAAA
1 TTGATTTTCCCTAAACAAA
*
4937398 TTGATTTTTCCTAAACAA
1 TTGATTTTCCCTAAACAA
4937416 CTATGTTCAG
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:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (19 bp):
TTGATTTTCCCTAAACAAA
Found at i:4938561 original size:21 final size:21
Alignment explanation
Indices: 4938537--4938614 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
4938527 TTAAGGGAAT
4938537 GGATCAATCCTTTTCCTCGAG
1 GGATCAATCCTTTTCCTCGAG
* **
4938558 GGATCGATCCTTTTGGT-GAAG
1 GGATCAATCCTTTTCCTCG-AG
* *
4938579 GGATCGATCCTTTTTCCTCGGG
1 GGATCAATCC-TTTTCCTCGAG
*
4938601 GGATCAACCCTTTT
1 GGATCAATCCTTTT
4938615 TGTAGAGGGA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 30 0.65
22 14 0.30
23 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (21 bp):
GGATCAATCCTTTTCCTCGAG
Found at i:4938565 original size:42 final size:43
Alignment explanation
Indices: 4938514--4938605 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
4938504 GTTGTAACAA
*
4938514 AGGGATCGATCCTTTAAGG-GAATGGATCAATCC-TTTTCCTCG
1 AGGGATCGATCCTTT-AGGTGAAGGGATCAATCCTTTTTCCTCG
* *
4938556 AGGGATCGATCCTTTTGGTGAAGGGATCGATCCTTTTTCCTCG
1 AGGGATCGATCCTTTAGGTGAAGGGATCAATCCTTTTTCCTCG
*
4938599 GGGGATC
1 AGGGATC
4938606 AACCCTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 27 0.61
43 15 0.34
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.32
Consensus pattern (43 bp):
AGGGATCGATCCTTTAGGTGAAGGGATCAATCCTTTTTCCTCG
Found at i:4938613 original size:43 final size:42
Alignment explanation
Indices: 4938537--4938631 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
4938527 TTAAGGGAAT
* * *
4938537 GGATCAATCCTTTTCCTCGAGGGATCGATCCTTTTGGT-GAAG
1 GGATCGATCCTTTTCCTCGAGGGATCAACCCTTTTGGTAG-AG
* *
4938579 GGATCGATCCTTTTTCCTCGGGGGATCAACCCTTTTTGTAGAG
1 GGATCGATCC-TTTTCCTCGAGGGATCAACCCTTTTGGTAGAG
*
4938622 GGAACGATCC
1 GGATCGATCC
4938632 CAAAATCACC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 9 0.20
43 35 0.78
44 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (42 bp):
GGATCGATCCTTTTCCTCGAGGGATCAACCCTTTTGGTAGAG
Found at i:4938675 original size:20 final size:20
Alignment explanation
Indices: 4938645--4938724 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
4938635 AATCACCGGA
4938645 TCCAA-GGGATCAATCATTT
1 TCCAAGGGGATCAATCATTT
*
4938664 TCCAAGGGGATCAATCCTTT
1 TCCAAGGGGATCAATCATTT
* *
4938684 GGT-CAAAGGGATCAATCCTTT
1 --TCCAAGGGGATCAATCATTT
* *
4938705 TGCTAGGGGATCAATCATTT
1 TCCAAGGGGATCAATCATTT
4938725 GAGCCAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.12
20 28 0.54
21 17 0.33
22 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (20 bp):
TCCAAGGGGATCAATCATTT
Found at i:4938713 original size:41 final size:41
Alignment explanation
Indices: 4938648--4938725 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
4938638 CACCGGATCC
*
4938648 AAGGGATCAATCATTTTCCAAGGGGATCAATCCTTTGGTCA
1 AAGGGATCAATCATTTTCCAAGGGGATCAATCATTTGGTCA
* * *
4938689 AAGGGATCAATCCTTTTGCTAGGGGATCAATCATTTG
1 AAGGGATCAATCATTTTCCAAGGGGATCAATCATTTG
4938726 AGCCAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (41 bp):
AAGGGATCAATCATTTTCCAAGGGGATCAATCATTTGGTCA
Found at i:4940921 original size:37 final size:36
Alignment explanation
Indices: 4940849--4940922 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
4940839 GTTGAAAAAT
*
4940849 ATTTATATATTTTCTTTAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
* *
4940885 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATT-AAAATCATAAA
4940922 A
1 A
4940923 AAGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 8 0.24
37 21 0.64
38 4 0.12
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAAATTAAAATCATAAA
Found at i:4942844 original size:14 final size:14
Alignment explanation
Indices: 4942815--4942865 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
4942805 GGTCGGTGTT
4942815 GTCGGAGTTCCGGTC
1 GTCGGAGTT-CGGTC
4942830 GTCGGAGTTCGGTC
1 GTCGGAGTTCGGTC
4942844 GTCGGAGTTCGGTC
1 GTCGGAGTTCGGTC
4942858 GTCGGAGT
1 GTCGGAGT
4942866 AGAACTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 27 0.75
15 9 0.25
ACGTcount: A:0.08, C:0.22, G:0.43, T:0.27
Consensus pattern (14 bp):
GTCGGAGTTCGGTC
Found at i:4945005 original size:21 final size:21
Alignment explanation
Indices: 4944979--4945040 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
4944969 CGCAATTCAG
4944979 TTTCCAAATTCGCGTTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
*
4945000 TTTCC-ATTTCGCGTTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
** *
4945020 AGTCCAAATTCGCATTGCGAT
1 TTTCCAAATTCGCGTTGCGAT
4945041 ATCGCAACGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (21 bp):
TTTCCAAATTCGCGTTGCGAT
Found at i:4945041 original size:21 final size:21
Alignment explanation
Indices: 4944981--4945041 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
4944971 CAATTCAGTT
**
4944981 TCCAAATTCGCGTTGCGATTT
1 TCCAAATTCGCGTTGCGATAG
*
4945002 TCC-ATTTCGCGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
*
4945022 TCCAAATTCGCATTGCGATA
1 TCCAAATTCGCGTTGCGATA
4945042 TCGCAACGCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.50
21 17 0.50
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (21 bp):
TCCAAATTCGCGTTGCGATAG
Found at i:4945100 original size:21 final size:21
Alignment explanation
Indices: 4945074--4945113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4945064 CAACTCAGTT
* *
4945074 TCCAAATTCGCGTTGCAATAG
1 TCCAAAATCGCATTGCAATAG
4945095 TCCAAAATCGCATTGCAAT
1 TCCAAAATCGCATTGCAAT
4945114 TTTCCATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
TCCAAAATCGCATTGCAATAG
Found at i:4945119 original size:21 final size:21
Alignment explanation
Indices: 4945072--4945119 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4945062 CGCAACTCAG
* *
4945072 TTTCCAAATTCGCGTTGCAAT
1 TTTCCAAAATCGCATTGCAAT
**
4945093 AGTCCAAAATCGCATTGCAAT
1 TTTCCAAAATCGCATTGCAAT
4945114 TTTCCA
1 TTTCCA
4945120 TTGCATTTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (21 bp):
TTTCCAAAATCGCATTGCAAT
Found at i:4946251 original size:21 final size:20
Alignment explanation
Indices: 4946227--4946291 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
4946217 CCAGTCGCGT
4946227 TGCGAAATGGAAAAATCGCAA
1 TGCGAAATGG-AAAATCGCAA
* **
4946248 TGCGAATTTGGACTATCGCAA
1 TGCGAA-ATGGAAAATCGCAA
* *
4946269 CGCGCAATGGAAAATCGCAA
1 TGCGAAATGGAAAATCGCAA
4946289 TGC
1 TGC
4946292 AATTTTGGAC
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
20 13 0.38
21 18 0.53
22 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (20 bp):
TGCGAAATGGAAAATCGCAA
Found at i:4946361 original size:21 final size:21
Alignment explanation
Indices: 4946241--4946363 Score: 153
Period size: 21 Copynumber: 5.9 Consensus size: 21
4946231 AAATGGAAAA
4946241 ATCGCAATGCGAATTTGGACT
1 ATCGCAATGCGAATTTGGACT
* **
4946262 ATCGCAACGCGCAA--TGGAAA
1 ATCGCAATGCG-AATTTGGACT
4946282 ATCGCAATGC-AATTTTGGACT
1 ATCGCAATGCGAA-TTTGGACT
*
4946303 ATCGCAATGCGATTTTGGACT
1 ATCGCAATGCGAATTTGGACT
*
4946324 ATCGCAATGCGATTTTGGACT
1 ATCGCAATGCGAATTTGGACT
*
4946345 ATCGCAACGCGAATTTGGA
1 ATCGCAATGCGAATTTGGA
4946364 AATTGAGTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
18 2 0.02
20 13 0.15
21 70 0.80
22 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (21 bp):
ATCGCAATGCGAATTTGGACT
Found at i:4946362 original size:42 final size:42
Alignment explanation
Indices: 4946238--4946365 Score: 179
Period size: 42 Copynumber: 3.1 Consensus size: 42
4946228 GCGAAATGGA
*
4946238 AAAATCGCAATGCGAATTTGGACTATCGCAACGCGCAA--TGG
1 AAAATCGCAATGCGATTTTGGACTATCGCAACGCG-AATTTGG
* * *
4946279 AAAATCGCAATGCAATTTTGGACTATCGCAATGCGATTTTGG
1 AAAATCGCAATGCGATTTTGGACTATCGCAACGCGAATTTGG
**
4946321 ACTATCGCAATGCGATTTTGGACTATCGCAACGCGAATTTGG
1 AAAATCGCAATGCGATTTTGGACTATCGCAACGCGAATTTGG
4946363 AAA
1 AAA
4946366 TTGAGTTGCG
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
40 1 0.01
41 32 0.43
42 41 0.55
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (42 bp):
AAAATCGCAATGCGATTTTGGACTATCGCAACGCGAATTTGG
Found at i:4948719 original size:17 final size:17
Alignment explanation
Indices: 4948688--4948721 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4948678 CGTCGAAAAA
*
4948688 CATAAAATATGACTTTT
1 CATAAAATATAACTTTT
*
4948705 CATAAAATTTAACTTTT
1 CATAAAATATAACTTTT
4948722 TGGTCAAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.03, T:0.44
Consensus pattern (17 bp):
CATAAAATATAACTTTT
Found at i:4950863 original size:63 final size:62
Alignment explanation
Indices: 4950793--4950946 Score: 179
Period size: 63 Copynumber: 2.4 Consensus size: 62
4950783 TGAAGGTCCT
* * * *
4950793 TCGATGCATATGAAGTGCATCGATGCATTAAT-T-TAAATACAAACATCGAATGTCGTCGGTGCA
1 TCGATGCATA-GGAGTGCATCGATGCATT-ATCTATAAA-ACAAACATCGAATGCCCTCAGTGCA
**
4950856 TCGATGCATAAGGAGTGCATCGATGCA-TATCTAATAAAATGAACATCGAATGCCCTCAGTGCA
1 TCGATGCAT-AGGAGTGCATCGATGCATTATCT-ATAAAACAAACATCGAATGCCCTCAGTGCA
4950919 TCGATGCATCAGGAGTGCATCGATGCAT
1 TCGATGCAT-AGGAGTGCATCGATGCAT
4950947 GCCTCTATTA
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
61 2 0.03
62 2 0.03
63 70 0.89
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
TCGATGCATAGGAGTGCATCGATGCATTATCTATAAAACAAACATCGAATGCCCTCAGTGCA
Found at i:4951867 original size:23 final size:23
Alignment explanation
Indices: 4951833--4951878 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4951823 CATTATTATA
*
4951833 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
4951856 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
4951879 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:4951886 original size:149 final size:149
Alignment explanation
Indices: 4951401--4951855 Score: 874
Period size: 149 Copynumber: 3.0 Consensus size: 149
4951391 GGGTAGAGGG
4951401 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
1 TCTACGCGGTCCTTCGGG--ATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACAC
4951466 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
4951531 TATATGGCACTACGGTGCAAT
129 TATATGGCACTACGGTGCAAT
*
4951552 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGAAACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
4951617 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
4951682 TAAGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
4951701 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
4951766 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
4951831 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
4951850 TCTACG
1 TCTACG
4951856 TGGCACTTCG
Statistics
Matches: 300, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
149 282 0.94
151 18 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:4957999 original size:19 final size:20
Alignment explanation
Indices: 4957970--4958007 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
4957960 ATAAATTTGT
4957970 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
4957990 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
4958008 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:4958050 original size:63 final size:62
Alignment explanation
Indices: 4957975--4958133 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 62
4957965 TTTGTTGAAG
* * * *
4957975 GTGCATCGATGCATATGAAGTGCATCGATGCATTAAT-TTAAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAA-ACAAACATCGAATGCCCTCA
** **
4958038 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
4958101 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
4958134 GCCTCTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
63 80 0.94
64 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:4959046 original size:147 final size:147
Alignment explanation
Indices: 4958589--4959035 Score: 831
Period size: 147 Copynumber: 3.0 Consensus size: 147
4958579 GGGTAGAGGG
*
4958589 TCTACGCGGTCCTTCGGGATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACATAC
1 TCTACGCGGTCCTTCGGGATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATAC
4958654 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
4958719 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
*
4958736 TCTACGCGGTCCTTCGGGATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGAAACATAC
1 TCTACGCGGTCCTTCGGGATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATAC
*
4958801 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATTGACATTATTATA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
* *
4958866 AGGCATTACGGTGCAAT
131 TGGCACTACGGTGCAAT
* *
4958883 TCTACGCGGTCCTTCGGAATATATATATTCTGTGGAACATGTGTGAAGTCTCGTAAGACACATAC
1 TCTACGCGGTCCTTCGGGATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATAC
4958948 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
4959013 TGGCACTACGGTGCAAT
131 TGGCACTACGGTGCAAT
4959030 TCTACG
1 TCTACG
4959036 TGGCACTTCG
Statistics
Matches: 289, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
147 289 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (147 bp):
TCTACGCGGTCCTTCGGGATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTATA
TGGCACTACGGTGCAAT
Found at i:4959047 original size:23 final size:23
Alignment explanation
Indices: 4959013--4959058 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
4959003 CATTATTATA
*
4959013 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
4959036 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
4959059 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:4960305 original size:84 final size:84
Alignment explanation
Indices: 4960146--4960382 Score: 298
Period size: 84 Copynumber: 2.8 Consensus size: 84
4960136 AACTATTACG
* ** * *
4960146 AAAATAACACCTTTTTTAAAATAATTCCTAAAATA--ACATTTTTTTCAAAATAATTCCCAAAAT
1 AAAATATCACCTTTTTCGAAATAATTCCCAAAATATCACATTTTTGT---AATAATTCCCAAAAT
4960209 ATCACTTTTCAAAATAATTCCC
63 ATCACTTTTCAAAATAATTCCC
*
4960231 AAAATATCACCTTTTTCGAAATAATTCCCAAAATATCACATTTTTGTAATAATTCCCAGAATATC
1 AAAATATCACCTTTTTCGAAATAATTCCCAAAATATCACATTTTTGTAATAATTCCCAAAATATC
*
4960296 ATTTTTCAAAATAATTCCC
66 ACTTTTCAAAATAATTCCC
* ** * * * *
4960315 AAAATATCACCTTTTTCGGAATAATTTTCAAAATATCATCGTCTTCGAAATAATTCCCAAAATAT
1 AAAATATCACCTTTTTCGAAATAATTCCCAAAATATCA-CATTTTTGTAATAATTCCCAAAATAT
4960380 CAC
65 CAC
4960383 CGGATCGGGT
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
84 70 0.53
85 54 0.41
87 9 0.07
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (84 bp):
AAAATATCACCTTTTTCGAAATAATTCCCAAAATATCACATTTTTGTAATAATTCCCAAAATATC
ACTTTTCAAAATAATTCCC
Found at i:4960379 original size:29 final size:29
Alignment explanation
Indices: 4960146--4960381 Score: 250
Period size: 29 Copynumber: 8.3 Consensus size: 29
4960136 AACTATTACG
* * ** *
4960146 AAAATAACACCTTTTTTAAAATAATTCCT
1 AAAATATCATCTTTTTCGAAATAATTCCC
* * *
4960175 AAAATAACATTTTTTTCAAAATAATTCCC
1 AAAATATCATCTTTTTCGAAATAATTCCC
*
4960204 AAAATATCA-C-TTTTCAAAATAATTCCC
1 AAAATATCATCTTTTTCGAAATAATTCCC
*
4960231 AAAATATCACCTTTTTCGAAATAATTCCC
1 AAAATATCATCTTTTTCGAAATAATTCCC
*
4960260 AAAATATCA-CATTTTT-GTAATAATTCCC
1 AAAATATCATC-TTTTTCGAAATAATTCCC
* *
4960288 AGAATATCA--TTTTTCAAAATAATTCCC
1 AAAATATCATCTTTTTCGAAATAATTCCC
* * **
4960315 AAAATATCACCTTTTTCGGAATAATTTTC
1 AAAATATCATCTTTTTCGAAATAATTCCC
* *
4960344 AAAATATCATCGTCTTCGAAATAATTCCC
1 AAAATATCATCTTTTTCGAAATAATTCCC
4960373 AAAATATCA
1 AAAATATCA
4960382 CCGGATCGGG
Statistics
Matches: 179, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.03
27 44 0.25
28 21 0.12
29 109 0.61
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATATCATCTTTTTCGAAATAATTCCC
Found at i:4967952 original size:84 final size:84
Alignment explanation
Indices: 4967853--4968089 Score: 316
Period size: 84 Copynumber: 2.8 Consensus size: 84
4967843 AACTATTACG
* ** * **
4967853 AAAATAACACCTTTTTTAAAATAATTCCTAAAATAACATTTTTTTGAAATAATTCCCAAAATATC
1 AAAATATCACCTTTTTCGAAATAATTCCTAAAATATCACCTTTTTGAAATAATTCCCAAAATATC
*
4967918 ACTTTTCGAAATAATTCTC
66 ACTTTTCGAAATAATTCCC
* *
4967937 AAAATATCACTTTTTTCGAAATAATTCC-AAAATATCACCTTTTTCATAATAATTCCCAAAATAT
1 AAAATATCACCTTTTTCGAAATAATTCCTAAAATATCACCTTTTTGA-AATAATTCCCAAAATAT
* *
4968001 CATTTTTTGAAATAATTCCC
65 CACTTTTCGAAATAATTCCC
* *
4968021 AAAATATCACCTTTTTCGAAATAATT-CTCAAAATATCACCGTCTTCGAAATAATTCCCAAAATA
1 AAAATATCACCTTTTTCGAAATAATTCCT-AAAATATCACC-TTTTTGAAATAATTCCCAAAATA
4968085 TCACT
64 TCACT
4968090 GGGTCGGGTC
Statistics
Matches: 133, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
83 15 0.11
84 83 0.62
85 31 0.23
86 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.37
Consensus pattern (84 bp):
AAAATATCACCTTTTTCGAAATAATTCCTAAAATATCACCTTTTTGAAATAATTCCCAAAATATC
ACTTTTCGAAATAATTCCC
Found at i:4967959 original size:56 final size:57
Alignment explanation
Indices: 4967853--4968088 Score: 313
Period size: 56 Copynumber: 4.2 Consensus size: 57
4967843 AACTATTACG
* ** * *
4967853 AAAATAACACCTTTTTTAAAATAATTC-CTAAAATAACATTTTTTTGAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCTC-AAAATATCATTTTTTCGAAATAATTCCC
4967910 AAAATATCA-C-TTTTCGAAATAATTCTCAAAATATCACTTTTTTCGAAATAATT-CC
1 AAAATATCACCTTTTTCGAAATAATTCTCAAAATATCA-TTTTTTCGAAATAATTCCC
*
4967965 AAAATATCACCTTTTTC-ATAATAATTCCCAAAATATCATTTTTT-GAAATAATTCCC
1 AAAATATCACCTTTTTCGA-AATAATTCTCAAAATATCATTTTTTCGAAATAATTCCC
** *
4968021 AAAATATCACCTTTTTCGAAATAATTCTCAAAATATCACCGTCTTCGAAATAATTCCC
1 AAAATATCACCTTTTTCGAAATAATTCTCAAAATATCA-TTTTTTCGAAATAATTCCC
4968079 AAAATATCAC
1 AAAATATCAC
4968089 TGGGTCGGGT
Statistics
Matches: 160, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
55 41 0.26
56 62 0.39
57 35 0.22
58 22 0.14
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (57 bp):
AAAATATCACCTTTTTCGAAATAATTCTCAAAATATCATTTTTTCGAAATAATTCCC
Found at i:4968036 original size:29 final size:29
Alignment explanation
Indices: 4967853--4968088 Score: 281
Period size: 29 Copynumber: 8.3 Consensus size: 29
4967843 AACTATTACG
* * *
4967853 AAAATAACACCTTTTTTAAAATAATTCCT
1 AAAATATCACCTTTTTTGAAATAATTCCC
* *
4967882 AAAATAACA-TTTTTTTGAAATAATTCCC
1 AAAATATCACCTTTTTTGAAATAATTCCC
* *
4967910 AAAATATCA-C-TTTTCGAAATAATTCTC
1 AAAATATCACCTTTTTTGAAATAATTCCC
4967937 AAAATATCA-CTTTTTTCGAAATAATT-CC
1 AAAATATCACCTTTTTT-GAAATAATTCCC
*
4967965 AAAATATCACC-TTTTTCATAATAATTCCC
1 AAAATATCACCTTTTTTGA-AATAATTCCC
4967994 AAAATATCA--TTTTTTGAAATAATTCCC
1 AAAATATCACCTTTTTTGAAATAATTCCC
* *
4968021 AAAATATCACCTTTTTCGAAATAATTCTC
1 AAAATATCACCTTTTTTGAAATAATTCCC
* * *
4968050 AAAATATCACCGTCTTCGAAATAATTCCC
1 AAAATATCACCTTTTTTGAAATAATTCCC
4968079 AAAATATCAC
1 AAAATATCAC
4968089 TGGGTCGGGT
Statistics
Matches: 183, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
27 45 0.25
28 56 0.31
29 82 0.45
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATATCACCTTTTTTGAAATAATTCCC
Found at i:4972963 original size:139 final size:138
Alignment explanation
Indices: 4972615--4973162 Score: 670
Period size: 138 Copynumber: 4.0 Consensus size: 138
4972605 TAGGCAAATT
* ** * * * *
4972615 TGGAGATAACACGGTTCCTACTTGATGAGAAAATCTGGTTATCTAAAGG-TGAAGCTG-CTCCTA
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTCTGGCTATCT-AAGGATGACG-TGACTCCTA
* * **
4972678 CGTGATGAAGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTAACCATCTT
64 CGTGATGAGGAGATCTGGTCGGTGGATAACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTT
* *
4972743 TAAGGATAAA
129 TAGGGGTAAA
* * * * **
4972753 TTGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATAATGTTTCTCCTACG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACGTGACTCCTACG
* ** * *
4972818 TGATGAGGAGATCTGATCGGTGGATGGCATTATTTCTACGTGATGAGGACGTCTGGCCATCTTTA
66 TGATGAGGAGATCTGGTCGGTGGATAACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
4972883 GGGGGTAAA
131 -GGGGTAAA
* *
4972892 TGGAGATAACACGATTCCTACACGATGAGGAAGTCTGGCTATCTAAGGATGACGTGACTCCTCCG
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACGTGACTCCTACG
* * * **
4972957 TAATGAGGAGATCTGGTCGGTGGATAACACTGTTCTTACGTGATGAGGACGTCTGGTTATCTTTA
66 TGATGAGGAGATCTGGTCGGTGGATAACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
*
4973022 GAGGT-AA
131 GGGGTAAA
* * * * **
4973029 TGGAGATAACACGATTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATTACGCGACCCCTATA
1 TGGAGATAACACGATTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACGTGACTCCTACG
* * *
4973094 TGATGAGGAGATCTGGTTCAGTGGATAACATGGTTCCTACGTGATGATGACGTCTGGCCATCTTT
66 TGATGAGGAGATCTGG-TCGGTGGATAACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTT
4973159 AGGG
130 AGGG
4973163 ATAATTTATT
Statistics
Matches: 352, Mismatches: 54, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
137 79 0.22
138 155 0.44
139 118 0.34
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (138 bp):
TGGAGATAACACGATTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACGTGACTCCTACG
TGATGAGGAGATCTGGTCGGTGGATAACATTGTTCCTACGTGATGAGGACGTCTGGCCATCTTTA
GGGGTAAA
Found at i:4973136 original size:277 final size:277
Alignment explanation
Indices: 4972615--4973162 Score: 708
Period size: 277 Copynumber: 2.0 Consensus size: 277
4972605 TAGGCAAATT
* ** *
4972615 TGGAGATAACACGGTTCCTACTTGATGAGAAAATCTGGTTATCTAAAGGTGAAGCTGCTCCTACG
1 TGGAGATAACACGATTCCTACACGATGAGAAAATCTGGCTATCTAAAGGTGAAGCTGCTCCTACG
* * *
4972680 TGATGAAGAGATCTGGTCGGTGGATGACATTGTTCCTACGTGATGAGGACGTCTAACCATCTTTA
66 TAATGAAGAGATCTGGTCGGTGGATAACACTGTTCCTACGTGATGAGGACGTCTAACCATCTTTA
* ** * ***
4972745 AGGATAAATTGAGATAACACGATTCCTACGTGATGAGGAAGTCTGGCTATCTAAGGATAATGTTT
131 AGGATAAATGGAGATAACACGATTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATAACGCGA
* * * ** * *
4972810 CTCCTACGTGATGAGGAGATCTGATCGGTGGATGGCATTATTTCTACGTGATGAGGACGTCTGGC
196 CCCCTACATGATGAGGAGATCTGATCAGTGGATAACATGATTCCTACGTGATGAGGACGTCTGGC
4972875 CATCTTTAGGGGGTAAA
261 CATCTTTAGGGGGTAAA
* * * *
4972892 TGGAGATAACACGATTCCTACACGATGAGGAAGTCTGGCTATCT-AAGGATGACG-TGACTCCTC
1 TGGAGATAACACGATTCCTACACGATGAGAAAATCTGGCTATCTAAAGG-TGAAGCTG-CTCCTA
* * ****
4972955 CGTAATGAGGAGATCTGGTCGGTGGATAACACTGTTCTTACGTGATGAGGACGTCTGGTTATCTT
64 CGTAATGAAGAGATCTGGTCGGTGGATAACACTGTTCCTACGTGATGAGGACGTCTAACCATCTT
*
4973020 TAGAGG-T-AATGGAGATAACACGATTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATTACG
129 TA-AGGATAAATGGAGATAACACGATTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATAACG
* * * *
4973083 CGACCCCTATATGATGAGGAGATCTGGTTCAGTGGATAACATGGTTCCTACGTGATGATGACGTC
193 CGACCCCTACATGATGAGGAGATCT-GATCAGTGGATAACATGATTCCTACGTGATGAGGACGTC
4973148 TGGCCATCTTTAGGG
257 TGGCCATCTTTAGGG
4973163 ATAATTTATT
Statistics
Matches: 231, Mismatches: 36, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
276 76 0.33
277 152 0.66
278 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (277 bp):
TGGAGATAACACGATTCCTACACGATGAGAAAATCTGGCTATCTAAAGGTGAAGCTGCTCCTACG
TAATGAAGAGATCTGGTCGGTGGATAACACTGTTCCTACGTGATGAGGACGTCTAACCATCTTTA
AGGATAAATGGAGATAACACGATTCCTACGCAATGAGGAAGTCTGGCTATCTAAGGATAACGCGA
CCCCTACATGATGAGGAGATCTGATCAGTGGATAACATGATTCCTACGTGATGAGGACGTCTGGC
CATCTTTAGGGGGTAAA
Found at i:4973219 original size:37 final size:37
Alignment explanation
Indices: 4973171--4973257 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
4973161 GGATAATTTA
* * *
4973171 TTTCAATAGAAACTGTCTTAAGAGAGAAAAAATTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTTG
* **
4973208 TTTCAAGAGAAACTGTCTCAAGCGAGATGAAACTTTG
1 TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTTG
*
4973245 TTTCGAGAGAAAC
1 TTTCAAGAGAAAC
4973258 AATCTCAAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (37 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTTG
Found at i:4973339 original size:66 final size:67
Alignment explanation
Indices: 4973206--4973339 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 67
4973196 GAAAAAATTT
* * * *
4973206 TGTTTCAAGAGAAACTGTCTCAAGCGAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAACTTTGTTTCAAGAGAAACAATCTAAAAGGTT
4973271 TA
66 TA
* *
4973273 TGTTTCAAGAGAAATTGTCTCAAGAGATACGAAAC-TTGTTTCAAGAGAAACAATCTAAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAACTTTGTTTCAAGAGAAACAATCTAAAAGGTT
4973337 TA
66 TA
4973339 T
1 T
4973340 CAATTTTGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
66 30 0.49
67 31 0.51
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.29
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAACTTTGTTTCAAGAGAAACAATCTAAAAGGTT
TA
Found at i:4973414 original size:102 final size:103
Alignment explanation
Indices: 4973241--4973438 Score: 319
Period size: 102 Copynumber: 1.9 Consensus size: 103
4973231 GAGATGAAAC
* * * * *
4973241 TTTGTTTCGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAATTGTCTCAAGAGATACGAA
1 TTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
4973306 ACTTGTTTCAAGAGAAACAATCTAAAAGGTTTATCAAT
66 ACTTGTTTCAAGAGAAACAATCTAAAAGGTTTATCAAT
4973344 TTTGTTTCAAGTA-AAACAATCTCAAA-GTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAA
1 TTTGTTTCAAG-AGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAA
*
4973407 AACTTGTTTCAAGAGAAACAATCTCAAAGGTT
65 AACTTGTTTCAAGAGAAACAATCTAAAAGGTT
4973439 CGTGTCTTAA
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
102 64 0.73
103 23 0.26
104 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (103 bp):
TTTGTTTCAAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAA
ACTTGTTTCAAGAGAAACAATCTAAAAGGTTTATCAAT
Found at i:4973640 original size:168 final size:167
Alignment explanation
Indices: 4973341--4973650 Score: 426
Period size: 168 Copynumber: 1.9 Consensus size: 167
4973331 AAGGTTTATC
*
4973341 AATTTTGTTTCAAGTAAAACAATCTCAAAGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACA
1 AATTTTGTTTCAAGTAAAACAATCTCAAAATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACA
* * *
4973406 AAACTTGTTTCAAGAGAAACAATCTCAAAGGTTCGTGTCTTAAGGAAGACGGTCTCAAGTGAGAC
66 AAACTTGTTTCAAGAAAAACAATATCAAAGGTTCGTGTCTTAAGGAAGACGATCTCAAGTGAGAC
4973471 AAAATTTGTTTTTAAGAAAACTATCTCAAGTGAAATT
131 AAAATTTGTTTTTAAGAAAACTATCTCAAGTGAAATT
* * * * ** * *
4973508 AATTTTGTTTTAAGTGAAACAATTTCAAAATTTATGTTTTGAAGA-AATTTGTCTCAAGTGAGAC
1 AATTTTGTTTCAAGTAAAACAATCTCAAAATTTATG-TTTCAAGAGAAACTATCTCAAGAGAGAC
* * * *
4973572 AAAATTTGCTTT-GAGTAAAAACAATATCAAATGTTCGTGTCTTAAGGAAGACTATCTCAAGTGA
65 AAAACTTG-TTTCAAG-AAAAACAATATCAAAGGTTCGTGTCTTAAGGAAGACGATCTCAAGTGA
*
4973636 GACAAAGTTTGTTTT
128 GACAAAATTTGTTTT
4973651 GAGAAAAATT
Statistics
Matches: 123, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
167 56 0.46
168 67 0.54
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (167 bp):
AATTTTGTTTCAAGTAAAACAATCTCAAAATTTATGTTTCAAGAGAAACTATCTCAAGAGAGACA
AAACTTGTTTCAAGAAAAACAATATCAAAGGTTCGTGTCTTAAGGAAGACGATCTCAAGTGAGAC
AAAATTTGTTTTTAAGAAAACTATCTCAAGTGAAATT
Found at i:4978489 original size:24 final size:23
Alignment explanation
Indices: 4978430--4978494 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
4978420 CAGCTCGTAT
* *
4978430 AATTGCACCGAAGTGCCACATTG
1 AATTGCACCGGAGTGCCACATAG
* * *
4978453 AATTGCACTGGAGTGCCGCGTAG
1 AATTGCACCGGAGTGCCACATAG
4978476 AATTTGCACCGGAGTGCCA
1 AA-TTGCACCGGAGTGCCA
4978495 TATAATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.59
24 14 0.41
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGGAGTGCCACATAG
Found at i:4979193 original size:64 final size:66
Alignment explanation
Indices: 4979071--4979227 Score: 189
Period size: 64 Copynumber: 2.4 Consensus size: 66
4979061 CATTTTCATC
4979071 TTTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTT
1 TTTTAATGG-GG-ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTT
4979136 GTA
64 GTA
* * *
4979139 -TTTAATGGGGATGCATCGATGCACT-C-CTTATGCATCGATGCATTAATTGC-ATTCGATGTTT
1 TTTTAATGGGGATGCATCGATGCACTACAC-CATGCATCGATGCA-TAAATCCTATTCGATGTTT
4979200 GTA
64 GTA
** *
4979203 TTTTAAAAGAG-TGCATCGATGCACT
1 TTTTAATGGGGATGCATCGATGCACT
4979228 TCATGTGCAT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
63 1 0.01
64 42 0.52
65 27 0.34
66 2 0.03
67 8 0.10
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (66 bp):
TTTTAATGGGGATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGT
A
Found at i:4985408 original size:24 final size:23
Alignment explanation
Indices: 4985346--4985412 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
4985336 CACCACAGCT
* **
4985346 CGTATAATTGCACCAAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
*
4985369 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
4985392 CGTAGAATTTGCACCGGAGTG
1 CGTAGAA-TTGCACCGGAGTG
4985413 TCATATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:4986120 original size:45 final size:45
Alignment explanation
Indices: 4986025--4986127 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
4986015 GCACTACACC
** *
4986025 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAAAGAG
* *
4986070 ATGCATCGATGCATTAATTGC-ATTCGATGTTTGTATTTTAAAAGAG
1 ATGCATCGATGCA-TAAATCCTATTCGATGTTTGTA-TTTAAAAGAG
4986116 -TGCATCGATGCA
1 ATGCATCGATGCA
4986128 CTTCATGTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 39 0.76
46 12 0.24
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
ATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAAAGAG
Found at i:4990616 original size:2 final size:2
Alignment explanation
Indices: 4990609--4990634 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4990599 TAATAAAATA
4990609 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
4990635 TAATGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4992698 original size:3 final size:3
Alignment explanation
Indices: 4992692--4992764 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
4992682 TAATTATTAT
* * * *
4992692 TAA TAA TAA T-A TAA TAA TCA TAA TCA TAA TCA TAA TCA TAA TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
4992739 TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4992765 GTATAATATA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.09
3 52 0.90
4 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4992770 original size:6 final size:5
Alignment explanation
Indices: 4992692--4992778 Score: 53
Period size: 6 Copynumber: 17.4 Consensus size: 5
4992682 TAATTATTAT
4992692 TAATAA TAATA T-A-A TAATCA TAATCA TAATCA TAATCA TAATA -AATA
1 TAAT-A TAATA TAATA TAAT-A TAAT-A TAAT-A TAAT-A TAATA TAATA
*
4992739 T-A-A TAATAA TAATA TAATAA TAATA -AGTA TAATA T-ATA TA
1 TAATA TAAT-A TAATA TAAT-A TAATA TAATA TAATA TAATA TA
4992779 TTTTTAATCC
Statistics
Matches: 69, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
3 4 0.06
4 15 0.22
5 13 0.19
6 37 0.54
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:4993175 original size:3 final size:3
Alignment explanation
Indices: 4993167--4993216 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
4993157 TATTTTATTT
*
4993167 ATA ATA ATA ATA AGTA ATA ATA ATA ATT ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4993213 ATA A
1 ATA A
4993217 AATCCGAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4994628 original size:13 final size:13
Alignment explanation
Indices: 4994610--4994637 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4994600 ACATTCTTCA
4994610 AGTGGCAATTTTG
1 AGTGGCAATTTTG
4994623 AGTGGCAATTTTG
1 AGTGGCAATTTTG
4994636 AG
1 AG
4994638 CATCAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.36
Consensus pattern (13 bp):
AGTGGCAATTTTG
Found at i:5005683 original size:2 final size:2
Alignment explanation
Indices: 5005676--5005705 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
5005666 AAATAACATC
5005676 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
5005706 TCATAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5008184 original size:30 final size:30
Alignment explanation
Indices: 5008148--5008216 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
5008138 AACACTTAAT
* *
5008148 TTTTTAAAATTGTACATTTGGTCCCTAAAC
1 TTTTTAAAATTGCACATTTGGTCCCAAAAC
*
5008178 TTTTTAAAATTGCACTTTTGGTCCCAAAAC
1 TTTTTAAAATTGCACATTTGGTCCCAAAAC
5008208 TTTTCTAAA
1 TTTT-TAAA
5008217 CATTATATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (30 bp):
TTTTTAAAATTGCACATTTGGTCCCAAAAC
Found at i:5011470 original size:31 final size:31
Alignment explanation
Indices: 5011434--5011540 Score: 90
Period size: 31 Copynumber: 3.3 Consensus size: 31
5011424 TATTCATATC
5011434 TAATATTTAACGACTAATGACTTGCTTTTAATAA
1 TAATATTTAACGACTAATGACTTG-TTTT--TAA
* * *
5011468 TATTTTAATTTAACAACTAATGACTTATTTTTAA
1 TA--AT-ATTTAACGACTAATGACTTGTTTTTAA
* * *
5011502 TAATATTTAATGGA-TAATGGCATGTTTTTAA
1 TAATATTTAA-CGACTAATGACTTGTTTTTAA
5011533 TAATATTT
1 TAATATTT
5011541 TAATTTAGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
31 28 0.47
32 2 0.03
34 7 0.12
36 5 0.08
37 18 0.30
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (31 bp):
TAATATTTAACGACTAATGACTTGTTTTTAA
Found at i:5011488 original size:37 final size:37
Alignment explanation
Indices: 5011438--5011509 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
5011428 CATATCTAAT
* *
5011438 ATTTAACGACTAATGACTTGCTTTTAATAATATTTTA
1 ATTTAACAACTAATGACTTACTTTTAATAATATTTTA
*
5011475 ATTTAACAACTAATGACTTATTTTTAATAATATTT
1 ATTTAACAACTAATGACTTACTTTTAATAATATTT
5011510 AATGGATAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (37 bp):
ATTTAACAACTAATGACTTACTTTTAATAATATTTTA
Found at i:5012172 original size:60 final size:60
Alignment explanation
Indices: 5012045--5012172 Score: 145
Period size: 60 Copynumber: 2.1 Consensus size: 60
5012035 AATAGTTGGT
*
5012045 GACCATTTTGTAACTTTTAATAGTCGAAGAACTCAACAAAGCAACATCCTATAGTCAGGA
1 GACCATTTTGTAACTTTTAATAGTCGAAGAACTCAACAAAACAACATCCTATAGTCAGGA
* * * * * *
5012105 GATCATTTTGTAACTTTTGATAGTTG-GGAGACTTAACAAAACAATA-CCATATAGTC-GAGA
1 GACCATTTTGTAACTTTTAATAGTCGAAGA-ACTCAACAAAACAACATCC-TATAGTCAG-GA
5012165 GACCATTT
1 GACCATTT
5012173 GTACTTAACC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
59 5 0.09
60 52 0.91
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCGAAGAACTCAACAAAACAACATCCTATAGTCAGGA
Found at i:5018599 original size:37 final size:37
Alignment explanation
Indices: 5018549--5018623 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
5018539 CACTTTTATC
5018549 ATCTTCCAATTTCGGTTAAAAACTTCAGATTTTGTGT
1 ATCTTCCAATTTCGGTTAAAAACTTCAGATTTTGTGT
*
5018586 ATCTTCCAATTTCGGTTAAAAACTTTAGATTTTGTGT
1 ATCTTCCAATTTCGGTTAAAAACTTCAGATTTTGTGT
5018623 A
1 A
5018624 ACAACCCGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (37 bp):
ATCTTCCAATTTCGGTTAAAAACTTCAGATTTTGTGT
Found at i:5019395 original size:13 final size:13
Alignment explanation
Indices: 5019373--5019430 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
5019363 ACCGGTCACG
*
5019373 ACCCGGCCCGTTA
1 ACCCGACCCGTTA
5019386 ACCCGACCCGTTA
1 ACCCGACCCGTTA
5019399 ACCCGACCCG---
1 ACCCGACCCGTTA
*
5019409 ACCCGACCCGTTG
1 ACCCGACCCGTTA
5019422 A-CCGACCCG
1 ACCCGACCCG
5019431 ACCCGTTGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
10 10 0.24
12 8 0.20
13 23 0.56
ACGTcount: A:0.19, C:0.50, G:0.21, T:0.10
Consensus pattern (13 bp):
ACCCGACCCGTTA
Found at i:5019407 original size:18 final size:17
Alignment explanation
Indices: 5019371--5019437 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 17
5019361 TAACCGGTCA
*
5019371 CGACCCGGCCCGTTAACC
1 CGACCCGACCCGTT-ACC
5019389 CGACCCGTTAACCCG--ACC
1 CGACCCG---ACCCGTTACC
5019407 CGACCCGACCCGTTGA-C
1 CGACCCGACCCGTT-ACC
5019424 CGACCCGACCCGTT
1 CGACCCGACCCGTT
5019438 GACTGTTGAC
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
15 5 0.12
17 15 0.36
18 18 0.43
21 4 0.10
ACGTcount: A:0.18, C:0.49, G:0.21, T:0.12
Consensus pattern (17 bp):
CGACCCGACCCGTTACC
Found at i:5019428 original size:17 final size:17
Alignment explanation
Indices: 5019406--5019440 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
5019396 TTAACCCGAC
5019406 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
5019423 CCGACCCGACCCGTTGA
1 CCGACCCGACCCGTTGA
5019440 C
1 C
5019441 TGTTGACCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (17 bp):
CCGACCCGACCCGTTGA
Found at i:5019429 original size:22 final size:23
Alignment explanation
Indices: 5019386--5019435 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
5019376 CGGCCCGTTA
5019386 ACCCGACCCGTTAACCCGACCCG
1 ACCCGACCCGTTAACCCGACCCG
*
5019409 ACCCGACCCGTTGA-CCGACCCG
1 ACCCGACCCGTTAACCCGACCCG
5019431 ACCCG
1 ACCCG
5019436 TTGACTGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.20, C:0.52, G:0.20, T:0.08
Consensus pattern (23 bp):
ACCCGACCCGTTAACCCGACCCG
Found at i:5019514 original size:30 final size:29
Alignment explanation
Indices: 5019449--5019516 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
5019439 ACTGTTGACC
* ****
5019449 GGTGCTATTCTGGGAATTTATTCGATTTT
1 GGTGCTATTCTGGGAATTAATTCGAAAGG
5019478 GGTGCTATTCTGGGAATTAATTCGAAAAGG
1 GGTGCTATTCTGGGAATTAATTCG-AAAGG
5019508 GGTGCTATT
1 GGTGCTATT
5019517 TCTGTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.22, C:0.10, G:0.28, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAAGG
Found at i:5026611 original size:17 final size:17
Alignment explanation
Indices: 5026572--5026642 Score: 97
Period size: 17 Copynumber: 4.1 Consensus size: 17
5026562 TAACCGGTCA
* *
5026572 CGACCCGACCCATTGACC
1 CGACCCGACCCGTT-AAC
5026590 CGACCCGACCCGTTAAC
1 CGACCCGACCCGTTAAC
* *
5026607 CGACCCGACCCGTTGAT
1 CGACCCGACCCGTTAAC
5026624 CGACCCGACCCGTTAAC
1 CGACCCGACCCGTTAAC
5026641 CG
1 CG
5026643 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
17 34 0.72
18 13 0.28
ACGTcount: A:0.21, C:0.46, G:0.20, T:0.13
Consensus pattern (17 bp):
CGACCCGACCCGTTAAC
Found at i:5026633 original size:34 final size:35
Alignment explanation
Indices: 5026572--5026642 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 35
5026562 TAACCGGTCA
5026572 CGACCCGACCCATTGACCCGACCCGACCCGTTAAC
1 CGACCCGACCCATTGACCCGACCCGACCCGTTAAC
* *
5026607 CGACCCGACCCGTTGA-TCGACCCGACCCGTTAAC
1 CGACCCGACCCATTGACCCGACCCGACCCGTTAAC
5026641 CG
1 CG
5026643 TTGACCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.21, C:0.46, G:0.20, T:0.13
Consensus pattern (35 bp):
CGACCCGACCCATTGACCCGACCCGACCCGTTAAC
Found at i:5030579 original size:12 final size:12
Alignment explanation
Indices: 5030558--5030587 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5030548 TTAAATATAT
5030558 ATACCCGACCCG
1 ATACCCGACCCG
*
5030570 ATACCTGACCCG
1 ATACCCGACCCG
5030582 ATACCC
1 ATACCC
5030588 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.27, C:0.47, G:0.13, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCG
Found at i:5031994 original size:18 final size:18
Alignment explanation
Indices: 5031971--5032008 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
5031961 TTTTACAAAT
*
5031971 ATAAAAAAATCAGAAAAA
1 ATAAAAAAATCACAAAAA
*
5031989 ATAAAAAAATTACAAAAA
1 ATAAAAAAATCACAAAAA
5032007 AT
1 AT
5032009 TACAAAAAAA
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:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (18 bp):
ATAAAAAAATCACAAAAA
Found at i:5032005 original size:11 final size:11
Alignment explanation
Indices: 5031991--5032042 Score: 72
Period size: 10 Copynumber: 4.9 Consensus size: 11
5031981 CAGAAAAAAT
5031991 AAAAAAATTAC
1 AAAAAAATTAC
5032002 -AAAAAATTAC
1 AAAAAAATTAC
5032012 AAAAAAATT-C
1 AAAAAAATTAC
**
5032022 CGAAAAATTAC
1 AAAAAAATTAC
5032033 AAAAAAATTA
1 AAAAAAATTA
5032043 GTATTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:5032009 original size:10 final size:10
Alignment explanation
Indices: 5031974--5032038 Score: 71
Period size: 10 Copynumber: 6.6 Consensus size: 10
5031964 TACAAATATA
* *
5031974 AAAAAATCAG
1 AAAAAATTAC
5031984 AAAAAA-TA-
1 AAAAAATTAC
5031992 AAAAAATTAC
1 AAAAAATTAC
5032002 AAAAAATTAC
1 AAAAAATTAC
*
5032012 AAAAAAATTCC
1 -AAAAAATTAC
*
5032023 GAAAAATTAC
1 AAAAAATTAC
5032033 AAAAAA
1 AAAAAA
5032039 ATTAGTATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
8 6 0.13
9 3 0.06
10 29 0.62
11 9 0.19
ACGTcount: A:0.72, C:0.09, G:0.03, T:0.15
Consensus pattern (10 bp):
AAAAAATTAC
Found at i:5032015 original size:21 final size:21
Alignment explanation
Indices: 5031991--5032042 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
5031981 CAGAAAAAAT
5031991 AAAAAAATTACAAAAAATTAC
1 AAAAAAATTACAAAAAATTAC
* *
5032012 AAAAAAATTCCGAAAAATTAC
1 AAAAAAATTACAAAAAATTAC
5032033 AAAAAAATTA
1 AAAAAAATTA
5032043 GTATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.69, C:0.10, G:0.02, T:0.19
Consensus pattern (21 bp):
AAAAAAATTACAAAAAATTAC
Found at i:5034232 original size:72 final size:72
Alignment explanation
Indices: 5034115--5034256 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 72
5034105 TGTTAATTTT
* *
5034115 TTTCAAACTTACTGAATGGTATCATAATAAAACATAAATAAATGTTATAAAAACATTTTATAAAA
1 TTTCAAACGTACTGAATGGTATCATAATAAAACATAAATAAATGTTATAAAAACATTTTACAAAA
5034180 TCGGAGC
66 TCGGAGC
*
5034187 TTTCAAACGTATTGAATGGTATCATAATAAAACATAAATAAATGTTATAAAAACATTTTACAAAA
1 TTTCAAACGTACTGAATGGTATCATAATAAAACATAAATAAATGTTATAAAAACATTTTACAAAA
5034252 TCGGA
66 TCGGA
5034257 ACTCCATGAC
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.32
Consensus pattern (72 bp):
TTTCAAACGTACTGAATGGTATCATAATAAAACATAAATAAATGTTATAAAAACATTTTACAAAA
TCGGAGC
Found at i:5038611 original size:3 final size:3
Alignment explanation
Indices: 5038603--5038637 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
5038593 CTTTTTAAAA
5038603 TAT TAT TAT TAT TAT TAT TATT TAT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT
5038638 ATTGTCTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 24 0.80
4 6 0.20
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:5038629 original size:7 final size:7
Alignment explanation
Indices: 5038605--5038637 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
5038595 TTTTAAAATA
5038605 TTATTA-
1 TTATTAT
5038611 TTATTA-
1 TTATTAT
5038617 TTATTAT
1 TTATTAT
5038624 TTATTAT
1 TTATTAT
5038631 TTATTAT
1 TTATTAT
5038638 ATTGTCTCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTAT
Found at i:5038640 original size:16 final size:16
Alignment explanation
Indices: 5038603--5038637 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
5038593 CTTTTTAAAA
5038603 TATTATTATTA-TTAT
1 TATTATTATTATTTAT
5038618 TATTATTTATTATTTAT
1 TATTA-TTATTATTTAT
5038635 TAT
1 TAT
5038638 ATTGTCTCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 6 0.33
17 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTTAT
Found at i:5040160 original size:181 final size:181
Alignment explanation
Indices: 5039830--5040325 Score: 762
Period size: 181 Copynumber: 2.7 Consensus size: 181
5039820 TGTCGGTTTA
* * * * *
5039830 TGTCGATACTTTATAAAAATGTATCGATCCACATCAATATAACAAGAAAAAATATGAAAAAACCA
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATG-AAAAACCG
* * * *
5039895 GTCACGAAAAGACAAAACCGGTAAAGCGCTATCGGATATATTGAAAGTGTCGATACTTTAATATA
65 GTCTCTAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAACATA
5039960 AGTATCGACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
130 AGTATCGACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
5040012 TGTCGATACTTTATAAATATGTATCGATCCACAACGATATAATAGGTAAAAATATGAAAAACTGG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAAAAACCGG
* * * * *
5040077 TCTCTAAAGGACAAACCCGGTATAGAGCGACCGGATATATTGAAAGTGTCGATACTTTAACATAA
66 TCTCTAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAACATAA
* *
5040142 TTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
131 GTATCGACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
* *
5040193 TGTCGATACTTTATAAAAATGTTTCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGA-AAAACCG
*
5040258 GTCTCTAAATGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTT-A-ATA
65 GTCTCTAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAACATA
5040321 AGTAT
130 AGTAT
5040326 GTGTAATAAA
Statistics
Matches: 283, Mismatches: 30, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
180 7 0.02
181 166 0.59
182 110 0.39
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (181 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGAAAAACCGG
TCTCTAAAAGACAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAACATAA
GTATCGACACATTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:5042738 original size:21 final size:21
Alignment explanation
Indices: 5042712--5042773 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
5042702 AAGGCAATTA
5042712 AGAGTCGAAGAGAAACTTGAC
1 AGAGTCGAAGAGAAACTTGAC
5042733 AGAGTCGAAGAGAAACTTGAC
1 AGAGTCGAAGAGAAACTTGAC
*
5042754 AGAGTCGAAGAGACACTTGA
1 AGAGTCGAAGAGAAACTTGA
5042774 GAGGCATAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAC
Found at i:5044620 original size:19 final size:19
Alignment explanation
Indices: 5044596--5044644 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
5044586 AATGTAGGGT
5044596 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
5044615 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
5044634 TAATTTTGTAT
1 TAATTTTGTAT
5044645 GTGGATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:5045140 original size:21 final size:21
Alignment explanation
Indices: 5045116--5045157 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5045106 AATAGGTCTA
5045116 CATAATGTATCGACACTTTTT
1 CATAATGTATCGACACTTTTT
* *
5045137 CATAATGTGTCGATACTTTTT
1 CATAATGTATCGACACTTTTT
5045158 GTCCAGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.45
Consensus pattern (21 bp):
CATAATGTATCGACACTTTTT
Found at i:5051511 original size:21 final size:21
Alignment explanation
Indices: 5051485--5051541 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 21
5051475 TTGTGCATAA
5051485 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
5051506 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
5051530 TGCATCGATACA
1 TGCATCGATACA
5051542 TCATGAAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 1 0.03
24 17 0.59
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:5053829 original size:15 final size:15
Alignment explanation
Indices: 5053805--5053834 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5053795 TAACAAAAAG
*
5053805 GGGGAGAAGTGTTAA
1 GGGGAAAAGTGTTAA
5053820 GGGGAAAAGTGTTAA
1 GGGGAAAAGTGTTAA
5053835 AGTAAGGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (15 bp):
GGGGAAAAGTGTTAA
Found at i:5055660 original size:200 final size:200
Alignment explanation
Indices: 5055095--5055665 Score: 738
Period size: 200 Copynumber: 2.8 Consensus size: 200
5055085 TAACTCAACA
* * * * * * * * *
5055095 GAAACCCATAAATATAATGTAATAGGTAAATTTACAATTTAACCGGTATAACTAAACCGATTTTA
1 GAAACTCATAATTATAATGTAATAGGTAATTTTTCAATATAATCGGTATAAATATACCGGTTTTA
* * * *
5055160 TGAGAGAATAGGTCTACATAATGTATCGACACTTCTGGACTTTATGTCGATA-CTGTTTGTCCAG
66 TGAGAGAATAGGTCTACATAATATATCGACACTTCTGTAATTTGTGTCGATACCT-TTTGTCCAG
* *
5055224 AAGGAATACCCAAAAAGGGTGCACGCAAAAAGTGTCGATACATTTATAAACAAGTATCGATCCCA
130 AA-GAATGCCC-AAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAACAAGTATCGATCCCA
*
5055289 TAAACATC
193 AAAACATC
* *
5055297 GAAACTCATAATTATAATGTAATAGGTAATTTTTCAATGTAATCGGTATACATATACCGGTTTTA
1 GAAACTCATAATTATAATGTAATAGGTAATTTTTCAATATAATCGGTATAAATATACCGGTTTTA
* * *
5055362 TGAGAGAATAAGTCTACA-ATATATATCGACACTTGTGTAATTTGTGTCGATACCTTTGGTCCAG
66 TGAGAGAATAGGTCTACATA-ATATATCGACACTTCTGTAATTTGTGTCGATACCTTTTGTCCAG
* * *
5055426 AAGAAATGCTCAAAAAGGGTGCAC-CATTAAGTGTCGATACATTTATAAA-AAGTGTCGATCCCA
130 AAG-AATGC-CCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAACAAGTATCGATCCCA
5055489 AAAACATC
193 AAAACATC
*
5055497 GAAACTCATAATTATAATGTAATAGGTAATTTTTTAATATAATCGGTATAAATATACCGGTTTTA
1 GAAACTCATAATTATAATGTAATAGGTAATTTTTCAATATAATCGGTATAAATATACCGGTTTTA
* * * **
5055562 T-ATGAGAATAGGTCTACATAATATATCGACACTTTTTTATTTTGTGTCGATACCTTTTGTTAAG
66 TGA-GAGAATAGGTCTACATAATATATCGACACTTCTGTAATTTGTGTCGATACCTTTTGTCCAG
* * *
5055626 AATGAATGCCCAAAATGATGAACGCATAAAGTGTCGATAC
130 AA-GAATGCCCAAAAGGGTGCACGCATAAAGTGTCGATAC
5055666 CAAAAACATC
Statistics
Matches: 323, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
199 11 0.03
200 157 0.49
201 27 0.08
202 125 0.39
203 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (200 bp):
GAAACTCATAATTATAATGTAATAGGTAATTTTTCAATATAATCGGTATAAATATACCGGTTTTA
TGAGAGAATAGGTCTACATAATATATCGACACTTCTGTAATTTGTGTCGATACCTTTTGTCCAGA
AGAATGCCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAACAAGTATCGATCCCAAAA
ACATC
Found at i:5055835 original size:179 final size:179
Alignment explanation
Indices: 5055474--5055844 Score: 473
Period size: 179 Copynumber: 2.1 Consensus size: 179
5055464 ACATTTATAA
* * * **
5055474 AAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAATTTTTTAATATAA
1 AAAGTGTCGATACCAAAAACATCGAAACTCATAAATATAATGTAATAGGTAAATTTACAATATAA
* * * ** *
5055539 TCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATATATCGACACTTTTTTATTT
66 CCGATATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATATATCGACACTTGTGGAATT
* * *
5055604 TGTGTCGATACCTTTTGTTAAGAATGAATGCCCAAAATGATGAACGCAT
131 TGTGTCGATACCTTTTGTTAAGAAGGAATGCCCAAAAGGATGAACACAT
*
5055653 AAAGTGTCGATACCAAAAACATCGAAAC-CTATAAATATAATGTAATAGGTAAATTTACAATTTA
1 AAAGTGTCGATACCAAAAACATCGAAACTC-ATAAATATAATGTAATAGGTAAATTTACAATATA
* *
5055717 ACCGATATAAATATACCGGTTTTATGA-GAGAATAGGTCTACA-ATATGTATCTACACTTGTGGA
65 ACCGATATAAATATACCGGTTTTAT-ATGAGAATAGGTCTACATA-ATATATCGACACTTGTGGA
* * *
5055780 ATTTGTGTCGATACTTTTTGTCT-AGAAGGAATG-CCAAAAGGGTTGTACACAT
128 ATTTGTGTCGATACCTTTTGT-TAAGAAGGAATGCCCAAAA-GGATGAACACAT
*
5055832 AAAGTGTTGATAC
1 AAAGTGTCGATAC
5055845 ATTTTTAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
178 8 0.05
179 156 0.94
180 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (179 bp):
AAAGTGTCGATACCAAAAACATCGAAACTCATAAATATAATGTAATAGGTAAATTTACAATATAA
CCGATATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATATATCGACACTTGTGGAATT
TGTGTCGATACCTTTTGTTAAGAAGGAATGCCCAAAAGGATGAACACAT
Found at i:5055989 original size:379 final size:380
Alignment explanation
Indices: 5055275--5055999 Score: 1000
Period size: 379 Copynumber: 1.9 Consensus size: 380
5055265 ATTTATAAAC
* * * * * *
5055275 AAGTATCGATCCCATAAACATCGAAACTCATAATTATAATGTAATAGGTAATTTTTCAATGTAAT
1 AAGTATCGATACCAAAAACATCGAAACTCATAAATATAATGTAATAGGTAAATTTACAATGTAAC
* * *
5055340 CGGTATACATATACCGGTTTTATGAGAGAATAAGTCTACAATATATATCGACACTTGTGTAATTT
66 CGATATAAATATACCGGTTTTATGAGAGAATAAGTCTACAATATATATCGACACTTGTGGAATTT
*
5055405 GTGTCGATACCTTTGGTCCAGAAGAAATGCTCAAAAAGGGTGCACCATTAAGTGTCGATACATTT
131 GTGTCGATACCTTTGGTCCAGAAGAAATGCTCAAAAAGGGTGCACCATAAAGTGTCGATACATTT
* * **
5055470 ATAAAAAGTGTCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAATTTTTTAAT
196 ATAAAAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTTCCAAT
* * * * * *
5055535 ATAATCGGTATAAATATACCGGTTTTATATGAGAATAGGTCTACATAATATATCGACACTTTTTT
261 ATAACCGGTATAAATATACCGATTTTATATGAGAATAGGTCTACATAATATATCAACAATTGTTA
*
5055600 ATTTTGTGTCGATACC-TTTTGTTAAGAATGAATGCCCAAAATGATGAACGCATA
326 AATTTGTGTCGATACCATTTTGTTAAGAATGAATGCCCAAAATGATGAACGCATA
* *
5055654 AAGTGTCGATACCAAAAACATCGAAAC-CTATAAATATAATGTAATAGGTAAATTTACAATTTAA
1 AAGTATCGATACCAAAAACATCGAAACTC-ATAAATATAATGTAATAGGTAAATTTACAATGTAA
* * *
5055718 CCGATATAAATATACCGGTTTTATGAGAGAATAGGTCTACAATATGTATCTACACTTGTGGAATT
65 CCGATATAAATATACCGGTTTTATGAGAGAATAAGTCTACAATATATATCGACACTTGTGGAATT
* * * * * *
5055783 TGTGTCGATACTTTTTGTCTAGAAGGAATGC-C-AAAAGGGTTGTACACATAAAGTGTTGATACA
130 TGTGTCGATACCTTTGGTCCAGAAGAAATGCTCAAAAAGGG-TGCAC-CATAAAGTGTCGATACA
* *
5055846 TTTTTAAAAAGTGTCAATCCCAAAAATATCGAAAC-CGATAATTATAATGTAATAGGTAAATTTC
193 TTTATAAAAAGTGTCAATCCCAAAAACATCGAAACTC-ATAATTATAATGTAATAGGTAAATTTC
*
5055910 CAATGTAACCGGTATAAATATACC-ATTTT-TATGAGAAAATAGGTC-ATCATAA-AGTATCAAC
257 CAATATAACCGGTATAAATATACCGATTTTATATGAG--AATAGGTCTA-CATAATA-TATCAAC
5055971 AATTGTTAAATTTGTGTCGATACCATTTT
318 AATTGTTAAATTTGTGTCGATACCATTTT
5056000 AAATATCACG
Statistics
Matches: 302, Mismatches: 35, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
377 13 0.04
378 13 0.04
379 272 0.90
380 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (380 bp):
AAGTATCGATACCAAAAACATCGAAACTCATAAATATAATGTAATAGGTAAATTTACAATGTAAC
CGATATAAATATACCGGTTTTATGAGAGAATAAGTCTACAATATATATCGACACTTGTGGAATTT
GTGTCGATACCTTTGGTCCAGAAGAAATGCTCAAAAAGGGTGCACCATAAAGTGTCGATACATTT
ATAAAAAGTGTCAATCCCAAAAACATCGAAACTCATAATTATAATGTAATAGGTAAATTTCCAAT
ATAACCGGTATAAATATACCGATTTTATATGAGAATAGGTCTACATAATATATCAACAATTGTTA
AATTTGTGTCGATACCATTTTGTTAAGAATGAATGCCCAAAATGATGAACGCATA
Found at i:5057499 original size:3 final size:3
Alignment explanation
Indices: 5057473--5057529 Score: 87
Period size: 3 Copynumber: 19.0 Consensus size: 3
5057463 GGTTAATAAA
* * *
5057473 GAT GAA GAT GAA GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5057521 GAT GAT GAT
1 GAT GAT GAT
5057530 CCAAACAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (3 bp):
GAT
Found at i:5058301 original size:21 final size:21
Alignment explanation
Indices: 5058277--5058323 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
5058267 TCGTTTGACG
*
5058277 ATGCTTCCCATTCGGGCGACA
1 ATGCTGCCCATTCGGGCGACA
*
5058298 ATGCTGCTCATTCGGGCGACA
1 ATGCTGCCCATTCGGGCGACA
5058319 ATGCT
1 ATGCT
5058324 CTAGGTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (21 bp):
ATGCTGCCCATTCGGGCGACA
Found at i:5059773 original size:201 final size:198
Alignment explanation
Indices: 5059073--5060227 Score: 1209
Period size: 201 Copynumber: 5.8 Consensus size: 198
5059063 ATTAAAGTTT
* * * * * * *
5059073 CCCATAAAGTGTCGATACAGTTTTAAAAAATATTGATCCTAGAAACATCGAAA-TCATTAAATAT
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCA-TAATTAT
* * * * *
5059137 AATGTAATAGGTAAATTTACAATGTAACCGGTATAACTAAACCAGTTTTATGACAGAATAGGTCT
65 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCT
* * * ***
5059202 ACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTATTTTTCTAGAAGGAATGCCCAAAAA
130 ACATAATGTATCGACACTT-TGGAATTTGTGTCGATACT-TTTGTCCACAAGGAAAATCCAAAAA
5059267 GGTGCA
193 GGTGCA
* *
5059273 CCCATAAAGTGTCGATACATGTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
* ** * * * *
5059338 ATGTAATAGGTAATTTTGTAATATAACCGGTTTAAATATACCGGTTTTATGTGAGAATAGGTCTA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA
* * * * * * *
5059403 CATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTTCCAGAATGAATGA-CCAAAATG
131 CATAATGTATCGACACTTTGGAAT-TTGTGTCGATACTTTTGTCCACAAGGAA-AATCCAAAAAG
*
5059467 GTGAA
194 GTGCA
* * * * * *
5059472 CGCATAGAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAATATCGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
* ** * * ***
5059537 ATGTAATATGTAAATTTACAATGTAACTAGTATAAATAAACCGGTTTTTTGAGAAAATAGAAATA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA
*
5059602 CATAATGTATCGACACTTGTGGAATTTATGTCGATACTTTTGGTCCACAAGGAAAATCCAAAAAG
131 CATAATGTATCGACACTT-TGGAATTTGTGTCGATACTTTT-GTCCACAAGGAAAATCCAAAAA-
5059667 GGTGCA
193 GGTGCA
* * *
5059673 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCTAAAACATCAAAACCCATAAATATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
* * * * * *
5059738 ATGTAATAGGTAATTTTATAATATAACTGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA
* * * *
5059803 CATAACGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGT-C-C----AAAAT----GAA-
131 CATAATGTATCGACACTTTGGAAT-TTGTGTCGATAC-TTTTGTCCACAAGGAAAATCCAAAAAG
5059857 -TG--
194 GTGCA
* * * *
5059859 CCCA-AAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATTGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
* *** **
5059923 ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATCTTAAAATAGGTGAA
66 ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA
* * *
5059988 CATAATGTATCGACACATTT-TATATTTGTGTCGATACTTTTTGTCCAAAATG--AATGCCAAAA
131 CATAATGTATCGACAC-TTTGGA-ATTTGTGTCGATAC-TTTTGTCCACAAGGAAAAT-CCAAAA
5060050 AGGTTGCA
192 AGG-TGCA
* * * * *
5060058 CACATAAAGTGTTGATACATTTTGTAAAAAGTATCAATTCCAAAAACATCGAAACCGATAATTAT
1 CCCATAAAGTGTCGATACATTTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* * **
5060123 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGATTTTATGAGAAAATAGGTGA
65 AATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCT
* * *
5060188 ACATAATGCATCGACACGTTT-TAGATTTGTGTTGATACTT
130 ACATAATGTATCGACAC-TTTGGA-ATTTGTGTCGATACTT
5060228 GTAAATAACA
Statistics
Matches: 804, Mismatches: 122, Indels: 58
0.82 0.12 0.06
Matches are distributed among these distances:
185 144 0.18
186 10 0.01
188 2 0.00
189 3 0.00
191 2 0.00
194 2 0.00
195 5 0.01
197 2 0.00
199 173 0.22
200 182 0.23
201 275 0.34
202 4 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (198 bp):
CCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATA
ATGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCTA
CATAATGTATCGACACTTTGGAATTTGTGTCGATACTTTTGTCCACAAGGAAAATCCAAAAAGGT
GCA
Found at i:5060204 original size:386 final size:389
Alignment explanation
Indices: 5059073--5060227 Score: 1440
Period size: 386 Copynumber: 2.9 Consensus size: 389
5059063 ATTAAAGTTT
* * * * *
5059073 CCCATAAAGTGTCGATACAGTTT-TAAAAAATATTGATCCTAGAAACATCGAAATC-ATTAAATA
1 CCCATAAAGTGTCGATACA-TTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGA-TAATTA
* * * * *
5059136 TAATGTAATAGGTAAATTTACAATGTAACCGGTATAACTAAACCAGTTTTATGACAGAATAGGTC
64 TAATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCGGTTTTATGACAAAATAGGTA
* * *
5059201 TACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTATTTT-TCTAGAAGGAATGCCCAAA
129 AACATAATGTATCGACACTTCTGGAATTTGTGTCGATACT-TTTTGTCCAAAAGGAATG-CCAAA
* *
5059265 AAGGTGCACCCATAAAGTGTCGATACATGTTTAAAAAGTGTCGATCCCAAAAACATCGAAACCCA
192 AAGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCA
* *
5059330 TAATTATAATGTAATAGGTAATTTTGTAATATAACCGGTTTAAATATACCGGTTTTATGTGAGAA
257 TAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAA
5059395 TAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTTCCAGAATGAATGAC
322 TAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTTCCA-AA-GAATG--
5059460 CAAAATGGTGAA
383 --AAA--GTG-A
* * *
5059472 CGCATAGAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAATATCGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATA
* * * * *
5059537 ATGTAATATGTAAATTTACAATGTAACTAGTATAAATAAACCGGTTTTTTGAGAAAATA-GAAAT
66 ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCGGTTTTATGACAAAATAGGTAA-
* * * *
5059601 ACATAATGTATCGACACTTGTGGAATTTATGTCGATACTTTTGGTCCACAAGGAAAAT-CCAAAA
130 ACATAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAAAAGG--AATGCCAAAA
* *
5059665 AGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCTAAAACATCAAAACCCA
193 A-GGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCA
* *
5059730 TAAATATAATGTAATAGGTAATTTTATAATATAACTGGTATAAATATACCGGTTTTATGTGAGAA
257 TAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAA
*
5059795 TAGGTCTACATAACGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTGTCC-AA-AATG-AA
322 TAGGTCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTT-TCCAAAGAATGAAA
5059857 -TG-
386 GTGA
* * *
5059859 CCCA-AAAGTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATTGAAACCGATAATTATA
1 CCCATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATA
* *** *
5059923 ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGGTTTTATCTTAAAATAGGTGAA
66 ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCGGTTTTATGACAAAATAGGTAAA
* *
5059988 CATAATGTATCGACACATT-T-TATATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAAAA
131 CATAATGTATCGACAC-TTCTGGA-ATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAA
* * * * *
5060051 GGTTGCACACATAAAGTGTTGATACATTTTGTAAAAAGTATCAATTCCAAAAACATCGAAACCGA
194 GG-TGCACCCATAAAGTGTCGATACATTTT-TAAAAAGTATCGATCCCAAAAACATCGAAACCCA
* * * * * * *
5060116 TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGATTTTATGAGAAAA
257 TAATTATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAA
** ** *
5060181 TAGGTGAACATAATGCATCGACACGTTTT-AGAT-TTGTGTTGATACTT
322 TAGGTCTACATAATGTGTCGACAC-TTTTGA-ATGTTGTGTCGATACTT
5060228 GTAAATAACA
Statistics
Matches: 665, Mismatches: 75, Indels: 45
0.85 0.10 0.06
Matches are distributed among these distances:
384 5 0.01
385 33 0.05
386 268 0.40
387 13 0.02
389 2 0.00
392 2 0.00
397 4 0.01
398 7 0.01
399 155 0.23
400 170 0.26
401 6 0.01
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (389 bp):
CCCATAAAGTGTCGATACATTTATAAAAAGTATTGATCCCAAAAACATCGAAACCGATAATTATA
ATGTAATAGGTAAATTTACAATGTAACTGGTATAAATAAACCGGTTTTATGACAAAATAGGTAAA
CATAATGTATCGACACTTCTGGAATTTGTGTCGATACTTTTTGTCCAAAAGGAATGCCAAAAAGG
TGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCCATAAT
TATAATGTAATAGGTAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGTGAGAATAGG
TCTACATAATGTGTCGACACTTTTGAATGTTGTGTCGATACTTTTTTCCAAAGAATGAAAGTGA
Found at i:5060587 original size:20 final size:20
Alignment explanation
Indices: 5060562--5060600 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5060552 TTTTCAAGGG
5060562 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
5060582 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
5060601 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:5068981 original size:20 final size:20
Alignment explanation
Indices: 5068956--5068994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5068946 TTTTCAAGGG
5068956 CATGCACCGATGCACCAATC
1 CATGCACCGATGCACCAATC
* *
5068976 CATGCATCGATGCATCAAT
1 CATGCACCGATGCACCAAT
5068995 TAATTTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (20 bp):
CATGCACCGATGCACCAATC
Found at i:5072602 original size:19 final size:19
Alignment explanation
Indices: 5072578--5072649 Score: 135
Period size: 19 Copynumber: 3.8 Consensus size: 19
5072568 TTTAAGGGGG
*
5072578 GTGCATCGATGCACTACTT
1 GTGCATCGATACACTACTT
5072597 GTGCATCGATACACTACTT
1 GTGCATCGATACACTACTT
5072616 GTGCATCGATACACTACTT
1 GTGCATCGATACACTACTT
5072635 GTGCATCGATACACT
1 GTGCATCGATACACT
5072650 GATGATATTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (19 bp):
GTGCATCGATACACTACTT
Found at i:5072722 original size:17 final size:18
Alignment explanation
Indices: 5072679--5072725 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
5072669 ATTTTAAAGG
*
5072679 AGTGCATCGATGCACTTC
1 AGTGCATTGATGCACTTC
5072697 ATGTGCATTGATGCACTTC
1 A-GTGCATTGATGCACTTC
5072716 A-TGCATTGAT
1 AGTGCATTGAT
5072726 ACACCTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.33
18 1 0.04
19 17 0.63
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (18 bp):
AGTGCATTGATGCACTTC
Found at i:5080770 original size:197 final size:200
Alignment explanation
Indices: 5080301--5080998 Score: 845
Period size: 197 Copynumber: 3.5 Consensus size: 200
5080291 ACCTAAATAT
* *
5080301 GTGTCGATACATTTTCTAAAAGTATCGA-CCCAAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTAT-TAAAAGTATCGATCCC-AAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * *
5080365 AGGTAAATTAACAATGTAACC-GGTATAAATATACC-GGTTAATTAGAAAACATGTCAACATAAT
64 AGGTAAATTTACAATGTAACCAGGTATAAATATACCAGTTTTATGAGAAAATAAGTCATCATAAT
* * * *
5080428 GTATCGAAATTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAATGAGGTGC
129 GTATCGACACTTAT-TAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAA-GGGGTGC
5080492 ACGCATAAA
192 ACGCATAAA
*
5080501 GTGTCGATACAATTATTAAAAGTATCGATCCCAATAAA-ATTGAAACCGATAATTATAATGTAAT
1 GTGTCGATAC-ATTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
* * * *
5080565 ATGTAAATTTACAATGTAATC-GGTATAAATATACCGGTTTTATGAGAAAATAAGTCATCATAAA
64 AGGTAAATTTACAATGTAACCAGGTATAAATATACCAGTTTTATGAGAAAATAAGTCATCATAAT
* *
5080629 GTATTGACACTTATTAAATTTGTGTCGATACATT-TTGTCCATAATGAATG-CCAAAGGGGTGCA
129 GTATCGACACTTATTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCCAAAGGGGTGCA
5080692 CGCATAAA
193 CGCATAAA
* * * *
5080700 GTGTCGATACA-TATTAAAAGTATCGATCCCAAAAACATCAAAATCGATAATTACAATGTGATAG
1 GTGTCGATACATTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * *
5080764 GTAAATTTACAATGT-ACCAGATAGAAATATACCAGTTTTATGAAAAAATAGGTC-TAAATAATG
66 GTAAATTTACAATGTAACCAGGTATAAATATACCAGTTTTATGAGAAAATAAGTCAT-CATAATG
* * * *
5080827 TATCGACAC-TATTTAAGTTTGTGTCGATACTTGTT-TCCAGAATGAATGTCC-AACGGGTGCAC
130 TATCGACACTTA-TTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAAGGGGTGCAC
5080889 GCATAAA
194 GCATAAA
*
5080896 GTGTCGATACA-T-TTAAAATTGTATCGATCCAAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * *
5080959 AGGTAAATTTGCAATGTTA-CTGGTATAAATATACCAGTTT
64 AGGTAAATTTACAATGTAACCAGGTATAAATATACCAGTTT
5080999 ACTTATAAAA
Statistics
Matches: 437, Mismatches: 46, Indels: 33
0.85 0.09 0.06
Matches are distributed among these distances:
195 6 0.01
196 51 0.12
197 194 0.44
198 2 0.00
199 25 0.06
200 86 0.20
201 71 0.16
202 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (200 bp):
GTGTCGATACATTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCAGGTATAAATATACCAGTTTTATGAGAAAATAAGTCATCATAATGT
ATCGACACTTATTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCCAAAGGGGTGCACGC
ATAAA
Found at i:5081116 original size:23 final size:23
Alignment explanation
Indices: 5081090--5081133 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5081080 TTCGGTTAAA
**
5081090 TACCTATTTTATTATATAAGCTC
1 TACCTATTACATTATATAAGCTC
5081113 TACCTATTACATTATATAAGC
1 TACCTATTACATTATATAAGC
5081134 GTTACATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCTC
Found at i:5081176 original size:87 final size:87
Alignment explanation
Indices: 5081016--5081177 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
5081006 AAATAGGTCA
* * *
5081016 ATATCAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACATAATATGTTATTGTACTTAATAATATTT
5081081 TCGGTTAAATACCTATTTTATT
66 TCGGTTAAATACCTATTTTATT
* * *
5081103 ATATAAGCTCTACCTATTACATTATATAAGCGTTACATAATATGTTATTGTACTTAATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACATAATATGTTATTGTACTTAATAATATTT
5081168 TCGGTTAAAT
66 TCGGTTAAAT
5081178 GATATAACAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTACATATTACATTATATAAGCGCTACATAATATGTTATTGTACTTAATAATATTT
TCGGTTAAATACCTATTTTATT
Found at i:5083577 original size:75 final size:75
Alignment explanation
Indices: 5083409--5083584 Score: 226
Period size: 75 Copynumber: 2.3 Consensus size: 75
5083399 CTATTACGTT
* * * *
5083409 AAATAAGCGCTACATATTACGTTAAATTAGCTACCGATTTGTTTAAATGTTAATAATAATGTAAA
1 AAATAGGCGCTACATATTACGTTAAAATAGCTACCGATTTGTTTAAAGGTTAATAATAATATAAA
5083474 CGGTAAAATA
66 CGGTAAAATA
* * ** * * *
5083484 AAATAGACACTACATATTACGTTAAAATATTTATCGGTTTGTTTAAAGGTTACTAATAATATAAA
1 AAATAGGCGCTACATATTACGTTAAAATAGCTACCGATTTGTTTAAAGGTTAATAATAATATAAA
5083549 CGGTAAAATA
66 CGGTAAAATA
* * *
5083559 AAATAGGCGTTACCTATTATGTTAAA
1 AAATAGGCGCTACATATTACGTTAAA
5083585 TAGGCACTAC
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
75 85 1.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (75 bp):
AAATAGGCGCTACATATTACGTTAAAATAGCTACCGATTTGTTTAAAGGTTAATAATAATATAAA
CGGTAAAATA
Found at i:5083588 original size:23 final size:23
Alignment explanation
Indices: 5083559--5083630 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
5083549 CGGTAAAATA
* *
5083559 AAATAGGCGTTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
*
5083582 AAATAGGCACTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
* *
5083605 AAATAGACGCTACTTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
5083628 AAA
1 AAA
5083631 CTAGCTACCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTACGTT
Found at i:5083775 original size:17 final size:17
Alignment explanation
Indices: 5083753--5083788 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
5083743 CTCTTAAGGT
*
5083753 TAATAATAATTTATTCA
1 TAATAATAATATATTCA
5083770 TAATAATAATATATTCA
1 TAATAATAATATATTCA
5083787 TA
1 TA
5083789 CTTACTCTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATAATATATTCA
Found at i:5086331 original size:15 final size:16
Alignment explanation
Indices: 5086313--5086342 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
5086303 ATGAGAGTGA
5086313 TTTTATAG-AGAAAAT
1 TTTTATAGCAGAAAAT
5086328 TTTTATAGCAGAAAA
1 TTTTATAGCAGAAAA
5086343 AGTAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (16 bp):
TTTTATAGCAGAAAAT
Found at i:5090287 original size:17 final size:17
Alignment explanation
Indices: 5090265--5090301 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
5090255 ATTTAACTAG
5090265 AATTCTAAAAAATAAAA
1 AATTCTAAAAAATAAAA
**
5090282 AATTCTAAAATGTAAAA
1 AATTCTAAAAAATAAAA
5090299 AAT
1 AAT
5090302 CTTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (17 bp):
AATTCTAAAAAATAAAA
Found at i:5090497 original size:29 final size:29
Alignment explanation
Indices: 5090446--5090508 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
5090436 AGGATGCTTG
* **
5090446 TTTTATGATTTATGTAATTTTATACAAAC
1 TTTTATGATTTATGAAAAATTATACAAAC
* * *
5090475 TTTTATGATTTTTGAAAAATTATATAAAT
1 TTTTATGATTTATGAAAAATTATACAAAC
5090504 TTTTA
1 TTTTA
5090509 AAATAATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (29 bp):
TTTTATGATTTATGAAAAATTATACAAAC
Found at i:5094194 original size:2 final size:2
Alignment explanation
Indices: 5094187--5094249 Score: 117
Period size: 2 Copynumber: 31.0 Consensus size: 2
5094177 TTGAGATTTA
5094187 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
5094229 AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT -AT AT AT
5094250 TAATAACGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 58 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5094525 original size:3 final size:3
Alignment explanation
Indices: 5094517--5094574 Score: 73
Period size: 3 Copynumber: 19.7 Consensus size: 3
5094507 TCCTTCAATA
* * * *
5094517 ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT AAT AAT AAT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5094564 ATT ATT ATT AT
1 ATT ATT ATT AT
5094575 GATAAACCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:5095934 original size:23 final size:23
Alignment explanation
Indices: 5095899--5095958 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
5095889 ATCAAGCACA
*
5095899 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
5095922 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
5095945 ATAATAAAATAGGT
1 ATAACATAATAGGT
5095959 CAATTACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:5096060 original size:158 final size:158
Alignment explanation
Indices: 5095772--5096103 Score: 547
Period size: 158 Copynumber: 2.1 Consensus size: 158
5095762 ACAATAACAT
* *
5095772 ATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTTTTATTACAAAATATTAGGTAA
1 ATAGGTAGCGCTTATATAATAAAATAGGTCAATTACTTAATTTATTATTACAAAATATTAGGTAA
* ** *
5095837 ACGCCTAAAATGTTACCAAGGATAACATAACCAGTTAATTGCTGTTAATATTATCAAGCACAATA
66 ACGCCTAAAATGTTACCAAGGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCACAATA
5095902 ACATATTAGGTAGCGCTTATATAACGTA
131 ACATATTAGGTAGCGCTTATATAACGTA
*
5095930 ATAGGTAGCGCTTATATAATAAAATAGGTCAATTACTTAATTTATTATTACAACATATTAGGTAA
1 ATAGGTAGCGCTTATATAATAAAATAGGTCAATTACTTAATTTATTATTACAAAATATTAGGTAA
** *
5095995 ACGCCTAAAATGTTACCAAGGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCATAATA
66 ACGCCTAAAATGTTACCAAGGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCACAATA
*
5096060 ACATATTAGGTAGCGCTTATGTAACGTA
131 ACATATTAGGTAGCGCTTATATAACGTA
*
5096088 ATAGGTTGCGCATTAT
1 ATAGGTAGCGC-TTAT
5096104 TAAAGTTGAT
Statistics
Matches: 161, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
158 157 0.98
159 4 0.02
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (158 bp):
ATAGGTAGCGCTTATATAATAAAATAGGTCAATTACTTAATTTATTATTACAAAATATTAGGTAA
ACGCCTAAAATGTTACCAAGGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCACAATA
ACATATTAGGTAGCGCTTATATAACGTA
Found at i:5096084 original size:23 final size:24
Alignment explanation
Indices: 5096058--5096103 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
5096048 TCAAGCATAA
*
5096058 TAACATATTAGGTAGCGC-TTATG
1 TAACATAATAGGTAGCGCATTATG
* *
5096081 TAACGTAATAGGTTGCGCATTAT
1 TAACATAATAGGTAGCGCATTAT
5096104 TAAAGTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (24 bp):
TAACATAATAGGTAGCGCATTATG
Found at i:5098641 original size:200 final size:200
Alignment explanation
Indices: 5098184--5099008 Score: 1294
Period size: 200 Copynumber: 4.1 Consensus size: 200
5098174 ATCATTATGT
5098184 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
1 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
* * *
5098249 CAAAAGTATTGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTATTATAAAAT-
66 CAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTGTCATAAAATC
* * * * *
5098313 GATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGATTCAATGTTT
131 GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
5098378 TTGGG
196 TTGGG
* * *
5098383 ATCGATACATACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGAATTCATTATGGAC
1 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
* * * *
5098448 CAAAAGTATCGACATAAATGTAAAAAGTATCGATATATTATGTTGACCTATTCTGCCATAAAATC
66 CAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTGTCATAAAATC
* * *
5098513 GGTATATTTTTACTGGTTACATTGTAAAATTACCTATTACTTTATAATTATCGGTTTCGTTGTTT
131 GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
5098578 TTGGG
196 TTGGG
* * *
5098583 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCATCTCGTTGGGCATTCATTCTGGAT
1 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
* * *
5098648 CAAAAGTATCGACACAAATTTAAAAAATATCAATACATTATGTTGACCTATTCTTTCATAAAA-C
66 CAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTGTCATAAAATC
*
5098712 GGGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATGATCGGTTTCGATGTT
131 -GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTT
5098777 TTTGGG
195 TTTGGG
* * * * *
5098783 TTCGATACATACAATAAATGTATCGACACTTTATACGTTCACCTCGTTGGGCATTCATTCTGGAC
1 ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
* * *
5098848 CAAAAGTATAGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTATGTCATAAAACC
66 CAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTGTCATAAAATC
* *
5098913 GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCAGTTTCGACGTTT
131 GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
5098978 TTGGG
196 TTGGG
* *
5098983 ATCGATAGTTACAATAAATGTGTCGA
1 ATCGATACTTACAATAAATGTATCGA
5099009 TACATGTTTG
Statistics
Matches: 572, Mismatches: 51, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
199 120 0.21
200 451 0.79
201 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (200 bp):
ATCGATACTTACAATAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTCATTCTGGAC
CAAAAGTATCGACACAAATTTAAAAAGTATCGATACATTATGTTGACCTATTCTGTCATAAAATC
GGTATAATTTTACTGGTTACATTGTAAATTTACCTATTACTTTATAATTATCGGTTTCGATGTTT
TTGGG
Found at i:5099135 original size:20 final size:20
Alignment explanation
Indices: 5099085--5099135 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
5099075 ATTTGTTATA
* *
5099085 TTTAATCGATTGTTTAAATT
1 TTTAACCGATTTTTTAAATT
*
5099105 TTTTACC-ATTTTCTTAAA-T
1 TTTAACCGATTTT-TTAAATT
5099124 TTTAACCGATTT
1 TTTAACCGATTT
5099136 AGAAATTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTAACCGATTTTTTAAATT
Found at i:5100381 original size:24 final size:24
Alignment explanation
Indices: 5100354--5100417 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
5100344 AGTGGAGCCG
*
5100354 AAATTTATATTGAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
5100378 AAATTTAAATTTAAATTCAAACTC
1 AAATTTAAATTGAAATTCAAACTC
*
5100402 CAA-TTAAATATGAAAT
1 AAATTTAAAT-TGAAAT
5100418 GAACATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 6 0.17
24 29 0.83
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (24 bp):
AAATTTAAATTGAAATTCAAACTC
Found at i:5102991 original size:15 final size:16
Alignment explanation
Indices: 5102950--5102997 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
5102940 TTCAAAAAGC
5102950 GCTTGGTTGAGAAGAAG
1 GCTTGGTTGAGAAG-AG
* *
5102967 GTTATCGTTGAGAAGA-
1 GCT-TGGTTGAGAAGAG
5102983 GCTTGGTTGAGAAGA
1 GCTTGGTTGAGAAGA
5102998 ACTGCGCCTC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 3 0.12
18 10 0.38
ACGTcount: A:0.29, C:0.06, G:0.38, T:0.27
Consensus pattern (16 bp):
GCTTGGTTGAGAAGAG
Found at i:5103909 original size:15 final size:13
Alignment explanation
Indices: 5103869--5103902 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
5103859 TTCCTCCATC
5103869 TTTTCTTCTTCATA
1 TTTT-TTCTTCATA
5103883 TTTTTTCTTCATA
1 TTTTTTCTTCATA
5103896 TTTTTTC
1 TTTTTTC
5103903 AATTCATCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTCTTCATA
Found at i:5106791 original size:183 final size:183
Alignment explanation
Indices: 5106574--5107230 Score: 915
Period size: 183 Copynumber: 3.6 Consensus size: 183
5106564 TTTATAAAGT
*
5106574 ATCGATACATTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
* * * *
5106639 TATTTTAACATCTTCTATTGTTATGGATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
* * *
5106704 CTATTACTGCTTTTCTTTTAAATTCCAAAAATGTCAATACTTATTTCAATGGA
131 CTATTACTACTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* *
5106757 ATCGATAAATTCAACATATCTGGTAGCGCTTTACCAGTTTTGTCATAATGAAACCGGTTTTGTCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
* * ** * *
5106822 TATTTTTACCTGTTATATTGTAATGGATCGATACATTTTTATACAGTATCGATGTTTTATATGTG
66 TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
* *
5106887 CTATTACTACTTTTC-TTTATAATTCCAAAAGTTTCGATACTTATTTCAATGTA
131 CTATTACTACTTTTCTTTTA-AATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * *
5106940 ATCGATACTTTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACTGGTTTTATCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
* * * * * * *
5107005 TATTTTTTTACCTTTTATATTGTTGTGTATCTATACATGTTTATAAATTATCGATACTTTTTAGG
66 TA--TTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACTTTATAGG
5107070 CGCTATTACTACTTTTCTTTTAAATTCCAAAAGTGTCGATAC-T-TTTCAATGGA
129 CGCTATTACTACTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* * * * * * *
5107123 ATCGATACTTTCAACATATCTGGTAGCACTTTACCGGTTTTGACATATTGAACCCGATTTTCTCA
1 ATCGATACATTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
* * *
5107188 TATTTTTACCTGATATATTGTTATGTATCAATACATATTTTAT
66 TATTTTTACCTGTTATATTGTTATGGATCGATACAT-TTTTAT
5107231 TTGTATACGT
Statistics
Matches: 419, Mismatches: 50, Indels: 11
0.87 0.10 0.02
Matches are distributed among these distances:
181 30 0.07
182 9 0.02
183 291 0.69
184 1 0.00
185 84 0.20
186 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (183 bp):
ATCGATACATTCAACATATCTGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGGTTTTGTCA
TATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
CTATTACTACTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
Found at i:5108864 original size:30 final size:28
Alignment explanation
Indices: 5108830--5108916 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 28
5108820 ATTAATTACT
*
5108830 TTATTTTA-AATATTCAATAATTTAATATTA
1 TTATTTTATAA-ATT-AATAA-ATAATATTA
5108860 TTATTTTATAAATTAATAAATAATATTA
1 TTATTTTATAAATTAATAAATAATATTA
* **
5108888 --ATTTTATTAA-TAATTTATAATA-TA
1 TTATTTTATAAATTAATAAATAATATTA
5108912 TTATT
1 TTATT
5108917 AAAATAAATG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.04
25 10 0.20
26 12 0.24
28 8 0.16
29 5 0.10
30 11 0.22
31 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TTATTTTATAAATTAATAAATAATATTA
Found at i:5108946 original size:14 final size:14
Alignment explanation
Indices: 5108927--5109012 Score: 53
Period size: 14 Copynumber: 6.5 Consensus size: 14
5108917 AAAATAAATG
5108927 TATAATATTATAAT
1 TATAATATTATAAT
5108941 TATAATGA-TATAAT
1 TATAAT-ATTATAAT
*
5108955 TATAACA--ATAA-
1 TATAATATTATAAT
5108966 -A-AATATTAT-AT
1 TATAATATTATAAT
* *
5108977 TATATTATTAAAAT
1 TATAATATTATAAT
*
5108991 TATCAATAAATATAAT
1 TAT-AAT-ATTATAAT
5109007 T-TAATA
1 TATAATA
5109013 ATTAATAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 19
0.68 0.09 0.23
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 2 0.04
12 5 0.09
13 8 0.14
14 25 0.45
15 4 0.07
16 7 0.12
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.43
Consensus pattern (14 bp):
TATAATATTATAAT
Found at i:5114071 original size:18 final size:19
Alignment explanation
Indices: 5114048--5114085 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5114038 ATTAGTTTAT
5114048 TAGCA-GTTGTTGCTGAGC
1 TAGCAGGTTGTTGCTGAGC
5114066 TAGCAGGTTGTTGCTGAGC
1 TAGCAGGTTGTTGCTGAGC
5114085 T
1 T
5114086 GTTAAACTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.16, C:0.16, G:0.34, T:0.34
Consensus pattern (19 bp):
TAGCAGGTTGTTGCTGAGC
Found at i:5121463 original size:19 final size:19
Alignment explanation
Indices: 5121439--5121475 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5121429 TTTGGTTCAC
5121439 GGAATGTAAGATTATCAGT
1 GGAATGTAAGATTATCAGT
5121458 GGAATGTAAGATTATCAG
1 GGAATGTAAGATTATCAG
5121476 AGAATAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (19 bp):
GGAATGTAAGATTATCAGT
Found at i:5122097 original size:26 final size:26
Alignment explanation
Indices: 5122061--5122115 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
5122051 TCCTTGATCC
5122061 AAACACCCCCTTAGGGTAAAGTACAT
1 AAACACCCCCTTAGGGTAAAGTACAT
5122087 AAACACCCCCTTAGGGTAAAGTACAT
1 AAACACCCCCTTAGGGTAAAGTACAT
5122113 AAA
1 AAA
5122116 TTGTAATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (26 bp):
AAACACCCCCTTAGGGTAAAGTACAT
Found at i:5122371 original size:17 final size:17
Alignment explanation
Indices: 5122331--5122376 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
5122321 CTCTGTATAT
*
5122331 ATATTAAAAAATATTAA
1 ATATTAAAATATATTAA
*
5122348 ATTTTAAAATATATTCAA
1 ATATTAAAATATATT-AA
5122366 A-ATTAAAATAT
1 ATATTAAAATAT
5122377 GATAACTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATTAAAATATATTAA
Found at i:5122802 original size:17 final size:17
Alignment explanation
Indices: 5122760--5122794 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5122750 TATTATTTGC
5122760 ATATATAATTATAAAACT
1 ATATA-AATTATAAAACT
5122778 ATATAAATTA-AAAACT
1 ATATAAATTATAAAACT
5122794 A
1 A
5122795 ATTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 5 0.29
18 5 0.29
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATAAATTATAAAACT
Found at i:5123039 original size:29 final size:29
Alignment explanation
Indices: 5123005--5123066 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
5122995 AAGTTAGGAG
5123005 CGAACTCAAACTTATAAAATTTT-AGGTGA
1 CGAACTCAAACTTATAAAATTTTAAGG-GA
*
5123034 CGAACTTAAACTTATAAAATTTTAAGGGA
1 CGAACTCAAACTTATAAAATTTTAAGGGA
5123063 CGAA
1 CGAA
5123067 AATAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (29 bp):
CGAACTCAAACTTATAAAATTTTAAGGGA
Found at i:5123087 original size:18 final size:18
Alignment explanation
Indices: 5123064--5123124 Score: 113
Period size: 18 Copynumber: 3.4 Consensus size: 18
5123054 TTTAAGGGAC
5123064 GAAAATAAATTTTCAATA
1 GAAAATAAATTTTCAATA
*
5123082 GAAAATAAATTTTCAGTA
1 GAAAATAAATTTTCAATA
5123100 GAAAATAAATTTTCAATA
1 GAAAATAAATTTTCAATA
5123118 GAAAATA
1 GAAAATA
5123125 CATAGAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (18 bp):
GAAAATAAATTTTCAATA
Done.